Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_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: 7662336
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 34 of 38
Found at i:6889510 original size:44 final size:44
Alignment explanation
Indices: 6889437--6889532 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 44
6889427 CATCAAAAAA
*
6889437 CTACTAATTTGCAAATAGATAATAAAAAATGAT-AAATTACTAAT
1 CTACTAATTTGCAAATAAATAATAAAAAAT-ATAAAATTACTAAT
* * ** *
6889481 CTACTAATTTTCTAATAAATAATTTAAAATATAAAATTATTAAT
1 CTACTAATTTGCAAATAAATAATAAAAAATATAAAATTACTAAT
*
6889525 -TAATAATT
1 CTACTAATT
6889533 ATTATTTTAC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
43 9 0.20
44 35 0.80
ACGTcount: A:0.51, C:0.07, G:0.03, T:0.39
Consensus pattern (44 bp):
CTACTAATTTGCAAATAAATAATAAAAAATATAAAATTACTAAT
Found at i:6889872 original size:32 final size:31
Alignment explanation
Indices: 6889836--6889955 Score: 96
Period size: 32 Copynumber: 3.7 Consensus size: 31
6889826 TTTTAACAAG
6889836 CTTAACAAGCAACGAGTCGAGCAACAAATTTT
1 CTTAACAAGC-ACGAGTCGAGCAACAAATTTT
* * * ****
6889868 CTTAACGAGCATGAGTCGAGCGAAATTATAACGAG
1 CTTAACAAGCACGAGTCGAGC--AA-CA-AATTTT
*
6889903 CTTAACAAGCAACGAGTCGAACAACAAATTTT
1 CTTAACAAGC-ACGAGTCGAGCAACAAATTTT
* *
6889935 CTTAACGAGCACGAGTTGAGC
1 CTTAACAAGCACGAGTCGAGC
6889956 GAAATTTTAA
Statistics
Matches: 65, Mismatches: 18, Indels: 11
0.69 0.19 0.12
Matches are distributed among these distances:
31 19 0.29
32 20 0.31
33 3 0.05
34 3 0.05
35 11 0.17
36 9 0.14
ACGTcount: A:0.38, C:0.21, G:0.20, T:0.21
Consensus pattern (31 bp):
CTTAACAAGCACGAGTCGAGCAACAAATTTT
Found at i:6889878 original size:67 final size:67
Alignment explanation
Indices: 6889764--6890023 Score: 281
Period size: 67 Copynumber: 3.8 Consensus size: 67
6889754 CAAGACGAGA
* * * * * * * * * *
6889764 AACGAGCTAAACGATCAACGAGTCAAGCAA-TAATTTTCTTCATGAGCACAAGTCTATCAAAATT
1 AACGAGCTTAACAAGCAACGAGTCGAGCAACAAATTTTCTTAACGAGCACGAGTCTAGCGAAATT
6889828 TT
66 TT
* * *
6889830 AACAAGCTTAACAAGCAACGAGTCGAGCAACAAATTTTCTTAACGAGCATGAGTCGAGCGAAATT
1 AACGAGCTTAACAAGCAACGAGTCGAGCAACAAATTTTCTTAACGAGCACGAGTCTAGCGAAATT
*
6889895 AT
66 TT
*
6889897 AACGAGCTTAACAAGCAACGAGTCGAACAACAAATTTTCTTAACGAGCACGAGT-TGAGCGAAAT
1 AACGAGCTTAACAAGCAACGAGTCGAGCAACAAATTTTCTTAACGAGCACGAGTCT-AGCGAAAT
6889961 TTT
65 TTT
* * * *
6889964 AACGAGCTTAATAAGCAACGAGTCAAGTCAAGAAACAAATTTTTTTAACGAGCATGAGTC
1 AACGAGCTTAACAAGCAACGAGTC--G---AGCAACAAATTTTCTTAACGAGCACGAGTC
6890024 GAGCACTACT
Statistics
Matches: 162, Mismatches: 24, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
66 25 0.15
67 111 0.69
69 1 0.01
72 25 0.15
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (67 bp):
AACGAGCTTAACAAGCAACGAGTCGAGCAACAAATTTTCTTAACGAGCACGAGTCTAGCGAAATT
TT
Found at i:6889921 original size:36 final size:36
Alignment explanation
Indices: 6889880--6889987 Score: 91
Period size: 36 Copynumber: 3.1 Consensus size: 36
6889870 TAACGAGCAT
6889880 GAGTCGAGCGAAATTATAACGAGCTTAACAAGCAAC
1 GAGTCGAGCGAAATTATAACGAGCTTAACAAGCAAC
* * **** *
6889916 GAGTCGAAC--AA-CA-AATTTTCTTAACGAGC-AC
1 GAGTCGAGCGAAATTATAACGAGCTTAACAAGCAAC
* * *
6889947 GAGTTGAGCGAAATTTTAACGAGCTTAATAAGCAAC
1 GAGTCGAGCGAAATTATAACGAGCTTAACAAGCAAC
6889983 GAGTC
1 GAGTC
6889988 AAGTCAAGAA
Statistics
Matches: 49, Mismatches: 18, Indels: 10
0.64 0.23 0.13
Matches are distributed among these distances:
31 9 0.18
32 11 0.22
33 3 0.06
34 2 0.04
35 10 0.20
36 14 0.29
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (36 bp):
GAGTCGAGCGAAATTATAACGAGCTTAACAAGCAAC
Found at i:6889945 original size:134 final size:135
Alignment explanation
Indices: 6889764--6890027 Score: 329
Period size: 134 Copynumber: 1.9 Consensus size: 135
6889754 CAAGACGAGA
* * * * * *
6889764 AACGAGCTAAACGATCAACGAGTCAAGCAATAATTTTCTTCATGAGCACAAGTCT-ATCAAAATT
1 AACGAGCTAAACAAGCAACGAGTCAAGCAAAAATTTTCTTAACGAGCACAAGT-TGAGCAAAATT
*
6889828 TTAACAAGCTTAACAAGCAACGAGTC-G-AGCAACAAATTTTCTTAACGAGCATGAGTCGAGCGA
65 TTAACAAGCTTAACAAGCAACGAGTCAGAAGAAACAAATTTTCTTAACGAGCATGAGTCGAGCGA
6889891 AATTAT
130 AATTAT
* * *
6889897 AACGAGCTTAACAAGCAACGAGTCGAA-CAACAAATTTTCTTAACGAGCACGAGTTGAGCGAAAT
1 AACGAGCTAAACAAGCAACGAGTC-AAGCAA-AAATTTTCTTAACGAGCACAAGTTGAGCAAAAT
* * *
6889961 TTTAACGAGCTTAATAAGCAACGAGTCAAGTCAAGAAACAAATTTTTTTAACGAGCATGAGTCGA
64 TTTAACAAGCTTAACAAGCAACGAGTC-AG--AAGAAACAAATTTTCTTAACGAGCATGAGTCGA
6890026 GC
126 GC
6890028 ACTACTTAAC
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
133 25 0.23
134 52 0.47
136 1 0.01
139 32 0.29
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.23
Consensus pattern (135 bp):
AACGAGCTAAACAAGCAACGAGTCAAGCAAAAATTTTCTTAACGAGCACAAGTTGAGCAAAATTT
TAACAAGCTTAACAAGCAACGAGTCAGAAGAAACAAATTTTCTTAACGAGCATGAGTCGAGCGAA
ATTAT
Found at i:6891484 original size:31 final size:31
Alignment explanation
Indices: 6891448--6891507 Score: 95
Period size: 31 Copynumber: 1.9 Consensus size: 31
6891438 AACTTAAAAG
*
6891448 AGTTTTGCAATACT-AATATTTAAATAATTTT
1 AGTTTTACAATACTGAA-ATTTAAATAATTTT
6891479 AGTTTTACAATACTGAAATTTAAATAATT
1 AGTTTTACAATACTGAAATTTAAATAATT
6891508 CATACAACTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
31 25 0.93
32 2 0.07
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.45
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:6892015 original size:20 final size:19
Alignment explanation
Indices: 6891967--6892015 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
6891957 AACTTAAATC
*
6891967 AAAATAATTAAAATAAATAT
1 AAAATAATT-TAATAAATAT
6891987 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAA-ATAT
6892005 AAAATAATTTA
1 AAAATAATTTA
6892016 TATGACATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
20 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATAATTTAATAAATAT
Found at i:6892062 original size:64 final size:61
Alignment explanation
Indices: 6891987--6892179 Score: 178
Period size: 64 Copynumber: 3.0 Consensus size: 61
6891977 AAATAAATAT
* *
6891987 AAAATTTTAATAA-TATATAAAATAATTTATATGACATAAAATTAAATATCTATAATATAATATT
1 AAAATTATATTAATTATATAAAA-AA-TTA-AT-A-ATAAAATT-AATATCTATAATATAATATT
6892051 AA
60 AA
* *
6892053 AAAATTAATATTTAATTTATTTAAAAAATTAATATTAAAATTAATATCTATAATATAATATTAA
1 AAAATT-ATA-TTAA-TTATATAAAAAATTAATAATAAAATTAATATCTATAATATAATATTAA
* * * *
6892117 AAAATTAGTATTTAATTTATTTAAAAAAATAATATTAAAATTAAAATC-A-AATATAATA-TAA
1 AAAATTA-TA-TTAA-TTATATAAAAAATTAATAATAAAATTAATATCTATAATATAATATTAA
6892178 AA
1 AA
6892180 TTAAATATAA
Statistics
Matches: 116, Mismatches: 6, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
61 5 0.04
62 9 0.08
63 2 0.02
64 66 0.57
65 7 0.06
66 7 0.06
67 4 0.03
68 6 0.05
69 2 0.02
70 8 0.07
ACGTcount: A:0.57, C:0.02, G:0.01, T:0.40
Consensus pattern (61 bp):
AAAATTATATTAATTATATAAAAAATTAATAATAAAATTAATATCTATAATATAATATTAA
Found at i:6892123 original size:40 final size:37
Alignment explanation
Indices: 6892044--6892128 Score: 100
Period size: 40 Copynumber: 2.2 Consensus size: 37
6892034 ATCTATAATA
*
6892044 TAATATTAAAAAATTAATATTTAATTTATTTAAAAAAT
1 TAATATT-AAAAATTAATATTTAATTAATTTAAAAAAT
6892082 TAATATT-AAAATTAATATCTATAATATAATATTAAAAAAT
1 TAATATTAAAAATTAATAT-T-TAAT-TAAT-TTAAAAAAT
*
6892122 TAGTATT
1 TAATATT
6892129 TAATTTATTT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
36 11 0.27
37 1 0.02
38 11 0.27
39 3 0.07
40 15 0.37
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (37 bp):
TAATATTAAAAATTAATATTTAATTAATTTAAAAAAT
Found at i:6892132 original size:26 final size:27
Alignment explanation
Indices: 6892079--6892160 Score: 77
Period size: 24 Copynumber: 3.2 Consensus size: 27
6892069 TTATTTAAAA
6892079 AATTAATATT--AAAATTAATATCTAT
1 AATTAATATTAAAAAATTAATATCTAT
*
6892104 AATATAATATTAAAAAATTAGTAT-T-T
1 AAT-TAATATTAAAAAATTAATATCTAT
* * *
6892130 AATTTAT-TTAAAAAAATAATAT-TAA
1 AATTAATATTAAAAAATTAATATCTAT
6892155 AATTAA
1 AATTAA
6892161 AATCAAATAT
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
24 14 0.30
25 11 0.23
26 11 0.23
27 1 0.02
28 10 0.21
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (27 bp):
AATTAATATTAAAAAATTAATATCTAT
Found at i:6893062 original size:21 final size:22
Alignment explanation
Indices: 6893024--6893064 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6893014 TTAAAATTAA
* *
6893024 TAAAGGAAGTATCGATACTCAT
1 TAAAGGAAGTACCAATACTCAT
6893046 TAAAGG-AGTACCAATACTC
1 TAAAGGAAGTACCAATACTC
6893065 TATGTCCTGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (22 bp):
TAAAGGAAGTACCAATACTCAT
Found at i:6895082 original size:78 final size:78
Alignment explanation
Indices: 6894953--6895098 Score: 274
Period size: 78 Copynumber: 1.9 Consensus size: 78
6894943 AGGGAACAAT
* *
6894953 GGGCATTGAAACTAACGTCCAAGGATCCAAAGCAATTTGGATACCAAAATCTACTTAAATGTCTC
1 GGGCATTGAAACTAACGTCCAAGGATCAAAAGCAATTTGGATACCAAAATCTACTTAAATGTCAC
6895018 TTGTAGGTGTGTG
66 TTGTAGGTGTGTG
6895031 GGGCATTGAAACTAACGTCCAAGGATCAAAAGCAATTTGGATACCAAAATCTACTTAAATGTCAC
1 GGGCATTGAAACTAACGTCCAAGGATCAAAAGCAATTTGGATACCAAAATCTACTTAAATGTCAC
6895096 TTG
66 TTG
6895099 AAAAGGAATG
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
78 66 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (78 bp):
GGGCATTGAAACTAACGTCCAAGGATCAAAAGCAATTTGGATACCAAAATCTACTTAAATGTCAC
TTGTAGGTGTGTG
Found at i:6896329 original size:21 final size:22
Alignment explanation
Indices: 6896299--6896339 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6896289 TTAAAATTAA
6896299 TAAAGGAAGTACCGATACTCAT
1 TAAAGGAAGTACCGATACTCAT
**
6896321 TAAA-GAAGTATTGATACTC
1 TAAAGGAAGTACCGATACTC
6896340 CCTATCATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.27
Consensus pattern (22 bp):
TAAAGGAAGTACCGATACTCAT
Found at i:6897620 original size:29 final size:30
Alignment explanation
Indices: 6897564--6897621 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
6897554 AAAACAGTCG
*
6897564 AGTGAGCAAAATGATTCGATTGTAAAGTTT
1 AGTGAGCAAAATGATTCAATTGTAAAGTTT
*
6897594 AGTGAGCAAATTGA-TCAAATTG-AAAGTT
1 AGTGAGCAAAATGATTC-AATTGTAAAGTT
6897622 GGGTGAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 8 0.32
30 17 0.68
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.31
Consensus pattern (30 bp):
AGTGAGCAAAATGATTCAATTGTAAAGTTT
Found at i:6898422 original size:12 final size:13
Alignment explanation
Indices: 6898407--6898439 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
6898397 TTATTCTTAT
6898407 AAAAAAAACAAA-
1 AAAAAAAACAAAG
*
6898419 AAAAGAAACAAAG
1 AAAAAAAACAAAG
6898432 AAAAAAAA
1 AAAAAAAA
6898440 AATCGACGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.88, C:0.06, G:0.06, T:0.00
Consensus pattern (13 bp):
AAAAAAAACAAAG
Found at i:6900371 original size:124 final size:124
Alignment explanation
Indices: 6900143--6900618 Score: 632
Period size: 124 Copynumber: 3.8 Consensus size: 124
6900133 ATGAGGACAG
* *
6900143 TTGGTTATCTGAGGG-TGACACGGCTCCTACGTGATGAGGAGATCTGGTCGGGGATGACACTGCT
1 TTGGTTATC-CAGGGTTGACACGGCTCCTACGTGATGAGGAGATATGGTCGGGGATGACACTGCT
* *
6900207 CATACTATGATGAGTCCTT-TCCATCTAAAGGTGATAACACTGCTCATACTATGATGAATC
65 CATACTATGATGAGT-CTTGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATC
** * **
6900267 TTGGTTATCCAGGGTTGACTTGGCTCCTACGTGATGAGGAGATATGGTCAGTAATGACACTGCTC
1 TTGGTTATCCAGGGTTGACACGGCTCCTACGTGATGAGGAGATATGGTCGGGGATGACACTGCTC
* * * * *
6900332 ATACTATGATGAGTTTTGGCCATCTAAGGGTGGTGACACTACTTATACTATGATGAATC
66 ATACTATGATGAGTCTTGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATC
* * * * *
6900391 TTGGTTATCCAGGGTTAACACGGTTCCTACGTGATGAGGAGATCTAGTCGGGGATGACATTGCTC
1 TTGGTTATCCAGGGTTGACACGGCTCCTACGTGATGAGGAGATATGGTCGGGGATGACACTGCTC
* * *
6900456 GTACTATGATAAGTCTTGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATG
66 ATACTATGATGAGTCTTGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATC
* * * * * * *
6900515 TTGGTTATCTAAGGTTGACACGGTTCCTACGTGATCAGAAAATATGGTCGGGGATGACAGTGCTC
1 TTGGTTATCCAGGGTTGACACGGCTCCTACGTGATGAGGAGATATGGTCGGGGATGACACTGCTC
* * *
6900580 ATACTATAATGAATCTTGGTCATCTAAGGGTGATAACAC
66 ATACTATGATGAGTCTTGGCCATCTAAGGGTGATAACAC
6900619 AGTTCCTACG
Statistics
Matches: 304, Mismatches: 46, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
123 6 0.02
124 298 0.98
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (124 bp):
TTGGTTATCCAGGGTTGACACGGCTCCTACGTGATGAGGAGATATGGTCGGGGATGACACTGCTC
ATACTATGATGAGTCTTGGCCATCTAAGGGTGATAACACTGCTCATACTATGATGAATC
Found at i:6902230 original size:2 final size:2
Alignment explanation
Indices: 6902223--6902277 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
6902213 TAAAACTATT
6902223 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
6902265 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
6902278 TAAAAACAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6905968 original size:20 final size:19
Alignment explanation
Indices: 6905924--6905968 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
6905914 CCATTATTAG
*
6905924 AAAGAGTTTCATTTATCCA
1 AAAGAGTTTCATTTATACA
*
6905943 AAAGAGCTTTCATTTTTACA
1 AAAGAG-TTTCATTTATACA
*
6905963 AGAGAG
1 AAAGAG
6905969 ATCAATCTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (19 bp):
AAAGAGTTTCATTTATACA
Found at i:6908285 original size:13 final size:14
Alignment explanation
Indices: 6908251--6908293 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
6908241 CACAAATTTC
6908251 ACAAAAGTAAAATAA
1 ACAAAA-TAAAATAA
6908266 ACAAAATAAAAT-A
1 ACAAAATAAAATAA
*
6908279 TCAAAAT-AAATAA
1 ACAAAATAAAATAA
6908292 AC
1 AC
6908294 GTGAAACAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 4 0.16
13 9 0.36
14 6 0.24
15 6 0.24
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.16
Consensus pattern (14 bp):
ACAAAATAAAATAA
Found at i:6911608 original size:19 final size:19
Alignment explanation
Indices: 6911586--6911648 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 19
6911576 ATAAAAGCGG
6911586 TTTGCTTTTCTTTTTTCCT
1 TTTGCTTTTCTTTTTTCCT
* *
6911605 TTTGC-TTT-ATTTGT-CT
1 TTTGCTTTTCTTTTTTCCT
*
6911621 TCTTGTTTTTCTTTTTTCCT
1 T-TTGCTTTTCTTTTTTCCT
6911641 TTTGCTTT
1 TTTGCTTT
6911649 ATTTGGTGGG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
16 3 0.09
17 7 0.21
18 6 0.18
19 15 0.44
20 3 0.09
ACGTcount: A:0.02, C:0.17, G:0.08, T:0.73
Consensus pattern (19 bp):
TTTGCTTTTCTTTTTTCCT
Found at i:6916195 original size:22 final size:22
Alignment explanation
Indices: 6916170--6916689 Score: 619
Period size: 22 Copynumber: 23.6 Consensus size: 22
6916160 TAATAATTTT
6916170 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
6916192 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
6916214 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
***
6916236 TTTTAAAATAAATTTTTTCATA
1 TTTTAAAATAAATCAATTCATA
6916258 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
*
6916280 TTTTAAAATAAATTAATTCATA
1 TTTTAAAATAAATCAATTCATA
**
6916302 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATTCATA
*
6916324 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
* *
6916346 TTTTCAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
6916368 TTTTAAAATAAAT-AAATCAATA
1 TTTTAAAATAAATCAATTC-ATA
* *
6916390 TCTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
6916412 TTTTAAAATAAATCAATACATA
1 TTTTAAAATAAATCAATTCATA
**
6916434 TTTTAAAATAAAT-TTTTCCATA
1 TTTTAAAATAAATCAATT-CATA
*
6916456 TTATAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
* ***
6916478 TTTTAAAATAATTTTTTTTCATA
1 TTTTAAAATAA-ATCAATTCATA
*
6916501 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
*
6916523 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATTCATA
6916545 TTTTAAAATAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
**
6916567 TTTTAAAATAAAT-TTTTACATA
1 TTTTAAAATAAATCAATT-CATA
*
6916589 TTTTAAAATAAATTAA-TCGATA
1 TTTTAAAATAAATCAATTC-ATA
**
6916611 TTTTAAAATAAAAT-TTTTCATA
1 TTTTAAAAT-AAATCAATTCATA
*
6916633 TTTTAAAAAAAATCAATTCATA
1 TTTTAAAATAAATCAATTCATA
6916655 TTTTAAAATAAATCAA-TCTATA
1 TTTTAAAATAAATCAATTC-ATA
6916677 TTTTAAAATAAAT
1 TTTTAAAATAAAT
6916690 TTTAAAATAG
Statistics
Matches: 432, Mismatches: 48, Indels: 36
0.84 0.09 0.07
Matches are distributed among these distances:
21 21 0.05
22 374 0.87
23 37 0.09
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (22 bp):
TTTTAAAATAAATCAATTCATA
Found at i:6917539 original size:25 final size:25
Alignment explanation
Indices: 6917511--6917567 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
6917501 TAGTAATAAT
6917511 AATAATTATTTATGTAATTGTATTA
1 AATAATTATTTATGTAATTGTATTA
6917536 AATAATTATTTATGTAATTGTATTA
1 AATAATTATTTATGTAATTGTATTA
6917561 AATAATT
1 AATAATT
6917568 TATCTTCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (25 bp):
AATAATTATTTATGTAATTGTATTA
Found at i:6919817 original size:539 final size:541
Alignment explanation
Indices: 6918745--6919821 Score: 1698
Period size: 539 Copynumber: 2.0 Consensus size: 541
6918735 TCACCAACAT
* *** * * *
6918745 ATAGAAATGTCAATATTTAACATTTACGATTTGCATAAAATAGATGTGCGTGGGAAGCATGGCGA
1 ATAGAAATGTCAATATTTAACATTGACGATTTGCATAAAATAGACACGCGTGAGAAACATGGAGA
* *
6918810 AGATTGTCCGTGTAAGCATGCTACATTCATACATCAATGACAAAATAGACATTTATAATTGCCTA
66 AGATTGTCCGAGTAAGCATGCTACATTCATACATCAATGACAAAATAGACATTTACAATTGCCTA
* * ** *
6918875 ATCGTTCTGAGGTACAACCCGAAGATTTTGATTTCAATGTTTCTCTCTACCTTTAAAATTATGAA
131 ATCGTTCCGAGGTACAACCCGAAGATTTTGATTTCAATGTTTCTCCCTACCTCCAAAATTATAAA
6918940 GCAAATGAGAAACCATACTTGACAAAGCCGTAGGAGCGCTTCGAGTGGGAAATAATAAAAGCAAA
196 GCAAATGAGAAACCATACTTGACAAAGCCGTAGGAGCGCTTCGAGTGGGAAATAATAAAAGCAAA
*
6919005 ATATTGGAAAAAATCATCATCTTCATCAATATCTTCATTTTATGCTTCCGCCAATTATTATCCAT
261 ATATTGGAAAAAATCATCATCTTCATCAATATCTTCATCTTATGCTTCCGCCAATTATTATCCAT
* * *
6919070 CGCAAGAAAGCTATGGTGGATATGGTGCATATCAACCATCGATGGAGAGTCGAGTGGCGTAGGAA
326 CACAAGAAAGCTATGGTGGATATGGTGCATATCAACCATCGATAGAGAGTCAAGTGGCGTAGGAA
* *
6919135 GAAAGTGGGTGGAATTAAGTGCCACCTTCACAACAATTTTCCTCAGAACCAGAAGAAAGAGGTCT
391 GAAAGTGGGTGGAATCAAGTGCCACATTCACAACAATTTTCCTCAGAACCAGAAGAAAGAGGTCT
* * * *
6919200 ATGAGATCATTTTCTTCATCACGGATAATCTCAATTTGAGGTGAAAACGTCAATGATGGCGTCAA
456 ATGAGATAATCTTCTTCATCACAGACAATCTCAATTTGAGGTGAAAACGTCAATGATGGCGTCAA
6919265 ATACCTTGAATACTCCATGAG
521 ATACCTTGAATACTCCATGAG
6919286 ATAGAAATGTCAATATTTAACATTGACGATTTGCATAAAATAGACACGCGTGAGAAACATGGAGA
1 ATAGAAATGTCAATATTTAACATTGACGATTTGCATAAAATAGACACGCGTGAGAAACATGGAGA
* * *
6919351 AGATTGGT-CGAGTAAGCATGCTACATTCATACATCAATGACCAAATAGACATTTGCGATTGCCT
66 AGATT-GTCCGAGTAAGCATGCTACATTCATACATCAATGACAAAATAGACATTTACAATTGCCT
*
6919415 AATCGTTCCGAGGTACAACCCGAAGATTTTGATTTCAGTGTTTCTCCCTACCTCCAAAATTATAA
130 AATCGTTCCGAGGTACAACCCGAAGATTTTGATTTCAATGTTTCTCCCTACCTCCAAAATTATAA
* * *
6919480 AGCAAAT-AGGAAACCATACTTGACAACGCCGTAGGAGCGGTTCGAGTGGGAAATAATGAAAGCA
195 AGCAAATGA-GAAACCATACTTGACAAAGCCGTAGGAGCGCTTCGAGTGGGAAATAATAAAAGCA
* *
6919544 AAATA-TGG-AAAAATCATCATCTTCATCAATATCTTCATCTTATGCTTTCGCCAATTATTATTC
259 AAATATTGGAAAAAATCATCATCTTCATCAATATCTTCATCTTATGCTTCCGCCAATTATTATCC
* *
6919607 ATCACAAGAAAGTTATGGTGGATATGGTGTATATCAACCATCGATAGAGAGTCAAGCT-GCGTAG
324 ATCACAAGAAAGCTATGGTGGATATGGTGCATATCAACCATCGATAGAGAGTCAAG-TGGCGTAG
* * * * *
6919671 GAAGAAAGTGGGTGGGATCAAGTGCCAGATTCATAATAATTTTCCTCAGAACCAGAAGAAAGTGG
388 GAAGAAAGTGGGTGGAATCAAGTGCCACATTCACAACAATTTTCCTCAGAACCAGAAGAAAGAGG
* *
6919736 T-TAATGAGATAATCTTCTTCATCACAGACAATCTCAATTTGAGGTGACAATGTCAATGATGGCG
453 TCT-ATGAGATAATCTTCTTCATCACAGACAATCTCAATTTGAGGTGAAAACGTCAATGATGGCG
6919800 TCAAATACCTTGAATACTCCAT
517 TCAAATACCTTGAATACTCCAT
6919822 CGTTTTCACC
Statistics
Matches: 490, Mismatches: 42, Indels: 10
0.90 0.08 0.02
Matches are distributed among these distances:
538 1 0.00
539 245 0.50
540 5 0.01
541 237 0.48
542 2 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (541 bp):
ATAGAAATGTCAATATTTAACATTGACGATTTGCATAAAATAGACACGCGTGAGAAACATGGAGA
AGATTGTCCGAGTAAGCATGCTACATTCATACATCAATGACAAAATAGACATTTACAATTGCCTA
ATCGTTCCGAGGTACAACCCGAAGATTTTGATTTCAATGTTTCTCCCTACCTCCAAAATTATAAA
GCAAATGAGAAACCATACTTGACAAAGCCGTAGGAGCGCTTCGAGTGGGAAATAATAAAAGCAAA
ATATTGGAAAAAATCATCATCTTCATCAATATCTTCATCTTATGCTTCCGCCAATTATTATCCAT
CACAAGAAAGCTATGGTGGATATGGTGCATATCAACCATCGATAGAGAGTCAAGTGGCGTAGGAA
GAAAGTGGGTGGAATCAAGTGCCACATTCACAACAATTTTCCTCAGAACCAGAAGAAAGAGGTCT
ATGAGATAATCTTCTTCATCACAGACAATCTCAATTTGAGGTGAAAACGTCAATGATGGCGTCAA
ATACCTTGAATACTCCATGAG
Found at i:6920554 original size:13 final size:15
Alignment explanation
Indices: 6920536--6920568 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
6920526 ACATAATACA
6920536 AGTTAAAAAA-A-AT
1 AGTTAAAAAAGACAT
6920549 AGTTAAAAAAGACAT
1 AGTTAAAAAAGACAT
6920564 AGTTA
1 AGTTA
6920569 CAGTATACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 1 0.06
15 7 0.39
ACGTcount: A:0.61, C:0.03, G:0.12, T:0.24
Consensus pattern (15 bp):
AGTTAAAAAAGACAT
Found at i:6927379 original size:40 final size:40
Alignment explanation
Indices: 6927282--6927423 Score: 214
Period size: 40 Copynumber: 3.5 Consensus size: 40
6927272 ATTTTATGTA
*
6927282 ATAACAATATTAATAAAATAATACTAATAGATGTCACATC
1 ATAAAAATATTAATAAAATAATACTAATAGATGTCACATC
*
6927322 ATTAAAAATATTAATAAAATAATACTAATAGATGCCACATC
1 A-TAAAAATATTAATAAAATAATACTAATAGATGTCACATC
** *
6927363 ATAAAAATATTAATAAAATAATACTAACT-GATGTCATGTT
1 ATAAAAATATTAATAAAATAATACTAA-TAGATGTCACATC
6927403 ATAAAAATATTAATAAAATAA
1 ATAAAAATATTAATAAAATAA
6927424 ATTTTAATTA
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
40 55 0.59
41 39 0.41
ACGTcount: A:0.55, C:0.09, G:0.05, T:0.31
Consensus pattern (40 bp):
ATAAAAATATTAATAAAATAATACTAATAGATGTCACATC
Found at i:6933104 original size:2 final size:2
Alignment explanation
Indices: 6933097--6933130 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
6933087 GTTTTACAAT
6933097 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
6933131 ACTTTTAAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6938511 original size:64 final size:65
Alignment explanation
Indices: 6938387--6938511 Score: 155
Period size: 64 Copynumber: 1.9 Consensus size: 65
6938377 AAATGCAGTT
* * * *
6938387 CATGCATCGATGCACTCAGGGTTTTATGAAAACATTGAATGCATTTGATGCATCGATGCACCAGC
1 CATGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATACATTTGATACATCGATGCACCAGC
* * * *
6938452 CATGCATGGATGCACTTAGGCTATTT-TG-AAACATCGAATACATTTTATACATCGTTGCAC
1 CATGCATCGATGCACTCAGGCT-TTTATGAAAACATCGAATACATTTGATACATCGATGCAC
6938512 TCTTAGTGCA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
64 27 0.53
65 21 0.41
66 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (65 bp):
CATGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATACATTTGATACATCGATGCACCAGC
Found at i:6944348 original size:23 final size:23
Alignment explanation
Indices: 6944283--6944358 Score: 95
Period size: 23 Copynumber: 3.4 Consensus size: 23
6944273 TTAACAGTGT
6944283 ATCGATGCA-TCCTTGAATGTGC
1 ATCGATGCACTCCTTGAATGTGC
* * *
6944305 ATCGAT--ACACCATGAAGGTGC
1 ATCGATGCACTCCTTGAATGTGC
*
6944326 ACCGATGCACTCCTTGAATGTGC
1 ATCGATGCACTCCTTGAATGTGC
6944349 ATCGATGCAC
1 ATCGATGCAC
6944359 AAGGACATGC
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
20 1 0.02
21 15 0.35
22 6 0.14
23 21 0.49
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.25
Consensus pattern (23 bp):
ATCGATGCACTCCTTGAATGTGC
Found at i:6944375 original size:43 final size:42
Alignment explanation
Indices: 6944278--6944380 Score: 127
Period size: 44 Copynumber: 2.4 Consensus size: 42
6944268 TACACTTAAC
* * *
6944278 AGTGTATCGATGCATCCTTGAATGTGCATCGATACACCATGA
1 AGTGCATCGATGCATCCTTGAATGTGCATCGATACACAAGGA
* *
6944320 AGGTGCACCGATGCACTCCTTGAATGTGCATCGATGCACAAGGA
1 A-GTGCATCGATGCA-TCCTTGAATGTGCATCGATACACAAGGA
6944364 CA-TGCATCGATGCATCC
1 -AGTGCATCGATGCATCC
6944381 GTCGGGTTTT
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
42 4 0.08
43 22 0.42
44 25 0.48
45 1 0.02
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.24
Consensus pattern (42 bp):
AGTGCATCGATGCATCCTTGAATGTGCATCGATACACAAGGA
Found at i:6947078 original size:64 final size:63
Alignment explanation
Indices: 6947003--6947190 Score: 202
Period size: 65 Copynumber: 2.9 Consensus size: 63
6946993 TTTTAAAGTG
* *
6947003 ATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATTTCATGCATCGATGCACATAC
1 ATGCATCGATGCACTCA-GG-ATATATTGAAACATCGAATGCATTTAATGCATCGATGCACA-AC
6947066 C
63 C
* * * * *
6947067 ATGCATTGATGCACTCAGGGT-TTTATGAAAACATCGAATGCATTTAATGCATTGATGCACCAGC
1 ATGCATCGATGCACTCAGGATATAT-TG-AAACATCGAATGCATTTAATGCATCGATGCA-CAAC
6947131 C
63 C
* * * *
6947132 ATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTTATGAATCGATGCAC
1 ATGCATCGATGCACTCAGGATATATTGAAACATCGAATGCATTTAATGCATCGATGCAC
6947191 TCTTAGTGAA
Statistics
Matches: 106, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
62 1 0.01
63 4 0.04
64 43 0.41
65 53 0.50
66 5 0.05
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (63 bp):
ATGCATCGATGCACTCAGGATATATTGAAACATCGAATGCATTTAATGCATCGATGCACAACC
Found at i:6947108 original size:65 final size:63
Alignment explanation
Indices: 6947031--6947190 Score: 214
Period size: 65 Copynumber: 2.5 Consensus size: 63
6947021 GAATAAATTG
* * *
6947031 AACATCGAATGCATTTCATGCATCGATGCACATACCATGCATTGATGCACTCAGGGT-TTTATGA
1 AACATCGAATGCATTTAATGCATCGATGCACA-ACCATGCATCGATGCACTCAGGCTATTT-TG-
6947095 A
63 A
* *
6947096 AACATCGAATGCATTTAATGCATTGATGCACCAGCCATGCATCGATGCACTCAGGCTATTTTGA
1 AACATCGAATGCATTTAATGCATCGATGCA-CAACCATGCATCGATGCACTCAGGCTATTTTGA
* *
6947160 AACATCGAATGCATTTTATGAATCGATGCAC
1 AACATCGAATGCATTTAATGCATCGATGCAC
6947191 TCTTAGTGAA
Statistics
Matches: 85, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
63 1 0.01
64 28 0.33
65 51 0.60
66 5 0.06
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (63 bp):
AACATCGAATGCATTTAATGCATCGATGCACAACCATGCATCGATGCACTCAGGCTATTTTGA
Found at i:6953067 original size:30 final size:30
Alignment explanation
Indices: 6953031--6953090 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
6953021 ACTATCATCG
6953031 GAATATCACCAGCCCCGGTGCTAGTTCACT
1 GAATATCACCAGCCCCGGTGCTAGTTCACT
6953061 GAATATCACCAGCCCCGGTGCTAGTTCACT
1 GAATATCACCAGCCCCGGTGCTAGTTCACT
6953091 AACTATTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.23, C:0.33, G:0.20, T:0.23
Consensus pattern (30 bp):
GAATATCACCAGCCCCGGTGCTAGTTCACT
Found at i:6955249 original size:20 final size:21
Alignment explanation
Indices: 6955226--6955271 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
6955216 TTTTAAAAAA
* * *
6955226 AAATTTTAAATTTTTTAAAT-
1 AAATTTAAAATTATATAAATG
6955246 AAATTTAAAATTATATAAATG
1 AAATTTAAAATTATATAAATG
6955267 AAATT
1 AAATT
6955272 CATGTCTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (21 bp):
AAATTTAAAATTATATAAATG
Found at i:6959258 original size:31 final size:31
Alignment explanation
Indices: 6959198--6959298 Score: 98
Period size: 31 Copynumber: 3.3 Consensus size: 31
6959188 AATTGTACGC
* * **
6959198 TTAATACCTAAACTATTAAATTTGATTCAAT
1 TTAATACCTAAACTTTTAATTTTTTTTCAAT
*
6959229 TTAATACCTAAACTTTTAATTTTTTTTCAAA
1 TTAATACCTAAACTTTTAATTTTTTTTCAAT
* * * *
6959260 GTCATACCT-AACATTTAATTTTTGTTT-ATT
1 TTAATACCTAAACTTTTAATTTTT-TTTCAAT
6959290 TTAATACCT
1 TTAATACCT
6959299 CGCCGTTAAG
Statistics
Matches: 57, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
30 21 0.37
31 36 0.63
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.49
Consensus pattern (31 bp):
TTAATACCTAAACTTTTAATTTTTTTTCAAT
Found at i:6959455 original size:15 final size:16
Alignment explanation
Indices: 6959435--6959467 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6959425 CGAATTGCTC
6959435 TTATTTTAAT-ATAAT
1 TTATTTTAATAATAAT
*
6959450 TTATTTTATTAATAAT
1 TTATTTTAATAATAAT
6959466 TT
1 TT
6959468 TTTGACATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (16 bp):
TTATTTTAATAATAAT
Found at i:6962068 original size:19 final size:20
Alignment explanation
Indices: 6962044--6962092 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
6962034 AAATGATTTT
* * *
6962044 ATTTTGAAAGCTAAAAT-AG
1 ATTTTGAAAACCAAAATGAA
6962063 ATTTTGAAAACCAAAATGAA
1 ATTTTGAAAACCAAAATGAA
6962083 ATTTTGAAAA
1 ATTTTGAAAA
6962093 AGGATTTAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 15 0.58
20 11 0.42
ACGTcount: A:0.51, C:0.06, G:0.12, T:0.31
Consensus pattern (20 bp):
ATTTTGAAAACCAAAATGAA
Found at i:6962132 original size:20 final size:20
Alignment explanation
Indices: 6962064--6962133 Score: 56
Period size: 20 Copynumber: 3.5 Consensus size: 20
6962054 CTAAAATAGA
6962064 TTTTGAAAACCAAAA-TGAAA-
1 TTTTGAAAA--AAAATTGAAAG
** * *
6962084 TTTTGAAAAAGGATTTAGAG
1 TTTTGAAAAAAAATTGAAAG
6962104 CTTTT-AAAAAAAATTGAAAG
1 -TTTTGAAAAAAAATTGAAAG
6962124 TTTTGAAAAA
1 TTTTGAAAAA
6962134 GAATGTTTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
18 2 0.05
19 7 0.18
20 25 0.66
21 4 0.11
ACGTcount: A:0.50, C:0.04, G:0.14, T:0.31
Consensus pattern (20 bp):
TTTTGAAAAAAAATTGAAAG
Found at i:6965203 original size:25 final size:26
Alignment explanation
Indices: 6965164--6965218 Score: 94
Period size: 25 Copynumber: 2.2 Consensus size: 26
6965154 TGTAGAAGTA
*
6965164 ATAATTTTTTTTTGATGAATTAAACT
1 ATAATTTTTTTTTGATGAATTAAAAT
6965190 ATAA-TTTTTTTTGATGAATTAAAAT
1 ATAATTTTTTTTTGATGAATTAAAAT
6965215 ATAA
1 ATAA
6965219 ATTAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
25 24 0.86
26 4 0.14
ACGTcount: A:0.40, C:0.02, G:0.07, T:0.51
Consensus pattern (26 bp):
ATAATTTTTTTTTGATGAATTAAAAT
Found at i:6967569 original size:17 final size:18
Alignment explanation
Indices: 6967536--6967574 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
6967526 AGAAAACGAT
6967536 ACAACTCAAACAATAAAA
1 ACAACTCAAACAATAAAA
* *
6967554 ACAACT-AAATAATAAAG
1 ACAACTCAAACAATAAAA
6967571 ACAA
1 ACAA
6967575 TTTGAACAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.67, C:0.18, G:0.03, T:0.13
Consensus pattern (18 bp):
ACAACTCAAACAATAAAA
Found at i:6967575 original size:26 final size:26
Alignment explanation
Indices: 6967545--6967595 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
6967535 TACAACTCAA
6967545 ACAATAAAAACAACTAAATAATAAAG
1 ACAATAAAAACAACTAAATAATAAAG
*** *
6967571 ACAATTTGAACAATTAAATAATAAA
1 ACAATAAAAACAACTAAATAATAAA
6967596 AATATTAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.65, C:0.10, G:0.04, T:0.22
Consensus pattern (26 bp):
ACAATAAAAACAACTAAATAATAAAG
Found at i:6967605 original size:23 final size:25
Alignment explanation
Indices: 6967553--6967623 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 25
6967543 AAACAATAAA
6967553 AACAACTAAATAATAAAGACA-ATTTG
1 AACAACTAAATAATAAA-A-ATATTTG
*
6967579 AACAATTAAATAATAAAAATA-TT-
1 AACAACTAAATAATAAAAATATTTG
6967602 AACAAACTAAATAAATAAAAAT
1 AAC-AACTAAAT-AATAAAAAT
6967624 CCATAATTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
23 3 0.08
24 10 0.25
25 11 0.28
26 16 0.40
ACGTcount: A:0.65, C:0.08, G:0.03, T:0.24
Consensus pattern (25 bp):
AACAACTAAATAATAAAAATATTTG
Found at i:6970159 original size:18 final size:18
Alignment explanation
Indices: 6970136--6970179 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
6970126 AAAATGTCCC
6970136 GAAGGACCACTGTATCCT
1 GAAGGACCACTGTATCCT
*
6970154 GAAGGACCACTGTGTCCT
1 GAAGGACCACTGTATCCT
6970172 GAAGGACC
1 GAAGGACC
6970180 GCGTAGACCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.18
Consensus pattern (18 bp):
GAAGGACCACTGTATCCT
Found at i:6978252 original size:46 final size:47
Alignment explanation
Indices: 6978167--6978265 Score: 112
Period size: 46 Copynumber: 2.1 Consensus size: 47
6978157 AGTTGAGGAT
* * * * *
6978167 TTCTATACGGTCATTGAGGACAATTTTATGTGATCCTTCGGGACA-A
1 TTCTACACGGTCATTCAGGACAAATCTATGTGAGCCTTCGGGACATA
* *
6978213 TTCTACACGGTCCTTCAGGACAAATCTATGTG-GCACTTCGGTACATA
1 TTCTACACGGTCATTCAGGACAAATCTATGTGAGC-CTTCGGGACATA
6978260 TTCTAC
1 TTCTAC
6978266 GTGGCACTTG
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
45 1 0.02
46 36 0.82
47 7 0.16
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (47 bp):
TTCTACACGGTCATTCAGGACAAATCTATGTGAGCCTTCGGGACATA
Found at i:6983788 original size:24 final size:24
Alignment explanation
Indices: 6983748--6983809 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 24
6983738 CCATCGGGAC
* *
6983748 AATTCTACGCAGTACTTCAGTGCA
1 AATTCTACGCGGCACTTCAGTGCA
* * *
6983772 TATTCTACGTGGCACTTCTGTGCA
1 AATTCTACGCGGCACTTCAGTGCA
*
6983796 AATTTTACGCGGCA
1 AATTCTACGCGGCA
6983810 GTTTCGACTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.32
Consensus pattern (24 bp):
AATTCTACGCGGCACTTCAGTGCA
Found at i:6985232 original size:20 final size:19
Alignment explanation
Indices: 6985195--6985243 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
6985185 CTCTAATTCC
***
6985195 TTTTTCAAAATTTCATTTT
1 TTTTTCAAAATCAAATTTT
6985214 GTTTTTCAAAATCAAATTTT
1 -TTTTTCAAAATCAAATTTT
*
6985234 TCTTTCAAAA
1 TTTTTCAAAA
6985244 GAAAATCGTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 9 0.36
20 16 0.64
ACGTcount: A:0.33, C:0.12, G:0.02, T:0.53
Consensus pattern (19 bp):
TTTTTCAAAATCAAATTTT
Found at i:6992283 original size:66 final size:65
Alignment explanation
Indices: 6992173--6992299 Score: 209
Period size: 66 Copynumber: 1.9 Consensus size: 65
6992163 ATTTTGCCGG
* *
6992173 TCAATGTCTTTACAAGGTCCGGTGGAATGCTCTCTTATCACGAATCTTCGCCTTCACATTGTTGA
1 TCAATGTCTTTACAAGGTCCGGTGGAATACACTCTTATCACGAATCTTCGCCTTCACATTGTTGA
* *
6992238 TCAATGTCTTTACAAAGGTCCGGTGGAATACACTCTTATCCCGAATCTTCGCCTTTACATTG
1 TCAATGTCTTTAC-AAGGTCCGGTGGAATACACTCTTATCACGAATCTTCGCCTTCACATTG
6992300 CTATTGTACC
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
65 13 0.23
66 44 0.77
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.35
Consensus pattern (65 bp):
TCAATGTCTTTACAAGGTCCGGTGGAATACACTCTTATCACGAATCTTCGCCTTCACATTGTTGA
Found at i:6998263 original size:33 final size:33
Alignment explanation
Indices: 6998213--6998307 Score: 106
Period size: 33 Copynumber: 2.9 Consensus size: 33
6998203 ACAGCCATGA
*
6998213 AGAT-GCCCTGGGTTTCTTAAGG-ATTCTTACAG-
1 AGATGGCCCTGGGGTTCTT-AGGAATTCTTAC-GT
* *
6998245 ATATGGCCCTGGGGTTCTTAGGAATTTTTACGT
1 AGATGGCCCTGGGGTTCTTAGGAATTCTTACGT
* *
6998278 AGATGCCCCTGGGGTTCTTAGGTATTCTTA
1 AGATGGCCCTGGGGTTCTTAGGAATTCTTA
6998308 GGTCATTACA
Statistics
Matches: 53, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
32 7 0.13
33 46 0.87
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (33 bp):
AGATGGCCCTGGGGTTCTTAGGAATTCTTACGT
Found at i:7001198 original size:22 final size:22
Alignment explanation
Indices: 7001128--7001200 Score: 128
Period size: 22 Copynumber: 3.3 Consensus size: 22
7001118 CAATCTGTAA
7001128 AGTCTTATGTAAATCATAATTG
1 AGTCTTATGTAAATCATAATTG
*
7001150 AATCTTATGTAAATCATAATTG
1 AGTCTTATGTAAATCATAATTG
7001172 AGTCTTATGTAAATCATAATTG
1 AGTCTTATGTAAATCATAATTG
*
7001194 GGTCTTA
1 AGTCTTA
7001201 AGTATGCCCT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 48 1.00
ACGTcount: A:0.36, C:0.10, G:0.14, T:0.41
Consensus pattern (22 bp):
AGTCTTATGTAAATCATAATTG
Found at i:7001448 original size:31 final size:32
Alignment explanation
Indices: 7001413--7001497 Score: 93
Period size: 31 Copynumber: 2.7 Consensus size: 32
7001403 ATTTTTTGAG
* * *
7001413 AAATTTAAAAATTATTTTATAATAAT-TTATT
1 AAATTTAAAAATTATTTTATAACAATATAATA
* *
7001444 AAATTTAATGAA-TAATTTATAACAATATAATA
1 AAATTTAA-AAATTATTTTATAACAATATAATA
*
7001476 AAATTTAATAATTATTTTATAA
1 AAATTTAAAAATTATTTTATAA
7001498 GTATTTAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
31 22 0.50
32 22 0.50
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (32 bp):
AAATTTAAAAATTATTTTATAACAATATAATA
Found at i:7001888 original size:24 final size:24
Alignment explanation
Indices: 7001856--7001901 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
7001846 TCGTGAACGT
7001856 TCGGTTATGTTCATTTATGTTCGC
1 TCGGTTATGTTCATTTATGTTCGC
*
7001880 TCGGTTATGTTCGTTTATGTTC
1 TCGGTTATGTTCATTTATGTTC
7001902 ATTCATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.11, C:0.15, G:0.22, T:0.52
Consensus pattern (24 bp):
TCGGTTATGTTCATTTATGTTCGC
Found at i:7001911 original size:24 final size:24
Alignment explanation
Indices: 7001859--7001914 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
7001849 TGAACGTTCG
* *
7001859 GTTATGTTCATTTATGTTCGCTCG
1 GTTATGTTCATTTATGTTCACTCA
* *
7001883 GTTATGTTCGTTTATGTTCATTCA
1 GTTATGTTCATTTATGTTCACTCA
*
7001907 TTTATGTT
1 GTTATGTT
7001915 TAACTCAATC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.14, C:0.12, G:0.18, T:0.55
Consensus pattern (24 bp):
GTTATGTTCATTTATGTTCACTCA
Found at i:7002039 original size:6 final size:7
Alignment explanation
Indices: 7002021--7002050 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
7002011 TATTAAAAAT
7002021 CCTAAAC
1 CCTAAAC
7002028 CCTAAA-
1 CCTAAAC
7002034 CCTAAAC
1 CCTAAAC
7002041 CCTAAAC
1 CCTAAAC
7002048 CCT
1 CCT
7002051 TAATTTGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.40, C:0.43, G:0.00, T:0.17
Consensus pattern (7 bp):
CCTAAAC
Found at i:7002039 original size:13 final size:13
Alignment explanation
Indices: 7002021--7002048 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7002011 TATTAAAAAT
7002021 CCTAAACCCTAAA
1 CCTAAACCCTAAA
7002034 CCTAAACCCTAAA
1 CCTAAACCCTAAA
7002047 CC
1 CC
7002049 CTTAATTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (13 bp):
CCTAAACCCTAAA
Found at i:7002078 original size:7 final size:7
Alignment explanation
Indices: 7002070--7002136 Score: 64
Period size: 7 Copynumber: 9.4 Consensus size: 7
7002060 TATTAAAAAT
*
7002070 CCTAAAT
1 CCTAAAC
7002077 CCTAAAC
1 CCTAAAC
7002084 CCTAAAC
1 CCTAAAC
7002091 CCTAAAC
1 CCTAAAC
*
7002098 CATAAGAC
1 CCTAA-AC
*
7002106 CTTAAGA-
1 CCTAA-AC
7002113 CCTAAAC
1 CCTAAAC
* *
7002120 CTTAACC
1 CCTAAAC
7002127 CCTAAAC
1 CCTAAAC
7002134 CCT
1 CCT
7002137 TAATCTAATT
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
6 1 0.02
7 41 0.82
8 8 0.16
ACGTcount: A:0.40, C:0.37, G:0.03, T:0.19
Consensus pattern (7 bp):
CCTAAAC
Found at i:7003375 original size:20 final size:20
Alignment explanation
Indices: 7003346--7003384 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
7003336 AGAGCTCATA
*
7003346 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
7003366 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
7003385 GTGGTGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:7011482 original size:11 final size:11
Alignment explanation
Indices: 7011466--7011530 Score: 67
Period size: 11 Copynumber: 5.8 Consensus size: 11
7011456 GAACTGAGTC
7011466 AATCGAGCTTG
1 AATCGAGCTTG
**
7011477 AATCGAGCTCAA
1 AATCGAGCT-TG
7011489 AATCGAGCTTG
1 AATCGAGCTTG
*
7011500 AATCGAGCTCG
1 AATCGAGCTTG
* *
7011511 AGTCGAGCTTT
1 AATCGAGCTTG
*
7011522 ATTCGAGCT
1 AATCGAGCT
7011531 GATGAAATTT
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
11 35 0.80
12 9 0.20
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.26
Consensus pattern (11 bp):
AATCGAGCTTG
Found at i:7011492 original size:23 final size:23
Alignment explanation
Indices: 7011466--7011509 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
7011456 GAACTGAGTC
7011466 AATCGAGCTTGAATCGAGCTCAA
1 AATCGAGCTTGAATCGAGCTCAA
7011489 AATCGAGCTTGAATCGAGCTC
1 AATCGAGCTTGAATCGAGCTC
7011510 GAGTCGAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (23 bp):
AATCGAGCTTGAATCGAGCTCAA
Found at i:7011773 original size:15 final size:15
Alignment explanation
Indices: 7011753--7011800 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
7011743 TCTCCAATGT
7011753 TTATGTTCGTGTTCA
1 TTATGTTCGTGTTCA
*
7011768 TTATGTTCGTGTTCGT
1 TTATGTTCGTGTTC-A
*
7011784 TTATGTTCATGTTCA
1 TTATGTTCGTGTTCA
7011799 TT
1 TT
7011801 TATATTCGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
15 16 0.55
16 13 0.45
ACGTcount: A:0.12, C:0.12, G:0.19, T:0.56
Consensus pattern (15 bp):
TTATGTTCGTGTTCA
Found at i:7011789 original size:16 final size:16
Alignment explanation
Indices: 7011751--7011809 Score: 75
Period size: 16 Copynumber: 3.8 Consensus size: 16
7011741 GGTCTCCAAT
7011751 GTTTATGTTCGTGTTC
1 GTTTATGTTCGTGTTC
*
7011767 -ATTATGTTCGTGTTC
1 GTTTATGTTCGTGTTC
*
7011782 GTTTATGTTCATGTTC
1 GTTTATGTTCGTGTTC
* *
7011798 ATTTATATTCGT
1 GTTTATGTTCGT
7011810 TTATTTATTA
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
15 14 0.39
16 22 0.61
ACGTcount: A:0.14, C:0.12, G:0.19, T:0.56
Consensus pattern (16 bp):
GTTTATGTTCGTGTTC
Found at i:7011900 original size:16 final size:16
Alignment explanation
Indices: 7011879--7011909 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
7011869 AAAAAAAATA
7011879 TTCGTTTATGTTCGTG
1 TTCGTTTATGTTCGTG
7011895 TTCGTTTATGTTCGT
1 TTCGTTTATGTTCGT
7011910 TTATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TTCGTTTATGTTCGTG
Found at i:7015048 original size:119 final size:118
Alignment explanation
Indices: 7014830--7015058 Score: 440
Period size: 119 Copynumber: 1.9 Consensus size: 118
7014820 CTTTCTTTTT
*
7014830 TTTGGCTAAAAACATAATATACCATGAAAACTTTATATAATATAAATTAATGTGTAATATTAATG
1 TTTGGCTAAAAACATAATATAACATGAAAACTTTATATAATATAAATTAATGTGTAATATTAATG
7014895 GAAGTAGATTCATTTATACCATTATAAAATCATAATAATTTATATAATAATTG
66 GAAGTAGATTCATTTATACCATTATAAAATCATAATAATTTATATAATAATTG
7014948 TTTGGCTAAAAAACATAATATAACATGAAAACTTTATATAATATAAATTAATGTGTAATATTAAT
1 TTTGGCT-AAAAACATAATATAACATGAAAACTTTATATAATATAAATTAATGTGTAATATTAAT
7015013 GGAAGTAGATTCATTTATACCATTATAAAATCATAATAATTTATAT
65 GGAAGTAGATTCATTTATACCATTATAAAATCATAATAATTTATAT
7015059 TTATTATACT
Statistics
Matches: 109, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
118 7 0.06
119 102 0.94
ACGTcount: A:0.46, C:0.07, G:0.08, T:0.38
Consensus pattern (118 bp):
TTTGGCTAAAAACATAATATAACATGAAAACTTTATATAATATAAATTAATGTGTAATATTAATG
GAAGTAGATTCATTTATACCATTATAAAATCATAATAATTTATATAATAATTG
Found at i:7016948 original size:22 final size:22
Alignment explanation
Indices: 7016923--7016964 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
7016913 TTATTGGGGC
7016923 TTTTTTTAAAAT-AAATTTTAA
1 TTTTTTTAAAATAAAATTTTAA
*
7016944 TTTTTTTAAATTAAAATTTTA
1 TTTTTTTAAAATAAAATTTTA
7016965 GGCTTAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
TTTTTTTAAAATAAAATTTTAA
Found at i:7017468 original size:23 final size:23
Alignment explanation
Indices: 7017424--7017469 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
7017414 GGGCAGCAAC
*
7017424 ATGGGCGGCTAAATGTGGAAAAT
1 ATGGGCGGCTAAATGTGCAAAAT
*
7017447 ATGGGCTGCTAAATG-GTCAAAAT
1 ATGGGCGGCTAAATGTG-CAAAAT
7017470 TAGGCAGCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.35, C:0.11, G:0.30, T:0.24
Consensus pattern (23 bp):
ATGGGCGGCTAAATGTGCAAAAT
Found at i:7018679 original size:15 final size:16
Alignment explanation
Indices: 7018661--7018690 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7018651 GTGGCAGATC
7018661 AAAATCCAG-ACGGGG
1 AAAATCCAGAACGGGG
7018676 AAAATCCAGAACGGG
1 AAAATCCAGAACGGG
7018691 AAAGAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.20, G:0.30, T:0.07
Consensus pattern (16 bp):
AAAATCCAGAACGGGG
Found at i:7031629 original size:2 final size:2
Alignment explanation
Indices: 7031622--7031654 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
7031612 CTTTACATGC
*
7031622 AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7031655 CAGACCTGGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:7033818 original size:15 final size:17
Alignment explanation
Indices: 7033787--7033818 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
7033777 ACGTATTTTT
7033787 ATCTATCTTGCAATTTA
1 ATCTATCTTGCAATTTA
7033804 ATCTA-CTTG-AATTTA
1 ATCTATCTTGCAATTTA
7033819 TTATATTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (17 bp):
ATCTATCTTGCAATTTA
Found at i:7035549 original size:23 final size:23
Alignment explanation
Indices: 7035498--7035556 Score: 61
Period size: 23 Copynumber: 2.6 Consensus size: 23
7035488 GATAAACATT
7035498 ATAAAT-TTAA-TTTTTAAAATA
1 ATAAATATTAATTTTTTAAAATA
*
7035519 ATTTAATATTAATTTCTTTAAAA-A
1 A-TAAATATTAATTT-TTTAAAATA
*
7035543 ATAAATATTTATTT
1 ATAAATATTAATTT
7035557 AGTTTATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
21 1 0.03
22 4 0.13
23 15 0.48
24 4 0.13
25 7 0.23
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
ATAAATATTAATTTTTTAAAATA
Found at i:7039102 original size:3 final size:3
Alignment explanation
Indices: 7039085--7039148 Score: 96
Period size: 3 Copynumber: 21.7 Consensus size: 3
7039075 AGAAAGAAAA
*
7039085 AAT ATT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
7039132 AAT AAT AA- AAT AGAT AA
1 AAT AAT AAT AAT A-AT AA
7039149 CAAAGAAAAA
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
2 4 0.07
3 49 0.88
4 3 0.05
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7039163 original size:22 final size:22
Alignment explanation
Indices: 7039135--7039180 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
7039125 TAATAATAAT
*
7039135 AATAAAA-TAGATAACAAAGAAA
1 AATAAAAGTAG-TAAAAAAGAAA
7039157 AATAAAAGTTAGTAAAAAAGAAA
1 AATAAAAG-TAGTAAAAAAGAAA
7039180 A
1 A
7039181 TAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 11 0.52
24 3 0.14
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (22 bp):
AATAAAAGTAGTAAAAAAGAAA
Found at i:7039198 original size:15 final size:14
Alignment explanation
Indices: 7039082--7039209 Score: 62
Period size: 15 Copynumber: 8.6 Consensus size: 14
7039072 AAAAGAAAGA
* *
7039082 AAAAATATTAATAT
1 AAAAATAATAATAA
*
7039096 AATAATAATAATAA
1 AAAAATAATAATAA
*
7039110 TAATAATAATAATAA
1 -AAAAATAATAATAA
*
7039125 TAATAATAATAATAA
1 -AAAAATAATAATAA
* *
7039140 AATAGATAACAA-AGA
1 AA-AAATAATAATA-A
* *
7039155 AAAATAAAAGTTAGTAA
1 AAAA-ATAA--TAATAA
*
7039172 AAAAGAAAATAATAA
1 AAAA-ATAATAATAA
7039187 AAAAATAGATAA-AA
1 AAAAATA-ATAATAA
7039201 AATAAATAA
1 AA-AAATAA
7039210 AGAAAATTAC
Statistics
Matches: 92, Mismatches: 13, Indels: 18
0.75 0.11 0.15
Matches are distributed among these distances:
14 22 0.24
15 59 0.64
17 10 0.11
18 1 0.01
ACGTcount: A:0.70, C:0.01, G:0.05, T:0.24
Consensus pattern (14 bp):
AAAAATAATAATAA
Found at i:7040960 original size:106 final size:106
Alignment explanation
Indices: 7040800--7041332 Score: 737
Period size: 106 Copynumber: 5.0 Consensus size: 106
7040790 TACTGTTCCA
* * * * * * * *
7040800 AGTCCAATAT-CTTCCGCTGTGGAGTTGAAATTGGTTCTGGAACTGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTT-CGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
7040864 CCAACGGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTGG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
* * **
7040906 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGCCTTTGAAATTGGGAAGTTGTTTGTTGACAGT
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * * * *
7040971 CAGCCGCCCCTTCG-CTGTGAAGTTGAGCTTGTGCTGTCTTG
66 CAGCGGTCCCTTCGTC-GTGAAGTTGAACTTGTGTTGTCTGG
* * * *
7041012 AGTCCAATATCATTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* * *
7041077 CAGCGTTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
*
7041118 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGATGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
*
7041183 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
* * *
7041224 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGACTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
* *
7041289 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGCTGTCTTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
7041330 AGT
1 AGT
7041333 GACATGATAT
Statistics
Matches: 375, Mismatches: 49, Indels: 6
0.87 0.11 0.01
Matches are distributed among these distances:
106 371 0.99
107 4 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.35
Consensus pattern (106 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
Found at i:7041997 original size:102 final size:102
Alignment explanation
Indices: 7041875--7042170 Score: 502
Period size: 102 Copynumber: 2.9 Consensus size: 102
7041865 GAAACTACAC
* *
7041875 AAAATTCATTTGAAGAGAAATGTTTTCAATGTTTATGTTTCAAAAGAAACTGTCTCAAGGGAAAC
1 AAAATTCATTTCAAGAGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAAC
*
7041940 AAAATTTTGTTTCAAGGGAAAATATCTCAAGAGAGAG
66 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAG
* *
7041977 AAAATTCATTTCAAGTGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGAC
1 AAAATTCATTTCAAGAGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAAC
* *
7042042 AAAATTTTGTTTCAAGGGAAACTATCTCAAGCGAGAT
66 AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAG
* * *
7042079 AAAATTCATTTCAAGGGTAATGTGTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAAC
1 AAAATTCATTTCAAGAGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAAC
7042144 AAAATTTTGTTTCAAGGGAAACTATCT
66 AAAATTTTGTTTCAAGGGAAACTATCT
7042171 TAATGTCTTT
Statistics
Matches: 183, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
102 183 1.00
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (102 bp):
AAAATTCATTTCAAGAGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAAAC
AAAATTTTGTTTCAAGGGAAACTATCTCAAGAGAGAG
Found at i:7042063 original size:37 final size:37
Alignment explanation
Indices: 7042012--7042166 Score: 116
Period size: 37 Copynumber: 4.4 Consensus size: 37
7042002 TCAATGTTTA
*
7042012 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
* * *
7042049 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAA-TT
1 TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
** * * *
7042085 CATTTCAAGGGTAA-TGTGTTCAA---TG------TTT
1 TGTTTCAAGGGAAACTGT-CTCAAGGGAGACAAAATTT
* *
7042113 ATGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTT
1 -TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
7042151 TGTTTCAAGGGAAACT
1 TGTTTCAAGGGAAACT
7042167 ATCTTAATGT
Statistics
Matches: 87, Mismatches: 18, Indels: 26
0.66 0.14 0.20
Matches are distributed among these distances:
28 2 0.02
29 14 0.16
30 3 0.03
33 1 0.01
35 2 0.02
36 17 0.20
37 45 0.52
38 3 0.03
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.30
Consensus pattern (37 bp):
TGTTTCAAGGGAAACTGTCTCAAGGGAGACAAAATTT
Found at i:7043041 original size:23 final size:23
Alignment explanation
Indices: 7042986--7043041 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 23
7042976 TTGTGTTTGG
7042986 TCAAAGGTTTGGCATTTGATGCT
1 TCAAAGGTTTGGCATTTGATGCT
*
7043009 T-GAAGGTTTGGCATTTGATGCT
1 TCAAAGGTTTGGCATTTGATGCT
7043031 TCAAAGGTTTG
1 TCAAAGGTTTG
7043042 ATGGGGTAGC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 21 0.70
23 9 0.30
ACGTcount: A:0.21, C:0.11, G:0.29, T:0.39
Consensus pattern (23 bp):
TCAAAGGTTTGGCATTTGATGCT
Found at i:7044437 original size:17 final size:16
Alignment explanation
Indices: 7044401--7044442 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
7044391 CATATATAAA
*
7044401 AATAATAAAAGAAAAT
1 AATAATAAAAGAAAAG
*
7044417 AATAATAACAAGAATAG
1 AATAATAA-AAGAAAAG
7044434 AATAA-AAAA
1 AATAATAAAA
7044443 TATATATACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 10 0.43
17 11 0.48
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.17
Consensus pattern (16 bp):
AATAATAAAAGAAAAG
Found at i:7045414 original size:37 final size:37
Alignment explanation
Indices: 7045373--7045477 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
7045363 GTGCTTGTGG
*
7045373 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAGTAGAACTCT
* * * *
7045410 ATCCTATTTTTAGGAGTTTAAATCTTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTAAATCATAGTAGAACTCT
* *
7045447 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTAAATCATAGTAG
7045478 GACGAAAAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTAAATCATAGTAGAACTCT
Found at i:7046393 original size:106 final size:106
Alignment explanation
Indices: 7046208--7047271 Score: 1711
Period size: 106 Copynumber: 10.0 Consensus size: 106
7046198 GCATTGTTTC
* * *
7046208 GAGTCCAATATCCTCCG-TCGTGAAGTTGAAATTGGCTCTGGAATT-AGGAAGTTGTTTATTGAA
1 GAGTCCAATATCCTTCGCT-GTGAAGTTGAAATTGGCTCTGAAATTGA-GAAGTTGTTTATTGAC
*
7046271 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
64 AACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
** *
7046314 GAGTCCAATATCCTTCGCTGTGAAGTCAAAATTGACTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
7046379 CCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * * *
7046420 GATTCCAATATCCTTCGCTGTGAAGTTAAAATTGACTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
7046485 CCAGCGGTCCCTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * * *
7046526 GAGTCCAACATCCTTCGTTGTGAAGTTGGAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
*
7046591 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
7046632 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
7046697 CCAACGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTT
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
7046738 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
7046803 CCAGCGGTCACTTCATCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
7046844 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* *
7046909 CCAGCGGTCCCTTCGTCGTAAAGTTGAACTTGCGTTGTTTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
7046950 GAGTCCAACATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATT-AGGAAGTTGTTTATTGACA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGA-GAAGTTGTTTATTGACA
*
7047014 ACCAGCGGTCTCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
7047056 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
7047121 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* * *
7047162 GAGTCCAATATCCTTCGCTGTGAAGTTGAAGTTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
* * * *
7047227 CCAGCTGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTC
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
7047268 GAGT
1 GAGT
7047272 GGCACGATAT
Statistics
Matches: 891, Mismatches: 63, Indels: 8
0.93 0.07 0.01
Matches are distributed among these distances:
105 1 0.00
106 887 1.00
107 3 0.00
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTATTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:7048261 original size:22 final size:22
Alignment explanation
Indices: 7048235--7048290 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
7048225 TTGTGTTTGG
7048235 TCAAAGGTTTGACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
7048257 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
7048279 TCAAAGGTTTGA
1 TCAAAGGTTTGA
7048291 TGGGGTAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.27, C:0.12, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:7048930 original size:15 final size:14
Alignment explanation
Indices: 7048893--7048937 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 14
7048883 TTTTTGTCCC
7048893 TTTTTCTTTTTAATTT
1 TTTTTCTTTTT--TTT
*
7048909 TTGTTCTTTCTTTTT
1 TTTTTCTTT-TTTTT
7048924 TTTTTCTTTTTTTT
1 TTTTTCTTTTTTTT
7048938 GCTTCTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
14 5 0.19
15 11 0.42
16 8 0.31
17 2 0.08
ACGTcount: A:0.04, C:0.09, G:0.02, T:0.84
Consensus pattern (14 bp):
TTTTTCTTTTTTTT
Found at i:7048933 original size:24 final size:24
Alignment explanation
Indices: 7048892--7048960 Score: 68
Period size: 25 Copynumber: 2.8 Consensus size: 24
7048882 TTTTTTGTCC
7048892 CTTTTTCTTTTTAATTTTTGTT-CTTT
1 CTTTTT-TTTTT-ATTTTTGTTGC-TT
* *
7048918 CTTTTTTTTTTCTTTTTTTTGCTT
1 CTTTTTTTTTTATTTTTGTTGCTT
*
7048942 CTTTTCTTTTTTGTTTTTG
1 CTTTT-TTTTTTATTTTTG
7048961 CCCTTTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
24 14 0.38
25 17 0.46
26 6 0.16
ACGTcount: A:0.03, C:0.12, G:0.06, T:0.80
Consensus pattern (24 bp):
CTTTTTTTTTTATTTTTGTTGCTT
Found at i:7048953 original size:25 final size:25
Alignment explanation
Indices: 7048894--7048960 Score: 75
Period size: 24 Copynumber: 2.7 Consensus size: 25
7048884 TTTTGTCCCT
*
7048894 TTTTCTTTTTAATTTTTGTTCTTTC
1 TTTTCTTTTTTATTTTTGTTCTTTC
* *
7048919 TTTT-TTTTTTCTTTTTTTTGC-TTC
1 TTTTCTTTTTTATTTTTGTT-CTTTC
*
7048943 TTTTCTTTTTTGTTTTTG
1 TTTTCTTTTTTATTTTTG
7048961 CCCTTTTTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
24 19 0.54
25 16 0.46
ACGTcount: A:0.03, C:0.10, G:0.06, T:0.81
Consensus pattern (25 bp):
TTTTCTTTTTTATTTTTGTTCTTTC
Found at i:7053306 original size:9 final size:9
Alignment explanation
Indices: 7053294--7053340 Score: 62
Period size: 8 Copynumber: 5.3 Consensus size: 9
7053284 ATGAAGAATA
*
7053294 AAAATAAGT
1 AAAATAAAT
7053303 AAAATAAAT
1 AAAATAAAT
7053312 AAAAATAAAT
1 -AAAATAAAT
7053322 -AAATAAAT
1 AAAATAAAT
7053330 -AAATAAAT
1 AAAATAAAT
7053338 AAA
1 AAA
7053341 TGAAATATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
8 16 0.46
9 10 0.29
10 9 0.26
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (9 bp):
AAAATAAAT
Found at i:7053313 original size:4 final size:4
Alignment explanation
Indices: 7053304--7053347 Score: 65
Period size: 4 Copynumber: 11.2 Consensus size: 4
7053294 AAAATAAGTA
7053304 AAAT AAAT -AA- AAAT AAAT AAAT AAAT AAAT AAAT AAAT GAAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT A
7053348 TTAAAATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 4 0.11
4 29 0.78
5 4 0.11
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:7053314 original size:19 final size:18
Alignment explanation
Indices: 7053261--7053347 Score: 76
Period size: 16 Copynumber: 5.0 Consensus size: 18
7053251 GTGTTAGAGG
* *
7053261 AAAA-AAATGAATAAATG
1 AAAATAAATAAATAAATA
* *
7053278 AAAA-AAATGAA-GAATA
1 AAAATAAATAAATAAATA
*
7053294 AAAATAAGTAAAATAAATA
1 AAAATAAAT-AAATAAATA
7053313 AAAATAAATAAATAAAT-
1 AAAATAAATAAATAAATA
7053330 -AAATAAATAAATGAAATA
1 AAAATAAATAAAT-AAATA
7053348 TTAAAATATA
Statistics
Matches: 59, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
16 19 0.32
17 18 0.31
18 10 0.17
19 12 0.20
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (18 bp):
AAAATAAATAAATAAATA
Found at i:7053334 original size:35 final size:38
Alignment explanation
Indices: 7053310--7053382 Score: 69
Period size: 39 Copynumber: 1.9 Consensus size: 38
7053300 AGTAAAATAA
* *
7053310 ATAAAA-ATAAATAAATAAATAAATAAAT-AAATGAAAT
1 ATAAAATATATATAAATAAATAAATAAGTAAAAT-AAAT
* * *
7053347 ATTAAAATATATATATATATATAAATGAGTAAAATA
1 A-TAAAATATATATAAATAAATAAATAAGTAAAATA
7053383 GAAAAATAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
37 1 0.04
38 5 0.18
39 18 0.64
40 4 0.14
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (38 bp):
ATAAAATATATATAAATAAATAAATAAGTAAAATAAAT
Found at i:7053597 original size:2 final size:2
Alignment explanation
Indices: 7053590--7053631 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7053580 GATAATTACA
7053590 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
7053632 GGTAATAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7054684 original size:3 final size:3
Alignment explanation
Indices: 7054667--7054709 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
7054657 AGAAAGAAAA
*
7054667 AAT ATT AAT -AT AAT AAT AAT AAT AAT AAT AAT AA- AAT AGAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AA
7054710 CAAAGAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.11
3 28 0.80
4 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:7054722 original size:22 final size:22
Alignment explanation
Indices: 7054696--7054741 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
7054686 TAATAATAAT
*
7054696 AATAAAA-TAGATAACAAAGAAA
1 AATAAAAGTAG-TAAAAAAGAAA
7054718 AATAAAAGTTAGTAAAAAAGAAA
1 AATAAAAG-TAGTAAAAAAGAAA
7054741 A
1 A
7054742 TAATAAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 7 0.33
23 11 0.52
24 3 0.14
ACGTcount: A:0.72, C:0.02, G:0.11, T:0.15
Consensus pattern (22 bp):
AATAAAAGTAGTAAAAAAGAAA
Found at i:7054785 original size:23 final size:22
Alignment explanation
Indices: 7054738--7054785 Score: 53
Period size: 23 Copynumber: 2.1 Consensus size: 22
7054728 AGTAAAAAAG
*
7054738 AAAATAATAAAAAAATAGATAA
1 AAAATAATAAAAAAATAGACAA
*
7054760 AAAATAAATAAAGAAAAT-GACCA
1 AAAAT-AATAAA-AAAATAGACAA
7054783 AAA
1 AAA
7054786 TGAATGATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
22 5 0.23
23 12 0.55
24 5 0.23
ACGTcount: A:0.75, C:0.04, G:0.06, T:0.15
Consensus pattern (22 bp):
AAAATAATAAAAAAATAGACAA
Found at i:7060551 original size:2 final size:2
Alignment explanation
Indices: 7060544--7060595 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
7060534 AAGCAGTTGA
7060544 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
7060586 AT AT AT AT AT
1 AT AT AT AT AT
7060596 TTGCATTATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7061781 original size:5 final size:5
Alignment explanation
Indices: 7061771--7061795 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
7061761 GTTAAACAAT
7061771 TAAAA TAAAA TAAAA TAAAA TAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA
7061796 GATCTGGGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
TAAAA
Found at i:7062095 original size:5 final size:5
Alignment explanation
Indices: 7062085--7062110 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
7062075 TTTAAAACAC
7062085 CATTT CATTT CATTT CATTT CATTT C
1 CATTT CATTT CATTT CATTT CATTT C
7062111 TTACCTATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.23, G:0.00, T:0.58
Consensus pattern (5 bp):
CATTT
Found at i:7063362 original size:17 final size:15
Alignment explanation
Indices: 7063325--7063355 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
7063315 AAAACTATAT
7063325 TATATGTTTTCAAAA
1 TATATGTTTTCAAAA
7063340 TAATATGTTTTCAAAA
1 T-ATATGTTTTCAAAA
7063356 ACTATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 1 0.07
16 14 0.93
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (15 bp):
TATATGTTTTCAAAA
Found at i:7063365 original size:38 final size:37
Alignment explanation
Indices: 7063245--7063420 Score: 162
Period size: 40 Copynumber: 4.6 Consensus size: 37
7063235 TGAATATATA
*
7063245 TATATTATATACGTTTTCAACATAATATG-TTTCAAAAAC
1 TATATTATAT--GTTTTCAA-AAAATATGTTTTCAAAAAC
* * *
7063284 TATATTATATATGTTTCACAAAA-CTGTTTT-AAAAAC
1 TATATTATATGT-TTTCAAAAAATATGTTTTCAAAAAC
7063320 TATATTATATGTTTTCAAAATAATATGTTTTCAAAAAC
1 TATATTATATGTTTTCAAAA-AATATGTTTTCAAAAAC
* * *
7063358 TATATTATATATATGTTTCAAAAAAT-CGTTTTTTAAAAAC
1 TATA-T-TATATGT-TTTCAAAAAATATG-TTTTCAAAAAC
7063398 TATATATGATATGTTTTCAAAAA
1 TATAT-T-ATATGTTTTCAAAAA
7063421 CTATATTATA
Statistics
Matches: 116, Mismatches: 11, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
35 7 0.06
36 21 0.18
37 13 0.11
38 15 0.13
39 24 0.21
40 28 0.24
41 8 0.07
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (37 bp):
TATATTATATGTTTTCAAAAAATATGTTTTCAAAAAC
Found at i:7063396 original size:40 final size:37
Alignment explanation
Indices: 7063245--7063420 Score: 160
Period size: 36 Copynumber: 4.6 Consensus size: 37
7063235 TGAATATATA
* * * * *
7063245 TATATTATATACGTTTTCAACATAATATGTTTCAAAAAC
1 TATATTATATATG-TTTCAA-AAAATCTTTTTTAAAAAC
* *
7063284 TATATTATATATGTTTCACAAAA-CTGTTTTAAAAAC
1 TATATTATATATGTTTCAAAAAATCTTTTTTAAAAAC
* * *
7063320 TATATTATATGT-TTTCAAAATAATATGTTTTCAAAAAC
1 TATATTATATATGTTTCAAAA-AATCT-TTTTTAAAAAC
7063358 TATATTATATATATGTTTCAAAAAATCGTTTTTTAAAAAC
1 TATA-T-TATATATGTTTCAAAAAATC-TTTTTTAAAAAC
7063398 TATA-TATGATATGTTTTCAAAAA
1 TATATTAT-ATATG-TTTCAAAAA
7063421 CTATATTATA
Statistics
Matches: 115, Mismatches: 13, Indels: 18
0.79 0.09 0.12
Matches are distributed among these distances:
35 7 0.06
36 24 0.21
37 7 0.06
38 23 0.20
39 22 0.19
40 23 0.20
41 9 0.08
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (37 bp):
TATATTATATATGTTTCAAAAAATCTTTTTTAAAAAC
Found at i:7063410 original size:64 final size:61
Alignment explanation
Indices: 7063342--7063481 Score: 226
Period size: 64 Copynumber: 2.2 Consensus size: 61
7063332 TTTCAAAATA
*
7063342 ATATGTTTTCAAAAACTATATTATATATATGTTTCAAAAAATCGTTTTTTAAAAACTATATATG
1 ATATGTTTTCAAAAACTATATTATATATAT-TTTC-AAAAACCGTTTTTT-AAAACTATATATG
*
7063406 ATATGTTTTCAAAAACTATATTATATATATTTTCAAAAACCGTTTTTTAAAACTATATATT
1 ATATGTTTTCAAAAACTATATTATATATATTTTCAAAAACCGTTTTTTAAAACTATATATG
*
7063467 ATATATTTTCAAAAA
1 ATATGTTTTCAAAAA
7063482 TATGTTTTCA
Statistics
Matches: 73, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
61 26 0.36
62 13 0.18
63 4 0.05
64 30 0.41
ACGTcount: A:0.43, C:0.09, G:0.04, T:0.44
Consensus pattern (61 bp):
ATATGTTTTCAAAAACTATATTATATATATTTTCAAAAACCGTTTTTTAAAACTATATATG
Found at i:7063419 original size:24 final size:24
Alignment explanation
Indices: 7063387--7063445 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
7063377 AAAAAATCGT
* *
7063387 TTTTTAAAAACTATA-TATGATATG
1 TTTTCAAAAACTATATTAT-ATATA
7063411 TTTTCAAAAACTATATTATATATA
1 TTTTCAAAAACTATATTATATATA
7063435 TTTTCAAAAAC
1 TTTTCAAAAAC
7063446 CGTTTTTTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
24 29 0.91
25 3 0.09
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (24 bp):
TTTTCAAAAACTATATTATATATA
Found at i:7063458 original size:37 final size:37
Alignment explanation
Indices: 7063410--7063518 Score: 143
Period size: 37 Copynumber: 3.0 Consensus size: 37
7063400 TATATGATAT
7063410 GTTTTCAAAAACTATATTATATATATTTTCAAAAACC
1 GTTTTCAAAAACTATATTATATATATTTTCAAAAACC
** **
7063447 GTTTTTTAAAACTATA-TATTATATATTTTCAAAAATAT
1 GTTTTCAAAAACTATATTA-TATATATTTTCAAAAA-CC
7063485 GTTTTCAAAAACTATATTATATAT-TTTT-AAAAAC
1 GTTTTCAAAAACTATATTATATATATTTTCAAAAAC
7063519 TATATATATT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
36 7 0.11
37 34 0.55
38 19 0.31
39 2 0.03
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (37 bp):
GTTTTCAAAAACTATATTATATATATTTTCAAAAACC
Found at i:7063489 original size:14 final size:14
Alignment explanation
Indices: 7063467--7063502 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
7063457 ACTATATATT
7063467 ATATATTTTCAAAA
1 ATATATTTTCAAAA
*
7063481 ATATGTTTTCAAAA
1 ATATATTTTCAAAA
7063495 ACTATATT
1 A-TATATT
7063503 ATATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.44
Consensus pattern (14 bp):
ATATATTTTCAAAA
Found at i:7063511 original size:22 final size:21
Alignment explanation
Indices: 7063481--7063527 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
7063471 ATTTTCAAAA
*
7063481 ATATGTTTTCAAAAACTATATT
1 ATATATTTTCAAAAACTATA-T
*
7063503 ATATATTTTTAAAAACTATAT
1 ATATATTTTCAAAAACTATAT
7063524 ATAT
1 ATAT
7063528 TATATATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.22
22 18 0.78
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (21 bp):
ATATATTTTCAAAAACTATAT
Found at i:7063524 original size:24 final size:24
Alignment explanation
Indices: 7063481--7063562 Score: 69
Period size: 26 Copynumber: 3.3 Consensus size: 24
7063471 ATTTTCAAAA
* *
7063481 ATATGTTTTCAAAAAC--TATATT
1 ATATATTTTTAAAAACTATATATT
7063503 ATATATTTTTAAAAACTATATATATT
1 ATATATTTTTAAAAAC--TATATATT
* *
7063529 ATATATTTTTGAAATTATTATATATAT
1 ATATATTTTT-AAA-AACTATATAT-T
7063556 ATATATT
1 ATATATT
7063563 ATCATATATA
Statistics
Matches: 49, Mismatches: 4, Indels: 9
0.79 0.06 0.15
Matches are distributed among these distances:
22 14 0.29
26 23 0.47
27 11 0.22
28 1 0.02
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (24 bp):
ATATATTTTTAAAAACTATATATT
Found at i:7063525 original size:99 final size:101
Alignment explanation
Indices: 7063353--7063537 Score: 251
Period size: 99 Copynumber: 1.9 Consensus size: 101
7063343 TATGTTTTCA
*
7063353 AAAACTATATTATATATATGTTTCAAAAAATCGTTTTTTAAAAACTATATATGATATGTTTTCAA
1 AAAACTATATTATATATATGTTTCAAAAAATCGTTTTTCAAAAACTATATATGATATGTTTTCAA
7063418 AAACTATAT-TATATATATTTTCAAAAACCGTTTTTT
66 AAACTATATAT-TATATATTTTCAAAAACCGTTTTTT
7063454 AAAACTATA-TATTATATAT-TTTCAAAAATAT-G-TTTTCAAAAACTATATTAT-ATAT-TTTT
1 AAAACTATATTA-TATATATGTTTCAAAAA-ATCGTTTTTCAAAAACTATA-TATGATATGTTTT
7063513 -AAAAACTATATATATTATATATTTT
63 CAAAAAC--TATATATTATATATTTT
7063538 TGAAATTATT
Statistics
Matches: 77, Mismatches: 1, Indels: 14
0.84 0.01 0.15
Matches are distributed among these distances:
97 6 0.08
98 4 0.05
99 33 0.43
100 16 0.21
101 18 0.23
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (101 bp):
AAAACTATATTATATATATGTTTCAAAAAATCGTTTTTCAAAAACTATATATGATATGTTTTCAA
AAACTATATATTATATATTTTCAAAAACCGTTTTTT
Found at i:7063550 original size:28 final size:26
Alignment explanation
Indices: 7063497--7063562 Score: 89
Period size: 26 Copynumber: 2.5 Consensus size: 26
7063487 TTTCAAAAAC
7063497 TATATTATATATTTTTAAAAACTATA
1 TATATTATATATTTTTAAAAACTATA
* *
7063523 TATATTATATATTTTT-GAAATTATTA
1 TATATTATATATTTTTAAAAACTA-TA
7063549 TATATATATATATT
1 TATAT-TATATATT
7063563 ATCATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
25 5 0.14
26 23 0.64
27 8 0.22
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (26 bp):
TATATTATATATTTTTAAAAACTATA
Found at i:7063569 original size:18 final size:19
Alignment explanation
Indices: 7063542--7063579 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
7063532 TATTTTTGAA
*
7063542 ATTATTATATATA-TATAT
1 ATTATCATATATACTATAT
7063560 ATTATCATATATACTATAT
1 ATTATCATATATACTATAT
7063579 A
1 A
7063580 ATGTAATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (19 bp):
ATTATCATATATACTATAT
Found at i:7065392 original size:2 final size:2
Alignment explanation
Indices: 7065385--7065412 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7065375 GAGTCAGTAT
7065385 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
7065413 CACACCAATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7072468 original size:13 final size:13
Alignment explanation
Indices: 7072450--7072475 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7072440 GGTCCAACTT
7072450 CGAGGATACCAAA
1 CGAGGATACCAAA
7072463 CGAGGATACCAAA
1 CGAGGATACCAAA
7072476 TGAGACAAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.23, G:0.23, T:0.08
Consensus pattern (13 bp):
CGAGGATACCAAA
Found at i:7075179 original size:36 final size:36
Alignment explanation
Indices: 7075097--7075229 Score: 178
Period size: 36 Copynumber: 3.7 Consensus size: 36
7075087 GAAAGCATCG
* * *
7075097 CACTTCCGATTCAAATAGAACAGAATGAGGCA-TCA
1 CACTTCCGATTCAAATCGAACGGAATGAGGCATTGA
* *
7075132 GCAGTTTCGATTCAAATCGAACGGAATGAGGCATTGA
1 -CACTTCCGATTCAAATCGAACGGAATGAGGCATTGA
* * *
7075169 CACTTCCGATTCAAATCGAACGGAAGGAAGCATTGG
1 CACTTCCGATTCAAATCGAACGGAATGAGGCATTGA
7075205 CACTTCCGATTCAAATCGAACGGAA
1 CACTTCCGATTCAAATCGAACGGAA
7075230 AGATGTATCG
Statistics
Matches: 86, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
36 84 0.98
37 2 0.02
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.21
Consensus pattern (36 bp):
CACTTCCGATTCAAATCGAACGGAATGAGGCATTGA
Found at i:7080428 original size:68 final size:66
Alignment explanation
Indices: 7080344--7080499 Score: 179
Period size: 66 Copynumber: 2.3 Consensus size: 66
7080334 TTATTTGGTT
* * * **
7080344 AAATAAATTTCAGTTCGATTAATGGTTACA-TAAAAAATTCGGTTAATTCATTTCGGTTAATAAT
1 AAATAAATTTCGGTTCGATTAAAGGTTA-AGGAAAAAA-TAAGTTAATTCA-TTCGGTTAATAAT
7080408 TTTC
63 TTTC
* * * *
7080412 AAATAAATTTCGGTTCGATTAAAGGTTAAGGAAAAAATAATTTATTTTATTCGGTTAATTATTTT
1 AAATAAATTTCGGTTCGATTAAAGGTTAAGGAAAAAATAAGTTAATTCATTCGGTTAATAATTTT
7080477 C
66 C
* *
7080478 AAATAAATTTCGATTCTATTAA
1 AAATAAATTTCGGTTCGATTAA
7080500 CGGTCAAATA
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
66 36 0.47
67 8 0.11
68 32 0.42
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (66 bp):
AAATAAATTTCGGTTCGATTAAAGGTTAAGGAAAAAATAAGTTAATTCATTCGGTTAATAATTTT
C
Found at i:7080576 original size:93 final size:93
Alignment explanation
Indices: 7080410--7080596 Score: 243
Period size: 93 Copynumber: 2.0 Consensus size: 93
7080400 TTAATAATTT
* * * *
7080410 TCAAATAAATTTCGGTTCGATTAAAGGTTAAGGAAAAAATAATTTATTTTATTCGGTTAATTATT
1 TCAAATAAATTTCGGTTCGATTAAAGGTTAAAGAAAAAATAATTGATTTGATTCGGTTAATAATT
*
7080475 TTCAAATAAATTTCGATTCTATTAACGG
66 TTCAAATAAATTTCGATTCGATTAACGG
* * * * *
7080503 TCAAAT-AATTTCTGTTCGATTAATGGTTAAAGAAAACATTCAGTTGATTTGGTT-GGTTAATAA
1 TCAAATAAATTTCGGTTCGATTAAAGGTTAAAGAAAA-AAT-AATTGATTTGATTCGGTTAATAA
*
7080566 TTTTCAAATAAATTTCGGTTCGATTAACGG
64 TTTTCAAATAAATTTCGATTCGATTAACGG
7080596 T
1 T
7080597 TAAAGAAAAA
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
92 27 0.33
93 45 0.56
94 9 0.11
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (93 bp):
TCAAATAAATTTCGGTTCGATTAAAGGTTAAAGAAAAAATAATTGATTTGATTCGGTTAATAATT
TTCAAATAAATTTCGATTCGATTAACGG
Found at i:7080787 original size:93 final size:94
Alignment explanation
Indices: 7080683--7080902 Score: 336
Period size: 93 Copynumber: 2.4 Consensus size: 94
7080673 ATGGTTAAAG
* * * *
7080683 AATTTGGTTCGGTTAATAATTTTCAAATAAATTTTGGTTCGATTAACGGTT-AAATAATTTCGGT
1 AATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCAAATAAC-ATTCAAATAATTTCGGT
* *
7080747 TTGATTAATTTTAAAG-AAAAAATCCAGTT
65 TCGATTAATGTTAAAGAAAAAAATCCAGTT
7080776 AATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCAAATAACATTCAAATAATTTCGGTT
1 AATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCAAATAACATTCAAATAATTTCGGTT
* *
7080841 CGATTAATGTTAAAGAAAAAAATTCGGTT
66 CGATTAATGTTAAAGAAAAAAATCCAGTT
*
7080870 AATTTTGTTCGGTTAATAATTTTCAAATAAATT
1 AATTTGGTTCGGTTAATAATTTTCAAATAAATT
7080903 ATTTTTTCCT
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
92 2 0.02
93 71 0.61
94 43 0.37
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.41
Consensus pattern (94 bp):
AATTTGGTTCGGTTAATAATTTTCAAATAAATTTCGGTTCAAATAACATTCAAATAATTTCGGTT
CGATTAATGTTAAAGAAAAAAATCCAGTT
Found at i:7083911 original size:34 final size:34
Alignment explanation
Indices: 7083873--7083975 Score: 90
Period size: 31 Copynumber: 3.1 Consensus size: 34
7083863 TTATCCAAAA
7083873 ATATTTAACTGGAAATATTATCAAATACAATAAC
1 ATATTTAACTGGAAATATTATCAAATACAATAAC
** * ** *
7083907 ATA-TTAGGTAG-CGT-TTAT-ATAATAAAATAA-
1 ATATTTAACTGGAAATATTATCA-AATACAATAAC
* *
7083937 ATATTTAACCGGAAATATTATCAAGTACAATAAC
1 ATATTTAACTGGAAATATTATCAAATACAATAAC
7083971 ATATT
1 ATATT
7083976 AGATAGCATT
Statistics
Matches: 49, Mismatches: 14, Indels: 12
0.65 0.19 0.16
Matches are distributed among these distances:
30 4 0.08
31 17 0.35
32 2 0.04
33 17 0.35
34 9 0.18
ACGTcount: A:0.48, C:0.10, G:0.09, T:0.34
Consensus pattern (34 bp):
ATATTTAACTGGAAATATTATCAAATACAATAAC
Found at i:7083944 original size:64 final size:64
Alignment explanation
Indices: 7083871--7083993 Score: 210
Period size: 64 Copynumber: 1.9 Consensus size: 64
7083861 TATTATCCAA
* * *
7083871 AAATATTTAACTGGAAATATTATCAAATACAATAACATATTAGGTAGCGTTTATATAATAAAAT
1 AAATATTTAACCGGAAATATTATCAAATACAATAACATATTAGATAGCATTTATATAATAAAAT
*
7083935 AAATATTTAACCGGAAATATTATCAAGTACAATAACATATTAGATAGCATTTATATAAT
1 AAATATTTAACCGGAAATATTATCAAATACAATAACATATTAGATAGCATTTATATAAT
7083994 GTAATAGGTA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
64 55 1.00
ACGTcount: A:0.48, C:0.09, G:0.09, T:0.34
Consensus pattern (64 bp):
AAATATTTAACCGGAAATATTATCAAATACAATAACATATTAGATAGCATTTATATAATAAAAT
Found at i:7084544 original size:200 final size:198
Alignment explanation
Indices: 7084118--7084583 Score: 641
Period size: 200 Copynumber: 2.3 Consensus size: 198
7084108 TTTTCTAACT
* ** * **
7084118 AAACCGATATATTTATACCGGTAACATTACAAATTTACCTATTAAATTATAATTATCAATTTCGA
1 AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* *
7084183 TGTTTTTGGGATCTATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTTATTGGGCATTC
66 TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCATTGGGCATTC
* *
7084248 ATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACCTATTTTCTC
131 ATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACATATTCTCTC
7084313 ATA
196 ATA
* * *
7084316 AAACCGATATATTTCTACCGGGTACATTGTAAATTTACCTATTACATTGTAATTATCGGTTTCGA
1 AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
* * *
7084381 TGTTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTATGCGTGCACCTCGTTTGGCAT
66 TGTTTTTGGGATCGATACAATTT--TAAATGTATCGACACTTTATGCGTGCACCTCATTGGGCAT
*** ** * * *
7084445 TCATTCTGGACAAAATA-TATCGACAC-TTTTTAAATTTGTTTCGATACATTATGTTGGCATATT
129 TCATTCTGGA-AAAA-AGTATCGACACAAACTTAAA-ACGTGTCGATACATTATGTAGACATATT
7084508 CTCTCATA
191 CTCTCATA
*
7084516 AAACCGGTATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
1 AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
7084581 TGT
66 TGT
7084584 AACATATGTG
Statistics
Matches: 235, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
197 3 0.01
198 73 0.31
199 52 0.22
200 106 0.45
201 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.14, T:0.39
Consensus pattern (198 bp):
AAACCGATATATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATCGGTTTCGA
TGTTTTTGGGATCGATACAATTTTAAATGTATCGACACTTTATGCGTGCACCTCATTGGGCATTC
ATTCTGGAAAAAAGTATCGACACAAACTTAAAACGTGTCGATACATTATGTAGACATATTCTCTC
ATA
Found at i:7084718 original size:30 final size:31
Alignment explanation
Indices: 7084684--7084768 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 31
7084674 TTATAATAAA
*
7084684 TAAT-AAATATAATTTATAATAA-TTTTATTT
1 TAATAAAATATAA-TAATAATAATTTTTATTT
*
7084714 TAATAAAATATAATAATCATAATTTTTA-TT
1 TAATAAAATATAATAATAATAATTTTTATTT
7084744 T-ATAAAATTATAGAT-ATAAT-ATTTT
1 TAATAAAA-TATA-ATAATAATAATTTT
7084769 AATTAAAATA
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
29 11 0.23
30 22 0.46
31 15 0.31
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
TAATAAAATATAATAATAATAATTTTTATTT
Found at i:7085506 original size:42 final size:43
Alignment explanation
Indices: 7085438--7085521 Score: 100
Period size: 42 Copynumber: 2.0 Consensus size: 43
7085428 CTCTCATTAT
* * *
7085438 AATATAATTAATGATATATTATTTTTATTATAATA-AATAATA
1 AATATAATTAATAATATATTATTTTTAATAAAATATAATAATA
* *
7085480 AATATAATTTATAATA-ATTTTATTTTAATAAAATATAATAAT
1 AATATAATTAATAATATATTAT-TTTTAATAAAATATAATAAT
7085522 CATAATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
41 4 0.11
42 25 0.71
43 6 0.17
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (43 bp):
AATATAATTAATAATATATTATTTTTAATAAAATATAATAATA
Found at i:7085516 original size:31 final size:30
Alignment explanation
Indices: 7085475--7085560 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
7085465 TTATAATAAA
*
7085475 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAA-TAATAATAATTTT-TTAT
*
7085505 TAATAAAATATAATAATCATAATTTTTTAT
1 TAATAAAATATAATAATAATAATTTTTTAT
*
7085535 TTATAAAATTATAGAT-ATAAT-ATTTT
1 TAATAAAA-TATA-ATAATAATAATTTT
7085561 AATTATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
29 2 0.04
30 28 0.58
31 16 0.33
32 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
TAATAAAATATAATAATAATAATTTTTTAT
Found at i:7085560 original size:28 final size:29
Alignment explanation
Indices: 7085479--7085568 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 29
7085469 AATAAATAAT
*
7085479 AAATATAAT-TTATAATAATTTTATTTTAATA
1 AAATATAATAATATAAT-ATTTTA-TTT-ATA
*
7085510 AAATATAATAATCATAATTTTTTATTTATA
1 AAATATAATAAT-ATAATATTTTATTTATA
*
7085540 AAAT-T-ATAGATATAATATTTTAATTATA
1 AAATATAATA-ATATAATATTTTATTTATA
7085568 A
1 A
7085569 TATTGACATA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
28 19 0.37
29 3 0.06
30 7 0.13
31 12 0.23
32 6 0.12
33 5 0.10
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (29 bp):
AAATATAATAATATAATATTTTATTTATA
Found at i:7085567 original size:14 final size:14
Alignment explanation
Indices: 7085500--7085572 Score: 51
Period size: 14 Copynumber: 5.3 Consensus size: 14
7085490 ATAATAATTT
*
7085500 TATTTTAA-TAAAA
1 TATTTTAATTATAA
** *
7085513 TATAATAATCATAA
1 TATTTTAATTATAA
* *
7085527 TTTTTTATTTATAA
1 TATTTTAATTATAA
* *
7085541 AATTATAGA-TATAA
1 TATTTTA-ATTATAA
7085555 TATTTTAATTATAA
1 TATTTTAATTATAA
7085569 TATT
1 TATT
7085573 GACATAAATA
Statistics
Matches: 42, Mismatches: 15, Indels: 5
0.68 0.24 0.08
Matches are distributed among these distances:
13 7 0.17
14 35 0.83
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (14 bp):
TATTTTAATTATAA
Found at i:7085981 original size:21 final size:21
Alignment explanation
Indices: 7085942--7085982 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
7085932 CGGTAAAGAT
* *
7085942 TACCTAAAACATTATTATTTC
1 TACCTAAAACATCAATATTTC
7085963 TACCTAAAACATCAATATTT
1 TACCTAAAACATCAATATTT
7085983 TTTAACATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (21 bp):
TACCTAAAACATCAATATTTC
Found at i:7086307 original size:31 final size:30
Alignment explanation
Indices: 7086266--7086351 Score: 81
Period size: 30 Copynumber: 2.9 Consensus size: 30
7086256 TTATGATAAA
*
7086266 TAAT-AAATATAATTTATAATAATTTTATT-T
1 TAATAAAATATAA-TAATAATAATTTT-TTAT
*
7086296 TAATAAAATATAATAATCATAATTTTTTAT
1 TAATAAAATATAATAATAATAATTTTTTAT
*
7086326 TTATAAAATTATAGAT-ATAAT-ATTTT
1 TAATAAAA-TATA-ATAATAATAATTTT
7086352 AATTATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
29 2 0.04
30 28 0.58
31 16 0.33
32 2 0.04
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (30 bp):
TAATAAAATATAATAATAATAATTTTTTAT
Done.