Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 ID=Chr06-JGI_221_v2.0
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: 51074515
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 971674 characters in sequence are not A, C, G, or T
File 31 of 168
Found at i:8136327 original size:2 final size:2
Alignment explanation
Indices: 8136320--8136344 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
8136310 TCAAACACAA
8136320 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 A
8136345 CATTTGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8141253 original size:15 final size:15
Alignment explanation
Indices: 8141229--8141262 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8141219 TAGTTAATCC
*
8141229 AAATGGCATCACAAG
1 AAATGACATCACAAG
*
8141244 AAATGACATCACCAG
1 AAATGACATCACAAG
8141259 AAAT
1 AAAT
8141263 TCATAATGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.50, C:0.21, G:0.15, T:0.15
Consensus pattern (15 bp):
AAATGACATCACAAG
Found at i:8144420 original size:45 final size:45
Alignment explanation
Indices: 8144322--8144448 Score: 141
Period size: 45 Copynumber: 2.8 Consensus size: 45
8144312 ATACATTCGA
* * * *
8144322 ACTCATACATGTGAATTCATAGAAGAAGCTTCATAGATATGTTAG
1 ACTCATACATGCGAATTCATAGAAGAAGATTCATAGACATGTAAG
*
8144367 ACTAATACATGCGAATTCATAGAAGAAGATTCATAGACATG-AAGG
1 ACTCATACATGCGAATTCATAGAAGAAGATTCATAGACATGTAA-G
* * *
8144412 ACTCATACATAC-AGATTTATAAAAAGAAGATTCATAG
1 ACTCATACATGCGA-ATTCAT-AGAAGAAGATTCATAG
8144449 TTGCGAATTG
Statistics
Matches: 70, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
44 2 0.03
45 53 0.76
46 15 0.21
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (45 bp):
ACTCATACATGCGAATTCATAGAAGAAGATTCATAGACATGTAAG
Found at i:8146377 original size:14 final size:16
Alignment explanation
Indices: 8146349--8146382 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
8146339 TATCTAAATA
8146349 TTATTCAAATAATATT
1 TTATTCAAATAATATT
8146365 TTATT-AAAT-ATATT
1 TTATTCAAATAATATT
8146379 TTAT
1 TTAT
8146383 CATTTTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
15 4 0.22
16 5 0.28
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTATTCAAATAATATT
Found at i:8154798 original size:25 final size:25
Alignment explanation
Indices: 8154751--8154798 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
8154741 TGAATTTTTA
* * *
8154751 AGGTTAAAATGGTAATTTGATTATT
1 AGGTTAAAATAGTAAGTTAATTATT
*
8154776 AGGTTAAAATATTAAGTTAATTA
1 AGGTTAAAATAGTAAGTTAATTA
8154799 AAAGGAAATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (25 bp):
AGGTTAAAATAGTAAGTTAATTATT
Found at i:8155583 original size:20 final size:20
Alignment explanation
Indices: 8155558--8155622 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
8155548 AATTATTGAA
*
8155558 TGTTTGCACATACGTGCTCC
1 TGTTTGCACATACGTGCCCC
* * *
8155578 TGTTTGTAC-TTCAGTACCCC
1 TGTTTGCACATAC-GTGCCCC
* *
8155598 TATTTGCACATACGTGCCAC
1 TGTTTGCACATACGTGCCCC
8155618 TGTTT
1 TGTTT
8155623 ATTCTTCGAT
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
19 2 0.06
20 29 0.88
21 2 0.06
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (20 bp):
TGTTTGCACATACGTGCCCC
Found at i:8155621 original size:40 final size:40
Alignment explanation
Indices: 8155560--8155648 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 40
8155550 TTATTGAATG
*
8155560 TTTGCACATACGTGCTCCTGTTTGTACTTC-AGTACCCCTA
1 TTTGCACATACGTGCTCCTGTTTATACTTCGA-TACCCCTA
* *
8155600 TTTGCACATACGTGC-CACTGTTTATTCTTCGATACCCCTG
1 TTTGCACATACGTGCTC-CTGTTTATACTTCGATACCCCTA
8155640 TTTGCACAT
1 TTTGCACAT
8155649 GTGGCTAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
39 1 0.02
40 42 0.95
41 1 0.02
ACGTcount: A:0.18, C:0.29, G:0.15, T:0.38
Consensus pattern (40 bp):
TTTGCACATACGTGCTCCTGTTTATACTTCGATACCCCTA
Found at i:8157330 original size:11 final size:11
Alignment explanation
Indices: 8157314--8157349 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
8157304 AAGAGAGAAT
*
8157314 GATGCTTGATG
1 GATGCTTGAGG
8157325 GATGCTTGAGG
1 GATGCTTGAGG
*
8157336 GATGATTGAGG
1 GATGCTTGAGG
8157347 GAT
1 GAT
8157350 ATGAATGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.22, C:0.06, G:0.42, T:0.31
Consensus pattern (11 bp):
GATGCTTGAGG
Found at i:8165141 original size:22 final size:22
Alignment explanation
Indices: 8165091--8165141 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
8165081 TTCTCTTAAA
* *
8165091 CTCTCAATTTCCTTTCAAAATC
1 CTCTCAATTTCATTCCAAAATC
*
8165113 CTTTCAATTTCATTCCAAAAAT-
1 CTCTCAATTTCATTCC-AAAATC
8165135 CTCTCAA
1 CTCTCAA
8165142 ATCCATATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.31, C:0.29, G:0.00, T:0.39
Consensus pattern (22 bp):
CTCTCAATTTCATTCCAAAATC
Found at i:8165213 original size:31 final size:31
Alignment explanation
Indices: 8165175--8165241 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
8165165 CCTCAATTTC
8165175 ATTTTTTT-AAATAATTTCAAAATTTTTTTAT
1 ATTTTTTTAAAATAATTT-AAAATTTTTTTAT
* *
8165206 ATTTTTTTAAAATAATTTTAATTTTTTTTAT
1 ATTTTTTTAAAATAATTTAAAATTTTTTTAT
8165237 ATTTT
1 ATTTT
8165242 CATCAATGGC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
31 24 0.73
32 9 0.27
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (31 bp):
ATTTTTTTAAAATAATTTAAAATTTTTTTAT
Found at i:8165217 original size:21 final size:20
Alignment explanation
Indices: 8165193--8165233 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
8165183 AAATAATTTC
8165193 AAAATTTTTTTATATTTTTTT
1 AAAATTTTTTTA-ATTTTTTT
**
8165214 AAAATAATTTTAATTTTTTT
1 AAAATTTTTTTAATTTTTTT
8165234 TATATTTTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
AAAATTTTTTTAATTTTTTT
Found at i:8167956 original size:29 final size:29
Alignment explanation
Indices: 8167570--8167955 Score: 659
Period size: 29 Copynumber: 13.3 Consensus size: 29
8167560 TAAAAACCCT
*
8167570 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
8167599 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
8167628 AACCGC-AATCCTACCCTAATTTAATT-AA
1 AACC-CTAACCCTAACCTAATTTAATTAAA
8167656 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
8167685 AACCCTAACCCTACCCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
8167714 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
8167743 AACCCTAACCTTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
8167772 AACCCTAACCCTACCCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
8167801 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
8167830 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
*
8167859 AACCCTAACCCTACCCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
8167888 AACCCTAACCCTAACCTAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
* *
8167917 AACCCTAACCTTAACATAATTTAATTAAA
1 AACCCTAACCCTAACCTAATTTAATTAAA
8167946 AACCCTAACC
1 AACCCTAACC
8167956 TAATTTATTT
Statistics
Matches: 339, Mismatches: 15, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
27 1 0.00
28 24 0.07
29 313 0.92
30 1 0.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (29 bp):
AACCCTAACCCTAACCTAATTTAATTAAA
Found at i:8167983 original size:46 final size:49
Alignment explanation
Indices: 8167605--8168007 Score: 245
Period size: 58 Copynumber: 7.3 Consensus size: 49
8167595 TAAAAACCCT
* * *
8167605 AACCTTAACCTAATTTAATTAAAAACCGCAATCCTACCCTAATTTAATTAAAA
1 AACCCTAACCTAATTTAATTAAAAACC-CAA--CTAACATAATTTAATT-AAA
* *
8167658 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTACCCTAATTTAATTAAAAA
1 ----AACCCTAACCTAATTTAATTAAAAACCC-AA--CTAACATAATTTAATT--AAA
*
8167716 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAAAACCC-AA-C-TAACATAATTTAATTAAA
*
8167772 AACCCTAACCCTACCCTAATTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAAA
1 AACCCT-A----A-CCTAATTTAATTAAAAACCC-AA--CTAACATAATTTAATT--AAA
* *
8167832 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCCTACCCTAATTTAATTAAAAA
1 ----AACCCTAACCTAATTTAATTAAAAACCC-AA--CTAACATAATTTAATT--AAA
8167890 CCCTAACCCTAACCTAATTTAATTAAAAACCCTAACCTTAACATAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAAAACCC-AA-C-TAACATAATTTAATTAAA
* *
8167946 AACCCTAACCTAATTTATTTAAAAA-CC-A-TAACATAATTTATTTAAA
1 AACCCTAACCTAATTTAATTAAAAACCCAACTAACATAATTTAATTAAA
* *
8167992 AACCATAACATAATTT
1 AACCCTAACCTAATTT
8168008 TACCTAATTT
Statistics
Matches: 319, Mismatches: 10, Indels: 45
0.85 0.03 0.12
Matches are distributed among these distances:
46 31 0.10
49 1 0.00
51 2 0.01
52 30 0.09
53 1 0.00
56 7 0.02
57 50 0.16
58 184 0.58
59 3 0.01
60 3 0.01
63 1 0.00
64 6 0.02
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.30
Consensus pattern (49 bp):
AACCCTAACCTAATTTAATTAAAAACCCAACTAACATAATTTAATTAAA
Found at i:8176115 original size:18 final size:18
Alignment explanation
Indices: 8176092--8176127 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
8176082 ACTTAGTAAG
8176092 CTCATACAATTCAATTCA
1 CTCATACAATTCAATTCA
8176110 CTCATACAATTCAATTCA
1 CTCATACAATTCAATTCA
8176128 ATAACTTACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.00, T:0.33
Consensus pattern (18 bp):
CTCATACAATTCAATTCA
Found at i:8184115 original size:38 final size:37
Alignment explanation
Indices: 8184063--8184155 Score: 109
Period size: 37 Copynumber: 2.5 Consensus size: 37
8184053 CACTTCGACA
*
8184063 ACCCTGCACACCACATATGAGCTATAATAAGTCCATCC
1 ACCCTGCACACCACATATGA-CCATAATAAGTCCATCC
* * * *
8184101 GCCCTGCACACCACATAGGACCATGATAGGTCCATCC
1 ACCCTGCACACCACATATGACCATAATAAGTCCATCC
8184138 ACCCT--ACACCACAATATG
1 ACCCTGCACACCAC-ATATG
8184156 TGGAACCAAG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
35 7 0.15
36 4 0.09
37 18 0.38
38 18 0.38
ACGTcount: A:0.32, C:0.37, G:0.13, T:0.18
Consensus pattern (37 bp):
ACCCTGCACACCACATATGACCATAATAAGTCCATCC
Found at i:8189961 original size:11 final size:11
Alignment explanation
Indices: 8189942--8189988 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
8189932 TTTAACTTTC
*
8189942 TTTATATATTT
1 TTTAAATATTT
8189953 TTTAAATATTT
1 TTTAAATATTT
8189964 TTTAAA-ATATT
1 TTTAAATAT-TT
8189975 TTTAAAT-TTT
1 TTTAAATATTT
8189985 TTTA
1 TTTA
8189989 TAAAAAATAT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
10 8 0.24
11 25 0.76
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTAAATATTT
Found at i:8190024 original size:20 final size:20
Alignment explanation
Indices: 8190001--8190053 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
8189991 AAAAATATAA
*
8190001 ATTTTAGAATTATT-ATAATT
1 ATTTT-GAATTATTGAAAATT
*
8190021 ATTTTGAATTTTTGAAAATT
1 ATTTTGAATTATTGAAAATT
*
8190041 ATTTTGAACTATT
1 ATTTTGAATTATT
8190054 TTGTAATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (20 bp):
ATTTTGAATTATTGAAAATT
Found at i:8190155 original size:18 final size:18
Alignment explanation
Indices: 8190132--8190171 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
8190122 CACCAATTTT
8190132 TTATTTGAATTATTCAAA
1 TTATTTGAATTATTCAAA
*
8190150 TTATTTGACTTATTCAAA
1 TTATTTGAATTATTCAAA
8190168 TTAT
1 TTAT
8190172 AAAATTCAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (18 bp):
TTATTTGAATTATTCAAA
Found at i:8191044 original size:24 final size:25
Alignment explanation
Indices: 8190993--8191044 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
8190983 CAATTATCTT
* *
8190993 AATTAGAGTGGCTAAATTAAGAAAA
1 AATTAGAGTGGCCAAAATAAGAAAA
*
8191018 AATTAGAGTGGCCAAAAT-AGAACA
1 AATTAGAGTGGCCAAAATAAGAAAA
8191042 AAT
1 AAT
8191045 CCTATTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 8 0.33
25 16 0.67
ACGTcount: A:0.52, C:0.08, G:0.19, T:0.21
Consensus pattern (25 bp):
AATTAGAGTGGCCAAAATAAGAAAA
Found at i:8196235 original size:17 final size:17
Alignment explanation
Indices: 8196209--8196248 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
8196199 AAGTGCTTTC
8196209 AATAAA-AAAGAAAGAA
1 AATAAAGAAAGAAAGAA
8196225 AATAAAGAAAGAAAGAA
1 AATAAAGAAAGAAAGAA
8196242 AA-AAAGA
1 AATAAAGA
8196249 GAAAAGGGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 11 0.48
17 12 0.52
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (17 bp):
AATAAAGAAAGAAAGAA
Found at i:8202207 original size:19 final size:19
Alignment explanation
Indices: 8202183--8202238 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 19
8202173 AATCATATCT
*
8202183 TCCAAGGTTGCATATCATA
1 TCCAAGATTGCATATCATA
8202202 TCCAAGATTGCATATATCATA
1 TCCAAGATTGC--ATATCATA
*
8202223 TCTAAGATTGCATATC
1 TCCAAGATTGCATATC
8202239 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (19 bp):
TCCAAGATTGCATATCATA
Found at i:8202220 original size:21 final size:21
Alignment explanation
Indices: 8202194--8202237 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
8202184 CCAAGGTTGC
8202194 ATATCATATCCAAGATTGCAT
1 ATATCATATCCAAGATTGCAT
*
8202215 ATATCATATCTAAGATTGCAT
1 ATATCATATCCAAGATTGCAT
8202236 AT
1 AT
8202238 CCTTGAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.16, G:0.09, T:0.36
Consensus pattern (21 bp):
ATATCATATCCAAGATTGCAT
Found at i:8202766 original size:19 final size:21
Alignment explanation
Indices: 8202744--8202787 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
8202734 AAAATTACAA
*
8202744 AAAAAATT-AAAATCA-TTTT
1 AAAAAATTCAAAATAACTTTT
8202763 AAAAAATTCAAAATAACTTTT
1 AAAAAATTCAAAATAACTTTT
8202784 AAAA
1 AAAA
8202788 GTCAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.36
20 6 0.27
21 8 0.36
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (21 bp):
AAAAAATTCAAAATAACTTTT
Found at i:8202812 original size:19 final size:20
Alignment explanation
Indices: 8202746--8202813 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 20
8202736 AATTACAAAA
* * *
8202746 AAAATT-AAAATCATTTTAA
1 AAAATTCAAAATAACTTTAT
8202765 AAAATTCAAAATAACTTT-T
1 AAAATTCAAAATAACTTTAT
*
8202784 AAAAGTCAAAAT-A-TTTAT
1 AAAATTCAAAATAACTTTAT
*
8202802 AAAATTCCAAAT
1 AAAATTCAAAAT
8202814 TTTATATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
17 3 0.07
18 12 0.29
19 17 0.41
20 9 0.22
ACGTcount: A:0.56, C:0.09, G:0.01, T:0.34
Consensus pattern (20 bp):
AAAATTCAAAATAACTTTAT
Found at i:8203509 original size:10 final size:9
Alignment explanation
Indices: 8203489--8203582 Score: 57
Period size: 10 Copynumber: 10.0 Consensus size: 9
8203479 TATTTAACCT
*
8203489 TAATATTTA
1 TAATTTTTA
8203498 TAAGTTTTTA
1 TAA-TTTTTA
8203508 TAATTTTTAA
1 TAATTTTT-A
*
8203518 TAATTTTAA
1 TAATTTTTA
* *
8203527 TAAGTATATA
1 TAA-TTTTTA
*
8203537 TAA-ATTT-
1 TAATTTTTA
*
8203544 TAATATTTA
1 TAATTTTTA
*
8203553 TAATATTTA
1 TAATTTTTA
8203562 TAATTCTTTTA
1 TAA-T-TTTTA
8203573 TAATATTTTA
1 TAAT-TTTTA
8203583 ATATTCGTAT
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
7 3 0.04
8 7 0.10
9 24 0.34
10 29 0.41
11 7 0.10
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.56
Consensus pattern (9 bp):
TAATTTTTA
Found at i:8203516 original size:9 final size:9
Alignment explanation
Indices: 8203489--8203587 Score: 80
Period size: 9 Copynumber: 10.8 Consensus size: 9
8203479 TATTTAACCT
8203489 TAATATTTA
1 TAATATTTA
*
8203498 TAAGTTTTTA
1 TAA-TATTTA
*
8203508 TAATTTTTAA
1 TAATATTT-A
8203518 TAAT-TTTAA
1 TAATATTT-A
*
8203527 TAAGTATATA
1 TAA-TATTTA
8203537 TAA-ATTT-
1 TAATATTTA
8203544 TAATATTTA
1 TAATATTTA
8203553 TAATATTTA
1 TAATATTTA
*
8203562 TAATTCTTTTA
1 TAA-T-ATTTA
8203573 TAATATTT-
1 TAATATTTA
8203581 TAATATT
1 TAATATT
8203588 CGTATGGAAA
Statistics
Matches: 77, Mismatches: 5, Indels: 17
0.78 0.05 0.17
Matches are distributed among these distances:
7 3 0.04
8 14 0.18
9 31 0.40
10 20 0.26
11 9 0.12
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (9 bp):
TAATATTTA
Found at i:8203576 original size:29 final size:29
Alignment explanation
Indices: 8203489--8203587 Score: 95
Period size: 29 Copynumber: 3.6 Consensus size: 29
8203479 TATTTAACCT
* *
8203489 TAATATTTATAAGTTTTTATAATTTTTAA
1 TAATATTTATAAGTATTTATAATTTTTTA
* *
8203518 TAAT-TTTAATAAGTATATATAA--ATTT-
1 TAATATTT-ATAAGTATTTATAATTTTTTA
8203544 TAATATTTATAA-TATTTATAATTCTTTTA
1 TAATATTTATAAGTATTTATAATT-TTTTA
8203573 TAATATTT-TAA-TATT
1 TAATATTTATAAGTATT
8203588 CGTATGGAAA
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
25 8 0.14
26 8 0.14
27 5 0.09
28 13 0.22
29 24 0.41
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (29 bp):
TAATATTTATAAGTATTTATAATTTTTTA
Found at i:8209663 original size:20 final size:20
Alignment explanation
Indices: 8209626--8209677 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 20
8209616 ATTAGAGAGA
* * *
8209626 ATCAAAATGCTAATAGAGGC
1 ATCAAAGTGCAAACAGAGGC
*
8209646 ATCAAAGTGCAAACAGAGTC
1 ATCAAAGTGCAAACAGAGGC
* *
8209666 ACCGAAGTGCAA
1 ATCAAAGTGCAA
8209678 TCTTGTACAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.44, C:0.19, G:0.21, T:0.15
Consensus pattern (20 bp):
ATCAAAGTGCAAACAGAGGC
Found at i:8212452 original size:29 final size:29
Alignment explanation
Indices: 8212408--8212491 Score: 114
Period size: 29 Copynumber: 2.8 Consensus size: 29
8212398 ATCAACATTT
*
8212408 AATTAGTTTTTAAAAATTATAAAAATAAAAA
1 AATTA-TTTTTAAAATTTA-AAAAATAAAAA
*
8212439 AATTATTTTTAAAATTTAAAAAATATAAA
1 AATTATTTTTAAAATTTAAAAAATAAAAA
**
8212468 AATTATTTTTAAGTTTTAAAAAAT
1 AATTATTTTTAAAATTTAAAAAAT
8212492 TAATTAAATG
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
29 32 0.65
30 12 0.24
31 5 0.10
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (29 bp):
AATTATTTTTAAAATTTAAAAAATAAAAA
Found at i:8212909 original size:29 final size:29
Alignment explanation
Indices: 8212871--8212946 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
8212861 GTTATAATTT
* * * *
8212871 AGACTTATTTGATTTTTTTAATAATATAG
1 AGACTAATTTGATCTATTTAATAATAGAG
*
8212900 GGACTAATTTGATCTATTTAATAATAGAG
1 AGACTAATTTGATCTATTTAATAATAGAG
*
8212929 AGATTAATTTGATCTATT
1 AGACTAATTTGATCTATT
8212947 CCCTATTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.36, C:0.05, G:0.13, T:0.46
Consensus pattern (29 bp):
AGACTAATTTGATCTATTTAATAATAGAG
Found at i:8213305 original size:16 final size:18
Alignment explanation
Indices: 8213266--8213307 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
8213256 TAAATTTATA
8213266 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
8213283 ATTTTTATATATTAT-TT
1 ATATTTATATATTATGTT
8213300 A-ATTTATA
1 ATATTTATA
8213308 AAACGTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 6 0.27
17 8 0.36
18 8 0.36
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:8213922 original size:23 final size:23
Alignment explanation
Indices: 8213882--8213934 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 23
8213872 TATATTTTAA
*
8213882 ATAAAAATATTATATTTTTAAAAAT
1 ATAAAAATA-CATATTTTT-AAAAT
8213907 ATAAAAATAC-T-TTTTTAAAAT
1 ATAAAAATACATATTTTTAAAAT
*
8213928 TTAAAAA
1 ATAAAAA
8213935 ATGAAAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 11 0.42
22 5 0.19
23 1 0.04
25 9 0.35
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATAAAAATACATATTTTTAAAAT
Found at i:8213984 original size:24 final size:24
Alignment explanation
Indices: 8213961--8214007 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
8213951 AAAGTCAATA
8213961 AAATTAAAAAATATAAA-AAAAAT
1 AAATTAAAAAATATAAACAAAAAT
* * *
8213984 AATTTTACAAATATAAACAAAAAT
1 AAATTAAAAAATATAAACAAAAAT
8214008 TCCAAAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (24 bp):
AAATTAAAAAATATAAACAAAAAT
Found at i:8214562 original size:17 final size:17
Alignment explanation
Indices: 8214540--8214572 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
8214530 TTTAAAAATA
8214540 AAAAATA-AAAAGATTTT
1 AAAAATATAAAA-ATTTT
8214557 AAAAATATAAAAATTT
1 AAAAATATAAAAATTT
8214573 CCAAAATTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (17 bp):
AAAAATATAAAAATTTT
Found at i:8215272 original size:14 final size:14
Alignment explanation
Indices: 8215255--8215281 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8215245 ATATATAGAC
8215255 TAAATTTTAAAATT
1 TAAATTTTAAAATT
8215269 TAAATTTTAAAAT
1 TAAATTTTAAAAT
8215282 AGTATAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TAAATTTTAAAATT
Found at i:8224036 original size:14 final size:15
Alignment explanation
Indices: 8223998--8224042 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
8223988 ATTAAAATTT
8223998 AATTA-TTAAATTAA
1 AATTATTTAAATTAA
*
8224012 AA-TAGTATAAA-TAA
1 AATTA-TTTAAATTAA
8224026 AATTATTTAAATTAA
1 AATTATTTAAATTAA
8224041 AA
1 AA
8224043 ATAGAGAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
13 2 0.08
14 12 0.48
15 11 0.44
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (15 bp):
AATTATTTAAATTAA
Found at i:8224036 original size:29 final size:29
Alignment explanation
Indices: 8223998--8224059 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 29
8223988 ATTAAAATTT
*
8223998 AATTATTAAATT-AAAATAGTATAAA-TAA
1 AATTATTAAATTAAAAATAG-AGAAATTAA
8224026 AATTATTTAAATTAAAAATAGAGAAATTAA
1 AATTA-TTAAATTAAAAATAGAGAAATTAA
8224056 AATT
1 AATT
8224060 TAAAAGTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 5 0.17
29 11 0.37
30 14 0.47
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (29 bp):
AATTATTAAATTAAAAATAGAGAAATTAA
Found at i:8229987 original size:25 final size:26
Alignment explanation
Indices: 8229959--8230023 Score: 64
Period size: 25 Copynumber: 2.6 Consensus size: 26
8229949 CTCATAACCG
* * *
8229959 ATTTTAATATTTA-ATTTATAATTAA
1 ATTTTAATATTTACATGTAAAAATAA
8229984 A-TTTAAT-TTTACGATGTAAAAATAA
1 ATTTTAATATTTAC-ATGTAAAAATAA
*
8230009 ATTTTTATATTTACA
1 ATTTTAATATTTACA
8230024 ATAATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
23 4 0.12
24 6 0.19
25 11 0.34
26 6 0.19
27 5 0.16
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (26 bp):
ATTTTAATATTTACATGTAAAAATAA
Found at i:8238536 original size:24 final size:24
Alignment explanation
Indices: 8238489--8238536 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
8238479 GATGAATTAT
* *
8238489 AATTTAAAGTATATTGGTTGAATA
1 AATTTAAAGTATAATGATTGAATA
8238513 AATTTAAAGTATGAATGATT-AATA
1 AATTTAAAGTAT-AATGATTGAATA
8238537 TACTGTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (24 bp):
AATTTAAAGTATAATGATTGAATA
Found at i:8238665 original size:2 final size:2
Alignment explanation
Indices: 8238658--8238683 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8238648 GAATAAAGTT
8238658 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
8238684 CAAGGTTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8245725 original size:16 final size:16
Alignment explanation
Indices: 8245704--8245738 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
8245694 CATTTCACTA
*
8245704 TTATGTATTTTGTATT
1 TTATGTATTTTATATT
*
8245720 TTATGTCTTTTATATT
1 TTATGTATTTTATATT
8245736 TTA
1 TTA
8245739 CATGCATAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.20, C:0.03, G:0.09, T:0.69
Consensus pattern (16 bp):
TTATGTATTTTATATT
Found at i:8247402 original size:37 final size:36
Alignment explanation
Indices: 8247339--8247414 Score: 93
Period size: 37 Copynumber: 2.1 Consensus size: 36
8247329 ATTCCAAAAA
*
8247339 TAATATTATTTTAATAGTTTAATATTATATTTAAT-T
1 TAATATTATCTTAATAGTTTAATATTA-ATTTAATAT
*
8247375 TAATACTTATCTTAATAGTATT-TTATTAATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAATTTAATAT
8247412 TAA
1 TAA
8247415 AGTGATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
36 12 0.34
37 21 0.60
38 2 0.06
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAATTTAATAT
Found at i:8247992 original size:57 final size:57
Alignment explanation
Indices: 8247827--8247994 Score: 300
Period size: 57 Copynumber: 2.9 Consensus size: 57
8247817 CTATTCATGC
*
8247827 GTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAATATTTCCTGTACACTT
1 GTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAATATTTCCTGTTCACTT
8247884 GTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAATATTTCCTGTTCACTT
1 GTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAATATTTCCTGTTCACTT
* * *
8247941 GTCTTCTCTTGCAGGGAATATTTACTGTTTTCTCCAGAGAATATTTTCTGTTCA
1 GTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAATATTTCCTGTTCA
8247995 TGCATCTTTT
Statistics
Matches: 107, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
57 107 1.00
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.43
Consensus pattern (57 bp):
GTCTTTTCTTGCAGGGAATATTTACTGTTTTCGCCAGAGAATATTTCCTGTTCACTT
Found at i:8256221 original size:57 final size:57
Alignment explanation
Indices: 8256148--8256338 Score: 287
Period size: 57 Copynumber: 3.4 Consensus size: 57
8256138 AAAAGATGCA
*
8256148 TGAACAGGAAATATTCTCTAGCGAAAACAGTAAATATTCCCTGCAAGAAAAGACAAG
1 TGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCCTGCAAGAAAAGACAAG
* *
8256205 TGAACATGAAATATTCTCTGGCGGAAACTA-TAAATATTCCCTGCAAGAAAAGACAAG
1 TGAACAGGAAATATTCTCTGGCGAAAAC-AGTAAATATTCCCTGCAAGAAAAGACAAG
* *
8256262 TGAACAGGAAATTTTCTCTGGCGAAAACAGTAAATATTCCCTACAAGAAAAGACACA-
1 TGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCCTGCAAGAAAAGACA-AG
* *
8256319 TGAATAGTAAATATTCTCTG
1 TGAACAGGAAATATTCTCTG
8256339 TAGTTTGTAT
Statistics
Matches: 121, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
56 1 0.01
57 118 0.98
58 2 0.02
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (57 bp):
TGAACAGGAAATATTCTCTGGCGAAAACAGTAAATATTCCCTGCAAGAAAAGACAAG
Found at i:8256595 original size:16 final size:17
Alignment explanation
Indices: 8256556--8256595 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
8256546 AATTTTCTCC
8256556 AAATT-TTTAAGCTTTT
1 AAATTATTTAAGCTTTT
*
8256572 AAA-AATTTAAG-TTTT
1 AAATTATTTAAGCTTTT
8256587 AAATTATTT
1 AAATTATTT
8256596 TTCTTTTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (17 bp):
AAATTATTTAAGCTTTT
Found at i:8261412 original size:13 final size:13
Alignment explanation
Indices: 8261394--8261440 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
8261384 AGAGGGTAGG
*
8261394 ATTCTGTTTATCT
1 ATTCTGTATATCT
*
8261407 ATTCTGTACATCT
1 ATTCTGTATATCT
8261420 GATTCTG-ATATCT
1 -ATTCTGTATATCT
8261433 ATTTCTGT
1 A-TTCTGT
8261441 GATGGACTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
12 1 0.04
13 21 0.75
14 6 0.21
ACGTcount: A:0.19, C:0.17, G:0.11, T:0.53
Consensus pattern (13 bp):
ATTCTGTATATCT
Found at i:8264027 original size:2 final size:2
Alignment explanation
Indices: 8264020--8264059 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
8264010 AAATTCTACC
8264020 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8264060 CAAACTTACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8264949 original size:44 final size:43
Alignment explanation
Indices: 8264803--8264974 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
8264793 AGCTCGTACA
* * *
8264803 ATGCCAACGTCTCAGACATGGTCTTACATGTAA-T-CAACTATCA
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATTACAA--ATCG
* * * *
8264846 ATGCC-ACTGTCCCCGACAGGGTCTTACACG-AACT-CATATACG
1 ATGCCAAC-GTCCCAGACATGGTCTTACACGTAATTACAAAT-CG
* * *
8264888 ATGCCGATGTCCCAGACATGGTCTTACACTTAAATTACAAATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGT-AATTACAAATCG
* * *
8264932 ATGCCAACGTCCTAGACATGGTTTTACACGTAATTACATATCG
1 ATGCCAACGTCCCAGACATGGTCTTACACGTAATTACAAATCG
8264975 GAATCCTATG
Statistics
Matches: 104, Mismatches: 18, Indels: 14
0.76 0.13 0.10
Matches are distributed among these distances:
41 2 0.02
42 29 0.28
43 38 0.37
44 31 0.30
45 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACATGGTCTTACACGTAATTACAAATCG
Found at i:8267352 original size:17 final size:18
Alignment explanation
Indices: 8267332--8267368 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
8267322 CTATTTCTTA
8267332 TTTAG-ATTAATTAGAGT
1 TTTAGCATTAATTAGAGT
*
8267349 TTTAGCATTATTTAGAGT
1 TTTAGCATTAATTAGAGT
8267367 TT
1 TT
8267369 CATTTGGTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.30, C:0.03, G:0.16, T:0.51
Consensus pattern (18 bp):
TTTAGCATTAATTAGAGT
Found at i:8274074 original size:61 final size:61
Alignment explanation
Indices: 8273979--8274101 Score: 228
Period size: 61 Copynumber: 2.0 Consensus size: 61
8273969 GTGCAAATAA
*
8273979 TGTTCGACGTGACTCTTATGGAAATGATGAGACTTTGGTTAATAATGACCGTGGGCAACAT
1 TGTTCGACGTGACTCTTATGCAAATGATGAGACTTTGGTTAATAATGACCGTGGGCAACAT
*
8274040 TGTTCGACGTGTCTCTTATGCAAATGATGAGACTTTGGTTAATAATGACCGTGGGCAACAT
1 TGTTCGACGTGACTCTTATGCAAATGATGAGACTTTGGTTAATAATGACCGTGGGCAACAT
8274101 T
1 T
8274102 TTTTTAGCTA
Statistics
Matches: 60, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (61 bp):
TGTTCGACGTGACTCTTATGCAAATGATGAGACTTTGGTTAATAATGACCGTGGGCAACAT
Found at i:8275850 original size:11 final size:11
Alignment explanation
Indices: 8275836--8275932 Score: 58
Period size: 11 Copynumber: 8.4 Consensus size: 11
8275826 ATAAAATTAA
8275836 AAAAGTATTTT
1 AAAAGTATTTT
8275847 AAAA-TATTTT
1 AAAAGTATTTT
* *
8275857 AAAATTAAAAATTT
1 AAAAGT---ATTTT
8275871 AAAAGTATTTT
1 AAAAGTATTTT
8275882 AAAA--A-TTT
1 AAAAGTATTTT
*
8275890 AAAATTAAAAATTTAAT
1 AAAAGT----ATTT--T
8275907 AAAAGTATTTT
1 AAAAGTATTTT
8275918 AAAAGTATTTT
1 AAAAGTATTTT
8275929 AAAA
1 AAAA
8275933 TTTAAAAAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 26
0.70 0.04 0.26
Matches are distributed among these distances:
8 7 0.10
9 1 0.01
10 10 0.14
11 29 0.42
13 4 0.06
14 10 0.14
15 2 0.03
17 6 0.09
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (11 bp):
AAAAGTATTTT
Found at i:8275873 original size:14 final size:14
Alignment explanation
Indices: 8275854--8275905 Score: 59
Period size: 14 Copynumber: 3.4 Consensus size: 14
8275844 TTTAAAATAT
8275854 TTTAAAATTAAAAA
1 TTTAAAATTAAAAA
8275868 TTTAAAAGTATTTTAAAAA
1 TTT-AAA--A--TTAAAAA
8275887 TTTAAAATTAAAAA
1 TTTAAAATTAAAAA
8275901 TTTAA
1 TTTAA
8275906 TAAAAGTATT
Statistics
Matches: 33, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
14 15 0.45
15 3 0.09
16 1 0.03
17 1 0.03
18 3 0.09
19 10 0.30
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
TTTAAAATTAAAAA
Found at i:8275905 original size:47 final size:47
Alignment explanation
Indices: 8275845--8275939 Score: 117
Period size: 47 Copynumber: 2.0 Consensus size: 47
8275835 AAAAAGTATT
8275845 TTAAAATATTTTAAAATTAAAA-A-TTTAAAAGTATTTTAAAAATTTAAAA
1 TTAAAATATTTT--AA-TAAAAGATTTTAAAAGTATTTT-AAAATTTAAAA
8275894 TTAAAA-A-TTTAATAAAAGTATTTTAAAAGTATTTTAAAATTTAAAA
1 TTAAAATATTTTAATAAAAG-ATTTTAAAAGTATTTTAAAATTTAAAA
8275940 AAAAATAATA
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
44 5 0.12
45 2 0.05
46 12 0.28
47 17 0.40
48 1 0.02
49 6 0.14
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (47 bp):
TTAAAATATTTTAATAAAAGATTTTAAAAGTATTTTAAAATTTAAAA
Found at i:8275940 original size:19 final size:19
Alignment explanation
Indices: 8275827--8275893 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 19
8275817 AAAATTAAAA
*
8275827 TAAAATTAAAAAAGTATTT
1 TAAAATTTAAAAAGTATTT
**
8275846 TAAAATATTTTAAA--A-TT
1 TAAAAT-TTAAAAAGTATTT
*
8275863 AAAAATTT-AAAAGTATTT
1 TAAAATTTAAAAAGTATTT
8275881 TAAAAATTTAAAA
1 T-AAAATTTAAAA
8275894 TTAAAAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 11
0.68 0.11 0.21
Matches are distributed among these distances:
15 3 0.08
16 2 0.06
17 8 0.22
18 3 0.08
19 13 0.36
20 7 0.19
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (19 bp):
TAAAATTTAAAAAGTATTT
Found at i:8276297 original size:29 final size:29
Alignment explanation
Indices: 8276255--8276312 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
8276245 CTGTTTAATT
8276255 TGTCAATATTTAGCAATCAATTTCTCATC
1 TGTCAATATTTAGCAATCAATTTCTCATC
8276284 TGTCAATATTTAGCAATCAATTTCTCATC
1 TGTCAATATTTAGCAATCAATTTCTCATC
8276313 AATTTCTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (29 bp):
TGTCAATATTTAGCAATCAATTTCTCATC
Found at i:8282585 original size:21 final size:23
Alignment explanation
Indices: 8282539--8282589 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
8282529 AAGTCTCTTA
8282539 ATTTTAAAAATTTGTAAGTAATT
1 ATTTTAAAAATTTGTAAGTAATT
* *
8282562 ATTTTAAAATTTTGTTA-T-ATT
1 ATTTTAAAAATTTGTAAGTAATT
8282583 ATTTTAA
1 ATTTTAA
8282590 CTTATTTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 10 0.38
22 1 0.04
23 15 0.58
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (23 bp):
ATTTTAAAAATTTGTAAGTAATT
Found at i:8282596 original size:10 final size:10
Alignment explanation
Indices: 8282558--8282604 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
8282548 ATTTGTAAGT
8282558 AATTATTTTAA
1 AATTATTTT-A
8282569 AATT-TTGTTA
1 AATTATT-TTA
*
8282579 TATTATTTTA
1 AATTATTTTA
*
8282589 ACTTATTTTA
1 AATTATTTTA
8282599 AATTAT
1 AATTAT
8282605 AATAATATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
10 22 0.73
11 8 0.27
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (10 bp):
AATTATTTTA
Found at i:8293846 original size:62 final size:58
Alignment explanation
Indices: 8293732--8293864 Score: 178
Period size: 62 Copynumber: 2.2 Consensus size: 58
8293722 ATCACTTTAA
* * *
8293732 TATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTTAATC
1 TATTAAATTAATAGAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAATC
8293790 TTATTAAATTAATAGAATATTTATCTACAAGATAAACATTA-AGTTAAATTTAATATTAAATC
1 -TATTAAATTAATAGAATATTTA--T-CAAGATAAACATTAGA-TTAAATTTAATATTAAATC
*
8293852 TATTAAAATAATA
1 TATTAAATTAATA
8293865 TTATTTTGGG
Statistics
Matches: 66, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
59 21 0.32
61 14 0.21
62 31 0.47
ACGTcount: A:0.50, C:0.05, G:0.04, T:0.42
Consensus pattern (58 bp):
TATTAAATTAATAGAATATTTATCAAGATAAACATTAGATTAAATTTAATATTAAATC
Found at i:8294295 original size:9 final size:9
Alignment explanation
Indices: 8294283--8294322 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
8294273 AAATTAACTA
8294283 AATTACCCG
1 AATTACCCG
*
8294292 AATTAACCG
1 AATTACCCG
8294301 AATTACCCG
1 AATTACCCG
*
8294310 AATTACCTG
1 AATTACCCG
8294319 AATT
1 AATT
8294323 GAACCACTAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.38, C:0.25, G:0.10, T:0.28
Consensus pattern (9 bp):
AATTACCCG
Found at i:8294297 original size:18 final size:18
Alignment explanation
Indices: 8294274--8294314 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
8294264 TTTGGTTCAA
*
8294274 AATTAACTAAATTACCCG
1 AATTAACCAAATTACCCG
*
8294292 AATTAACCGAATTACCCG
1 AATTAACCAAATTACCCG
8294310 AATTA
1 AATTA
8294315 CCTGAATTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.44, C:0.22, G:0.07, T:0.27
Consensus pattern (18 bp):
AATTAACCAAATTACCCG
Found at i:8294395 original size:21 final size:21
Alignment explanation
Indices: 8294371--8294412 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
8294361 AATTAACACA
8294371 TAAATTATTTGTAATTTTTAT
1 TAAATTATTTGTAATTTTTAT
8294392 TAAATTATTTGTAATTTTTAT
1 TAAATTATTTGTAATTTTTAT
8294413 GATTGGGTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
TAAATTATTTGTAATTTTTAT
Found at i:8295208 original size:9 final size:9
Alignment explanation
Indices: 8295194--8295225 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
8295184 TAAACTTAAG
8295194 TATATATAT
1 TATATATAT
8295203 TATATATAT
1 TATATATAT
8295212 TATATTATAT
1 TATA-TATAT
8295222 TATA
1 TATA
8295226 AAAGAACAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
TATATATAT
Found at i:8295215 original size:5 final size:5
Alignment explanation
Indices: 8295194--8295225 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
8295184 TAAACTTAAG
8295194 TATA- TATAT TATA- TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
8295226 AAAGAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 8 0.31
5 18 0.69
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (5 bp):
TATAT
Found at i:8300734 original size:24 final size:24
Alignment explanation
Indices: 8300707--8300762 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 24
8300697 TATATATCAC
*
8300707 TATTATAAA-ATTATATAATATAAA
1 TATTATAAACAAT-TATAATATAAA
*
8300731 TATTATAAACAATTATAATATATA
1 TATTATAAACAATTATAATATAAA
8300755 TATATATA
1 TAT-TATA
8300763 TATATATAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 22 0.79
25 6 0.21
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (24 bp):
TATTATAAACAATTATAATATAAA
Found at i:8304438 original size:17 final size:17
Alignment explanation
Indices: 8304392--8304442 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
8304382 CAAATAAACA
8304392 AAAATATATAGAAATGAC
1 AAAAT-TATAGAAATGAC
* *
8304410 AAAATTAGAGAAATGAG
1 AAAATTATAGAAATGAC
8304427 AAACATT-TAGAAATGA
1 AAA-ATTATAGAAATGA
8304443 ATGTGGTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.59, C:0.04, G:0.16, T:0.22
Consensus pattern (17 bp):
AAAATTATAGAAATGAC
Found at i:8308294 original size:30 final size:31
Alignment explanation
Indices: 8308260--8308318 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
8308250 GTAAATACCC
* * *
8308260 AAAATTTGAGGGGTTAA-AGTGTAAATATGA
1 AAAATTTGAAGGATCAATAGTGTAAATATGA
8308290 AAAATTTGAAGGATCAATAGTGTAAATAT
1 AAAATTTGAAGGATCAATAGTGTAAATAT
8308319 TTTAAGGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 14 0.56
31 11 0.44
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.31
Consensus pattern (31 bp):
AAAATTTGAAGGATCAATAGTGTAAATATGA
Found at i:8309745 original size:2 final size:2
Alignment explanation
Indices: 8309740--8309785 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
8309730 TATATATATA
8309740 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8309782 TG TG
1 TG TG
8309786 AATATTCAGC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:8310450 original size:57 final size:57
Alignment explanation
Indices: 8310338--8310537 Score: 294
Period size: 57 Copynumber: 3.4 Consensus size: 57
8310328 AATTGACGGT
8310338 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAGCCCTCCCGAAGAATATGTGTG
1 AAAAA-GATCTAGCCCGGACGGGTGAT-C--T--TGATATAGCCCTCCCGAAGAATATGTGTG
*
8310401 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTATG
1 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
*
8310458 AAAAAGATCTAGCCTGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTG-G
1 AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
* *
8310514 AAAATGGATTTAGCCCGGACGGGT
1 AAAA-AGATCTAGCCCGGACGGGT
8310538 AAACCAAATT
Statistics
Matches: 130, Mismatches: 6, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
56 5 0.04
57 97 0.75
59 1 0.01
61 1 0.01
62 21 0.16
63 5 0.04
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.23
Consensus pattern (57 bp):
AAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAATATGTGTG
Found at i:8310773 original size:67 final size:66
Alignment explanation
Indices: 8310665--8310794 Score: 199
Period size: 67 Copynumber: 2.0 Consensus size: 66
8310655 TTTATATTAC
* * *
8310665 AGGGGATTTAGCCTGAACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTCTCTT
1 AGGGGATTTAGCCTGAACTGGTAATCCCACTGTAAGAAATGAGGTTCG-AGGAATGTGCTCTCTT
8310730 GT
65 GT
*
8310732 AGGGGATTTAGCCT-AGACTGGTAATCCCACTGTAAGAAATGAGGTTTGAGGAATGTGCTCTCT
1 AGGGGATTTAGCCTGA-ACTGGTAATCCCACTGTAAGAAATGAGGTTCGAGGAATGTGCTCTCT
8310795 GAATTGGAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
66 14 0.24
67 44 0.76
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (66 bp):
AGGGGATTTAGCCTGAACTGGTAATCCCACTGTAAGAAATGAGGTTCGAGGAATGTGCTCTCTTG
T
Found at i:8316311 original size:34 final size:35
Alignment explanation
Indices: 8316245--8316311 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
8316235 CAAACACCAA
8316245 AAAATATTTTTCAGTAAATCATTTCACAGAAAAGT
1 AAAATATTTTTCAGTAAATCATTTCACAGAAAAGT
* * *
8316280 AAAATATTTTTCCG-AAATCATTTTACGGAAAA
1 AAAATATTTTTCAGTAAATCATTTCACAGAAAA
8316312 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.12, G:0.09, T:0.34
Consensus pattern (35 bp):
AAAATATTTTTCAGTAAATCATTTCACAGAAAAGT
Found at i:8337015 original size:20 final size:20
Alignment explanation
Indices: 8336990--8337042 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
8336980 TTTTTTCTAA
8336990 AAAGTATAGATACTTGGTGC
1 AAAGTATAGATACTTGGTGC
* *
8337010 AAAGTATAGATATTTTGTGC
1 AAAGTATAGATACTTGGTGC
*
8337030 AAAGTATTGATAC
1 AAAGTATAGATAC
8337043 CTTGACTTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.08, G:0.21, T:0.34
Consensus pattern (20 bp):
AAAGTATAGATACTTGGTGC
Found at i:8341324 original size:16 final size:16
Alignment explanation
Indices: 8341292--8341342 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
8341282 AGAAAACAAA
*
8341292 AGAAAAGAAGAGG-AAG
1 AGAAAA-AAAAGGAAAG
8341308 AGAAAAAAAAGGAAAG
1 AGAAAAAAAAGGAAAG
*
8341324 ACGATAAAAAAGAGAAAG
1 A-GAAAAAAAAG-GAAAG
8341342 A
1 A
8341343 AAGGGGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 5 0.17
16 10 0.33
17 9 0.30
18 6 0.20
ACGTcount: A:0.69, C:0.02, G:0.27, T:0.02
Consensus pattern (16 bp):
AGAAAAAAAAGGAAAG
Found at i:8341340 original size:18 final size:17
Alignment explanation
Indices: 8341276--8341342 Score: 57
Period size: 17 Copynumber: 3.9 Consensus size: 17
8341266 TATAAGAAAG
* *
8341276 AAAAAAAGA-AAACAAA
1 AAAAAAAGAGAAAGAGA
*
8341292 AGAAAAGAAGAGGAAGAGA
1 A-AAAA-AAGAGAAAGAGA
8341311 AAAAAAAG-GAAAGACGA
1 AAAAAAAGAGAAAGA-GA
*
8341328 TAAAAAAGAGAAAGA
1 AAAAAAAGAGAAAGA
8341343 AAGGGGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
16 6 0.15
17 16 0.39
18 14 0.34
19 5 0.12
ACGTcount: A:0.73, C:0.03, G:0.22, T:0.01
Consensus pattern (17 bp):
AAAAAAAGAGAAAGAGA
Found at i:8344071 original size:18 final size:18
Alignment explanation
Indices: 8344050--8344106 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
8344040 GCAATTTAAT
*
8344050 TTTTTTTCTTTTATGTTC
1 TTTTTTTCTTTTATTTTC
**
8344068 TTTTTAACTTTT-TTTTC
1 TTTTTTTCTTTTATTTTC
8344085 -TTTTTTCTTTTCATTTTC
1 TTTTTTTCTTTT-ATTTTC
8344103 TTTT
1 TTTT
8344107 GCTTTTCCCC
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
16 9 0.29
17 4 0.13
18 15 0.48
19 3 0.10
ACGTcount: A:0.07, C:0.12, G:0.02, T:0.79
Consensus pattern (18 bp):
TTTTTTTCTTTTATTTTC
Found at i:8344554 original size:21 final size:21
Alignment explanation
Indices: 8344530--8344570 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
8344520 AGAAATTATT
8344530 TTTTCCTTATTTATAAATAAC
1 TTTTCCTTATTTATAAATAAC
** *
8344551 TTTTTTTTATTTATAGATAA
1 TTTTCCTTATTTATAAATAA
8344571 AATTTTTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.32, C:0.07, G:0.02, T:0.59
Consensus pattern (21 bp):
TTTTCCTTATTTATAAATAAC
Found at i:8344576 original size:21 final size:21
Alignment explanation
Indices: 8344536--8344580 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
8344526 TATTTTTTCC
**
8344536 TTATTTATAAATAACTTTTTT
1 TTATTTATAAATAAAATTTTT
*
8344557 TTATTTATAGATAAAATTTTT
1 TTATTTATAAATAAAATTTTT
8344578 TTA
1 TTA
8344581 GTTGAACAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATTTATAAATAAAATTTTT
Found at i:8348572 original size:18 final size:18
Alignment explanation
Indices: 8348539--8348573 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
8348529 TTCCTAATTA
* *
8348539 TTTTTAAATTCGGTTTTG
1 TTTTTAAAATCCGTTTTG
8348557 TTTTTAAAATCCGTTTT
1 TTTTTAAAATCCGTTTT
8348574 AAGAAAATTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.09, G:0.11, T:0.60
Consensus pattern (18 bp):
TTTTTAAAATCCGTTTTG
Found at i:8349682 original size:17 final size:17
Alignment explanation
Indices: 8349656--8349703 Score: 69
Period size: 17 Copynumber: 2.8 Consensus size: 17
8349646 CATATTTTTG
8349656 ATACCCATATCTTTCTA
1 ATACCCATATCTTTCTA
* * *
8349673 ATACCTATATCTTTTTG
1 ATACCCATATCTTTCTA
8349690 ATACCCATATCTTT
1 ATACCCATATCTTT
8349704 GACTTTCTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.27, C:0.25, G:0.02, T:0.46
Consensus pattern (17 bp):
ATACCCATATCTTTCTA
Found at i:8353260 original size:17 final size:17
Alignment explanation
Indices: 8353238--8353287 Score: 75
Period size: 17 Copynumber: 2.9 Consensus size: 17
8353228 TCTCAGATTT
8353238 TGATACCCTTATCTTTC
1 TGATACCCTTATCTTTC
8353255 TGATA-CCTATATCTTTC
1 TGATACCCT-TATCTTTC
*
8353272 TGATACCCATATCTTT
1 TGATACCCTTATCTTT
8353288 GACTTTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 3 0.10
17 25 0.83
18 2 0.07
ACGTcount: A:0.22, C:0.26, G:0.06, T:0.46
Consensus pattern (17 bp):
TGATACCCTTATCTTTC
Found at i:8354611 original size:34 final size:33
Alignment explanation
Indices: 8354555--8354644 Score: 101
Period size: 34 Copynumber: 2.7 Consensus size: 33
8354545 GAGTTTTTTT
* *
8354555 AAAATAATTAAATTAGGTTTTAGGGGTTTTAA-
1 AAAATAATTAAATTAGGGTTTAGAGGTTTTAAG
* **
8354587 ATAAATAAATAAAATTAGGGTTTAGATTTTTTAAG
1 A-AAAT-AATTAAATTAGGGTTTAGAGGTTTTAAG
8354622 AAAATTAATTAAATTAGGGTTTA
1 AAAA-TAATTAAATTAGGGTTTA
8354645 ATTTTTTTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
32 1 0.02
33 4 0.08
34 41 0.85
35 2 0.04
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (33 bp):
AAAATAATTAAATTAGGGTTTAGAGGTTTTAAG
Found at i:8354651 original size:34 final size:32
Alignment explanation
Indices: 8354555--8354660 Score: 97
Period size: 34 Copynumber: 3.2 Consensus size: 32
8354545 GAGTTTTTTT
* ***
8354555 AAAA-TAATTAAATTAGGTTTTAGGGGTTTTAA
1 AAAATTAATTAAATTAGGGTTTA-ATTTTTTAA
* *
8354587 ATAAATAAATAAAATTAGGGTTTAGATTTTTTAA
1 A-AAATTAATTAAATTAGGGTTTA-ATTTTTTAA
8354621 GAAAATTAATTAAATTAGGGTTTAATTTTTTTAA
1 -AAAATTAATTAAATTAGGGTTTAA-TTTTTTAA
*
8354655 ATAATT
1 AAAATT
8354661 TTGTGTTTAG
Statistics
Matches: 61, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
32 1 0.02
33 9 0.15
34 50 0.82
35 1 0.02
ACGTcount: A:0.43, C:0.00, G:0.13, T:0.43
Consensus pattern (32 bp):
AAAATTAATTAAATTAGGGTTTAATTTTTTAA
Found at i:8354860 original size:126 final size:126
Alignment explanation
Indices: 8354714--8355235 Score: 677
Period size: 126 Copynumber: 4.2 Consensus size: 126
8354704 AGGATTTTAT
* * * * *
8354714 TTTTTTTATAGTAGTTCCTAAAAAAATAATTTTAAGAAGATGGTTCTAAAAAAATAGTTTCAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
* * * * *
8354779 ACGCTTCAAGCAGGATGCATTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTC
66 ATGCTTCAAACAAGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
8354840 TTTTTCTACAGCAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTCGAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
* * * *
8354905 ATGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGGTC
66 ATGCTTCAAACAAGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
8354966 TTTTTCTACAGTAGTTTCT-ACAAAATAATTTTGAGACGACGGTTCTGAAAAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
* * ** * * *
8355030 ATGCTTCAAACAAGATTCATTGTTAGCAAAATTTTTGAAAAAAGCTCTCACGTGGACACTT
66 ATGCTTCAAACAAGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * * *
8355091 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGGGAAGACTGTTCTAAAATAATAGTGTCAAAT
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
** *
8355156 ATGCTTCAAACAAGATGCACTGTTAGCAAAATTTTTGAAAAAAGCTTCCACGTGGACGCTC
66 ATGCTTCAAACAAGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
8355217 GTTTACTACAGTAGTTCCT
1 TTTTTCTACAGTAGTTCCT
8355236 GTTTGGCCTT
Statistics
Matches: 346, Mismatches: 49, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
125 109 0.32
126 237 0.68
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.31
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTAAAAAAATAGTGTCAAAA
ATGCTTCAAACAAGATGCACTGTTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:8355186 original size:251 final size:251
Alignment explanation
Indices: 8354736--8355232 Score: 692
Period size: 251 Copynumber: 2.0 Consensus size: 251
8354726 AGTTCCTAAA
* * * * *
8354736 AAAATAATTTTAAGAAGATGGTTCTAAAAAAATAGTTTCAAAAACGCTTCAAGCAGGATGCATTG
1 AAAATAATTTTAAGAAGACGGTTCTAAAAAAATAGTGTAAAAAACGCTTCAAACAAGATGCATTG
**
8354801 TTAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGCTCTTTTTCTACAGCAGTTCCTAAAAAAA
66 TTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGCAGTTCCTAAAAAAA
* * *
8354866 TAATTTTGAGAAGACGGTTTTGAAAAAATAGTGTCGAAAATGCTTCAAGCAGGATGCACTGTCAG
131 TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCGAAAATGCTTCAAACAAGATGCACTGTCAG
* * *
8354931 CAAAATTACTGAAAAAAGCTCCCACGTGGACGGTCTTTTTCTACAGTAGTTTCTAC
196 CAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCGTTTACTACAGTAGTTTCTAC
* * * * *
8354987 AAAATAATTTTGAGACGACGGTTCTGAAAAAATAGTGTAAAAAATGCTTCAAACAAGATTCATTG
1 AAAATAATTTTAAGAAGACGGTTCTAAAAAAATAGTGTAAAAAACGCTTCAAACAAGATGCATTG
** * * * *
8355052 TTAGCAAAATTTTTGAAAAAAGCTCTCACGTGGACACTTTTTTTCTACAGTAGTTTCTAAAAAAA
66 TTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGCAGTTCCTAAAAAAA
* * *
8355117 TAATTTTGGGAAGACTGTTCT-AAAATAATAGTGTC-AAATATGCTTCAAACAAGATGCACTGTT
131 TAATTTTGAGAAGACGGTTCTGAAAA-AATAGTGTCGAAA-ATGCTTCAAACAAGATGCACTGTC
** *
8355180 AGCAAAATTTTTGAAAAAAGCTTCCACGTGGACGCTCGTTTACTACAGTAGTT
194 AGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCGTTTACTACAGTAGTT
8355233 CCTGTTTGGC
Statistics
Matches: 214, Mismatches: 30, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
250 7 0.03
251 207 0.97
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (251 bp):
AAAATAATTTTAAGAAGACGGTTCTAAAAAAATAGTGTAAAAAACGCTTCAAACAAGATGCATTG
TTAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGCAGTTCCTAAAAAAA
TAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCGAAAATGCTTCAAACAAGATGCACTGTCAG
CAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCGTTTACTACAGTAGTTTCTAC
Found at i:8358541 original size:18 final size:18
Alignment explanation
Indices: 8358515--8358557 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
8358505 GAGTTGAAAA
* *
8358515 AGGAAACATATAAAGGTT
1 AGGATACATATAAAGGCT
*
8358533 AGGATACATATAAGGGCT
1 AGGATACATATAAAGGCT
8358551 AGGATAC
1 AGGATAC
8358558 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:8366871 original size:42 final size:42
Alignment explanation
Indices: 8366812--8366895 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
8366802 TACTTATCAG
8366812 AAACAAATAATCACTACACCAAAACAGGCTTTCAGCGGCGCT
1 AAACAAATAATCACTACACCAAAACAGGCTTTCAGCGGCGCT
*
8366854 AAACAAATAATCACTACACCAAAATAGGCTTTCAGCGGCGCT
1 AAACAAATAATCACTACACCAAAACAGGCTTTCAGCGGCGCT
8366896 TTTAAAAAAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.40, C:0.27, G:0.14, T:0.18
Consensus pattern (42 bp):
AAACAAATAATCACTACACCAAAACAGGCTTTCAGCGGCGCT
Found at i:8366995 original size:43 final size:43
Alignment explanation
Indices: 8366947--8367256 Score: 464
Period size: 43 Copynumber: 7.2 Consensus size: 43
8366937 TTTGAAAAAG
*
8366947 CGCCGCTAAAGACC-CTGACCTTTAGCGGCGCTTTTTCCACAAT
1 CGCCGCTAAAGACCAC-GACCTTTAGCGGCGCTTTTTCCACAAA
* * *
8366990 CGCCGCTAAAGACCGCGATCTTTAGCAGCGCTTTTTCCACAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
* *
8367033 CGCCGCTAAAGACCACGACATTTAGCGGCGCTTTGTCCACAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
8367076 CGCCGCTAAAGACCACGACCTTTAGCGGCGC-TTTTCCACAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
* *
8367118 CACCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTACACAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
* *
8367161 CGCCGCTAAAGACCACAACCTTTAACGGCGCTTTTTCCACAAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
* *
8367204 CGCCGCTAAAGACCACGACATTTAGCGGCACTTTTTCCA-AAA
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
*
8367246 CCGCCACTAAA
1 -CGCCGCTAAA
8367257 AACATAATCT
Statistics
Matches: 243, Mismatches: 21, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
42 43 0.18
43 199 0.82
44 1 0.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (43 bp):
CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAA
Found at i:8367141 original size:128 final size:129
Alignment explanation
Indices: 8366947--8367246 Score: 462
Period size: 128 Copynumber: 2.3 Consensus size: 129
8366937 TTTGAAAAAG
* * * *
8366947 CGCCGCTAAAGACC-CTGACCTTTAGCGGCGCTTTTTCCACAATCGCCGCTAAAGACCGCGATCT
1 CGCCGCTAAAGACCAC-GACCTTTAGCGGCGCTTTTTCCACAAACACCGCTAAAGACCACGACCT
* * *
8367011 TTAGCAGCGCTTTTTCCACAAACGCCGCTAAAGACCACGACATTTAGCGGCGCTTTGTCCACAAA
65 TTAGCAGCGCTTTTTACACAAACGCCGCTAAAGACCACAACATTTAACGGCGCTTTGTCCACAAA
8367076 CGCCGCTAAAGACCACGACCTTTAGCGGCGC-TTTTCCACAAACACCGCTAAAGACCACGACCTT
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAACACCGCTAAAGACCACGACCTT
* * *
8367140 TAGCGGCGCTTTTTACACAAACGCCGCTAAAGACCACAACCTTTAACGGCGCTTTTTCCACAAA
66 TAGCAGCGCTTTTTACACAAACGCCGCTAAAGACCACAACATTTAACGGCGCTTTGTCCACAAA
* *
8367204 CGCCGCTAAAGACCACGACATTTAGCGGCACTTTTTCCA-AAAC
1 CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAAC
8367247 CGCCACTAAA
Statistics
Matches: 157, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
128 120 0.76
129 36 0.23
130 1 0.01
ACGTcount: A:0.27, C:0.34, G:0.18, T:0.21
Consensus pattern (129 bp):
CGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTTCCACAAACACCGCTAAAGACCACGACCTT
TAGCAGCGCTTTTTACACAAACGCCGCTAAAGACCACAACATTTAACGGCGCTTTGTCCACAAA
Found at i:8371583 original size:27 final size:27
Alignment explanation
Indices: 8371553--8371609 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
8371543 AAGCATTCTT
8371553 TTTTCTTGTTTACATTCCCTTAATTAA
1 TTTTCTTGTTTACATTCCCTTAATTAA
8371580 TTTTCTTGTTTACATTCCCTTAATTAA
1 TTTTCTTGTTTACATTCCCTTAATTAA
8371607 TTT
1 TTT
8371610 CAACATGTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.21, C:0.18, G:0.04, T:0.58
Consensus pattern (27 bp):
TTTTCTTGTTTACATTCCCTTAATTAA
Found at i:8372836 original size:41 final size:41
Alignment explanation
Indices: 8372779--8373095 Score: 503
Period size: 41 Copynumber: 7.7 Consensus size: 41
8372769 AAATGTTTTT
* * * *
8372779 GCGGCGCTTTTTCAAAAACACTGCT-AAAGCCCCGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAG-CCTGAGCATTA
*
8372820 GCGGCGCTTTTTCAAAAACGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
*
8372861 GCGGCGCTTCCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
* * *
8372902 GCGGCGCTTCCTCAGAAATGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
*
8372943 GCGGCGCTTTCTAAAAAACGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
8372984 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
8373025 GCGGCGCTTTCTCAAAAACGCCGCT-AAAGCTCTGAGCATTA
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAGC-CTGAGCATTA
*
8373066 GCGGCGCTTTTTCAAAAACGCCGCTAAAAG
1 GCGGCGCTTTCTCAAAAACGCCGCTAAAAG
8373096 TCCCAAAAGG
Statistics
Matches: 260, Mismatches: 13, Indels: 5
0.94 0.05 0.02
Matches are distributed among these distances:
40 5 0.02
41 247 0.95
42 8 0.03
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTCTCAAAAACGCCGCTAAAAGCCTGAGCATTA
Found at i:8373589 original size:2 final size:2
Alignment explanation
Indices: 8373582--8373614 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
8373572 TAGTTTAGTT
8373582 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
8373615 GAATGACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8377277 original size:6 final size:6
Alignment explanation
Indices: 8377261--8377295 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
8377251 AATTTTTAAA
*
8377261 AAAAAT GAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
8377296 GTCTTTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:8377558 original size:6 final size:6
Alignment explanation
Indices: 8377557--8377581 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
8377547 TAAAAATAAA
8377557 AAAAAT AAAAAT AAAAAT AAAAAT A
1 AAAAAT AAAAAT AAAAAT AAAAAT A
8377582 TTTAAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:8377895 original size:18 final size:18
Alignment explanation
Indices: 8377874--8377914 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
8377864 ATAAAAAATA
* *
8377874 AAAATATTTTAAAATTTT
1 AAAATATTCTAAAATTCT
*
8377892 AAAAAATTCTAAAATTCT
1 AAAATATTCTAAAATTCT
8377910 AAAAT
1 AAAAT
8377915 TCATTTTTAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.39
Consensus pattern (18 bp):
AAAATATTCTAAAATTCT
Found at i:8378376 original size:10 final size:9
Alignment explanation
Indices: 8378363--8378387 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
8378353 AATTTTAAGA
8378363 TTTTTTATT
1 TTTTTTATT
8378372 TTTTTTATT
1 TTTTTTATT
8378381 TTTTTTA
1 TTTTTTA
8378388 AAATTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTATT
Found at i:8386202 original size:21 final size:21
Alignment explanation
Indices: 8386176--8386217 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
8386166 CCAATATCAA
* *
8386176 TTCCTACCTTTTTCAATGAAG
1 TTCCTACCCTTTGCAATGAAG
8386197 TTCCTACCCTTTGCAATGAAG
1 TTCCTACCCTTTGCAATGAAG
8386218 GTATTTGTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (21 bp):
TTCCTACCCTTTGCAATGAAG
Found at i:8386466 original size:240 final size:241
Alignment explanation
Indices: 8385992--8386435 Score: 649
Period size: 240 Copynumber: 1.8 Consensus size: 241
8385982 GTTGAGTTAT
* *
8385992 AAAAAAAGAAAAGAGAATATATATAGTATATTTGAAGCACAAGGTTTGGAATATAAAAAAAAAAA
1 AAAAAAAGAAAAGAGAATATATATAGCATATTTGAAGCACAAGGTTTGGAAGATAAAAAAAAAAA
*
8386057 GAGAAAAGGCTAGTTTTGTGAAAGTGATTGTTTCCCGGCTCTAAAAATTTCCTTTACAAATATTT
66 GAGAAAAGGCTAGTTTTGTGAAAGTGATTGTTTCCCGGCTCTAAAAATTTCCTTTACAAACATTT
* * *
8386122 TTGCCACACTTTAAGAACCTTCTTTTCTTTTAGCCTACCCTACACCAATATCAATTCCTACCTTT
131 TCGCCACACTTTAAGAACCTTCTTTTCTTTTAGCCTACCCTACACCAATATCAACTCCTACCATT
* * * *** *
8386187 TTCAATGAAGTTCCTACCCTTTGCAATGAAGGTATTTGTTCAAAAA
196 TGCAATCAAGTTCCAACCCTGACCAACGAAGGTATTTGTTCAAAAA
* *
8386233 AAAAAAAG-AGAGAGAATATATATAGCATATTTGCAGCACAAGGTTTGGAAGATAAAAAAAGAAG
1 AAAAAAAGAAAAGAGAATATATATAGCATATTTGAAGCACAAGGTTTGGAAGATAAAAAAA-AA-
* *
8386297 AAGAGAAAA-GCTAGTTTTGTGAAAGTGATTGTTTCCCCGAGCTTTAAAAATTTTCTTTACAAAC
64 AAGAGAAAAGGCTAGTTTTGTGAAAGTGATTGTTT-CCCG-GCTCTAAAAATTTCCTTTACAAAC
* * *
8386361 ATTTTCGCCACACTTTAAGAACCCTTTTTTTCTTTTAGCCTACTCTACACCGATATCAACTCCTA
127 ATTTTCGCCACACTTTAAGAA-CCTTCTTTTCTTTTAGCCTACCCTACACCAATATCAACTCCTA
8386426 CCATTTGCAA
191 CCATTTGCAA
8386436 CACTTTTGAA
Statistics
Matches: 184, Mismatches: 14, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
240 48 0.26
241 35 0.19
242 13 0.07
243 41 0.22
244 47 0.26
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (241 bp):
AAAAAAAGAAAAGAGAATATATATAGCATATTTGAAGCACAAGGTTTGGAAGATAAAAAAAAAAA
GAGAAAAGGCTAGTTTTGTGAAAGTGATTGTTTCCCGGCTCTAAAAATTTCCTTTACAAACATTT
TCGCCACACTTTAAGAACCTTCTTTTCTTTTAGCCTACCCTACACCAATATCAACTCCTACCATT
TGCAATCAAGTTCCAACCCTGACCAACGAAGGTATTTGTTCAAAAA
Found at i:8395728 original size:18 final size:18
Alignment explanation
Indices: 8395692--8395744 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 18
8395682 CATATCTTTG
8395692 ATTTATATATATACTTATTGA
1 ATTTATATATATA-TTA-T-A
8395713 TATTTATATATATATTATA
1 -ATTTATATATATATTATA
*
8395732 ATTTTTATATATA
1 ATTTATATATATA
8395745 CATATATTCA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 12 0.40
19 1 0.03
20 1 0.03
21 3 0.10
22 13 0.43
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
ATTTATATATATATTATA
Found at i:8395899 original size:35 final size:35
Alignment explanation
Indices: 8395846--8395914 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
8395836 AAAATATGTG
* * *
8395846 TACATACATATGTTTTTTATATTTTCATAATTTTA
1 TACATACATATATCTTTTATACTTTCATAATTTTA
*
8395881 TACATATATATATCTTTTATACTTTCATAATTTT
1 TACATACATATATCTTTTATACTTTCATAATTTT
8395915 TGATCATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.32, C:0.10, G:0.01, T:0.57
Consensus pattern (35 bp):
TACATACATATATCTTTTATACTTTCATAATTTTA
Found at i:8400731 original size:80 final size:80
Alignment explanation
Indices: 8400598--8400767 Score: 286
Period size: 80 Copynumber: 2.1 Consensus size: 80
8400588 TAAATATTCT
* * * *
8400598 TAGATTATTTTATTCTCCGGATCTACTTTCGTCCCTATAATAGGTCCTCAGATATCAATGATATG
1 TAGATTTTTTTATTCTCCGGATCTACTTTCGTCCCTATAACAGGTCATCAGATATCAATGACATG
8400663 TGTCTAGATTAAACC
66 TGTCTAGATTAAACC
8400678 TAGATTTTTTTATTCTCCGGATCTACTTTCGTCCCTATAACAGGTCATCAGATATCAATGACATG
1 TAGATTTTTTTATTCTCCGGATCTACTTTCGTCCCTATAACAGGTCATCAGATATCAATGACATG
8400743 TGTCTAGATTAAACC
66 TGTCTAGATTAAACC
8400758 TCAGGATTTT
1 T-A-GATTTT
8400768 GGAGATAACT
Statistics
Matches: 84, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
80 77 0.92
81 1 0.01
82 6 0.07
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (80 bp):
TAGATTTTTTTATTCTCCGGATCTACTTTCGTCCCTATAACAGGTCATCAGATATCAATGACATG
TGTCTAGATTAAACC
Found at i:8401513 original size:14 final size:13
Alignment explanation
Indices: 8401493--8401552 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 13
8401483 AAATTCAATC
8401493 AAAAAAAAACAAA
1 AAAAAAAAACAAA
*
8401506 ACAAAAAAAAGAAA
1 A-AAAAAAAACAAA
8401520 AAAAAAGAAA-AGAA
1 AAAAAA-AAACA-AA
*
8401534 GAAAAAGAAAAGAAA
1 -AAAAA-AAAACAAA
8401549 AAAA
1 AAAA
8401553 GGAGAGGCCA
Statistics
Matches: 40, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
13 7 0.17
14 21 0.52
15 10 0.25
16 2 0.05
ACGTcount: A:0.87, C:0.03, G:0.10, T:0.00
Consensus pattern (13 bp):
AAAAAAAAACAAA
Found at i:8401520 original size:24 final size:24
Alignment explanation
Indices: 8401493--8401550 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
8401483 AAATTCAATC
8401493 AAAAAAAAACAAAACAAAAAAAAG
1 AAAAAAAAACAAAACAAAAAAAAG
* * *
8401517 AAAAAAAAAGAAAAGAAGAAAAAG
1 AAAAAAAAACAAAACAAAAAAAAG
8401541 AAAAGAAAAA
1 AAAA-AAAAA
8401551 AAGGAGAGGC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.86, C:0.03, G:0.10, T:0.00
Consensus pattern (24 bp):
AAAAAAAAACAAAACAAAAAAAAG
Found at i:8401531 original size:5 final size:5
Alignment explanation
Indices: 8401493--8401549 Score: 55
Period size: 5 Copynumber: 11.8 Consensus size: 5
8401483 AAATTCAATC
* * * * *
8401493 AAAAA AAAAC AAAAC AAAA- AAAAG AAAAA AAAAG AAAAG AAGA- AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
8401541 AAAAG AAAA
1 AAAAG AAAA
8401550 AAAGGAGAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
4 7 0.16
5 38 0.84
ACGTcount: A:0.86, C:0.04, G:0.11, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:8401996 original size:85 final size:84
Alignment explanation
Indices: 8401825--8401989 Score: 233
Period size: 85 Copynumber: 2.0 Consensus size: 84
8401815 CTTTCATCTT
* * * * * *
8401825 ATTCATTTTGTATCTTAGCAAAATTTGATATCTTGATTATTTATTTATTTCGAGCTTTGTTCTCA
1 ATTCATTTTGAATCTTAGCAAAATTTCATATCCTGATTATTTATTTATTTAGAGCTCTGCTCTCA
8401890 ATAAAATTCCATCTTGTCC
66 ATAAAATTCCATCTTGTCC
*
8401909 ATTCATTTTGAATCTTAGCAAAA-TTCACTATCCTGATTAATTTATTTGTTTAGAGCTCTGCTCT
1 ATTCATTTTGAATCTTAGCAAAATTTCA-TATCCTGATT-ATTTATTTATTTAGAGCTCTGCTCT
*
8401973 CAATAAAATTTCATCTT
64 CAATAAAATTCCATCTT
8401990 TCCCATTGTG
Statistics
Matches: 71, Mismatches: 8, Indels: 3
0.87 0.10 0.04
Matches are distributed among these distances:
83 3 0.04
84 31 0.44
85 37 0.52
ACGTcount: A:0.28, C:0.16, G:0.09, T:0.47
Consensus pattern (84 bp):
ATTCATTTTGAATCTTAGCAAAATTTCATATCCTGATTATTTATTTATTTAGAGCTCTGCTCTCA
ATAAAATTCCATCTTGTCC
Found at i:8403027 original size:89 final size:89
Alignment explanation
Indices: 8402895--8403194 Score: 447
Period size: 89 Copynumber: 3.4 Consensus size: 89
8402885 GCAGAGAAGT
* *
8402895 AGACTAGAAGCAACAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAGACACAAGCCTG
1 AGACTAAAAGCAACAGATCTTGTCTTCCTGTACTGGCAATGAAGCAGATCGAAGACACAAGCCTG
8402960 ACCTCCCTGAGTTTGTAGCGGAGC
66 ACCTCCCTGAGTTTGTAGCGGAGC
** * * *
8402984 AGACTAAAAATAACAGATCTTGTCTTCCTGTACTGGCAATGAAGCAGATCGAAAACACTAGCCTT
1 AGACTAAAAGCAACAGATCTTGTCTTCCTGTACTGGCAATGAAGCAGATCGAAGACACAAGCCTG
*
8403049 ACCTCCCTGAGTTTGTAACGGAGC
66 ACCTCCCTGAGTTTGTAGCGGAGC
* * *
8403073 AGACTAAAAGCAGCAGATCTTGTCTTCCTGTACCGGTAATGAAGCAGATCGAAGACACAAGCCTG
1 AGACTAAAAGCAACAGATCTTGTCTTCCTGTACTGGCAATGAAGCAGATCGAAGACACAAGCCTG
* * **
8403138 ACCTTCCTGAGTTTGCAGTAGAGC
66 ACCTCCCTGAGTTTGTAGCGGAGC
* *
8403162 AGACTAGAAGCAATAGATCTTGTCTTCCTGTAC
1 AGACTAAAAGCAACAGATCTTGTCTTCCTGTAC
8403195 CAGCAGTGGA
Statistics
Matches: 187, Mismatches: 24, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 187 1.00
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (89 bp):
AGACTAAAAGCAACAGATCTTGTCTTCCTGTACTGGCAATGAAGCAGATCGAAGACACAAGCCTG
ACCTCCCTGAGTTTGTAGCGGAGC
Found at i:8403271 original size:44 final size:44
Alignment explanation
Indices: 8403219--8403566 Score: 258
Period size: 44 Copynumber: 8.0 Consensus size: 44
8403209 ATCAAAGATT
* *
8403219 GTAGATCTTGTCTCCCTAATCAGTAGTGGAGCAGATTGAAGACG
1 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
* * * ** * * * *
8403263 GCAAATCTTATCTTCCCGAAATAGTAG-GAAGCAGATTTAAGCCA
1 GTAGATCTTATC-TCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
** * * * * * * *
8403307 CCAG-TCCTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATG
1 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
* * * * * *
8403350 GTAGATCTTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATG
1 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
*
8403394 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACG
1 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
* *
8403438 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATG
1 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
* * * * * *
8403482 GT-GAATCTTATCTTCCTGAG-A-TAGTAAGAAGCAGATTTAAGCCA
1 GTAG-ATCTTATCTCCCTAAGCAGTAGT--GGAGCAGATTGAAGACG
* * * * *
8403526 CTA-ATCCTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGA
1 GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGA
8403567 TTGCAGATCT
Statistics
Matches: 242, Mismatches: 53, Indels: 19
0.77 0.17 0.06
Matches are distributed among these distances:
42 12 0.05
43 45 0.19
44 171 0.71
45 14 0.06
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (44 bp):
GTAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATTGAAGACG
Found at i:8403515 original size:88 final size:88
Alignment explanation
Indices: 8403175--8403750 Score: 266
Period size: 87 Copynumber: 6.6 Consensus size: 88
8403165 CTAGAAGCAA
* * * * ** * * *
8403175 TAGATCTTGTCTTCCTGTACCAGCAGTGGAGTACATCAAAGATTGTAGATCTTGTCTCCCTAATC
1 TAGATCTTATCTCCCTG-AGCAGCAGTGGAGTAGATTGAAGATGGTAGATCTTATCTCCCTAAGC
* *
8403240 AGTAGTGGAGCAGATTGAAGACGG
65 AGTAGTGAAGCAGATCGAAGACGG
* * ** * * ***** * * *
8403264 CAAATCTTATCTTCCC-GA--AATAGTAGGAAGCAGATTTAAGCCACCAG-TCCTATCTCTCTGA
1 TAGATCTTATC-TCCCTGAGCAGCAGT-GG-AGTAGATTGAAGATGGTAGATCTTATCTCCCTAA
* * * * * *
8403325 GCAGCAGTGGAGTAGGTTGAAGATGG
63 GCAGTAGTGAAGCAGATCGAAGACGG
* *
8403351 TAGATCTTATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATGGTAGATCTTATCTCCCTAAGCA
1 TAGATCTTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATGGTAGATCTTATCTCCCTAAGCA
*
8403416 GTAGTGGAGCAGATCGAAGACGG
66 GTAGTGAAGCAGATCGAAGACGG
* * * * * *
8403439 TAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT-GAATCTTATCTTCCTGAG-
1 TAGATCTTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATGGTAG-ATCTTATCTCCCTAAGC
** * **
8403502 A-TAGTAAGAAGCAGATTTAAGCCAC
65 AGTAGT--GAAGCAGATCGAAGACGG
* * * * * *
8403527 TA-ATCCTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATTGCAGATCTTGTCTTCCTGTA-C
1 TAGATCTTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATGGTAGATCTTATCTCCCT-AAGC
* * ** *
8403590 TGGCAGTGAAGCAGATTAAAAAC--
65 -AGTAGTGAAGCAGATCGAAGACGG
* * * * * * * *
8403613 TAG-TCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGACCTTGTCTTCCTGTA-C
1 TAGATCTTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATGGTAGATCTTATCTCCCT-AAGC
* * ** *
8403676 TGGCAGTGAAGCAGATAAAAAAAC--
65 -AGTAGTGAAGCAGAT-CGAAGACGG
* * * * *
8403700 TAG-TCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAAATCTT
1 TAGATCTTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATGGTAGATCTT
8403751 GTCTTCTTGT
Statistics
Matches: 390, Mismatches: 80, Indels: 36
0.77 0.16 0.07
Matches are distributed among these distances:
86 85 0.22
87 159 0.41
88 127 0.33
89 13 0.03
90 6 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.28
Consensus pattern (88 bp):
TAGATCTTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATGGTAGATCTTATCTCCCTAAGCA
GTAGTGAAGCAGATCGAAGACGG
Found at i:8403566 original size:87 final size:86
Alignment explanation
Indices: 8403358--8403778 Score: 377
Period size: 87 Copynumber: 4.8 Consensus size: 86
8403348 TGGTAGATCT
* * * * * *
8403358 TATCTCTCTGAGCAGCAGTGGAGTAGGTTGAAGATGGTAGATCTTATC-TCC-CTAAGCAGTAGT
1 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATGGTAGATCTTGTCTTCCTGTACG-A-CAGT
* * *** *
8403421 GGAGCAGATCGAAGACGGTAGATCT
64 GAAGCAGAT-TAAGAAACTA-ATCC
* * * * * *
8403446 TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGT-GAATCTTATCTTCCTG-A-GATAGTA
1 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATGGTAG-ATCTTGTCTTCCTGTACGACAGT-
**
8403508 AGAAGCAGATTTAAGCCACTAATCC
64 -GAAGCAGA-TTAAGAAACTAATCC
* * * * *
8403533 TATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATTGCAGATCTTGTCTTCCTGTACTGGCAGTG
1 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATGGTAGATCTTGTCTTCCTGTAC-GACAGTG
*
8403598 AAGCAGATTAA-AAACTAGTCC
65 AAGCAGATTAAGAAACTAATCC
* * *
8403619 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGACCTTGTCTTCCTGTACTGGCAGTG
1 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATGGTAGATCTTGTCTTCCTGTAC-GACAGTG
* * *
8403684 AAGCAGATAAAAAAACTAGTCC
65 AAGCAGATTAAGAAACTAATCC
* * * *
8403706 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAAATCTTGTCTTCTTGTACTGGCAGTG
1 TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATGGTAGATCTTGTCTTCCTGTAC-GACAGTG
8403771 AAGCAGAT
65 AAGCAGAT
8403779 CGAAAACAAA
Statistics
Matches: 289, Mismatches: 33, Indels: 23
0.84 0.10 0.07
Matches are distributed among these distances:
86 82 0.28
87 134 0.46
88 64 0.22
89 5 0.02
90 4 0.01
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (86 bp):
TATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATGGTAGATCTTGTCTTCCTGTACGACAGTGA
AGCAGATTAAGAAACTAATCC
Found at i:8403642 original size:86 final size:87
Alignment explanation
Indices: 8403525--8403778 Score: 429
Period size: 87 Copynumber: 2.9 Consensus size: 87
8403515 GATTTAAGCC
* * * *
8403525 ACTAATCCTATCTCCCTGAGCAGCAGTGGAGTAGATTGAAGATTGCAGATCTTGTCTTCCTGTAC
1 ACTAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTTCCTGTAC
*
8403590 TGGCAGTGAAGCAGAT-TAAAA
66 TGGCAGTGAAGCAGATAAAAAA
*
8403611 ACTAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGACCTTGTCTTCCTGTAC
1 ACTAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTTCCTGTAC
8403676 TGGCAGTGAAGCAGATAAAAAA
66 TGGCAGTGAAGCAGATAAAAAA
* *
8403698 ACTAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAAATCTTGTCTTCTTGTAC
1 ACTAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTTCCTGTAC
8403763 TGGCAGTGAAGCAGAT
66 TGGCAGTGAAGCAGAT
8403779 CGAAAACAAA
Statistics
Matches: 158, Mismatches: 9, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 76 0.48
87 82 0.52
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (87 bp):
ACTAGTCCTATCTCCCTGAGCAGTAGTGGAGTAGGTTGAAGATTGTAGATCTTGTCTTCCTGTAC
TGGCAGTGAAGCAGATAAAAAA
Found at i:8404510 original size:44 final size:44
Alignment explanation
Indices: 8404407--8404510 Score: 111
Period size: 44 Copynumber: 2.4 Consensus size: 44
8404397 TATCTCTCTA
* *
8404407 AAGTTGCAGTAGAGCAGGTTGAAATAACAAACCTTGCCCTCCTG
1 AAGTTGCAGTAGGGCAGGTTCAAATAACAAACCTTGCCCTCCTG
* ** * ** *
8404451 AAATTGCAGCGGGGCAGGTTCAAATTACAAGTCTTATCCC-CCTG
1 AAGTTGCAGTAGGGCAGGTTCAAATAACAAACCTT-GCCCTCCTG
8404495 AAGTTGCAGTAGGGCA
1 AAGTTGCAGTAGGGCA
8404511 AGTTGAAGAT
Statistics
Matches: 47, Mismatches: 12, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
44 44 0.94
45 3 0.06
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (44 bp):
AAGTTGCAGTAGGGCAGGTTCAAATAACAAACCTTGCCCTCCTG
Found at i:8406269 original size:3 final size:3
Alignment explanation
Indices: 8406255--8406327 Score: 76
Period size: 3 Copynumber: 24.3 Consensus size: 3
8406245 TAATATGTGC
* * * * * *
8406255 TAT TAT TTT TAT TAT CAT ATAT TAT TAT TAA AAC TAA TA- TAT TAT
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
8406300 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
8406328 GTTGTTGTTG
Statistics
Matches: 59, Mismatches: 9, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
2 2 0.03
3 55 0.93
4 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:8406332 original size:3 final size:3
Alignment explanation
Indices: 8406326--8406369 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
8406316 ATTATTATTA
*
8406326 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTA TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
8406370 ATATTTCCAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.02, C:0.00, G:0.30, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:8406370 original size:6 final size:6
Alignment explanation
Indices: 8406296--8406371 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
8406286 AACTAATATA
* * * * * * * *
8406296 TTATTA TTATTA TTATTA TTATTA TTATTA TTGTTG TTGTTG TTGTTG
1 TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG TTATTG
* * *
8406344 TTGTTG TTGTTG TTGTTG TTATTG TTAT
1 TTATTG TTATTG TTATTG TTATTG TTAT
8406372 ATTTCCATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 67 1.00
ACGTcount: A:0.16, C:0.00, G:0.17, T:0.67
Consensus pattern (6 bp):
TTATTG
Found at i:8406509 original size:3 final size:3
Alignment explanation
Indices: 8406419--8406493 Score: 150
Period size: 3 Copynumber: 25.0 Consensus size: 3
8406409 ATTTGCCTTA
8406419 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
8406467 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
8406494 ATATAGGAGT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:8406524 original size:10 final size:9
Alignment explanation
Indices: 8406419--8406521 Score: 80
Period size: 9 Copynumber: 11.1 Consensus size: 9
8406409 ATTTGCCTTA
*
8406419 TATTATTAT
1 TATTATTTT
*
8406428 TATTATTAT
1 TATTATTTT
*
8406437 TATTATTAT
1 TATTATTTT
*
8406446 TATTATTAT
1 TATTATTTT
*
8406455 TATTATTAT
1 TATTATTTT
*
8406464 TATTATTAT
1 TATTATTTT
*
8406473 TATTATTAT
1 TATTATTTT
8406482 TATTATTATT
1 TATTATT-TT
****
8406492 ATATATAGGAG
1 -TAT-TATTTT
8406503 TATTATTTT
1 TATTATTTT
8406512 TATTATTTT
1 TATTATTTT
8406521 T
1 T
8406522 TATATATACT
Statistics
Matches: 82, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
9 73 0.89
10 4 0.05
11 3 0.04
12 2 0.02
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (9 bp):
TATTATTTT
Found at i:8406665 original size:13 final size:13
Alignment explanation
Indices: 8406643--8406676 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
8406633 TTCTTCATTT
*
8406643 TTTTAAATATCTA
1 TTTTATATATCTA
*
8406656 TTTTATATATGTA
1 TTTTATATATCTA
8406669 TTTTATAT
1 TTTTATAT
8406677 TTTATGATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (13 bp):
TTTTATATATCTA
Found at i:8409650 original size:37 final size:37
Alignment explanation
Indices: 8409571--8409643 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
8409561 ACGCAAAAAT
8409571 TGCAACCTAAGTTTAATTAAGTTTACTGATTTAAGAC
1 TGCAACCTAAGTTTAATTAAGTTTACTGATTTAAGAC
* *
8409608 TGCAACCTAAGTTTATTTGAG-TTAGCTGATTTAAGA
1 TGCAACCTAAGTTTAATTAAGTTTA-CTGATTTAAGA
8409644 TCGCAACTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
36 3 0.09
37 30 0.91
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.38
Consensus pattern (37 bp):
TGCAACCTAAGTTTAATTAAGTTTACTGATTTAAGAC
Found at i:8409792 original size:104 final size:104
Alignment explanation
Indices: 8409599--8409820 Score: 293
Period size: 104 Copynumber: 2.1 Consensus size: 104
8409589 AAGTTTACTG
* *
8409599 ATTTAAGACTGCAACCTAAGTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCTGAACAACTTG
1 ATTTAAGATTGCAAACTAAGTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCTGAACAACTTG
* * * * * **
8409664 CTAACCTATGTTTATAGCTGATATTGTTAAGGTTGGTTA
66 CTAACCTATGCTCACAGCTAATATTATTAAGGTCCGTTA
* *
8409703 ATTTAAGATTGCAAACTAAGTTTATTTGAGTTAGTTGATTTAAGATCGCAACTCTGAAC-AGTTC
1 ATTTAAGATTGCAAACTAAGTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCTGAACAACTT-
* * * *
8409767 GTTGACCTATGCTCACAGCTAATATTATTATGGTCCGTTG
65 GCTAACCTATGCTCACAGCTAATATTATTAAGGTCCGTTA
8409807 ATTTAAGATTGCAA
1 ATTTAAGATTGCAA
8409821 CCCTCGATTT
Statistics
Matches: 102, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
103 3 0.03
104 99 0.97
ACGTcount: A:0.30, C:0.14, G:0.18, T:0.37
Consensus pattern (104 bp):
ATTTAAGATTGCAAACTAAGTTTATTTGAGTTAGCTGATTTAAGATCGCAACTCTGAACAACTTG
CTAACCTATGCTCACAGCTAATATTATTAAGGTCCGTTA
Found at i:8417347 original size:44 final size:44
Alignment explanation
Indices: 8417284--8417371 Score: 149
Period size: 44 Copynumber: 2.0 Consensus size: 44
8417274 ATGAGGGGGA
*
8417284 GTAAATACGCGCTGTACTCTTTTTCCCTTAATCGAGGTTTTGTC
1 GTAAATACCCGCTGTACTCTTTTTCCCTTAATCGAGGTTTTGTC
* *
8417328 GTAAATACCCGTTGTACTCTTTTTTCCTTAATCGAGGTTTTGTC
1 GTAAATACCCGCTGTACTCTTTTTCCCTTAATCGAGGTTTTGTC
8417372 CCATTGGGTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (44 bp):
GTAAATACCCGCTGTACTCTTTTTCCCTTAATCGAGGTTTTGTC
Found at i:8418159 original size:8 final size:8
Alignment explanation
Indices: 8418146--8418172 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
8418136 ATTAATTTTA
8418146 AAAAATAT
1 AAAAATAT
8418154 AAAAATAT
1 AAAAATAT
8418162 AAAAATAT
1 AAAAATAT
8418170 AAA
1 AAA
8418173 TTTTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (8 bp):
AAAAATAT
Found at i:8418605 original size:29 final size:29
Alignment explanation
Indices: 8418572--8418639 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
8418562 ATTTAGGCTT
* * *
8418572 ATTTGAT-TTTTTAAATAGTATAGGGACTA
1 ATTTGATCTATTT-AATAATATAGAGACTA
8418601 ATTTGATCTATTTAATAATATAGAGACTA
1 ATTTGATCTATTTAATAATATAGAGACTA
8418630 ATTTGATCTA
1 ATTTGATCTA
8418640 ACCTCTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 31 0.89
30 4 0.11
ACGTcount: A:0.37, C:0.06, G:0.13, T:0.44
Consensus pattern (29 bp):
ATTTGATCTATTTAATAATATAGAGACTA
Done.