Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007923.1 Hibiscus syriacus cultivar Beakdansim tig00110328_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: 8415618
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 27 of 40
Found at i:5528094 original size:12 final size:12
Alignment explanation
Indices: 5528058--5528110 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
5528048 TTGTAATATT
5528058 ATTATTACTTTTA
1 ATTATTAC-TTTA
*
5528071 A-TA-TATTTTA
1 ATTATTACTTTA
5528081 ATTATTACTTTA
1 ATTATTACTTTA
*
5528093 ATTATTA-TTTT
1 ATTATTACTTTA
5528104 ATTATTA
1 ATTATTA
5528111 TTTTTTCTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 5 0.14
11 14 0.40
12 15 0.43
13 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (12 bp):
ATTATTACTTTA
Found at i:5528115 original size:12 final size:12
Alignment explanation
Indices: 5528056--5528114 Score: 63
Period size: 11 Copynumber: 5.2 Consensus size: 12
5528046 ATTTGTAATA
5528056 TTATTATTACTT
1 TTATTATTACTT
*
5528068 TTAATA-TA-TT
1 TTATTATTACTT
5528078 TTAATTATTACTT
1 TT-ATTATTACTT
*
5528091 TAATTATTA-TT
1 TTATTATTACTT
5528102 TTATTATTA-TT
1 TTATTATTACTT
5528113 TT
1 TT
5528115 TTCTTAGCCT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 4 0.10
11 19 0.47
12 14 0.35
13 3 0.08
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATTATTACTT
Found at i:5528130 original size:2 final size:2
Alignment explanation
Indices: 5528125--5528173 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
5528115 TTCTTAGCCT
5528125 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5528167 TA TA TA T
1 TA TA TA T
5528174 TTGTTTAAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5528411 original size:114 final size:114
Alignment explanation
Indices: 5528186--5528404 Score: 259
Period size: 114 Copynumber: 1.9 Consensus size: 114
5528176 GTTTAAATAA
* *
5528186 TAATATTTACTTATTTTTAATATTAAAGAAAATGACTGTCTTAAAGCACCTATAAGTCCGTTTTC
1 TAATATTTACTTATTTTTAATATTAAAGAAAATGACTGTCTTAAAGCACCTAGAAGTCCCTTTTC
* ** * *
5528251 TGATACTTTTTATCCTATAAAATATATATTAATTTTTAAAGAAATATTT
66 TGATACTTTCTATAATAAAAAATATATATTAATATTTAAAGAAATATTT
* *
5528300 TAATATTTATTTATTTTTTAATA-TAGAAGAAAA-GAGTTGTCTTAAAGCACCTAGAA-TCCCTT
1 TAATATTTACTTA-TTTTTAATATTA-AAGAAAATGA-CTGTCTTAAAGCACCTAGAAGTCCCTT
* *
5528362 TTCTGATA-TTTCTA-AATAAATAAATATCTTATTTATATTTAAA
63 TTCTGATACTTTCTATAATAAA-AAATAT-ATATTAATATTTAAA
5528405 TTAATATATT
Statistics
Matches: 89, Mismatches: 11, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
112 3 0.03
113 11 0.12
114 41 0.46
115 34 0.38
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.44
Consensus pattern (114 bp):
TAATATTTACTTATTTTTAATATTAAAGAAAATGACTGTCTTAAAGCACCTAGAAGTCCCTTTTC
TGATACTTTCTATAATAAAAAATATATATTAATATTTAAAGAAATATTT
Found at i:5539346 original size:46 final size:46
Alignment explanation
Indices: 5539279--5540002 Score: 1281
Period size: 46 Copynumber: 15.8 Consensus size: 46
5539269 ACTATTTCCC
*
5539279 TCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
*
5539325 TCATCTGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
5539370 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
5539416 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
5539462 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
* *
5539508 TCATTTGTAAGTCCTTCAGTGCATGATGTTTTCAATAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
*
5539554 TCATCTGTAAGTCCTTCAATGCATGATGTTTTCAAAAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
* * * *
5539600 TAATCTATAAGCCCTTCAGTGTATGATGTTTTC-AAAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
5539645 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
5539691 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
* * *
5539737 TCATCTGTAAGTTCTTCAGTGCATGATGTTTTCAAAAACATTCAGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
*
5539783 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTTGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
*
5539829 TCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
5539875 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
*
5539921 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGAG
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
* *
5539967 TCATTTGTAAGCCCTTCAGTGCATGATGTTTTCAAA
1 TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAA
5540003 CATTTTCGTC
Statistics
Matches: 648, Mismatches: 28, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
45 85 0.13
46 563 0.87
ACGTcount: A:0.24, C:0.21, G:0.19, T:0.35
Consensus pattern (46 bp):
TCATCTGTAAGTCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGG
Found at i:5540150 original size:21 final size:21
Alignment explanation
Indices: 5540124--5540166 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
5540114 TTTTTTCATA
5540124 AATATAATA-ATTAATATTATT
1 AATATAATATA-TAATATTATT
*
5540145 AATATAATATATATTATTATT
1 AATATAATATATAATATTATT
5540166 A
1 A
5540167 TTATTTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 19 0.95
22 1 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATAATATATAATATTATT
Found at i:5540158 original size:18 final size:18
Alignment explanation
Indices: 5540137--5540194 Score: 68
Period size: 18 Copynumber: 3.3 Consensus size: 18
5540127 ATAATAATTA
5540137 ATATTATTAATATAATAT
1 ATATTATTAATATAATAT
*
5540155 ATATTATT-AT-TATTAT
1 ATATTATTAATATAATAT
*
5540171 TTATTATTAA-ATAAATAT
1 ATATTATTAATAT-AATAT
5540189 ATATTA
1 ATATTA
5540195 CAAATTACAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
16 12 0.36
17 4 0.12
18 17 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATATTATTAATATAATAT
Found at i:5540366 original size:21 final size:21
Alignment explanation
Indices: 5540342--5540384 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
5540332 TGTATTATTC
5540342 ATGCTAGGGTTTCTAACCCTA
1 ATGCTAGGGTTTCTAACCCTA
5540363 ATGCTAGGGTTTCTAACCCTA
1 ATGCTAGGGTTTCTAACCCTA
5540384 A
1 A
5540385 CGCCGTCGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (21 bp):
ATGCTAGGGTTTCTAACCCTA
Found at i:5541947 original size:23 final size:24
Alignment explanation
Indices: 5541916--5541974 Score: 81
Period size: 23 Copynumber: 2.6 Consensus size: 24
5541906 ATTTGTAATA
5541916 TATTATTACTTTTAA-TA-TATTT
1 TATTATTACTTTTAATTATTATTT
5541938 TAATTATTAC-TTTAATTATTATTT
1 T-ATTATTACTTTTAATTATTATTT
5541962 TATTATTA-TTTTA
1 TATTATTACTTTTA
5541975 TCTTAGCCTT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
22 6 0.18
23 21 0.64
24 6 0.18
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.64
Consensus pattern (24 bp):
TATTATTACTTTTAATTATTATTT
Found at i:5541953 original size:12 final size:12
Alignment explanation
Indices: 5541917--5541974 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
5541907 TTTGTAATAT
5541917 ATTATTACTTTTA
1 ATTATTAC-TTTA
*
5541930 A-TA-TATTTTA
1 ATTATTACTTTA
5541940 ATTATTACTTTA
1 ATTATTACTTTA
*
5541952 ATTATTA-TTTT
1 ATTATTACTTTA
*
5541963 ATTATTATTTTA
1 ATTATTACTTTA
5541975 TCTTAGCCTT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 5 0.13
11 14 0.37
12 18 0.47
13 1 0.03
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (12 bp):
ATTATTACTTTA
Found at i:5541968 original size:11 final size:11
Alignment explanation
Indices: 5541916--5541975 Score: 68
Period size: 11 Copynumber: 5.3 Consensus size: 11
5541906 ATTTGTAATA
5541916 TATTATTACTTT
1 TATTATTA-TTT
*
5541928 TAATA-TATTT
1 TATTATTATTT
5541938 TAATTATTACTTT
1 T-ATTATTA-TTT
*
5541951 AATTATTATTT
1 TATTATTATTT
5541962 TATTATTATTT
1 TATTATTATTT
5541973 TAT
1 TAT
5541976 CTTAGCCTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
10 4 0.10
11 21 0.51
12 13 0.32
13 3 0.07
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
TATTATTATTT
Found at i:5547235 original size:17 final size:17
Alignment explanation
Indices: 5547210--5547244 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
5547200 TTTTAATTAT
*
5547210 TAATTATATAATAATAA
1 TAATAATATAATAATAA
5547227 TAATAATATAATAATAA
1 TAATAATATAATAATAA
5547244 T
1 T
5547245 TAAATAAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
TAATAATATAATAATAA
Found at i:5547472 original size:35 final size:35
Alignment explanation
Indices: 5547374--5547931 Score: 751
Period size: 35 Copynumber: 15.8 Consensus size: 35
5547364 TGATATTATC
* * * *
5547374 TTGCTTTACTACTCTTCTGTTAAGGCTTGATTTTG-A
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGA--TTGCA
* * *
5547410 TTTGCTTCACTGCTCTTTTTGTGAAGACTGAATTGCA
1 -TTGCTTCACTACTC-TTTTGTGAAGGCTGGATTGCA
* *
5547447 TTGCTTTACTACTCTTTTGTGAAGACTGGATTTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGA-TTGCA
5547483 TTGCTTCACTACTCTTTTGTGAAGGAC-GGATTGCA
1 TTGCTTCACTACTCTTTTGTGAAGG-CTGGATTGCA
* * *
5547518 TTGCTTCACTAATCTTTTGTGAATGTTGGATTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
* *
5547553 TTGCTTCACTATTCTTTTATGAAGGCTGGATTTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGA-TTGCA
* *
5547589 TTGCTTCACTACTCTTTTGTGAAGACTGGATTACA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
* * * * *
5547624 TTGCATCATTTCTCTTTTGTGAAGGCTGAATTACA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
*
5547659 TTGCTTCACTACTCTTTTGTGAAGGCTGAATTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
*
5547694 TTGCTTCACTACTCTTTTGTGAAGACTGGATTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
5547729 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGA-TTGCA
* *
5547765 TTGCTTCACTACTCTTTTGTGAAGGTTGGATTACA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
5547800 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
* ***
5547835 TTTCTTTGTTACTCTTTTGTGAAGGCTGGATTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
*
5547870 TTCCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
*
5547905 TTGCTTCACTACTTTTTTGTGAAGGCT
1 TTGCTTCACTACTCTTTTGTGAAGGCT
5547932 AGATATGAAA
Statistics
Matches: 465, Mismatches: 49, Indels: 16
0.88 0.09 0.03
Matches are distributed among these distances:
35 328 0.71
36 112 0.24
37 14 0.03
38 11 0.02
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (35 bp):
TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
Found at i:5547569 original size:106 final size:106
Alignment explanation
Indices: 5547411--5547929 Score: 749
Period size: 106 Copynumber: 4.9 Consensus size: 106
5547401 TGATTTTGAT
* * * * *
5547411 TTGCTTCACTGCTCTTTTTGTGAAGACTGAATTGCATTGCTTTACTACTCTTTTGTGAAGACTGG
1 TTGCTTCACTACTC-TTTTGTGAAGGCTGGATTGCATTGCTTCACTACTCTTTTGTGAAGGCTGG
5547476 ATTTGCATTGCTTCACTACTCTTTTGTGAAGGAC-GGATTGCA
65 A-TTGCATTGCTTCACTACTCTTTTGTGAAGGACTGGATTGCA
* * * * *
5547518 TTGCTTCACTAATCTTTTGTGAATGTTGGATTGCATTGCTTCACTATTCTTTTATGAAGGCTGGA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCATTGCTTCACTACTCTTTTGTGAAGGCTGGA
*
5547583 TTTGCATTGCTTCACTACTCTTTTGTGAA-GACTGGATTACA
66 -TTGCATTGCTTCACTACTCTTTTGTGAAGGACTGGATTGCA
* * * * * *
5547624 TTGCATCATTTCTCTTTTGTGAAGGCTGAATTACATTGCTTCACTACTCTTTTGTGAAGGCTGAA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCATTGCTTCACTACTCTTTTGTGAAGGCTGGA
5547689 TTGCATTGCTTCACTACTCTTTTGTGAA-GACTGGATTGCA
66 TTGCATTGCTTCACTACTCTTTTGTGAAGGACTGGATTGCA
*
5547729 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTTGCATTGCTTCACTACTCTTTTGTGAAGGTTGG
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGA-TTGCATTGCTTCACTACTCTTTTGTGAAGGCTGG
*
5547794 ATTACATTGCTTCACTACTCTTTTGTGAAGG-CTGGATTGCA
65 ATTGCATTGCTTCACTACTCTTTTGTGAAGGACTGGATTGCA
* *** *
5547835 TTTCTTTGTTACTCTTTTGTGAAGGCTGGATTGCATTCCTTCACTACTCTTTTGTGAAGGCTGGA
1 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCATTGCTTCACTACTCTTTTGTGAAGGCTGGA
*
5547900 TTGCATTGCTTCACTACTTTTTTGTGAAGG
66 TTGCATTGCTTCACTACTCTTTTGTGAAGG
5547930 CTAGATATGA
Statistics
Matches: 370, Mismatches: 39, Indels: 8
0.89 0.09 0.02
Matches are distributed among these distances:
105 129 0.35
106 228 0.62
107 13 0.04
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.42
Consensus pattern (106 bp):
TTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCATTGCTTCACTACTCTTTTGTGAAGGCTGGA
TTGCATTGCTTCACTACTCTTTTGTGAAGGACTGGATTGCA
Found at i:5547712 original size:176 final size:175
Alignment explanation
Indices: 5547374--5547931 Score: 762
Period size: 176 Copynumber: 3.2 Consensus size: 175
5547364 TGATATTATC
* * * * * *
5547374 TTGCTTTACTACTCTTCTGTTAAGGCTTGATTTTG-ATTTGCTTCACTGCTCTTTTTGTGAAGAC
1 TTGCTTCACTATTCTTTTGTGAAGGCTGGA-TTTGCA-TTGCTTCACTACTC-TTTTGTGAAGAC
* * * * *
5547438 TGAATTGCATTGCTTTACTACTCTTTTGTGAAGACTGGATTTGCATTGCTTCACTACTCTTTTGT
63 TGGATTACATTGCTTCACTACTCTTTTGTGAAGGCT-GAATTGCATTGCTTCACTACTCTTTTGT
* *
5547503 GAAGGAC-GGATTGCATTGCTTCACTAATCTTTTGTGAATGTTGGATTGCA
127 GAAGG-CTGGATTGCATTGCTTCACTACTCTTTTGTGAA-GCTGGATTGCA
*
5547553 TTGCTTCACTATTCTTTTATGAAGGCTGGATTTGCATTGCTTCACTACTCTTTTGTGAAGACTGG
1 TTGCTTCACTATTCTTTTGTGAAGGCTGGATTTGCATTGCTTCACTACTCTTTTGTGAAGACTGG
* * * *
5547618 ATTACATTGCATCATTTCTCTTTTGTGAAGGCTGAATTACATTGCTTCACTACTCTTTTGTGAAG
66 ATTACATTGCTTCACTACTCTTTTGTGAAGGCTGAATTGCATTGCTTCACTACTCTTTTGTGAAG
*
5547683 GCTGAATTGCATTGCTTCACTACTCTTTTGTGAAGACTGGATTGCA
131 GCTGGATTGCATTGCTTCACTACTCTTTTGTGAAG-CTGGATTGCA
* **
5547729 TTGCTTCACTACTCTTTTGTGAAGGCTGGATTTGCATTGCTTCACTACTCTTTTGTGAAGGTTGG
1 TTGCTTCACTATTCTTTTGTGAAGGCTGGATTTGCATTGCTTCACTACTCTTTTGTGAAGACTGG
* * ***
5547794 ATTACATTGCTTCACTACTCTTTTGTGAAGGCTGGATTGCATTTCTTTGTTACTCTTTTGTGAAG
66 ATTACATTGCTTCACTACTCTTTTGTGAAGGCTGAATTGCATTGCTTCACTACTCTTTTGTGAAG
*
5547859 GCTGGATTGCATTCCTTCACTACTCTTTTGTGAAGGCTGGATTGCA
131 GCTGGATTGCATTGCTTCACTACTCTTTTGTGAA-GCTGGATTGCA
5547905 TTGCTTCACTACTT-TTTTGTGAAGGCT
1 TTGCTTCACTA-TTCTTTTGTGAAGGCT
5547932 AGATATGAAA
Statistics
Matches: 339, Mismatches: 35, Indels: 13
0.88 0.09 0.03
Matches are distributed among these distances:
175 2 0.01
176 252 0.74
177 43 0.13
178 17 0.05
179 25 0.07
ACGTcount: A:0.19, C:0.18, G:0.20, T:0.43
Consensus pattern (175 bp):
TTGCTTCACTATTCTTTTGTGAAGGCTGGATTTGCATTGCTTCACTACTCTTTTGTGAAGACTGG
ATTACATTGCTTCACTACTCTTTTGTGAAGGCTGAATTGCATTGCTTCACTACTCTTTTGTGAAG
GCTGGATTGCATTGCTTCACTACTCTTTTGTGAAGCTGGATTGCA
Found at i:5548157 original size:81 final size:82
Alignment explanation
Indices: 5547975--5548211 Score: 280
Period size: 81 Copynumber: 2.9 Consensus size: 82
5547965 TATTCAGAGA
* ** * *
5547975 AGATCAAACTAGATCCGTGCCACTTTTTCGGGTATCCAGATCAATTTTTGAATATGTATCTGCTC
1 AGATCAGACTAGATATGTGCCACTTTTTCGGGTATCCAGATCAATTTTTGAAGATGTATATGCTC
*
5548040 CACTATTCATTCAAGGG
66 CACTATTCAATCAAGGG
* * * * * *
5548057 AGATCGGATTGGATATGTGCCTCTTTTTCGGGTATTCAGATCAA-TTTTGAAGACGTATATGCTC
1 AGATCAGACTAGATATGTGCCACTTTTTCGGGTATCCAGATCAATTTTTGAAGATGTATATGCTC
* *
5548121 CATTATTCAATCAGGGG
66 CACTATTCAATCAAGGG
* * * * *
5548138 AGGTCAGACTAGATTTGTGCCACTTTTTTGGGGATCCAGATCAATTTTTGAAGATGTATTTGC-C
1 AGATCAGACTAGATATGTGCCACTTTTTCGGGTATCCAGATCAATTTTTGAAGATGTATATGCTC
5548202 CTACTATTCA
66 C-ACTATTCA
5548212 TTTAGGGGAA
Statistics
Matches: 127, Mismatches: 26, Indels: 4
0.81 0.17 0.03
Matches are distributed among these distances:
81 68 0.54
82 59 0.46
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (82 bp):
AGATCAGACTAGATATGTGCCACTTTTTCGGGTATCCAGATCAATTTTTGAAGATGTATATGCTC
CACTATTCAATCAAGGG
Found at i:5548220 original size:82 final size:82
Alignment explanation
Indices: 5547956--5548226 Score: 303
Period size: 82 Copynumber: 3.3 Consensus size: 82
5547946 AAGAATTTGT
* * * * **
5547956 TCCACTATTTATTCAGAGAAGATCAAACTAGATCCGTGCCACTTTTTCGGGTATCCAGATCAATT
1 TCCACTATTCATTCAGGGGAGATCAGACTAGATATGTGCCACTTTTTCGGGTATCCAGATCAATT
* *
5548021 TTTGAATATGTATCTGC
66 TTTGAAGATGTATATGC
* * * * * *
5548038 TCCACTATTCATTCAAGGGAGATCGGATTGGATATGTGCCTCTTTTTCGGGTATTCAGATCAA-T
1 TCCACTATTCATTCAGGGGAGATCAGACTAGATATGTGCCACTTTTTCGGGTATCCAGATCAATT
*
5548102 TTTGAAGACGTATATGC
66 TTTGAAGATGTATATGC
* * * * * *
5548119 TCCATTATTCAATCAGGGGAGGTCAGACTAGATTTGTGCCACTTTTTTGGGGATCCAGATCAATT
1 TCCACTATTCATTCAGGGGAGATCAGACTAGATATGTGCCACTTTTTCGGGTATCCAGATCAATT
*
5548184 TTTGAAGATGTATTTGC
66 TTTGAAGATGTATATGC
*
5548201 -CCTACTATTCATTTAGGGGAAGATCA
1 TCC-ACTATTCATTCAGGGG-AGATCA
5548227 TAATGAAATA
Statistics
Matches: 153, Mismatches: 33, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
81 68 0.44
82 80 0.52
83 5 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (82 bp):
TCCACTATTCATTCAGGGGAGATCAGACTAGATATGTGCCACTTTTTCGGGTATCCAGATCAATT
TTTGAAGATGTATATGC
Found at i:5548408 original size:129 final size:129
Alignment explanation
Indices: 5548133--5548513 Score: 573
Period size: 129 Copynumber: 2.9 Consensus size: 129
5548123 TTATTCAATC
* * * * *
5548133 AGGGGAGGTCAGACTAGATTTGTGCCACTTTTTTGGGGATCCAGATCAATTTTTGAAGATGTATT
1 AGGGGAGATCAGACTAGATCTGTGCCACTTTTTCGGGTATCCAGATCAATTTTTGAAGATGTATC
* * * ** *
5548198 TGCCCTACTATTCATTTAGGGGAAGATCATAATGAAATAAAAAGAATACATTACACTACTCTTTT
66 TGCTCTACTATTCATTAAGGGG-AGATCAAAATGAAATAAAAAGAATATGTTACACTACCCTTTT
* * *
5548263 AGGGGAGATCAGACTAGATCTGTGTCACTTTTTCGGGTATCCAGATTAATTTTTAAAGATGTATC
1 AGGGGAGATCAGACTAGATCTGTGCCACTTTTTCGGGTATCCAGATCAATTTTTGAAGATGTATC
* * * *
5548328 TGCTCTACTATTCATTCAGGGGAGATCAGACTGAAATAAAAAGAATATGTTCCACTACCCTTTT
66 TGCTCTACTATTCATTAAGGGGAGATCAAAATGAAATAAAAAGAATATGTTACACTACCCTTTT
*
5548392 AGGGGAGATCAAACTAGATCTGTGCCACTTTTTCGGGTATCCAGATCAATTTTTGAAGATGTATC
1 AGGGGAGATCAGACTAGATCTGTGCCACTTTTTCGGGTATCCAGATCAATTTTTGAAGATGTATC
*
5548457 TGCTCTACTATTCATTAAGGGGAGATCAAAATGAAATAAAAAGAATATGTTTCACTA
66 TGCTCTACTATTCATTAAGGGGAGATCAAAATGAAATAAAAAGAATATGTTACACTA
5548514 TTCTTTCGTG
Statistics
Matches: 227, Mismatches: 24, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
129 150 0.66
130 77 0.34
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (129 bp):
AGGGGAGATCAGACTAGATCTGTGCCACTTTTTCGGGTATCCAGATCAATTTTTGAAGATGTATC
TGCTCTACTATTCATTAAGGGGAGATCAAAATGAAATAAAAAGAATATGTTACACTACCCTTTT
Found at i:5548721 original size:62 final size:62
Alignment explanation
Indices: 5548624--5549023 Score: 423
Period size: 62 Copynumber: 6.4 Consensus size: 62
5548614 ATTAAAAAGA
** * ** * * *
5548624 TTGACTTCTCTTCACAAGGGAGTCAAATATTGACTCTACTGAGGAGTTAGAAATAATATATG
1 TTGACTTCTCTTCATGAGGAAGTCAAAGGTTGACTCTACTGAGGAGTCAGAAATAACAAATG
* *
5548686 TTGACTTCTCTTCATGAGGAAGTCAAAGGTTGACTCTACTGAGGAGTCAGAAAATAATAAATA
1 TTGACTTCTCTTCATGAGGAAGTCAAAGGTTGACTCTACTGAGGAGTCAG-AAATAACAAATG
** *
5548749 TTGACTTCTCTTCACAAGCAAGTCAAAGGTTGACTCTACT-AGGGAGTCAGAAATAACAAA-G
1 TTGACTTCTCTTCATGAGGAAGTCAAAGGTTGACTCTACTGA-GGAGTCAGAAATAACAAATG
* * ** * *
5548810 ATTGACTTATCTTTACAAGAAAGTCAAAGGTTGATTCTACTGAGGAGTCAGAAATAACAAATG
1 -TTGACTTCTCTTCATGAGGAAGTCAAAGGTTGACTCTACTGAGGAGTCAGAAATAACAAATG
* * * * * *
5548873 TTGACTT-TTTTCATGAGGAAGTCAAAGATTGACTCTATTAAAGAGTCATGAAATAACAAAGG
1 TTGACTTCTCTTCATGAGGAAGTCAAAGGTTGACTCTACTGAGGAGTCA-GAAATAACAAATG
* * * * *
5548935 TTGACTTCTCTTTATGAGAAAGTC-AAGGATTGACACAACTGAGAAGTCAGGAAATAACAAGA-G
1 TTGACTTCTCTTCATGAGGAAGTCAAAGG-TTGACTCTACTGAGGAGTCA-GAAATAACAA-ATG
*
5548998 TTGACTTCTCTTTATGAGGAAGTCAA
1 TTGACTTCTCTTCATGAGGAAGTCAA
5549024 GAATTGACTC
Statistics
Matches: 288, Mismatches: 40, Indels: 18
0.83 0.12 0.05
Matches are distributed among these distances:
61 31 0.11
62 137 0.48
63 118 0.41
64 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.29
Consensus pattern (62 bp):
TTGACTTCTCTTCATGAGGAAGTCAAAGGTTGACTCTACTGAGGAGTCAGAAATAACAAATG
Found at i:5548849 original size:125 final size:123
Alignment explanation
Indices: 5548623--5549033 Score: 445
Period size: 125 Copynumber: 3.3 Consensus size: 123
5548613 AATTAAAAAG
* * * * *
5548623 ATTGACTTCTCTTCACAAGGGAGTCAAATATTGACTCTACT-GAGGAGTTAGAAATAATATATGT
1 ATTGACTTCTCTTCACAAGGAAGTCAAAGATTGACTCTACTAG-GGAGTCAGAAATAACA-AAGT
* * *
5548687 TGACTTCTCTTCATGAGGAAGTCAAAGGTTGACTCTACTGAGGAGTCAGAAAATAATAAAT
64 TGACTTCTCTTTATGAGAAAGTCAAAGGTTGACTCTACTGAGGAGTCAG-AAATAACAAAT
* *
5548748 ATTGACTTCTCTTCACAAGCAAGTCAAAGGTTGACTCTACTAGGGAGTCAGAAATAACAAAGATT
1 ATTGACTTCTCTTCACAAGGAAGTCAAAGATTGACTCTACTAGGGAGTCAGAAATAACAAAG-TT
* ** *
5548813 GACTTATCTTTACAAGAAAGTCAAAGGTTGATTCTACTGAGGAGTCAGAAATAACAAAT
65 GACTTCTCTTTATGAGAAAGTCAAAGGTTGACTCTACTGAGGAGTCAGAAATAACAAAT
* * ** * **
5548872 GTTGACTT-TTTTCATGAGGAAGTCAAAGATTGACTCTATTAAAGAGTCATGAAATAACAAAGGT
1 ATTGACTTCTCTTCACAAGGAAGTCAAAGATTGACTCTACTAGGGAGTCA-GAAATAACAAA-GT
* * *
5548936 TGACTTCTCTTTATGAGAAAGTC-AAGGATTGACACAACTGAGAAGTCAGGAAATAACAAGA-
64 TGACTTCTCTTTATGAGAAAGTCAAAGG-TTGACTCTACTGAGGAGTCA-GAAATAACAA-AT
* * **
5548997 GTTGACTTCTCTTTATGAGGAAGTC-AAGAATTGACTC
1 ATTGACTTCTCTTCACAAGGAAGTCAAAG-ATTGACTC
5549034 AAGGAAACAA
Statistics
Matches: 245, Mismatches: 32, Indels: 17
0.83 0.11 0.06
Matches are distributed among these distances:
123 37 0.15
124 67 0.27
125 117 0.48
126 24 0.10
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.29
Consensus pattern (123 bp):
ATTGACTTCTCTTCACAAGGAAGTCAAAGATTGACTCTACTAGGGAGTCAGAAATAACAAAGTTG
ACTTCTCTTTATGAGAAAGTCAAAGGTTGACTCTACTGAGGAGTCAGAAATAACAAAT
Found at i:5551314 original size:20 final size:20
Alignment explanation
Indices: 5551289--5551362 Score: 78
Period size: 20 Copynumber: 3.6 Consensus size: 20
5551279 CGATGTTGTC
5551289 TGGTATCGATACCCTTAACA
1 TGGTATCGATACCCTTAACA
* *
5551309 TGGTATCGATACTTCTATAATA
1 TGGTATCGATAC-CCT-TAACA
**
5551331 TGGTATCGATA-CCTCCACA
1 TGGTATCGATACCCTTAACA
5551350 TTGGTATCGATAC
1 -TGGTATCGATAC
5551363 TCCCCTAGTA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
19 2 0.05
20 25 0.57
21 2 0.05
22 15 0.34
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (20 bp):
TGGTATCGATACCCTTAACA
Found at i:5552299 original size:39 final size:37
Alignment explanation
Indices: 5552256--5552441 Score: 126
Period size: 38 Copynumber: 4.8 Consensus size: 37
5552246 ACATTACTTA
*
5552256 TTGCTGATATGACCCTTCAAAATGCCCCAACACTATTTC
1 TTGCTGATATGAGCCTTCAAAATGCCCCAACA-T-TTTC
* *
5552295 TTGCTGAAATGAGCCTTCAAAATTCCCCCAACATTTTC
1 TTGCTGATATGAGCCTTCAAAA-TGCCCCAACATTTTC
* * * * *
5552333 ATACTGATGTGAGCATTCAAAATGCCCCATATGGATTATT-
1 TTGCTGATATGAGCCTTCAAAATGCCCCA-A--CATT-TTC
*
5552373 TCTGTCTGA-ATG-GTTCTTCAAAATGCCCCAACATTTTTC
1 T-TG-CTGATATGAG-CCTTCAAAATGCCCCAACA-TTTTC
* * * *
5552412 ATACTGATGTGAGCCTTCAAGAATACCCCA
1 TTGCTGATATGAGCCTTCAA-AATGCCCCA
5552442 CATGGATTAT
Statistics
Matches: 113, Mismatches: 21, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
37 10 0.09
38 34 0.30
39 32 0.28
40 14 0.12
41 19 0.17
42 4 0.04
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (37 bp):
TTGCTGATATGAGCCTTCAAAATGCCCCAACATTTTC
Found at i:5552394 original size:79 final size:80
Alignment explanation
Indices: 5552259--5552521 Score: 306
Period size: 81 Copynumber: 3.3 Consensus size: 80
5552249 TTACTTATTG
* * * * * *
5552259 CTGATATGACCCTTCAAAATGCCCCA-A--CACTATTTCT-TGCTGAAATGAGCCTTCAAAATTC
1 CTGATGTGAGCCTTCAAAATGCCCCACATGGATTATTTCTGT-CTGAAATGAGTCTTCAAAA-TA
5552320 CCCCAACA-TTTTCATA
64 CCCCAACATTTTTCATA
* * *
5552336 CTGATGTGAGCATTCAAAATGCCCCATATGGATTATTTCTGTCTG-AATG-GTTCTTCAAAATGC
1 CTGATGTGAGCCTTCAAAATGCCCCACATGGATTATTTCTGTCTGAAATGAG-TCTTCAAAATAC
5552399 CCCAACATTTTTCATA
65 CCCAACATTTTTCATA
* *
5552415 CTGATGTGAGCCTTCAAGAATACCCCACATGGATTATTTCTGTCTGAAATGAGTCTTCAAAATAA
1 CTGATGTGAGCCTTCAA-AATGCCCCACATGGATTATTTCTGTCTGAAATGAGTCTTCAAAATAC
*
5552480 CTCAACATTTTTCATA
65 CCCAACATTTTTCATA
* * *
5552496 TTGATGTGAGCCTTCAAGATGTCCCA
1 CTGATGTGAGCCTTCAAAATGCCCCA
5552522 ACATTCTAAG
Statistics
Matches: 160, Mismatches: 17, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
77 23 0.14
78 11 0.07
79 36 0.22
80 43 0.27
81 46 0.29
82 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.33
Consensus pattern (80 bp):
CTGATGTGAGCCTTCAAAATGCCCCACATGGATTATTTCTGTCTGAAATGAGTCTTCAAAATACC
CCAACATTTTTCATA
Found at i:5552501 original size:81 final size:81
Alignment explanation
Indices: 5552289--5552514 Score: 309
Period size: 81 Copynumber: 2.8 Consensus size: 81
5552279 GCCCCAACAC
* * *
5552289 TATTTCT-TGCTGAAATGAGCCTTCAAAATTCCCCCAACA-TTTTCATACTGATGTGAGCATTCA
1 TATTTCTGT-CTGAAATGAGTCTTCAAAA-TACCCCAACATTTTTCATACTGATGTGAGCCTTCA
* *
5552352 A-AATGCCCCATATGGAT
64 AGAATACCCCACATGGAT
*
5552369 TATTTCTGTCTG-AATG-GTTCTTCAAAATGCCCCAACATTTTTCATACTGATGTGAGCCTTCAA
1 TATTTCTGTCTGAAATGAG-TCTTCAAAATACCCCAACATTTTTCATACTGATGTGAGCCTTCAA
5552432 GAATACCCCACATGGAT
65 GAATACCCCACATGGAT
* * *
5552449 TATTTCTGTCTGAAATGAGTCTTCAAAATAACTCAACATTTTTCATATTGATGTGAGCCTTCAAG
1 TATTTCTGTCTGAAATGAGTCTTCAAAATACCCCAACATTTTTCATACTGATGTGAGCCTTCAAG
5552514 A
66 A
5552515 TGTCCCAACA
Statistics
Matches: 131, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
78 10 0.08
79 36 0.27
80 36 0.27
81 48 0.37
82 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (81 bp):
TATTTCTGTCTGAAATGAGTCTTCAAAATACCCCAACATTTTTCATACTGATGTGAGCCTTCAAG
AATACCCCACATGGAT
Found at i:5552524 original size:38 final size:38
Alignment explanation
Indices: 5552304--5552526 Score: 114
Period size: 38 Copynumber: 5.7 Consensus size: 38
5552294 CTTGCTGAAA
* *
5552304 TGAGCCTTCAAAATTCCCCCAACA-TTTTCATACTGATG
1 TGAGCCTTCAAAA-TACCCCAACATTTTTCATATTGATG
* * * *
5552342 TGAGCATTCAAAATGCCCCATATGGATTATTTC-TGTCTGAATG
1 TGAGCCTTCAAAATACCCCA-A--CATT-TTTCATAT-TG-ATG
** * *
5552385 -G-TTCTTCAAAATGCCCCAACATTTTTCATACTGATG
1 TGAGCCTTCAAAATACCCCAACATTTTTCATATTGATG
* * **
5552421 TGAGCCTTCAAGAATACCCCACATGGATTATTTC-TGTCTGAAA
1 TGAGCCTTCAA-AATACCCCA-A--CATT-TTTCATAT-TGATG
* * *
5552464 TGAGTCTTCAAAATAACTCAACATTTTTCATATTGATG
1 TGAGCCTTCAAAATACCCCAACATTTTTCATATTGATG
* **
5552502 TGAGCCTTCAAGATGTCCCAACATT
1 TGAGCCTTCAAAATACCCCAACATT
5552527 CTAAGTTGTA
Statistics
Matches: 137, Mismatches: 31, Indels: 34
0.68 0.15 0.17
Matches are distributed among these distances:
36 3 0.02
37 13 0.09
38 50 0.36
39 13 0.09
40 3 0.02
41 17 0.12
42 18 0.13
43 20 0.15
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.34
Consensus pattern (38 bp):
TGAGCCTTCAAAATACCCCAACATTTTTCATATTGATG
Found at i:5553595 original size:2 final size:2
Alignment explanation
Indices: 5553588--5553626 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
5553578 AGCTTTATTG
*
5553588 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
5553627 ATTAACTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:5559002 original size:3 final size:3
Alignment explanation
Indices: 5558994--5559036 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
5558984 TATTAAGTAT
* * *
5558994 ATA ATA ATA ATA CTT ATA GTA ATA ATA ATA AT- ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
5559037 TATATAAAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:5559018 original size:21 final size:20
Alignment explanation
Indices: 5558982--5559027 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 20
5558972 AATAATTTTA
5558982 AATATTAAGTATATAATAAT
1 AATATTAAGTATATAATAAT
5559002 AATACTTATAGTA-ATAATAAT
1 AATA-TTA-AGTATATAATAAT
5559023 AATAT
1 AATAT
5559028 AATAATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.21
21 15 0.62
22 4 0.17
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (20 bp):
AATATTAAGTATATAATAAT
Found at i:5561557 original size:336 final size:338
Alignment explanation
Indices: 5560881--5561560 Score: 1161
Period size: 336 Copynumber: 2.0 Consensus size: 338
5560871 TTTAGTCGGG
*
5560881 TCGGGTTGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGATCGGGTTGGGTTCGGGTTCGGGTTT
1 TCGGGTTGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGATC--G--GGGTTCGGGTTCAGGTTT
* *
5560946 AGGGTGAAAAATACCCAACCCGACCTGACCCGAAAAAATATATAATATTATCTTATATATTTAGG
62 AGGGTGAAAAATACCCAACCCGACCCGACCCGAAAAAATATATAATATTACCTTATATATTTAGG
*
5561011 AATAATTACAATAATACCCCTCTATATATAATTTTTTTCAATTAAGTCATTATTTTTATTGAATA
127 AATAATTACAATAATACCCCTCTATATATAATTTTTTTCAAATAAGTCATTATTTTTATTGAATA
*
5561076 AAAATATTTTTTTTATTATTTCAGGTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGTTTG
192 AAAATA-TTTTTTTATTATTTCAGGTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGTTGG
*
5561141 GTCTCGGATGGAGGTTCCCTTGTTCTTGGGTCAGGTCGAGTGGACCAAAAACCCGACCCAACCCA
256 GTCTCGGATGGAGGTTCCCTTGTTCTCGGGTCAGGTCGAGTGGACCAAAAACCCGACCCAACCCA
5561206 ACCCATGGCCATCCCTAA
321 ACCCATGGCCATCCCTAA
5561224 TCGGGTTGGTTTTTTAAGTGTGATATTCGGGTCGGGTCAGATC-GGG-TCGGGTTCAGGTTTAGG
1 TCGGGTTGGTTTTTTAAGTGTGATATTCGGGTCGGGTC-GATCGGGGTTCGGGTTCAGGTTTAGG
*
5561287 GTGAAAAATACCCAACCTGACCCGACCCGAAAAAATATATAATATTACCTTATATATTTAGGAAT
65 GTGAAAAATACCCAACCCGACCCGACCCGAAAAAATATATAATATTACCTTATATATTTAGGAAT
* *
5561352 AATTACAATAATATCCCTCTATATATAATTTTTTTTCAAATAAGTCATTGTTTTTATTGAATAAA
130 AATTACAATAATACCCCTCTATATATAA-TTTTTTTCAAATAAGTCATTATTTTTATTGAATAAA
5561417 AATA-TTTTTT-TTATTTCAGGTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGTTGGGTC
194 AATATTTTTTTATTATTTCAGGTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGTTGGGTC
* *
5561480 TCGGATGGAGGTTCCCTTGTTCTCGGGTCAGGTCGGGTGGACCAAAAACCCGACCCAACCTAACC
259 TCGGATGGAGGTTCCCTTGTTCTCGGGTCAGGTCGAGTGGACCAAAAACCCGACCCAACCCAACC
*
5561545 CATGGTCATCCCTAA
324 CATGGCCATCCCTAA
5561560 T
1 T
5561561 TGGGATGATT
Statistics
Matches: 323, Mismatches: 12, Indels: 11
0.93 0.03 0.03
Matches are distributed among these distances:
336 129 0.40
337 6 0.02
338 105 0.33
339 41 0.13
343 38 0.12
344 4 0.01
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.35
Consensus pattern (338 bp):
TCGGGTTGGTTTTTTAAGTGTGATATTCGGGTCGGGTCGATCGGGGTTCGGGTTCAGGTTTAGGG
TGAAAAATACCCAACCCGACCCGACCCGAAAAAATATATAATATTACCTTATATATTTAGGAATA
ATTACAATAATACCCCTCTATATATAATTTTTTTCAAATAAGTCATTATTTTTATTGAATAAAAA
TATTTTTTTATTATTTCAGGTCGGGTCGGGTTTCTAATTCATATATTCGGGTCGGGTTGGGTCTC
GGATGGAGGTTCCCTTGTTCTCGGGTCAGGTCGAGTGGACCAAAAACCCGACCCAACCCAACCCA
TGGCCATCCCTAA
Found at i:5561895 original size:18 final size:17
Alignment explanation
Indices: 5561840--5561904 Score: 103
Period size: 17 Copynumber: 3.8 Consensus size: 17
5561830 ATATGGAATT
*
5561840 AGATTCCAATTCCTCAC
1 AGATTTCAATTCCTCAC
*
5561857 AGATTTCAATTCCTGAC
1 AGATTTCAATTCCTCAC
5561874 AGATTTCAATTCCTTCAC
1 AGATTTCAATTCC-TCAC
5561892 AGATTTCAATTCC
1 AGATTTCAATTCC
5561905 CTAAAAAACA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
17 28 0.64
18 16 0.36
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (17 bp):
AGATTTCAATTCCTCAC
Found at i:5571080 original size:12 final size:12
Alignment explanation
Indices: 5571057--5571104 Score: 53
Period size: 12 Copynumber: 4.1 Consensus size: 12
5571047 TGCTTTGACA
5571057 ATTGTT-GTGGC
1 ATTGTTGGTGGC
*
5571068 ATTGTAGGTGGC
1 ATTGTTGGTGGC
* * *
5571080 AGTGTTGTTAGC
1 ATTGTTGGTGGC
5571092 ATTGTTGGTGGC
1 ATTGTTGGTGGC
5571104 A
1 A
5571105 ATAGCTTAAA
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
11 5 0.18
12 23 0.82
ACGTcount: A:0.15, C:0.08, G:0.38, T:0.40
Consensus pattern (12 bp):
ATTGTTGGTGGC
Found at i:5571622 original size:21 final size:20
Alignment explanation
Indices: 5571576--5571623 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
5571566 AAGGTAATAC
*
5571576 CGATTCTCCCTTTAGGAGTA
1 CGATACTCCCTTTAGGAGTA
5571596 CTGATACTCCCTTTAGGAGTA
1 C-GATACTCCCTTTAGGAGTA
5571617 TCGATAC
1 -CGATAC
5571624 CCTCTGTACT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 23 0.92
22 1 0.04
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (20 bp):
CGATACTCCCTTTAGGAGTA
Found at i:5571679 original size:21 final size:21
Alignment explanation
Indices: 5571653--5571709 Score: 114
Period size: 21 Copynumber: 2.7 Consensus size: 21
5571643 TATTTTGCAG
5571653 AGAAATCATCCCCAAATGACT
1 AGAAATCATCCCCAAATGACT
5571674 AGAAATCATCCCCAAATGACT
1 AGAAATCATCCCCAAATGACT
5571695 AGAAATCATCCCCAA
1 AGAAATCATCCCCAA
5571710 CGTCTATAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.44, C:0.30, G:0.09, T:0.18
Consensus pattern (21 bp):
AGAAATCATCCCCAAATGACT
Found at i:5575610 original size:19 final size:19
Alignment explanation
Indices: 5575588--5575624 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
5575578 AGCTCTTAAC
5575588 AACCCACTATGCTCCTAAT
1 AACCCACTATGCTCCTAAT
5575607 AACCCACTATGCTCCTAA
1 AACCCACTATGCTCCTAA
5575625 CATGCAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.38, G:0.05, T:0.24
Consensus pattern (19 bp):
AACCCACTATGCTCCTAAT
Found at i:5576119 original size:45 final size:45
Alignment explanation
Indices: 5576068--5576154 Score: 129
Period size: 45 Copynumber: 1.9 Consensus size: 45
5576058 TCTCATTATA
* **
5576068 TTGGAGCTAGTACCAACATTACCCAAGTTATTTCCTAAGTCTATG
1 TTGGAGCTAGTACCAACATTACCAAACCTATTTCCTAAGTCTATG
* *
5576113 TTGGAGCTATTACCAGCATTACCAAACCTATTTCCTAAGTCT
1 TTGGAGCTAGTACCAACATTACCAAACCTATTTCCTAAGTCT
5576155 CTCTATCTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (45 bp):
TTGGAGCTAGTACCAACATTACCAAACCTATTTCCTAAGTCTATG
Found at i:5580078 original size:23 final size:22
Alignment explanation
Indices: 5580051--5580112 Score: 88
Period size: 23 Copynumber: 2.8 Consensus size: 22
5580041 CAGAACCCTC
5580051 AGGGGGTATCGATTCCCCTTCA
1 AGGGGGTATCGATTCCCCTTCA
* * *
5580073 ATGGGGGAATCGGTCCCCCTTCA
1 A-GGGGGTATCGATTCCCCTTCA
5580096 AGGGGGTATCGATTCCC
1 AGGGGGTATCGATTCCC
5580113 TCTACACTAA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
22 14 0.42
23 19 0.58
ACGTcount: A:0.18, C:0.27, G:0.31, T:0.24
Consensus pattern (22 bp):
AGGGGGTATCGATTCCCCTTCA
Found at i:5586099 original size:21 final size:21
Alignment explanation
Indices: 5586073--5586134 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
5586063 ACAGATTGTT
5586073 CAGGGGGTACAGATTCCCCCC
1 CAGGGGGTACAGATTCCCCCC
*
5586094 CAGGGGGTACCGATTCCCCCC
1 CAGGGGGTACAGATTCCCCCC
5586115 CAGGGGGTACCA-ATTCCCCC
1 CAGGGGGTA-CAGATTCCCCC
5586135 TGTCTAACGG
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
21 37 0.97
22 1 0.03
ACGTcount: A:0.18, C:0.40, G:0.27, T:0.15
Consensus pattern (21 bp):
CAGGGGGTACAGATTCCCCCC
Found at i:5587387 original size:20 final size:19
Alignment explanation
Indices: 5587359--5587397 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
5587349 TGAGACCATG
*
5587359 AATTCCAAATATACAAAATT
1 AATTCCAAAAAT-CAAAATT
*
5587379 AATTTCAAAAATCAAAATT
1 AATTCCAAAAATCAAAATT
5587398 GAAAATAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.31
Consensus pattern (19 bp):
AATTCCAAAAATCAAAATT
Found at i:5588929 original size:20 final size:20
Alignment explanation
Indices: 5588904--5588986 Score: 112
Period size: 20 Copynumber: 4.0 Consensus size: 20
5588894 TCAGATTGTT
5588904 CAGGGGGTACAGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
5588924 CAGGGGGTACAGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
* *
5588944 TATAGGGGGTACCGATTCCCCCC
1 --CAGGGGGTACAGATT-CCCCC
*
5588967 CAGGGGGTACCGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
5588987 TGTCTAATGG
Statistics
Matches: 57, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
20 25 0.44
21 14 0.25
22 13 0.23
23 5 0.09
ACGTcount: A:0.18, C:0.36, G:0.29, T:0.17
Consensus pattern (20 bp):
CAGGGGGTACAGATTCCCCC
Found at i:5588943 original size:21 final size:21
Alignment explanation
Indices: 5588904--5588986 Score: 114
Period size: 21 Copynumber: 4.0 Consensus size: 21
5588894 TCAGATTGTT
5588904 CAGGGGGTACAGATT-CCCCC
1 CAGGGGGTACAGATTCCCCCC
*
5588924 CAGGGGGTACAGATTCCCCCTA
1 CAGGGGGTACAGATTCCCCC-C
* *
5588946 TAGGGGGTACCGATTCCCCCC
1 CAGGGGGTACAGATTCCCCCC
*
5588967 CAGGGGGTACCGATTCCCCC
1 CAGGGGGTACAGATTCCCCC
5588987 TGTCTAATGG
Statistics
Matches: 56, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
20 15 0.27
21 23 0.41
22 18 0.32
ACGTcount: A:0.18, C:0.36, G:0.29, T:0.17
Consensus pattern (21 bp):
CAGGGGGTACAGATTCCCCCC
Found at i:5588982 original size:43 final size:42
Alignment explanation
Indices: 5588905--5588987 Score: 139
Period size: 43 Copynumber: 2.0 Consensus size: 42
5588895 CAGATTGTTC
5588905 AGGGGGTACAGATTCCCCCCAGGGGGTACAGATTCCCCCTAT
1 AGGGGGTACAGATTCCCCCCAGGGGGTACAGATTCCCCCTAT
* *
5588947 AGGGGGTACCGATTCCCCCCCAGGGGGTACCGATTCCCCCT
1 AGGGGGTACAGATT-CCCCCCAGGGGGTACAGATTCCCCCT
5588988 GTCTAATGGT
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 13 0.34
43 25 0.66
ACGTcount: A:0.18, C:0.35, G:0.29, T:0.18
Consensus pattern (42 bp):
AGGGGGTACAGATTCCCCCCAGGGGGTACAGATTCCCCCTAT
Found at i:5595162 original size:21 final size:21
Alignment explanation
Indices: 5595136--5595187 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
5595126 AACTTTGCCT
*
5595136 TTGTTGTGGCTGAGTGACAGA
1 TTGTTGTGGCTAAGTGACAGA
*
5595157 TTGTTGTGGCTAAGTGATAGA
1 TTGTTGTGGCTAAGTGACAGA
*
5595178 TTGTTATGGC
1 TTGTTGTGGC
5595188 AATTGACTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.08, G:0.35, T:0.38
Consensus pattern (21 bp):
TTGTTGTGGCTAAGTGACAGA
Found at i:5598553 original size:14 final size:14
Alignment explanation
Indices: 5598534--5598564 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
5598524 GGGTGCAATT
5598534 GTTAATGACTGAAG
1 GTTAATGACTGAAG
5598548 GTTAATGACTGAAG
1 GTTAATGACTGAAG
5598562 GTT
1 GTT
5598565 GATAACGGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.32
Consensus pattern (14 bp):
GTTAATGACTGAAG
Found at i:5599988 original size:15 final size:15
Alignment explanation
Indices: 5599968--5600076 Score: 164
Period size: 15 Copynumber: 7.3 Consensus size: 15
5599958 GACCTTACCT
*
5599968 GCCCCGCATCCACCC
1 GCCCCGCATCCGCCC
5599983 GCCCCGCATCCGCCC
1 GCCCCGCATCCGCCC
*
5599998 ACCCCGCATCCGCCC
1 GCCCCGCATCCGCCC
*
5600013 GCCCCGCATCCGTCC
1 GCCCCGCATCCGCCC
5600028 GCCCCGCATCCGCCC
1 GCCCCGCATCCGCCC
* *
5600043 GTCCCGCATCTGCCC
1 GCCCCGCATCCGCCC
*
5600058 GCCCCACATCCGCCC
1 GCCCCGCATCCGCCC
5600073 GCCC
1 GCCC
5600077 AACTAAATAT
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 84 1.00
ACGTcount: A:0.09, C:0.64, G:0.17, T:0.09
Consensus pattern (15 bp):
GCCCCGCATCCGCCC
Found at i:5601353 original size:17 final size:17
Alignment explanation
Indices: 5601328--5601366 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
5601318 TACATAAAAG
*
5601328 TAATTATAAAATTAGAA
1 TAATAATAAAATTAGAA
5601345 TAATAATAAAATTAGAA
1 TAATAATAAAATTAGAA
5601362 TAATA
1 TAATA
5601367 CTAATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (17 bp):
TAATAATAAAATTAGAA
Found at i:5602232 original size:14 final size:15
Alignment explanation
Indices: 5602201--5602233 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
5602191 TGGATTAAAA
5602201 AAAAGAAAGAAAAGT
1 AAAAGAAAGAAAAGT
*
5602216 AAAAGAAA-AAAATT
1 AAAAGAAAGAAAAGT
5602230 AAAA
1 AAAA
5602234 ACATACTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.12, T:0.09
Consensus pattern (15 bp):
AAAAGAAAGAAAAGT
Found at i:5606791 original size:3 final size:3
Alignment explanation
Indices: 5606783--5606811 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
5606773 ACATCTATGA
5606783 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
5606812 AACCCCTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:5609839 original size:14 final size:14
Alignment explanation
Indices: 5609820--5609848 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
5609810 AATGCTGAGA
5609820 CCATTTATATGATG
1 CCATTTATATGATG
5609834 CCATTTATATGATG
1 CCATTTATATGATG
5609848 C
1 C
5609849 AGTGTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.17, G:0.14, T:0.41
Consensus pattern (14 bp):
CCATTTATATGATG
Found at i:5623025 original size:29 final size:31
Alignment explanation
Indices: 5622986--5623046 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
5622976 CAAATTTTAG
5622986 TTAGTGATTAAAATAT-AAGTTT-TAAAAGT
1 TTAGTGATTAAAATATAAAGTTTGTAAAAGT
* * *
5623015 TTAGTGTTTAAAGTATAAATTTTGTAAAAGT
1 TTAGTGATTAAAATATAAAGTTTGTAAAAGT
5623046 T
1 T
5623047 CAGAGACAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 14 0.52
30 5 0.19
31 8 0.30
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (31 bp):
TTAGTGATTAAAATATAAAGTTTGTAAAAGT
Found at i:5626421 original size:27 final size:26
Alignment explanation
Indices: 5626369--5626422 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
5626359 CTCAAAACAT
*
5626369 TATTATTTTATATATTTAATATTAAAA
1 TATTATTTTATATATTT-ATAATAAAA
5626396 TATTATTTTAGTATCATTT-TAATAAAA
1 TATTATTTTA-TAT-ATTTATAATAAAA
5626423 AAATTAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
27 17 0.71
28 3 0.12
29 4 0.17
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (26 bp):
TATTATTTTATATATTTATAATAAAA
Found at i:5626426 original size:30 final size:27
Alignment explanation
Indices: 5626369--5626426 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 27
5626359 CTCAAAACAT
**
5626369 TATTATTTTATATATTTAATATTAAAA
1 TATTATTTTATATATTTAATAAAAAAA
5626396 TATTATTTTAGTATCATTTTAATAAAAAAA
1 TATTATTTTA-TAT-A-TTTAATAAAAAAA
5626426 T
1 T
5626427 TAATTGTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 10 0.38
28 3 0.12
29 1 0.04
30 12 0.46
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (27 bp):
TATTATTTTATATATTTAATAAAAAAA
Found at i:5626737 original size:22 final size:22
Alignment explanation
Indices: 5626712--5626760 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
5626702 TGGACAGTAA
*
5626712 TGAATAATACCATGAACAATAG
1 TGAATAATACCATGAACAATAC
* * *
5626734 TGAATAGTACCGTGAACAGTAC
1 TGAATAATACCATGAACAATAC
5626756 TGAAT
1 TGAAT
5626761 GCTAAAATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.24
Consensus pattern (22 bp):
TGAATAATACCATGAACAATAC
Found at i:5627541 original size:31 final size:32
Alignment explanation
Indices: 5627501--5627754 Score: 351
Period size: 31 Copynumber: 8.1 Consensus size: 32
5627491 GCTCGTATAA
*
5627501 TAATC-TGTCCATATGTTCCGAAGAACATAGG
1 TAATCATGTCCATATGTCCCGAAGAACATAGG
* *
5627532 TAAT-ATGTCCATATGTTCTGAAGAACATAGG
1 TAATCATGTCCATATGTCCCGAAGAACATAGG
*
5627563 TAAAC-TGTCCATATGTCCCGAAGAACATAGG
1 TAATCATGTCCATATGTCCCGAAGAACATAGG
5627594 TAATCATGTCCATATGTCCCGAA-AGACATAGG
1 TAATCATGTCCATATGTCCCGAAGA-ACATAGG
* **
5627626 TAATCCTG-CCATATGTCATGAAGAACATAGG
1 TAATCATGTCCATATGTCCCGAAGAACATAGG
5627657 TAATCATGTCCATATGTCCCGAA-AGACATAGG
1 TAATCATGTCCATATGTCCCGAAGA-ACATAGG
* *
5627689 TAATCCTG-CCATATGTCACGAAGAACATAGG
1 TAATCATGTCCATATGTCCCGAAGAACATAGG
*
5627720 TAATCCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCATGTCCATATGTCCCGAAGAACATAGG
5627752 TAA
1 TAA
5627755 CCCTCGACTC
Statistics
Matches: 200, Mismatches: 14, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
31 116 0.58
32 84 0.42
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (32 bp):
TAATCATGTCCATATGTCCCGAAGAACATAGG
Found at i:5627638 original size:63 final size:64
Alignment explanation
Indices: 5627501--5627754 Score: 371
Period size: 63 Copynumber: 4.0 Consensus size: 64
5627491 GCTCGTATAA
* *
5627501 TAAT-CTGTCCATATGTTC-CGAAGAACATAGGTAAT-ATGTCCATATGTTCTGAAGAACATAGG
1 TAATCCTGTCCATATG-TCACGAAGAACATAGGTAATCATGTCCATATGTCCCGAAGAACATAGG
* *
5627563 TAA-ACTGTCCATATGTCCCGAAGAACATAGGTAATCATGTCCATATGTCCCGAA-AGACATAGG
1 TAATCCTGTCCATATGTCACGAAGAACATAGGTAATCATGTCCATATGTCCCGAAGA-ACATAGG
*
5627626 TAATCCTG-CCATATGTCATGAAGAACATAGGTAATCATGTCCATATGTCCCGAA-AGACATAGG
1 TAATCCTGTCCATATGTCACGAAGAACATAGGTAATCATGTCCATATGTCCCGAAGA-ACATAGG
*
5627689 TAATCCTG-CCATATGTCACGAAGAACATAGGTAATCCTGTCCATATGTCCCGAAGAACATAGG
1 TAATCCTGTCCATATGTCACGAAGAACATAGGTAATCATGTCCATATGTCCCGAAGAACATAGG
5627752 TAA
1 TAA
5627755 CCCTCGACTC
Statistics
Matches: 179, Mismatches: 7, Indels: 11
0.91 0.04 0.06
Matches are distributed among these distances:
61 2 0.01
62 32 0.18
63 141 0.79
64 4 0.02
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.26
Consensus pattern (64 bp):
TAATCCTGTCCATATGTCACGAAGAACATAGGTAATCATGTCCATATGTCCCGAAGAACATAGG
Found at i:5629472 original size:25 final size:25
Alignment explanation
Indices: 5629444--5629493 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
5629434 ATATTACAAT
* *
5629444 TTTTAATATTTTAA-TAATATTATTA
1 TTTTAATA-ATTAATTAATATAATTA
5629469 TTTTAATAATTAATTAATATAATTA
1 TTTTAATAATTAATTAATATAATTA
5629494 AAAATATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TTTTAATAATTAATTAATATAATTA
Found at i:5629659 original size:20 final size:20
Alignment explanation
Indices: 5629636--5629687 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
5629626 AACGCGATCC
5629636 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
5629656 CCAGAATCGCAAATCAGTTT
1 CCAGAATCGCAAATCAGTTT
*
5629676 CCAAAATCGCAA
1 CCAGAATCGCAA
5629688 CGCGATTCTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.38, C:0.27, G:0.13, T:0.21
Consensus pattern (20 bp):
CCAGAATCGCAAATCAGTTT
Found at i:5629768 original size:20 final size:20
Alignment explanation
Indices: 5629743--5629936 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
5629733 GATTTTCCAT
* *
5629743 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
5629763 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
5629783 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
5629803 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
5629823 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
5629843 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
5629863 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
5629883 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
5629904 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
5629924 AATCGCAACGCGA
1 AATCGCAACGCGA
5629937 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:5629788 original size:40 final size:39
Alignment explanation
Indices: 5629739--5629936 Score: 200
Period size: 40 Copynumber: 5.0 Consensus size: 39
5629729 TTGCGATTTT
* ** *
5629739 CCAT-AATCGCAACGCGAATATGAAAATCGCAACGCGAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
* *
5629777 CACATAAATCGCAACGCGTATCCGTAAATCGCAACGTGTAT
1 C-CATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* ** * *
5629818 CCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTAT
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCG-AA
* * **
5629858 CCGTATATCGCAACGCGTATCCGTAAATCGCAACGATAA
1 CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
*
5629897 TACATAAAATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 -CCAT-AAATCGCAACGCGTATCCGTAAATCGCAACGCGA
5629937 TATTTAAAGC
Statistics
Matches: 132, Mismatches: 23, Indels: 7
0.81 0.14 0.04
Matches are distributed among these distances:
38 1 0.01
39 4 0.03
40 94 0.71
41 33 0.25
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.19
Consensus pattern (39 bp):
CCATAAATCGCAACGCGTATCCGTAAATCGCAACGCGAA
Found at i:5629826 original size:60 final size:60
Alignment explanation
Indices: 5629743--5629935 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
5629733 GATTTTCCAT
* ** * *
5629743 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
5629803 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
5629863 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
5629924 AATCGCAACGCG
1 AATCGCAACGCG
5629936 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:5630356 original size:33 final size:33
Alignment explanation
Indices: 5630317--5630387 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
5630307 TTCACTTAGA
*
5630317 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
5630350 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
5630383 TTTCA
1 TTTCA
5630388 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:5630527 original size:14 final size:14
Alignment explanation
Indices: 5630508--5630562 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
5630498 AGAATGACTG
5630508 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
*
5630522 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAGAA
5630541 TCGCAACGAGAGAA
1 TCGCAACGAGAGAA
5630555 TCGCAACG
1 TCGCAACG
5630563 CGAAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.42, C:0.24, G:0.25, T:0.09
Consensus pattern (14 bp):
TCGCAACGAGAGAA
Found at i:5630545 original size:33 final size:33
Alignment explanation
Indices: 5630508--5630578 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
5630498 AGAATGACTG
**
5630508 TCGCAACGAGAGAATCGCAACGCGAAATGAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
5630541 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
1 TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
5630574 TCGCA
1 TCGCA
5630579 TTGCGATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.44, C:0.25, G:0.23, T:0.08
Consensus pattern (33 bp):
TCGCAACGAGAGAATCGCAACGCGAAACCAAAA
Found at i:5630596 original size:19 final size:19
Alignment explanation
Indices: 5630574--5630671 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
5630564 GAAACCAAAA
*
5630574 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
5630593 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
5630607 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
5630626 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
5630640 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
5630659 TCGCGTTGCGATT
1 TCGCGTTGCGATT
5630672 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:5630615 original size:14 final size:14
Alignment explanation
Indices: 5630596--5630685 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
5630586 TTTCATTTCG
5630596 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
5630610 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
5630629 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
5630643 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
5630660 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
5630676 CGTTGCGATT
1 CGTTGCGATT
5630686 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:5630621 original size:33 final size:33
Alignment explanation
Indices: 5630579--5630693 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
5630569 CAAAATCGCA
5630579 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
5630612 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
5630645 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
5630678 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
5630694 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:5632622 original size:185 final size:186
Alignment explanation
Indices: 5632392--5632858 Score: 918
Period size: 185 Copynumber: 2.5 Consensus size: 186
5632382 TAGATTGCTT
*
5632392 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5632457 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
5632522 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
5632577 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5632642 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
5632707 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
5632763 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5632828 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGT
5632859 TTCAATTTGC
Statistics
Matches: 280, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
185 154 0.55
186 126 0.45
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (186 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:5632706 original size:93 final size:93
Alignment explanation
Indices: 5632392--5632858 Score: 918
Period size: 93 Copynumber: 5.0 Consensus size: 93
5632382 TAGATTGCTT
*
5632392 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5632457 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
5632485 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5632549 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
5632577 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5632642 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
5632670 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5632735 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
5632763 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
5632828 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
5632856 AGT
1 AGT
5632859 TTCAATTTGC
Statistics
Matches: 372, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.25
93 280 0.75
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:5632930 original size:19 final size:19
Alignment explanation
Indices: 5632890--5633018 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
5632880 TAGTTTACTT
* *
5632890 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
5632910 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
5632929 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
5632948 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
5632962 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
5632981 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
5632995 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
5633014 TCGCA
1 TCGCA
5633019 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:5632969 original size:33 final size:32
Alignment explanation
Indices: 5632926--5633018 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
5632916 CGCGAAACCA
**
5632926 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
5632958 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
5632991 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
5633019 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:5633016 original size:52 final size:52
Alignment explanation
Indices: 5632890--5633018 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
5632880 TAGTTTACTT
**
5632890 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
5632942 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
5632995 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
5633019 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:5633036 original size:19 final size:19
Alignment explanation
Indices: 5633014--5633148 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
5633004 GAAACCAAAA
*
5633014 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
5633033 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
5633049 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
5633066 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
5633082 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
5633099 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
5633118 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
5633138 TCGTGTTGCGA
1 TCGCGTTGCGA
5633149 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:5633055 original size:14 final size:14
Alignment explanation
Indices: 5633036--5633092 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
5633026 TTTCATTTCG
5633036 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
5633050 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
5633067 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
5633083 CGTTGCGATT
1 CGTTGCGATT
5633093 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:5633061 original size:33 final size:33
Alignment explanation
Indices: 5633019--5633111 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
5633009 CAAAATCGCA
*
5633019 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
5633052 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
5633085 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
5633112 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:5635091 original size:14 final size:14
Alignment explanation
Indices: 5635072--5635107 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
5635062 ATTGTTTAAT
5635072 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
5635086 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
5635100 TGATTTGT
1 TGATTTGT
5635108 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:5635230 original size:19 final size:19
Alignment explanation
Indices: 5635214--5635315 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
5635204 AAAAATGACT
5635214 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
5635233 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
5635252 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
5635266 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
5635285 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
5635305 ATCGCAATGCG
1 ATCGCAATGCG
5635316 TTTATAATTT
Statistics
Matches: 75, Mismatches: 2, Indels: 12
0.84 0.02 0.13
Matches are distributed among these distances:
14 10 0.13
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 40 0.53
20 19 0.25
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.15
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:5635364 original size:33 final size:33
Alignment explanation
Indices: 5635322--5635645 Score: 181
Period size: 33 Copynumber: 9.5 Consensus size: 33
5635312 TGCGTTTATA
5635322 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
5635355 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
*
5635391 -TTTCG--TTGCGATTTTCATTTCGCATTGCGA--TTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* *
5635424 -TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTA
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATTTTC
* *
5635459 ATTTCGCATTGCGATTCTGTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
*
5635492 ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGCATTGCGA--TT-ATCTCG--TTGCGATT-T-TC
* * * * *
5635532 GTTGCG-ATTTTC-ATT-TCGCATTGCGATTTTC
1 ATTTCGCA-TTGCGATTATCTCGTTGCGATTTTC
*
5635563 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
* *
5635596 ATTTCCGCATTGCGATTTTCAT-GTTGGGATTTTC
1 ATTT-CGCATTGCGATTATC-TCGTTGCGATTTTC
*
5635630 ATTTCGCGTTGCGATT
1 ATTTCGCATTGCGATT
5635646 GTATTTTCCG
Statistics
Matches: 247, Mismatches: 21, Indels: 46
0.79 0.07 0.15
Matches are distributed among these distances:
31 9 0.04
32 5 0.02
33 133 0.54
34 29 0.12
35 18 0.07
36 19 0.08
37 2 0.01
38 20 0.08
39 3 0.01
40 9 0.04
ACGTcount: A:0.14, C:0.21, G:0.19, T:0.47
Consensus pattern (33 bp):
ATTTCGCATTGCGATTATCTCGTTGCGATTTTC
Found at i:5635384 original size:52 final size:52
Alignment explanation
Indices: 5635322--5635617 Score: 255
Period size: 52 Copynumber: 5.6 Consensus size: 52
5635312 TGCGTTTATA
5635322 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATT-T-TC
1 ATTTCG-ATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* *
5635374 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTCTTTC
1 ATTTCG-ATTGCGATT-TCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * * * * * *
5635428 GTTGCGATTTTC-ATTTCGCATTGCGATTTTAATTTCGCATTGCGATTCTGTC
1 ATTTCGA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * * * *
5635480 GTTGCGATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * * * *
5635532 GTTGCGATTTTC-ATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTC
1 ATTTCGA-TTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
* * *
5635584 GTTGCGATTTTC-ATTTC-CGCATTGCGATTTTCAT
1 ATTTCGA-TTGCGATTTCTCG--TTGCGATTTTCAT
5635618 GTTGGGATTT
Statistics
Matches: 226, Mismatches: 13, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
51 1 0.00
52 198 0.88
53 18 0.08
54 9 0.04
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (52 bp):
ATTTCGATTGCGATTTCTCGTTGCGATTTTCATTTCGCATTGCGATTCTCTC
Found at i:5635430 original size:85 final size:85
Alignment explanation
Indices: 5635322--5635559 Score: 351
Period size: 85 Copynumber: 2.8 Consensus size: 85
5635312 TGCGTTTATA
* *
5635322 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
*
5635387 ATTCTTTCGTTGCGATTTTC
66 ATTCTGTCGTTGCGATTTTC
*
5635407 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTAATTTCGCATTGCG
1 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
5635472 ATTCTGTCGTTGCGATTTTC
66 ATTCTGTCGTTGCGATTTTC
*
5635492 ATTTCGCATTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--TTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGA--TTC-TTTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
5635552 TTGCGATT
61 TTGCGATT
5635560 TTCATTTCGC
Statistics
Matches: 142, Mismatches: 6, Indels: 10
0.90 0.04 0.06
Matches are distributed among these distances:
85 121 0.85
87 7 0.05
88 8 0.06
90 6 0.04
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (85 bp):
ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCG
ATTCTGTCGTTGCGATTTTC
Found at i:5638149 original size:24 final size:24
Alignment explanation
Indices: 5638115--5638161 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
5638105 CTGAAACATC
5638115 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
5638139 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
5638162 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:5638872 original size:20 final size:20
Alignment explanation
Indices: 5638844--5639192 Score: 409
Period size: 20 Copynumber: 17.4 Consensus size: 20
5638834 AAATTTCAGT
* * * *
5638844 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
5638864 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
5638884 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
5638904 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
*
5638924 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
5638944 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
5638964 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
5638984 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
5639004 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
5639024 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
5639044 GTTGCGATTTACGGATATGC
1 GTTGCGATTTACGGATACGC
*
5639064 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
**
5639084 GTTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
5639104 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
5639124 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
5639144 GTTGTGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
5639164 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
5639184 GTTGCGATT
1 GTTGCGATT
5639193 ATGGAAAATC
Statistics
Matches: 291, Mismatches: 32, Indels: 12
0.87 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 285 0.98
21 3 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:5639460 original size:32 final size:32
Alignment explanation
Indices: 5639418--5639480 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
5639408 TAATTAATGT
5639418 AATTTATAATAATTTTT-TTAATAAAAATATAA
1 AATTTATAAT-ATTTTTATTAATAAAAATATAA
* * *
5639450 AATTTTTAATATTTTTATTTATAAAATTATA
1 AATTTATAATATTTTTATTAATAAAAATATA
5639481 GATATAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 6 0.22
32 21 0.78
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
AATTTATAATATTTTTATTAATAAAAATATAA
Found at i:5639527 original size:14 final size:14
Alignment explanation
Indices: 5639484--5639528 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
5639474 AATTATAGAT
5639484 ATAATATTTAAAT-A
1 ATAATA-TTAAATAA
*
5639498 ATAATATTGATATAA
1 ATAATATT-AAATAA
5639513 ATAATATTAAATAA
1 ATAATATTAAATAA
5639527 AT
1 AT
5639529 TATTCTGATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 2 0.07
14 16 0.59
15 9 0.33
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
ATAATATTAAATAA
Found at i:5639593 original size:25 final size:24
Alignment explanation
Indices: 5639540--5639594 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
5639530 ATTCTGATAT
*
5639540 TTTAA-AAATAATATTATTATTTT
1 TTTAATAAATAATATTATTATTTA
*
5639563 TGTTAATAAATAATATTTTTATTGTA
1 T-TTAATAAATAATATTATTATT-TA
5639589 TTTAAT
1 TTTAAT
5639595 GTTTATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 4 0.15
25 20 0.74
26 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (24 bp):
TTTAATAAATAATATTATTATTTA
Found at i:5639980 original size:2 final size:2
Alignment explanation
Indices: 5639973--5640048 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
5639963 ATTGCAATTA
5639973 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
5640015 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
5640049 GTATTACTAA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5643364 original size:29 final size:29
Alignment explanation
Indices: 5643320--5643420 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
5643310 GACCCGACCT
* * *
5643320 GATGATATTTTGGTAATTATTTTTAAAAC
1 GATGATATTTTTGTAATTATTTTGAAAAA
5643349 GATGATATTTTTGTAATTATTTTGAAAAA
1 GATGATATTTTTGTAATTATTTTGAAAAA
*
5643378 GGTGATATTTTTGTAATTA-TTT-AAAAA
1 GATGATATTTTTGTAATTATTTTGAAAAA
* *
5643405 G-TGTTATTTTCGTAAT
1 GATGATATTTTTGTAAT
5643421 AGTTGATTGT
Statistics
Matches: 66, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.20
27 6 0.09
28 3 0.05
29 44 0.67
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.50
Consensus pattern (29 bp):
GATGATATTTTTGTAATTATTTTGAAAAA
Found at i:5645771 original size:72 final size:74
Alignment explanation
Indices: 5645648--5645788 Score: 196
Period size: 72 Copynumber: 1.9 Consensus size: 74
5645638 TATATTTAGT
* * *
5645648 TAATTAGAAAGTTAAAATATCGATACTTATTCTCTAATGTTCAATACATTTAAATTT-AAAAAAT
1 TAATTAGAAAGTTAAAATATAGACACTTATGCTCTAATGTTCAATACATTTAAATTTGAAAAAAT
5645712 TGATAAGGG
66 TGATAAGGG
* * * * *
5645721 TAATT-GAAAGTTAAAATATAGACATTTATGCTCTGATGTTTAATACATTTACATTTGAAAAAGT
1 TAATTAGAAAGTTAAAATATAGACACTTATGCTCTAATGTTCAATACATTTAAATTTGAAAAAAT
5645785 TGAT
66 TGAT
5645789 GAATGTAATA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
72 44 0.75
73 15 0.25
ACGTcount: A:0.42, C:0.08, G:0.12, T:0.38
Consensus pattern (74 bp):
TAATTAGAAAGTTAAAATATAGACACTTATGCTCTAATGTTCAATACATTTAAATTTGAAAAAAT
TGATAAGGG
Found at i:5648805 original size:23 final size:23
Alignment explanation
Indices: 5648761--5648806 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
5648751 AACTTAATTT
* * **
5648761 AAAAAATAAATGATTTTTAAATA
1 AAAAAATAAATCAATTAAAAATA
5648784 AAAAAATAAATCAATTAAAAATA
1 AAAAAATAAATCAATTAAAAATA
5648807 TTACATCAGC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAAAATAAATCAATTAAAAATA
Found at i:5651114 original size:20 final size:20
Alignment explanation
Indices: 5651089--5651126 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5651079 TTTGTGAAGG
5651089 GATGCACCGATGCACTCATT
1 GATGCACCGATGCACTCATT
*
5651109 GATGCATCGATGCACTCA
1 GATGCACCGATGCACTCA
5651127 CCATTTCGAA
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:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (20 bp):
GATGCACCGATGCACTCATT
Found at i:5651202 original size:64 final size:63
Alignment explanation
Indices: 5651132--5651283 Score: 218
Period size: 64 Copynumber: 2.4 Consensus size: 63
5651122 ACTCACCATT
* * * *
5651132 TCGAATGCATTTTATGCATCGATGCAC-TTCCATGCATCGATGCACTCA-GGTTTTTATGAAAAC
1 TCGAATGCATTTTATGCATCGATGCACAAT-CATGCATCGATACACTCATGCTTGTT-TG-AAAC
5651195 A
63 A
5651196 TCGAATGCATTTTATGCATCGATGCACAGATCATGCATCGATACACTCATGCTTGTTTGAAACA
1 TCGAATGCATTTTATGCATCGATGCACA-ATCATGCATCGATACACTCATGCTTGTTTGAAACA
5651260 TCGAATGCATTTTATGCATCGATG
1 TCGAATGCATTTTATGCATCGATG
5651284 TACCCTTAGT
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
64 56 0.69
65 19 0.23
66 6 0.07
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (63 bp):
TCGAATGCATTTTATGCATCGATGCACAATCATGCATCGATACACTCATGCTTGTTTGAAACA
Found at i:5657121 original size:23 final size:22
Alignment explanation
Indices: 5657041--5657120 Score: 90
Period size: 23 Copynumber: 3.6 Consensus size: 22
5657031 TTTATGCATA
5657041 ATGCATCGATGCATCCTTTGAAT
1 ATGCATCGATGCATCC-TTGAAT
* * *
5657064 ATGCATCGATACAT-CATGAAA
1 ATGCATCGATGCATCCTTGAAT
*
5657085 ATGCATCTATGCACTCCTTGAAT
1 ATGCATCGATGCA-TCCTTGAAT
*
5657108 GTGCATCGATGCA
1 ATGCATCGATGCA
5657121 CACTGCCGTG
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 29 0.63
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (22 bp):
ATGCATCGATGCATCCTTGAAT
Found at i:5658540 original size:20 final size:20
Alignment explanation
Indices: 5658515--5658552 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
5658505 TTTGTCAAGG
5658515 GATGCACCGATGCACTCATT
1 GATGCACCGATGCACTCATT
*
5658535 GATGCATCGATGCACTCA
1 GATGCACCGATGCACTCA
5658553 CTATTTCGAA
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:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (20 bp):
GATGCACCGATGCACTCATT
Found at i:5658663 original size:19 final size:19
Alignment explanation
Indices: 5658636--5658703 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
5658626 ATGCATTTTA
*
5658636 TGCATCGATGCACCCTTAG
1 TGCACCGATGCACCCTTAG
**
5658655 TGCACCGATGCA-TTTTA-
1 TGCACCGATGCACCCTTAG
*
5658672 TGCATCGATGCACCCTTAG
1 TGCACCGATGCACCCTTAG
* *
5658691 TACACTGATGCAC
1 TGCACCGATGCAC
5658704 TAAGTGTTCC
Statistics
Matches: 38, Mismatches: 9, Indels: 4
0.75 0.18 0.08
Matches are distributed among these distances:
17 11 0.29
18 6 0.16
19 21 0.55
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (19 bp):
TGCACCGATGCACCCTTAG
Found at i:5658668 original size:36 final size:36
Alignment explanation
Indices: 5658626--5658702 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
5658616 AAAACATCAA
*
5658626 ATGCATTTTATGCATCGATGCACCCTTAGTGCACCG
1 ATGCATTTTATGCATCGATGCACCCTTAGTACACCG
*
5658662 ATGCATTTTATGCATCGATGCACCCTTAGTACACTG
1 ATGCATTTTATGCATCGATGCACCCTTAGTACACCG
5658698 ATGCA
1 ATGCA
5658703 CTAAGTGTTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (36 bp):
ATGCATTTTATGCATCGATGCACCCTTAGTACACCG
Found at i:5658680 original size:17 final size:17
Alignment explanation
Indices: 5658626--5658683 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
5658616 AAAACATCAA
5658626 ATGCATTTTATGCATCG
1 ATGCATTTTATGCATCG
** *
5658643 ATGCACCCTTAGTGCACCG
1 ATGCA-TTTTA-TGCATCG
5658662 ATGCATTTTATGCATCG
1 ATGCATTTTATGCATCG
5658679 ATGCA
1 ATGCA
5658684 CCCTTAGTAC
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 16 0.48
18 6 0.18
19 11 0.33
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (17 bp):
ATGCATTTTATGCATCG
Found at i:5662280 original size:20 final size:20
Alignment explanation
Indices: 5662239--5662287 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
5662229 ATAAAAAAAA
*
5662239 TTGTTTTTAATTCTAAATTG
1 TTGTTTTTGATTCTAAATTG
*
5662259 TTGTTTTTGATT-TAATTATG
1 TTGTTTTTGATTCTAAAT-TG
5662279 TT-TTTTTGA
1 TTGTTTTTGA
5662288 AAACTATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.65
Consensus pattern (20 bp):
TTGTTTTTGATTCTAAATTG
Found at i:5662336 original size:12 final size:13
Alignment explanation
Indices: 5662307--5662339 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
5662297 ATATTACGAT
*
5662307 TTTTCAAACATCG
1 TTTTCAAACATAG
5662320 TTTTCAAA-ATAG
1 TTTTCAAACATAG
5662332 TTTTCAAA
1 TTTTCAAA
5662340 TTTTTCCCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.36, C:0.15, G:0.06, T:0.42
Consensus pattern (13 bp):
TTTTCAAACATAG
Found at i:5664495 original size:18 final size:19
Alignment explanation
Indices: 5664472--5664508 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
5664462 GAATGTAAAA
*
5664472 AGGGTACGGATA-CCCCAT
1 AGGGTACCGATATCCCCAT
5664490 AGGGTACCGATATCCCCAT
1 AGGGTACCGATATCCCCAT
5664509 GTAAAGAGGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (19 bp):
AGGGTACCGATATCCCCAT
Found at i:5669701 original size:20 final size:20
Alignment explanation
Indices: 5669660--5669708 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
5669650 AATAAAAAAA
*
5669660 TTGTTTTTAATTCTAAATTG
1 TTGTTTTTGATTCTAAATTG
*
5669680 TTGTTTTTGATT-TAATTATG
1 TTGTTTTTGATTCTAAAT-TG
5669700 TT-TTTTTGA
1 TTGTTTTTGA
5669709 AAACTATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 11 0.42
20 15 0.58
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.65
Consensus pattern (20 bp):
TTGTTTTTGATTCTAAATTG
Found at i:5673599 original size:3 final size:3
Alignment explanation
Indices: 5673591--5673716 Score: 173
Period size: 3 Copynumber: 42.0 Consensus size: 3
5673581 TTTATCCATT
* * *
5673591 TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
5673639 TTA TTA TTAA TT- TTA TTA TTA CTA TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
5673684 TTT TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5673717 AATATATTAA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
2 2 0.02
3 102 0.95
4 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:5675841 original size:21 final size:21
Alignment explanation
Indices: 5675817--5675894 Score: 56
Period size: 21 Copynumber: 3.6 Consensus size: 21
5675807 AAAAATTAAA
5675817 AATTTTATATATTTAATTTTT
1 AATTTTATATATTTAATTTTT
*
5675838 AATTCTT-TCT-TTTCAAATTTTT
1 AATT-TTATATATTT--AATTTTT
5675860 --TTTTATATATTTATTATTTTAT
1 AATTTTATATATTTA--ATTTT-T
5675882 AATATTTATATAT
1 AAT-TTTATATAT
5675895 GTTTTATTTG
Statistics
Matches: 44, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
19 3 0.07
20 7 0.16
21 14 0.32
22 10 0.23
24 1 0.02
25 9 0.20
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (21 bp):
AATTTTATATATTTAATTTTT
Found at i:5686505 original size:5 final size:5
Alignment explanation
Indices: 5686495--5686581 Score: 69
Period size: 5 Copynumber: 17.6 Consensus size: 5
5686485 GCTTGAAGAA
5686495 AAAAG AAAAG AAAAAG AAAAG -AAAG AAAAG AAAAAAG AAAAG -AAAG
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG --AAAAG AAAAG AAAAG
* *
5686541 AAAA- AAAA- AATAG AAAATG -AAA- AAAAG AGAAG AAAAAG AAA
1 AAAAG AAAAG AAAAG AAAA-G AAAAG AAAAG AAAAG -AAAAG AAA
5686582 GGGGGTCAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 20
0.74 0.04 0.22
Matches are distributed among these distances:
4 18 0.26
5 35 0.51
6 10 0.15
7 5 0.07
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:5686516 original size:16 final size:16
Alignment explanation
Indices: 5686494--5686581 Score: 71
Period size: 16 Copynumber: 5.6 Consensus size: 16
5686484 TGCTTGAAGA
5686494 AAAAAGAAAAGAAAA-
1 AAAAAGAAAAGAAAAG
5686509 AGAAAAG-AAAGAAAAG
1 A-AAAAGAAAAGAAAAG
5686525 AAAAAAGAAAAG-AAAG
1 -AAAAAGAAAAGAAAAG
*
5686541 AAAAAAAAAATAGAAAATG
1 -AAAAAGAAA-AGAAAA-G
*
5686560 --AAA-AAAAGAGAAG
1 AAAAAGAAAAGAAAAG
5686573 AAAAAGAAA
1 AAAAAGAAA
5686582 GGGGGTCAAG
Statistics
Matches: 61, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
13 1 0.02
14 5 0.08
15 15 0.25
16 29 0.48
17 7 0.11
18 3 0.05
19 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (16 bp):
AAAAAGAAAAGAAAAG
Found at i:5686527 original size:32 final size:33
Alignment explanation
Indices: 5686490--5686581 Score: 123
Period size: 32 Copynumber: 2.7 Consensus size: 33
5686480 ATTATGCTTG
*
5686490 AAGAAAAAAGAAAAGAAAAAGAAAAGAA-AGAA
1 AAGAAAAAAGAAAAGAAAAAGAAAAAAATAGAA
*
5686522 AAGAAAAAAGAAAAGAAAGAAAAAAAAAATAGAA
1 AAGAAAAAAGAAAAGAAA-AAGAAAAAAATAGAA
*
5686556 AATGAAAAAAAGAGAAGAAAAAGAAA
1 AA-G-AAAAAAGAAAAGAAAAAGAAA
5686582 GGGGGTCAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
32 18 0.35
33 8 0.15
34 6 0.12
35 6 0.12
36 14 0.27
ACGTcount: A:0.80, C:0.00, G:0.17, T:0.02
Consensus pattern (33 bp):
AAGAAAAAAGAAAAGAAAAAGAAAAAAATAGAA
Found at i:5687813 original size:51 final size:50
Alignment explanation
Indices: 5687699--5687988 Score: 517
Period size: 51 Copynumber: 5.7 Consensus size: 50
5687689 GACTCAATAA
5687699 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGAAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGAAGAACATAG
5687749 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTGAGAAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGT-AGAAGAACATAG
*
5687800 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGAAGAACATAG
*
5687850 CATCTTCTGGAAGTATTCTTTGAGTTATCTGATCTGGCTAGACAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TAGA-AGAACATAG
5687902 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TAGAAGAACATAG
*
5687953 CATCTTCTGGAAGTTTTCTTTGAGTTATCTGATCTG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTG
5687989 ATTGGACAGA
Statistics
Matches: 231, Mismatches: 6, Indels: 5
0.95 0.02 0.02
Matches are distributed among these distances:
50 85 0.37
51 97 0.42
52 49 0.21
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (50 bp):
CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGAAGAACATAG
Found at i:5687833 original size:101 final size:102
Alignment explanation
Indices: 5687699--5687988 Score: 521
Period size: 101 Copynumber: 2.8 Consensus size: 102
5687689 GACTCAATAA
*
5687699 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGAAGAACATAGCATCTTCTGGAAGTG
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGAAGAACATAGCATCTTCTGGAAGTA
5687764 TTCTTTGAGTTATCTGATCTGG-TGAGA-AGAACATAG
66 TTCTTTGAGTTATCTGATCTGGCT-AGACAGAACATAG
*
5687800 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAAGAACATAGCATCTTCTGGAAGTA
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGAAGAACATAGCATCTTCTGGAAGTA
5687865 TTCTTTGAGTTATCTGATCTGGCTAGACAGAACATAG
66 TTCTTTGAGTTATCTGATCTGGCTAGACAGAACATAG
5687902 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGAAGAACATAGCATCTTCTGGAAGT
1 CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGG-TAGAAGAACATAGCATCTTCTGGAAGT
*
5687967 TTTCTTTGAGTTATCTGATCTG
65 ATTCTTTGAGTTATCTGATCTG
5687989 ATTGGACAGA
Statistics
Matches: 182, Mismatches: 4, Indels: 4
0.96 0.02 0.02
Matches are distributed among these distances:
101 88 0.48
102 47 0.26
103 47 0.26
ACGTcount: A:0.24, C:0.15, G:0.23, T:0.38
Consensus pattern (102 bp):
CATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTAGAAGAACATAGCATCTTCTGGAAGTA
TTCTTTGAGTTATCTGATCTGGCTAGACAGAACATAG
Found at i:5689013 original size:118 final size:118
Alignment explanation
Indices: 5688626--5689542 Score: 1472
Period size: 118 Copynumber: 7.9 Consensus size: 118
5688616 TTAGCAAAGA
* ** *
5688626 CTTGAATTCATCACTTGATGGATCATTCTTTTCCAGA-GAA-AGTTCATAATGAGAAGAA--C-T
1 CTTGAATCCATCGTTTGATGGATCA-TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
5688686 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
65 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
* ** *
5688740 CTTGAATTCATCACTTGATGGATCATTCTTTTCCAGA-GAA-AGTTCATAATGAGAAGAA--C-T
1 CTTGAATCCATCGTTTGATGGATCA-TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
5688800 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
65 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
* ** *
5688854 CTTGAATTCATCACTTGATGGATCATTCTTTTCCAGA-GAAGAGTTCATAATGAGAAGAACTCGT
1 CTTGAATCCATCGTTTGATGGATCA-TCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
*
5688918 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTGTTG
65 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
5688972 CTTGAATCCATCGTTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
1 CTTGAATCCATCGTTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
*
5689037 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTG
66 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
5689090 CTTGAATCCATCGTTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
1 CTTGAATCCATCGTTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
*
5689155 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTGTTG
66 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
5689208 CTTGAATCCATCGTTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
1 CTTGAATCCATCGTTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
*
5689273 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTGTTG
66 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
5689326 CTTGAATCCATCGTTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
1 CTTGAATCCATCGTTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
*
5689391 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTG
66 ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
* * * *
5689444 CTTGAATTCATCAG-TTGATGGATCAACATTACCAG-GTAA-AGTTCATAATGAGAAGAA--C-T
1 CTTGAATCCATC-GTTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGT
* *
5689503 CATTTGAAGAAGGAAGAAAAAGTTCATAATGAGAAGAACT
65 CATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACT
5689543 CATCAAGAGC
Statistics
Matches: 780, Mismatches: 17, Indels: 13
0.96 0.02 0.02
Matches are distributed among these distances:
113 39 0.05
114 155 0.20
115 18 0.02
116 18 0.02
117 14 0.02
118 535 0.69
119 1 0.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (118 bp):
CTTGAATCCATCGTTTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTC
ATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
Found at i:5689799 original size:3 final size:3
Alignment explanation
Indices: 5689791--5689916 Score: 173
Period size: 3 Copynumber: 42.0 Consensus size: 3
5689781 TTTATCCATT
* * *
5689791 TTA TTA TTA TTA TTA TTA ATA TTA TTA TTA TCA TTA TTA ATA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
5689839 TTA TTA TTAA TT- TTA TTA TTA CTA TTA TTA ATA TTA TTA TTA TTA
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
5689884 TTT TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
5689917 AATATATTAA
Statistics
Matches: 107, Mismatches: 14, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
2 2 0.02
3 102 0.95
4 3 0.03
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:5706195 original size:33 final size:33
Alignment explanation
Indices: 5706153--5706218 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
5706143 GTCAGAGATG
5706153 ACTAAAATACCCTTTAAGTGCTAATTAATCTTT
1 ACTAAAATACCCTTTAAGTGCTAATTAATCTTT
5706186 ACTAAAATACCCTTTAAGTGCTAATTAATCTTT
1 ACTAAAATACCCTTTAAGTGCTAATTAATCTTT
5706219 CCTTAACATC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.36, C:0.18, G:0.06, T:0.39
Consensus pattern (33 bp):
ACTAAAATACCCTTTAAGTGCTAATTAATCTTT
Found at i:5706402 original size:17 final size:17
Alignment explanation
Indices: 5706380--5706414 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5706370 AGAAAGACTT
5706380 ATAATAATAATGAGATA
1 ATAATAATAATGAGATA
* *
5706397 ATAATAATTATGTGATA
1 ATAATAATAATGAGATA
5706414 A
1 A
5706415 CCATAAGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.11, T:0.34
Consensus pattern (17 bp):
ATAATAATAATGAGATA
Found at i:5714294 original size:29 final size:29
Alignment explanation
Indices: 5714222--5714288 Score: 134
Period size: 29 Copynumber: 2.3 Consensus size: 29
5714212 CATGGAAGTA
5714222 AGAAAAGATTGCATTTTCTTTATGTAGCC
1 AGAAAAGATTGCATTTTCTTTATGTAGCC
5714251 AGAAAAGATTGCATTTTCTTTATGTAGCC
1 AGAAAAGATTGCATTTTCTTTATGTAGCC
5714280 AGAAAAGAT
1 AGAAAAGAT
5714289 AACATTACGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (29 bp):
AGAAAAGATTGCATTTTCTTTATGTAGCC
Found at i:5719731 original size:18 final size:18
Alignment explanation
Indices: 5719708--5719742 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
5719698 ACTGAATATT
*
5719708 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
5719726 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
5719743 GTTAATCCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Found at i:5730120 original size:21 final size:22
Alignment explanation
Indices: 5730096--5730144 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
5730086 AACTCCAATC
*
5730096 TATAACA-TTTAAACTCTAAAA
1 TATAACACCTTAAACTCTAAAA
*
5730117 TATAA-ACCTTAAATTCTAAAA
1 TATAACACCTTAAACTCTAAAA
5730138 TGATAAC
1 T-ATAAC
5730145 TCATAAATCT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 1 0.04
21 18 0.78
22 4 0.17
ACGTcount: A:0.51, C:0.14, G:0.02, T:0.33
Consensus pattern (22 bp):
TATAACACCTTAAACTCTAAAA
Found at i:5731302 original size:127 final size:126
Alignment explanation
Indices: 5731053--5731291 Score: 388
Period size: 127 Copynumber: 1.9 Consensus size: 126
5731043 AAAAGAATGT
* * **
5731053 TCAGTACACTTGGGCATTCTTCTGGCCCACTAAAAACAATATCTACAAACGCCAGCTTCTGCCTA
1 TCAGTACACTTGGGCATTCTTCTGGCACACTAAAAACAATATCTACAAACGACAGCTTCCACCTA
*
5731118 CCCCAAACCAACTACAGATAAATCAAGCACCAGCCAAAAACCAAACTCAACCTATATTTTC
66 CCCCAAACCAACTACAGATAAAGCAAGCACCAGCCAAAAACCAAACTCAACCTATATTTTC
*
5731179 TCAGTACACTTGGGCATTCTTCTGGCACACTAAAAAACAATATCTACAAACGACAGCTTCCATCT
1 TCAGTACACTTGGGCATTCTTCTGGCACACT-AAAAACAATATCTACAAACGACAGCTTCCACCT
* * *
5731244 ACCCTAAACCAACTACAGGTAAAGCAAGCACCAGCCAAAGACCAAACT
65 ACCCCAAACCAACTACAGATAAAGCAAGCACCAGCCAAAAACCAAACT
5731292 GAAGGTATAT
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
126 30 0.29
127 73 0.71
ACGTcount: A:0.38, C:0.31, G:0.11, T:0.20
Consensus pattern (126 bp):
TCAGTACACTTGGGCATTCTTCTGGCACACTAAAAACAATATCTACAAACGACAGCTTCCACCTA
CCCCAAACCAACTACAGATAAAGCAAGCACCAGCCAAAAACCAAACTCAACCTATATTTTC
Found at i:5744701 original size:20 final size:19
Alignment explanation
Indices: 5744678--5744727 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
5744668 AGCGGGTGGG
*
5744678 TATCGATACCAAAGGTTCAT
1 TATCGATACCAAAGG-TCAA
*
5744698 TATCGATACTGAAAGGTCAA
1 TATCGATAC-CAAAGGTCAA
5744718 TATCGATACC
1 TATCGATACC
5744728 CACATACATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 21 0.81
21 5 0.19
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (19 bp):
TATCGATACCAAAGGTCAA
Found at i:5750203 original size:23 final size:23
Alignment explanation
Indices: 5750171--5750229 Score: 84
Period size: 22 Copynumber: 2.6 Consensus size: 23
5750161 TTAGTGCAAG
*
5750171 AGGTATCGATACCCCCTTTGAAT
1 AGGTACCGATACCCCCTTTGAAT
5750194 AGGTACCGATA-CCCCTTTGAAT
1 AGGTACCGATACCCCCTTTGAAT
* *
5750216 GGGTACTGATACCC
1 AGGTACCGATACCC
5750230 TCCCCGAGGG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
22 20 0.62
23 12 0.38
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (23 bp):
AGGTACCGATACCCCCTTTGAAT
Found at i:5755118 original size:20 final size:20
Alignment explanation
Indices: 5755071--5755110 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
5755061 ATTAGTCATG
5755071 ACCTTTTGACCAACAATGAA
1 ACCTTTTGACCAACAATGAA
*
5755091 ACCTTTTGACCAATAATGAA
1 ACCTTTTGACCAACAATGAA
5755111 GACTTTTGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.40, C:0.23, G:0.10, T:0.28
Consensus pattern (20 bp):
ACCTTTTGACCAACAATGAA
Found at i:5758175 original size:27 final size:27
Alignment explanation
Indices: 5758137--5758203 Score: 125
Period size: 27 Copynumber: 2.5 Consensus size: 27
5758127 GATAATGGCC
5758137 CTGAATCATTCAGAATGTACTTCTATA
1 CTGAATCATTCAGAATGTACTTCTATA
*
5758164 CTGAATCATTCAGAATGTACTTCTATG
1 CTGAATCATTCAGAATGTACTTCTATA
5758191 CTGAATCATTCAG
1 CTGAATCATTCAG
5758204 TACTGTTTTG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (27 bp):
CTGAATCATTCAGAATGTACTTCTATA
Found at i:5758447 original size:14 final size:14
Alignment explanation
Indices: 5758425--5758458 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
5758415 ACATTTTTTC
*
5758425 AAAACGTTTTCCGG
1 AAAATGTTTTCCGG
*
5758439 AAAATGTTTTCCGT
1 AAAATGTTTTCCGG
5758453 AAAATG
1 AAAATG
5758459 AATTATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.18, T:0.32
Consensus pattern (14 bp):
AAAATGTTTTCCGG
Found at i:5758724 original size:31 final size:29
Alignment explanation
Indices: 5758656--5758725 Score: 70
Period size: 31 Copynumber: 2.2 Consensus size: 29
5758646 AATATTATTT
*
5758656 TTATAATTTTATTAATAAAAATATTAATAT
1 TTAT-ATTTTATTAATAAAAATATTAATAA
5758686 TGGTATATTTTATTGAAATAAAAATATT-ATAAA
1 T--TATATTTTATT--AATAAAAATATTAAT-AA
5758719 TTATATT
1 TTATATT
5758726 AATTATTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
30 1 0.03
31 14 0.41
32 5 0.15
33 14 0.41
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (29 bp):
TTATATTTTATTAATAAAAATATTAATAA
Found at i:5758804 original size:23 final size:23
Alignment explanation
Indices: 5758755--5758805 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
5758745 GTGTTATATT
**
5758755 ATATTTTAAAAATATTAATTAGT
1 ATATTTTAAAAATATTAATTAAA
* * *
5758778 ATATTTTAAATATCTTTATTAAA
1 ATATTTTAAAAATATTAATTAAA
5758801 ATATT
1 ATATT
5758806 ATTACATTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (23 bp):
ATATTTTAAAAATATTAATTAAA
Done.