Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_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: 21326069
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 55 of 89
Found at i:12486942 original size:68 final size:68
Alignment explanation
Indices: 12486833--12487165 Score: 540
Period size: 68 Copynumber: 4.9 Consensus size: 68
12486823 GTTAATAGGT
* *
12486833 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATTCCAGTTAGATAAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
12486898 GGC
66 GGC
* * * * * *
12486901 CTAACTGTGTATTTGACAGTAAGGTGCCATTTATTCAAGTTAAATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
12486966 GGC
66 GGC
*
12486969 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCTTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
12487034 GGT
66 GGC
* * *
12487037 CTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGACTAAGTGCCCTTGA
1 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
12487102 GGC
66 GGC
*
12487105 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGGCTAAGTGCCT
1 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCT
12487166 GATGTGATCC
Statistics
Matches: 242, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
68 242 1.00
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.31
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGC
Found at i:12489428 original size:24 final size:24
Alignment explanation
Indices: 12489401--12489466 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 24
12489391 AGCTCATATA
12489401 AATTTGTACCGTAGTGCCACGTAG
1 AATTTGTACCGTAGTGCCACGTAG
* ** *
12489425 AATTTGCACCAAAGTGCCGCGTAG
1 AATTTGTACCGTAGTGCCACGTAG
*
12489449 AA-ATGTACCGTAGTGCCA
1 AATTTGTACCGTAGTGCCA
12489467 TATAAGATTG
Statistics
Matches: 33, Mismatches: 9, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
23 11 0.33
24 22 0.67
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (24 bp):
AATTTGTACCGTAGTGCCACGTAG
Found at i:12489608 original size:24 final size:24
Alignment explanation
Indices: 12489580--12489647 Score: 118
Period size: 24 Copynumber: 2.8 Consensus size: 24
12489570 ATACATATAC
*
12489580 GTCCCGAAGGACCACATAGAATTT
1 GTCCCGAAGGACCACGTAGAATTT
12489604 GTCCCGAAGGACCACGTAGAATTT
1 GTCCCGAAGGACCACGTAGAATTT
*
12489628 GTCCCGAATGACCACGTAGA
1 GTCCCGAAGGACCACGTAGA
12489648 CCCGATACTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.31, C:0.26, G:0.24, T:0.19
Consensus pattern (24 bp):
GTCCCGAAGGACCACGTAGAATTT
Found at i:12493509 original size:21 final size:22
Alignment explanation
Indices: 12493471--12493514 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
12493461 ATTAAAAAAG
12493471 GGGAACCGATTCCCCTACTACA
1 GGGAACCGATTCCCCTACTACA
*
12493493 GGGAATCGATT-CCCTACTACA
1 GGGAACCGATTCCCCTACTACA
12493514 G
1 G
12493515 TACTACTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.27, C:0.32, G:0.20, T:0.20
Consensus pattern (22 bp):
GGGAACCGATTCCCCTACTACA
Found at i:12494298 original size:24 final size:24
Alignment explanation
Indices: 12494271--12494361 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
12494261 AGCTCATATA
*
12494271 AATTTGCACCGTAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
* *
12494295 AATTTGCACTGAAGTGCCGCGTAG
1 AATTTGCACCGAAGTGCCACGTAG
*
12494319 AATTTGCACCGAAGTGCCCGCGTAG
1 AATTTGCACCGAAGTG-CCACGTAG
* *
12494344 AA-ATGCACCGTAGTGCCA
1 AATTTGCACCGAAGTGCCA
12494362 TATAAGATTG
Statistics
Matches: 59, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
23 2 0.03
24 47 0.80
25 10 0.17
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.22
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCACGTAG
Found at i:12499211 original size:25 final size:24
Alignment explanation
Indices: 12499183--12499240 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 24
12499173 CACCACAGCT
*
12499183 CGTATAAATTTGCACCGTAGTGCCA
1 CGTA-AAATTTGCACCGAAGTGCCA
* *
12499208 CGTAGAATTTGCACCGAAGTGCCT
1 CGTAAAATTTGCACCGAAGTGCCA
12499232 CGTAGAAAT
1 CGTA-AAAT
12499241 GCACTGTAGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 21 0.75
25 7 0.25
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
CGTAAAATTTGCACCGAAGTGCCA
Found at i:12499216 original size:24 final size:24
Alignment explanation
Indices: 12499189--12499238 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
12499179 AGCTCGTATA
*
12499189 AATTTGCACCGTAGTGCCACGTAG
1 AATTTGCACCGAAGTGCCACGTAG
*
12499213 AATTTGCACCGAAGTGCCTCGTAG
1 AATTTGCACCGAAGTGCCACGTAG
12499237 AA
1 AA
12499239 ATGCACTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (24 bp):
AATTTGCACCGAAGTGCCACGTAG
Found at i:12501915 original size:27 final size:26
Alignment explanation
Indices: 12501848--12501915 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 26
12501838 TTACTTTCAT
12501848 TTTTCC-TTGTCTTCAACCTTTTCTTTC
1 TTTTCCATT-TCTT-AACCTTTTCTTTC
12501875 TTTT-CATTTCCTTAACC-TTTCTTCTAC
1 TTTTCCATTT-CTTAACCTTTTCTT-T-C
12501902 TTTTCCATTTCTTA
1 TTTTCCATTTCTTA
12501916 TTTTCCTTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
25 6 0.17
26 7 0.19
27 18 0.50
28 5 0.14
ACGTcount: A:0.12, C:0.28, G:0.01, T:0.59
Consensus pattern (26 bp):
TTTTCCATTTCTTAACCTTTTCTTTC
Found at i:12506214 original size:68 final size:68
Alignment explanation
Indices: 12506100--12506332 Score: 358
Period size: 68 Copynumber: 3.4 Consensus size: 68
12506090 ATCCTATATC
* * * * *
12506100 AGTGCCTTTGAGGTCTAACTGTGTATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGG
1 AGTGCCTTTGAGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGG
12506165 CTA
66 CTA
* * * **
12506168 AGTGCCTTTGAGGCCTAACTATGCTTTTGATAGAAAGGTGAAATTTATGCTAGTTAGATGAAAGG
1 AGTGCCTTTGAGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGG
*
12506233 CCA
66 CTA
*
12506236 AGTGCCTTTGAGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCTAGTTAGAAGAAAGG
1 AGTGCCTTTGAGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGG
12506301 CTA
66 CTA
12506304 AGTGCCTTTGAGGCCTAACTGTGCATTTG
1 AGTGCCTTTGAGGCCTAACTGTGCATTTG
12506333 GCGTAAAGGT
Statistics
Matches: 148, Mismatches: 17, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 148 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (68 bp):
AGTGCCTTTGAGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCTAGTTAGATGAAAGG
CTA
Found at i:12506341 original size:68 final size:68
Alignment explanation
Indices: 12506100--12506362 Score: 357
Period size: 68 Copynumber: 3.9 Consensus size: 68
12506090 ATCCTATATC
* * * *
12506100 AGTGCCTTTGAGGTCTAACTGTGTATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGG
1 AGTGCCTTTGAGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGG
12506165 CTA
66 CTA
* * * ** *
12506168 AGTGCCTTTGAGGCCTAACTATGCTTTTGATAGAAAGGTGAAATTTATGCTAGTTAGATGAAAGG
1 AGTGCCTTTGAGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGG
*
12506233 CCA
66 CTA
* *
12506236 AGTGCCTTTGAGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCTAGTTAGAAGAAAGG
1 AGTGCCTTTGAGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGG
12506301 CTA
66 CTA
** * *
12506304 AGTGCCTTTGAGGCCTAACTGTGCATTTG-GCGTAAAGGTGTCAATTATTCCAGTTAGAT
1 AGTGCCTTTGAGGCCTAACTGTGCATTTGAAAG-AAAGGTGTCATTTATGCCAGTTAGAT
12506363 AAATGGTTAA
Statistics
Matches: 171, Mismatches: 23, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
67 1 0.01
68 170 0.99
ACGTcount: A:0.29, C:0.14, G:0.25, T:0.32
Consensus pattern (68 bp):
AGTGCCTTTGAGGCCTAACTGTGCATTTGAAAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGG
CTA
Found at i:12506470 original size:80 final size:81
Alignment explanation
Indices: 12506315--12506470 Score: 192
Period size: 80 Copynumber: 1.9 Consensus size: 81
12506305 GTGCCTTTGA
* * * * *
12506315 GGCCTAACTGTGCATTTGGCGTAAAGGTGTCAATTATTCCAGTTAGATAAATGGTTAAATACCAT
1 GGCCTAACTGTGCAATTAGCGTAAAGATGTCAATTATTCCAGTTAGATAAATAGTTAAACACCAT
*
12506380 TGAGTAAAAGAATAAT
66 CGAGTAAAAGAATAAT
* *
12506396 GGCCTAACTGTGCAATTAGCAG-AAAGATGTCAATTA-TGCAGTTAGA-AGAATAGTTAAACACT
1 GGCCTAACTGTGCAATTAGC-GTAAAGATGTCAATTATTCCAGTTAGATA-AATAGTTAAACACC
*
12506458 GTCGAGTAAAAGA
64 ATCGAGTAAAAGA
12506471 TGAACGGTTA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 1 0.02
80 31 0.48
81 31 0.48
82 1 0.02
ACGTcount: A:0.38, C:0.13, G:0.22, T:0.28
Consensus pattern (81 bp):
GGCCTAACTGTGCAATTAGCGTAAAGATGTCAATTATTCCAGTTAGATAAATAGTTAAACACCAT
CGAGTAAAAGAATAAT
Found at i:12511242 original size:55 final size:55
Alignment explanation
Indices: 12511084--12511235 Score: 225
Period size: 55 Copynumber: 2.8 Consensus size: 55
12511074 CTCAAAAAGT
* * *
12511084 TGAGAAATTCATACTAAGTGTATG-ACTTTCTGAATGGGTACTTTGTGTACAAAAC
1 TGAGAAATTCATACTAAGTGTATGAATTTTC-GTATGGGCACTTTGTGTACAAAAC
*
12511139 TGAGAAATTCATACTAAGTGTATTAATTTTCGTATGGGCACTTTGTGTACAAAAC
1 TGAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTACAAAAC
* * *
12511194 TGAGAAACTCATACTACGTGTATGAATTTTCGTATGGACACT
1 TGAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACT
12511236 ACGTGTATGA
Statistics
Matches: 88, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
55 83 0.94
56 5 0.06
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (55 bp):
TGAGAAATTCATACTAAGTGTATGAATTTTCGTATGGGCACTTTGTGTACAAAAC
Found at i:12511974 original size:68 final size:68
Alignment explanation
Indices: 12511500--12511950 Score: 650
Period size: 68 Copynumber: 6.6 Consensus size: 68
12511490 ATTAATAGGT
* *
12511500 CTAACTATGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGT
1 CTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
12511565 GGC
66 GGC
* * * * * *
12511568 CTAACTATGCATTTGACAGAAATGTGTTATTTATTCCAGTTAGATGAAAGGTTAAGCGCCTTCGA
1 CTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
12511633 GGC
66 GGC
* * * *
12511636 CTAACTGTGTATTTGACAGAAAGGTTTCATTTATGCCATTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
12511701 GGT
66 GGC
* * * *
12511704 CTAACTGTGCATTTGACAAAAAGGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGTCTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
12511769 GGC
66 GGC
* *
12511772 CTAACTGTTCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGGTGCCTTTG
1 CTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAA-GTGCCTTTG
12511837 AGGC
65 AGGC
* * *
12511841 ATAACTGTGCATTTGATAGAAATGTGTCATTTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGA
1 CTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
12511906 GGC
66 GGC
* * * * *
12511909 CTAACTGTACATTTGGCAGAAATGTTTCAATTATGTCAGTTA
1 CTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTA
12511951 AATAAATGGT
Statistics
Matches: 343, Mismatches: 39, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
68 281 0.82
69 62 0.18
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (68 bp):
CTAACTGTGCATTTGACAGAAATGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGC
Found at i:12513925 original size:18 final size:18
Alignment explanation
Indices: 12513902--12513947 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
12513892 AGGCATTTGA
12513902 TCCTCTGGCT-GTGCTTGT
1 TCCTCT-GCTCGTGCTTGT
*
12513920 TCCTCTGCTCGTTCTTGT
1 TCCTCTGCTCGTGCTTGT
12513938 TCCTCGTGCT
1 TCCTC-TGCT
12513948 ATTCTGGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 3 0.12
18 18 0.72
19 4 0.16
ACGTcount: A:0.00, C:0.33, G:0.22, T:0.46
Consensus pattern (18 bp):
TCCTCTGCTCGTGCTTGT
Found at i:12513952 original size:18 final size:19
Alignment explanation
Indices: 12513915--12513962 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
12513905 TCTGGCTGTG
*
12513915 CTTGTTCCTC-TGCTCGTT
1 CTTGTTCCTCGTGCTCATT
12513933 CTTGTTCCTCGTGCT-ATT
1 CTTGTTCCTCGTGCTCATT
* *
12513951 CTGGTTCATCGT
1 CTTGTTCCTCGT
12513963 CGGAGTCGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.04, C:0.29, G:0.19, T:0.48
Consensus pattern (19 bp):
CTTGTTCCTCGTGCTCATT
Found at i:12515556 original size:22 final size:23
Alignment explanation
Indices: 12515503--12515546 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
12515493 AAAACCCTAT
*
12515503 GGGG-AATTGGTTCCCCTTCAAA
1 GGGGAAATCGGTTCCCCTTCAAA
12515525 GGGGAAATCGGTTCCCCTTCAA
1 GGGGAAATCGGTTCCCCTTCAA
12515547 GGGTGTATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.23, C:0.25, G:0.27, T:0.25
Consensus pattern (23 bp):
GGGGAAATCGGTTCCCCTTCAAA
Found at i:12515561 original size:22 final size:23
Alignment explanation
Indices: 12515513--12515562 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
12515503 GGGGAATTGG
*
12515513 TTCCCCTTCAAAGGGGAAATCGG
1 TTCCCCTTCAAAGGGGAAATCGA
*
12515536 TTCCCCTTC-AAGGGTG-TATCGA
1 TTCCCCTTCAAAGGG-GAAATCGA
12515558 TTCCC
1 TTCCC
12515563 TCTGCCCTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (23 bp):
TTCCCCTTCAAAGGGGAAATCGA
Found at i:12518964 original size:15 final size:13
Alignment explanation
Indices: 12518939--12518979 Score: 82
Period size: 13 Copynumber: 3.2 Consensus size: 13
12518929 CACACTTATT
12518939 TTAAAACACACAC
1 TTAAAACACACAC
12518952 TTAAAACACACAC
1 TTAAAACACACAC
12518965 TTAAAACACACAC
1 TTAAAACACACAC
12518978 TT
1 TT
12518980 CTCCCCCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 28 1.00
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (13 bp):
TTAAAACACACAC
Found at i:12524985 original size:21 final size:20
Alignment explanation
Indices: 12524943--12524986 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
12524933 TCAAAAGAAG
*
12524943 TTTTGAGATCATCAATTTTC
1 TTTTGAGATCATCAATTATC
12524963 TTTTGATGATCATC-ATTGATC
1 TTTTGA-GATCATCAATT-ATC
12524984 TTT
1 TTT
12524987 GAAAGTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.23, C:0.14, G:0.11, T:0.52
Consensus pattern (20 bp):
TTTTGAGATCATCAATTATC
Found at i:12541111 original size:22 final size:22
Alignment explanation
Indices: 12541083--12541125 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
12541073 TAATAAATTA
12541083 TTTAAAACAAATAAATCCATAT
1 TTTAAAACAAATAAATCCATAT
* *
12541105 TTTAAAATAAATCAATCCATA
1 TTTAAAACAAATAAATCCATA
12541126 CTAATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.53, C:0.14, G:0.00, T:0.33
Consensus pattern (22 bp):
TTTAAAACAAATAAATCCATAT
Found at i:12541137 original size:54 final size:54
Alignment explanation
Indices: 12541073--12541815 Score: 761
Period size: 54 Copynumber: 13.6 Consensus size: 54
12541063 ACAACTAAAA
* *
12541073 TAATAAATTATTTAAAACAAATAAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * **
12541127 TAATAAATTATTTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** ** *
12541184 TTTTAAAATAAAT-CAATCCATACAAATAAAT-TATTTAAAATAAATCAATCAATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATAC
12541239 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
*
12541293 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* ** **
12541347 TAATAAATTATTTAAAATAAATCAATCTATATAACTACAATAATAAATCAATCCATGTTT
1 TAATAAATTATTTAAAATAAATCAATCCATAT---TTTAA-AATAAATCAATCCA--TAC
* ** * * *
12541407 TAAAATAAATTAATCCATACAAATAAAT---TA-TTTAAAATAAATCAATCCATAC
1 T--AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
12541459 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCACTCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
12541513 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* * **
12541567 TAAAAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATAC
** * ** * ** ** * *
12541624 TTTTAAAATAAAT-CAATCCATACAAATAAATTTTTTAAAATAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAAT-C-AATCCATATTTTAAAATAAATCAATCCATAC
12541679 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
* *
12541733 TAATAAATTATTTAAAAT-AATCAATCCATATTTTAAAGTAAATCAATCTATAC
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
12541786 TAAT-AATTATTTAAAATAAATCAATCCATA
1 TAATAAATTATTTAAAATAAATCAATCCATA
12541816 CAACTACAAT
Statistics
Matches: 565, Mismatches: 93, Indels: 63
0.78 0.13 0.09
Matches are distributed among these distances:
50 19 0.03
52 15 0.03
53 51 0.09
54 327 0.58
55 28 0.05
56 20 0.04
57 28 0.05
58 54 0.10
59 2 0.00
60 2 0.00
62 19 0.03
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (54 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
Found at i:12541236 original size:36 final size:32
Alignment explanation
Indices: 12541185--12541265 Score: 144
Period size: 32 Copynumber: 2.5 Consensus size: 32
12541175 CAATCCATAT
*
12541185 TTTAAAATAAATCAATCCATACAAATAAATTA
1 TTTAAAATAAATCAATCAATACAAATAAATTA
*
12541217 TTTAAAATAAATCAATCAATACTAATAAATTA
1 TTTAAAATAAATCAATCAATACAAATAAATTA
12541249 TTTAAAATAAATCAATC
1 TTTAAAATAAATCAATC
12541266 CATATTTTAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.56, C:0.11, G:0.00, T:0.33
Consensus pattern (32 bp):
TTTAAAATAAATCAATCAATACAAATAAATTA
Found at i:12541275 original size:22 final size:22
Alignment explanation
Indices: 12541249--12541291 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
12541239 TAATAAATTA
12541249 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
12541271 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
12541292 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:12541300 original size:22 final size:22
Alignment explanation
Indices: 12541251--12541299 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
12541241 ATAAATTATT
**
12541251 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
12541273 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
12541296 TAAA
1 TAAA
12541300 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:12541351 original size:220 final size:220
Alignment explanation
Indices: 12541073--12541883 Score: 1421
Period size: 220 Copynumber: 3.7 Consensus size: 220
12541063 ACAACTAAAA
* *
12541073 TAATAAATTATTTAAAACAAATAAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
12541138 TTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
12541203 ATACAAATAAATTATTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCA
131 ATACAAATAAATTATTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCA
12541268 TATTTTAAAATAAATCAATCCATAC
196 TATTTTAAAATAAATCAATCCATAC
*
12541293 TAATAAATTATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* * * *
12541358 TTAAAATAAATCAATCTATATAACTACAATAATAAATCAATCCATGTTTTAAAATAAATTAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
* *
12541423 ATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTA
131 ATACAAATAAATTATTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCA
*
12541488 TATTTTAAAATAAATCACTCCATAC
196 TATTTTAAAATAAATCAATCCATAC
* * *
12541513 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAGTAAATCAATCTATACTAAAAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
12541578 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
* *
12541643 ATACAAATAAATTTTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAATCCA
131 ATACAAATAAATTATTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCA
12541708 TATTTTAAAATAAATCAATCCATAC
196 TATTTTAAAATAAATCAATCCATAC
* *
12541733 TAATAAATTATTTAAAAT-AATCAATCCATATTTTAAAGTAAATCAATCTATACTAAT-AATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
*
12541796 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAAT-AATCAATTC
66 TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
*
12541860 ATACTAATAAATTATTTAAAATAA
131 ATACAAATAAATTATTTAAAATAA
12541884 TTATTTTAAA
Statistics
Matches: 566, Mismatches: 25, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
217 30 0.05
218 61 0.11
219 38 0.07
220 437 0.77
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (220 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
ATACAAATAAATTATTTAAAATAAATCAATCAATACTAATAAATTATTTAAAATAAATCAATCCA
TATTTTAAAATAAATCAATCCATAC
Found at i:12541354 original size:22 final size:22
Alignment explanation
Indices: 12541305--12541353 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
12541295 ATAAATTATT
* **
12541305 TAAAATAAATCAATCTATATTT
1 TAAAATAAATCAATCCATATAA
12541327 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
12541350 TAAA
1 TAAA
12541354 TTATTTAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:12541394 original size:166 final size:162
Alignment explanation
Indices: 12541073--12541811 Score: 764
Period size: 166 Copynumber: 4.5 Consensus size: 162
12541063 ACAACTAAAA
* *
12541073 TAATAAATTATTTAAAACAAATAAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
* ** * * * **
12541138 TTAAAATAAATCAATCTATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCC
66 TTAAAATAAATCAATCTAT---ATTTTAA-AATAAATCAATCCATA--CT--AATAAATTATTTA
* * *
12541203 ATACAAATAAAT---TATT-TAAAATAAATCAATCAATAC
123 AAATAAATCAATCCATATTATAAAATAAATCAATCAATAC
12541239 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
12541304 TTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
66 TTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
* * * **
12541369 CAATCTATATAACTACAATAATAAATCAATCCATGTTT
131 CAATCCATAT---TATAA-AATAAATCAAT-CA-ATAC
* ** * * *
12541407 TAAAATAAATTAATCCATACAAATAAAT---TA-TTTAAAATAAATCAATCCATACTAATAAATT
1 T--AATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATT
*
12541468 ATTTAAAATAAATCAATCTATATTTTAAAATAAATCACTCCATACTAATAAATTATTTAAAATAA
64 ATTTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAA
* * *
12541533 ATCAATCCATATTTTAAAGTAAATCAATCTATAC
129 ATCAATCCATATTATAAAATAAATCAATCAATAC
* * ** **
12541567 TAAAAAATTATTTAAAATAAATCAATCCATACAACTACAATAATAAATCAATCCATA-TTTTAAA
1 TAATAAATTATTTAAAATAAATCAATCCAT---ATTTTAA-AATAAATCAATCCATACTAATAAA
* ** * ** ** * *
12541631 ATAAAT-CAATCCATACAAATAAATTTTTTAAAATAAATCAATCTATACTAATAAATTATTTAAA
62 TTATTTAAAATAAAT-C-AATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAA
* *
12541695 ATAAATCAATCCATATTTTAAAATAAATCAATCCATAC
125 ATAAATCAATCCATATTATAAAATAAATCAATCAATAC
* *
12541733 TAATAAATTATTTAAAAT-AATCAATCCATATTTTAAAGTAAATCAATCTATACTAAT-AATTAT
1 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
12541796 TTAAAATAAATCAATC
66 TTAAAATAAATCAATC
12541812 CATACAACTA
Statistics
Matches: 478, Mismatches: 71, Indels: 54
0.79 0.12 0.09
Matches are distributed among these distances:
158 36 0.08
160 6 0.01
161 25 0.05
162 37 0.08
163 7 0.01
164 7 0.01
165 25 0.05
166 310 0.65
167 4 0.01
168 2 0.00
170 19 0.04
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (162 bp):
TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
TTAAAATAAATCAATCTATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAAT
CAATCCATATTATAAAATAAATCAATCAATAC
Found at i:12541430 original size:18 final size:18
Alignment explanation
Indices: 12541409--12541468 Score: 65
Period size: 18 Copynumber: 3.6 Consensus size: 18
12541399 CCATGTTTTA
12541409 AAATAAATTAATCCATAC
1 AAATAAATTAATCCATAC
*
12541427 AAATAAATT-AT--TTA-
1 AAATAAATTAATCCATAC
*
12541441 AAATAAATCAATCCATAC
1 AAATAAATTAATCCATAC
*
12541459 TAATAAATTA
1 AAATAAATTA
12541469 TTTAAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
14 8 0.24
15 4 0.12
17 4 0.12
18 17 0.52
ACGTcount: A:0.57, C:0.12, G:0.00, T:0.32
Consensus pattern (18 bp):
AAATAAATTAATCCATAC
Found at i:12541654 original size:22 final size:22
Alignment explanation
Indices: 12541581--12541654 Score: 60
Period size: 22 Copynumber: 3.2 Consensus size: 22
12541571 AAATTATTTA
*
12541581 AAATAAATCAATCCATACAACTACA
1 AAATAAATCAATCCATACAA--A-T
***
12541606 ATAATAAATCAATCCATA-TTTT
1 A-AATAAATCAATCCATACAAAT
12541628 AAAATAAATCAATCCATACAAAT
1 -AAATAAATCAATCCATACAAAT
12541651 AAAT
1 AAAT
12541655 TTTTTAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
22 20 0.51
23 2 0.05
25 1 0.03
26 16 0.41
ACGTcount: A:0.55, C:0.18, G:0.00, T:0.27
Consensus pattern (22 bp):
AAATAAATCAATCCATACAAAT
Found at i:12541715 original size:22 final size:22
Alignment explanation
Indices: 12541689--12541731 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
12541679 TAATAAATTA
12541689 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
12541711 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
12541732 CTAATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:12541740 original size:22 final size:22
Alignment explanation
Indices: 12541691--12541739 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
12541681 ATAAATTATT
**
12541691 TAAAATAAATCAATCCATATTT
1 TAAAATAAATCAATCCATATAA
12541713 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
12541736 TAAA
1 TAAA
12541740 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.00, T:0.31
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:12541873 original size:79 final size:82
Alignment explanation
Indices: 12541073--12541883 Score: 339
Period size: 86 Copynumber: 9.9 Consensus size: 82
12541063 ACAACTAAAA
* * *
12541073 TAATAAATTATTTAAAACAAATAAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAA-TA-TTAAAA-TAATCAATCCATATTTTAAAATAAATCAATCTATACTAAT-AATTAT
*
12541138 TTAAAATAAATCAATCTATAC
62 TTAAAATAAATCAATCCATAC
* * * *
12541159 -AACTACA-A-TAATA-AATCAATCCATATTTTAAAATAAATCAATCCATACAAATAAATTATTT
1 TAA-TAAATATTAAAATAATCAATCCATATTTTAAAATAAATCAATCTATACTAAT-AATTATTT
*
12541220 AAAATAAATCAATCAATAC
64 AAAATAAATCAATCCATAC
*
12541239 TAATAAATTATTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTAT
1 TAATAAA-TA-TTAAAAT-AATCAATCCATATTTTAAAATAAATCAATCTATACTAAT-AATTAT
*
12541304 TTAAAATAAATCAATCTATA-
62 TTAAAATAAATCAATCCATAC
** * *
12541324 TTTTAAA-A-T-AAATCAATCCATACTAATAAATTATTTAAAATAAATCAATCTATA-TAACTAC
1 TAATAAATATTAAAAT-AATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCTATACTAA-TA-
*
12541385 A--A--T--AATAAATCAATCCAT-G
57 ATTATTTAAAATAAATCAATCCATAC
** * * * *
12541404 TTTTAAA-A-TAAATTAATCCATACAAATAAATTATTTAAAATAAATCAATCCATACTAATAAAT
1 TAATAAATATTAAAATAATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCTATACTAAT-AAT
*
12541467 TATTTAAAATAAATCAATCTATA-
59 TATTTAAAATAAATCAATCCATAC
** * * * * **
12541490 TTTTAAA-A-T-AAATCACTCCATACTAATAAATTATTTAAAATAAATCAATCCATA-TTTTAA-
1 TAATAAATATTAAAAT-AATCAAT-C-CAT--A-T-TTTAAAATAAATCAATCTATACTAATAAT
* * * *
12541550 -A-GT-AAATCAATCTATAC-TA-
59 TATTTAAAATAAATCAATCCATAC
* * * *** * * * *
12541569 AAAAATTAT-TTAAAATAAATCAATCCATACAACTACAAT-AATAAATCAAT-C-CAT-A-T-TT
1 TAATA-AATATTAAAAT-AATCAATCCATA-TTTTAAAATAAATCAATCTATACTAATAATTATT
12541627 TAAAATAAATCAATCCATAC
63 TAAAATAAATCAATCCATAC
* * * ** * * *
12541647 AAATAAATTTTTTAAAATAAATCAATCTATACTAATAAATTATTTAAAATAAATCAAT-C-CAT-
1 TAATAAA--TATTAAAAT-AATCAATCCATA-TTTTAAA--A--T-AAATCAATCTATACTAATA
12541709 A-T-TTTAAAATAAATCAATCCATAC
57 ATTATTTAAAATAAATCAATCCATAC
*
12541733 TAATAAATTATTTAAAATAATCAATCCATATTTTAAAGTAAATCAATCTATACTAATAATTATTT
1 TAATAAA-TA-TTAAAATAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAATTATTT
12541798 AAAATAAATCAATCCATAC
64 AAAATAAATCAATCCATAC
* *
12541817 -AACTACA-A-TAATA-AATCAATCCATATTTTAAAAT-AATCAAT-TCATACTAATAAATTATT
1 TAA-TAAATATTAAAATAATCAATCCATATTTTAAAATAAATCAATCT-ATACTAAT-AATTATT
12541876 TAAAATAA
63 TAAAATAA
12541884 TTATTTTAAA
Statistics
Matches: 599, Mismatches: 70, Indels: 119
0.76 0.09 0.15
Matches are distributed among these distances:
74 1 0.00
75 2 0.00
76 20 0.03
77 9 0.02
78 20 0.03
79 49 0.08
80 183 0.31
81 16 0.03
82 22 0.04
83 4 0.01
84 41 0.07
85 30 0.05
86 202 0.34
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (82 bp):
TAATAAATATTAAAATAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAATTATTTAA
AATAAATCAATCCATAC
Found at i:12541896 original size:45 final size:45
Alignment explanation
Indices: 12541840--12542085 Score: 264
Period size: 45 Copynumber: 5.3 Consensus size: 45
12541830 AATCAATCCA
*
12541840 TATTTTAAAAT-AATCAATTCATACTAATAAATTA-TTTAAAAT-AAT
1 TATTTTAAAATAAAT-TATT-ATA-TAATAAATTATTTTAAAATAAAT
* *
12541885 TATTTTAAAATAATCAATACATATTTTATAATAATTTATTTTAAAATAAAT
1 TATTTTAAAAT-A--AAT---TATTATATAATAAATTATTTTAAAATAAAT
* * * *
12541936 TATTTTATAATAAATTATTTTAAAATAAATTATTTTATAATAAAT
1 TATTTTAAAATAAATTATTATATAATAAATTATTTTAAAATAAAT
** * *
12541981 TATTTTATTATAAATTATTTTTTAATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAATTATTATATAATAAATTATTTTAAAATAAAT
* * *
12542026 TATTTTATAATAAATTATTTTAAAATAAATTATTTTAAAATAAAT
1 TATTTTAAAATAAATTATTATATAATAAATTATTTTAAAATAAAT
12542071 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
12542086 AACCTTATTA
Statistics
Matches: 177, Mismatches: 16, Indels: 16
0.85 0.08 0.08
Matches are distributed among these distances:
45 135 0.76
48 3 0.02
49 12 0.07
50 11 0.06
51 16 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (45 bp):
TATTTTAAAATAAATTATTATATAATAAATTATTTTAAAATAAAT
Found at i:12541908 original size:66 final size:66
Alignment explanation
Indices: 12541830--12542083 Score: 207
Period size: 60 Copynumber: 4.0 Consensus size: 66
12541820 TACAATAATA
* *
12541830 AATCAATCCATATTTTAAAATAATCAATTCATACTAATAAATTA-TTTAAAAT-AATTATTTTAA
1 AATCAATACATATTTTAAAATAATCAATT-ATA-AAATAAATTATTTTAAAATAAATTATTTTAA
12541893 AAT
64 AAT
* ** * *
12541896 AATCAATACATATTTTATAATAATTTATTTTAAAATAAATTATTTTATAATAAATTATTTTAAAA
1 AATCAATACATATTTTAAAATAATCAATTATAAAATAAATTATTTTAAAATAAATTATTTTAAAA
12541961 T
66 T
* * * ** **
12541962 -A--AAT---TATTTTATAATAAAT-TATTTTATTATAAATTATTTTTTAATAAATTATTTTAAA
1 AATCAATACATATTTTAAAAT-AATCAATTATAAAATAAATTATTTTAAAATAAATTATTTTAAA
12542020 AT
65 AT
* * *
12542022 -A--AAT---TATTTTATAATAAAT-TATTTTAAAATAAATTATTTTAAAATAAATTATTTTAAA
1 AATCAATACATATTTTAAAAT-AATCAATTATAAAATAAATTATTTTAAAATAAATTATTTTAAA
12542080 AT
65 AT
12542082 AA
1 AA
12542084 ATAACCTTAT
Statistics
Matches: 170, Mismatches: 14, Indels: 13
0.86 0.07 0.07
Matches are distributed among these distances:
60 105 0.62
61 4 0.02
63 3 0.02
64 9 0.05
65 10 0.06
66 39 0.23
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (66 bp):
AATCAATACATATTTTAAAATAATCAATTATAAAATAAATTATTTTAAAATAAATTATTTTAAAA
T
Found at i:12541926 original size:15 final size:15
Alignment explanation
Indices: 12541906--12542085 Score: 279
Period size: 15 Copynumber: 12.0 Consensus size: 15
12541896 AATCAATACA
* *
12541906 TATTTTATAATAATT
1 TATTTTAAAATAAAT
12541921 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
*
12541936 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
12541951 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
*
12541966 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
**
12541981 TATTTTATTATAAAT
1 TATTTTAAAATAAAT
**
12541996 TATTTTTTAATAAAT
1 TATTTTAAAATAAAT
12542011 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
*
12542026 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
12542041 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
12542056 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
12542071 TATTTTAAAATAAAT
1 TATTTTAAAATAAAT
12542086 AACCTTATTA
Statistics
Matches: 153, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 153 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTTAAAATAAAT
Found at i:12541940 original size:30 final size:30
Alignment explanation
Indices: 12541865--12542085 Score: 320
Period size: 30 Copynumber: 7.2 Consensus size: 30
12541855 AATTCATACT
*
12541865 AATAAATTA-TTTAAAAT-AATTATTTTAA
1 AATAAATTATTTTATAATAAATTATTTTAA
*
12541893 AATAATCAATACATATTTTATAATAATTTATTTTAA
1 AAT-A--AAT---TATTTTATAATAAATTATTTTAA
12541929 AATAAATTATTTTATAATAAATTATTTTAA
1 AATAAATTATTTTATAATAAATTATTTTAA
*
12541959 AATAAATTATTTTATAATAAATTATTTTAT
1 AATAAATTATTTTATAATAAATTATTTTAA
* *
12541989 TATAAATTATTTTTTAATAAATTATTTTAA
1 AATAAATTATTTTATAATAAATTATTTTAA
12542019 AATAAATTATTTTATAATAAATTATTTTAA
1 AATAAATTATTTTATAATAAATTATTTTAA
*
12542049 AATAAATTATTTTAAAATAAATTATTTTAA
1 AATAAATTATTTTATAATAAATTATTTTAA
12542079 AATAAAT
1 AATAAAT
12542086 AACCTTATTA
Statistics
Matches: 175, Mismatches: 10, Indels: 14
0.88 0.05 0.07
Matches are distributed among these distances:
28 3 0.02
29 1 0.01
30 142 0.81
31 3 0.02
33 3 0.02
34 2 0.01
35 8 0.05
36 13 0.07
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (30 bp):
AATAAATTATTTTATAATAAATTATTTTAA
Found at i:12549878 original size:52 final size:52
Alignment explanation
Indices: 12549818--12549922 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
12549808 GTTCTTCGAG
12549818 TTAAATTTGATCAGTGGGTTGGGATGGTCTTCCCCCAGTTGGCTTCATTTAT
1 TTAAATTTGATCAGTGGGTTGGGATGGTCTTCCCCCAGTTGGCTTCATTTAT
12549870 TTAAATTTGATCAGTGGGTTGGGATGGTCTTCCCCCAGTTGGCTTCATTTAT
1 TTAAATTTGATCAGTGGGTTGGGATGGTCTTCCCCCAGTTGGCTTCATTTAT
12549922 T
1 T
12549923 GTCGGCTTTC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.17, C:0.17, G:0.25, T:0.41
Consensus pattern (52 bp):
TTAAATTTGATCAGTGGGTTGGGATGGTCTTCCCCCAGTTGGCTTCATTTAT
Found at i:12551162 original size:12 final size:13
Alignment explanation
Indices: 12551138--12551166 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
12551128 GAATCGAGTT
12551138 TTTTAAGTTTTAA
1 TTTTAAGTTTTAA
12551151 TTTTAA-TTTTAA
1 TTTTAAGTTTTAA
12551163 TTTT
1 TTTT
12551167 CGCAATTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTAAGTTTTAA
Found at i:12552756 original size:22 final size:22
Alignment explanation
Indices: 12552698--12552861 Score: 133
Period size: 24 Copynumber: 7.4 Consensus size: 22
12552688 ATAATAATTG
*
12552698 AAATATATAATATATATTTGTAA
1 AAATATATAATATATATTT-CAA
* ** *
12552721 TAA-A-ACCATATATATTTTAA
1 AAATATATAATATATATTTCAA
*
12552741 AAATATATAATATATATTTCGA
1 AAATATATAATATATATTTCAA
*
12552763 AACTATAT-A-AT-T-TTTCAA
1 AAATATATAATATATATTTCAA
*
12552781 AACTATAGATAATATATATTTCAA
1 AA--ATATATAATATATATTTCAA
12552805 AATTATATATAATATATATTTCAA
1 AA--ATATATAATATATATTTCAA
*
12552829 AACTATATATAATATATATTTTAA
1 AA--ATATATAATATATATTTCAA
*
12552853 AACTATATA
1 AAATATATA
12552862 TATTTAAATA
Statistics
Matches: 116, Mismatches: 17, Indels: 17
0.77 0.11 0.11
Matches are distributed among these distances:
18 7 0.06
19 1 0.01
20 11 0.09
21 14 0.12
22 28 0.24
23 3 0.03
24 52 0.45
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
AAATATATAATATATATTTCAA
Found at i:12552770 original size:24 final size:24
Alignment explanation
Indices: 12552728--12552863 Score: 171
Period size: 24 Copynumber: 6.0 Consensus size: 24
12552718 TAATAAAACC
*
12552728 ATATATATTTTAAAA--ATATATA
1 ATATATATTTCAAAACTATATATA
*
12552750 ATATATATTTCGAAAC--TATAT-
1 ATATATATTTCAAAACTATATATA
*
12552771 A-AT-T-TTTCAAAACTATAGATA
1 ATATATATTTCAAAACTATATATA
*
12552792 ATATATATTTCAAAATTATATATA
1 ATATATATTTCAAAACTATATATA
12552816 ATATATATTTCAAAACTATATATA
1 ATATATATTTCAAAACTATATATA
*
12552840 ATATATATTTTAAAACTATATATA
1 ATATATATTTCAAAACTATATATA
12552864 TTTAAATAAT
Statistics
Matches: 99, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.08
19 1 0.01
20 6 0.06
21 2 0.02
22 20 0.20
23 1 0.01
24 61 0.62
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.43
Consensus pattern (24 bp):
ATATATATTTCAAAACTATATATA
Found at i:12554314 original size:13 final size:13
Alignment explanation
Indices: 12554268--12554315 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
12554258 TTTGACTTAT
*
12554268 ATTTTTAAAAAGA
1 ATTTTTAAAAATA
* *
12554281 GTTTTTTAAAATA
1 ATTTTTAAAAATA
*
12554294 TATATTTAAAAATA
1 -ATTTTTAAAAATA
12554308 ATTTTTAA
1 ATTTTTAA
12554316 CTGACCATAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (13 bp):
ATTTTTAAAAATA
Found at i:12556573 original size:23 final size:23
Alignment explanation
Indices: 12556543--12556586 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
12556533 AAACCATCCA
12556543 TAAGTGTGAATCCCATGAAAGCT
1 TAAGTGTGAATCCCATGAAAGCT
* *
12556566 TAAGTGTGCATCCTATGAAAG
1 TAAGTGTGAATCCCATGAAAG
12556587 GTCGATCTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.34, C:0.16, G:0.23, T:0.27
Consensus pattern (23 bp):
TAAGTGTGAATCCCATGAAAGCT
Found at i:12556775 original size:29 final size:29
Alignment explanation
Indices: 12556743--12556808 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
12556733 TTTATCATAT
*
12556743 TTTATAAAACATTTTATCCTTTATTGTAA
1 TTTATAAAACATTTTATACTTTATTGTAA
**** *
12556772 TTTATAATTTGTTTTGTACTTTATTGTAA
1 TTTATAAAACATTTTATACTTTATTGTAA
12556801 TTTATAAA
1 TTTATAAA
12556809 TAGTTTTGTA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.32, C:0.06, G:0.06, T:0.56
Consensus pattern (29 bp):
TTTATAAAACATTTTATACTTTATTGTAA
Found at i:12556818 original size:48 final size:48
Alignment explanation
Indices: 12556766--12556873 Score: 171
Period size: 48 Copynumber: 2.2 Consensus size: 48
12556756 TTATCCTTTA
* **
12556766 TTGTAATTTATAATTTGTTTTGTACTTTATTGTAATTTATAAATAGTT
1 TTGTAATTTATAAATAATTTTGTACTTTATTGTAATTTATAAATAGTT
* *
12556814 TTGTAACTTATAAATAATTTTGTACTTTATTGTTATTTATAAATAGTT
1 TTGTAATTTATAAATAATTTTGTACTTTATTGTAATTTATAAATAGTT
12556862 TTGTAATTTATA
1 TTGTAATTTATA
12556874 GTAATTTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 54 1.00
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (48 bp):
TTGTAATTTATAAATAATTTTGTACTTTATTGTAATTTATAAATAGTT
Found at i:12556819 original size:19 final size:19
Alignment explanation
Indices: 12556795--12556843 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
12556785 TTGTACTTTA
*
12556795 TTGTAATTTATAAATAGTT
1 TTGTAATTTATAAATAATT
*
12556814 TTGTAACTTATAAATAATT
1 TTGTAATTTATAAATAATT
*
12556833 TTGTACTTTAT
1 TTGTAATTTAT
12556844 TGTTATTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (19 bp):
TTGTAATTTATAAATAATT
Found at i:12556824 original size:29 final size:29
Alignment explanation
Indices: 12556761--12556818 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
12556751 ACATTTTATC
* *
12556761 CTTTATTGTAATTTATAATTTGTTTTGTA
1 CTTTATTGTAATTTATAAATAGTTTTGTA
12556790 CTTTATTGTAATTTATAAATAGTTTTGTA
1 CTTTATTGTAATTTATAAATAGTTTTGTA
12556819 ACTTATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.28, C:0.03, G:0.10, T:0.59
Consensus pattern (29 bp):
CTTTATTGTAATTTATAAATAGTTTTGTA
Found at i:12556842 original size:77 final size:77
Alignment explanation
Indices: 12556744--12556895 Score: 216
Period size: 77 Copynumber: 2.0 Consensus size: 77
12556734 TTATCATATT
* * * * *
12556744 TTATAAAACATTTTATCCTTTATTGTAATTTATAATTTGTTTTGTACTTTATTGTAATTTATAAA
1 TTATAAAACATTTTATACTTTATTGTAATTTATAAATAGTTTTGTAATTTATAGTAATTTATAAA
*
12556809 TAGTTTTGTAAC
66 TAATTTTGTAAC
* *
12556821 TTATAAATA-ATTTTGTACTTTATTGTTATTTATAAATAGTTTTGTAATTTATAGTAATTTATAA
1 TTATAAA-ACATTTTATACTTTATTGTAATTTATAAATAGTTTTGTAATTTATAGTAATTTATAA
12556885 ATAATTTTGTA
65 ATAATTTTGTA
12556896 CTTTAATTTA
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
77 65 0.98
78 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.08, T:0.55
Consensus pattern (77 bp):
TTATAAAACATTTTATACTTTATTGTAATTTATAAATAGTTTTGTAATTTATAGTAATTTATAAA
TAATTTTGTAAC
Found at i:12556846 original size:29 final size:29
Alignment explanation
Indices: 12556814--12556913 Score: 139
Period size: 29 Copynumber: 3.4 Consensus size: 29
12556804 ATAAATAGTT
*
12556814 TTGTAACTTATAAATAATTTTGTACTTTA
1 TTGTAATTTATAAATAATTTTGTACTTTA
* * *
12556843 TTGTTATTTATAAATAGTTTTGTAATTTA
1 TTGTAATTTATAAATAATTTTGTACTTTA
*
12556872 TAGTAATTTATAAATAATTTTGTACTTTAA
1 TTGTAATTTATAAATAATTTTGTACTTT-A
12556902 TT-TAATTTATAA
1 TTGTAATTTATAA
12556914 TAAATATTAA
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 59 0.97
30 2 0.03
ACGTcount: A:0.36, C:0.03, G:0.07, T:0.54
Consensus pattern (29 bp):
TTGTAATTTATAAATAATTTTGTACTTTA
Found at i:12556956 original size:29 final size:29
Alignment explanation
Indices: 12556924--12557035 Score: 124
Period size: 29 Copynumber: 4.0 Consensus size: 29
12556914 TAAATATTAA
* *
12556924 CCTTTATTTTAAATTCAAAAAAGTTTTGT
1 CCTTTATTCTAAATTCTAAAAAGTTTTGT
*
12556953 CCTTTA--CTAAATTC--AAGAGTTTTGT
1 CCTTTATTCTAAATTCTAAAAAGTTTTGT
* *
12556978 CCTTTATTATAAATTCTAAAATGTTTTGT
1 CCTTTATTCTAAATTCTAAAAAGTTTTGT
* * *
12557007 CATTTATTCTAAATTTTAAAATGTTTTGT
1 CCTTTATTCTAAATTCTAAAAAGTTTTGT
12557036 ATTTTATTGT
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
25 16 0.23
27 14 0.20
29 41 0.58
ACGTcount: A:0.31, C:0.11, G:0.08, T:0.50
Consensus pattern (29 bp):
CCTTTATTCTAAATTCTAAAAAGTTTTGT
Found at i:12558251 original size:15 final size:15
Alignment explanation
Indices: 12558231--12558260 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12558221 TACTCTTGGC
*
12558231 TTAGTATCTATACTT
1 TTAGTATCGATACTT
12558246 TTAGTATCGATACTT
1 TTAGTATCGATACTT
12558261 ATATAAATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (15 bp):
TTAGTATCGATACTT
Found at i:12564100 original size:25 final size:25
Alignment explanation
Indices: 12564066--12564129 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
12564056 TTGAGACTCC
12564066 CAGAAAGTTTCAAAAATAGGTAGGA
1 CAGAAAGTTTCAAAAATAGGTAGGA
12564091 CAGAAAGTTTCAAAAATAGGTAGGA
1 CAGAAAGTTTCAAAAATAGGTAGGA
12564116 CA-AAATGTTT-AAAA
1 CAGAAA-GTTTCAAAA
12564130 GTATCGATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
24 7 0.18
25 31 0.82
ACGTcount: A:0.50, C:0.08, G:0.20, T:0.22
Consensus pattern (25 bp):
CAGAAAGTTTCAAAAATAGGTAGGA
Found at i:12571707 original size:13 final size:13
Alignment explanation
Indices: 12571689--12571714 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
12571679 CTCTTCCTCT
12571689 TCTCTTCATTTTC
1 TCTCTTCATTTTC
12571702 TCTCTTCATTTTC
1 TCTCTTCATTTTC
12571715 CTCATTTTCA
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:0.08, C:0.31, G:0.00, T:0.62
Consensus pattern (13 bp):
TCTCTTCATTTTC
Found at i:12575930 original size:111 final size:111
Alignment explanation
Indices: 12575736--12575941 Score: 317
Period size: 111 Copynumber: 1.9 Consensus size: 111
12575726 ACCGAAGTGC
* *
12575736 CGAAATGGTCATTCACCATTTATGAATACCATGGCTGATAACTTTTATGCCGAAAATGCACTCTT
1 CGAAATGGTAATTCACCATTTATGAATACCATGGCTGATAACTTTTATGCCGAAAATGAACTCTT
12575801 ATGCATTAAACAAAATCGATCGATAACTTTAATACATGAAGTATGT
66 ATGCATTAAACAAAATCGATCGATAACTTTAATACATGAAGTATGT
* * * *
12575847 CGAAATGGTAATTCACCTTTTATGAATACCATGGGTG-TCACATTTTATGTCGAAAATGAAC-CG
1 CGAAATGGTAATTCACCATTTATGAATACCATGGCTGATAAC-TTTTATGCCGAAAATGAACTC-
*
12575910 TTATGCATTAAATAAAATCGATCGATAACTTT
64 TTATGCATTAAACAAAATCGATCGATAACTTT
12575942 CATTAGTGGC
Statistics
Matches: 86, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
110 4 0.05
111 82 0.95
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.33
Consensus pattern (111 bp):
CGAAATGGTAATTCACCATTTATGAATACCATGGCTGATAACTTTTATGCCGAAAATGAACTCTT
ATGCATTAAACAAAATCGATCGATAACTTTAATACATGAAGTATGT
Found at i:12577343 original size:16 final size:16
Alignment explanation
Indices: 12577322--12577362 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
12577312 ATTTATTTAA
*
12577322 TTAAATCCTCTAAAAT
1 TTAAATCCTCCAAAAT
*
12577338 TTAAATCCTCCAAATT
1 TTAAATCCTCCAAAAT
12577354 TTAAATCCT
1 TTAAATCCT
12577363 TCCATTATGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (16 bp):
TTAAATCCTCCAAAAT
Found at i:12583529 original size:17 final size:19
Alignment explanation
Indices: 12583487--12583534 Score: 64
Period size: 20 Copynumber: 2.6 Consensus size: 19
12583477 ATGGAATCCA
*
12583487 TAGTATCGATACCTTCCTAT
1 TAGTATCGATACC-TCCTAG
12583507 TAGTATCGATACC-CC-AG
1 TAGTATCGATACCTCCTAG
12583524 TAGTATCGATA
1 TAGTATCGATA
12583535 TTACTTGCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 12 0.44
18 2 0.07
20 13 0.48
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (19 bp):
TAGTATCGATACCTCCTAG
Found at i:12591743 original size:54 final size:54
Alignment explanation
Indices: 12591656--12591978 Score: 333
Period size: 54 Copynumber: 6.0 Consensus size: 54
12591646 ATTGGCATAG
* * *
12591656 GTGTACAACCCATGAAATTCATCATATGGTGATGAACAACCGTATAGGCACTAA
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTAA
* *** * *
12591710 GTGTGCAACCCACGAAATTCATCATATTTTGATGAACAATTTTATACGAACTAA
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTAA
* * * * * * * **
12591764 GTCTGTAACCCAGGGAATTTATTATATGTTGATGAACAACCATATATACACTAA
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTAA
* * *
12591818 GTGTGCAACCCATGGAATTCATCATAAGTTGATGAACAACCGTATAGGCACTAA
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTAA
* * * * *
12591872 GTGTGCAACCCCCGAAATTCATTATATATTGATGAACAACCGTATATGCACTAT
1 GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTAA
* * * * * * *
12591926 GTGTGCTAA-CCACAAAATTCATAATATATTTATGAATAACCTTATGGGCACTA
1 GTGTGC-AACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTA
12591979 CGTTTGTATC
Statistics
Matches: 221, Mismatches: 47, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
54 219 0.99
55 2 0.01
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (54 bp):
GTGTGCAACCCACGAAATTCATCATATGTTGATGAACAACCGTATAGGCACTAA
Found at i:12600199 original size:18 final size:18
Alignment explanation
Indices: 12600168--12600202 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
12600158 TTTTATGCAC
12600168 TATTTATTTGTTTTATTT
1 TATTTATTTGTTTTATTT
12600186 TATTTCATTT-TTTTATT
1 TATTT-ATTTGTTTTATT
12600203 GTAGGCATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (18 bp):
TATTTATTTGTTTTATTT
Found at i:12609452 original size:59 final size:59
Alignment explanation
Indices: 12609355--12609589 Score: 206
Period size: 59 Copynumber: 4.0 Consensus size: 59
12609345 GAAGCATAGG
* * * ** * *
12609355 AGCCACCTGAGGGGAGTGCTTCCAGGTTCATAAGGACTTACCAAATTTATAAAGCAAAGG
1 AGCCACCTGAGCGGAGTGC-CCCAGGTCCATAAGGACTTACCAAATGCATAAAGAAAAGA
* * * * *
12609415 ATCCAACC-GAGGGGAGTTCCCCAGGTCCACAAGGACTTACCTAATGCATAAAGAAAAGA
1 AGCC-ACCTGAGCGGAGTGCCCCAGGTCCATAAGGACTTACCAAATGCATAAAGAAAAGA
* * * *
12609474 AGCCACCTGAGCGGAGTGCCCTAGGTCCATAAGTACTTACCTAATGCACAAAGAAAATG-
1 AGCCACCTGAGCGGAGTGCCCCAGGTCCATAAGGACTTACCAAATGCATAAAGAAAA-GA
** * * * * *
12609533 AGCCACCTGAAG-AAAGTTCCCCAAGCCCATAAGGACTTACCCAATGCACAAAGAAAA
1 AGCCACCTG-AGCGGAGTGCCCCAGGTCCATAAGGACTTACCAAATGCATAAAGAAAA
12609590 TGAGCCATCA
Statistics
Matches: 146, Mismatches: 25, Indels: 9
0.81 0.14 0.05
Matches are distributed among these distances:
58 3 0.02
59 124 0.85
60 16 0.11
61 3 0.02
ACGTcount: A:0.37, C:0.25, G:0.21, T:0.17
Consensus pattern (59 bp):
AGCCACCTGAGCGGAGTGCCCCAGGTCCATAAGGACTTACCAAATGCATAAAGAAAAGA
Found at i:12609590 original size:59 final size:59
Alignment explanation
Indices: 12609429--12609596 Score: 214
Period size: 59 Copynumber: 2.8 Consensus size: 59
12609419 AACCGAGGGG
* * **
12609429 AGTTCCCCAGGTCCACAAGGACTTACCTAATGCATAAAGAAAA-GAAGCCACCTGAGCGG
1 AGTTCCCCAGGTCCATAAGGACTTACCTAATGCACAAAGAAAATG-AGCCACCTGAGCAA
* * *
12609488 AGTGCCCTAGGTCCATAAGTACTTACCTAATGCACAAAGAAAATGAGCCACCTGAAG-AA
1 AGTTCCCCAGGTCCATAAGGACTTACCTAATGCACAAAGAAAATGAGCCACCTG-AGCAA
* * *
12609547 AGTTCCCCAAGCCCATAAGGACTTACCCAATGCACAAAGAAAATGAGCCA
1 AGTTCCCCAGGTCCATAAGGACTTACCTAATGCACAAAGAAAATGAGCCA
12609597 TCAAATGGGA
Statistics
Matches: 94, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
59 91 0.97
60 3 0.03
ACGTcount: A:0.38, C:0.27, G:0.19, T:0.16
Consensus pattern (59 bp):
AGTTCCCCAGGTCCATAAGGACTTACCTAATGCACAAAGAAAATGAGCCACCTGAGCAA
Found at i:12619252 original size:47 final size:47
Alignment explanation
Indices: 12619198--12619305 Score: 207
Period size: 47 Copynumber: 2.3 Consensus size: 47
12619188 CTCATTTTCC
12619198 ACTTTCACATTTTATATTCATTTTCATATTCCATGTTCATAATAAAT
1 ACTTTCACATTTTATATTCATTTTCATATTCCATGTTCATAATAAAT
*
12619245 ACTTTCACATTTTATATTCATTTTCATATTTCATGTTCATAATAAAT
1 ACTTTCACATTTTATATTCATTTTCATATTCCATGTTCATAATAAAT
12619292 ACTTTCACATTTTA
1 ACTTTCACATTTTA
12619306 GAATTTATTT
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 60 1.00
ACGTcount: A:0.31, C:0.17, G:0.02, T:0.50
Consensus pattern (47 bp):
ACTTTCACATTTTATATTCATTTTCATATTCCATGTTCATAATAAAT
Found at i:12619398 original size:19 final size:19
Alignment explanation
Indices: 12619331--12619402 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
12619321 TCAAAACTTC
* *
12619331 TTTCTAGATTTATAACTTAT
1 TTTC-AGATTCATAGCTTAT
* * *
12619351 TTTCAGACTAATAGCTTAC
1 TTTCAGATTCATAGCTTAT
*
12619370 TGTCAGATTCATAGCTTAT
1 TTTCAGATTCATAGCTTAT
*
12619389 TTTCAAATTCATAG
1 TTTCAGATTCATAG
12619403 TCCAATGCAT
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
19 38 0.90
20 4 0.10
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (19 bp):
TTTCAGATTCATAGCTTAT
Found at i:12619690 original size:17 final size:16
Alignment explanation
Indices: 12619663--12619697 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
12619653 TATATATTAT
12619663 TCAATTATCAAACATA
1 TCAATTATCAAACATA
*
12619679 TCAATATATCAACCATA
1 TCAAT-TATCAAACATA
12619696 TC
1 TC
12619698 CAACTCTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (16 bp):
TCAATTATCAAACATA
Found at i:12621692 original size:71 final size:71
Alignment explanation
Indices: 12621608--12621750 Score: 286
Period size: 71 Copynumber: 2.0 Consensus size: 71
12621598 TAATATTTTA
12621608 CCAAATGATAGAGAATTTCAAGGGGATTAATTATCTATCTAATAGCTTAATCCAAAAATCAATCG
1 CCAAATGATAGAGAATTTCAAGGGGATTAATTATCTATCTAATAGCTTAATCCAAAAATCAATCG
12621673 AATAAG
66 AATAAG
12621679 CCAAATGATAGAGAATTTCAAGGGGATTAATTATCTATCTAATAGCTTAATCCAAAAATCAATCG
1 CCAAATGATAGAGAATTTCAAGGGGATTAATTATCTATCTAATAGCTTAATCCAAAAATCAATCG
12621744 AATAAG
66 AATAAG
12621750 C
1 C
12621751 TTAAAAATTA
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 72 1.00
ACGTcount: A:0.43, C:0.15, G:0.14, T:0.28
Consensus pattern (71 bp):
CCAAATGATAGAGAATTTCAAGGGGATTAATTATCTATCTAATAGCTTAATCCAAAAATCAATCG
AATAAG
Found at i:12624502 original size:11 final size:11
Alignment explanation
Indices: 12624486--12624534 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
12624476 AACTACCTTT
12624486 ATTTTTATATA
1 ATTTTTATATA
12624497 ATTTTTATAATA
1 ATTTTTAT-ATA
* * *
12624509 ATTATTAAATT
1 ATTTTTATATA
12624520 ATTTTTAATATA
1 ATTTTT-ATATA
12624532 ATT
1 ATT
12624535 AGTAATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 15 0.50
12 15 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
ATTTTTATATA
Found at i:12624736 original size:21 final size:19
Alignment explanation
Indices: 12624678--12624745 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 19
12624668 AGTTTCGACA
* *
12624678 AAATTAATTTTTAAATTTT
1 AAATTTATTTTTAAATATT
*
12624697 AAATTTATTTTAAAAATATT
1 AAATTTATTTT-TAAATATT
12624717 AAATTTATTTTTATACATATT
1 AAATTTATTTTTA-A-ATATT
12624738 AAATTTAT
1 AAATTTAT
12624746 AATTATTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
19 11 0.26
20 18 0.43
21 13 0.31
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (19 bp):
AAATTTATTTTTAAATATT
Found at i:12624749 original size:28 final size:28
Alignment explanation
Indices: 12624721--12624773 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
12624711 AATATTAAAT
*
12624721 TTATTTTTATACATATT-AAATTTATAA
1 TTATTTTAATACATATTGAAATTTATAA
* *
12624748 TTATTTTAATATATTTTGAAATTTAT
1 TTATTTTAATACATATTGAAATTTAT
12624774 TTTTACAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 14 0.64
28 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (28 bp):
TTATTTTAATACATATTGAAATTTATAA
Found at i:12624751 original size:21 final size:20
Alignment explanation
Indices: 12624678--12624745 Score: 84
Period size: 21 Copynumber: 3.4 Consensus size: 20
12624668 AGTTTCGACA
* *
12624678 AAATTAATTTT-TAAATTTT
1 AAATTTATTTTATAAATATT
*
12624697 AAATTTATTTTAAAAATATT
1 AAATTTATTTTATAAATATT
*
12624717 AAATTTATTTTTATACATATT
1 AAATTTA-TTTTATAAATATT
12624738 AAATTTAT
1 AAATTTAT
12624746 AATTATTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
19 10 0.24
20 14 0.33
21 18 0.43
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (20 bp):
AAATTTATTTTATAAATATT
Found at i:12625156 original size:33 final size:33
Alignment explanation
Indices: 12625114--12625178 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
12625104 GCAAGTTGAA
* *
12625114 AATTTTCAACATTTTATTTCCAATAAGGTGATT
1 AATTTTCAACATTTTATATACAATAAGGTGATT
*
12625147 AATTTTCAACATTTTGTATACAATAAGGTGAT
1 AATTTTCAACATTTTATATACAATAAGGTGAT
12625179 GACACATGTC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.35, C:0.11, G:0.11, T:0.43
Consensus pattern (33 bp):
AATTTTCAACATTTTATATACAATAAGGTGATT
Found at i:12626331 original size:23 final size:23
Alignment explanation
Indices: 12626279--12626340 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
12626269 ATTTTCTCTA
** *
12626279 CTTTTATGATATATTTATCTCTG
1 CTTTTATGATACGTTTATCTATG
*
12626302 -TCATTATGATACGTTTATCTATG
1 CT-TTTATGATACGTTTATCTATG
*
12626325 CTTTTATGACACGTTT
1 CTTTTATGATACGTTT
12626341 TCATTCTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
22 1 0.03
23 29 0.94
24 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.11, T:0.52
Consensus pattern (23 bp):
CTTTTATGATACGTTTATCTATG
Found at i:12635473 original size:19 final size:19
Alignment explanation
Indices: 12635445--12635485 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
12635435 TGCAAAAATG
12635445 GTATCAATACCATAGTAGA
1 GTATCAATACCATAGTAGA
* *
12635464 GTATCGATACCATAGTATA
1 GTATCAATACCATAGTAGA
12635483 GTA
1 GTA
12635486 ATATCAATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (19 bp):
GTATCAATACCATAGTAGA
Found at i:12636208 original size:67 final size:67
Alignment explanation
Indices: 12636039--12636602 Score: 731
Period size: 67 Copynumber: 8.4 Consensus size: 67
12636029 TGGAAGAGTA
*
12636039 CATTGACAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGGC-AAAGTGCCTTTGAGGCCAAACT
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAA-TGCCTTTGAGGCCTAACT
*
12636102 ATG
65 GTG
* * * * *
12636105 CATTGA-AGAAACGTGTGAATTATGCTAGTTAGATGAAAAGCTAAATGCCTTTGAGGCCTGACTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAACTG
12636169 TG
66 TG
* *
12636171 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAAGCCTTTGAGGCCTAACTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAACTG
12636236 TG
66 TG
* * * * **
12636238 CATTGATAGAAAGGTGTCAATTATGGCAGTTAGATGAAAGGCTAAGTGCCTTCGAGTACTAACTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAACTG
12636303 TG
66 TG
* * * * * * * *
12636305 CATTGACAGTAATGTGTCAATTATTCCAGTTAGATAAAAGGTTAAGTACCATTGAGGCCTAACTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAACTG
*
12636370 TA
66 TG
* * * * *
12636372 CATTGACATAAAGGTTTCAATTATGCCAGCTAGATGAAAGGCTAAGTGCCTTCGAGGCCTAACTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAACTG
12636437 TG
66 TG
* * * * * *
12636439 CATTGACAGAAAGGTCTCAACTATGCCAGTTATATGAAAGGATAAGTGCCTTTGTGGCCTAACTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAACTG
12636504 TG
66 TG
* *
12636506 CATTGACATAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATGCCTTTGAGGCCTAACTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAACTG
12636571 TG
66 TG
* *
12636573 CATTGATCA-AAATGTGTCAATTATTCCAGT
1 CATTGA-CAGAAAGGTGTCAATTATGCCAGT
12636603 GAAATGAACG
Statistics
Matches: 430, Mismatches: 64, Indels: 7
0.86 0.13 0.01
Matches are distributed among these distances:
65 16 0.04
66 44 0.10
67 368 0.86
68 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (67 bp):
CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAACTG
TG
Found at i:12636289 original size:134 final size:134
Alignment explanation
Indices: 12636039--12636906 Score: 823
Period size: 134 Copynumber: 6.3 Consensus size: 134
12636029 TGGAAGAGTA
* * *
12636039 CATTGACAGAAAGGTGTCAATTATG-CAGTTAGATGAAAGG-CAAAGTGCCTTTGAGGCCAAACT
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAA-AGCCTTTGAGGCCTAACT
* * * * * *
12636102 ATGCATTGA-AGAAACGTGTGAATTATGCTAGTTAGATGAAAAGCTAAATGCCTTTGAGGCCTGA
65 GTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAA
12636166 CTGTG
130 CTGTG
12636171 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAAGCCTTTGAGGCCTAACTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAAGCCTTTGAGGCCTAACTG
* * * * **
12636236 TGCATTGATAGAAAGGTGTCAATTATGGCAGTTAGATGAAAGGCTAAGTGCCTTCGAGTACTAAC
66 TGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAAC
12636301 TGTG
131 TGTG
* * * * * *
12636305 CATTGACAGTAATGTGTCAATTATTCCAGTTAGATAAAAGGTTAAGTA-CCATTGAGGCCTAACT
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAA-AAGCCTTTGAGGCCTAACT
* * * * * *
12636369 GTACATTGACATAAAGGTTTCAATTATGCCAGCTAGATGAAAGGCTAAGTGCCTTCGAGGCCTAA
65 GTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAA
12636434 CTGTG
130 CTGTG
* * * * ** *
12636439 CATTGACAGAAAGGTCTCAACTATGCCAGTTATATGAAAGGATAAGTGCCTTTGTGGCCTAACTG
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAAGCCTTTGAGGCCTAACTG
* *
12636504 TGCATTGACATAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATGCCTTTGAGGCCTAAC
66 TGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAAC
12636569 TGTG
131 TGTG
* * * * * * *
12636573 CATTGATCA-AAATGTGTCAATTATTCCAGTGAAATGAACGGTTAAAGATCGTTGAGTAAAAGAT
1 CATTGA-CAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAA-AGCCTT---T----G--
* * * * * * *
12636637 AAATGGTCTAACTGTGCATTTGGA-AGAAAGTTGTCAATTACGCCAGTTAAATGAATGGTTAAAA
55 --A-GGCCTAACTGTGCA-TT-GACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAAT
* * *
12636701 ACCATTGAGTAAAAG-ATAAATGACATAGTTGTG
115 GCCTTTGAG-----GCCT--A--AC-----TGTG
* * **
12636734 CATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACT
1 CA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAAGCCTTTGAGGCCTAACT
* * * *
12636799 ATGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAGTGCCTTTGAGGCATAA
65 GTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAA
12636864 CTGTG
130 CTGTG
**
12636869 CATTGACAGAAAGGTGTCAATTATGAAAGTTAGATGAA
1 CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
12636907 CGTTTAAAGA
Statistics
Matches: 602, Mismatches: 95, Indels: 76
0.78 0.12 0.10
Matches are distributed among these distances:
132 25 0.04
133 39 0.06
134 353 0.59
135 12 0.02
138 1 0.00
140 2 0.00
142 2 0.00
143 1 0.00
144 2 0.00
147 15 0.02
148 84 0.14
149 14 0.02
150 1 0.00
152 1 0.00
153 1 0.00
154 2 0.00
156 2 0.00
158 1 0.00
161 11 0.02
162 33 0.05
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (134 bp):
CATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAAGCCTTTGAGGCCTAACTG
TGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAATGCCTTTGAGGCCTAAC
TGTG
Found at i:12636396 original size:201 final size:200
Alignment explanation
Indices: 12636039--12636906 Score: 767
Period size: 201 Copynumber: 4.2 Consensus size: 200
12636029 TGGAAGAGTA
* * *
12636039 CATTGACAGAAAGGTGTCAATTAT-GCAGTTAGATGAAAGGCAAAGTGCCTTTGAGGCCAAACTA
1 CATTGACAGAAAGGTGTCAATTATGGCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
* * * * *
12636103 TGCATTGA-AGAAACGTGTGAATTATGCTAGTTAGATGAAAA-GCTAAATGCCTTTGAGGCCTGA
66 TGCATTGACAGTAACGTGTCAATTATGCCAGTTAGAT-AAAAGGTTAAATGCCTTTGAGGCCTAA
*
12636166 CTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAAGCCTTTGAGGCCT
130 CTGTGCATTGACA-AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAAGCCTTCGAGGCCT
12636231 AACTGTG
194 AACTGTG
* * **
12636238 CATTGATAGAAAGGTGTCAATTATGGCAGTTAGATGAAAGGCTAAGTGCCTTCGAGTACTAACTG
1 CATTGACAGAAAGGTGTCAATTATGGCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
* * * * *
12636303 TGCATTGACAGTAATGTGTCAATTATTCCAGTTAGATAAAAGGTTAAGTACCATTGAGGCCTAAC
66 TGCATTGACAGTAACGTGTCAATTATGCCAGTTAGATAAAAGGTTAAATGCCTTTGAGGCCTAAC
* * * * **
12636368 TGTACATTGACATAAAGGTTTCAATTATGCCAGCTAGATGAAAGGCTAAGTGCCTTCGAGGCCTA
131 TGTGCATTGACA-AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAAGCCTTCGAGGCCTA
12636433 ACTGTG
195 ACTGTG
* * * * * *
12636439 CATTGACAGAAAGGTCTCAACTATGCCAGTTATATGAAAGGATAAGTGCCTTTGTGGCCTAACTG
1 CATTGACAGAAAGGTGTCAATTATGGCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
* *
12636504 TGCATTGACA-TAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATGCCTTTGAGGCCTAA
66 TGCATTGACAGT-AACGTGTCAATTATGCCAGTTAGATAAAAGGTTAAATGCCTTTGAGGCCTAA
* * * * * * *
12636568 CTGTGCATTGATCAAAATGTGTCAATTATTCCAGTGAAATGAACGGTTAAAGATCGTTGAGTAAA
130 CTGTGCATTGA-CAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAA-AGC-CT---T---
* *
12636633 AGATAAATGGTCTAACTGTG
186 CG----A-GGCCTAACTGTG
* * * * * * *** *
12636653 CATTTGGA-AGAAAGTTGTCAATTACGCCAGTTAAATGAATGGTTAAAAACCATTGAGTAAAAG-
1 CA-TT-GACAGAAAGGTGTCAATTATGGCAGTTAGATGAAAGGCTAAGTGCCTTTGAG-----GC
* * * * * * *
12636716 ATAAATGACATAGTTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAG
59 CT--A--AC-----TGTGCA-TTGACAGTAACGTGTCAATTATGCCAGTTAGATAAAAGGTTAAA
* * *
12636781 TGCCTTTGAGGCCTAACTATGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTA
114 TGCCTTTGAGGCCTAACTGTGCATTGACA-AAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTA
** * *
12636846 AGTGCCTTTGAGGCATAACTGTG
178 AAAGCCTTCGAGGCCTAACTGTG
**
12636869 CATTGACAGAAAGGTGTCAATTATGAAAGTTAGATGAA
1 CATTGACAGAAAGGTGTCAATTATGGCAGTTAGATGAA
12636907 CGTTTAAAGA
Statistics
Matches: 538, Mismatches: 93, Indels: 60
0.78 0.13 0.09
Matches are distributed among these distances:
199 23 0.04
200 47 0.09
201 253 0.47
202 3 0.01
203 1 0.00
206 1 0.00
209 1 0.00
213 1 0.00
214 15 0.03
215 67 0.12
216 14 0.03
217 1 0.00
219 1 0.00
220 1 0.00
221 2 0.00
223 2 0.00
224 1 0.00
227 1 0.00
228 9 0.02
229 94 0.17
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (200 bp):
CATTGACAGAAAGGTGTCAATTATGGCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTG
TGCATTGACAGTAACGTGTCAATTATGCCAGTTAGATAAAAGGTTAAATGCCTTTGAGGCCTAAC
TGTGCATTGACAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAAAGCCTTCGAGGCCTAA
CTGTG
Found at i:12636698 original size:81 final size:81
Alignment explanation
Indices: 12636586--12636772 Score: 241
Period size: 81 Copynumber: 2.3 Consensus size: 81
12636576 TGATCAAAAT
* * * * * *
12636586 GTGTCAATTATTCCAGTGAAATGAACGGTTAAAGATCGTTGAGTAAAAGATAAATGGTC-TAACT
1 GTGTCAATTATGCCAGTTAAATGAACGGTTAAAAACCATTGAGTAAAAGATAAAT-GACATAACT
12636650 GTGCATTTGGAAGAAAG
65 GTGCATTTGGAAGAAAG
* * * **
12636667 TTGTCAATTACGCCAGTTAAATGAATGGTTAAAAACCATTGAGTAAAAGATAAATGACATAGTTG
1 GTGTCAATTATGCCAGTTAAATGAACGGTTAAAAACCATTGAGTAAAAGATAAATGACATAACTG
*
12636732 TGCATTTGGCAGAAAG
66 TGCATTTGGAAGAAAG
*
12636748 GTGTCAATTATGCCAGTTAGATGAA
1 GTGTCAATTATGCCAGTTAAATGAA
12636773 AGGCTAAGTG
Statistics
Matches: 90, Mismatches: 15, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
80 2 0.02
81 88 0.98
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (81 bp):
GTGTCAATTATGCCAGTTAAATGAACGGTTAAAAACCATTGAGTAAAAGATAAATGACATAACTG
TGCATTTGGAAGAAAG
Found at i:12636849 original size:67 final size:67
Alignment explanation
Indices: 12636732--12636906 Score: 280
Period size: 67 Copynumber: 2.6 Consensus size: 67
12636722 GACATAGTTG
* * *
12636732 TGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
1 TGCA-TTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAGTGCCTTTGAGGCATAA
12636797 CTA
65 CTA
12636800 TGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAGTGCCTTTGAGGCATAAC
1 TGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAGTGCCTTTGAGGCATAAC
*
12636865 TG
66 TA
*
12636867 TGCATTGACAGAAAGGTGTCAATTATG-AAAGTTAGATGAA
1 TGCATTGACAGAAAGGTGTCAATTATGCCAA-TTAGATGAA
12636907 CGTTTAAAGA
Statistics
Matches: 101, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
66 2 0.02
67 95 0.94
68 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (67 bp):
TGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAGTGCCTTTGAGGCATAAC
TA
Found at i:12636980 original size:296 final size:296
Alignment explanation
Indices: 12636434--12637068 Score: 923
Period size: 296 Copynumber: 2.1 Consensus size: 296
12636424 CGAGGCCTAA
* * * * *
12636434 CTGTGCA-TTGACAGAAAGGTCTCAACTATGCCAGTTATATGAAAGGATAAGTGCCTTTGTGGCC
1 CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGATAAGTGCCTTTGAGGCC
* * * *
12636498 TAACTGTGCATTGACATAAAGGTGTCAATTATGCCAGTTAGATGAAAGGTTAAATGCCTTTGAGG
66 TAACTATGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAATGCCTTTGAGG
* * *** * *
12636563 CCTAACTGTGCATTGATCAAAATGTGTCAATTATTCCAGTGAAATGAACGGTTAAAGATCGTTGA
131 CATAACTGTGCATTGATCAAAAGGTGTCAATTATGAAAGTGAAATGAACGGTTAAAGACCGTTCA
*
12636628 GTAAAAGATAAATGGTCTAACTGTGCATTTGGAAGAAAGTTGTCAATTACGCCAGTTAAATGAAT
196 GTAAAAGATAAATGGTCTAACTGTGCATTTGGAAGAAAGTTGTCAATTACGCCAGTTAAATGAAC
*
12636693 GGTTAAAAACCATTGAGTAAAAGATAAATGACATAG
261 GGTTAAAAACCATTGAATAAAAGATAAATGACATAG
* *
12636729 TTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCC
1 CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGATAAGTGCCTTTGAGGCC
*
12636794 TAACTATGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAGTGCCTTTGAGG
66 TAACTATGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAATGCCTTTGAGG
* * *
12636859 CATAACTGTGCATTGA-CAGAAAGGTGTCAATTATGAAAGTTAGATGAACGTTTAAAGACCGTTC
131 CATAACTGTGCATTGATCA-AAAGGTGTCAATTATGAAAGTGAAATGAACGGTTAAAGACCGTTC
* * *
12636923 AGTAAAAGATAAATGGTCTAACTGTGCATTTGGAATAAATTTGTCAATTATGCCAGTTAAATGAA
195 AGTAAAAGATAAATGGTCTAACTGTGCATTTGGAAGAAAGTTGTCAATTACGCCAGTTAAATGAA
* * * *
12636988 CGGTTAAAGACCGTTGAATAAAAGATAAATGGCCTAG
260 CGGTTAAAAACCATTGAATAAAAGATAAATGACATAG
* * * * *
12637025 CTATGAATATGGCAGAAATGTGTCAATTATGTCAGTTAGATGAA
1 CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAA
12637069 TGGTTAAAGA
Statistics
Matches: 301, Mismatches: 37, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
295 8 0.03
296 293 0.97
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (296 bp):
CTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGATAAGTGCCTTTGAGGCC
TAACTATGCATTGACAGAAAGGTGTCAATTATGCCAATTAGATGAAAGGCTAAATGCCTTTGAGG
CATAACTGTGCATTGATCAAAAGGTGTCAATTATGAAAGTGAAATGAACGGTTAAAGACCGTTCA
GTAAAAGATAAATGGTCTAACTGTGCATTTGGAAGAAAGTTGTCAATTACGCCAGTTAAATGAAC
GGTTAAAAACCATTGAATAAAAGATAAATGACATAG
Found at i:12636995 original size:81 final size:81
Alignment explanation
Indices: 12636861--12637204 Score: 447
Period size: 81 Copynumber: 4.3 Consensus size: 81
12636851 CTTTGAGGCA
* * * * *
12636861 TAACTGTGCA-TTGACAGAAAGGTGTCAATTATGAAAGTTAGATGAACGTTTAAAGACCGTTCAG
1 TAACTGTGCATTTGGCAGAAATGTGTCAATTATGTAAGTTAGATGAACGGTTAAAGACCGTTGAG
*
12636925 TAAAAGATAAATGGTC
66 TAAAAGATAAATGGCC
* * * ** * *
12636941 TAACTGTGCATTTGGAATAAATTTGTCAATTATGCCAGTTAAATGAACGGTTAAAGACCGTTGAA
1 TAACTGTGCATTTGGCAGAAATGTGTCAATTATGTAAGTTAGATGAACGGTTAAAGACCGTTGAG
12637006 TAAAAGATAAATGGCC
66 TAAAAGATAAATGGCC
* * * * * *
12637022 TAGCTATGAATATGGCAGAAATGTGTCAATTATGTCAGTTAGATGAATGGTTAAAGACCGTTGAG
1 TAACTGTGCATTTGGCAGAAATGTGTCAATTATGTAAGTTAGATGAACGGTTAAAGACCGTTGAG
*
12637087 TAAAAGGTAAATGGCC
66 TAAAAGATAAATGGCC
* ** * *
12637103 TAACTGTGCATTTGGCAGAAAAGTGTCAAACATGTAAGTTAGATGAATGGTTAAAGATCGTTGAG
1 TAACTGTGCATTTGGCAGAAATGTGTCAATTATGTAAGTTAGATGAACGGTTAAAGACCGTTGAG
12637168 TAAAAGATAAATGGCC
66 TAAAAGATAAATGGCC
*
12637184 TAACTTTGCATTTGGCAGAAA
1 TAACTGTGCATTTGGCAGAAA
12637205 AGTCACGATC
Statistics
Matches: 228, Mismatches: 35, Indels: 1
0.86 0.13 0.00
Matches are distributed among these distances:
80 10 0.04
81 218 0.96
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (81 bp):
TAACTGTGCATTTGGCAGAAATGTGTCAATTATGTAAGTTAGATGAACGGTTAAAGACCGTTGAG
TAAAAGATAAATGGCC
Found at i:12637205 original size:81 final size:81
Alignment explanation
Indices: 12636861--12637260 Score: 444
Period size: 81 Copynumber: 4.9 Consensus size: 81
12636851 CTTTGAGGCA
* * * * *
12636861 TAACTGTGCA-TTGACAGAAAGGTGTCAATTATGAAAGTTAGATGAACGTTTAAAGACCGTTCAG
1 TAACTGTGCATTTGGCAGAAAAGTGTCAATTATGTAAGTTAGATGAACGGTTAAAGACCGTTGAG
*
12636925 TAAAAGATAAATGGTC
66 TAAAAGATAAATGGCC
* * ** ** * *
12636941 TAACTGTGCATTTGGAATAAATTTGTCAATTATGCCAGTTAAATGAACGGTTAAAGACCGTTGAA
1 TAACTGTGCATTTGGCAGAAAAGTGTCAATTATGTAAGTTAGATGAACGGTTAAAGACCGTTGAG
12637006 TAAAAGATAAATGGCC
66 TAAAAGATAAATGGCC
* * * * * * *
12637022 TAGCTATGAATATGGCAGAAATGTGTCAATTATGTCAGTTAGATGAATGGTTAAAGACCGTTGAG
1 TAACTGTGCATTTGGCAGAAAAGTGTCAATTATGTAAGTTAGATGAACGGTTAAAGACCGTTGAG
*
12637087 TAAAAGGTAAATGGCC
66 TAAAAGATAAATGGCC
** * *
12637103 TAACTGTGCATTTGGCAGAAAAGTGTCAAACATGTAAGTTAGATGAATGGTTAAAGATCGTTGAG
1 TAACTGTGCATTTGGCAGAAAAGTGTCAATTATGTAAGTTAGATGAACGGTTAAAGACCGTTGAG
12637168 TAAAAGATAAATGGCC
66 TAAAAGATAAATGGCC
* ** * * * * * * *
12637184 TAACTTTGCATTTGGCAGAAAAGTCACGATCATGCAAGTTAGTTGAAAGGTTAAATG-CCTTTGG
1 TAACTGTGCATTTGGCAGAAAAGTGTCAATTATGTAAGTTAGATGAACGGTTAAA-GACCGTTGA
12637248 GTAAAAGACTAAA
65 GTAAAAGA-TAAA
12637261 GGAATTATAA
Statistics
Matches: 272, Mismatches: 45, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
80 10 0.04
81 257 0.94
82 5 0.02
ACGTcount: A:0.38, C:0.11, G:0.23, T:0.28
Consensus pattern (81 bp):
TAACTGTGCATTTGGCAGAAAAGTGTCAATTATGTAAGTTAGATGAACGGTTAAAGACCGTTGAG
TAAAAGATAAATGGCC
Found at i:12637351 original size:49 final size:46
Alignment explanation
Indices: 12637290--12637419 Score: 152
Period size: 46 Copynumber: 2.7 Consensus size: 46
12637280 ATATAAACGG
* * *
12637290 TGCATAAGTGGTATGAAAGGATGTCATATAGATATAAAATGTACAACAA
1 TGCATAATTGGTATGAAAGGATGTCATAAAGA-A-AAAACGTA-AACAA
*
12637339 TGCATAATTGGTATGAATGGATGTCATAAAGAAAAAACGTAAACAA
1 TGCATAATTGGTATGAAAGGATGTCATAAAGAAAAAACGTAAACAA
* * * *
12637385 TACATAATGGGTATGAAAAGATGCCATAAATGAAA
1 TGCATAATTGGTATGAAAGGATGTCATAAA-GAAA
12637420 TGTATAAAAG
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
46 30 0.42
47 11 0.15
48 1 0.01
49 29 0.41
ACGTcount: A:0.47, C:0.08, G:0.20, T:0.25
Consensus pattern (46 bp):
TGCATAATTGGTATGAAAGGATGTCATAAAGAAAAAACGTAAACAA
Found at i:12639163 original size:2 final size:2
Alignment explanation
Indices: 12639158--12639194 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
12639148 TGTCAGAAAG
12639158 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12639195 ACTTTTATGG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:12642129 original size:67 final size:66
Alignment explanation
Indices: 12642016--12642259 Score: 319
Period size: 67 Copynumber: 3.6 Consensus size: 66
12642006 AAGGCTTTAT
* *
12642016 TGTGCATTGACAAAAAAATGTGTCAATTATGCCAGTTAGATTAAAGGCTAAGTGCCTTTGAGGCC
1 TGTGCATTGAC---AAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCC
12642081 TAAC
63 TAAC
* * *
12642085 TGTGCATTCACATAAAGGTGTCAATTATGCCAGCTATATGAAAGGCTAAGTGCCTTTGAGGCCTA
1 TGTGCATTGACA-AAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
12642150 AC
65 AC
* * * *
12642152 TGTGCATTGACGAAAATGTGTCAATTAT-ACAGTTAGTTGAAAGGATAAGTGCCTTTGAGGCCTA
1 TGTGCATTGAC-AAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTA
*
12642216 AT
65 AC
* *
12642218 TGTGCATTGAGAGAAAGATGTCAATTATGCCAGTTAGATGAA
1 TGTGCATTGACA-AAAGGTGTCAATTATGCCAGTTAGATGAA
12642260 CGGTTAAAGA
Statistics
Matches: 153, Mismatches: 18, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
65 1 0.01
66 56 0.37
67 85 0.56
68 1 0.01
69 10 0.07
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (66 bp):
TGTGCATTGACAAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAA
C
Found at i:12642213 original size:133 final size:135
Alignment explanation
Indices: 12642016--12642259 Score: 359
Period size: 133 Copynumber: 1.8 Consensus size: 135
12642006 AAGGCTTTAT
* *
12642016 TGTGCATTGACAAAAAAATGTGTCAATTATGCCAGTTAGATTAAAGGCTAAGTGCCTTTGAGGCC
1 TGTGCATTGAC-AAAAAATGTGTCAATTATGACAGTTAGATTAAAGGATAAGTGCCTTTGAGGCC
* * *
12642081 TAACTGTGCATTCACATAAAGGTGTCAATTATGCCAGCTATATGAAAGGCTAAGTGCCTTTGAGG
65 TAACTGTGCATTCACAGAAAGATGTCAATTATGCCAGCTAGATGAAAGGCTAAGTGCCTTTGAGG
12642146 CCTAAC
130 CCTAAC
*
12642152 TGTGCATTGAC-GAAAATGTGTCAATTAT-ACAGTTAG-TTGAAAGGATAAGTGCCTTTGAGGCC
1 TGTGCATTGACAAAAAATGTGTCAATTATGACAGTTAGATT-AAAGGATAAGTGCCTTTGAGGCC
* * * *
12642214 TAATTGTGCATTGAGAGAAAGATGTCAATTATGCCAGTTAGATGAA
65 TAACTGTGCATTCACAGAAAGATGTCAATTATGCCAGCTAGATGAA
12642260 CGGTTAAAGA
Statistics
Matches: 97, Mismatches: 10, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
132 2 0.02
133 68 0.70
134 16 0.16
136 11 0.11
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (135 bp):
TGTGCATTGACAAAAAATGTGTCAATTATGACAGTTAGATTAAAGGATAAGTGCCTTTGAGGCCT
AACTGTGCATTCACAGAAAGATGTCAATTATGCCAGCTAGATGAAAGGCTAAGTGCCTTTGAGGC
CTAAC
Found at i:12642326 original size:81 final size:80
Alignment explanation
Indices: 12642210--12642496 Score: 364
Period size: 80 Copynumber: 3.6 Consensus size: 80
12642200 GTGCCTTTGA
* * *
12642210 GGCCTAATTGTGCATTGAGAGAAAGATGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTT
1 GGCCTAACTGTGCATTGAGAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAAACCGTT
12642275 GAGTAAAAGATAAAT
66 GAGTAAAAGATAAAT
* *
12642290 GGCCTAACTGTGCATTTG-GAAGAAATGTGTCAATTATG-CAGTTATATGAACGGTTAAAAACCG
1 GGCCTAACTGTGCA-TTGAG-AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAAACCG
12642353 TTGAGTAAAAGATAAAT
64 TTGAGTAAAAGATAAAT
** * * * * * *
12642370 TACCTAGCTGTGCATTTG-GCATAAAGGTGTCAATCATGCAAGTTAGATTAACGGTTAAACACCG
1 GGCCTAACTGTGCA-TTGAG-AGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAAACCG
12642434 TTGAGTAAAAGATAAAT
64 TTGAGTAAAAGATAAAT
* * * *
12642451 GGCCTAACTGTGCATTGATATAAAGGTTTCAATTATTCCAGTTAGA
1 GGCCTAACTGTGCATTGAGAGAAAGGTGTCAATTATGCCAGTTAGA
12642497 CAAAAGGCTA
Statistics
Matches: 179, Mismatches: 24, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
80 111 0.62
81 68 0.38
ACGTcount: A:0.36, C:0.13, G:0.22, T:0.29
Consensus pattern (80 bp):
GGCCTAACTGTGCATTGAGAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAAACCGTT
GAGTAAAAGATAAAT
Found at i:12642698 original size:67 final size:67
Alignment explanation
Indices: 12642451--12642701 Score: 396
Period size: 67 Copynumber: 3.7 Consensus size: 67
12642441 AAAGATAAAT
* * * * **
12642451 GGCCTAACTGTGCATTGATATAAAGGTTTCAATTATTCCAGTTAGACAAAAGGCTAAGTG-CTAT
1 GGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCT-T
*
12642515 TGA
65 TAA
* *
12642518 GGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAAGCTAAGTGCTTTT
1 GGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
12642583 AA
66 AA
*
12642585 GGCCTAATTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
12642650 AA
66 AA
12642652 GGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 GGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
12642702 CGGTTAAAGA
Statistics
Matches: 170, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
67 169 0.99
68 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (67 bp):
GGCCTAACTGTGCATTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
AA
Found at i:12642810 original size:81 final size:81
Alignment explanation
Indices: 12642652--12643033 Score: 471
Period size: 81 Copynumber: 4.7 Consensus size: 81
12642642 GTGCCTTTAA
* * *
12642652 GGCCTAACTGTGCA-TTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATCGT
1 GGCCTAACTGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATCAT
*
12642716 TGAGTAAATGATAAAT
66 TGAGTAAAAGATAAAT
* * * * * * *
12642732 GGTCTAACTGTGTATTTGGTAGAAAGGTGGCAATTATGCCAGTTATATGAATGGTTAAAGATCAT
1 GGCCTAACTGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATCAT
*
12642797 TGAGCAAAAGATAAAT
66 TGAGTAAAAGATAAAT
** * *
12642813 GGCCTAGTTGTGCATTTGGCAGAAAAGTGTCAATTATGTCAGTTAGATGAACGGTTAAAGACCAT
1 GGCCTAACTGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATCAT
12642878 TGAGTAAAAGATAAAT
66 TGAGTAAAAGATAAAT
* * * * * * **
12642894 GGCCTAAATGTGAATTTGGTAGAAAATTTTCAATCATGTAAGTTAGATGAACGGTTAAAGA-CTA
1 GGCCTAACTGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATC-A
12642958 TTGAGTAAAAGATAAAT
65 TTGAGTAAAAGATAAAT
* * * * * *
12642975 GGCCTAACTTTACATTTGGCATAAAAGTGTCAATCATGCAAGTTAGATGAAAGGTTAAA
1 GGCCTAACTGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAA
12643034 TGCCTTTGGG
Statistics
Matches: 260, Mismatches: 40, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
80 13 0.05
81 247 0.95
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.29
Consensus pattern (81 bp):
GGCCTAACTGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGATCAT
TGAGTAAAAGATAAAT
Found at i:12643303 original size:44 final size:46
Alignment explanation
Indices: 12643235--12643352 Score: 118
Period size: 46 Copynumber: 2.6 Consensus size: 46
12643225 TGTATAAAAG
* * * *
12643235 GCATGAAAGGATACCATCAATG-AAATACATATTGGTGCATT-TTA
1 GCATGAAAGAATGCCATCAATGAAAATACATAATGGTGCATTATAA
*
12643279 GCATGAAAGAATGCCAT-AACTGAAAATGCATAATGGTGCATTATAA
1 GCATGAAAGAATGCCATCAA-TGAAAATACATAATGGTGCATTATAA
* * *
12643325 GTATGAATGAATGCTC-TCAATAAAAATA
1 GCATGAAAGAATGC-CATCAATGAAAATA
12643353 AGGAATAATA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
43 2 0.03
44 17 0.28
45 17 0.28
46 21 0.35
47 3 0.05
ACGTcount: A:0.42, C:0.13, G:0.18, T:0.27
Consensus pattern (46 bp):
GCATGAAAGAATGCCATCAATGAAAATACATAATGGTGCATTATAA
Found at i:12647628 original size:30 final size:30
Alignment explanation
Indices: 12647592--12647723 Score: 156
Period size: 30 Copynumber: 4.4 Consensus size: 30
12647582 TGGGTATATA
* * *
12647592 ATCCCATGCAGATGTCAGAACAAAAAAATT
1 ATCCCATGCAGATGTCAGAACAGAGAATTT
* * ** * *
12647622 ATCCCATTCAGATGTAAGAATGGTGAGTTT
1 ATCCCATGCAGATGTCAGAACAGAGAATTT
* *
12647652 ATCCCATGCAGATGTCAGAACGGGGAATTT
1 ATCCCATGCAGATGTCAGAACAGAGAATTT
*
12647682 ATCCCATGCAGATGTCAGAACAGAGAGTTT
1 ATCCCATGCAGATGTCAGAACAGAGAATTT
12647712 ATCCCATGCAGA
1 ATCCCATGCAGA
12647724 ATCAGGACGG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 85 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (30 bp):
ATCCCATGCAGATGTCAGAACAGAGAATTT
Found at i:12647659 original size:60 final size:60
Alignment explanation
Indices: 12647592--12647723 Score: 174
Period size: 60 Copynumber: 2.2 Consensus size: 60
12647582 TGGGTATATA
* ** *
12647592 ATCCCATGCAGATGTCAGAACAAAAAAATTATCCCATTCAGATGTAAGAATGGTGAGTTT
1 ATCCCATGCAGATGTCAGAACAAAAAAATTATCCCATGCAGATGTAAGAACAGAGAGTTT
**** * *
12647652 ATCCCATGCAGATGTCAGAACGGGGAATTTATCCCATGCAGATGTCAGAACAGAGAGTTT
1 ATCCCATGCAGATGTCAGAACAAAAAAATTATCCCATGCAGATGTAAGAACAGAGAGTTT
12647712 ATCCCATGCAGA
1 ATCCCATGCAGA
12647724 ATCAGGACGG
Statistics
Matches: 62, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (60 bp):
ATCCCATGCAGATGTCAGAACAAAAAAATTATCCCATGCAGATGTAAGAACAGAGAGTTT
Found at i:12649827 original size:15 final size:15
Alignment explanation
Indices: 12649807--12649851 Score: 74
Period size: 15 Copynumber: 3.1 Consensus size: 15
12649797 TTTGGGTTGT
12649807 AAATTAATAATAATA
1 AAATTAATAATAATA
*
12649822 AAATTAATATTAATA
1 AAATTAATAATAATA
12649837 AAATTAA-AATAATA
1 AAATTAATAATAATA
12649851 A
1 A
12649852 TAATATAGAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 7 0.25
15 21 0.75
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTAATAATAATA
Found at i:12650421 original size:44 final size:44
Alignment explanation
Indices: 12650342--12650440 Score: 117
Period size: 44 Copynumber: 2.2 Consensus size: 44
12650332 AAAATGTCGG
* ** * * *
12650342 TCCACCTCCTTCTATGATGGAATCGAATGAGAAGTTGGTGCTGA
1 TCCACCTCCTTCTATGATAGAATCGAACAAAAAGTTGATACTGA
* *
12650386 TCTACCTCCTTCTATGATAGAATCGAGCAAAAAGTTGATACTGA
1 TCCACCTCCTTCTATGATAGAATCGAACAAAAAGTTGATACTGA
*
12650430 TCCAACTCCTT
1 TCCACCTCCTT
12650441 ATGCGCTGAA
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
TCCACCTCCTTCTATGATAGAATCGAACAAAAAGTTGATACTGA
Found at i:12650427 original size:121 final size:121
Alignment explanation
Indices: 12650208--12650785 Score: 852
Period size: 121 Copynumber: 4.8 Consensus size: 121
12650198 TTTGAGTGAA
** * *
12650208 ATGAAAATGTCGATCCACCTTATTCTGTAATGGAATCGAATGAGATGTTGGTGTTGATCTACCTC
1 ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTC
* * * * *
12650273 CTTATGTGATAGAATCGATCAAAAAGTTAATACTGATCCAACTTCTTATGCGTTGG
66 CTTCTGTGATAGAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGG
* * * * *
12650329 ATGAAAATGTCGGTCCACCTCCTTCTATGATGGAATCGAATGAGAAGTTGGTGCTGATCTACCTC
1 ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTC
* *
12650394 CTTCTATGATAGAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGA
66 CTTCTGTGATAGAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGG
* * ** *
12650450 ATGAAAATGTCGATCCACCTCATTCTGTGATGGAATCTAACGAGATGTTATTGTTGATCTACATC
1 ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTC
* * * *
12650515 CATCTGTGATAGAATCGAG-AAAAAGTTGATACTGATCCAAATCCCTATGCACTGG
66 CTTCTGTGATAGAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGG
* *
12650570 ATGAAAATGTCGTTCCACCTCCTTCTGTGATGGAGTCGAACGAGATGTTGGTGTTGATCTACCTC
1 ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTC
* *
12650635 CTTTTGTGATAGAATCGAGCAAAAAGTTGATACTGATTCAACTCCTTATGCGCTGG
66 CTTCTGTGATAGAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGG
* *
12650691 ATGAAAATGTTGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGCTGATCTACCTC
1 ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTC
* *
12650756 CTTTTGTGATATAATCGAGCAAAAAGTTGA
66 CTTCTGTGATAGAATCGAGCAAAAAGTTGA
12650786 ATAAGTTCTT
Statistics
Matches: 408, Mismatches: 48, Indels: 2
0.89 0.10 0.00
Matches are distributed among these distances:
120 107 0.26
121 301 0.74
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (121 bp):
ATGAAAATGTCGATCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTC
CTTCTGTGATAGAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGG
Found at i:12650631 original size:241 final size:241
Alignment explanation
Indices: 12650080--12650785 Score: 926
Period size: 241 Copynumber: 2.9 Consensus size: 241
12650070 CTTCCATTTG
* * * * *
12650080 AAATGTTGATCCACCTTCTTCTGTGATGGAACCGAATGAGATGTCGGTGTTGATCTACCTCATTC
1 AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAATGAGATGTTGGTGTTGATCTACCTCCTTC
* * * *
12650145 TTTGATAGAATCGAGCAAAAAGTTGATTCTGATCCAACTCCTTATGTGTTGGGTTTGAGTGAAAT
66 TATGATAGAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTA-----T--G--CG-CTG-AAT
* * *
12650210 GAAAATGTCGATCCACCTTATTCTGTAATGGAATCGAATGAGATGTTGGTGTTGATCTACCTCCT
120 GAAAATGTCGATCCACCTCATTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTCCT
* * * * * **
12650275 TATGTGATAGAATCGATCAAAAAGTTAATACTGATCCAACTTCTTATGCGTTGGATGA
185 TATGTGATAGAATCGA-GAAAAAGTTGATACTGATCCAAATCCCTATGCACTGGATGA
* * * *
12650333 AAATGTCGGTCCACCTCCTTCTATGATGGAATCGAATGAGAAGTTGGTGCTGATCTACCTCCTTC
1 AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAATGAGATGTTGGTGTTGATCTACCTCCTTC
12650398 TATGATAGAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGAATGAAAATGTCGA
66 TATGATAGAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGAATGAAAATGTCGA
* ** * * *
12650463 TCCACCTCATTCTGTGATGGAATCTAACGAGATGTTATTGTTGATCTACATCCATCTGTGATAGA
131 TCCACCTCATTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTCCTTATGTGATAGA
12650528 ATCGAGAAAAAGTTGATACTGATCCAAATCCCTATGCACTGGATGA
196 ATCGAGAAAAAGTTGATACTGATCCAAATCCCTATGCACTGGATGA
* * * *
12650574 AAATGTCGTTCCACCTCCTTCTGTGATGGAGTCGAACGAGATGTTGGTGTTGATCTACCTCCTTT
1 AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAATGAGATGTTGGTGTTGATCTACCTCCTTC
* * * *
12650639 TGTGATAGAATCGAGCAAAAAGTTGATACTGATTCAACTCCTTATGCGCTGGATGAAAATGTTGA
66 TATGATAGAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGAATGAAAATGTCGA
* * * *
12650704 TCCACCTCCTTCTGTGATGGAATCGAACGAGATGTTGGTGCTGATCTACCTCCTTTTGTGATATA
131 TCCACCTCATTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTCCTTATGTGATAGA
12650769 ATCGAGCAAAAAGTTGA
196 ATCGAG-AAAAAGTTGA
12650786 ATAAGTTCTT
Statistics
Matches: 403, Mismatches: 49, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
241 215 0.53
242 85 0.21
243 2 0.00
244 1 0.00
246 1 0.00
248 1 0.00
253 98 0.24
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (241 bp):
AAATGTCGATCCACCTCCTTCTGTGATGGAATCGAATGAGATGTTGGTGTTGATCTACCTCCTTC
TATGATAGAATCGAGCAAAAAGTTGATACTGATCCAACTCCTTATGCGCTGAATGAAAATGTCGA
TCCACCTCATTCTGTGATGGAATCGAACGAGATGTTGGTGTTGATCTACCTCCTTATGTGATAGA
ATCGAGAAAAAGTTGATACTGATCCAAATCCCTATGCACTGGATGA
Found at i:12651935 original size:2 final size:2
Alignment explanation
Indices: 12651928--12651957 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
12651918 TAAAACTCTA
12651928 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
12651958 CGAATAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12653260 original size:12 final size:12
Alignment explanation
Indices: 12653245--12653303 Score: 66
Period size: 12 Copynumber: 4.7 Consensus size: 12
12653235 TATATATAGG
12653245 TTTATTTTATTT
1 TTTATTTTATTT
12653257 TTTATTTTATGTT
1 TTTATTTTAT-TT
*
12653270 TTTTTTCTTATTT
1 TTTATT-TTATTT
12653283 ATTTA-TTTATTGT
1 -TTTATTTTATT-T
12653296 TTTATTTT
1 TTTATTTT
12653304 TTAATTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
12 19 0.47
13 14 0.35
14 7 0.17
ACGTcount: A:0.15, C:0.02, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTATTTTATTT
Found at i:12653270 original size:23 final size:22
Alignment explanation
Indices: 12653244--12653318 Score: 69
Period size: 23 Copynumber: 3.3 Consensus size: 22
12653234 TTATATATAG
12653244 GTTTATTTTATTTTTTATTTTAT
1 GTTTATTTTATTTTTTA-TTTAT
* * *
12653267 GTTTTTTTTCTTATTTATTTAT
1 GTTTATTTTATTTTTTATTTAT
* * * *
12653289 TTATTGTTTTATTTTTTAATTAA
1 GT-TTATTTTATTTTTTATTTAT
12653312 GTTTATT
1 GTTTATT
12653319 AAAATGTTTC
Statistics
Matches: 40, Mismatches: 11, Indels: 3
0.74 0.20 0.06
Matches are distributed among these distances:
22 10 0.25
23 30 0.75
ACGTcount: A:0.19, C:0.01, G:0.05, T:0.75
Consensus pattern (22 bp):
GTTTATTTTATTTTTTATTTAT
Found at i:12653280 original size:19 final size:17
Alignment explanation
Indices: 12653245--12653303 Score: 59
Period size: 18 Copynumber: 3.5 Consensus size: 17
12653235 TATATATAGG
12653245 TTTATTTTATTTTTTAT
1 TTTATTTTATTTTTTAT
*
12653262 TTTATGTTTTTTTTCTTA-
1 TTTAT-TTTATTTT-TTAT
* *
12653280 TTTA-TTTATTTATTGT
1 TTTATTTTATTTTTTAT
12653296 TTTATTTT
1 TTTATTTT
12653304 TTAATTAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 2 0.06
16 10 0.29
17 8 0.24
18 11 0.32
19 3 0.09
ACGTcount: A:0.15, C:0.02, G:0.03, T:0.80
Consensus pattern (17 bp):
TTTATTTTATTTTTTAT
Found at i:12660315 original size:51 final size:51
Alignment explanation
Indices: 12660241--12660501 Score: 290
Period size: 51 Copynumber: 5.1 Consensus size: 51
12660231 AAATCTTCAG
* *
12660241 CAAACGAGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAAAATCTT
* ** * * * *
12660292 CGATTGAGTTCGTTCCCTT-TTTCTTTAGGGAGTATAGAACTCAAAAATCTTCTT
1 CAAACGGGTTCGCT-CCTTCTTTCTTTAAGGAGTATAGAACTCGAAAA---TCTT
** * * *
12660346 CTTACGGGTTCGCTCATTCTCTCTTTAAAGAGTATAGAACTCGAAAATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAAAATCTT
** * *
12660397 CAAACGGGTTCGCTCCTTCTCACTTTAAAGAGTATAGAACTCGAACATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAAAATCTT
* * *
12660448 CAAACGGGTTCGCTCCTTCTTTCATTAAGGAGAATAGAACTCGAATATCTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAAAATCTT
12660499 CAA
1 CAA
12660502 CAATCGTGTC
Statistics
Matches: 176, Mismatches: 29, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
51 133 0.76
52 4 0.02
53 3 0.02
54 36 0.20
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (51 bp):
CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAAAATCTT
Found at i:12660423 original size:105 final size:102
Alignment explanation
Indices: 12660241--12660501 Score: 290
Period size: 105 Copynumber: 2.5 Consensus size: 102
12660231 AAATCTTCAG
* * * ** *
12660241 CAAACGAGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCGATTGAGTTCGTT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAAAATCTTCAAACGAGTTCGCT
** ** *
12660306 CCCTTTTTCTTTAGGGAGTATAGAACTCAAAAATCTTCTT
66 CCCTTTCACTTTAAAGAGTATAGAACTC--AAA-CATCTT
** * * * *
12660346 CTTACGGGTTCGCTCATTCTCTCTTTAAAGAGTATAGAACTCGAAAATCTTCAAACGGGTTCGCT
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAAAATCTTCAAACGAGTTCGCT
*
12660411 -CCTTCTCACTTTAAAGAGTATAGAACTCGAACATCTT
66 CCCTT-TCACTTTAAAGAGTATAGAACTCAAACATCTT
* * *
12660448 CAAACGGGTTCGCTCCTTCTTTCATTAAGGAGAATAGAACTCGAATATCTTCAA
1 CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAAAATCTTCAA
12660502 CAATCGTGTC
Statistics
Matches: 129, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
102 51 0.40
103 2 0.02
104 4 0.03
105 72 0.56
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (102 bp):
CAAACGGGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAAAATCTTCAAACGAGTTCGCT
CCCTTTCACTTTAAAGAGTATAGAACTCAAACATCTT
Found at i:12660534 original size:156 final size:156
Alignment explanation
Indices: 12660241--12660545 Score: 330
Period size: 156 Copynumber: 2.0 Consensus size: 156
12660231 AAATCTTCAG
** * * ** *
12660241 CAAACGAGTTCGCTCCTTCTTTCTTTAAGGAGTATAGAACTCGAACATCTTCGATTGAGTTCGTT
1 CAAACGAGTTCGCTCCTTCTCACTTTAAAGAGTATAGAACTCGAACATCTTCAAACGAGTTCGCT
* * * ** * * *
12660306 CCCTTTTTCTTTAGGGAGTATAGAACTCAAAAATCTTCTTCTTACGGGTTCGCTCATTCTCTCTT
66 CCCTTTTTCATTAAGGAGAATAGAACTCAAAAATCTTCAACATACGGGTTCGCTCACTATCTCTT
*
12660371 TAAAGAGTAT-AGAACTCGAAAATCTT
131 CAAAGAGTATGAG-ACTCGAAAATCTT
* *
12660397 CAAACGGGTTCGCTCCTTCTCACTTTAAAGAGTATAGAACTCGAACATCTTCAAACGGGTTCGCT
1 CAAACGAGTTCGCTCCTTCTCACTTTAAAGAGTATAGAACTCGAACATCTTCAAACGAGTTCGCT
* * * * *
12660462 -CCTTCTTTCATTAAGGAGAATAGAACTCGAATATCTTCAACA-ATCGTG-TCTGCTCCCTATTT
66 CCCTT-TTTCATTAAGGAGAATAGAACTCAAAAATCTTCAACATA-CGGGTTC-GCTCACTATCT
*
12660524 CTTCAGAGAGTATGAGACTCGA
128 CTTCAAAGAGTATGAGACTCGA
12660546 TCAATTTTCA
Statistics
Matches: 121, Mismatches: 24, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
155 7 0.06
156 112 0.93
157 2 0.02
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.33
Consensus pattern (156 bp):
CAAACGAGTTCGCTCCTTCTCACTTTAAAGAGTATAGAACTCGAACATCTTCAAACGAGTTCGCT
CCCTTTTTCATTAAGGAGAATAGAACTCAAAAATCTTCAACATACGGGTTCGCTCACTATCTCTT
CAAAGAGTATGAGACTCGAAAATCTT
Found at i:12660562 original size:55 final size:55
Alignment explanation
Indices: 12660494--12660664 Score: 297
Period size: 55 Copynumber: 3.1 Consensus size: 55
12660484 GAACTCGAAT
*
12660494 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATGAGACTCGATCA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGATCA
* * *
12660549 ATTTTCAACAATCGTGTCTGCTCCCTATTTTTTCAGAGAGTATAAGACTCGAACA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGATCA
*
12660604 ATCTTCAACAATCGCGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGATCA
1 ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGATCA
12660659 ATCTTC
1 ATCTTC
12660665 GATTATCGTT
Statistics
Matches: 108, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 108 1.00
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (55 bp):
ATCTTCAACAATCGTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGATCA
Found at i:12661682 original size:8 final size:8
Alignment explanation
Indices: 12661660--12661726 Score: 64
Period size: 8 Copynumber: 8.0 Consensus size: 8
12661650 TCTTGAACCC
12661660 TTCATTTT
1 TTCATTTT
12661668 TTCCATTTT
1 TT-CATTTT
12661677 TTCATTTT
1 TTCATTTT
12661685 TTCATTTT
1 TTCATTTT
*
12661693 TTTATTATTT
1 TTCA-T-TTT
*
12661703 TATTATTTT
1 T-TCATTTT
12661712 TTC-TTTT
1 TTCATTTT
*
12661719 TTTATTTT
1 TTCATTTT
12661727 CACTCATTTT
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
7 6 0.12
8 24 0.47
9 13 0.25
10 5 0.10
11 3 0.06
ACGTcount: A:0.13, C:0.09, G:0.00, T:0.78
Consensus pattern (8 bp):
TTCATTTT
Found at i:12661703 original size:26 final size:26
Alignment explanation
Indices: 12661672--12661741 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
12661662 CATTTTTTCC
*
12661672 ATTTTTTCATTTTTTCATTTTTTTATT
1 ATTTTATCATTTTTTC-TTTTTTTATT
*
12661699 ATTTTATTATTTTTTCTTTTTTTA-T
1 ATTTTATCATTTTTTCTTTTTTTATT
*
12661724 -TTTCACTCATTTTTTCTT
1 ATTTTA-TCATTTTTTCTT
12661742 CTTCTTTTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 4 0.11
25 12 0.32
26 8 0.21
27 14 0.37
ACGTcount: A:0.14, C:0.10, G:0.00, T:0.76
Consensus pattern (26 bp):
ATTTTATCATTTTTTCTTTTTTTATT
Found at i:12661735 original size:25 final size:26
Alignment explanation
Indices: 12661678--12661741 Score: 78
Period size: 25 Copynumber: 2.5 Consensus size: 26
12661668 TTCCATTTTT
*
12661678 TCATTTTTTCATTTTTTTATTATTTTA
1 TCATTTTTTC-TTTTTTTATTATTTCA
*
12661705 TTATTTTTTCTTTTTTTA-T-TTTCA
1 TCATTTTTTCTTTTTTTATTATTTCA
12661729 CTCATTTTTTCTT
1 -TCATTTTTTCTT
12661742 CTTCTTTTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
24 4 0.12
25 12 0.36
26 8 0.24
27 9 0.27
ACGTcount: A:0.14, C:0.11, G:0.00, T:0.75
Consensus pattern (26 bp):
TCATTTTTTCTTTTTTTATTATTTCA
Found at i:12665252 original size:8 final size:8
Alignment explanation
Indices: 12665239--12665266 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
12665229 GAAAAAGAAG
12665239 ATATATAC
1 ATATATAC
12665247 ATATATAC
1 ATATATAC
12665255 ATATATAC
1 ATATATAC
12665263 ATAT
1 ATAT
12665267 GGGAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:12671731 original size:17 final size:16
Alignment explanation
Indices: 12671694--12671724 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12671684 AACCTTATTC
12671694 ACATGATATCTACCCA
1 ACATGATATCTACCCA
12671710 ACATGATATCTACCC
1 ACATGATATCTACCC
12671725 CATCATGCTT
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:0.35, C:0.32, G:0.06, T:0.26
Consensus pattern (16 bp):
ACATGATATCTACCCA
Found at i:12681664 original size:11 final size:11
Alignment explanation
Indices: 12681648--12681673 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12681638 TTTTTGATAT
12681648 CTTCACTTGCA
1 CTTCACTTGCA
12681659 CTTCACTTGCA
1 CTTCACTTGCA
12681670 CTTC
1 CTTC
12681674 TTTTTGTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.38, G:0.08, T:0.38
Consensus pattern (11 bp):
CTTCACTTGCA
Found at i:12685182 original size:35 final size:35
Alignment explanation
Indices: 12685136--12685206 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
12685126 GGAGTTTACA
12685136 AAATGGAGTTACAACTGAATACATAAGTCTATAAG
1 AAATGGAGTTACAACTGAATACATAAGTCTATAAG
12685171 AAATGGAGTTACAACTGAATACATAAGTCTATAAG
1 AAATGGAGTTACAACTGAATACATAAGTCTATAAG
12685206 A
1 A
12685207 TAGATCATGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.46, C:0.11, G:0.17, T:0.25
Consensus pattern (35 bp):
AAATGGAGTTACAACTGAATACATAAGTCTATAAG
Found at i:12686075 original size:17 final size:18
Alignment explanation
Indices: 12686053--12686086 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
12686043 TGATAATCTA
*
12686053 CCCTTG-GTATCGATACT
1 CCCTTGAGTAGCGATACT
12686070 CCCTTGAGTAGCGATAC
1 CCCTTGAGTAGCGATAC
12686087 CAAAAATGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (18 bp):
CCCTTGAGTAGCGATACT
Found at i:12694524 original size:79 final size:80
Alignment explanation
Indices: 12694415--12694561 Score: 287
Period size: 79 Copynumber: 1.9 Consensus size: 80
12694405 CAGAGCATAT
12694415 TCAATATTATTCGCTTAGTACATGCTAACTACAATTAATA-GACAATATACATAAATTTACAACT
1 TCAATATTATTCGCTTAGTACATGCTAACTACAATTAATATGACAATATACATAAATTTACAACT
12694479 ACTACTTTTCTGATC
66 ACTACTTTTCTGATC
12694494 TCAATATTATTCGCTTAGTACATGCTAACTACAATTAATATGACAATATACATAAATTTACAACT
1 TCAATATTATTCGCTTAGTACATGCTAACTACAATTAATATGACAATATACATAAATTTACAACT
12694559 ACT
66 ACT
12694562 TTTCTGATCT
Statistics
Matches: 67, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
79 40 0.60
80 27 0.40
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.36
Consensus pattern (80 bp):
TCAATATTATTCGCTTAGTACATGCTAACTACAATTAATATGACAATATACATAAATTTACAACT
ACTACTTTTCTGATC
Found at i:12695125 original size:23 final size:23
Alignment explanation
Indices: 12695083--12695127 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
12695073 CGAACTGCAA
* **
12695083 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCAAAGTGCCG
12695106 CGTAGAAATGCACCAAAGTGCC
1 CGTAGAAATGCACCAAAGTGCC
12695128 ATATAAGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCAAAGTGCCG
Found at i:12700981 original size:23 final size:23
Alignment explanation
Indices: 12700951--12700996 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
12700941 TACCAGCTTA
12700951 CATGGTTTATAATACTAACATGT
1 CATGGTTTATAATACTAACATGT
*
12700974 CATGGTTTATTATACTAACATGT
1 CATGGTTTATAATACTAACATGT
12700997 ACAATAACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (23 bp):
CATGGTTTATAATACTAACATGT
Found at i:12712165 original size:30 final size:30
Alignment explanation
Indices: 12712089--12712199 Score: 141
Period size: 30 Copynumber: 3.6 Consensus size: 30
12712079 TTAGATTAGC
*
12712089 ATTATAGTGTGTAAGGACACTTAGTGCATATAGT
1 ATTATAGTGTGTAAGGACACTTAGT--ACA-A-T
*
12712123 ATTATAATGTGTAAGGACACTTAGTACAAT
1 ATTATAGTGTGTAAGGACACTTAGTACAAT
* *
12712153 ACTATAGTGTGTAAGGACACTTAGTACAAC
1 ATTATAGTGTGTAAGGACACTTAGTACAAT
*
12712183 ATTGTAGTGTGTAAGGA
1 ATTATAGTGTGTAAGGA
12712200 TGCTCTGTGA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
30 43 0.61
31 1 0.01
32 2 0.03
34 24 0.34
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.32
Consensus pattern (30 bp):
ATTATAGTGTGTAAGGACACTTAGTACAAT
Found at i:12715037 original size:30 final size:30
Alignment explanation
Indices: 12715001--12715067 Score: 82
Period size: 30 Copynumber: 2.2 Consensus size: 30
12714991 TAAAGTTTGG
12715001 AAAAGTTCAAAGACCAAAAAG-GTAATTCTC
1 AAAAGTTCAAAGACC-AAAAGTGTAATTCTC
* ** *
12715031 AAAAGTTTAGGGACCAAAAGTGTAATTTTC
1 AAAAGTTCAAAGACCAAAAGTGTAATTCTC
12715061 AAAAGTT
1 AAAAGTT
12715068 AGGTGTTTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 5 0.16
30 27 0.84
ACGTcount: A:0.46, C:0.12, G:0.16, T:0.25
Consensus pattern (30 bp):
AAAAGTTCAAAGACCAAAAGTGTAATTCTC
Found at i:12716283 original size:19 final size:20
Alignment explanation
Indices: 12716240--12716285 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
12716230 TACTATGCTG
* *
12716240 GAAATTAATGTTAGAGTGTT
1 GAAATTGATGTTAGAATGTT
*
12716260 GAAATTGATGTTATAATG-T
1 GAAATTGATGTTAGAATGTT
12716279 GAAATTG
1 GAAATTG
12716286 GATTATTTTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
GAAATTGATGTTAGAATGTT
Found at i:12717756 original size:34 final size:34
Alignment explanation
Indices: 12717713--12717825 Score: 135
Period size: 34 Copynumber: 3.4 Consensus size: 34
12717703 ATTAGCACTA
* *
12717713 TAGTATGTAAGGATAATTAGTGCATATGGTATTT
1 TAGTGTGTAAGGACAATTAGTGCATATGGTATTT
* * * * *
12717747 TAGTGTGTAAGGACACTTAATACA-A---TACTA
1 TAGTGTGTAAGGACAATTAGTGCATATGGTATTT
12717777 TAGTGTGTAAGGACAATTAGTGCATATGGTATTT
1 TAGTGTGTAAGGACAATTAGTGCATATGGTATTT
12717811 TAGTGTGTAAGGACA
1 TAGTGTGTAAGGACA
12717826 CTTAATACAA
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
30 24 0.38
31 1 0.02
33 1 0.02
34 37 0.59
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (34 bp):
TAGTGTGTAAGGACAATTAGTGCATATGGTATTT
Found at i:12717783 original size:30 final size:30
Alignment explanation
Indices: 12717747--12717884 Score: 168
Period size: 30 Copynumber: 4.5 Consensus size: 30
12717737 TATGGTATTT
12717747 TAGTGTGTAAGGACACTTAATACAATACTA
1 TAGTGTGTAAGGACACTTAATACAATACTA
* * * * *
12717777 TAGTGTGTAAGGACAATTAGTGCATATGGTATTT
1 TAGTGTGTAAGGACACTTAATACA-A---TACTA
12717811 TAGTGTGTAAGGACACTTAATACAATACTA
1 TAGTGTGTAAGGACACTTAATACAATACTA
* * *
12717841 TAGTGTGTAAGGACACTTAGTACAACACTG
1 TAGTGTGTAAGGACACTTAATACAATACTA
12717871 TAGTGTGTAAGGAC
1 TAGTGTGTAAGGAC
12717885 GTTCAGTGCA
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
30 65 0.71
31 1 0.01
33 1 0.01
34 24 0.26
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.31
Consensus pattern (30 bp):
TAGTGTGTAAGGACACTTAATACAATACTA
Found at i:12717788 original size:64 final size:64
Alignment explanation
Indices: 12717709--12717861 Score: 279
Period size: 64 Copynumber: 2.4 Consensus size: 64
12717699 TCGCATTAGC
* *
12717709 ACTATAGTATGTAAGGATAATTAGTGCATATGGTATTTTAGTGTGTAAGGACACTTAATACAAT
1 ACTATAGTGTGTAAGGACAATTAGTGCATATGGTATTTTAGTGTGTAAGGACACTTAATACAAT
12717773 ACTATAGTGTGTAAGGACAATTAGTGCATATGGTATTTTAGTGTGTAAGGACACTTAATACAAT
1 ACTATAGTGTGTAAGGACAATTAGTGCATATGGTATTTTAGTGTGTAAGGACACTTAATACAAT
*
12717837 ACTATAGTGTGTAAGGACACTTAGT
1 ACTATAGTGTGTAAGGACAATTAGT
12717862 ACAACACTGT
Statistics
Matches: 86, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
64 86 1.00
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.35
Consensus pattern (64 bp):
ACTATAGTGTGTAAGGACAATTAGTGCATATGGTATTTTAGTGTGTAAGGACACTTAATACAAT
Found at i:12717897 original size:30 final size:30
Alignment explanation
Indices: 12717747--12717921 Score: 147
Period size: 30 Copynumber: 5.7 Consensus size: 30
12717737 TATGGTATTT
* * *
12717747 TAGTGTGTAAGGACACTTAATACAATACTA
1 TAGTGTGTAAGGACACTTAGTACAACACTG
* * * * *
12717777 TAGTGTGTAAGGACAATTAGTGCATATGGTATTT
1 TAGTGTGTAAGGACACTTAGTACA-A---CACTG
* * *
12717811 TAGTGTGTAAGGACACTTAATACAATACTA
1 TAGTGTGTAAGGACACTTAGTACAACACTG
12717841 TAGTGTGTAAGGACACTTAGTACAACACTG
1 TAGTGTGTAAGGACACTTAGTACAACACTG
* *
12717871 TAGTGTGTAAGGAC-GTTCAGTGCAACACT-
1 TAGTGTGTAAGGACACTT-AGTACAACACTG
* *
12717900 TTGATGTGGAAGGACACTTAGT
1 TAG-TGTGTAAGGACACTTAGT
12717922 GCATATGGTA
Statistics
Matches: 120, Mismatches: 18, Indels: 14
0.79 0.12 0.09
Matches are distributed among these distances:
29 4 0.03
30 88 0.73
31 3 0.03
33 1 0.01
34 24 0.20
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGTGTGTAAGGACACTTAGTACAACACTG
Found at i:12724436 original size:15 final size:15
Alignment explanation
Indices: 12724413--12724467 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
12724403 CAACTTGGTT
*
12724413 GAGTGAACTCAAATA
1 GAGTCAACTCAAATA
**
12724428 GAGTCAACTC-GGTA
1 GAGTCAACTCAAATA
* *
12724442 GAGTTAACTCAAACA
1 GAGTCAACTCAAATA
12724457 GAGTCAACTCA
1 GAGTCAACTCA
12724468 TTGACTTTGA
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
14 11 0.35
15 20 0.65
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (15 bp):
GAGTCAACTCAAATA
Found at i:12724445 original size:29 final size:29
Alignment explanation
Indices: 12724387--12724466 Score: 101
Period size: 29 Copynumber: 2.8 Consensus size: 29
12724377 GGTCGAGCTA
* * *
12724387 AGTGAAATC-AATA-AGTCAACTTGGTTG
1 AGTGAACTCAAATAGAGTCAACTCGGTAG
12724414 AGTGAACTCAAATAGAGTCAACTCGGTAG
1 AGTGAACTCAAATAGAGTCAACTCGGTAG
* *
12724443 AGTTAACTCAAACAGAGTCAACTC
1 AGTGAACTCAAATAGAGTCAACTC
12724467 ATTGACTTTG
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 8 0.17
28 4 0.09
29 34 0.74
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (29 bp):
AGTGAACTCAAATAGAGTCAACTCGGTAG
Done.