Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_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: 13158977
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 64
Found at i:1485130 original size:18 final size:18
Alignment explanation
Indices: 1485107--1485141 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1485097 GCGATGGCGG
1485107 CATCATATATGGATGCGA
1 CATCATATATGGATGCGA
*
1485125 CATCATATATGGCTGCG
1 CATCATATATGGATGCG
1485142 GTGGCTGCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.29
Consensus pattern (18 bp):
CATCATATATGGATGCGA
Found at i:1486844 original size:110 final size:111
Alignment explanation
Indices: 1486650--1486870 Score: 372
Period size: 110 Copynumber: 2.0 Consensus size: 111
1486640 ATTACAAAAA
* * * *
1486650 TTAATTCTTAATCTAATAATCATGCATTAAATGAATCAAATAATTATTAATAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAAATAAATATTAATAATAATTTAAATTA
*
1486715 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTCGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
* *
1486761 TTAATTATTAATATAATAATCATGCATTAAATAAAT-AACTAAATATTACTAATAATTTAAATTA
1 TTAATTATTAATATAATAATCATGCATTAAATAAATCAAATAAATATTAATAATAATTTAAATTA
1486825 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
66 AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
1486871 AAGATTTCCA
Statistics
Matches: 103, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
110 70 0.68
111 33 0.32
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.36
Consensus pattern (111 bp):
TTAATTATTAATATAATAATCATGCATTAAATAAATCAAATAAATATTAATAATAATTTAAATTA
AATTAAAACGTTAAAATGTTACCGTATCAGCAAAGTGTAGAGATAT
Found at i:1487162 original size:50 final size:49
Alignment explanation
Indices: 1487108--1487222 Score: 119
Period size: 50 Copynumber: 2.3 Consensus size: 49
1487098 CCTGCACCGA
* * *
1487108 GCTATACCCCACGTGT-CAGATATACTGGTATAGCGCGCTGCAAGG-GCCGC
1 GCTATACCCCACGTGTCCAGAT-CACT-ATATAGCGCGATGC-AGGAGCCGC
* *
1487158 GCTATA-CCCACGTGGTGCCAGCTCACTATATAGCGCGATGCAGGAGGCGC
1 GCTATACCCCACGT-GT-CCAGATCACTATATAGCGCGATGCAGGAGCCGC
1487208 GCTATACCCCACGTG
1 GCTATACCCCACGTG
1487223 GCGCCAAATC
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
49 10 0.18
50 31 0.56
51 10 0.18
52 4 0.07
ACGTcount: A:0.22, C:0.31, G:0.28, T:0.19
Consensus pattern (49 bp):
GCTATACCCCACGTGTCCAGATCACTATATAGCGCGATGCAGGAGCCGC
Found at i:1487242 original size:51 final size:49
Alignment explanation
Indices: 1487135--1487261 Score: 132
Period size: 51 Copynumber: 2.5 Consensus size: 49
1487125 AGATATACTG
* * * **
1487135 GTATAGCGCGCTGCAAGGGCCGCGCTATACCCACGTGGTGCCAGCTCACT
1 GTATAGCGCGATGC-AGGGGCGCGCTATACCCACGTGGCGCCAAATCACT
*
1487185 ATATAGCGCGATGCAGGAGGCGCGCTATACCCCACGTGGCGCCAAATCA-T
1 GTATAGCGCGATGCAGG-GGCGCGCTATA-CCCACGTGGCGCCAAATCACT
1487235 CGTATAGCGC-AGTGCAGGGGGCGCGCT
1 -GTATAGCGCGA-TGCA-GGGGCGCGCT
1487262 TTACTGCTAA
Statistics
Matches: 65, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
49 3 0.05
50 24 0.37
51 36 0.55
52 2 0.03
ACGTcount: A:0.20, C:0.31, G:0.32, T:0.17
Consensus pattern (49 bp):
GTATAGCGCGATGCAGGGGCGCGCTATACCCACGTGGCGCCAAATCACT
Found at i:1488839 original size:22 final size:22
Alignment explanation
Indices: 1488814--1488859 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
1488804 AATAATAAAT
*
1488814 TATTTAAAAATAAATCAATTCA
1 TATTTAAAAATAAATCAATACA
*
1488836 TATTTTAAAATAAATCAATACA
1 TATTTAAAAATAAATCAATACA
1488858 TA
1 TA
1488860 CTAATAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.54, C:0.09, G:0.00, T:0.37
Consensus pattern (22 bp):
TATTTAAAAATAAATCAATACA
Found at i:1488868 original size:22 final size:22
Alignment explanation
Indices: 1488820--1488867 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
1488810 AAATTATTTA
* **
1488820 AAAATAAATCAATTCATATTTT
1 AAAATAAATCAATACATATAAT
1488842 AAAATAAATCAATACATACTAAT
1 AAAATAAATCAATACATA-TAAT
1488865 AAA
1 AAA
1488868 TTATTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.31
Consensus pattern (22 bp):
AAAATAAATCAATACATATAAT
Found at i:1488875 original size:32 final size:32
Alignment explanation
Indices: 1488839--1489353 Score: 213
Period size: 32 Copynumber: 17.7 Consensus size: 32
1488829 CAATTCATAT
*
1488839 TTTAAAATAAATCAATACATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1488871 TTTAAAATAAATCAATCCATAC-AACT--A-TA
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* * **
1488900 ---ATAATAAATCAATCGATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* *
1488926 --T-AAATTAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1488955 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1488987 TTTAAAATAAATC-AT---T-C--AT--ATT-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1489009 TTAAAA-T-AATCAATCCATACTAAT-AATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1489038 TTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
** *
1489068 --T--AATAAATCAATCCATA-TTTTAAAATA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
* * ** * * *
1489095 -ATAAATCGATACTAATAATTATTTAAAATAAATCAATCATA
1 TTTAAA---ATA--AATCA--ATCCATACT-AATAAAT--TA
* * *
1489136 TTTTAAATAAATCAATAC-TAATAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1489167 TTTAAAAT-AATCAATCCATAC-AACTACA--A
1 TTTAAAATAAATCAATCCATACTAA-TAAATTA
* **
1489196 --T--AATAAATCAATCTATA-TTTTAAA--A
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1489221 -------TAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1489246 TTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1489278 TTTAAAATAAATCAAT-C---C--AT--A-T-
1 TTTAAAATAAATCAATCCATACTAATAAATTA
*
1489300 TTTAAAATAAATCAATCTATACTAATAAATTA
1 TTTAAAATAAATCAATCCATACTAATAAATTA
1489332 TTTAAAATAAATCAATCCATAC
1 TTTAAAATAAATCAATCCATAC
1489354 AACTACAATA
Statistics
Matches: 370, Mismatches: 47, Indels: 132
0.67 0.09 0.24
Matches are distributed among these distances:
20 4 0.01
21 3 0.01
22 35 0.09
23 9 0.02
24 2 0.01
25 15 0.04
26 61 0.16
27 10 0.03
28 9 0.02
29 9 0.02
30 17 0.05
31 35 0.09
32 123 0.33
33 9 0.02
34 3 0.01
35 6 0.02
37 8 0.02
38 1 0.00
39 6 0.02
41 2 0.01
42 3 0.01
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (32 bp):
TTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:1488952 original size:26 final size:26
Alignment explanation
Indices: 1488875--1489084 Score: 81
Period size: 26 Copynumber: 7.7 Consensus size: 26
1488865 AAATTATTTA
*
1488875 AAATAAATCAATCCATACAACTATAAT
1 AAATAAATCAATCCATACAAATA-AAT
* ***
1488902 -AATAAATCAATCGATA-TTTTAAAAT
1 AAATAAATCAATCCATACAAAT-AAAT
*
1488927 AAATTAATCAATCCATACAAATAAATTATTT
1 AAATAAATCAATCCATACAAAT-AA--A--T
*
1488958 AAAATAAATCAATCCATACTAATAAATT
1 -AAATAAATCAATCCATACAAATAAA-T
** * * * **
1488986 ATTTAAAATAAAT-CATTCATAT-TTT
1 AAAT-AAATCAATCCATACAAATAAAT
*
1489011 AAA-ATAATCAATCCATACTAATAATTATTT
1 AAATA-AATCAATCCATACAAATAA--A--T
*
1489041 AAAATAAATCAATCCATACAACTACAAT
1 -AAATAAATCAATCCATACAAATA-AAT
1489069 -AATAAATCAATCCATA
1 AAATAAATCAATCCATA
1489085 TTTTAAAATA
Statistics
Matches: 135, Mismatches: 29, Indels: 39
0.67 0.14 0.19
Matches are distributed among these distances:
23 1 0.01
24 6 0.04
25 12 0.09
26 46 0.34
27 12 0.09
28 10 0.07
29 2 0.01
30 2 0.01
31 22 0.16
32 22 0.16
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.32
Consensus pattern (26 bp):
AAATAAATCAATCCATACAAATAAAT
Found at i:1488960 original size:84 final size:80
Alignment explanation
Indices: 1488822--1489132 Score: 379
Period size: 84 Copynumber: 3.8 Consensus size: 80
1488812 ATTATTTAAA
*
1488822 AATAAATCAATTCATATTTTAAAAT-A-AATCAATACATACTAATAAATTATTTAAAATAAATCA
1 AATAAATCAA-TCATATTTTAAAATAATAATCAATCCATACTAAT-AATTATTTAAAATAAATCA
1488885 ATCCATACAACTATAAT
64 ATCCATACAACTATAAT
*
1488902 AATAAATCAATCGATATTTTAAAATAAATTAATCAATCCATACAAATAAATTATTTAAAATAAAT
1 AATAAATCAATC-ATATTTTAAAAT-AA-TAATCAATCCATACTAAT-AATTATTTAAAATAAAT
*
1488967 CAATCCATACTAA-TAAATTATTTAA
62 CAATCCATAC-AACT--A-TA---AT
*
1488992 AATAAATCATTCATATTTT--AA-AATAATCAATCCATACTAATAATTATTTAAAATAAATCAAT
1 AATAAATCAATCATATTTTAAAATAATAATCAATCCATACTAATAATTATTTAAAATAAATCAAT
*
1489054 CCATACAACTACAAT
66 CCATACAACTATAAT
*
1489069 AATAAATCAATCCATATTTTAAAATAAT-A--AATCGATACTAATAATTATTTAAAATAAATCAA
1 AATAAATCAAT-CATATTTTAAAATAATAATCAATCCATACTAATAATTATTTAAAATAAATCAA
1489131 TC
65 TC
1489133 ATATTTTAAA
Statistics
Matches: 205, Mismatches: 9, Indels: 36
0.82 0.04 0.14
Matches are distributed among these distances:
77 11 0.05
78 42 0.20
79 2 0.01
80 26 0.13
81 4 0.02
82 3 0.01
83 28 0.14
84 61 0.30
85 4 0.02
86 1 0.00
87 4 0.02
89 7 0.03
90 12 0.06
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.34
Consensus pattern (80 bp):
AATAAATCAATCATATTTTAAAATAATAATCAATCCATACTAATAATTATTTAAAATAAATCAAT
CCATACAACTATAAT
Found at i:1489027 original size:21 final size:21
Alignment explanation
Indices: 1488987--1489027 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1488977 TAATAAATTA
*
1488987 TTTAAAATAAATCATTCATAT
1 TTTAAAATAAATCATCCATAT
1489008 TTTAAAAT-AATCAATCCATA
1 TTTAAAATAAATC-ATCCATA
1489028 CTAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.49, C:0.12, G:0.00, T:0.39
Consensus pattern (21 bp):
TTTAAAATAAATCATCCATAT
Found at i:1489051 original size:167 final size:165
Alignment explanation
Indices: 1488806--1489132 Score: 527
Period size: 167 Copynumber: 2.0 Consensus size: 165
1488796 ACAACTACAA
1488806 TAATAAATTATTTAAAAATAAATCAATTCATATTTTAAAATAAATCAATACATACTAATAAATTA
1 TAATAAATTATTTAAAAATAAATCAATTCATATTTTAAAATAAATCAATACATACTAATAAATTA
* *
1488871 TTTAAAATAAATCAATCCATACAACTATAATAATAAATCAATCGATATTTTAAAATAAATTAATC
66 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAAT-AA-T-A--
1488936 AATCCATACAAATAAATTATTTAAAATAAATCAATCCATAC
126 AATCCATACAAAT-AATTATTTAAAATAAATCAATCCATAC
*
1488977 TAATAAATTATTT-AAAATAAATC-ATTCATATTTTAAAAT-AATCAATCCATACTAAT-AATTA
1 TAATAAATTATTTAAAAATAAATCAATTCATATTTTAAAATAAATCAATACATACTAATAAATTA
*
1489038 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAATAAATCG
66 TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAATAAATCC
*
1489103 ATACTAATAATTATTTAAAATAAATCAATC
131 ATACAAATAATTATTTAAAATAAATCAATC
1489133 ATATTTTAAA
Statistics
Matches: 151, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
161 22 0.15
162 11 0.07
164 1 0.01
165 1 0.01
166 2 0.01
167 59 0.39
168 16 0.11
169 16 0.11
170 10 0.07
171 13 0.09
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.35
Consensus pattern (165 bp):
TAATAAATTATTTAAAAATAAATCAATTCATATTTTAAAATAAATCAATACATACTAATAAATTA
TTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAATAAATCC
ATACAAATAATTATTTAAAATAAATCAATCCATAC
Found at i:1489128 original size:129 final size:130
Alignment explanation
Indices: 1488955--1489262 Score: 498
Period size: 129 Copynumber: 2.4 Consensus size: 130
1488945 AAATAAATTA
*
1488955 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCATTCATATTTTAAA-ATAAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATATTTTAAATA-AAT
* *
1489019 CAATCCATACTAAT-AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCA
65 CAATAC-TAATAATAAATTATTTAAAAT-AATCAATCCATACAACTACAATAATAAATCAATCCA
1489083 TAT
128 TAT
* *
1489086 TTTAAAAT-AATAAATCGATACTAAT-AATTATTTAAAATAAATCAATCATATTTTAAATAAATC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATATTTTAAATAAATC
*
1489149 AATACTAATAATAAATTATTTAAAATAATCAATCCATACAACTACAATAATAAATCAATCTATAT
66 AATACTAATAATAAATTATTTAAAATAATCAATCCATACAACTACAATAATAAATCAATCCATAT
*
1489214 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATC
1489263 CATACTAATA
Statistics
Matches: 165, Mismatches: 8, Indels: 9
0.91 0.04 0.05
Matches are distributed among these distances:
128 52 0.32
129 67 0.41
130 38 0.23
131 8 0.05
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.35
Consensus pattern (130 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATATTTTAAATAAATC
AATACTAATAATAAATTATTTAAAATAATCAATCCATACAACTACAATAATAAATCAATCCATAT
Found at i:1489143 original size:20 final size:20
Alignment explanation
Indices: 1489114--1489151 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
1489104 TACTAATAAT
1489114 TATTTAAAATAAATCAATCA
1 TATTTAAAATAAATCAATCA
*
1489134 TATTTTAAATAAATCAAT
1 TATTTAAAATAAATCAAT
1489152 ACTAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (20 bp):
TATTTAAAATAAATCAATCA
Found at i:1489198 original size:86 final size:89
Alignment explanation
Indices: 1489108--1489365 Score: 354
Period size: 86 Copynumber: 3.1 Consensus size: 89
1489098 AATCGATACT
1489108 AATAATTATTTAAAATAAATCAATCATATTTT-AAATAAATCAATACTA-A-TAATAAATTATTT
1 AATAATTATTTAAAATAAATCAATCATATTTTAAAATAAATCAAT-CTATACTAATAAATTATTT
1489170 AAAAT-AATCAATCCATACAACTAC
65 AAAATAAATCAATCCATACAACTAC
*
1489194 AAT-A--A--T-AAATCAATC--T-ATATTTTAAAATAAATCAATCTATACTAATAAATTATTTA
1 AATAATTATTTAAAATAAATCAATCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTA
1489250 AAATAAATCAATCCAT---ACT--
66 AAATAAATCAATCCATACAACTAC
1489269 AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATT
1 AAT-AATTATTTAAAATAAATCAAT-CATATTTTAAAATAAATCAATCTATACTAATAAATTATT
1489334 TAAAATAAATCAATCCATACAACTAC
64 TAAAATAAATCAATCCATACAACTAC
1489360 AATAAT
1 AATAAT
1489366 AATTAATCCA
Statistics
Matches: 150, Mismatches: 2, Indels: 36
0.80 0.01 0.19
Matches are distributed among these distances:
75 3 0.02
77 14 0.09
78 14 0.09
79 19 0.13
80 19 0.13
81 2 0.01
82 8 0.05
83 1 0.01
84 1 0.01
85 1 0.01
86 59 0.39
89 3 0.02
90 3 0.02
91 3 0.02
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (89 bp):
AATAATTATTTAAAATAAATCAATCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTA
AAATAAATCAATCCATACAACTAC
Found at i:1489243 original size:22 final size:22
Alignment explanation
Indices: 1489197--1489242 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
1489187 CAACTACAAT
**
1489197 AATAAATCAATCTATATTTTAA
1 AATAAATCAATCTATATAATAA
1489219 AATAAATCAATCTATACTAATAA
1 AATAAATCAATCTATA-TAATAA
1489242 A
1 A
1489243 TTATTTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAAATCAATCTATATAATAA
Found at i:1489287 original size:128 final size:125
Alignment explanation
Indices: 1488955--1489321 Score: 407
Period size: 129 Copynumber: 2.8 Consensus size: 125
1488945 AAATAAATTA
* ** * *
1488955 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCATTCATATTTTAAAATAATC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATATAAT-AAATTATT
1489020 AATCCATACTAATAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA
65 AA---A-A-TAATAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA
1489085 T
125 T
* * *
1489086 TTTAAAAT-AATAAATCGATACTAAT-AATTATTTAAAATAAATCAATCATATTTTAAATAAATC
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATA---T-AATAAATT
* * *
1489149 AATACTAATAATAAATTATTTAAAAT-AATCAATCCATACAACTACAATAATAAATCAATCTATA
62 ATTA-AAATAAT-AATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA
1489213 T
125 T
*
1489214 TTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTAT
1 TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT-CATA-TAATAAATTA-
*
1489279 TTAAAATAAATCAATCCATATTTTAAAATAAATCAATCTATAC
63 TTAAAAT-AAT-AAT---TA-TTTAAAATAAATCAATCCATAC
1489322 TAATAAATTA
Statistics
Matches: 202, Mismatches: 18, Indels: 29
0.81 0.07 0.12
Matches are distributed among these distances:
128 61 0.30
129 62 0.31
130 37 0.18
131 12 0.06
132 9 0.04
133 9 0.04
134 12 0.06
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (125 bp):
TTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCATATAATAAATTATTA
AAATAATAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATAT
Found at i:1489304 original size:54 final size:54
Alignment explanation
Indices: 1489069--1489352 Score: 279
Period size: 54 Copynumber: 5.3 Consensus size: 54
1489059 CAACTACAAT
* *
1489069 AATAAATCAATCCATATTTTAAAAT-AATAAATCGATACTAAT-AATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
* *
1489121 AATAAATCAAT-CATATTTT-AAATAAATCAATAC-TAATAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*** * * *
1489172 AAT-AATCAATCCATACAACTACAAT-AATAAATCAAT-CT-AT--A-T-TTTAA
1 AATAAATCAATCCATA-TTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1489219 AATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1 AATAAATCAATC----C--AT--A-T-TTTAAAATAAATCAATCCATACTAATAAATTATTTAA
*
1489283 AATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAAATTATTTAA
1 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
1489337 AATAAATCAATCCATA
1 AATAAATCAATCCATA
1489353 CAACTACAAT
Statistics
Matches: 189, Mismatches: 20, Indels: 44
0.75 0.08 0.17
Matches are distributed among these distances:
47 8 0.04
48 9 0.05
49 1 0.01
50 17 0.09
51 33 0.17
52 20 0.11
53 4 0.02
54 54 0.29
55 1 0.01
56 2 0.01
57 5 0.03
58 11 0.06
59 2 0.01
60 3 0.02
62 1 0.01
63 1 0.01
64 17 0.09
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (54 bp):
AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAA
Found at i:1489329 original size:22 final size:22
Alignment explanation
Indices: 1489280--1489328 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1489270 ATAAATTATT
**
1489280 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
*
1489302 TAAAATAAATCAATCTATACTAA
1 TAAAATAAATCAATCCATA-TAA
1489325 TAAA
1 TAAA
1489329 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:1489426 original size:21 final size:21
Alignment explanation
Indices: 1489361--1489496 Score: 86
Period size: 21 Copynumber: 6.4 Consensus size: 21
1489351 TACAACTACA
*
1489361 ATAATAATTAATCCATATTTT
1 ATAATAATCAATCCATATTTT
1489382 A-AATAATC-ATCCAATAATTTATTTT
1 ATAATAATCAATCC----A--TATTTT
1489407 ATAATAATCAATCCATATTTT
1 ATAATAATCAATCCATATTTT
* * * *
1489428 AAAATAATCAATCGATA-CTA
1 ATAATAATCAATCCATATTTT
* * *
1489448 ATAATTATTTAA--AATATTTT
1 ATAA-TAATCAATCCATATTTT
1489468 A-AATAAATCAATCCATATTTT
1 ATAAT-AATCAATCCATATTTT
1489489 ATAATAAT
1 ATAATAAT
1489497 TTATTAAATA
Statistics
Matches: 87, Mismatches: 14, Indels: 28
0.67 0.11 0.22
Matches are distributed among these distances:
18 1 0.01
19 13 0.15
20 12 0.14
21 38 0.44
22 3 0.03
23 2 0.02
25 7 0.08
26 7 0.08
27 4 0.05
ACGTcount: A:0.47, C:0.10, G:0.01, T:0.42
Consensus pattern (21 bp):
ATAATAATCAATCCATATTTT
Found at i:1489524 original size:15 final size:15
Alignment explanation
Indices: 1489483--1489580 Score: 125
Period size: 15 Copynumber: 6.9 Consensus size: 15
1489473 AATCAATCCA
1489483 TATTTTATAAT-AAT
1 TATTTTATAATAAAT
*
1489497 T-TATTA-AAT-AAT
1 TATTTTATAATAAAT
*
1489509 TATTTTATAGTAAAT
1 TATTTTATAATAAAT
1489524 TATTTTA-AATAAAT
1 TATTTTATAATAAAT
*
1489538 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
1489553 TATTTTATAATAAAT
1 TATTTTATAATAAAT
*
1489568 TATTTTAAAATAA
1 TATTTTATAATAA
1489581 CCTTATTAAA
Statistics
Matches: 74, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
12 7 0.09
13 8 0.11
14 16 0.22
15 43 0.58
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
TATTTTATAATAAAT
Found at i:1489543 original size:29 final size:29
Alignment explanation
Indices: 1489483--1489580 Score: 130
Period size: 29 Copynumber: 3.4 Consensus size: 29
1489473 AATCAATCCA
*
1489483 TATTTTATAAT-AATT-TATTAAAT-AAT
1 TATTTTATAATAAATTATTTTAAATAAAT
*
1489509 TATTTTATAGTAAATTATTTTAAATAAAT
1 TATTTTATAATAAATTATTTTAAATAAAT
*
1489538 TATTTTAAAATAAATTATTTTATAATAAAT
1 TATTTTATAATAAATTATTTTA-AATAAAT
*
1489568 TATTTTAAAATAA
1 TATTTTATAATAA
1489581 CCTTATTAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
26 10 0.16
27 4 0.06
28 7 0.11
29 23 0.36
30 20 0.31
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (29 bp):
TATTTTATAATAAATTATTTTAAATAAAT
Found at i:1489590 original size:44 final size:42
Alignment explanation
Indices: 1489483--1489590 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 42
1489473 AATCAATCCA
* * *
1489483 TATTTTATAATAATTTATT-AAATAATTATTTTATAGTAAAT
1 TATTTTAAAATAAATTATTAAAATAATTATTTTATAATAAAT
1489524 TATTTT-AAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
1 TATTTTAAAATAAATTA--TTAAAAT-AATTATTTTATAATAAAT
*
1489568 TATTTTAAAATAACCTTATTAAA
1 TATTTTAAAATAA-ATTATTAAA
1489591 TTATTTAAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
40 8 0.14
41 6 0.11
42 2 0.04
43 4 0.07
44 28 0.49
45 6 0.11
46 3 0.05
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (42 bp):
TATTTTAAAATAAATTATTAAAATAATTATTTTATAATAAAT
Found at i:1502100 original size:15 final size:16
Alignment explanation
Indices: 1502075--1502117 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 16
1502065 TACCATAAGG
1502075 AAGGAGTATCGATACC
1 AAGGAGTATCGATACC
1502091 AAGG-GTATCGATACC
1 AAGGAGTATCGATACC
* *
1502106 AGGGAATATCGA
1 AAGGAGTATCGA
1502118 AGCTAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 14 0.58
16 10 0.42
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (16 bp):
AAGGAGTATCGATACC
Found at i:1504973 original size:21 final size:22
Alignment explanation
Indices: 1504946--1505003 Score: 91
Period size: 21 Copynumber: 2.7 Consensus size: 22
1504936 TTCTGGGCTA
1504946 GGGGAATCGATACCCATTCAA-
1 GGGGAATCGATACCCATTCAAG
* *
1504967 TGGGAATCGGTACCCATTCAAG
1 GGGGAATCGATACCCATTCAAG
1504989 GGGGAATCGATACCC
1 GGGGAATCGATACCC
1505004 CCTCAACCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 19 0.59
22 13 0.41
ACGTcount: A:0.29, C:0.24, G:0.28, T:0.19
Consensus pattern (22 bp):
GGGGAATCGATACCCATTCAAG
Found at i:1506732 original size:24 final size:24
Alignment explanation
Indices: 1506701--1506778 Score: 113
Period size: 24 Copynumber: 3.2 Consensus size: 24
1506691 AAAGGAATTT
*
1506701 TTCTATGTGGTCCTTCTGGACAAA
1 TTCTATGTGGTCCTTCGGGACAAA
1506725 TTCTATGTGGTCCTTCGGGACAAA
1 TTCTATGTGGTCCTTCGGGACAAA
*
1506749 TTCTACGCT-GTCCTTCGGGACAAAA
1 TTCTATG-TGGTCCTTCGGGAC-AAA
1506774 TTCTA
1 TTCTA
1506779 CGCGGCACTT
Statistics
Matches: 50, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
24 41 0.82
25 9 0.18
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.35
Consensus pattern (24 bp):
TTCTATGTGGTCCTTCGGGACAAA
Found at i:1506789 original size:25 final size:24
Alignment explanation
Indices: 1506712--1506789 Score: 88
Period size: 24 Copynumber: 3.2 Consensus size: 24
1506702 TCTATGTGGT
* *
1506712 CCTTCTGGACAAATTCTATG-TGG
1 CCTTCGGGACAAATTCTACGCTGG
*
1506735 TCCTTCGGGACAAATTCTACGCTGT
1 -CCTTCGGGACAAATTCTACGCTGG
1506760 CCTTCGGGACAAAATTCTACGC-GG
1 CCTTCGGGAC-AAATTCTACGCTGG
1506784 CACTTC
1 C-CTTC
1506790 AATGTAATTT
Statistics
Matches: 47, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
24 30 0.64
25 17 0.36
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (24 bp):
CCTTCGGGACAAATTCTACGCTGG
Found at i:1512450 original size:300 final size:300
Alignment explanation
Indices: 1511908--1512509 Score: 1204
Period size: 300 Copynumber: 2.0 Consensus size: 300
1511898 AAAAAGTATC
1511908 AAAGTGAAAAATAATTATGTAAAAAGCAGAAATAAAGAATACCATAAAACAAGATGAAAATAACA
1 AAAGTGAAAAATAATTATGTAAAAAGCAGAAATAAAGAATACCATAAAACAAGATGAAAATAACA
1511973 GGAAAACATTAAGATATTCAAATCAAAAGAAAGTAAGATTGCAAACCAGCAGAGAATCAAACGAA
66 GGAAAACATTAAGATATTCAAATCAAAAGAAAGTAAGATTGCAAACCAGCAGAGAATCAAACGAA
1512038 AAGTTTTGTGGAAACCGATCGTGGAAAAGATCCAGTCTAGGTTAAACTGGTGGAAAGGCAGAATC
131 AAGTTTTGTGGAAACCGATCGTGGAAAAGATCCAGTCTAGGTTAAACTGGTGGAAAGGCAGAATC
1512103 CTCTCTTTTGGTGGTAAATCTCAAAGATATGCATATATAAGATTATCAAAATGATAATATAAAAT
196 CTCTCTTTTGGTGGTAAATCTCAAAGATATGCATATATAAGATTATCAAAATGATAATATAAAAT
1512168 ATATTTTTGTTAACGGTGATAGTGATTGATCTTTATTATT
261 ATATTTTTGTTAACGGTGATAGTGATTGATCTTTATTATT
1512208 AAAGTGAAAAATAATTATGTAAAAAGCAGAAATAAAGAATACCATAAAACAAGATGAAAATAACA
1 AAAGTGAAAAATAATTATGTAAAAAGCAGAAATAAAGAATACCATAAAACAAGATGAAAATAACA
1512273 GGAAAACATTAAGATATTCAAATCAAAAGAAAGTAAGATTGCAAACCAGCAGAGAATCAAACGAA
66 GGAAAACATTAAGATATTCAAATCAAAAGAAAGTAAGATTGCAAACCAGCAGAGAATCAAACGAA
1512338 AAGTTTTGTGGAAACCGATCGTGGAAAAGATCCAGTCTAGGTTAAACTGGTGGAAAGGCAGAATC
131 AAGTTTTGTGGAAACCGATCGTGGAAAAGATCCAGTCTAGGTTAAACTGGTGGAAAGGCAGAATC
1512403 CTCTCTTTTGGTGGTAAATCTCAAAGATATGCATATATAAGATTATCAAAATGATAATATAAAAT
196 CTCTCTTTTGGTGGTAAATCTCAAAGATATGCATATATAAGATTATCAAAATGATAATATAAAAT
1512468 ATATTTTTGTTAACGGTGATAGTGATTGATCTTTATTATT
261 ATATTTTTGTTAACGGTGATAGTGATTGATCTTTATTATT
1512508 AA
1 AA
1512510 CTTTTTAACA
Statistics
Matches: 302, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
300 302 1.00
ACGTcount: A:0.45, C:0.11, G:0.18, T:0.27
Consensus pattern (300 bp):
AAAGTGAAAAATAATTATGTAAAAAGCAGAAATAAAGAATACCATAAAACAAGATGAAAATAACA
GGAAAACATTAAGATATTCAAATCAAAAGAAAGTAAGATTGCAAACCAGCAGAGAATCAAACGAA
AAGTTTTGTGGAAACCGATCGTGGAAAAGATCCAGTCTAGGTTAAACTGGTGGAAAGGCAGAATC
CTCTCTTTTGGTGGTAAATCTCAAAGATATGCATATATAAGATTATCAAAATGATAATATAAAAT
ATATTTTTGTTAACGGTGATAGTGATTGATCTTTATTATT
Found at i:1512694 original size:31 final size:31
Alignment explanation
Indices: 1512670--1512728 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
1512660 AATATATTTT
*
1512670 AAATATTCTTAATTATTTAGTAATAAACATC
1 AAATACTCTTAATTATTTAGTAATAAACATC
1512701 AAATACTCTTAATTATTTAGTAATAAAC
1 AAATACTCTTAATTATTTAGTAATAAAC
1512729 GTCCAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (31 bp):
AAATACTCTTAATTATTTAGTAATAAACATC
Found at i:1513606 original size:94 final size:94
Alignment explanation
Indices: 1513493--1513687 Score: 363
Period size: 94 Copynumber: 2.1 Consensus size: 94
1513483 GATTCGCCCA
* *
1513493 ATATAGTAACCAGAAATTAGACTAGTCCAAGATGGATTTGGCAATTTTAGACACAAAACAAATAG
1 ATATAGTAACCAGAAATTAGACTAGTCCAAGATGGATCTGGCAATTTTAGACACAAAACAAATAC
1513558 AACACGAATATACCAACATAATTACCACC
66 AACACGAATATACCAACATAATTACCACC
1513587 ATATAGTAACCAGAAATTAGACTAGTCCAAGATGGATCTGGCAATTTTAGACACAAAACAAATAC
1 ATATAGTAACCAGAAATTAGACTAGTCCAAGATGGATCTGGCAATTTTAGACACAAAACAAATAC
*
1513652 AACACGAATATACCAACATAATTTCCACC
66 AACACGAATATACCAACATAATTACCACC
1513681 ATATAGT
1 ATATAGT
1513688 TTCTTTAATG
Statistics
Matches: 98, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
94 98 1.00
ACGTcount: A:0.45, C:0.19, G:0.12, T:0.23
Consensus pattern (94 bp):
ATATAGTAACCAGAAATTAGACTAGTCCAAGATGGATCTGGCAATTTTAGACACAAAACAAATAC
AACACGAATATACCAACATAATTACCACC
Found at i:1516729 original size:16 final size:18
Alignment explanation
Indices: 1516687--1516730 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
1516677 TATTTTTATT
1516687 TAATAAAAAATAGAGATA
1 TAATAAAAAATAGAGATA
*
1516705 TAATTAAAAAATA-ATATA
1 TAA-TAAAAAATAGAGATA
1516723 TAA-AAAAA
1 TAATAAAAA
1516731 TACTATTATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
18 10 0.42
19 9 0.38
ACGTcount: A:0.70, C:0.00, G:0.05, T:0.25
Consensus pattern (18 bp):
TAATAAAAAATAGAGATA
Found at i:1520321 original size:14 final size:14
Alignment explanation
Indices: 1520302--1520342 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
1520292 TAACGGGAAT
1520302 TAATCCCTGCATAA
1 TAATCCCTGCATAA
*
1520316 TAATCCCTGCAAAA
1 TAATCCCTGCATAA
* *
1520330 GAATCTCTGCATA
1 TAATCCCTGCATA
1520343 TAAACAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (14 bp):
TAATCCCTGCATAA
Found at i:1525671 original size:12 final size:12
Alignment explanation
Indices: 1525629--1525671 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 12
1525619 AATAAACTAT
1525629 TTATAATTAATA
1 TTATAATTAATA
1525641 TTAAAATAATTATATA
1 TT---ATAATTA-ATA
1525657 TTATAATTAATA
1 TTATAATTAATA
1525669 TTA
1 TTA
1525672 ATATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
12 8 0.30
13 7 0.26
15 7 0.26
16 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
TTATAATTAATA
Found at i:1525699 original size:31 final size:28
Alignment explanation
Indices: 1525629--1525707 Score: 88
Period size: 28 Copynumber: 2.7 Consensus size: 28
1525619 AATAAACTAT
* *
1525629 TTATAATTAATATTAAAATAATTATATA
1 TTATAATTAATATTAATATAATAATATA
1525657 TTATAATTAATATTAATATAA-AATATA
1 TTATAATTAATATTAATATAATAATATA
*
1525684 GTCTATAAAATTAATATTACTATA
1 -T-TAT--AATTAATATTAATATA
1525708 GGCTATATGT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
27 5 0.11
28 21 0.48
29 3 0.07
31 15 0.34
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (28 bp):
TTATAATTAATATTAATATAATAATATA
Found at i:1525735 original size:21 final size:21
Alignment explanation
Indices: 1525710--1525771 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
1525700 TTACTATAGG
1525710 CTATATGTTATAAATTATATA
1 CTATATGTTATAAATTATATA
* *
1525731 GTATA-GTTTATAAACTATATA
1 CTATATG-TTATAAATTATATA
1525752 CTATAT-TAATATAAATTATA
1 CTATATGT--TATAAATTATA
1525772 GTTAAAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
20 2 0.06
21 21 0.64
22 10 0.30
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (21 bp):
CTATATGTTATAAATTATATA
Found at i:1525758 original size:88 final size:89
Alignment explanation
Indices: 1525666--1525841 Score: 214
Period size: 88 Copynumber: 2.0 Consensus size: 89
1525656 ATTATAATTA
* * * ** *
1525666 ATATTAATATAAAATATAGTCTATAA-AATTAATATTACTATAGGCTATAT-GT-TATAAATTAT
1 ATATTAATATAAAATATAGT-TAAAATAATTAACATTAATATAAACTATATAGTACATAAA-TAT
* *
1525728 ATAGTATAGTTTATAAACTATATACT
64 AAACTATAGTTTATAAACTATATACT
* *
1525754 ATATTAATATAAATTATAGTTAAAATAATTAACATTAATATAAACTATATAGTACATTAATATAA
1 ATATTAATATAAAATATAGTTAAAATAATTAACATTAATATAAACTATATAGTACATAAATATAA
*
1525819 ACTATAGTTTATAAATTATATAC
66 ACTATAGTTTATAAACTATATAC
1525842 AATAGGTTAT
Statistics
Matches: 74, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
87 4 0.05
88 39 0.53
89 27 0.36
90 4 0.05
ACGTcount: A:0.48, C:0.06, G:0.05, T:0.41
Consensus pattern (89 bp):
ATATTAATATAAAATATAGTTAAAATAATTAACATTAATATAAACTATATAGTACATAAATATAA
ACTATAGTTTATAAACTATATACT
Found at i:1525771 original size:15 final size:15
Alignment explanation
Indices: 1525753--1525803 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
1525743 AACTATATAC
1525753 TATATTAATATAAAT
1 TATATTAATATAAAT
*
1525768 TATAGTTAAAAT-AAT
1 TATA-TTAATATAAAT
* *
1525783 TAACATTAATATAAAC
1 T-ATATTAATATAAAT
1525799 TATAT
1 TATAT
1525804 AGTACATTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
15 17 0.61
16 11 0.39
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (15 bp):
TATATTAATATAAAT
Found at i:1525966 original size:13 final size:13
Alignment explanation
Indices: 1525944--1525977 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
1525934 TTGTATATAC
1525944 ATATACTATAGGTT
1 ATATA-TATAGGTT
*
1525958 ATATATATAGTTT
1 ATATATATAGGTT
1525971 ATATATA
1 ATATATA
1525978 CTTTACATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (13 bp):
ATATATATAGGTT
Found at i:1526019 original size:55 final size:54
Alignment explanation
Indices: 1525894--1526026 Score: 187
Period size: 55 Copynumber: 2.4 Consensus size: 54
1525884 TTGCTTATAA
*
1525894 ACTATAGGTTACATATATAGTTTATATAACATATAATAGATTGTATATACATAT
1 ACTATAGGTTACATATATAGTTTATATAACATATAATAGATTGTACATACATAT
* * *
1525948 ACTATAGGTTATATATATAGTTTATATATAC-TTTACATAGTTTGTACATACATAT
1 ACTATAGGTTACATATATAGTTTATATA-ACATATA-ATAGATTGTACATACATAT
* *
1526003 ACTATAAGTTACATATATATTTTA
1 ACTATAGGTTACATATATAGTTTA
1526027 CATGTATACA
Statistics
Matches: 70, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
54 30 0.43
55 40 0.57
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (54 bp):
ACTATAGGTTACATATATAGTTTATATAACATATAATAGATTGTACATACATAT
Found at i:1526107 original size:7 final size:7
Alignment explanation
Indices: 1526095--1526134 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
1526085 GGTTTATAGA
1526095 TTAGGGT
1 TTAGGGT
1526102 TTAGGGT
1 TTAGGGT
* *
1526109 TTAAGAT
1 TTAGGGT
*
1526116 TTAAGGT
1 TTAGGGT
1526123 TTAGGGT
1 TTAGGGT
1526130 TTAGG
1 TTAGG
1526135 ATCTTTATAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (7 bp):
TTAGGGT
Found at i:1526109 original size:21 final size:21
Alignment explanation
Indices: 1526083--1526132 Score: 75
Period size: 21 Copynumber: 2.4 Consensus size: 21
1526073 CATAATGTTC
*
1526083 AGGGTTTATAGA-TTAGGGTTT
1 AGGGTTTA-AGATTTAAGGTTT
1526104 AGGGTTTAAGATTTAAGGTTT
1 AGGGTTTAAGATTTAAGGTTT
1526125 AGGGTTTA
1 AGGGTTTA
1526133 GGATCTTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 3 0.11
21 24 0.89
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (21 bp):
AGGGTTTAAGATTTAAGGTTT
Found at i:1526202 original size:2 final size:2
Alignment explanation
Indices: 1526195--1526222 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1526185 TTATGTAAAT
1526195 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
1526223 AACTATAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1526317 original size:20 final size:20
Alignment explanation
Indices: 1526263--1526317 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
1526253 GTTTATATAA
1526263 ATAGTATA-AAATATAGCAT
1 ATAGTATATAAATATAGCAT
* *
1526282 ATA-AATATAAACTATAGTAT
1 ATAGTATATAAA-TATAGCAT
*
1526302 GTAGTATATAAATATA
1 ATAGTATATAAATATA
1526318 AACTATAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
18 3 0.10
19 6 0.21
20 13 0.45
21 7 0.24
ACGTcount: A:0.53, C:0.04, G:0.09, T:0.35
Consensus pattern (20 bp):
ATAGTATATAAATATAGCAT
Found at i:1526384 original size:24 final size:24
Alignment explanation
Indices: 1526344--1526406 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 24
1526334 TAGTATATGC
* *
1526344 TATATAAA-TAGTTTATATAGTTCA
1 TATATAAACTA-TATATATAGGTCA
1526368 CTA-ATAAACTATATATATAGGTCA
1 -TATATAAACTATATATATAGGTCA
*
1526392 TATGTAAACTATATA
1 TATATAAACTATATA
1526407 GTTTACATAG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 2 0.06
24 27 0.82
25 4 0.12
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (24 bp):
TATATAAACTATATATATAGGTCA
Found at i:1526415 original size:22 final size:23
Alignment explanation
Indices: 1526390--1526481 Score: 79
Period size: 22 Copynumber: 4.3 Consensus size: 23
1526380 ATATATAGGT
1526390 CATA-TGTAAACTATATAGTTTA
1 CATAGTGTAAACTATATAGTTTA
* *
1526412 CATAGTTTATA-TATATAGTTTA
1 CATAGTGTAAACTATATAGTTTA
* * *
1526434 TATAGTTTATAC-ATATAG-TT-
1 CATAGTGTAAACTATATAGTTTA
*
1526454 CATA-TGTAAACTATATAGTATA
1 CATAGTGTAAACTATATAGTTTA
*
1526476 TATAGT
1 CATAGT
1526482 TTTAGTTTAT
Statistics
Matches: 56, Mismatches: 8, Indels: 11
0.75 0.11 0.15
Matches are distributed among these distances:
19 5 0.09
20 9 0.16
21 3 0.05
22 34 0.61
23 5 0.09
ACGTcount: A:0.39, C:0.07, G:0.10, T:0.45
Consensus pattern (23 bp):
CATAGTGTAAACTATATAGTTTA
Found at i:1526431 original size:13 final size:13
Alignment explanation
Indices: 1526413--1526437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1526403 TATAGTTTAC
1526413 ATAGTTTATATAT
1 ATAGTTTATATAT
1526426 ATAGTTTATATA
1 ATAGTTTATATA
1526438 GTTTATACAT
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:0.00, G:0.08, T:0.52
Consensus pattern (13 bp):
ATAGTTTATATAT
Found at i:1526450 original size:64 final size:66
Alignment explanation
Indices: 1526377--1526503 Score: 186
Period size: 64 Copynumber: 2.0 Consensus size: 66
1526367 ACTAATAAAC
* *
1526377 TATATATATAGGTCATATGTAAACTATATAGTTTACATAG-TTTA-TATATATAGTTTATATAGT
1 TATACATATAGGTCATATGTAAACTATATAGTATACATAGTTTTAGTATATATAGTTTATATAGT
1526440 T
66 T
* * * *
1526441 TATACATATAGTTCATATGTAAACTATATAGTATATATAGTTTTAGTTTATATTGTTTATATA
1 TATACATATAGGTCATATGTAAACTATATAGTATACATAGTTTTAGTATATATAGTTTATATA
1526504 TAGTTTAAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
64 36 0.65
65 4 0.07
66 15 0.27
ACGTcount: A:0.37, C:0.05, G:0.10, T:0.48
Consensus pattern (66 bp):
TATACATATAGGTCATATGTAAACTATATAGTATACATAGTTTTAGTATATATAGTTTATATAGT
T
Found at i:1526629 original size:22 final size:24
Alignment explanation
Indices: 1526595--1526787 Score: 89
Period size: 24 Copynumber: 7.9 Consensus size: 24
1526585 AAACCATATA
*
1526595 TATATATATATAAACTATATAGTT
1 TATATATATATAAACTATATAATT
1526619 TATAT-TA-ATAAACTATATAATT
1 TATATATATATAAACTATATAATT
* * * *
1526641 TATACAATATATATTA-TTTATAACTA
1 TATA-TATATATA-AACTATATAA-TT
*
1526667 TACATAATATATAAA-TATA-AATT
1 TATAT-ATATATAAACTATATAATT
* * *
1526690 GTATAGTTTATATATA-TTTCAT-ATAT
1 -TATA-TATATATAAACTAT-ATAAT-T
* *
1526716 AATCTATATATAAACTATATAATT
1 TATATATATATAAACTATATAATT
* *
1526740 TATAT-TA-ATAAACTATGTAGTTT
1 TATATATATATAAACTATATA-ATT
1526763 CTATATAGTTCATATAAACTATATA
1 -TATATA--T-ATATAAACTATATA
1526788 GTATTATAGT
Statistics
Matches: 125, Mismatches: 24, Indels: 35
0.68 0.13 0.19
Matches are distributed among these distances:
22 29 0.23
23 7 0.06
24 40 0.32
25 23 0.18
26 13 0.10
27 1 0.01
28 1 0.01
29 11 0.09
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (24 bp):
TATATATATATAAACTATATAATT
Found at i:1526815 original size:18 final size:18
Alignment explanation
Indices: 1526785--1526848 Score: 60
Period size: 18 Copynumber: 3.6 Consensus size: 18
1526775 TATAAACTAT
* *
1526785 ATAGTATTATAGTTTTTAC
1 ATAGTA-TATAGTTTATAA
*
1526804 ATGGTATATAGTTTATAA
1 ATAGTATATAGTTTATAA
*
1526822 ATAGTATATA-TATTATAT
1 ATAGTATATAGT-TTATAA
1526840 ATA-TATATA
1 ATAGTATATA
1526849 TATATATATA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
17 7 0.18
18 27 0.69
19 5 0.13
ACGTcount: A:0.41, C:0.02, G:0.09, T:0.48
Consensus pattern (18 bp):
ATAGTATATAGTTTATAA
Found at i:1526831 original size:2 final size:2
Alignment explanation
Indices: 1526826--1526876 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
1526816 TTATAAATAG
1526826 TA TA TA TA T- 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 TA TA TA TA
1526867 TA TA TA TA TA
1 TA TA TA TA TA
1526877 GTTGTTTCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1527321 original size:216 final size:214
Alignment explanation
Indices: 1526964--1527679 Score: 1141
Period size: 216 Copynumber: 3.3 Consensus size: 214
1526954 TTGATCCCTT
* *
1526964 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCTATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
*
1527029 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCTCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGC-CATAAC
*
1527094 TTTTAAAATGGGTATAATTTAGTACTTTGTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
130 TTTTTAAATGGGTATAATTTAGTACTTT-TTGTATTAATTTAAACCTCACAATTTAAAATTATTT
*
1527159 CGATTTGATCCCTCATCAATT
194 CGATTTGATCCCTCATCAATG
* *
1527180 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTTAATTTAGTCCTTCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
* **
1527245 TTATATTTGCATATGAAATTGACTTATACTTATTACTTATTTATATTTTTTAATTGGTCCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGG-CCATAAC
*
1527310 TTTTTAAATGGGTATAATTTAGTATTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
130 TTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
*
1527375 GATTTGATCCATCATCAATG
195 GATTTGATCCCTCATCAATG
* * * *
1527395 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATA-TTGATCAATTTAGTCGTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
* * *
1527459 TTATGTTTGCATCTGAAATTGACCCATACTGATTACTTATTTATATTTTTTAATTGACCCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTG-GCCATAAC
* * * *
1527524 TTTTTAAATGGGTATAATTTAGTACTTTTTGCATTAATTTCATCCACACAATTTAAAATTATTTC
130 TTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
1527589 GATTTGAT-CC-CATCAATG
195 GATTTGATCCCTCATCAATG
* *
1527607 TGTGTTGTTTAATTTATTTAAATTTTAATTTTTAATTTCATATTTGTTCAATTTAGTCCTTCAAT
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
*
1527672 TTGTATTT
66 TTATATTT
1527680 TTCATAAAAT
Statistics
Matches: 461, Mismatches: 36, Indels: 9
0.91 0.07 0.02
Matches are distributed among these distances:
212 48 0.10
213 25 0.05
214 144 0.31
215 97 0.21
216 146 0.32
217 1 0.00
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (214 bp):
TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCATAACT
TTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTCG
ATTTGATCCCTCATCAATG
Found at i:1527576 original size:214 final size:214
Alignment explanation
Indices: 1526964--1527679 Score: 1148
Period size: 214 Copynumber: 3.3 Consensus size: 214
1526954 TTGATCCCTT
* *
1526964 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCTATTTAGTCCTTAAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
* *
1527029 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTCTATTTTTTAATTGGCTCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
*
1527094 TTTTAAAATGGGTATAATTTAGTACTTTGTTGTATTAATTTAAACCTCACAATTTAAAATTATTT
131 TTTTTAAATGGGTATAATTTAGTACTTT-TTGTATTAATTTAAACCTCACAATTTAAAATTATTT
*
1527159 CGATTTGATCCCTCATCAATT
195 CGATTTGAT-CCTCATCAATG
* *
1527180 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATATTTGTTTAATTTAGTCCTTCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
* ** *
1527245 TTATATTTGCATATGAAATTGACTTATACTTATTACTTATTTATATTTTTTAATTGGTCCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
*
1527310 TTTTTAAATGGGTATAATTTAGTATTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
131 TTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
1527375 GATTTGATCCATCATCAATG
196 GATTTGATCC-TCATCAATG
* * * *
1527395 TGTGTTGTTTAATTTATTTAAATTTTTATTTGTAATTTCATA-TTGATCAATTTAGTCGTCCAAA
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
* * *
1527459 TTATGTTTGCATCTGAAATTGACCCATACTGATTACTTATTTATATTTTTTAATTGACCCATAAC
66 TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
* * * *
1527524 TTTTTAAATGGGTATAATTTAGTACTTTTTGCATTAATTTCATCCACACAATTTAAAATTATTTC
131 TTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
1527589 GATTTGATCC-CATCAATG
196 GATTTGATCCTCATCAATG
* *
1527607 TGTGTTGTTTAATTTATTTAAATTTTAATTTTTAATTTCATATTTGTTCAATTTAGTCCTTCAAT
1 TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
*
1527672 TTGTATTT
66 TTATATTT
1527680 TTCATAAAAT
Statistics
Matches: 461, Mismatches: 37, Indels: 7
0.91 0.07 0.01
Matches are distributed among these distances:
212 48 0.10
213 24 0.05
214 148 0.32
215 95 0.21
216 146 0.32
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (214 bp):
TGTGTTGTTTAATTTATTTAAATTTTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAA
TTATATTTGCATCTGAAATTGACCCATACTTATTACTTATTTATATTTTTTAATTGGCCCATAAC
TTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTAAACCTCACAATTTAAAATTATTTC
GATTTGATCCTCATCAATG
Found at i:1536016 original size:22 final size:22
Alignment explanation
Indices: 1535986--1536070 Score: 77
Period size: 23 Copynumber: 3.9 Consensus size: 22
1535976 TAATTATAGG
1535986 GAAGAGGGAATCGATACCCCCTT
1 GAAG-GGGAATCGATACCCCCTT
* *
1536009 GAAGGGGAACCGATTCCCCCTTT
1 GAAGGGGAATCGATACCCCC-TT
* * *
1536032 GAATGGGAA-CAGATTCCCCCCT
1 GAAGGGGAATC-GATACCCCCTT
1536054 G--GGGGAATCGATACCCC
1 GAAGGGGAATCGATACCCC
1536071 TATGGGGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
20 12 0.23
21 1 0.02
22 17 0.32
23 23 0.43
ACGTcount: A:0.26, C:0.29, G:0.27, T:0.18
Consensus pattern (22 bp):
GAAGGGGAATCGATACCCCCTT
Found at i:1539636 original size:3 final size:3
Alignment explanation
Indices: 1539621--1539718 Score: 128
Period size: 3 Copynumber: 33.0 Consensus size: 3
1539611 CCTGTAAATG
* *
1539621 TAA TAA AAA TAA TAA TAA TGA TAA TAA TAA TAA T-A TAA TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
1539667 TAA CAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TTAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
1539713 TAA TAA
1 TAA TAA
1539719 GACCCGAGCA
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
2 4 0.05
3 75 0.91
4 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1545746 original size:15 final size:17
Alignment explanation
Indices: 1545716--1545747 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
1545706 AATAGAAAAC
1545716 CTACCCAGACATGATTT
1 CTACCCAGACATGATTT
1545733 CTACCCA-A-ATGATTT
1 CTACCCAGACATGATTT
1545748 ATTTTTACGA
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:0.28, G:0.09, T:0.31
Consensus pattern (17 bp):
CTACCCAGACATGATTT
Found at i:1548939 original size:73 final size:72
Alignment explanation
Indices: 1548779--1549336 Score: 456
Period size: 71 Copynumber: 7.8 Consensus size: 72
1548769 GGTTAAAACG
* * * *
1548779 GTTAATAATGTAAACGGTAAAAAAATTTAGGCACTAACTATT--ATTAAACTACGTACCGATTTT
1 GTTAATAATGTAAACGGTAAAAAAA-ATAGGCGCTACCTATTACATTAAA-TAC-TACCGGTTTT
*
1548842 TTT-AACGTT
63 TTTAAAGGTT
** * * *
1548851 ACTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTAAATTAAATAGCTATCGGTTTGTT
1 GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAATA-CTACCGGTTTTTT
*
1548916 TAAAGATT
65 TAAAGGTT
* * * * * * *
1548924 GTTAATAATGCAAACGAT-AAATAAA-AGACGATACTTATTACATTAAAATATCTATCGGTTTGT
1 GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATT-AAATA-CTACCGGTTT-T
*
1548987 TTTGAAGGTT
63 TTTAAAGGTT
* * *
1548997 GTTAATAATGTAAACTGTAAAAAAAAAATAGGCGCTACCTATTATATTAAAATACCTACAGGTTT
1 GTTAATAATGTAAACGGT--AAAAAAAATAGGCGCTACCTATTACATT-AAATA-CTACCGGTTT
*
1549062 TTTTTAA-G--
62 TTTTAAAGGTT
* ** *
1549070 G----TAATGTAAATGGTAAAAAAAATAGGATCTATCTATTACA--AAATACCTACCGGTTTTTT
1 GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAATA-CTACCGGTTTTTT
*
1549129 TGAAGGTT
65 TAAAGGTT
* * * * **
1549137 ATTAATAATGTAAACAGTAAAAAAAATAGGTGTTACCTATTACATTAAAATTGTACCGG-TTTTT
1 GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATT-AAATACTACCGGTTTTTT
1549201 T-AAGGTT
65 TAAAGGTT
* * *
1549208 CTTAAT-ATGTGAACGG--AAAAAAATAGGCGATACCTATTACATTAAATACTTACCGGTTTTTT
1 GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAATAC-TACCGG-TTTTT
*
1549270 TTTAAGGTT
64 TTAAAGGTT
* *
1549279 GCTAATAATGT-AACGGTAAAAAAAA-AAGCGCTACCTATTACATTAAACTACATACCGG
1 GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAA-TAC-TACCGG
1549337 ATATGTTGAA
Statistics
Matches: 394, Mismatches: 64, Indels: 55
0.77 0.12 0.11
Matches are distributed among these distances:
64 21 0.05
65 1 0.00
67 26 0.07
68 31 0.08
69 11 0.03
70 14 0.04
71 87 0.22
72 86 0.22
73 71 0.18
74 4 0.01
75 1 0.00
76 12 0.03
77 29 0.07
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (72 bp):
GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAATACTACCGGTTTTTTT
AAAGGTT
Found at i:1549335 original size:141 final size:140
Alignment explanation
Indices: 1548821--1549336 Score: 437
Period size: 140 Copynumber: 3.6 Consensus size: 140
1548811 ACTAACTATT
* * * *
1548821 ATTAAACTACGTACC-GATTTTTTT-AACGTTACTAATAATGTAAACGGTAAAAAAAATAGGCGC
1 ATTAAA-TACTTACCGGTTTTTTTTGAAGGTTACTAATAATGTAAACGGTAAAAAAAATAAGCGC
* * * * *
1548884 TACCTATTAAATT-AAATAGCTATCGGTTTGTTTAAAGATTGTTAATAATGCAAACGATAAATAA
65 TACCTATTACATTAAAATA-CTACCGGTTT-TTT-AAGGTTATTAAT-ATG-GAACGA-AAA-AA
* *
1548948 A-AGACGATACTTATTAC
123 ATAGGCGATACCTATTAC
* * ** * *
1548965 ATTAAAATA-TCTATCGGTTTGTTTTGAAGGTTGTTAATAATGTAAACTGTAAAAAAAAAATAGG
1 ATT-AAATACT-TACCGGTTTTTTTTGAAGGTTACTAATAATGTAAACGGT--AAAAAAAATAAG
* * * *
1549029 CGCTACCTATTATATTAAAATACCTACAGGTTTTTTTTAAGGTAATGTAA-ATGGTA--AAAAAA
62 CGCTACCTATTACATTAAAATA-CTACCGG--TTTTTTAAGGTTAT-TAATATGGAACGAAAAAA
*** *
1549091 ATAGGATCTATCTATTAC
123 ATAGGCGATACCTATTAC
* * * * * *
1549109 A--AAATACCTACCGG-TTTTTTTGAAGGTTATTAATAATGTAAACAGTAAAAAAAATAGGTGTT
1 ATTAAATACTTACCGGTTTTTTTTGAAGGTTACTAATAATGTAAACGGTAAAAAAAATAAGCGCT
** *
1549171 ACCTATTACATTAAAATTGTACCGGTTTTTTAAGGTTCTTAATATGTGAACGGAAAAAAATAGGC
66 ACCTATTACATTAAAATACTACCGGTTTTTTAAGGTTATTAATATG-GAAC-GAAAAAAATAGGC
1549236 GATACCTATTAC
129 GATACCTATTAC
* *
1549248 ATTAAATACTTACCGGTTTTTTTTTAAGGTTGCTAATAATGT-AACGGTAAAAAAAA-AAGCGCT
1 ATTAAATACTTACCGGTTTTTTTTGAAGGTTACTAATAATGTAAACGGTAAAAAAAATAAGCGCT
*
1549311 ACCTATTACATTAAACTACATACCGG
66 ACCTATTACATTAAAATAC-TACCGG
1549337 ATATGTTGAA
Statistics
Matches: 299, Mismatches: 52, Indels: 45
0.76 0.13 0.11
Matches are distributed among these distances:
134 3 0.01
135 15 0.05
136 2 0.01
137 5 0.02
138 30 0.10
139 21 0.07
140 49 0.16
141 41 0.14
142 22 0.07
143 3 0.01
144 22 0.07
145 11 0.04
146 20 0.07
147 1 0.00
148 30 0.10
149 15 0.05
150 6 0.02
151 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (140 bp):
ATTAAATACTTACCGGTTTTTTTTGAAGGTTACTAATAATGTAAACGGTAAAAAAAATAAGCGCT
ACCTATTACATTAAAATACTACCGGTTTTTTAAGGTTATTAATATGGAACGAAAAAAATAGGCGA
TACCTATTAC
Found at i:1549618 original size:108 final size:110
Alignment explanation
Indices: 1549419--1549647 Score: 367
Period size: 108 Copynumber: 2.1 Consensus size: 110
1549409 TGTCTATAAA
*
1549419 ATCGATACTTTATAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAAACCAGT
1 ATCGATACTTTATAAAATGTATCGATACACAACAATATAACAGGTAAAAATATGACAAAACCAGT
** * *
1549484 TTTTTTATAACAAACTGGTAAAGAGCTACCGGATATGTTG-AAGT
66 TTCATTATAACAAACCGGTAAAGAGCTACCAGATATGTTGAAAGT
1549528 ATCGATACTTTATAAAAATGTATCGATACACAAC-A-ATAACAGGTAAAAA-ATGACAAAACCAG
1 ATCGATACTTTAT-AAAATGTATCGATACACAACAATATAACAGGTAAAAATATGACAAAACCAG
1549590 TTTCATTATAACAAGACCGGTAAAGAGCTACCAGATATGTTGAAAGT
65 TTTCATTATAACAA-ACCGGTAAAGAGCTACCAGATATGTTGAAAGT
1549637 ATCGATACTTT
1 ATCGATACTTT
1549648 TTGTACATGT
Statistics
Matches: 112, Mismatches: 5, Indels: 6
0.91 0.04 0.05
Matches are distributed among these distances:
107 25 0.22
108 39 0.35
109 29 0.26
110 19 0.17
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (110 bp):
ATCGATACTTTATAAAATGTATCGATACACAACAATATAACAGGTAAAAATATGACAAAACCAGT
TTCATTATAACAAACCGGTAAAGAGCTACCAGATATGTTGAAAGT
Found at i:1558480 original size:21 final size:23
Alignment explanation
Indices: 1558418--1558481 Score: 69
Period size: 23 Copynumber: 2.9 Consensus size: 23
1558408 GCATGGCCTT
1558418 GTTCATCGATGCACATTCAAGGC
1 GTTCATCGATGCACATTCAAGGC
* * * * *
1558441 GTTCATTGGTGCACCTTCATGGT
1 GTTCATCGATGCACATTCAAGGC
1558464 G-T-ATCGATGCACATTCAA
1 GTTCATCGATGCACATTCAA
1558482 ACGGGTGCAT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
21 12 0.38
22 1 0.03
23 19 0.59
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.31
Consensus pattern (23 bp):
GTTCATCGATGCACATTCAAGGC
Found at i:1564430 original size:65 final size:67
Alignment explanation
Indices: 1564283--1564441 Score: 186
Period size: 65 Copynumber: 2.4 Consensus size: 67
1564273 GCACTAAGAT
* * * * *
1564283 TGCATCGATGCATAAAATGCATTCGATG-TTTCAAAATAGCTTGAGTGTATCGGTGCATGGCTGG
1 TGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCTGA
1564347 TA
66 TA
* *
1564349 --CATCAATGCATTAAATGCATTCGATGTTTTCATAAA-ACCCTGAGTGCATCGATGCATGG-T-
1 TGCATCGATGCATAAAATGCATTCGATGTTTTCA-AAATACCCTGAGTGCATCGATGCATGGCTG
1564409 ATA
65 ATA
* *
1564412 TGCATCGATGAATGAAATGCATTCGATGTT
1 TGCATCGATGCATAAAATGCATTCGATGTT
1564442 CAATTTATTC
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
63 2 0.03
64 25 0.32
65 49 0.62
66 3 0.04
ACGTcount: A:0.30, C:0.16, G:0.22, T:0.32
Consensus pattern (67 bp):
TGCATCGATGCATAAAATGCATTCGATGTTTTCAAAATACCCTGAGTGCATCGATGCATGGCTGA
TA
Found at i:1570878 original size:23 final size:23
Alignment explanation
Indices: 1570836--1570897 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
1570826 ATAGGGCAGA
* *
1570836 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
* *
1570858 GGGAACTGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCCTTTGAAG
1570881 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
1570898 AGGGGAATCG
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 13 0.38
23 21 0.62
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.23
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:1574524 original size:3 final size:3
Alignment explanation
Indices: 1574509--1574608 Score: 155
Period size: 3 Copynumber: 33.0 Consensus size: 3
1574499 CCTGTAAATG
* *
1574509 TAA TAA AAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1574557 TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA TAA TAA TTAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA
1574603 TAA TAA
1 TAA TAA
1574609 GACCCGAGCA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
3 85 0.97
4 3 0.03
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:1580055 original size:18 final size:20
Alignment explanation
Indices: 1580011--1580064 Score: 67
Period size: 18 Copynumber: 2.7 Consensus size: 20
1580001 AAGATTTGAA
1580011 AAAAAAATGAGAATATATATTG
1 AAAAAAATGA-AA-ATATATTG
*
1580033 TAAAAAATGAAAATATA-T-
1 AAAAAAATGAAAATATATTG
1580051 AAAAAAATGAAAAT
1 AAAAAAATGAAAAT
1580065 GCAAATGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 13 0.43
19 1 0.03
20 5 0.17
21 2 0.07
22 9 0.30
ACGTcount: A:0.67, C:0.00, G:0.09, T:0.24
Consensus pattern (20 bp):
AAAAAAATGAAAATATATTG
Found at i:1580737 original size:16 final size:17
Alignment explanation
Indices: 1580706--1580738 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1580696 AATAGAAAAC
*
1580706 CTACCCAGACATGATTT
1 CTACCCAGAAATGATTT
1580723 CTACCCA-AAATGATTT
1 CTACCCAGAAATGATTT
1580739 ATTTTTACGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.33, C:0.27, G:0.09, T:0.30
Consensus pattern (17 bp):
CTACCCAGAAATGATTT
Found at i:1584021 original size:74 final size:73
Alignment explanation
Indices: 1583866--1584436 Score: 574
Period size: 74 Copynumber: 7.8 Consensus size: 73
1583856 GTTAAAAACG
* * * * * *
1583866 GTTAATAATGTAAACGGTAAAAAAATTTAGGCACTAACTATTATATTAAACTACGTACCGATTTT
1 GTTAATAATGTAAACGGTAAAAAAA-ATAGGCGCTACCTATTACATTAAAATAC-TACCGGTTTT
* *
1583931 TTTTAACGTT
64 TTTAAAGGTT
** * * *
1583941 ACTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTAAATTAAAATAGCTATCGGTTTGT
1 GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATA-CTACCGGTTTTT
*
1584006 TTAAAGATT
65 TTAAAGGTT
* * * * * *
1584015 GTTAATAATGCAAACGATAAAATAAAATAGACGATACTTATTACATTAAAATATCTATCGGTTTG
1 GTTAATAATGTAAACGGTAAAA-AAAATAGGCGCTACCTATTACATTAAAATA-CTACCGGTTT-
*
1584080 TTTTGAAGGTT
63 TTTTAAAGGTT
* * *
1584091 GTTAATAATGTAAACTGTAAAAAAAAAATAGGCGCTACCTATTATATTAAAATACCTACAGGTTT
1 GTTAATAATGTAAACGGT--AAAAAAAATAGGCGCTACCTATTACATTAAAATA-CTACCGGTTT
*
1584156 TTTTTAA-G--
63 TTTTAAAGGTT
* **
1584164 G----TAATGTAAATGGTAAAAAAAAATAGGATCTACCTATTACATTAAAATACCTACCGGTTTT
1 GTTAATAATGTAAACGGT-AAAAAAAATAGGCGCTACCTATTACATTAAAATA-CTACCGGTTTT
*
1584225 TTTGAAGGTT
64 TTTAAAGGTT
* * * * *
1584235 ATTAATAATGTAAACAGTAAAAAAAATAGGTGTTACCTATTACATTAAAATATGTACCGG-TTTT
1 GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATA-CTACCGGTTTTT
1584299 TT-AAGGTT
65 TTAAAGGTT
* * *
1584307 CTTAATAATGTGAACGG--AAAAAAATAGGCGATACCTATTACATTAAAATACTTACCGGTTTTT
1 GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATAC-TACCGGTTTTT
1584370 TT-AAGGTT
65 TTAAAGGTT
* *
1584378 GCTAATAATGTAAACGGT-AAAAAAATAGGCGCTACCTATTACATTAAACTACATACCGG
1 GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATAC-TACCGG
1584437 ATATGTTGAA
Statistics
Matches: 418, Mismatches: 63, Indels: 33
0.81 0.12 0.06
Matches are distributed among these distances:
68 48 0.11
69 12 0.03
70 37 0.09
71 26 0.06
72 58 0.14
73 7 0.02
74 91 0.22
75 72 0.17
76 29 0.07
77 34 0.08
78 4 0.01
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (73 bp):
GTTAATAATGTAAACGGTAAAAAAAATAGGCGCTACCTATTACATTAAAATACTACCGGTTTTTT
TAAAGGTT
Found at i:1584199 original size:68 final size:69
Alignment explanation
Indices: 1584096--1584425 Score: 246
Period size: 68 Copynumber: 4.7 Consensus size: 69
1584086 AGGTTGTTAA
* * *
1584096 TAATGTAAACTGTAAAAAAAAAATAGGCGCTACCTATTATATTAAAATACCTACAGGTTTTTTTT
1 TAATGTAAACTGTAAAAAAAAAATAGGAGCTACCTATTACATTAAAATACCTACAGGTTTTTTTG
1584161 AAGG
66 AAGG
* *
1584165 TAATGTAAA-TGGT-AAAAAAAAATAGGATCTACCTATTACATTAAAATACCTACCGGTTTTTTT
1 TAATGTAAACT-GTAAAAAAAAAATAGGAGCTACCTATTACATTAAAATACCTACAGGTTTTTTT
1584228 GAAGG
65 GAAGG
* * * * ** *
1584233 TTAT-TAATAATGTAAACAGTAAAAAAAATAGGTGTTACCTATTACATTAAAATATGTACCGG-T
1 TAATGTAA-ACTGT--A-A--AAAAAAAATAGGAGCTACCTATTACATTAAAATACCTACAGGTT
1584296 TTTTT-AAGG
60 TTTTTGAAGG
** * * * * * *
1584305 TTCT-TAATAATGTGAACGGAAAAAAATAGGCGATACCTATTACATTAAAATACTTACCGGTTTT
1 TAATGTAA-ACTGT-AA--AAAAAAAATAGGAGCTACCTATTACATTAAAATACCTACAGGTTTT
1584369 TTT-AAGG
62 TTTGAAGG
* *
1584376 T--TGCTAATAATGTAAACGGTAAAAAAATAGGCGCTACCTATTACATTAAA
1 TAATG-TAA-ACTGTAAA----AAAAAAATAGGAGCTACCTATTACATTAAA
1584426 CTACATACCG
Statistics
Matches: 223, Mismatches: 22, Indels: 29
0.81 0.08 0.11
Matches are distributed among these distances:
67 3 0.01
68 57 0.26
69 13 0.06
70 40 0.18
71 21 0.09
72 46 0.21
73 6 0.03
74 37 0.17
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (69 bp):
TAATGTAAACTGTAAAAAAAAAATAGGAGCTACCTATTACATTAAAATACCTACAGGTTTTTTTG
AAGG
Found at i:1584767 original size:111 final size:112
Alignment explanation
Indices: 1584516--1584754 Score: 417
Period size: 111 Copynumber: 2.1 Consensus size: 112
1584506 TAGTGTCTAT
*
1584516 AAAGTATCGATACTTTATAAAAATGTATCGATACATAACAATATAACAGGTAAAAATATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACACAACAATATAACAGGTAAAAATATGACAAA
** * *
1584581 ACCAGTTTTTTTATAACAAAACTGGTAAAGAGCTACCGGATATGTTG
66 ACCAGTTTCATTATAACAAAACCGGTAAAGAGCTACCAGATATGTTG
1584628 AAAGTATCGATACTTTATAAAAATGTATCGATACACAACAATATAACAGGTAAAAA-ATGACAAA
1 AAAGTATCGATACTTTATAAAAATGTATCGATACACAACAATATAACAGGTAAAAATATGACAAA
*
1584692 ACCAGTTTCATTATAACAAGACCGGTAAAGAGCTACCAGATATGTTG
66 ACCAGTTTCATTATAACAAAACCGGTAAAGAGCTACCAGATATGTTG
1584739 AAAGTATCGATACTTT
1 AAAGTATCGATACTTT
1584755 TTGTACATGT
Statistics
Matches: 121, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
111 66 0.55
112 55 0.45
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (112 bp):
AAAGTATCGATACTTTATAAAAATGTATCGATACACAACAATATAACAGGTAAAAATATGACAAA
ACCAGTTTCATTATAACAAAACCGGTAAAGAGCTACCAGATATGTTG
Found at i:1598583 original size:23 final size:23
Alignment explanation
Indices: 1598554--1598613 Score: 86
Period size: 23 Copynumber: 2.6 Consensus size: 23
1598544 GTTTGTCAAG
*
1598554 AAGGACCACATAGATTTATCCTGA
1 AAGGACCACATAGATTTATCC-CA
*
1598578 AA-GACCACATAGATTTGTCCCA
1 AAGGACCACATAGATTTATCCCA
1598600 AAGGACCACATAGA
1 AAGGACCACATAGA
1598614 ACCCTCGACT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
22 3 0.09
23 28 0.85
24 2 0.06
ACGTcount: A:0.40, C:0.23, G:0.17, T:0.20
Consensus pattern (23 bp):
AAGGACCACATAGATTTATCCCA
Found at i:1598956 original size:2 final size:2
Alignment explanation
Indices: 1598949--1599009 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
1598939 TTCACATAGA
1598949 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1598991 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
1599010 CTCATATCAA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1604780 original size:23 final size:23
Alignment explanation
Indices: 1604754--1604840 Score: 165
Period size: 23 Copynumber: 3.8 Consensus size: 23
1604744 CATATATTTA
1604754 TCCCGAAGGACCACATAGGTTTG
1 TCCCGAAGGACCACATAGGTTTG
1604777 TCCCGAAGGACCACATAGGTTTG
1 TCCCGAAGGACCACATAGGTTTG
*
1604800 TCCCGAAGGACCACATAGATTTG
1 TCCCGAAGGACCACATAGGTTTG
1604823 TCCCGAAGGACCACATAG
1 TCCCGAAGGACCACATAG
1604841 AACCCTCGAC
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 63 1.00
ACGTcount: A:0.29, C:0.28, G:0.24, T:0.20
Consensus pattern (23 bp):
TCCCGAAGGACCACATAGGTTTG
Found at i:1604841 original size:23 final size:23
Alignment explanation
Indices: 1604744--1604841 Score: 160
Period size: 23 Copynumber: 4.3 Consensus size: 23
1604734 ACCGAAGTGC
* *
1604744 CATATATTTATCCCGAAGGACCA
1 CATAGATTTGTCCCGAAGGACCA
*
1604767 CATAGGTTTGTCCCGAAGGACCA
1 CATAGATTTGTCCCGAAGGACCA
*
1604790 CATAGGTTTGTCCCGAAGGACCA
1 CATAGATTTGTCCCGAAGGACCA
1604813 CATAGATTTGTCCCGAAGGACCA
1 CATAGATTTGTCCCGAAGGACCA
1604836 CATAGA
1 CATAGA
1604842 ACCCTCGACT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 71 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (23 bp):
CATAGATTTGTCCCGAAGGACCA
Found at i:1615630 original size:23 final size:23
Alignment explanation
Indices: 1615594--1615668 Score: 89
Period size: 23 Copynumber: 3.3 Consensus size: 23
1615584 ACCAAAGTGC
* *
1615594 CATATATTTGTCCCTAAGGACAA
1 CATAGATTTGTCCCGAAGGACAA
* * *
1615617 CATTGGTTTGTCCCGAAGGACCA
1 CATAGATTTGTCCCGAAGGACAA
1615640 CATAGATTTGTCCCGAAGGATC-A
1 CATAGATTTGTCCCGAAGGA-CAA
1615663 CATAGA
1 CATAGA
1615669 ACCCTCGACT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 43 0.98
24 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (23 bp):
CATAGATTTGTCCCGAAGGACAA
Found at i:1616001 original size:57 final size:57
Alignment explanation
Indices: 1615893--1616004 Score: 138
Period size: 57 Copynumber: 2.0 Consensus size: 57
1615883 GTAGAATCTT
** * *
1615893 TTCACATAAAACATATACTCATTTCATTTCACATGATCTTTCTCAACTTATCATTCA
1 TTCACATAAAACATATACTCATAACATTTCACATGATCTATCTCAAATTATCATTCA
* *
1615950 TTCACATAAATCATATACTCATAACATTTCATATGCCAT-TAT-TCAAATTATCATT
1 TTCACATAAAACATATACTCATAACATTTCACATG--ATCTATCTCAAATTATCATT
1616005 TCTTCCATAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
57 43 0.91
58 2 0.04
59 2 0.04
ACGTcount: A:0.36, C:0.22, G:0.02, T:0.40
Consensus pattern (57 bp):
TTCACATAAAACATATACTCATAACATTTCACATGATCTATCTCAAATTATCATTCA
Found at i:1622391 original size:46 final size:46
Alignment explanation
Indices: 1622304--1622470 Score: 181
Period size: 46 Copynumber: 3.6 Consensus size: 46
1622294 TATATGTCGT
* * * * ** * *
1622304 TAATATACCATTATGTATTTTCATTGGTGACATCATTTCATGCCAA
1 TAATGTACCGTTATGCATTTTCTTTTATGACATCCTTTCATGCCTA
* * * *
1622350 TTATGCACCGTTAAGCATTTTCTTTTATGGCATCCTTTCATGCCTA
1 TAATGTACCGTTATGCATTTTCTTTTATGACATCCTTTCATGCCTA
* * *
1622396 TAATGTATCGTTATGCATTTTCATTTATGACATCCTTTCATTCCTA
1 TAATGTACCGTTATGCATTTTCTTTTATGACATCCTTTCATGCCTA
1622442 TAATGTACCGTTATGCATTTAGTCTTTTA
1 TAATGTACCGTTATGCATTT--TCTTTTA
1622471 CCCAAAGACA
Statistics
Matches: 98, Mismatches: 21, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
46 92 0.94
48 6 0.06
ACGTcount: A:0.25, C:0.19, G:0.11, T:0.45
Consensus pattern (46 bp):
TAATGTACCGTTATGCATTTTCTTTTATGACATCCTTTCATGCCTA
Found at i:1622593 original size:81 final size:81
Alignment explanation
Indices: 1622458--1622761 Score: 448
Period size: 81 Copynumber: 3.8 Consensus size: 81
1622448 ACCGTTATGC
* * * * *
1622458 ATTTAGTCTTTTACCCAAAGACATTTAGCCTTTCATCTAACTTGCATGATTGACACCTTTCTGCC
1 ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTCTGCC
*
1622523 AAATGCACAACTAGGT
66 AAATGCACAACTAGGA
*
1622539 ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACATTTCTGCC
1 ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTCTGCC
1622604 AAATGCA-AAGCTAGGA
66 AAATGCACAA-CTAGGA
* * * * **
1622620 AATTAATCTTTAACTCAAAGGCATTTAGCATTTCATTTAACTTGCATGATTGACACCTTTCTATC
1 ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTCTGCC
* *
1622685 AAATGCACAACTAAGC
66 AAATGCACAACTAGGA
*
1622701 ATTTAATCTTTAACTCAAAGGCATTCAGCCTTTCATCTAACTGGCATGATTGACACCTTTC
1 ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTC
1622762 CACTAATAAC
Statistics
Matches: 200, Mismatches: 21, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
80 2 0.01
81 196 0.98
82 2 0.01
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (81 bp):
ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTCTGCC
AAATGCACAACTAGGA
Found at i:1622746 original size:162 final size:162
Alignment explanation
Indices: 1622464--1622761 Score: 497
Period size: 162 Copynumber: 1.8 Consensus size: 162
1622454 ATGCATTTAG
* * *
1622464 TCTTTTACCCAAAGACATTTAGCCTTTCATCTAACTTGCATGATTGACACCTTTCTGCCAAATGC
1 TCTTTAACCCAAAGACATTTAGCATTTCATCTAACTTGCATGATTGACACCTTTCTACCAAATGC
* * *
1622529 ACAACTAGGTATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACA
66 ACAACTAAGCATTTAATCTTTAACTCAAAGGCATTCAGCCTTTCATCTAACTGGCATGATTGACA
1622594 CATTTCTGCCAAATGCAAAGCTAGGAAATTAA
131 CATTTCTGCCAAATGCAAAGCTAGGAAATTAA
* * * *
1622626 TCTTTAACTCAAAGGCATTTAGCATTTCATTTAACTTGCATGATTGACACCTTTCTATCAAATGC
1 TCTTTAACCCAAAGACATTTAGCATTTCATCTAACTTGCATGATTGACACCTTTCTACCAAATGC
1622691 ACAACTAAGCATTTAATCTTTAACTCAAAGGCATTCAGCCTTTCATCTAACTGGCATGATTGACA
66 ACAACTAAGCATTTAATCTTTAACTCAAAGGCATTCAGCCTTTCATCTAACTGGCATGATTGACA
*
1622756 CCTTTC
131 CATTTC
1622762 CACTAATAAC
Statistics
Matches: 125, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
162 125 1.00
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (162 bp):
TCTTTAACCCAAAGACATTTAGCATTTCATCTAACTTGCATGATTGACACCTTTCTACCAAATGC
ACAACTAAGCATTTAATCTTTAACTCAAAGGCATTCAGCCTTTCATCTAACTGGCATGATTGACA
CATTTCTGCCAAATGCAAAGCTAGGAAATTAA
Found at i:1623969 original size:46 final size:46
Alignment explanation
Indices: 1623919--1624033 Score: 133
Period size: 46 Copynumber: 2.5 Consensus size: 46
1623909 CATTGGTAGC
*
1623919 ATCCTTTCATGCAAA-ATATGCACCATTAAGCATTTTCATTTATGGT
1 ATCCTTTCATGCAAATA-ATGCACCATTAAGCATTTTCATTTATGGA
* ** * * *
1623965 ATCCTTTCAAGCCTATAATGTACCGTTATGCATTTTCATTTATGGA
1 ATCCTTTCATGCAAATAATGCACCATTAAGCATTTTCATTTATGGA
**
1624011 ATCCTTTCATGCTGATAATGCAC
1 ATCCTTTCATGCAAATAATGCAC
1624034 TGTTATGTAT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
46 56 0.98
47 1 0.02
ACGTcount: A:0.28, C:0.21, G:0.12, T:0.39
Consensus pattern (46 bp):
ATCCTTTCATGCAAATAATGCACCATTAAGCATTTTCATTTATGGA
Found at i:1624039 original size:46 final size:46
Alignment explanation
Indices: 1623936--1624045 Score: 141
Period size: 46 Copynumber: 2.4 Consensus size: 46
1623926 CATGCAAAAT
* * *
1623936 ATGCACCATTAAGCATTTTCATTTATGGTATCCTTTCAAGCCTATA
1 ATGCACCGTTATGCATTTTCATTTATGGAATCCTTTCAAGCCTATA
* *
1623982 ATGTACCGTTATGCATTTTCATTTATGGAATCCTTTCATG-CTGATA
1 ATGCACCGTTATGCATTTTCATTTATGGAATCCTTTCAAGCCT-ATA
* *
1624028 ATGCACTGTTATGTATTT
1 ATGCACCGTTATGCATTT
1624046 AGTCTTTTAC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 2 0.04
46 53 0.96
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.43
Consensus pattern (46 bp):
ATGCACCGTTATGCATTTTCATTTATGGAATCCTTTCAAGCCTATA
Found at i:1624164 original size:81 final size:81
Alignment explanation
Indices: 1624042--1624459 Score: 509
Period size: 81 Copynumber: 5.2 Consensus size: 81
1624032 ACTGTTATGT
* * * * * * **
1624042 ATTTAGTCTTTTACCCAAAGACATTTAGCCTTTTATTTAACTTACATGATTGACACCTTTCTGCC
1 ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTCTGCC
1624107 AAATGCACAACTAGGC
66 AAATGCACAACTAGGC
*
1624123 ATTTAATCTTTAACTTAAAGGCATTTAGCCTTTCATCTAACT-GCATGATTGACACCTTTCTGCC
1 ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTCTGCC
* * *
1624187 AAATACAGAAATAGGC
66 AAATGCACAACTAGGC
* * * * * **
1624203 AATTAATCTTTAACTCAAAGGCATTTAGCATTTTATCTAACTGGCATGATTGAAACATTTCTATC
1 ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTCTGCC
*
1624268 AAATGCA-AAGCTAAGC
66 AAATGCACAA-CTAGGC
* * * *
1624284 ATTTAATCTTTATCTCAAAGGCATTTAGCCTTTCCTCTAACTGGCATGACTGACACCTTTCTGTC
1 ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTCTGCC
*
1624349 AAATGCACACCTAGGC
66 AAATGCACAACTAGGC
* *
1624365 ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAGCTGGCATGATTGACACGTTTCTGTC
1 ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTCTG-C
* * *
1624430 AAATATGCACAGCTAGGA
65 CAA-ATGCACAACTAGGC
*
1624448 ATTGAA-CTTTAA
1 ATTTAATCTTTAA
1624460 TTTAATTCAG
Statistics
Matches: 289, Mismatches: 43, Indels: 9
0.85 0.13 0.03
Matches are distributed among these distances:
80 74 0.26
81 189 0.65
82 9 0.03
83 17 0.06
ACGTcount: A:0.31, C:0.22, G:0.13, T:0.34
Consensus pattern (81 bp):
ATTTAATCTTTAACTCAAAGGCATTTAGCCTTTCATCTAACTGGCATGATTGACACCTTTCTGCC
AAATGCACAACTAGGC
Found at i:1627680 original size:43 final size:43
Alignment explanation
Indices: 1627633--1627733 Score: 116
Period size: 43 Copynumber: 2.3 Consensus size: 43
1627623 GCAGTAAGTT
* *
1627633 TTGAGATTTAGCGGCA-TTTATATCGAAAATGACGCAATAAGG-G
1 TTGAGATTTAGCGGCACTTT-TATCGAAAACGACACAAT-AGGTG
* * *
1627676 TTGAGAATTAGCGGCACTTTTATTGAAAACGCCACAATAGGTG
1 TTGAGATTTAGCGGCACTTTTATCGAAAACGACACAATAGGTG
*
1627719 TTGATATTTAGCGGC
1 TTGAGATTTAGCGGC
1627734 GTTTTCATAC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
42 3 0.06
43 43 0.88
44 3 0.06
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.30
Consensus pattern (43 bp):
TTGAGATTTAGCGGCACTTTTATCGAAAACGACACAATAGGTG
Found at i:1627822 original size:44 final size:44
Alignment explanation
Indices: 1627740--1627862 Score: 187
Period size: 44 Copynumber: 2.8 Consensus size: 44
1627730 CGGCGTTTTC
*
1627740 ATACAAACGCCGCTAAA-GT-TCGGTATATAGCGGCATTTCTAGT
1 ATACAAACGCCGCTAAATGTAT-GGTATATTGCGGCATTTCTAGT
1627783 ATACAAACGCCGCTAAATGTATGGTATATTGCGGCATTTCTAGT
1 ATACAAACGCCGCTAAATGTATGGTATATTGCGGCATTTCTAGT
** *
1627827 ATACAAACGTTGCTAAATGTATGGTATATTGTGGCA
1 ATACAAACGCCGCTAAATGTATGGTATATTGCGGCA
1627863 GTTTTTTACA
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
43 17 0.23
44 56 0.76
45 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (44 bp):
ATACAAACGCCGCTAAATGTATGGTATATTGCGGCATTTCTAGT
Found at i:1628290 original size:21 final size:21
Alignment explanation
Indices: 1628221--1628284 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
1628211 TCTGTACTGT
* *
1628221 CACTGCTTCTTTCTCTGCTTC
1 CACTGCTGCTCTCTCTGCTTC
*
1628242 CACTGCTGCTCTGGT-TGCTTC
1 CACTGCTGCTCT-CTCTGCTTC
*
1628263 CGCTGCTGCTCTCTCTGCTTC
1 CACTGCTGCTCTCTCTGCTTC
1628284 C
1 C
1628285 CTTGCTTCAT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.03, C:0.39, G:0.17, T:0.41
Consensus pattern (21 bp):
CACTGCTGCTCTCTCTGCTTC
Found at i:1635273 original size:41 final size:41
Alignment explanation
Indices: 1635228--1635307 Score: 97
Period size: 41 Copynumber: 2.0 Consensus size: 41
1635218 AAAAACTTCA
** * *
1635228 CTAAAATTTTACTATTTTGCGACGTTTCTATATAAACGCCG
1 CTAAAATAGTACTATTTTGCGACGTTTATATAAAAACGCCG
* * *
1635269 CTAAAGTAGTACTATTTTGTGGCGTTTATATAAAAACGC
1 CTAAAATAGTACTATTTTGCGACGTTTATATAAAAACGC
1635308 TGGTATATCC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.38
Consensus pattern (41 bp):
CTAAAATAGTACTATTTTGCGACGTTTATATAAAAACGCCG
Found at i:1636676 original size:41 final size:41
Alignment explanation
Indices: 1636632--1636827 Score: 229
Period size: 41 Copynumber: 4.8 Consensus size: 41
1636622 GCGTTTATAA
* * *
1636632 AAAAAATGCCACTATTGATTACACTATTGTGGTGTTTGT-T
1 AAAAAACGCCACTATTGATTACACTATTGCGGCGTTTGTCT
* *
1636672 AAAAAATGCCACTATTAATTAACACTATTGCGGCGTTTGTCT
1 AAAAAACGCCACTATTGATT-ACACTATTGCGGCGTTTGTCT
* * *
1636714 -AAACACGGCACTATTGAGTATCACTATTGCGGCGTTTGTCT
1 AAAAAACGCCACTATTGATTA-CACTATTGCGGCGTTTGTCT
* *
1636755 -AAAAACACCACTATTGAGTAACACTATTGCGGCGTTTGTCT
1 AAAAAACGCCACTATTGA-TTACACTATTGCGGCGTTTGTCT
*
1636796 -AAAAACGCCACTAATGATTATCACTATTGCGG
1 AAAAAACGCCACTATTGATTA-CACTATTGCGG
1636828 TATTTGAGGA
Statistics
Matches: 135, Mismatches: 16, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
40 22 0.16
41 111 0.82
42 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (41 bp):
AAAAAACGCCACTATTGATTACACTATTGCGGCGTTTGTCT
Found at i:1636741 original size:82 final size:82
Alignment explanation
Indices: 1636633--1636833 Score: 273
Period size: 82 Copynumber: 2.5 Consensus size: 82
1636623 CGTTTATAAA
* * *
1636633 AAAAATGCCACTATTGATTA-CACTATTGTGGTGTTTGT-TAAAAA-ATGCCACTATTAATTAAC
1 AAAAACGCCACTATTGATTATCACTATTGCGGTGTTTGTCTAAAAACA--CCACTATTAAGTAAC
1636695 ACTATTGCGGCGTTTGTCT
64 ACTATTGCGGCGTTTGTCT
* * * * *
1636714 AAACACGGCACTATTGAGTATCACTATTGCGGCGTTTGTCTAAAAACACCACTATTGAGTAACAC
1 AAAAACGCCACTATTGATTATCACTATTGCGGTGTTTGTCTAAAAACACCACTATTAAGTAACAC
1636779 TATTGCGGCGTTTGTCT
66 TATTGCGGCGTTTGTCT
* *
1636796 AAAAACGCCACTAATGATTATCACTATTGCGGTATTTG
1 AAAAACGCCACTATTGATTATCACTATTGCGGTGTTTG
1636834 AGGAATAAAC
Statistics
Matches: 103, Mismatches: 14, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
81 16 0.16
82 80 0.78
83 6 0.06
84 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.33
Consensus pattern (82 bp):
AAAAACGCCACTATTGATTATCACTATTGCGGTGTTTGTCTAAAAACACCACTATTAAGTAACAC
TATTGCGGCGTTTGTCT
Found at i:1638866 original size:44 final size:44
Alignment explanation
Indices: 1638781--1638866 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 44
1638771 GATGGTTATC
* * * *
1638781 TAAATTTTTAGTTATTGATTTATAGTTCATCAAAGTATTAATTA
1 TAAATTTTTAGTTATTGATTTATAATTAATAAAAATATTAATTA
1638825 TAAATTTTTAGTTATTGATTTAATAATTAATAAAAAT-TTAAT
1 TAAATTTTTAGTTATTGATTT-ATAATTAATAAAAATATTAAT
1638867 ATTATACAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
44 26 0.70
45 11 0.30
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (44 bp):
TAAATTTTTAGTTATTGATTTATAATTAATAAAAATATTAATTA
Found at i:1640144 original size:2 final size:2
Alignment explanation
Indices: 1640139--1640177 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
1640129 AAAAAATTGA
1640139 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1640178 GATTATTAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:1651077 original size:29 final size:29
Alignment explanation
Indices: 1651017--1651126 Score: 111
Period size: 29 Copynumber: 3.8 Consensus size: 29
1651007 TCAAACGACT
* *
1651017 GAAATGTAAAT-ACTGAAATTTAAA-GGCT
1 GAAATGTAAATAACAGAAA-TTAAAGGGCA
*
1651045 GAAAT-TATAATAACAGAAATTCAAGGGCA
1 GAAATGTA-AATAACAGAAATTAAAGGGCA
*
1651074 GAAATGTAAATAACAAAAATTAAAGGGCA
1 GAAATGTAAATAACAGAAATTAAAGGGCA
* *
1651103 AAAATGTAAATGAA-AAAAATTAAA
1 GAAATGTAAAT-AACAGAAATTAAA
1651127 AGAATCGAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.03
28 12 0.17
29 53 0.75
30 4 0.06
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.22
Consensus pattern (29 bp):
GAAATGTAAATAACAGAAATTAAAGGGCA
Found at i:1651292 original size:31 final size:31
Alignment explanation
Indices: 1651252--1651354 Score: 161
Period size: 31 Copynumber: 3.3 Consensus size: 31
1651242 AATATAAAAA
*
1651252 TTAGCGGTTAGTGGTTAATAAATTAGTAAAG
1 TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
* *
1651283 TTAGTGGTTAGTGGCTAATAAATTAGCAAAG
1 TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
**
1651314 TTAGTTGTTAGTGGTTAATAAATTAGCAAAG
1 TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
1651345 TTAGCGGTTA
1 TTAGCGGTTA
1651355 AATTAGAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (31 bp):
TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
Found at i:1653212 original size:134 final size:130
Alignment explanation
Indices: 1653000--1653432 Score: 421
Period size: 134 Copynumber: 3.3 Consensus size: 130
1652990 ATCAGATCTG
** * * * * * * * *
1653000 AAAAA-TTTGATTTACTTCGTTTCTCTTTAGGGAAGGTTGAATTGAAGTCGATTTTCTTCACTGC
1 AAAAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGC
* *
1653064 TCTTCAAGAAGACCAAATCTGAAATAAATAATATATGCTCCACTACTCGTTAGAGGAGATCAGAC
66 TCTTCAGGAAGACCAAATCTGAAATAAA-AATATAT-CTCCACTACTCTTTAG-GGA-ATCAGAC
1653129 TCAA
127 TCAA
* * *
1653133 AAAAATTTTGATCCACGTCGCTGCTCTTCAGGGAAGATTGAATCAAACTTGATTTGCTTCGCTGC
1 AAAAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGC
* * * *
1653198 TCTTCAGGAAGACCAAATCTGAAAGAAGAAGAAATTTCTCCACT--T-TTTTGGGTAATCAGA-T
66 TCTTCAGGAAGACCAAATCTGAAATAA-AA-ATATATCTCCACTACTCTTTAGGG-AATCAGACT
**
1653259 CTG
128 CAA
* * * * * *
1653262 AAAAATTTTGATTCACTTCGCTGCTCATCATGAAAAATTGAATCGAACTTGATTTGCTTCACTTC
1 AAAAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGC
* * *
1653327 TCTTCAGGAAGACC-AATCTGAAAGTAGGAGAATCTA-CTCCACTACTCTTTAGGGGATATCATA
66 TCTTCAGGAAGACCAAATCTGAAA-TA--AAAATATATCTCCACTACTCTTTA-GGGA-ATCAGA
*
1653390 CTCGA
126 CTCAA
*
1653395 AAAAATTGTGATCCACTTCGCTGCTCTTCAGGGAAGAT
1 AAAAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGAT
1653433 CCAACCTTGT
Statistics
Matches: 242, Mismatches: 45, Indels: 26
0.77 0.14 0.08
Matches are distributed among these distances:
128 16 0.07
129 75 0.31
130 10 0.04
131 9 0.04
132 9 0.04
133 39 0.16
134 79 0.33
135 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (130 bp):
AAAAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGC
TCTTCAGGAAGACCAAATCTGAAATAAAAATATATCTCCACTACTCTTTAGGGAATCAGACTCAA
Found at i:1659071 original size:29 final size:29
Alignment explanation
Indices: 1659011--1659120 Score: 111
Period size: 29 Copynumber: 3.8 Consensus size: 29
1659001 TCAAACGACT
* * *
1659011 GAAATGTAAAT-ACTGAAATTTAAAGGCT-
1 GAAATGTAAATAAC-AAAAATTAAAGGGTA
*
1659039 GAAAT-TATAATAACAAAAATTCAAGGGTA
1 GAAATGTA-AATAACAAAAATTAAAGGGTA
*
1659068 GAAATGTAAATAACAAAAATTAAAGGGCA
1 GAAATGTAAATAACAAAAATTAAAGGGTA
*
1659097 AAAATGTAAATGAA-AAAAATTAAA
1 GAAATGTAAAT-AACAAAAATTAAA
1659121 ATAATCGAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
27 2 0.03
28 18 0.26
29 46 0.66
30 4 0.06
ACGTcount: A:0.57, C:0.05, G:0.15, T:0.23
Consensus pattern (29 bp):
GAAATGTAAATAACAAAAATTAAAGGGTA
Found at i:1659287 original size:31 final size:31
Alignment explanation
Indices: 1659247--1659349 Score: 161
Period size: 31 Copynumber: 3.3 Consensus size: 31
1659237 ATGAATTAAA
*
1659247 TTAGCGGTTAGTGGTTAATAAATTAGTAAAG
1 TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
* *
1659278 TTAGTGGTTAGTGGCTAATAAATTAGCAAAG
1 TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
**
1659309 TTAGTTGTTAGTGGTTAATAAATTAGCAAAG
1 TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
1659340 TTAGCGGTTA
1 TTAGCGGTTA
1659350 AATTAGAATT
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (31 bp):
TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
Found at i:1661207 original size:134 final size:129
Alignment explanation
Indices: 1661044--1661427 Score: 391
Period size: 129 Copynumber: 2.9 Consensus size: 129
1661034 AATTGAAGTC
* * * *
1661044 GATTTTCTTCACTGCTCTTCAAGAAGACCAAATCTGAAATAAATAATATATGTTCCACTACTCGT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA-AAAGAATATAT-TTCCACTACTCTT
*
1661109 TAGAGGAGATCAGACTAAAAAAATTTTTGATCCACGTCGCTGCTCTTCAAGGAAGATTGAATCAA
64 TAG-GGAGATCAGACT-AAAAAA-TTTTGATCCACTTCGCTGCTCTTCAAGGAAGATTGAATCAA
1661174 ACTT
126 ACTT
* * * *
1661178 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAAATTTCTC-C-ACTTTTT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAAAAGAATATATTTC-CACTACTCTTT
* * * * * * * *
1661241 TGGGTA-ATCAGATCTGAAAAATTTTGATTCACTTCGCTGCTCATCATGAAAAATTGAATCGAAC
65 AGGG-AGATCAGA-CTAAAAAATTTTGATCCACTTCGCTGCTCTTCAAGGAAGATTGAATCAAAC
1661305 TT
128 TT
* * * *
1661307 GATTAGCTTCACTTCTCTTCAGGAAGACC-AATCTGAAAGAAGGAGAATCTA-CTCCACTACTCT
1 GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA-AA--AGAATATATTTCCACTACTCT
* * *
1661370 TTAGGGGAGATCATACTCGAAAAAATTGTGATCCACTTCGCTGCTCTTCAGGGAAGAT
63 TTA-GGGAGATCAGACT--AAAAAATTTTGATCCACTTCGCTGCTCTTCAAGGAAGAT
1661428 CCAACCTTGT
Statistics
Matches: 204, Mismatches: 34, Indels: 25
0.78 0.13 0.10
Matches are distributed among these distances:
128 9 0.04
129 67 0.33
130 16 0.08
131 23 0.11
132 12 0.06
133 40 0.20
134 37 0.18
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (129 bp):
GATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAAAAAGAATATATTTCCACTACTCTTTA
GGGAGATCAGACTAAAAAATTTTGATCCACTTCGCTGCTCTTCAAGGAAGATTGAATCAAACTT
Found at i:1667067 original size:29 final size:29
Alignment explanation
Indices: 1667007--1667116 Score: 111
Period size: 29 Copynumber: 3.8 Consensus size: 29
1666997 TCAAACGACT
* *
1667007 GAAATGTAAAT-ACTGAAATTTAAA-GGCT
1 GAAATGTAAATAACAGAAA-TTAAAGGGCA
*
1667035 GAAAT-TATAATAACAGAAATTCAAGGGCA
1 GAAATGTA-AATAACAGAAATTAAAGGGCA
*
1667064 GAAATGTAAATAACAAAAATTAAAGGGCA
1 GAAATGTAAATAACAGAAATTAAAGGGCA
* *
1667093 AAAATGTAAATGAA-AAAAATTAAA
1 GAAATGTAAAT-AACAGAAATTAAA
1667117 AGAATCTAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
27 2 0.03
28 12 0.17
29 53 0.75
30 4 0.06
ACGTcount: A:0.56, C:0.06, G:0.15, T:0.22
Consensus pattern (29 bp):
GAAATGTAAATAACAGAAATTAAAGGGCA
Found at i:1667281 original size:31 final size:31
Alignment explanation
Indices: 1667241--1667342 Score: 159
Period size: 31 Copynumber: 3.3 Consensus size: 31
1667231 AATATAAAAA
* *
1667241 TTAGCGGTTAGTGGTTAATAAATTAGTAAAG
1 TTAGTGGTTAGTGGTTAATAAATTAGCAAAG
*
1667272 TTAGTGGTTAGTGGCTAATAAATTAGCAAAG
1 TTAGTGGTTAGTGGTTAATAAATTAGCAAAG
*
1667303 TTAGTTGTTAGTGGTTAATAAATTAGCAAAG
1 TTAGTGGTTAGTGGTTAATAAATTAGCAAAG
*
1667334 TTAGAGGTT
1 TTAGTGGTT
1667343 TAATTAGAAT
Statistics
Matches: 64, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 64 1.00
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.36
Consensus pattern (31 bp):
TTAGTGGTTAGTGGTTAATAAATTAGCAAAG
Found at i:1669429 original size:133 final size:134
Alignment explanation
Indices: 1669010--1669509 Score: 533
Period size: 129 Copynumber: 3.8 Consensus size: 134
1669000 ACTTCGTTTT
* * * * * * * * *
1669010 TCTTTAGGGAAGGTTGAATTGAAGTCGATTTTCTTAACTTCTCTTCAAGAAGACCAAATCTGAAA
1 TCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
* * * * * * * *
1669075 TAA--ATAATATATGTTCCACTACTCGTTAGAGGAGATCAGACTCAAAAAAATTTTGATCCACGT
66 GAAGGAGAATCTA--CTCCACTACTCTTTAGGGGAGATCAGACTCGAAAAAATTTTGATCCACTT
1669138 CGCTGC
129 CGCTGC
* *
1669144 TCTTCAGGGAAGATTGAATCAAACTTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAA
1 TCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
* * * * *
1669209 GAAGAAGAAAT-TTCTCCACT--T-TTTTGGGTA-ATCAGA-TCTG-AAAAATTTTGATTCACTT
66 GAAGGAG-AATCTACTCCACTACTCTTTAGGGGAGATCAGACTC-GAAAAAATTTTGATCCACTT
1669267 CGCTGC
129 CGCTGC
* * * * *
1669273 TCATCATGAAAAATTGAATCGAACTTGATTTGCTTCACTTCTCTTCAGGAAGACC-AATCTGAAA
1 TCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
* *
1669337 GAAGGAGAATCTACTCCACTACTCTTTAGGGGAGATCATACTCGAAAAAATTGTGATCCACTTCG
66 GAAGGAGAATCTACTCCACTACTCTTTAGGGGAGATCAGACTCGAAAAAATTTTGATCCACTTCG
1669402 CTGC
131 CTGC
* * * *
1669406 TCTTCAGGGAAGATTGAATCGAACTTGATTTTCTTCACCGCTCTTCAGGATGACCAAATATG--A
1 TCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
*
1669469 -ATGGAGAATCTACTCCA-TCACTCTTTAGGGGAGATCAGACT
66 GAAGGAGAATCTACTCCACT-ACTCTTTAGGGGAGATCAGACT
1669510 TAGAAATTTT
Statistics
Matches: 306, Mismatches: 47, Indels: 29
0.80 0.12 0.08
Matches are distributed among these distances:
127 3 0.01
128 23 0.08
129 72 0.24
130 8 0.03
131 49 0.16
132 8 0.03
133 71 0.23
134 67 0.22
136 2 0.01
137 3 0.01
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (134 bp):
TCTTCAGGGAAGATTGAATCGAACTTGATTTGCTTCACTGCTCTTCAGGAAGACCAAATCTGAAA
GAAGGAGAATCTACTCCACTACTCTTTAGGGGAGATCAGACTCGAAAAAATTTTGATCCACTTCG
CTGC
Found at i:1669587 original size:262 final size:262
Alignment explanation
Indices: 1669036--1669524 Score: 599
Period size: 262 Copynumber: 1.9 Consensus size: 262
1669026 AATTGAAGTC
* * * * * * *
1669036 GATTTTCTTAACTTCTCTTCAAGAAGACCAAATCTGAAATAA--ATAATATATGTTCCACTACTC
1 GATTTGCTTCACTTCTCTTCAGGAAGACC-AATCTGAAAGAAGGAGAATCTA--CTCCACTACTC
*
1669099 GTTAGAGGAGATCAGACTCAAAAAAATTTTGATCCACGTCGCTGCTCTTCAGGGAAGATTGAATC
63 GTTAGAGGAGATCAGACTCAAAAAAATTGTGATCCACGTCGCTGCTCTTCAGGGAAGATTGAATC
* * * * *
1669164 AAACTTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAAATTTCTCCACT
128 AAACTTGATTTGCTTCACCGCTCTTCAGGAAGACCAAATATGAAAGAAGAAGAAACTCCTCCACT
* * * * * *
1669229 TTTTTGGGTAATCAGATCTGAAAAATTTTGATTCACTTCGCTGCTCATCATGAAAAATTGAATCG
193 CTTTAGGGGAATCAGATCTGAAAAATTTTGATTCACTTCACTGCTCACCAAGAAAAATTGAATCG
1669294 AACTT
258 AACTT
*
1669299 GATTTGCTTCACTTCTCTTCAGGAAGACCAATCTGAAAGAAGGAGAATCTACTCCACTACTCTTT
1 GATTTGCTTCACTTCTCTTCAGGAAGACCAATCTGAAAGAAGGAGAATCTACTCCACTACTCGTT
* * * * *
1669364 AGGGGAGATCATACTCGAAAAAATTGTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAA
66 AGAGGAGATCAGACTCAAAAAAATTGTGATCCACGTCGCTGCTCTTCAGGGAAGATTGAATCAAA
* * * * ***
1669429 CTTGATTTTCTTCACCGCTCTTCAGGATGACCAAATATGAATGGAGAATCTACTCCAT-CACTCT
131 CTTGATTTGCTTCACCGCTCTTCAGGAAGACCAAATATGAAAGAAGAAGAAACTCC-TCCACTCT
* *
1669493 TTAGGGGAGATCAGA-CTTAGAAATTTTGATTC
195 TTAGGGGA-ATCAGATCTGAAAAATTTTGATTC
1669525 TATTCATTGT
Statistics
Matches: 191, Mismatches: 31, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
262 152 0.80
263 33 0.17
264 6 0.03
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (262 bp):
GATTTGCTTCACTTCTCTTCAGGAAGACCAATCTGAAAGAAGGAGAATCTACTCCACTACTCGTT
AGAGGAGATCAGACTCAAAAAAATTGTGATCCACGTCGCTGCTCTTCAGGGAAGATTGAATCAAA
CTTGATTTGCTTCACCGCTCTTCAGGAAGACCAAATATGAAAGAAGAAGAAACTCCTCCACTCTT
TAGGGGAATCAGATCTGAAAAATTTTGATTCACTTCACTGCTCACCAAGAAAAATTGAATCGAAC
TT
Found at i:1669623 original size:262 final size:262
Alignment explanation
Indices: 1669036--1669638 Score: 583
Period size: 262 Copynumber: 2.3 Consensus size: 262
1669026 AATTGAAGTC
* * * * * ** *
1669036 GATTTTCTTAACTTCTCTTCAAGAAGACCAAATCTGAAATAAATA-ATATATGTTCCACTACTCG
1 GATTTGCTTCACTTCTCTTCAGGAAGA-CAAATATGAAAGAAGGAGA-ATATGTTCCACTACTCT
* *
1669100 TTAGAGGAGATCAGACTCAAAAAAATTTTGATCCACGTCGCTGCTCTTCAGGGAAGATTGAATCA
64 TTAGGGGAGATCAGACTCAAAAAAATTGTGATCCACGTCGCTGCTCTTCAGGGAAGATTGAATCA
* * * * * *
1669165 AACTTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATCTGAAAGAAGAAGAAATTTCTCCACTT
129 AACTTGATTTGCTTCACCGCTCTTCAGGAAGACCAAATATGAAAGAAGAAGAAACTCCTCCACTC
* * * * *
1669230 TTTTGGGTAATCAGATCTGAAAAATTTTGATTCACTTCGCTGCTCATCATGAAAAATTGAATCGA
194 TTTAGGGGAATCAGATCTGAAAAATTTTGATTCACTTCACTGCTCACCAAGAAAAATTGAATCGA
1669295 ACTT
259 ACTT
* * * **
1669299 GATTTGCTTCACTTCTCTTCAGGAAGACCAATCTGAAAGAAGGAGAATCTACTCCACTACTCTTT
1 GATTTGCTTCACTTCTCTTCAGGAAGACAAATATGAAAGAAGGAGAATATGTTCCACTACTCTTT
* * * *
1669364 AGGGGAGATCATACTCGAAAAAATTGTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAATCGAA
66 AGGGGAGATCAGACTCAAAAAAATTGTGATCCACGTCGCTGCTCTTCAGGGAAGATTGAATCAAA
* * * * ***
1669429 CTTGATTTTCTTCACCGCTCTTCAGGATGACCAAATATGAATGGAGAATCTACTCCAT-CACTCT
131 CTTGATTTGCTTCACCGCTCTTCAGGAAGACCAAATATGAAAGAAGAAGAAACTCC-TCCACTCT
* * * * ** *
1669493 TTAGGGGAGATCAGA-CTTAGAAATTTTGATTCTA-TTCATTGTTTGCCAAGAAATATTGAATC-
195 TTAGGGGA-ATCAGATCTGAAAAATTTTGATTC-ACTTCACTGCTCACCAAGAAAAATTGAATCG
*
1669555 AAGGTT
258 AA-CTT
*** * * **
1669561 GATTTG-TTTTGTTGC-CTTTCAGGAAGATCAAATATGAAA-AATGAGGATATGTTCTGCTACTC
1 GATTTGCTTCACTT-CTC-TTCAGGAAGA-CAAATATGAAAGAAGGAGAATATGTTCCACTACTC
* *
1669623 TTTAGGAGAAATCAGA
63 TTTAGGGGAGATCAGA
1669639 TCTTTTAAAG
Statistics
Matches: 274, Mismatches: 58, Indels: 17
0.79 0.17 0.05
Matches are distributed among these distances:
261 7 0.03
262 225 0.82
263 42 0.15
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (262 bp):
GATTTGCTTCACTTCTCTTCAGGAAGACAAATATGAAAGAAGGAGAATATGTTCCACTACTCTTT
AGGGGAGATCAGACTCAAAAAAATTGTGATCCACGTCGCTGCTCTTCAGGGAAGATTGAATCAAA
CTTGATTTGCTTCACCGCTCTTCAGGAAGACCAAATATGAAAGAAGAAGAAACTCCTCCACTCTT
TAGGGGAATCAGATCTGAAAAATTTTGATTCACTTCACTGCTCACCAAGAAAAATTGAATCGAAC
TT
Found at i:1671374 original size:13 final size:13
Alignment explanation
Indices: 1671356--1671380 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1671346 TCTTTGTGTA
1671356 TTTTCTGTCTCTC
1 TTTTCTGTCTCTC
1671369 TTTTCTGTCTCT
1 TTTTCTGTCTCT
1671381 GTCTCCGTGT
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:0.00, C:0.28, G:0.08, T:0.64
Consensus pattern (13 bp):
TTTTCTGTCTCTC
Found at i:1671709 original size:9 final size:10
Alignment explanation
Indices: 1671676--1671714 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
1671666 TGGGCTTGTA
1671676 ATTTAATATT
1 ATTTAATATT
1671686 ATTTATATATGT
1 ATTTA-ATAT-T
1671698 ATTTAATA-T
1 ATTTAATATT
1671707 ATTTAATA
1 ATTTAATA
1671715 ATAATAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.33
10 5 0.19
11 7 0.26
12 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:1671718 original size:3 final size:3
Alignment explanation
Indices: 1671710--1671789 Score: 106
Period size: 3 Copynumber: 26.7 Consensus size: 3
1671700 TTAATATATT
* * * *
1671710 TAA TAA TAA TAA TGA TAA TGA TAA TAA TAA TAA TAA TAA TTA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
1671758 TAA TAA TAA TTA TAA TAA TAA TTA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1671790 TTTATAATAT
Statistics
Matches: 65, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:1671794 original size:12 final size:12
Alignment explanation
Indices: 1671701--1671798 Score: 99
Period size: 12 Copynumber: 8.2 Consensus size: 12
1671691 TATATGTATT
1671701 TAATATATT-TAA
1 TAATA-ATTATAA
* *
1671713 TAATAATAATGA
1 TAATAATTATAA
* *
1671725 TAATGATAATAA
1 TAATAATTATAA
*
1671737 TAATAATAATAA
1 TAATAATTATAA
* * *
1671749 TTATAGTAATAA
1 TAATAATTATAA
1671761 TAATAATTATAA
1 TAATAATTATAA
1671773 TAATAATTATAA
1 TAATAATTATAA
*
1671785 TAATATTTATAA
1 TAATAATTATAA
1671797 TA
1 TA
1671799 TGGGTAAAAA
Statistics
Matches: 74, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
11 2 0.03
12 72 0.97
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (12 bp):
TAATAATTATAA
Found at i:1672367 original size:116 final size:113
Alignment explanation
Indices: 1672118--1672563 Score: 630
Period size: 113 Copynumber: 3.9 Consensus size: 113
1672108 ATAGAATTAT
* *
1672118 GCAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
1672183 ATTATGAAC-TTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAG
66 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAA
* *
1672230 GTAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTT
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTT
* * * * *
1672295 CTCATTATGAACTCTAC-CTGGTAATGTTGATCCATCAAATGATGAATTCAA
63 CTCATTATGAACT-TTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAA
* *
1672346 ACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* * **
1672411 ATTATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGAT-AGATTTGA
66 ATTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGA-ATTCAA
*
1672459 GCAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
1 GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
* *
1672524 ATTATGAAATTTCTCTGGAAATG-TCAATCCATCAAATGAT
66 ATTATGAACTTTCTCTGGAAAAGAT-AATCCATCAAATGAT
1672564 AGATTTGAAT
Statistics
Matches: 295, Mismatches: 31, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
112 54 0.18
113 141 0.48
115 20 0.07
116 78 0.26
117 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (113 bp):
GCAAAAAGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTC
ATTATGAACTTTCTCTGGAAAAGATAATCCATCAAATGATGAATTCAA
Found at i:1672510 original size:229 final size:225
Alignment explanation
Indices: 1672119--1672563 Score: 723
Period size: 229 Copynumber: 2.0 Consensus size: 225
1672109 TAGAATTATG
*
1672119 CAAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
1672184 TTATGAACTTCTCTGGAAAAGATAATCCATCAATTGATGAATTCAGGTAAAAGGTTGAACAAATT
66 TTATGAACTTCTCTGGAAAAAATAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATT
*
1672249 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTAC-C
131 CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT---GAGTTCTTCTCATTATGAAAT-TACTC
* **
1672313 TGGTAATGTTGATCCATCAAATGATGAATTCAAA
192 TGGAAATGTCAATCCATCAAATGATGAATTCAAA
1672347 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
1672412 TTATGAACTTTCTCTGGAAAAAATAATCCATCAAGTGATAGATTTGA-GCAAAAGGTTGAACAAA
66 TTATGAAC-TTCTCTGGAAAAAATAATCCATCAAGTGAT-GAATTCAGGCAAAAGGTTGAACAAA
*
1672476 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAATTTCTCTG
129 TTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAATTACTCTG
1672541 GAAATGTCAATCCATCAAATGAT
194 GAAATGTCAATCCATCAAATGAT
1672564 AGATTTGAAT
Statistics
Matches: 203, Mismatches: 11, Indels: 8
0.91 0.05 0.04
Matches are distributed among these distances:
225 2 0.01
226 43 0.21
228 72 0.35
229 81 0.40
230 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.38
Consensus pattern (225 bp):
CAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTCTCTGGAAAAAATAATCCATCAAGTGATGAATTCAGGCAAAAGGTTGAACAAATT
CTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAATTACTCTGGA
AATGTCAATCCATCAAATGATGAATTCAAA
Found at i:1673207 original size:83 final size:83
Alignment explanation
Indices: 1673068--1673461 Score: 761
Period size: 83 Copynumber: 4.7 Consensus size: 83
1673058 GTAGTTCCTA
1673068 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1673133 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
1673151 CCAAACCAGATCAGATAACTTAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
*
1673216 ATTCAATGATTGGTTCTA
66 ATTCAATGATTGGTTCTG
1673234 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1673299 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
1673317 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
1673382 ATTCAATGATTGGTTCTG
66 ATTCAATGATTGGTTCTG
*
1673400 CCAAACCAGATCAGATAACTCAAAGAACACTTCCATAAGATGCTATTGGCAAATTCATCTTC
1 CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTC
1673462 CAGTTAATGA
Statistics
Matches: 306, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
83 306 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (83 bp):
CCAAACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGCAAATTCATCTTCTAA
ATTCAATGATTGGTTCTG
Found at i:1674608 original size:1 final size:1
Alignment explanation
Indices: 1674597--1674651 Score: 56
Period size: 1 Copynumber: 55.0 Consensus size: 1
1674587 TTGACCCCAC
* * * * * *
1674597 TTTTTTCTTTTTCTTTTTTCTTTTTTTTTTTTTCTTTTTTTTTCTTTTCTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1674652 CTTCAAGCAT
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (1 bp):
T
Found at i:1674608 original size:7 final size:7
Alignment explanation
Indices: 1674596--1674654 Score: 84
Period size: 7 Copynumber: 8.4 Consensus size: 7
1674586 CTTGACCCCA
1674596 CTTTTTT
1 CTTTTTT
1674603 C-TTTTT
1 CTTTTTT
1674609 CTTTTTT
1 CTTTTTT
1674616 CTTTTTT
1 CTTTTTT
*
1674623 TTTTTTT
1 CTTTTTT
1674630 CTTTTTT
1 CTTTTTT
*
1674637 TTTCTTTT
1 CTT-TTTT
1674645 CTTTTTT
1 CTTTTTT
1674652 CTT
1 CTT
1674655 CAAGCATAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
6 6 0.13
7 34 0.74
8 6 0.13
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (7 bp):
CTTTTTT
Found at i:1674614 original size:13 final size:13
Alignment explanation
Indices: 1674596--1674654 Score: 81
Period size: 12 Copynumber: 4.8 Consensus size: 13
1674586 CTTGACCCCA
1674596 CTTTTTTCTTTTT
1 CTTTTTTCTTTTT
1674609 CTTTTTTCTTTTT
1 CTTTTTTCTTTTT
1674622 -TTTTTT-TTCTTT
1 CTTTTTTCTT-TTT
1674634 -TTTTTTC-TTTT
1 CTTTTTTCTTTTT
1674645 CTTTTTTCTT
1 CTTTTTTCTT
1674655 CAAGCATAAT
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
11 5 0.12
12 23 0.55
13 14 0.33
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
CTTTTTTCTTTTT
Found at i:1685345 original size:18 final size:19
Alignment explanation
Indices: 1685296--1685345 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
1685286 AAATACTTGC
1685296 AAATAAA-ATAAAACATAT
1 AAATAAATATAAAACATAT
*
1685314 AAAT-ATTATAAAA-ATAAT
1 AAATAAATATAAAACAT-AT
1685332 AAATAAATATAAAA
1 AAATAAATATAAAA
1685346 AATTTGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 3 0.11
18 16 0.59
19 8 0.30
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
AAATAAATATAAAACATAT
Found at i:1687253 original size:16 final size:16
Alignment explanation
Indices: 1687228--1687296 Score: 131
Period size: 16 Copynumber: 4.4 Consensus size: 16
1687218 TGACGTGGCA
1687228 GCGG-TGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
1687243 GCGGCTGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
1687259 GCGGCTGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
1687275 GCGGCTGGAGGCAGAG
1 GCGGCTGGAGGCAGAG
1687291 GCGGCT
1 GCGGCT
1687297 AGGGATTAGG
Statistics
Matches: 53, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
15 4 0.08
16 49 0.92
ACGTcount: A:0.17, C:0.19, G:0.57, T:0.07
Consensus pattern (16 bp):
GCGGCTGGAGGCAGAG
Found at i:1687415 original size:9 final size:10
Alignment explanation
Indices: 1687382--1687420 Score: 53
Period size: 9 Copynumber: 3.8 Consensus size: 10
1687372 TGGGCTTGTA
1687382 ATTTAATATT
1 ATTTAATATT
1687392 ATTTATATATGT
1 ATTTA-ATAT-T
1687404 ATTTAATA-T
1 ATTTAATATT
1687413 ATTTAATA
1 ATTTAATA
1687421 ATAATAATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
9 9 0.33
10 5 0.19
11 7 0.26
12 6 0.22
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:1687424 original size:3 final size:3
Alignment explanation
Indices: 1687416--1687501 Score: 136
Period size: 3 Copynumber: 28.7 Consensus size: 3
1687406 TTAATATATT
* * *
1687416 TAA TAA TAA TAA TGA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
1687464 TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1687502 TTTATAATAT
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 75 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1688675 original size:22 final size:22
Alignment explanation
Indices: 1688638--1688685 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
1688628 CTTTTAGTTA
* *
1688638 TTTTGTATTTTTTCTTTTCTTTC
1 TTTTGTATTTTCTCTTAT-TTTC
1688661 TTTT-TATTTTCTCTTATTTTC
1 TTTTGTATTTTCTCTTATTTTC
1688682 TTTT
1 TTTT
1688686 CTTCAAGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 8 0.35
22 11 0.48
23 4 0.17
ACGTcount: A:0.06, C:0.12, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTGTATTTTCTCTTATTTTC
Found at i:1696589 original size:31 final size:31
Alignment explanation
Indices: 1696542--1696637 Score: 129
Period size: 31 Copynumber: 3.1 Consensus size: 31
1696532 AATATATAAA
* *
1696542 TTAGCGGATAGTGGTTAACAAATTAGCAAAG
1 TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
*
1696573 TTAGCGGTTAGCGGTTAATAAATTAGCAAAG
1 TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
* * * *
1696604 TTAGTGGTTATTGGTTATTAAATTAGCAATG
1 TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
1696635 TTA
1 TTA
1696638 ACGTTTAAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 57 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (31 bp):
TTAGCGGTTAGTGGTTAATAAATTAGCAAAG
Found at i:1700887 original size:30 final size:30
Alignment explanation
Indices: 1700851--1700909 Score: 118
Period size: 30 Copynumber: 2.0 Consensus size: 30
1700841 TTCCAAAATA
1700851 ATTTTCTAAGTATATTCGATATAATTATTG
1 ATTTTCTAAGTATATTCGATATAATTATTG
1700881 ATTTTCTAAGTATATTCGATATAATTATT
1 ATTTTCTAAGTATATTCGATATAATTATT
1700910 CGAATATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.34, C:0.07, G:0.08, T:0.51
Consensus pattern (30 bp):
ATTTTCTAAGTATATTCGATATAATTATTG
Found at i:1709448 original size:30 final size:30
Alignment explanation
Indices: 1709412--1709472 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
1709402 TTTTCCAAAA
1709412 TGATTTTCTAAGTATATTCGATATAATTAT
1 TGATTTTCTAAGTATATTCGATATAATTAT
1709442 TGATTTTCTAAGTATATTCGATATAATTAT
1 TGATTTTCTAAGTATATTCGATATAATTAT
1709472 T
1 T
1709473 CGAATATCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.33, C:0.07, G:0.10, T:0.51
Consensus pattern (30 bp):
TGATTTTCTAAGTATATTCGATATAATTAT
Found at i:1719191 original size:80 final size:81
Alignment explanation
Indices: 1719055--1719625 Score: 672
Period size: 80 Copynumber: 7.1 Consensus size: 81
1719045 ATTATTTTAA
* * **
1719055 AGTAAAAGATTAATGGTCTAGCTATGCATTTGA-ACGAAAGGTGTTTATTATGCCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACA-GAAAGGTGTCAATTATGCCAGTTAGATGA
*
1719119 AAGATTAAAT-CCTTTG
65 AAGGTTAAATACCTTTG
* * * * * * *
1719135 AGTAAAAGATTAATGGCCTATCTTTACATTTGATATAAATGTGAT-AATTATACCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTG-TCAATTATGCCAGTTAGATGA
1719199 AAGGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
*
1719216 AGTAAAAGATTAATGGCCTAGCT-TTCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1719280 AGGTTAAATACATTTG
66 AGGTTAAATACCTTTG
* * * * * *
1719296 AGTAAAAGATTAATAGCCTAGCTGT--AATCGACAGAAATGTGTCAATTATGTCAGTTAGATAAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
* *
1719359 ATGTTAAATACTTTTG
66 AGGTTAAATACCTTTG
* * ** ** *
1719375 AGTAAAAGAATAATGGCCTAGCTGTGCATTT-AGTAGAAAACTGTCAATTACACTAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGA-CAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
1719439 AAGGTTAAATACCTTTA
65 AAGGTTAAATACCTTTG
* * * *
1719456 AGTAGAAGATTAAT-GCCTAGCTGTGTATTTGACAAAAAGGTGTCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
*
1719520 AGGTTAAATACCTTCG
66 AGGTTAAATACCTTTG
* * * * ** *
1719536 AGTAAAAGATTAATGTCCTAGATGTGCATTTGATAGAAAGGTATCAATTATGTTAGTTAGTTGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1719601 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
*
1719617 GGTAAAAGA
1 AGTAAAAGA
1719626 CTAAAAACTT
Statistics
Matches: 418, Mismatches: 63, Indels: 19
0.84 0.13 0.04
Matches are distributed among these distances:
79 71 0.17
80 199 0.48
81 148 0.35
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:1719543 original size:161 final size:161
Alignment explanation
Indices: 1719055--1719625 Score: 699
Period size: 161 Copynumber: 3.6 Consensus size: 161
1719045 ATTATTTTAA
* * ** *
1719055 AGTAAAAGATTAATGGTCTAGCTATGCATTTGA-ACGAAAGGTGTTTATTATGCCAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGATA-GAAAGGTGTCAATTATGCTAGTTAGATGA
* * * * *
1719119 AAGATTAAAT-CCTTTGAGTAAAAGATTAATGGCCTATCTT-TACATTTGATATAAATGTGAT-A
65 AAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTTGT--ATTTGACAAAAATGTG-TCA
**
1719181 ATTATACCAGTTAGATGAAAGGTTAAATACCTTTG
127 ATTATGTCAGTTAGATGAAAGGTTAAATACCTTTG
* * *
1719216 AGTAAAAGATTAATGGCCTAGCT-TTCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCTAGTTAGATGAA
* * * *
1719280 AGGTTAAATACATTTGAGTAAAAGATTAATAGCCTAGC-TGTAATCGACAGAAATGTGTCAATTA
66 AGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTTGTATTTGACAAAAATGTGTCAATTA
* * *
1719344 TGTCAGTTAGATAAAATGTTAAATACTTTTG
131 TGTCAGTTAGATGAAAGGTTAAATACCTTTG
* ** **
1719375 AGTAAAAGAATAATGGCCTAGCTGTGCATTT-AGTAGAAAACTGTCAATTACACTAGTTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGA-TAGAAAGGTGTCAATTATGCTAGTTAGATGA
* * *
1719439 AAGGTTAAATACCTTTAAGTAGAAGATTAAT-GCCTAGCTGTGTATTTGACAAAAAGGTGTCAAT
65 AAGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCT-TGTATTTGACAAAAATGTGTCAAT
*
1719503 TATGTCAGTTAGATGAAAGGTTAAATACCTTCG
129 TATGTCAGTTAGATGAAAGGTTAAATACCTTTG
* * * * *
1719536 AGTAAAAGATTAATGTCCTAGATGTGCATTTGATAGAAAGGTATCAATTATGTTAGTTAGTTGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCTAGTTAGATGAA
*
1719601 AGGTTAAATACCTTTGGGTAAAAGA
66 AGGTTAAATACCTTTGAGTAAAAGA
1719626 CTAAAAACTT
Statistics
Matches: 352, Mismatches: 49, Indels: 18
0.84 0.12 0.04
Matches are distributed among these distances:
158 1 0.00
159 73 0.21
160 104 0.30
161 173 0.49
162 1 0.00
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (161 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGATAGAAAGGTGTCAATTATGCTAGTTAGATGAA
AGGTTAAATACCTTTGAGTAAAAGATTAATAGCCTAGCTTGTATTTGACAAAAATGTGTCAATTA
TGTCAGTTAGATGAAAGGTTAAATACCTTTG
Found at i:1737653 original size:81 final size:81
Alignment explanation
Indices: 1737515--1738170 Score: 938
Period size: 81 Copynumber: 8.1 Consensus size: 81
1737505 ATTGTTTCAA
* * * * * *
1737515 AGTAAAATATTAATGGCGTAGTTGTGCATTTGGCATAAATGTGTCAATCATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
* *
1737580 AGTTTAAATACCTTTA
66 AGGTTAAATACCTTTG
* * * *
1737596 AGTAAAAGATTAATGGCCTAACTGTGCATTTGATATAAATGTGTCAATTATGACAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
1737661 ATGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
1737677 AGTAAAAGATTAATTGCCTAGCTGTGCATTTGACAGAAAGGTATCAATTATGTCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
* *
1737742 AGGTAAAATACGTTTG
66 AGGTTAAATACCTTTG
* * * *
1737758 AGTAAAAGATTATTGGCCTAGTTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
1737823 AGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* *
1737839 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGGA-AGAAATGTGTCGATTATGCCAATTAGATGA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTT-GACAGAAATGTGTCAATTATGCCAGTTAGATGA
1737903 AAGGTTAAATACCTTTG
65 AAGGTTAAATACCTTTG
* *
1737920 AGTAAAAGATTAAT-GCCTAGCTGTGCATTTGACAGAAAGGTGTCAATTATGCAAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
1737984 AGGTTAAATACCTTTA
66 AGGTTAAATACCTTTG
* ** *
1738000 AGTATAAGATTAATCACCTAGCTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
1738065 TGGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
* * * *
1738081 AGTAAAAGATTAATCGCGTAGCTGTGCATTTGACAGAAATATGTCCATTATGCCAGTTAGATGAA
1 AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
*
1738146 ACGTTAAATACCTTTG
66 AGGTTAAATACCTTTG
*
1738162 GGTAAAAGA
1 AGTAAAAGA
1738171 CTAACGACTT
Statistics
Matches: 516, Mismatches: 56, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
79 2 0.00
80 71 0.14
81 441 0.85
82 2 0.00
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (81 bp):
AGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAATTATGCCAGTTAGATGAA
AGGTTAAATACCTTTG
Found at i:1738072 original size:242 final size:243
Alignment explanation
Indices: 1737514--1738170 Score: 978
Period size: 242 Copynumber: 2.7 Consensus size: 243
1737504 AATTGTTTCA
* ** * * * *
1737514 AAGTAAAATATTAATGGCGTAGTTGTGCATTTGGCATAAATGTGTCAATCATGCCAGTTAGATGA
1 AAGTAAAAGATTAATCACCTAGCTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGA
* * * * *
1737579 AAGTTTAAATACCTTTAAGTAAAAGATTAATGGCCTAACTGTGCATTTGATATAAATGTGTCAAT
66 AAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAAT
* *
1737644 TATGACAGTTAGATGAAATGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGTGCATTTG
131 TATGCCAGTTAGATGAAACGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGTGCATTTG
*
1737709 ACAGAAAGGTATCAATTATGTCAGTTAGATGAAAGGTAAAATACGTTT
196 ACAGAAAGGTATCAATTATGTCAGTTAGATGAAAGGTAAAATACCTTT
* * ** * *
1737757 GAGTAAAAGATTATTGGCCTAGTTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGA
1 AAGTAAAAGATTAATCACCTAGCTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGA
*
1737822 AAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGGA-AGAAATGTGTCGA
66 AAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTT-GACAGAAATGTGTCAA
* *
1737886 TTATGCCAATTAGATGAAAGGTTAAATACCTTTGAGTAAAAGATTAA-TGCCTAGCTGTGCATTT
130 TTATGCCAGTTAGATGAAACGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGTGCATTT
* *
1737950 GACAGAAAGGTGTCAATTATG-CAAGTTAGATGAAAGGTTAAATACCTTT
195 GACAGAAAGGTATCAATTATGTC-AGTTAGATGAAAGGTAAAATACCTTT
*
1737999 AAGTATAAGATTAATCACCTAGCTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGA
1 AAGTAAAAGATTAATCACCTAGCTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGA
* * * * *
1738064 ATGGTTAAATACCTTTGAGTAAAAGATTAATCGCGTAGCTGTGCATTTGACAGAAATATGTCCAT
66 AAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAAT
*
1738129 TATGCCAGTTAGATGAAACGTTAAATACCTTTGGGTAAAAGA
131 TATGCCAGTTAGATGAAACGTTAAATACCTTTGAGTAAAAGA
1738171 CTAACGACTT
Statistics
Matches: 378, Mismatches: 33, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
241 3 0.01
242 215 0.57
243 158 0.42
244 2 0.01
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (243 bp):
AAGTAAAAGATTAATCACCTAGCTGTGCATTTGACATAAATGTGTCAATTATGCCAGTTAGATGA
AAGGTTAAATACCTTTGAGTAAAAGATTAATGGCCTAGCTGTGCATTTGACAGAAATGTGTCAAT
TATGCCAGTTAGATGAAACGTTAAATACCTTTGAGTAAAAGATTAATTGCCTAGCTGTGCATTTG
ACAGAAAGGTATCAATTATGTCAGTTAGATGAAAGGTAAAATACCTTT
Found at i:1757408 original size:45 final size:42
Alignment explanation
Indices: 1757357--1757470 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 42
1757347 TAAAGTTCAC
1757357 GGCGTTTGTTAACCAAAAACGCCACAATAGGTAACGATATATAGA
1 GGCGTTTGTTAA-C--AAACGCCACAATAGGTAACGATATATAGA
* * * * *
1757402 GGCGTTTATTTAACAAACGCCGCAATAGGTATCGATATTTAGC
1 GGCGTTT-GTTAACAAACGCCACAATAGGTAACGATATATAGA
*
1757445 GGCGTTTGTCTTAA-AAACGCCGCAAT
1 GGCGTTTG--TTAACAAACGCCACAAT
1757471 TAGTGTTAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
43 44 0.73
44 4 0.07
45 8 0.13
46 4 0.07
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (42 bp):
GGCGTTTGTTAACAAACGCCACAATAGGTAACGATATATAGA
Done.