Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007386.1 Hibiscus syriacus cultivar Beakdansim tig00019862_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 903698
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.34
File 3 of 3
Found at i:726735 original size:48 final size:48
Alignment explanation
Indices: 726680--726786 Score: 214
Period size: 48 Copynumber: 2.2 Consensus size: 48
726670 TAGTAATGAT
726680 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
726728 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
1 TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
726776 TAGTAATGATT
1 TAGTAATGATT
726787 TACGACTTGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 59 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (48 bp):
TAGTAATGATTAGTAATAATAATTTATTATTAATATTTAATGATTTGA
Found at i:726782 original size:21 final size:22
Alignment explanation
Indices: 726710--726788 Score: 72
Period size: 24 Copynumber: 3.5 Consensus size: 22
726700 AATTTATTAT
726710 TAAT-ATTTAATGATTTGATAG
1 TAATGATTTAATGATTTGATAG
* * *
726731 TAATGATTAGTAATAATAATTTATTAT
1 TAATGATT--TAATGAT--TTGA-TAG
726758 TAAT-ATTTAATGATTTGATAG
1 TAATGATTTAATGATTTGATAG
726779 TAATGATTTA
1 TAATGATTTA
726789 CGACTTGAAC
Statistics
Matches: 45, Mismatches: 6, Indels: 13
0.70 0.09 0.20
Matches are distributed among these distances:
21 10 0.22
22 11 0.24
24 12 0.27
26 6 0.13
27 6 0.13
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
TAATGATTTAATGATTTGATAG
Found at i:726885 original size:21 final size:20
Alignment explanation
Indices: 726861--726946 Score: 52
Period size: 21 Copynumber: 4.2 Consensus size: 20
726851 GAAATTATAA
726861 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
* * * *
726882 TAATA-AT-GAAATTATTAT
1 TAATATTTAGTAATGATTAG
* * *
726900 TAATATTTAATGATTTGA-TAT
1 TAATATTTAGT-A-ATGATTAG
726921 TAATGATTTAGTAATGATTAG
1 TAAT-ATTTAGTAATGATTAG
726942 TAATA
1 TAATA
726947 ATGAAATTAT
Statistics
Matches: 47, Mismatches: 12, Indels: 13
0.65 0.17 0.18
Matches are distributed among these distances:
18 13 0.28
19 2 0.04
20 5 0.11
21 19 0.40
22 8 0.17
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (20 bp):
TAATATTTAGTAATGATTAG
Found at i:726890 original size:13 final size:12
Alignment explanation
Indices: 726854--726950 Score: 53
Period size: 11 Copynumber: 8.1 Consensus size: 12
726844 TAGTAATGAA
726854 ATTATAATAATG
1 ATTATAATAATG
*
726866 ATT-TAGTAATG
1 ATTATAATAATG
726877 ATTAGTAATAATG
1 ATTA-TAATAATG
*
726890 AAATTATTATTAAT-
1 --ATTA-TAATAATG
*
726904 ATT-TAATGAT-
1 ATTATAATAATG
*
726914 -TTGATATTAATG
1 ATT-ATAATAATG
*
726926 ATT-TAGTAATG
1 ATTATAATAATG
726937 ATTAGTAATAATG
1 ATTA-TAATAATG
726950 A
1 A
726951 AATTATTATT
Statistics
Matches: 65, Mismatches: 10, Indels: 19
0.69 0.11 0.20
Matches are distributed among these distances:
9 2 0.03
10 5 0.08
11 25 0.38
12 6 0.09
13 17 0.26
15 10 0.15
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.44
Consensus pattern (12 bp):
ATTATAATAATG
Found at i:726928 original size:60 final size:60
Alignment explanation
Indices: 726861--726975 Score: 230
Period size: 60 Copynumber: 1.9 Consensus size: 60
726851 GAAATTATAA
726861 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
726921 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTT
1 TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTT
726976 AGTAATGATT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (60 bp):
TAATGATTTAGTAATGATTAGTAATAATGAAATTATTATTAATATTTAATGATTTGATAT
Found at i:728003 original size:21 final size:21
Alignment explanation
Indices: 727977--728021 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
727967 GATTTTTGGG
* *
727977 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
727998 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
728019 CAA
1 CAA
728022 ACGAAAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:729890 original size:103 final size:103
Alignment explanation
Indices: 729704--729918 Score: 367
Period size: 103 Copynumber: 2.1 Consensus size: 103
729694 GAGGGTCTAC
*
729704 GTGGCCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATACTTG
1 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATACTTG
* *
729769 ATCCTTGGCATATGTATATGATTCTTAAGGAATGATAT
66 ATCCCTAGCATATGTATATGATTCTTAAGGAATGATAT
*
729807 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACATACTTG
1 GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATACTTG
* *
729872 ATCCCTAGTATATTTATATGATTCTTAAGGAATGATAT
66 ATCCCTAGCATATGTATATGATTCTTAAGGAATGATAT
*
729910 GTAGTCCTT
1 GTGGTCCTT
729919 ATGGACATTA
Statistics
Matches: 105, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
103 105 1.00
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (103 bp):
GTGGTCCTTCGGGACATATATGTATTCTTTGGAACATGTGTGAAGTATGGTGAGACACATACTTG
ATCCCTAGCATATGTATATGATTCTTAAGGAATGATAT
Found at i:729961 original size:23 final size:23
Alignment explanation
Indices: 729935--730002 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 23
729925 ATTATTATAT
729935 GGCACTACGGTGCAATTCTATGC
1 GGCACTACGGTGCAATTCTATGC
* * *
729958 GGCACTCCGGTGCAATTCTACGT
1 GGCACTACGGTGCAATTCTATGC
* * *
729981 GGCACTTCGGTGTAATTATATG
1 GGCACTACGGTGCAATTCTATG
730003 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.26, T:0.29
Consensus pattern (23 bp):
GGCACTACGGTGCAATTCTATGC
Found at i:732646 original size:22 final size:22
Alignment explanation
Indices: 732621--732669 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
732611 ACAACTAATA
*
732621 AACTATTCTTTAATATAACTTT
1 AACTATTCTTTAATATAACGTT
732643 AACTATTCTTTAATATAACGTT
1 AACTATTCTTTAATATAACGTT
732665 AACTA
1 AACTA
732670 ATAAACTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.39, C:0.14, G:0.02, T:0.45
Consensus pattern (22 bp):
AACTATTCTTTAATATAACGTT
Found at i:732647 original size:30 final size:30
Alignment explanation
Indices: 732613--732738 Score: 103
Period size: 30 Copynumber: 4.4 Consensus size: 30
732603 TCCCTTAAAC
732613 AACTAATAAACTATTCTTTAATATAAC--T
1 AACTAATAAACTATTCTTTAATATAACTTT
*
732641 ---T--T-AACTATTCTTTAATATAACGTT
1 AACTAATAAACTATTCTTTAATATAACTTT
* *
732665 AACTAATAAACTATTTTTTAATATAACTTA
1 AACTAATAAACTATTCTTTAATATAACTTT
732695 AACTAATAAA-TGATT-TTTAATTATAA-TTT
1 AACTAATAAACT-ATTCTTTAA-TATAACTTT
*
732724 ATTACTAAAAAACTA
1 A--ACTAATAAACTA
732739 ATTAACTAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 23
0.74 0.05 0.21
Matches are distributed among these distances:
22 19 0.24
23 1 0.01
24 1 0.01
25 1 0.01
27 1 0.01
29 10 0.12
30 37 0.46
31 9 0.11
32 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (30 bp):
AACTAATAAACTATTCTTTAATATAACTTT
Found at i:732697 original size:22 final size:22
Alignment explanation
Indices: 732619--732699 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 22
732609 AAACAACTAA
*
732619 TAAACTATTCTTTAATATAACT
1 TAAACTATTTTTTAATATAACT
* *
732641 TTAACTATTCTTTAATATAACGTTAACT
1 TAAACTATT-TTTTA-AT-A---TAACT
732669 AATAAACTATTTTTTAATATAACT
1 --TAAACTATTTTTTAATATAACT
732693 TAAACTA
1 TAAACTA
732700 ATAAATGATT
Statistics
Matches: 46, Mismatches: 5, Indels: 16
0.69 0.07 0.24
Matches are distributed among these distances:
22 15 0.33
23 3 0.07
24 7 0.15
25 1 0.02
27 1 0.02
28 7 0.15
29 4 0.09
30 8 0.17
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.44
Consensus pattern (22 bp):
TAAACTATTTTTTAATATAACT
Found at i:733019 original size:29 final size:29
Alignment explanation
Indices: 732986--733079 Score: 98
Period size: 29 Copynumber: 3.0 Consensus size: 29
732976 TGTTTTACCC
732986 TAATTTATAATAATAAACTAATTAACTAA
1 TAATTTATAATAATAAACTAATTAACTAA
* *
733015 TAATTTATAACAATAAACTAATTTAAATAA
1 TAATTTATAATAATAAACTAA-TTAACTAA
* *
733045 TTATTCTTTTATATAACTTAAACTAATTAACTAA
1 -TAAT-TTATA-ATAA--TAAACTAATTAACTAA
733079 T
1 T
733080 TTTTTTATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
29 20 0.38
30 7 0.13
31 3 0.06
32 4 0.08
33 4 0.08
34 7 0.13
35 8 0.15
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (29 bp):
TAATTTATAATAATAAACTAATTAACTAA
Found at i:733038 original size:18 final size:18
Alignment explanation
Indices: 732985--733039 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
732975 TTGTTTTACC
*
732985 CTAATTTATAATAATAAA
1 CTAATTTATAACAATAAA
733003 CTAA--T-TAAC--T-AA
1 CTAATTTATAACAATAAA
733015 -TAATTTATAACAATAAA
1 CTAATTTATAACAATAAA
733032 CTAATTTA
1 CTAATTTA
733040 AATAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 14
0.66 0.02 0.32
Matches are distributed among these distances:
11 3 0.10
12 2 0.07
13 2 0.07
14 4 0.14
15 3 0.10
16 2 0.07
17 2 0.07
18 11 0.38
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
CTAATTTATAACAATAAA
Found at i:733068 original size:35 final size:31
Alignment explanation
Indices: 733028--733091 Score: 83
Period size: 31 Copynumber: 1.9 Consensus size: 31
733018 TTTATAACAA
733028 TAAACTAATTTAAATAATTATTCTTTTATATAACT
1 TAAACTAA-TTAAATAA-T-TT-TTTTATATAACT
*
733063 TAAACTAATTAACTAATTTTTTTATATAA
1 TAAACTAATTAAATAATTTTTTTATATAA
733092 TATAAATTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
31 10 0.36
32 2 0.07
33 1 0.04
34 7 0.25
35 8 0.29
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (31 bp):
TAAACTAATTAAATAATTTTTTTATATAACT
Found at i:733318 original size:15 final size:15
Alignment explanation
Indices: 733274--733318 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
733264 GATGTTGTGC
733274 TCTCCCTTTC-CTCT
1 TCTCCCTTTCTCTCT
* *
733288 TTTCCCTTGCTCTCT
1 TCTCCCTTTCTCTCT
*
733303 TCTCCCTTTCTTTCT
1 TCTCCCTTTCTCTCT
733318 T
1 T
733319 TTATGTTTCA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
14 8 0.32
15 17 0.68
ACGTcount: A:0.00, C:0.42, G:0.02, T:0.56
Consensus pattern (15 bp):
TCTCCCTTTCTCTCT
Found at i:733597 original size:26 final size:27
Alignment explanation
Indices: 733568--733622 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
733558 CATGCATAGC
*
733568 ACCAAAGC-AGCATCAGCGGGCAAAGA
1 ACCAAAGCGAGCAGCAGCGGGCAAAGA
*
733594 ACCAAAGCGGAGTAGCAGCGGGCAAAGA
1 ACCAAAGC-GAGCAGCAGCGGGCAAAGA
733622 A
1 A
733623 TGTTGGACGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 8 0.32
28 17 0.68
ACGTcount: A:0.42, C:0.24, G:0.31, T:0.04
Consensus pattern (27 bp):
ACCAAAGCGAGCAGCAGCGGGCAAAGA
Found at i:733740 original size:29 final size:29
Alignment explanation
Indices: 733627--733738 Score: 199
Period size: 29 Copynumber: 3.9 Consensus size: 29
733617 AAAGAATGTT
*
733627 GGACGCCGGACGTGCATGGCGACCTTATA
1 GGACGCCGGGCGTGCATGGCGACCTTATA
733656 GGACGCCGGGCGTGCATGGCGACCTTATA
1 GGACGCCGGGCGTGCATGGCGACCTTATA
733685 GGACGCCGGGCGTGCATGGCGACC-TATAA
1 GGACGCCGGGCGTGCATGGCGACCTTAT-A
733714 GGACGCCGGGCGTGCATGGCGACCT
1 GGACGCCGGGCGTGCATGGCGACCT
733739 ATGCTGTCAC
Statistics
Matches: 80, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
28 3 0.04
29 77 0.96
ACGTcount: A:0.18, C:0.29, G:0.38, T:0.15
Consensus pattern (29 bp):
GGACGCCGGGCGTGCATGGCGACCTTATA
Found at i:734416 original size:15 final size:17
Alignment explanation
Indices: 734398--734439 Score: 61
Period size: 15 Copynumber: 2.5 Consensus size: 17
734388 ATATTACTAA
734398 TAAAAATATAT-AT-TT
1 TAAAAATATATAATATT
734413 TAAAAATATATAATAATT
1 TAAAAATATATAAT-ATT
734431 TAAAAATAT
1 TAAAAATAT
734440 TTTAAAAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 11 0.46
16 2 0.08
18 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAAAAATATATAATATT
Found at i:735106 original size:72 final size:72
Alignment explanation
Indices: 735016--735219 Score: 241
Period size: 72 Copynumber: 2.7 Consensus size: 72
735006 TTAAAACATA
735016 TGATAATTTAAAAATTTTAAGAGATGAAAA-TTTCA-TTAAAATATATAATAATTAAAGGATTAT
1 TGATAATTTAAAAATTTTAAGAGAT-AAAACTTT-ATTTAAAATATATAATAATTAAAGGATTAT
735079 TTGTGTGCT
64 TTGTGTGCT
* *
735088 TGATAATTTAAAATTTTTAAGAGATAAAACTTTATTTAAAATTTATAATAATTAAAGGATTATTT
1 TGATAATTTAAAAATTTTAAGAGATAAAACTTTATTTAAAATATATAATAATTAAAGGATTATTT
*
735153 GTGTACTTTAAAAT
66 GTGTGC-------T
* * * *
735167 ATGATAATGTAAAATTTTTAAGAGGTAAAACTTTATTTGAAATATATAATAAT
1 -TGATAATTTAAAAATTTTAAGAGATAAAACTTTATTTAAAATATATAATAAT
735220 AATAATAATT
Statistics
Matches: 115, Mismatches: 7, Indels: 12
0.86 0.05 0.09
Matches are distributed among these distances:
71 5 0.04
72 61 0.53
79 1 0.01
80 48 0.42
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (72 bp):
TGATAATTTAAAAATTTTAAGAGATAAAACTTTATTTAAAATATATAATAATTAAAGGATTATTT
GTGTGCT
Found at i:735180 original size:80 final size:84
Alignment explanation
Indices: 735088--735303 Score: 271
Period size: 80 Copynumber: 2.5 Consensus size: 84
735078 TTTGTGTGCT
*
735088 TGATAATTTAAAATTTTTAAGAGATAAAACTTTATTTAAAAT-T-T-ATAATAATTAAAGGATTA
1 TGATAA-TTAAAATTTTTAAGAGATAAAACTTTATTTAAAATATATAATAATAATTAAAAGATTA
*
735150 TTTGTGTACTTT-AAA-ATA
65 TTTATGTACTTTAAAATATA
*
735168 TGATAATGTAAAATTTTTAAGAGGTAAAACTTTATTTGAAATATATAATAATAATAATAATTAAA
1 TGATAAT-TAAAATTTTTAAGAGATAAAACTTTATTT--AA-A-AT-AT-ATAATAATAATTAAA
735233 AGATTATTTATGTACTTTAAAATATA
59 AGATTATTTATGTACTTTAAAATATA
* * *
735259 TGATAATTTAAATTTTTAAGAGATAAAAATTTCTTTAAAATATAT
1 TGATAATTAAAATTTTTAAGAGATAAAACTTTATTTAAAATATAT
735304 GTTAAACTTT
Statistics
Matches: 117, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
79 1 0.01
80 34 0.29
82 2 0.02
83 1 0.01
84 4 0.03
85 2 0.02
86 3 0.03
87 1 0.01
88 3 0.03
89 28 0.24
90 28 0.24
91 10 0.09
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.43
Consensus pattern (84 bp):
TGATAATTAAAATTTTTAAGAGATAAAACTTTATTTAAAATATATAATAATAATTAAAAGATTAT
TTATGTACTTTAAAATATA
Found at i:735225 original size:89 final size:90
Alignment explanation
Indices: 735132--735303 Score: 258
Period size: 90 Copynumber: 1.9 Consensus size: 90
735122 TTTAAAATTT
* * *
735132 ATAATAATTAAAGGATTATTTGTGTACTTT-AAA-ATATGATAATGTAAAATTTTTAAGAGGTAA
1 ATAATAATTAAAAGATTATTTATGTACTTTAAAATATATGATAAT-TAAAATTTTTAAGAGATAA
* *
735195 AACTTTATTTGAAATATATAATAATA
65 AAATTTATTTAAAATATATAATAATA
*
735221 ATAATAATTAAAAGATTATTTATGTACTTTAAAATATATGATAATTTAAATTTTTAAGAGATAAA
1 ATAATAATTAAAAGATTATTTATGTACTTTAAAATATATGATAATTAAAATTTTTAAGAGATAAA
*
735286 AATTTCTTTAAAATATAT
66 AATTTATTTAAAATATAT
735304 GTTAAACTTT
Statistics
Matches: 74, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
89 28 0.38
90 36 0.49
91 10 0.14
ACGTcount: A:0.47, C:0.02, G:0.09, T:0.42
Consensus pattern (90 bp):
ATAATAATTAAAAGATTATTTATGTACTTTAAAATATATGATAATTAAAATTTTTAAGAGATAAA
AATTTATTTAAAATATATAATAATA
Found at i:739463 original size:13 final size:13
Alignment explanation
Indices: 739445--739469 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
739435 GTATTCCGCA
739445 CAATTTGCAATTG
1 CAATTTGCAATTG
739458 CAATTTGCAATT
1 CAATTTGCAATT
739470 TCGGTGGTGC
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:0.32, C:0.16, G:0.12, T:0.40
Consensus pattern (13 bp):
CAATTTGCAATTG
Found at i:741594 original size:23 final size:23
Alignment explanation
Indices: 741568--741618 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
741558 GGGGAACGAA
741568 TAGGGGAAGGTGGCGGTAGCAAG
1 TAGGGGAAGGTGGCGGTAGCAAG
741591 TAGGGGAAGGTGGCGGTAGCAAG
1 TAGGGGAAGGTGGCGGTAGCAAG
741614 TAGGG
1 TAGGG
741619 TTCTTAGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.53, T:0.14
Consensus pattern (23 bp):
TAGGGGAAGGTGGCGGTAGCAAG
Found at i:744922 original size:24 final size:24
Alignment explanation
Indices: 744895--744958 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
744885 ACCTGGATTA
* *
744895 TGTTCTGATTTCTGATCAGTATTC
1 TGTTATGATTTCTGATCAGAATTC
* *
744919 TGTTATGATATCTGATCTGAATTC
1 TGTTATGATTTCTGATCAGAATTC
* * *
744943 TATTTTGATTTATGAT
1 TGTTATGATTTCTGAT
744959 ATCTCCGTTT
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.22, C:0.11, G:0.16, T:0.52
Consensus pattern (24 bp):
TGTTATGATTTCTGATCAGAATTC
Found at i:749333 original size:64 final size:65
Alignment explanation
Indices: 749254--749409 Score: 206
Period size: 65 Copynumber: 2.4 Consensus size: 65
749244 ACACCCTATT
** * * *
749254 TCGAATGCATTTTGTGTACCGATGCAC-AACCATGCATCGGTGCACTCTTGAATTTTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAAACCATGCATCAATACACTCCTGAATCTTTTGAAACA
**
749318 TCGAATGCATTTTGTGTACCGATGCACAAACCATGCATCAATACACTCCTGGCTCTTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAAACCATGCATCAATACACTCCTGAATCTTTTGAAACA
* * * *
749383 TCAAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
749410 CCCTAGTGTA
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
64 27 0.34
65 53 0.66
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAAACCATGCATCAATACACTCCTGAATCTTTTGAAACA
Found at i:751343 original size:21 final size:21
Alignment explanation
Indices: 751319--751358 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
751309 GAGAAATCAT
751319 TTTTAAAATAT-AAAAATGATA
1 TTTTAAAAT-TGAAAAATGATA
751340 TTTTAAAATTGAAAAATGA
1 TTTTAAAATTGAAAAATGA
751359 AAATAATCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (21 bp):
TTTTAAAATTGAAAAATGATA
Found at i:753389 original size:21 final size:21
Alignment explanation
Indices: 753363--753405 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
753353 AACTATGTTG
753363 CATTTATTTCATACATAGAGC
1 CATTTATTTCATACATAGAGC
753384 CATTTATTTCATACATAGAGC
1 CATTTATTTCATACATAGAGC
753405 C
1 C
753406 TAAGAATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (21 bp):
CATTTATTTCATACATAGAGC
Found at i:756719 original size:65 final size:64
Alignment explanation
Indices: 756589--756744 Score: 199
Period size: 65 Copynumber: 2.4 Consensus size: 64
756579 ACACCCTACT
* * *
756589 TCGAATGCATTATGTGTACCGATGCACGGCCATGTATCGATGCACTCTTGAATTTATTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACGACCATGCATCGATGCACTCTTGAATTTATTGAAACA
**
756653 TCGAATGCATTTTGTGTACCGATGCACAGACCATGCATCGATGCACT-TCTGGCTCTT-TTGAAA
1 TCGAATGCATTTTGTGTACCGATGCAC-GACCATGCATCGATGCACTCT-TGAAT-TTATTGAAA
756716 CA
63 CA
* * *
756718 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
756745 CCCTAGTGTA
Statistics
Matches: 81, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 27 0.33
65 52 0.64
66 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (64 bp):
TCGAATGCATTTTGTGTACCGATGCACGACCATGCATCGATGCACTCTTGAATTTATTGAAACA
Found at i:767542 original size:18 final size:18
Alignment explanation
Indices: 767519--767567 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
767509 GTTATACAAC
767519 TGTGACTATTCTAAGACT
1 TGTGACTATTCTAAGACT
767537 TGTGACTATTCTAAGACT
1 TGTGACTATTCTAAGACT
*
767555 TGTGCCTATTCTA
1 TGTGACTATTCTA
767568 GATATAAAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.24, C:0.18, G:0.16, T:0.41
Consensus pattern (18 bp):
TGTGACTATTCTAAGACT
Found at i:775630 original size:47 final size:49
Alignment explanation
Indices: 775533--775632 Score: 159
Period size: 52 Copynumber: 2.0 Consensus size: 49
775523 CAATACTCAC
775533 GTGCATGCTATGTTTTACACTAAAAAGCAAAGCTCCATTGGGATGGGAGATA
1 GTGCATGCTATGTTTTACACTAAAAAGCAAAGCTCCATT--G-TGGGAGATA
775585 GTGCATGCTATGTTTTACACTAAAAAGCAAAGCTCCA-T-TGGGAGATA
1 GTGCATGCTATGTTTTACACTAAAAAGCAAAGCTCCATTGTGGGAGATA
775632 G
1 G
775633 CGAGAGAGGG
Statistics
Matches: 48, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
47 10 0.21
51 1 0.02
52 37 0.77
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (49 bp):
GTGCATGCTATGTTTTACACTAAAAAGCAAAGCTCCATTGTGGGAGATA
Found at i:778720 original size:21 final size:21
Alignment explanation
Indices: 778694--778742 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
778684 AAAAGATAAA
*
778694 CGAAAACAACGGTCAAACGAC
1 CGAAAACAACGGTCAAAAGAC
778715 CGAAAACAACGGTCAAAAGAC
1 CGAAAACAACGGTCAAAAGAC
778736 CGAAAAC
1 CGAAAAC
778743 TTGCCATAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.51, C:0.27, G:0.18, T:0.04
Consensus pattern (21 bp):
CGAAAACAACGGTCAAAAGAC
Found at i:786289 original size:3 final size:3
Alignment explanation
Indices: 786283--786322 Score: 62
Period size: 3 Copynumber: 13.3 Consensus size: 3
786273 CTCAAGCTCC
* *
786283 CTT CTT CTT ATT CTT CTT CTT CTT TTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
786323 ATCATCATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (3 bp):
CTT
Found at i:786301 original size:15 final size:15
Alignment explanation
Indices: 786283--786321 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
786273 CTCAAGCTCC
786283 CTTCTTCTTATTCTT
1 CTTCTTCTTATTCTT
*
786298 CTTCTTCTTTTTCTT
1 CTTCTTCTTATTCTT
786313 CTTCTTCTT
1 CTTCTTCTT
786322 CATCATCATC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.69
Consensus pattern (15 bp):
CTTCTTCTTATTCTT
Found at i:790432 original size:42 final size:41
Alignment explanation
Indices: 790364--790459 Score: 117
Period size: 42 Copynumber: 2.3 Consensus size: 41
790354 ATATCCAGCC
*
790364 CAAAGGACTT-ATCATCTTGCTGAAAGACTTA-TAGATGACA
1 CAAAGGATTTAATCATCTTGCTGAAAGACTTACTA-ATGACA
* *
790404 TAAAGGATTTAATCATCATT-CTCGAAAGACTTACTAATGACC
1 CAAAGGATTTAATCATC-TTGCT-GAAAGACTTACTAATGACA
790446 CAAAGGATTTAATC
1 CAAAGGATTTAATC
790460 TTAAAGAAAC
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
40 8 0.17
41 8 0.17
42 30 0.62
43 2 0.04
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (41 bp):
CAAAGGATTTAATCATCTTGCTGAAAGACTTACTAATGACA
Found at i:790612 original size:73 final size:73
Alignment explanation
Indices: 790463--790823 Score: 535
Period size: 73 Copynumber: 4.9 Consensus size: 73
790453 TTTAATCTTA
* * * * *
790463 AAGAAACCTTTGAAAATTAAACTTGACATCTTTAAAAATTCATTTGAAAACGTCATATCAATCGA
1 AAGAAACCTTTGAAAATCAAACTTGGCTTCTTTAAACA-TCATTTGAAAACATCATATCAATCGA
**
790528 GTAATTTTC
65 GTAATCATC
* *
790537 AAGAAACCTTTGAAAATCAAACTTGGTTTCTTTAAATATCATTTGAAAACATCATATCAATCGAG
1 AAGAAACCTTTGAAAATCAAACTTGGCTTCTTTAAACATCATTTGAAAACATCATATCAATCGAG
790602 TAATCATC
66 TAATCATC
* *
790610 AAGAACCCTTTGAAAATCAAACTTGGCTTCTTTAAACATCGTTTGAAAACATCATATCAATCGAG
1 AAGAAACCTTTGAAAATCAAACTTGGCTTCTTTAAACATCATTTGAAAACATCATATCAATCGAG
790675 TAATCATC
66 TAATCATC
* * * * * * *
790683 AAGAAACTTTTGAAAATGAAACTTGGCTTCTTTGAATATCGTTTGAAATCATCATATCAATCAAG
1 AAGAAACCTTTGAAAATCAAACTTGGCTTCTTTAAACATCATTTGAAAACATCATATCAATCGAG
790748 TAATCATC
66 TAATCATC
790756 ACA-AAACCTTTGAAAATCAAACTTGGCTTCTTTAAACATCATTTGAAAACATCATATCAATCGA
1 A-AGAAACCTTTGAAAATCAAACTTGGCTTCTTTAAACATCATTTGAAAACATCATATCAATCGA
790820 GTAA
65 GTAA
790824 CATGCCCCAC
Statistics
Matches: 260, Mismatches: 26, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
73 226 0.87
74 34 0.13
ACGTcount: A:0.40, C:0.17, G:0.10, T:0.32
Consensus pattern (73 bp):
AAGAAACCTTTGAAAATCAAACTTGGCTTCTTTAAACATCATTTGAAAACATCATATCAATCGAG
TAATCATC
Found at i:792876 original size:8 final size:8
Alignment explanation
Indices: 792856--792888 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
792846 TTTCCCTTTA
792856 TTTTATC-
1 TTTTATCT
792863 TTTTATCT
1 TTTTATCT
792871 TTTTATCT
1 TTTTATCT
*
792879 TTTTTTCT
1 TTTTATCT
792887 TT
1 TT
792889 CCTTTATGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.09, C:0.12, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTATCT
Found at i:797939 original size:75 final size:76
Alignment explanation
Indices: 797825--798059 Score: 212
Period size: 82 Copynumber: 3.0 Consensus size: 76
797815 TCATTTCAGA
* * * * *
797825 TGGGATAGAACACTATGACATGGCATAGATTCTCTGAATAATAAT-AGAAAATGCTTTCCCTGGA
1 TGGGATGGAACAC-ATGACATAGTAGAGATTCTCAGAATAATAATGA-AAAATGCTTTCCCTGGA
797889 ACGTGCCTTTCAT
64 ACGTGCCTTTCAT
* *
797902 TGGGATGGAACAC-TGACATAGTAGAGATTCTCAGAATAATAATGAAAAATTCCTTCCCCT-GAA
1 TGGGATGGAACACATGACATAGTAGAGATTCTCAGAATAATAATGAAAAA-TGCTTTCCCTGGAA
*
797965 CGCT-TCTTTCATTT
65 CG-TGCCTTTCA--T
*
797979 GGATGGGATGGAACACTATGACATGGTAGAGATTCTCTA-AATAATAATGAAAAATG-TTTCCCC
1 ---TGGGATGGAACAC-ATGACATAGTAGAGATTCTC-AGAATAATAATGAAAAATGCTTT-CCC
* * *
798042 TGAAATGCGCCTTTCAT
60 TGGAACGTGCCTTTCAT
798059 T
1 T
798060 TCAAGTGGGA
Statistics
Matches: 129, Mismatches: 15, Indels: 28
0.75 0.09 0.16
Matches are distributed among these distances:
75 41 0.32
76 10 0.08
77 14 0.11
80 16 0.12
81 5 0.04
82 42 0.33
83 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (76 bp):
TGGGATGGAACACATGACATAGTAGAGATTCTCAGAATAATAATGAAAAATGCTTTCCCTGGAAC
GTGCCTTTCAT
Found at i:798097 original size:83 final size:82
Alignment explanation
Indices: 797806--798354 Score: 516
Period size: 83 Copynumber: 6.7 Consensus size: 82
797796 ATAATGGAAC
*
797806 ATGCGCCTTTCATTTCAGATGGGATAGAACACTATGACATGGCATAGATTCTCTGAATAATAAT-
1 ATGCGCCTTTCATTTCAG-TGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATG
* *
797870 AGAAAATGCTTTCCCTGGA
65 A-AAAATGCTTCCCCTGAA
* * * * * *
797889 ACGTGCCTTTCA--T---TGGGATGGAACAC--TGACATAGTAGAGATTCTCAGAATAATAATGA
1 ATGCGCCTTTCATTTCAGTGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGA
*
797947 AAAATTCCTTCCCCTG-A
66 AAAA-TGCTTCCCCTGAA
* ** * * * *
797964 ACGCTTCTTTCATTT-GGATGGGATGGAACACTATGACATGGTAGAGATTCTCTAAATAATAATG
1 ATGCGCCTTTCATTTCAG-TGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATG
*
798028 AAAAATGTTTCCCCTGAA
65 AAAAATGCTTCCCCTGAA
*
798046 ATGCGCCTTTCATTTCAAGTGGGATAAAACACTATGACATGGCAGAGATTCTCTGAATAATAATG
1 ATGCGCCTTTCATTTC-AGTGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATG
* ** *
798111 GAAAACACTT-CCCTTAGA
65 AAAAATGCTTCCCCTGA-A
* * * *
798129 ACGTAG-CTTTCATATCAGATGGGA-AGAAACACTATGACATTGCAGAGATTCTCTGAATAATAA
1 ATG-CGCCTTTCATTTCAG-TGGGATAG-AACACTATGACATGGCAGAGATTCTCTGAATAATAA
* ** *
798192 TGGAAAATGCTTCCTATGGA
63 TGAAAAATGCTTCCCCTGAA
* * *
798212 ATGCACCTTTCATTTCTTTCGAATGGGATAGAACACTATGACATGGCAGTGATTCTCTGAATAAT
1 ATGCGCCTTTCA----TTTC-AGTGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAAT
798277 AATGAAAAATGCTTCCCCT-AGA
61 AATGAAAAATGCTTCCCCTGA-A
* * *
798299 ATGCGCCTTTCATTTCAGATGGGATAAAACA-TATGACATGGTAGGGATTCTCTGAA
1 ATGCGCCTTTCATTTCAG-TGGGATAGAACACTATGACATGGCAGAGATTCTCTGAA
798355 AATGGGGAAA
Statistics
Matches: 383, Mismatches: 57, Indels: 53
0.78 0.12 0.11
Matches are distributed among these distances:
75 40 0.10
76 10 0.03
77 13 0.03
80 13 0.03
81 10 0.03
82 78 0.20
83 144 0.38
84 4 0.01
87 68 0.18
88 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (82 bp):
ATGCGCCTTTCATTTCAGTGGGATAGAACACTATGACATGGCAGAGATTCTCTGAATAATAATGA
AAAATGCTTCCCCTGAA
Found at i:799258 original size:26 final size:26
Alignment explanation
Indices: 799204--799255 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
799194 TGAACTATAA
*
799204 AAACAACAAACCATAAAAATTACATT
1 AAACAACAAACCATAAAAATGACATT
* *
799230 AAACAACAAACTATTAAACATGACAT
1 AAACAACAAACCA-TAAAAATGACAT
799256 AAAGCATACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 12 0.55
27 10 0.45
ACGTcount: A:0.60, C:0.19, G:0.02, T:0.19
Consensus pattern (26 bp):
AAACAACAAACCATAAAAATGACATT
Found at i:799366 original size:32 final size:31
Alignment explanation
Indices: 799314--799373 Score: 102
Period size: 32 Copynumber: 1.9 Consensus size: 31
799304 CCTTAAGCAA
*
799314 TAAATAAAACATACACATACACCTAAAATAG
1 TAAATAAAACACACACATACACCTAAAATAG
799345 TAAATAAAAGCACACACATACACCTAAAA
1 TAAATAAAA-CACACACATACACCTAAAA
799374 CAGACTTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.58, C:0.22, G:0.03, T:0.17
Consensus pattern (31 bp):
TAAATAAAACACACACATACACCTAAAATAG
Found at i:799990 original size:17 final size:18
Alignment explanation
Indices: 799953--799991 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
799943 ACAGAATAAC
799953 AAAACTAAATAAGAGGCA
1 AAAACTAAATAAGAGGCA
*
799971 AAAACTAATTAAGAGG-A
1 AAAACTAAATAAGAGGCA
799988 AAAA
1 AAAA
799992 TCTTACTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.64, C:0.08, G:0.15, T:0.13
Consensus pattern (18 bp):
AAAACTAAATAAGAGGCA
Found at i:800199 original size:23 final size:24
Alignment explanation
Indices: 800166--800217 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
800156 TATATGTTGC
* *
800166 TCCTCGTCGTCCCCATCATCGTCA
1 TCCTCGTCGTCACCATCATCCTCA
* *
800190 TCCTC-TCGTCATCATCATCCTCC
1 TCCTCGTCGTCACCATCATCCTCA
800213 TCCTC
1 TCCTC
800218 CTCATCGTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 19 0.79
24 5 0.21
ACGTcount: A:0.12, C:0.48, G:0.08, T:0.33
Consensus pattern (24 bp):
TCCTCGTCGTCACCATCATCCTCA
Found at i:800228 original size:21 final size:20
Alignment explanation
Indices: 800179--800229 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
800169 TCGTCGTCCC
* * *
800179 CATCATCGTCATCCTCTCGT
1 CATCATCATCCTCCTCTCCT
800199 CATCATCATCCTCCTCCTCCT
1 CATCATCATCCTCCT-CTCCT
*
800220 CATCGTCATC
1 CATCATCATC
800230 ATCACTCTCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 13 0.50
21 13 0.50
ACGTcount: A:0.16, C:0.45, G:0.06, T:0.33
Consensus pattern (20 bp):
CATCATCATCCTCCTCTCCT
Found at i:802419 original size:24 final size:24
Alignment explanation
Indices: 802392--802448 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
802382 AAAATAAAAT
*
802392 AATAATAAAATAATTAATTACTT-A
1 AATAATAAAATAATTAATGA-TTAA
**
802416 AATAATAAAATTTTTAATGATTAA
1 AATAATAAAATAATTAATGATTAA
802440 AATAATAAA
1 AATAATAAA
802449 TTATAAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.37
Consensus pattern (24 bp):
AATAATAAAATAATTAATGATTAA
Found at i:803352 original size:23 final size:21
Alignment explanation
Indices: 803307--803364 Score: 68
Period size: 23 Copynumber: 2.8 Consensus size: 21
803297 TATCTTAATA
803307 ATATTTTTTTT--A-TATTTT
1 ATATTTTTTTTAAATTATTTT
803325 ATATTTTTAATTTAAATTATTTT
1 ATATTTTT--TTTAAATTATTTT
*
803348 TTATTTTTTTTAAATTA
1 ATATTTTTTTTAAATTA
803365 GATAAGTTCT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
18 8 0.24
20 3 0.09
21 9 0.26
22 1 0.03
23 13 0.38
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
ATATTTTTTTTAAATTATTTT
Found at i:806742 original size:135 final size:135
Alignment explanation
Indices: 806597--806874 Score: 531
Period size: 135 Copynumber: 2.1 Consensus size: 135
806587 TATTTTTTTG
806597 TTTTATTTAAATATTATATTCTATTATTTTACGTATATATATTTTCTTTCCTTTTATTTATTTTA
1 TTTTATTTAAATATTATATTCTATTATTTTACGTATATATATTTTCTTTCCTTTTATTTATTTTA
*
806662 TTAATATTAATATTAGTATTTA-TATATGTATTATTATTTTGTTTTCCTTATACCTATTTTATTT
66 TTAATATTAATATTAGTATTTATTATATATA-TATTATTTTGTTTTCCTTATACCTATTTTATTT
806726 ATCTAA
130 ATCTAA
806732 TTTTATTTAAATATTATATTCTATTATTTTACGTATATATATTTTCTTTCCTTTTATTTATTTTA
1 TTTTATTTAAATATTATATTCTATTATTTTACGTATATATATTTTCTTTCCTTTTATTTATTTTA
806797 TTAATATTAATATTAGTATTTATTATATATATATTATTTTGTTTTCCTTATACCTATTTTATTTA
66 TTAATATTAATATTAGTATTTATTATATATATATTATTTTGTTTTCCTTATACCTATTTTATTTA
806862 TCTAA
131 TCTAA
806867 TTTTATTT
1 TTTTATTT
806875 TCTTCTTGCT
Statistics
Matches: 141, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
135 134 0.95
136 7 0.05
ACGTcount: A:0.28, C:0.07, G:0.03, T:0.62
Consensus pattern (135 bp):
TTTTATTTAAATATTATATTCTATTATTTTACGTATATATATTTTCTTTCCTTTTATTTATTTTA
TTAATATTAATATTAGTATTTATTATATATATATTATTTTGTTTTCCTTATACCTATTTTATTTA
TCTAA
Found at i:806990 original size:14 final size:14
Alignment explanation
Indices: 806973--807075 Score: 50
Period size: 14 Copynumber: 7.4 Consensus size: 14
806963 TTTTCTTTTG
806973 TATTTTGTTTATTT
1 TATTTTGTTTATTT
806987 TATTTTG-TTATTT
1 TATTTTGTTTATTT
* **
807000 T-GTTTACTTATTT
1 TATTTTGTTTATTT
* *
807013 TCTGTTTTTTTATTT
1 TAT-TTTGTTTATTT
* *
807028 CT-GTTTCTTTATTT
1 -TATTTTGTTTATTT
* *
807042 ACATTTTGTATATTT
1 -TATTTTGTTTATTT
* * *
807057 TCTTTTCTTTTTTT
1 TATTTTGTTTATTT
807071 TATTT
1 TATTT
807076 CTATCATTAT
Statistics
Matches: 66, Mismatches: 18, Indels: 10
0.70 0.19 0.11
Matches are distributed among these distances:
12 3 0.05
13 14 0.21
14 30 0.45
15 18 0.27
16 1 0.02
ACGTcount: A:0.13, C:0.07, G:0.06, T:0.75
Consensus pattern (14 bp):
TATTTTGTTTATTT
Found at i:806998 original size:22 final size:21
Alignment explanation
Indices: 806963--807027 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
806953 TTTACTTGTT
*
806963 TTTTCTTTTGTATTTTGTTTA
1 TTTTATTTTGTATTTTGTTTA
806984 TTTTATTTTGTTATTTTGTTTA
1 TTTTATTTTG-TATTTTGTTTA
* * *
807006 -CTTATTTTCTGTTTT-TTTA
1 TTTTATTTTGTATTTTGTTTA
807025 TTT
1 TTT
807028 CTGTTTCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.11
20 6 0.16
21 16 0.43
22 11 0.30
ACGTcount: A:0.11, C:0.05, G:0.08, T:0.77
Consensus pattern (21 bp):
TTTTATTTTGTATTTTGTTTA
Found at i:807025 original size:15 final size:15
Alignment explanation
Indices: 807007--807070 Score: 55
Period size: 14 Copynumber: 4.5 Consensus size: 15
806997 TTTTGTTTAC
*
807007 TTATTTTCTGTTTTT
1 TTATTTTCTGTTTCT
807022 TTA-TTTCTGTTTCT
1 TTATTTTCTGTTTCT
* *
807036 TTATTTACAT-TTTGT
1 TTATTTTC-TGTTTCT
*
807051 ATATTTTCT-TTTCT
1 TTATTTTCTGTTTCT
807065 TT-TTTT
1 TTATTTT
807071 TATTTCTATC
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
13 4 0.10
14 19 0.47
15 16 0.40
16 1 0.03
ACGTcount: A:0.11, C:0.09, G:0.05, T:0.75
Consensus pattern (15 bp):
TTATTTTCTGTTTCT
Found at i:816532 original size:50 final size:49
Alignment explanation
Indices: 816476--816575 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 49
816466 TCACTCAATT
816476 CACTATTTGCAAGTTTCTGAAGAAAGAGATCATATGTCGGTATGGTTTAC
1 CACTATTTGCAAGTTTCTGAAGAAAGAGATCATATGT-GGTATGGTTTAC
*
816526 CACTATTTGCAATTTTCTGAAGAAAGAGATCATATGTGGTATGGTTTAC
1 CACTATTTGCAAGTTTCTGAAGAAAGAGATCATATGTGGTATGGTTTAC
816575 C
1 C
816576 TAAAAGGATC
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
49 13 0.27
50 36 0.73
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (49 bp):
CACTATTTGCAAGTTTCTGAAGAAAGAGATCATATGTGGTATGGTTTAC
Found at i:817294 original size:6 final size:6
Alignment explanation
Indices: 817283--817345 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 6
817273 CCTAAGTCGA
* *
817283 AAAAAG AAAAAG AAAAAG AAGAA- AAATA- AAAAAG -AAAAG -AAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
*
817327 AACAAAAA AAAAAG AAAAA
1 -A-AAAAG AAAAAG AAAAA
817346 CGTTTAGGGT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 17 0.36
6 25 0.53
7 1 0.02
8 4 0.09
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:817298 original size:5 final size:5
Alignment explanation
Indices: 817284--817344 Score: 51
Period size: 5 Copynumber: 12.8 Consensus size: 5
817274 CTAAGTCGAA
* *
817284 AAAAG AAAAAG AAAA- AGAAG AAAA- ATAA- AAAAG AAAAG AAAAG AACAA-
1 AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AA-AAG
817332 AAAA- AAAAG AAAA
1 AAAAG AAAAG AAAA
817345 ACGTTTAGGG
Statistics
Matches: 47, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
4 15 0.32
5 25 0.53
6 7 0.15
ACGTcount: A:0.84, C:0.02, G:0.13, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:817410 original size:15 final size:14
Alignment explanation
Indices: 817384--817430 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
817374 CTTAAATTGA
*
817384 AAAAAGAGAAAAAG
1 AAAAAGAAAAAAAG
817398 AACAAAGAAAAAAAG
1 AA-AAAGAAAAAAAG
**
817413 AAAAAGAGGAAAAG
1 AAAAAGAAAAAAAG
817427 AAAA
1 AAAA
817431 TAAGGTGGGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 16 0.55
15 13 0.45
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (14 bp):
AAAAAGAAAAAAAG
Found at i:818513 original size:124 final size:124
Alignment explanation
Indices: 818291--818517 Score: 357
Period size: 124 Copynumber: 1.8 Consensus size: 124
818281 TAACTTACTC
* * *
818291 TAGATTGGATTTCAACTTCACGATGAAAGATATCCAATTCAAGGCTTAACTTCACAATGAAGGGG
1 TAGATTGGATTTCAACTTCACAATGAAAGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGG
* *
818356 TCATCCACGATTTCAACTTCACGATGAATGATATCGTGCTCACCAGCAACATTCATCTT
66 CCATCCACGATTTCAACTTCACGATGAAGGATATCGTGCTCACCAGCAACATTCATCTT
* * *
818415 TAGATTGGATTTCAACTTCACAAT-AAAGGATATCCAATTCTATGCTCAACTTCACGACGAAGGG
1 TAGATTGGATTTCAACTTCACAATGAAA-GATATCCAATTCAAGGCTCAACTTCACAACGAAGGG
*
818479 GCCATCCACGATTTCAACTTCATGATGAAGGATATCGTG
65 GCCATCCACGATTTCAACTTCACGATGAAGGATATCGTG
818518 TCCACTACTT
Statistics
Matches: 93, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
123 3 0.03
124 90 0.97
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (124 bp):
TAGATTGGATTTCAACTTCACAATGAAAGATATCCAATTCAAGGCTCAACTTCACAACGAAGGGG
CCATCCACGATTTCAACTTCACGATGAAGGATATCGTGCTCACCAGCAACATTCATCTT
Found at i:818605 original size:107 final size:109
Alignment explanation
Indices: 818415--818696 Score: 354
Period size: 107 Copynumber: 2.6 Consensus size: 109
818405 CATTCATCTT
* * *
818415 TAGATTGGATTTCAACTTCACAATAAAGGATATCCAATTCTATGCTCAACTTCACGACGAAGGGG
1 TAGATTGGATTTCAACTTCACAATAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGGG
* * ** *
818480 CCATCCACGATTTCAACTTCATGATGAAGGATATCGTG-T-CCAC
66 CCATCCACAATTTCAACTTCA-CAACAAGGATATCGTGCTAACAC
* * * * * *
818523 TA-CTTGGATTTCAACTTCACGACAAATGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGG
1 TAGATTGGATTTCAACTTCACAATAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGGG
* * *
818587 CCATCCATAATTTTAACTTCACAACAAGGATATCGTGCTAACTC
66 CCATCCACAATTTCAACTTCACAACAAGGATATCGTGCTAACAC
* * *
818631 TAGATTGGATTTCAACTTTACAATGAAGGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGG
1 TAGATTGGATTTCAACTTCACAATAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGGG
818696 C
66 C
818697 TTCCCAGTTT
Statistics
Matches: 147, Mismatches: 24, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
106 13 0.09
107 74 0.50
108 6 0.04
109 54 0.37
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (109 bp):
TAGATTGGATTTCAACTTCACAATAAAGGATATCCAATTCAAAGCTCAACTTCACAACGAAGGGG
CCATCCACAATTTCAACTTCACAACAAGGATATCGTGCTAACAC
Found at i:818923 original size:250 final size:241
Alignment explanation
Indices: 818526--819114 Score: 772
Period size: 244 Copynumber: 2.4 Consensus size: 241
818516 TGTCCACTAC
818526 TTGGATTTCAACTTCACGACAAATGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACAAATGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCCAT
* * * ** * **
818591 CCATAATTTTAACTTCACAACAAGGATATCGTGCTAACTCTAGATTGGATTTCAACTTTACAATG
66 TCATGATTTCAACTTCACAACAAGGATATCGTGCTAAAGCTAGATTGGATTTCAACTTCACAACA
* *
818656 AAGGATATCCAATTCAAAGCTCAACTTCACAGCGAAGGGGCTTCCCAGTTTCATTTAGACT-AAT
131 AAGGATATCCAATTCAAAGCTCAACTTCACAGCGAAAGGGCTTCCCAGTTTCATTCAGACTCAAT
818720 TTCAACTTCACAGCGAAGGATATTGGACTCGAAACAAGATAACTCACACAAGA
196 TTCAACTTCACAGCGAAGGATATTGGACTCGAAAC-----AACT--CACAAGA
* * * * * * *
818773 TTGGATTTCAAATTCTCGACGAAGGATATTCAATTCCATGCTCAACTTCACAACGAAGGGGCCAT
1 TTGGATTTCAACTTCACGACAAATGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCCAT
* * **
818838 TCACGATATCAACTTCATGACGAAGGATATCGTGCTCACAAGC-AGCATTGGATTTCAACTTCAC
66 TCATGATTTCAACTTCACAAC-AAGGATATCGTGCT-A-AAGCTAG-ATTGGATTTCAACTTCAC
* *
818902 AACAAAGGATATCCAATTCAAAGCTCAACTTCACAGCGAAAGGGCTTCCCATTTTCATTCAGAGT
127 AACAAAGGATATCCAATTCAAAGCTCAACTTCACAGCGAAAGGGCTTCCCAGTTTCATTCAGACT
* * * *
818967 CAATTTCAACTTCACGGTGAATGATATTGGACTCGAAACAACTCATAAGA
192 CAATTTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACTCACAAGA
*
819017 TTGGATTTCAACTTCACGACAAATGATATCCAATTCGAGGCTCAACTTCACGAA-GAAGGAGCCA
1 TTGGATTTCAACTTCACGACAAATGATATCCAATTCGAGGCTCAACTTCAC-AACGAAGGGGCCA
819081 -TCTATGATTTCAACTTCACAACAAAGGATATCGT
65 TTC-ATGATTTCAACTTCACAAC-AAGGATATCGT
819115 ACCCTAAAGA
Statistics
Matches: 295, Mismatches: 40, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
243 2 0.01
244 85 0.29
245 2 0.01
246 4 0.01
247 72 0.24
248 14 0.05
249 3 0.01
250 78 0.26
251 35 0.12
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.26
Consensus pattern (241 bp):
TTGGATTTCAACTTCACGACAAATGATATCCAATTCGAGGCTCAACTTCACAACGAAGGGGCCAT
TCATGATTTCAACTTCACAACAAGGATATCGTGCTAAAGCTAGATTGGATTTCAACTTCACAACA
AAGGATATCCAATTCAAAGCTCAACTTCACAGCGAAAGGGCTTCCCAGTTTCATTCAGACTCAAT
TTCAACTTCACAGCGAAGGATATTGGACTCGAAACAACTCACAAGA
Found at i:821051 original size:21 final size:22
Alignment explanation
Indices: 821021--821068 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
821011 CATTTTTTCA
821021 TGTTT-TTTTCTTTT-TGTA-TT
1 TGTTTATTTTCTTTTGT-TATTT
821041 TGTTTATTTTCTTTTGTTATTT
1 TGTTTATTTTCTTTTGTTATTT
821063 TGTTTA
1 TGTTTA
821069 CTTATTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.20
21 11 0.44
22 9 0.36
ACGTcount: A:0.08, C:0.04, G:0.10, T:0.77
Consensus pattern (22 bp):
TGTTTATTTTCTTTTGTTATTT
Found at i:821064 original size:22 final size:21
Alignment explanation
Indices: 821021--821068 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 21
821011 CATTTTTTCA
821021 TGTTT-TTTTCTTTTTGTATT
1 TGTTTATTTTCTTTTTGTATT
821041 TGTTTATTTTC-TTTTGTTATTT
1 TGTTTATTTTCTTTTTG-TA-TT
821063 TGTTTA
1 TGTTTA
821069 CTTATTTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 10 0.40
21 7 0.28
22 8 0.32
ACGTcount: A:0.08, C:0.04, G:0.10, T:0.77
Consensus pattern (21 bp):
TGTTTATTTTCTTTTTGTATT
Found at i:821085 original size:22 final size:22
Alignment explanation
Indices: 821039--821086 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
821029 TCTTTTTGTA
*
821039 TTTGTTTATTTTCTTTTGTTAT
1 TTTGTTTATTTTCTTCTGTTAT
*
821061 TTTGTTTACTTATT-TTCTGTTTT
1 TTTGTTTA-TT-TTCTTCTGTTAT
821084 TTT
1 TTT
821087 ATTTCAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 8 0.36
23 12 0.55
24 2 0.09
ACGTcount: A:0.08, C:0.06, G:0.08, T:0.77
Consensus pattern (22 bp):
TTTGTTTATTTTCTTCTGTTAT
Found at i:827491 original size:21 final size:21
Alignment explanation
Indices: 827467--827511 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
827457 GGCCTCAAGC
827467 AAACTTTCAGTAGACAAACCA
1 AAACTTTCAGTAGACAAACCA
*
827488 AAACTTTCAGTAGACAAAGCA
1 AAACTTTCAGTAGACAAACCA
827509 AAA
1 AAA
827512 AGGCAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.20, G:0.11, T:0.18
Consensus pattern (21 bp):
AAACTTTCAGTAGACAAACCA
Found at i:827668 original size:21 final size:21
Alignment explanation
Indices: 827644--827688 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
827634 GGCCTCAAGC
827644 AAACTTTCAGTAGACAAACCA
1 AAACTTTCAGTAGACAAACCA
*
827665 AAACTTTCAGTAGACAAAGCA
1 AAACTTTCAGTAGACAAACCA
827686 AAA
1 AAA
827689 AGGCAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.20, G:0.11, T:0.18
Consensus pattern (21 bp):
AAACTTTCAGTAGACAAACCA
Found at i:827729 original size:177 final size:177
Alignment explanation
Indices: 827433--827786 Score: 708
Period size: 177 Copynumber: 2.0 Consensus size: 177
827423 GCTTCTTGTT
827433 AATAAGTTTATCCAGCATTGTTAAGGCCTCAAGCAAACTTTCAGTAGACAAACCAAAACTTTCAG
1 AATAAGTTTATCCAGCATTGTTAAGGCCTCAAGCAAACTTTCAGTAGACAAACCAAAACTTTCAG
827498 TAGACAAAGCAAAAAGGCAGAAAAATAAAATCTAGCTAGCCATCATTGATTGCTACCTTTTCAAG
66 TAGACAAAGCAAAAAGGCAGAAAAATAAAATCTAGCTAGCCATCATTGATTGCTACCTTTTCAAG
827563 CTTTTCAACTTCTTCACGGCGCTTTTTTCAGTCTCTTGAAGTTCTCG
131 CTTTTCAACTTCTTCACGGCGCTTTTTTCAGTCTCTTGAAGTTCTCG
827610 AATAAGTTTATCCAGCATTGTTAAGGCCTCAAGCAAACTTTCAGTAGACAAACCAAAACTTTCAG
1 AATAAGTTTATCCAGCATTGTTAAGGCCTCAAGCAAACTTTCAGTAGACAAACCAAAACTTTCAG
827675 TAGACAAAGCAAAAAGGCAGAAAAATAAAATCTAGCTAGCCATCATTGATTGCTACCTTTTCAAG
66 TAGACAAAGCAAAAAGGCAGAAAAATAAAATCTAGCTAGCCATCATTGATTGCTACCTTTTCAAG
827740 CTTTTCAACTTCTTCACGGCGCTTTTTTCAGTCTCTTGAAGTTCTCG
131 CTTTTCAACTTCTTCACGGCGCTTTTTTCAGTCTCTTGAAGTTCTCG
827787 TTTGGCATCC
Statistics
Matches: 177, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
177 177 1.00
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.30
Consensus pattern (177 bp):
AATAAGTTTATCCAGCATTGTTAAGGCCTCAAGCAAACTTTCAGTAGACAAACCAAAACTTTCAG
TAGACAAAGCAAAAAGGCAGAAAAATAAAATCTAGCTAGCCATCATTGATTGCTACCTTTTCAAG
CTTTTCAACTTCTTCACGGCGCTTTTTTCAGTCTCTTGAAGTTCTCG
Found at i:829835 original size:21 final size:21
Alignment explanation
Indices: 829811--829855 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
829801 GGCCTCAAGC
*
829811 AAACTTTCAGTAGACAAACCA
1 AAACCTTCAGTAGACAAACCA
*
829832 AAACCTTCAGTAGACAAAGCA
1 AAACCTTCAGTAGACAAACCA
829853 AAA
1 AAA
829856 AGGCAGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.51, C:0.22, G:0.11, T:0.16
Consensus pattern (21 bp):
AAACCTTCAGTAGACAAACCA
Found at i:836090 original size:35 final size:36
Alignment explanation
Indices: 836044--836114 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
836034 TATGTGCAGG
836044 GGGAACAGATTCCCCCCT-G-GGGGTATCGATTCCCC
1 GGGAACAGATT-CCCCCTGGAGGGGTATCGATTCCCC
*
836079 GGGAACAGATTCCCCCTGGAGGGGTATTGATTCCCC
1 GGGAACAGATTCCCCCTGGAGGGGTATCGATTCCCC
836115 CCTAAATGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
34 6 0.18
35 12 0.36
36 15 0.45
ACGTcount: A:0.18, C:0.31, G:0.30, T:0.21
Consensus pattern (36 bp):
GGGAACAGATTCCCCCTGGAGGGGTATCGATTCCCC
Found at i:836566 original size:23 final size:22
Alignment explanation
Indices: 836538--836610 Score: 67
Period size: 23 Copynumber: 3.2 Consensus size: 22
836528 AATGATATGA
836538 ATATGAAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
836561 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
836583 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
836607 ATAT
1 ATAT
836611 TATATGAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
21 6 0.16
22 6 0.16
23 14 0.37
24 6 0.16
25 6 0.16
ACGTcount: A:0.41, C:0.07, G:0.19, T:0.33
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:836588 original size:46 final size:46
Alignment explanation
Indices: 836522--836624 Score: 167
Period size: 46 Copynumber: 2.3 Consensus size: 46
836512 CTATATGACT
836522 ATATGAAATG--ATATGAATATGAAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGAAATACGTGATACATGTGATATG
* *
836566 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATT
1 ATATGAAATGACATATGAATATGAAATACGTGATACATGTGATATG
836612 ATATGAAAT-ACAT
1 ATATGAAATGACAT
836625 GGTTACACAT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
44 10 0.18
45 4 0.07
46 41 0.75
ACGTcount: A:0.44, C:0.06, G:0.17, T:0.33
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGAAATACGTGATACATGTGATATG
Found at i:836829 original size:38 final size:38
Alignment explanation
Indices: 836773--836862 Score: 135
Period size: 38 Copynumber: 2.4 Consensus size: 38
836763 TATAAGACAT
* * *
836773 ATGATAGGTCCTACGGGACACAGATTACATCTTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
* *
836811 ATGACAGGTCCTTCGGGACACAGATGGCATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
836849 ATGATAGGTCCTTC
1 ATGATAGGTCCTTC
836863 ATGACATTTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 46 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:843032 original size:21 final size:21
Alignment explanation
Indices: 842981--843032 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
842971 AGGGGGAACA
*
842981 GATTCCCCCCTGGGGGGTATC
1 GATTCCCCCTTGGGGGGTATC
843002 GATTCCCCCTTGGGGGGTATC
1 GATTCCCCCTTGGGGGGTATC
843023 GATTCCCCCT
1 GATTCCCCCT
843033 AAATGAAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.10, C:0.35, G:0.29, T:0.27
Consensus pattern (21 bp):
GATTCCCCCTTGGGGGGTATC
Found at i:843482 original size:23 final size:22
Alignment explanation
Indices: 843455--843529 Score: 71
Period size: 23 Copynumber: 3.3 Consensus size: 22
843445 TGATATATGA
843455 ATATGCAATACGTGATACATGTG
1 ATATG-AATACGTGATACATGTG
* ** *
843478 ATATG-ATATGAAATGACATATG
1 ATATGAATACGTGAT-ACATGTG
843500 AATATGTAATACGTGATACATGTG
1 -ATATG-AATACGTGATACATGTG
843524 ATATGA
1 ATATGA
843530 TATGAAATAC
Statistics
Matches: 40, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 6 0.15
22 7 0.17
23 15 0.38
24 6 0.15
25 6 0.15
ACGTcount: A:0.40, C:0.08, G:0.20, T:0.32
Consensus pattern (22 bp):
ATATGAATACGTGATACATGTG
Found at i:843488 original size:46 final size:46
Alignment explanation
Indices: 843437--843541 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
843427 CTATATGACT
*
843437 ATATGAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
*
843483 ATATGAAATGACATATGAATATGTAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
843529 ATATGAAAT-ACAT
1 ATATGAAATGACAT
843542 GGTTACACAT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 4 0.07
46 53 0.93
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:843746 original size:38 final size:38
Alignment explanation
Indices: 843703--843785 Score: 114
Period size: 38 Copynumber: 2.2 Consensus size: 38
843693 ATAGGTCATA
* *
843703 CGGGACACATATTACATCCTTCGGGATGACT-CGTCCTT
1 CGGGACACAGATGACATCCTTCGGGATGA-TACGTCCTT
* *
843741 CGGGACACAGATGGCATCCTTCGGGATGATAGGTCCTT
1 CGGGACACAGATGACATCCTTCGGGATGATACGTCCTT
843779 CGGGACA
1 CGGGACA
843786 TTTATATGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
37 1 0.03
38 39 0.98
ACGTcount: A:0.22, C:0.27, G:0.28, T:0.24
Consensus pattern (38 bp):
CGGGACACAGATGACATCCTTCGGGATGATACGTCCTT
Found at i:848065 original size:57 final size:55
Alignment explanation
Indices: 848001--848107 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 55
847991 AATGCATTTT
* *
848001 ATGCATCGATGCA-CTGAGGATCTTATGAAAACATCGAATGCATTTGATGCACCAGCC
1 ATGCATCGATGCACCTGACGAT-TT-TG-AAACATCGAATGCACTTGATGCACCAGCC
*
848058 ATGCATCGATGCACTCTGACTATTTTGAAACATCGAATGCACTTGATGCA
1 ATGCATCGATGCAC-CTGACGATTTTGAAACATCGAATGCACTTGATGCA
848108 TCGATGCACT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
56 22 0.49
57 15 0.33
58 2 0.04
59 6 0.13
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (55 bp):
ATGCATCGATGCACCTGACGATTTTGAAACATCGAATGCACTTGATGCACCAGCC
Found at i:848116 original size:17 final size:19
Alignment explanation
Indices: 848088--848136 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
848078 TATTTTGAAA
848088 CATCGAATGCACT-TGA-TG
1 CATCG-ATGCACTCTGAGTG
*
848106 CATCGATGCACTCTTAGTG
1 CATCGATGCACTCTGAGTG
*
848125 CACCGATGCACT
1 CATCGATGCACT
848137 GAGAGTCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 7 0.26
18 7 0.26
19 13 0.48
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTGAGTG
Found at i:852851 original size:88 final size:89
Alignment explanation
Indices: 852614--852863 Score: 317
Period size: 88 Copynumber: 2.8 Consensus size: 89
852604 GAGTCTGATT
* * **
852614 TCCCCTGAAGAGTAGTGGAGCAGATT-TTTCTTATTTCATATTTGGTCTTCCTGAAGAGCAGCAA
1 TCCCCTAAAGAGTAGTGGAGCAGATTCTTTCTTATTTCAGATTTGGTCTTCCTGAAGAGCAGTGA
* * * *
852678 AGTAAATAAATCTCGAGTCTGATC
66 AGCAAATCAATCTCGAGCCTCATC
* * * * *
852702 TCCCCAAAAGAGTAGTCGAGCATATTC-TTCTTATTTCAGAATTGGTCTTCCTGAAGTGCAGTGA
1 TCCCCTAAAGAGTAGTGGAGCAGATTCTTTCTTATTTCAGATTTGGTCTTCCTGAAGAGCAGTGA
852766 AGCAAATCAATCTCGAGCCTCATC
66 AGCAAATCAATCTCGAGCCTCATC
* * * *
852790 TTCCCTAAAGATTAGTGGAGCAGATTCTTTC-TATTTTAGATTTGGTCTTCATGAAGAGCAGTGA
1 TCCCCTAAAGAGTAGTGGAGCAGATTCTTTCTTATTTCAGATTTGGTCTTCCTGAAGAGCAGTGA
*
852854 AACAAATCAA
66 AGCAAATCAA
852864 GTTCAATTCA
Statistics
Matches: 137, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
88 134 0.98
89 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (89 bp):
TCCCCTAAAGAGTAGTGGAGCAGATTCTTTCTTATTTCAGATTTGGTCTTCCTGAAGAGCAGTGA
AGCAAATCAATCTCGAGCCTCATC
Found at i:853360 original size:20 final size:19
Alignment explanation
Indices: 853341--853438 Score: 64
Period size: 19 Copynumber: 5.4 Consensus size: 19
853331 TAGTTTTATA
853341 AAATATAATTTTGAAATAT
1 AAATATAATTTTGAAATAT
* *
853360 --ATAT-A-TAT-ATATAT
1 AAATATAATTTTGAAATAT
* * *
853374 AAATATAGTTTTAAAAAAT
1 AAATATAATTTTGAAATAT
* *
853393 ATATATAGTTTTGAAA-AT
1 AAATATAATTTTGAAATAT
853411 AAATATATAATTTTGAAATAT
1 -AA-ATATAATTTTGAAATAT
*
853432 ATATATA
1 AAATATA
853439 TATATATATT
Statistics
Matches: 60, Mismatches: 11, Indels: 16
0.69 0.13 0.18
Matches are distributed among these distances:
14 5 0.08
15 2 0.03
16 5 0.08
17 4 0.07
18 4 0.07
19 24 0.40
20 14 0.23
21 2 0.03
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (19 bp):
AAATATAATTTTGAAATAT
Found at i:853381 original size:74 final size:72
Alignment explanation
Indices: 853338--853488 Score: 227
Period size: 71 Copynumber: 2.1 Consensus size: 72
853328 GTATAGTTTT
853338 ATAAA-ATATAATTTTGAAATATATATATATATATATAAATATAGTTTTAAAAAATATATATAGT
1 ATAAATATATAATTTTGAAATATATATATATATATATAAATATAGTTTTAAAAAATATATATAGT
853402 TTTGAAA
66 TTTGAAA
* *
853409 ATAAATATATAATTTTGAAATATATATATATATATAT-ATTATAGTTTGAAAATAA-ATATATAG
1 ATAAATATATAATTTTGAAATATATATATATATATATAAATATAGTTTTAAAA-AATATATATAG
* *
853472 TATTAAAA
65 TTTTGAAA
*
853480 ATATATATA
1 ATAAATATA
853489 GATATATAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
71 40 0.55
72 33 0.45
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.42
Consensus pattern (72 bp):
ATAAATATATAATTTTGAAATATATATATATATATATAAATATAGTTTTAAAAAATATATATAGT
TTTGAAA
Found at i:853400 original size:19 final size:18
Alignment explanation
Indices: 853376--853489 Score: 83
Period size: 19 Copynumber: 6.3 Consensus size: 18
853366 ATATATATAA
853376 ATATAGTTTTAAAAAATAT
1 ATATAGTTTT-AAAAATAT
*
853395 ATATAGTTTTGAAAATAAAT
1 ATATAGTTTT-AAAA-ATAT
* *
853415 ATATAATTTT-GAAATAT
1 ATATAGTTTTAAAAATAT
* * *
853432 ATATA--TATATATATAT
1 ATATAGTTTTAAAAATAT
* *
853448 -TATAGTTTGAAAATAAAT
1 ATATAGTTTTAAAA-ATAT
*
853466 ATATAGTATTAAAAATAT
1 ATATAGTTTTAAAAATAT
853484 ATATAG
1 ATATAG
853490 ATATATAATA
Statistics
Matches: 73, Mismatches: 16, Indels: 13
0.72 0.16 0.13
Matches are distributed among these distances:
15 6 0.08
16 5 0.07
17 11 0.15
18 14 0.19
19 25 0.34
20 12 0.16
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (18 bp):
ATATAGTTTTAAAAATAT
Found at i:853533 original size:3 final size:3
Alignment explanation
Indices: 853519--853550 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
853509 GTTTTGAAAG
*
853519 ATT ATT AGT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
853551 ATTTATTTGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:853534 original size:58 final size:54
Alignment explanation
Indices: 853391--853517 Score: 154
Period size: 51 Copynumber: 2.3 Consensus size: 54
853381 GTTTTAAAAA
* **
853391 ATATA-TATAGTTTTGAAAATAAATATATAAT-TTTGAAATATATAT--ATATAT
1 ATATATTATAG-TTTGAAAATAAATATATAGTATTAAAAATATATATAGATATAT
853442 ATATATTATAGTTTGAAAATAAATATATAGTATTAAAAATATATATAGATATAT
1 ATATATTATAGTTTGAAAATAAATATATAGTATTAAAAATATATATAGATATAT
853496 AATATAATTTATAGTTTTGAAA
1 -ATAT-A-TTATAG-TTTGAAA
853518 GATTATTAGT
Statistics
Matches: 65, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
51 24 0.37
52 17 0.26
54 6 0.09
55 4 0.06
56 1 0.02
57 6 0.09
58 7 0.11
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (54 bp):
ATATATTATAGTTTGAAAATAAATATATAGTATTAAAAATATATATAGATATAT
Found at i:854146 original size:18 final size:18
Alignment explanation
Indices: 854097--854148 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 18
854087 AAAAAAAAAA
*
854097 CAACTAAAACAA-AACAT
1 CAACTACAACAACAACAT
854114 CAAC--C-A-AAC-ACAT
1 CAACTACAACAACAACAT
854127 CAACTACAACAACAACAT
1 CAACTACAACAACAACAT
854145 CAAC
1 CAAC
854149 CAAACAACCA
Statistics
Matches: 28, Mismatches: 1, Indels: 11
0.70 0.03 0.28
Matches are distributed among these distances:
13 10 0.36
14 1 0.04
15 1 0.04
16 1 0.04
17 7 0.25
18 8 0.29
ACGTcount: A:0.58, C:0.33, G:0.00, T:0.10
Consensus pattern (18 bp):
CAACTACAACAACAACAT
Found at i:854147 original size:31 final size:30
Alignment explanation
Indices: 854097--854154 Score: 98
Period size: 31 Copynumber: 1.9 Consensus size: 30
854087 AAAAAAAAAA
854097 CAACTAAAACAAAACATCAACCAAACACAT
1 CAACTAAAACAAAACATCAACCAAACACAT
*
854127 CAACTACAACAACAACATCAACCAAACA
1 CAACTAAAACAA-AACATCAACCAAACA
854155 ACCACGAGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.59, C:0.33, G:0.00, T:0.09
Consensus pattern (30 bp):
CAACTAAAACAAAACATCAACCAAACACAT
Found at i:858121 original size:24 final size:24
Alignment explanation
Indices: 858055--858121 Score: 57
Period size: 24 Copynumber: 2.8 Consensus size: 24
858045 CTTTTCTAAC
* *
858055 ATCTGATCTGAAATATGTTCTGAT
1 ATCTGATCTGAATTATGTTATGAT
* * *
858079 -TCCTAACCT-AGATTCTGTTATGAT
1 AT-CTGATCTGA-ATTATGTTATGAT
858103 ATCTGATCTGAATTATGTT
1 ATCTGATCTGAATTATGTT
858122 TTGTTTTCTG
Statistics
Matches: 31, Mismatches: 8, Indels: 8
0.66 0.17 0.17
Matches are distributed among these distances:
23 2 0.06
24 27 0.87
25 2 0.06
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (24 bp):
ATCTGATCTGAATTATGTTATGAT
Found at i:863263 original size:16 final size:15
Alignment explanation
Indices: 863244--863273 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
863234 TAAATGAATG
863244 TATGTATGAATGCATA
1 TATGTATG-ATGCATA
863260 TATGTATGATGCAT
1 TATGTATGATGCAT
863274 GTACTATGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (15 bp):
TATGTATGATGCATA
Found at i:863761 original size:30 final size:29
Alignment explanation
Indices: 863704--863766 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
863694 TAAAGTTTGA
* * *
863704 AAAAGTTTAAGAATCAAAAGGGTAATTTTC
1 AAAAGTTTAAGAAT-AAAAAGGAAAATTTC
* *
863734 AAAAGTTTAAGTATAAAAAGTAAAATTTC
1 AAAAGTTTAAGAATAAAAAGGAAAATTTC
863763 AAAA
1 AAAA
863767 AATTAGGTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 15 0.54
30 13 0.46
ACGTcount: A:0.54, C:0.05, G:0.13, T:0.29
Consensus pattern (29 bp):
AAAAGTTTAAGAATAAAAAGGAAAATTTC
Found at i:873459 original size:11 final size:11
Alignment explanation
Indices: 873443--873474 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
873433 TTTTTCTTTT
873443 ATTATTTTCTG
1 ATTATTTTCTG
873454 ATTATTTTCTG
1 ATTATTTTCTG
*
873465 ATTTTTTTCT
1 ATTATTTTCT
873475 TTTCTTTCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.09, G:0.06, T:0.69
Consensus pattern (11 bp):
ATTATTTTCTG
Found at i:874532 original size:26 final size:23
Alignment explanation
Indices: 874481--874532 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 23
874471 GGAATATTAT
*
874481 TAATAAAGGAAGAATAAATGTAA
1 TAATAAAGGAAGAATAAATGAAA
*
874504 TAATAAAGATAAGAAATGAAATGAAA
1 TAATAAAG-GAAG-AAT-AAATGAAA
874530 TAA
1 TAA
874533 AGATGGGATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
24 3 0.12
25 3 0.12
26 10 0.42
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.21
Consensus pattern (23 bp):
TAATAAAGGAAGAATAAATGAAA
Found at i:877712 original size:19 final size:19
Alignment explanation
Indices: 877684--877721 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
877674 TGACATCGGC
*
877684 GAGAGGAAGTAGAGAGGAA
1 GAGAGAAAGTAGAGAGGAA
*
877703 GAGAGAAAGTTGAGAGGAA
1 GAGAGAAAGTAGAGAGGAA
877722 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.45, T:0.08
Consensus pattern (19 bp):
GAGAGAAAGTAGAGAGGAA
Found at i:878029 original size:32 final size:34
Alignment explanation
Indices: 877992--878125 Score: 163
Period size: 32 Copynumber: 4.1 Consensus size: 34
877982 ACTAACTTAA
* *
877992 TAACATTTTAAC-TTTTA-TTTTATTGTTCATAT
1 TAACATTCTAACTTTTTATTTTTATTGTTCATAC
878024 TAACATTCTAACTTTTTATTTTTATTGTTCATAC
1 TAACATTCTAACTTTTTATTTTTATTGTTCATAC
*
878058 TAACA--CTAACTTTTTATTTTTATTGTTCTTAC
1 TAACATTCTAACTTTTTATTTTTATTGTTCATAC
* * *
878090 TAAC-TTACTAACATTTTA-TTTTATTGTACAAAC
1 TAACATT-CTAACTTTTTATTTTTATTGTTCATAC
878123 TAA
1 TAA
878126 ACCACTAATT
Statistics
Matches: 90, Mismatches: 7, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
32 41 0.46
33 20 0.22
34 29 0.32
ACGTcount: A:0.30, C:0.13, G:0.03, T:0.54
Consensus pattern (34 bp):
TAACATTCTAACTTTTTATTTTTATTGTTCATAC
Found at i:878062 original size:66 final size:65
Alignment explanation
Indices: 878000--878125 Score: 168
Period size: 66 Copynumber: 2.0 Consensus size: 65
877990 AATAACATTT
* * * *
878000 TAAC-TTTTA-TTTTATTGTTCATATTAACATT-CTAACTTTTTATTTTTATTGTTCATACTAAC
1 TAACTTTTTATTTTTATTGTTCATACTAAC-TTACTAACATTTTA-TTTTATTGTACAAACTAAC
878062 AC
64 AC
*
878064 TAACTTTTTATTTTTATTGTTCTTACTAACTTACTAACATTTTATTTTATTGTACAAACTAA
1 TAACTTTTTATTTTTATTGTTCATACTAACTTACTAACATTTTATTTTATTGTACAAACTAA
878126 ACCACTAATT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
64 4 0.07
65 23 0.43
66 27 0.50
ACGTcount: A:0.29, C:0.13, G:0.03, T:0.54
Consensus pattern (65 bp):
TAACTTTTTATTTTTATTGTTCATACTAACTTACTAACATTTTATTTTATTGTACAAACTAACAC
Found at i:879107 original size:5 final size:5
Alignment explanation
Indices: 879100--879149 Score: 64
Period size: 5 Copynumber: 9.8 Consensus size: 5
879090 TATTATCTTG
* * *
879100 TTTTG TTTTA TTTTA TTTTA TCTCA TTTTTA TTTTA TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTT
879150 TGCCTTTGAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
5 36 0.92
6 3 0.08
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (5 bp):
TTTTA
Found at i:879131 original size:16 final size:15
Alignment explanation
Indices: 879109--879149 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
879099 GTTTTGTTTT
879109 ATTTTATTTTATCTC
1 ATTTTATTTTATCTC
* *
879124 ATTTTTATTTTATTTT
1 A-TTTTATTTTATCTC
879140 ATTTTATTTT
1 ATTTTATTTT
879150 TGCCTTTGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.20, C:0.05, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTATTTTATCTC
Found at i:879131 original size:21 final size:21
Alignment explanation
Indices: 879105--879150 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
879095 TCTTGTTTTG
879105 TTTTATTTTATTTTATCTCAT
1 TTTTATTTTATTTTATCTCAT
* *
879126 TTTTATTTTATTTTATTTTAT
1 TTTTATTTTATTTTATCTCAT
879147 TTTT
1 TTTT
879151 GCCTTTGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTTTATTTTATCTCAT
Found at i:890684 original size:23 final size:23
Alignment explanation
Indices: 890654--890708 Score: 85
Period size: 23 Copynumber: 2.4 Consensus size: 23
890644 GAAGAAAATG
890654 AAAAGAAAAAAATGA-AAAATGAA
1 AAAAGAAAAAAATGACAAAAT-AA
*
890677 AAAAGAAAAAAATGACAAAATAG
1 AAAAGAAAAAAATGACAAAATAA
890700 AAAAGAAAA
1 AAAAGAAAA
890709 TTGGGGATCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 25 0.83
24 5 0.17
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (23 bp):
AAAAGAAAAAAATGACAAAATAA
Found at i:890687 original size:16 final size:18
Alignment explanation
Indices: 890668--890703 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
890658 GAAAAAAATG
890668 AAAAATGA-AAAA-AGAA
1 AAAAATGACAAAATAGAA
890684 AAAAATGACAAAATAGAA
1 AAAAATGACAAAATAGAA
890702 AA
1 AA
890704 GAAAATTGGG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
17 4 0.22
18 6 0.33
ACGTcount: A:0.78, C:0.03, G:0.11, T:0.08
Consensus pattern (18 bp):
AAAAATGACAAAATAGAA
Found at i:893167 original size:34 final size:33
Alignment explanation
Indices: 893103--893233 Score: 167
Period size: 34 Copynumber: 3.9 Consensus size: 33
893093 TAATAACTCA
* *
893103 CTTACTAACCTTTTAAC-TTTTATTTTATTGTT
1 CTTACTAACATTCTAACTTTTTATTTTATTGTT
*
893135 CTTATTAACATTCTAACTTTTTATTTTTATTGTT
1 CTTACTAACATTCTAACTTTTTA-TTTTATTGTT
*
893169 CATACTAACATTCTAACTTTTTATTTTTATTGTT
1 CTTACTAACATTCTAACTTTTTA-TTTTATTGTT
* *
893203 CTTACTAAC-TTAGTAACATTTTATTTTATTG
1 CTTACTAACATT-CTAACTTTTTATTTTATTG
893234 CACAAACTAA
Statistics
Matches: 88, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
32 14 0.16
33 15 0.17
34 59 0.67
ACGTcount: A:0.25, C:0.14, G:0.04, T:0.57
Consensus pattern (33 bp):
CTTACTAACATTCTAACTTTTTATTTTATTGTT
Found at i:893745 original size:54 final size:54
Alignment explanation
Indices: 893685--893794 Score: 220
Period size: 54 Copynumber: 2.0 Consensus size: 54
893675 TCCTTAATTC
893685 ATATCATGGTGCCTTTGACTTCCCACTATAACTTTTTAAAACTACCTCATTTAT
1 ATATCATGGTGCCTTTGACTTCCCACTATAACTTTTTAAAACTACCTCATTTAT
893739 ATATCATGGTGCCTTTGACTTCCCACTATAACTTTTTAAAACTACCTCATTTAT
1 ATATCATGGTGCCTTTGACTTCCCACTATAACTTTTTAAAACTACCTCATTTAT
893793 AT
1 AT
893795 GTTCACATTA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.28, C:0.24, G:0.07, T:0.41
Consensus pattern (54 bp):
ATATCATGGTGCCTTTGACTTCCCACTATAACTTTTTAAAACTACCTCATTTAT
Done.