Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 118 of 130
Found at i:23208328 original size:26 final size:26
Alignment explanation
Indices: 23208272--23208320 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
23208262 ACAAATATAA
*
23208272 ATTTTTTTTGGATGTTTCAAAATTAT
1 ATTTTTTTTGGAAGTTTCAAAATTAT
23208298 ATTTTTTTT-GAAGATTT-AAAATT
1 ATTTTTTTTGGAAG-TTTCAAAATT
23208321 TTTATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (26 bp):
ATTTTTTTTGGAAGTTTCAAAATTAT
Found at i:23208339 original size:24 final size:23
Alignment explanation
Indices: 23208312--23208356 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
23208302 TTTTTGAAGA
*
23208312 TTTAAAATTTTTATTTTATTATAT
1 TTTAAAATTATT-TTTTATTATAT
23208336 TTTAAAATTATTTTTTATTAT
1 TTTAAAATTATTTTTTATTAT
23208357 TTTGTTACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTAAAATTATTTTTTATTATAT
Found at i:23211306 original size:14 final size:14
Alignment explanation
Indices: 23211289--23211316 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
23211279 TTTGTTTATC
23211289 AATTTTTGAAAATT
1 AATTTTTGAAAATT
23211303 AATTTTTGAAAATT
1 AATTTTTGAAAATT
23211317 TTGTTATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
AATTTTTGAAAATT
Found at i:23211930 original size:20 final size:20
Alignment explanation
Indices: 23211907--23211945 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
23211897 TATTTATTGT
*
23211907 ATTATTATAT-TATATTTAAA
1 ATTATCATATCTAT-TTTAAA
23211927 ATTATCATATCTATTTTAA
1 ATTATCATATCTATTTTAA
23211946 TCTCATAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTATCATATCTATTTTAAA
Found at i:23214604 original size:28 final size:28
Alignment explanation
Indices: 23214572--23214631 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 28
23214562 ATTACAGTTT
23214572 TTTTATA-AAAAAAAAATCAAAATCTTA
1 TTTTATATAAAAAAAAATCAAAATCTTA
* * *
23214599 CTTTTATATAATAAAATATTAAAATCTTA
1 -TTTTATATAAAAAAAAATCAAAATCTTA
23214628 TTTT
1 TTTT
23214632 GTTTCTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
28 11 0.39
29 17 0.61
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (28 bp):
TTTTATATAAAAAAAAATCAAAATCTTA
Found at i:23224490 original size:12 final size:13
Alignment explanation
Indices: 23224463--23224497 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
23224453 TTTTTTTATT
*
23224463 TTTAATATTTAAA
1 TTTAATATTAAAA
23224476 TTTAAT-TTAAAA
1 TTTAATATTAAAA
23224488 TTTAATATTA
1 TTTAATATTA
23224498 CATAAATCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
TTTAATATTAAAA
Found at i:23225344 original size:1 final size:1
Alignment explanation
Indices: 23225338--23225362 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
23225328 TTTCTAAGCG
23225338 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
23225363 CTCTCTCTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23227256 original size:26 final size:24
Alignment explanation
Indices: 23227221--23227269 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
23227211 CTATCTCATT
23227221 TATTTATTTGAGATGTTTTAAAATTA
1 TATTTATTTGA-AT-TTTTAAAATTA
*
23227247 TATTTTTTTGAATTTTTAAAATT
1 TATTTATTTGAATTTTTAAAATT
23227270 TTGTATCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 10 0.45
25 2 0.09
26 10 0.45
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (24 bp):
TATTTATTTGAATTTTTAAAATTA
Found at i:23227299 original size:19 final size:19
Alignment explanation
Indices: 23227277--23227314 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
23227267 ATTTTGTATC
23227277 TTTTTATATTTTAAAATTA
1 TTTTTATATTTTAAAATTA
* *
23227296 TTTTTATTTTTTAATATTA
1 TTTTTATATTTTAAAATTA
23227315 AAAATCATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTTATATTTTAAAATTA
Found at i:23227306 original size:26 final size:26
Alignment explanation
Indices: 23227236--23227317 Score: 75
Period size: 25 Copynumber: 3.3 Consensus size: 26
23227226 ATTTGAGATG
* **
23227236 TTTTAAAATTATATTT-TTTTGAAT-
1 TTTTAAAATTATTTTTATTTTTTATA
*
23227260 TTTTAAAA-T-TTTGTATCTTTTTATA
1 TTTTAAAATTATTTTTAT-TTTTTATA
23227285 TTTTAAAATTATTTTTATTTTTTA-A
1 TTTTAAAATTATTTTTATTTTTTATA
*
23227310 TATTAAAA
1 TTTTAAAA
23227318 ATCATGATAC
Statistics
Matches: 47, Mismatches: 6, Indels: 9
0.76 0.10 0.15
Matches are distributed among these distances:
22 3 0.06
23 2 0.04
24 13 0.28
25 16 0.34
26 7 0.15
27 6 0.13
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (26 bp):
TTTTAAAATTATTTTTATTTTTTATA
Found at i:23235284 original size:21 final size:21
Alignment explanation
Indices: 23235260--23235323 Score: 53
Period size: 21 Copynumber: 3.1 Consensus size: 21
23235250 AAATCCTTAC
23235260 ATAATTTTGAATTACAATTAA
1 ATAATTTTGAATTACAATTAA
* ** *
23235281 ATAATATAAAATT---ATTCAT
1 ATAATTTTGAATTACAATT-AA
*
23235300 ATAATTTTGAATTACAATTGA
1 ATAATTTTGAATTACAATTAA
23235321 ATA
1 ATA
23235324 TATAAAATTA
Statistics
Matches: 30, Mismatches: 9, Indels: 8
0.64 0.19 0.17
Matches are distributed among these distances:
18 3 0.10
19 11 0.37
21 13 0.43
22 3 0.10
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.42
Consensus pattern (21 bp):
ATAATTTTGAATTACAATTAA
Found at i:23235343 original size:40 final size:40
Alignment explanation
Indices: 23235260--23235344 Score: 127
Period size: 40 Copynumber: 2.1 Consensus size: 40
23235250 AAATCCTTAC
**
23235260 ATAATTTTGAATTACAATTAAATAATATAAAATTATTCAT
1 ATAATTTTGAATTACAATTAAATAATATAAAATTATAAAT
*
23235300 ATAATTTTGAATTACAATTGAAT-ATATAAAATTATAAATT
1 ATAATTTTGAATTACAATTAAATAATATAAAATTATAAA-T
23235340 ATAAT
1 ATAAT
23235345 AAATAAAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.32
40 28 0.68
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (40 bp):
ATAATTTTGAATTACAATTAAATAATATAAAATTATAAAT
Found at i:23235812 original size:27 final size:26
Alignment explanation
Indices: 23235776--23235830 Score: 74
Period size: 27 Copynumber: 2.1 Consensus size: 26
23235766 AATACACAAA
*
23235776 ATTATAATAAGATAAAATAAAATAAT
1 ATTATAATAAAATAAAATAAAATAAT
* *
23235802 ATTATGAATAAAATTAAATTAAATAAT
1 ATTAT-AATAAAATAAAATAAAATAAT
23235829 AT
1 AT
23235831 AATCTTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 5 0.20
27 20 0.80
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.35
Consensus pattern (26 bp):
ATTATAATAAAATAAAATAAAATAAT
Found at i:23235914 original size:17 final size:17
Alignment explanation
Indices: 23235875--23235914 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
23235865 AAATAAGATT
23235875 ATTTATTTATTTATTAAA
1 ATTTA-TTATTTATTAAA
*
23235893 A-TTATTATTTTTTAAA
1 ATTTATTATTTATTAAA
23235909 ATTTAT
1 ATTTAT
23235915 ATAATTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 12 0.60
17 7 0.35
18 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTATTATTTATTAAA
Found at i:23236101 original size:21 final size:21
Alignment explanation
Indices: 23236075--23236116 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
23236065 CTTTAGATAC
23236075 AAATCAAACATAACATAAACT
1 AAATCAAACATAACATAAACT
23236096 AAATCAAACATAACATAAACT
1 AAATCAAACATAACATAAACT
23236117 GATTATCATC
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:0.62, C:0.19, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATCAAACATAACATAAACT
Found at i:23244162 original size:17 final size:16
Alignment explanation
Indices: 23244123--23244173 Score: 50
Period size: 18 Copynumber: 2.9 Consensus size: 16
23244113 TAAGTAAATA
23244123 AATAAAT-AAATAAAAC
1 AATAAATAAAAT-AAAC
23244139 AAGTAAATAAAATAAAC
1 AA-TAAATAAAATAAAC
23244156 ATATAAAATAAAAGTAAA
1 A-AT-AAATAAAA-TAAA
23244174 AAACAAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
16 2 0.07
17 11 0.37
18 13 0.43
19 4 0.13
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (16 bp):
AATAAATAAAATAAAC
Found at i:23246561 original size:18 final size:17
Alignment explanation
Indices: 23246524--23246562 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
23246514 TATATCTTAA
*
23246524 AATTAATTTTAATGTAT
1 AATTAATTTAAATGTAT
*
23246541 AATTAATATTAAATTTAT
1 AATTAAT-TTAAATGTAT
23246559 AATT
1 AATT
23246563 TTTCTCGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 7 0.37
18 12 0.63
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
AATTAATTTAAATGTAT
Found at i:23248416 original size:19 final size:21
Alignment explanation
Indices: 23248392--23248431 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
23248382 TTAATTGTTA
23248392 TTAATAAAA-T-ATTAAAATT
1 TTAATAAAAGTGATTAAAATT
23248411 TTAATAAAAGTGATTAAAATT
1 TTAATAAAAGTGATTAAAATT
23248432 CAATTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.47
20 1 0.05
21 9 0.47
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.40
Consensus pattern (21 bp):
TTAATAAAAGTGATTAAAATT
Found at i:23248895 original size:14 final size:15
Alignment explanation
Indices: 23248878--23248910 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
23248868 ATTTTATTGA
23248878 AATTTATTTAAT-AT
1 AATTTATTTAATCAT
*
23248892 AATTTTTTTAATCAT
1 AATTTATTTAATCAT
23248907 AATT
1 AATT
23248911 ATAATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (15 bp):
AATTTATTTAATCAT
Found at i:23252003 original size:153 final size:153
Alignment explanation
Indices: 23251725--23252029 Score: 540
Period size: 153 Copynumber: 2.0 Consensus size: 153
23251715 TGTGCAACCG
23251725 TGTGCATAAGGTACATTTTGCAAATAGATCTCATCATGCATGTAAGAAAATGAAGACAAACATTA
1 TGTGCATAAGGTACATTTTGCAAATAGATCTCATCATGCATGTAAGAAAATGAAGACAAACATTA
* *
23251790 CTTTCTCACTTTTTTAATTATTTTTTGCATACCAAGACTCCATTAAATATATATATATATATAT-
66 CTTTCTCACTTTTTTAATTATTTTTTGCATACCAAGACTCCATTAAATAAATAAATATATATATG
23251854 ATGAGAAGGAATTAATTTGTACAA
131 A-GAGAAGGAATTAATTTGTACAA
* *
23251878 TGTGCATATGGTACATTTTGCAAATAGATCTCATCATGCATGTAAGAAAATGAAGATAAACATTA
1 TGTGCATAAGGTACATTTTGCAAATAGATCTCATCATGCATGTAAGAAAATGAAGACAAACATTA
* *
23251943 CTTTCTTACTTTTTTAATTCTTTTTTGCATACCAAGACTCCATTAAATAAATAAATATATATATG
66 CTTTCTCACTTTTTTAATTATTTTTTGCATACCAAGACTCCATTAAATAAATAAATATATATATG
23252008 AGAGAAGGAATTAATTTGTACA
131 AGAGAAGGAATTAATTTGTACA
23252030 GTGTAAAATT
Statistics
Matches: 145, Mismatches: 6, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
153 144 0.99
154 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (153 bp):
TGTGCATAAGGTACATTTTGCAAATAGATCTCATCATGCATGTAAGAAAATGAAGACAAACATTA
CTTTCTCACTTTTTTAATTATTTTTTGCATACCAAGACTCCATTAAATAAATAAATATATATATG
AGAGAAGGAATTAATTTGTACAA
Found at i:23260711 original size:12 final size:12
Alignment explanation
Indices: 23260688--23260721 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
23260678 AATATACTTA
23260688 AAAAAAATTTTAT
1 AAAAAAA-TTTAT
*
23260701 AAAATAATTTAT
1 AAAAAAATTTAT
23260713 AAAAAAATT
1 AAAAAAATT
23260722 GAATGATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
AAAAAAATTTAT
Found at i:23264191 original size:14 final size:16
Alignment explanation
Indices: 23264152--23264206 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
23264142 TTGTTATTTA
*
23264152 TATATATTTATATAAT
1 TATATATTTAAATAAT
*
23264168 TATATTTTTAAAT-AT
1 TATATATTTAAATAAT
*
23264183 T-TATATTTAAAAAAT
1 TATATATTTAAATAAT
*
23264198 AATAT-TTTA
1 TATATATTTA
23264207 TTAATTTCGA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
14 9 0.28
15 9 0.28
16 14 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:23264994 original size:14 final size:15
Alignment explanation
Indices: 23264977--23265009 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
23264967 AAAAATCAAA
23264977 TTGAAATTTGAA-AT
1 TTGAAATTTGAATAT
*
23264991 TTGAAATTTTAATAT
1 TTGAAATTTGAATAT
23265006 TTGA
1 TTGA
23265010 TTTGATTTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.48
Consensus pattern (15 bp):
TTGAAATTTGAATAT
Found at i:23265105 original size:13 final size:13
Alignment explanation
Indices: 23265087--23265111 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23265077 ATTTCAGATT
23265087 AAAAAAAAAACAA
1 AAAAAAAAAACAA
23265100 AAAAAAAAAACA
1 AAAAAAAAAACA
23265112 TAGAATTATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:23265153 original size:19 final size:19
Alignment explanation
Indices: 23265117--23265156 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
23265107 AAACATAGAA
*
23265117 TTATATATTTTATTAATTT
1 TTATATATTTTATAAATTT
23265136 TTATATATTTT-TAAAATTT
1 TTATATATTTTAT-AAATTT
23265155 TT
1 TT
23265157 TAAAATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 1 0.05
19 18 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TTATATATTTTATAAATTT
Found at i:23267842 original size:16 final size:16
Alignment explanation
Indices: 23267821--23267852 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23267811 AAAATAACAA
23267821 TAATATACATAAAAAT
1 TAATATACATAAAAAT
*
23267837 TAATATCCATAAAAAT
1 TAATATACATAAAAAT
23267853 AAATTAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.31
Consensus pattern (16 bp):
TAATATACATAAAAAT
Found at i:23268621 original size:27 final size:29
Alignment explanation
Indices: 23268591--23268651 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 29
23268581 TATTTTTTTA
* *
23268591 TATTT-AAA-AATTTAATCCTTTTAATAT
1 TATTTAAAAGAATTTAATCATTATAATAT
*
23268618 TATTTAAAAGAATTTAATTATTATAATAT
1 TATTTAAAAGAATTTAATCATTATAATAT
23268647 TATTT
1 TATTT
23268652 TTTAATAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.17
28 3 0.10
29 21 0.72
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (29 bp):
TATTTAAAAGAATTTAATCATTATAATAT
Found at i:23268740 original size:30 final size:29
Alignment explanation
Indices: 23268704--23268784 Score: 110
Period size: 28 Copynumber: 2.8 Consensus size: 29
23268694 ATTTCTTAAA
*
23268704 AAATAATCTTATAAGGACTAAATATTTTAC
1 AAATAATATTATAAGGACTAAATATTTT-C
* *
23268734 AAATAATATTATAAGGATTAAA-ATTTTT
1 AAATAATATTATAAGGACTAAATATTTTC
*
23268762 AAATAATATTATACGGACTAAAT
1 AAATAATATTATAAGGACTAAAT
23268785 TCTTAAAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 20 0.44
29 5 0.11
30 20 0.44
ACGTcount: A:0.49, C:0.06, G:0.07, T:0.37
Consensus pattern (29 bp):
AAATAATATTATAAGGACTAAATATTTTC
Found at i:23268774 original size:28 final size:28
Alignment explanation
Indices: 23268704--23268791 Score: 106
Period size: 30 Copynumber: 3.1 Consensus size: 28
23268694 ATTTCTTAAA
* *
23268704 AAATAATCTTATAAGGACTAAATATTTTAC
1 AAATAATATTATAAGGACTAAA-ATTTT-T
*
23268734 AAATAATATTATAAGGATTAAAATTTTT
1 AAATAATATTATAAGGACTAAAATTTTT
* *
23268762 AAATAATATTATACGGACT-AAATTCTT
1 AAATAATATTATAAGGACTAAAATTTTT
23268789 AAA
1 AAA
23268792 AATCGAAAAG
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
27 10 0.19
28 17 0.33
29 5 0.10
30 20 0.38
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (28 bp):
AAATAATATTATAAGGACTAAAATTTTT
Found at i:23269419 original size:29 final size:29
Alignment explanation
Indices: 23269355--23269419 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
23269345 CTAATTAGTT
* * *
23269355 AATATATTTATAATTCATATATTATATTA
1 AATATTTTTAAAATTCAAATATTATATTA
* * *
23269384 GAGATTTTTAAAATTTAAATATTATATTA
1 AATATTTTTAAAATTCAAATATTATATTA
23269413 AATATTT
1 AATATTT
23269420 CATTATAATT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.51
Consensus pattern (29 bp):
AATATTTTTAAAATTCAAATATTATATTA
Found at i:23279888 original size:18 final size:18
Alignment explanation
Indices: 23279865--23279903 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
23279855 TTAGGAAGCT
23279865 AAACAT-TAGAAAATGTAA
1 AAACATATAGAAAATG-AA
*
23279883 AAACATATATAAAATGAA
1 AAACATATAGAAAATGAA
23279901 AAA
1 AAA
23279904 AAAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (18 bp):
AAACATATAGAAAATGAA
Found at i:23279904 original size:19 final size:18
Alignment explanation
Indices: 23279865--23279904 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
23279855 TTAGGAAGCT
*
23279865 AAACATTAGAAAATGTAA
1 AAACATTAGAAAATGAAA
*
23279883 AAACATATATAAAATGAAA
1 AAACAT-TAGAAAATGAAA
23279902 AAA
1 AAA
23279905 AAAAAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 6 0.32
19 13 0.68
ACGTcount: A:0.68, C:0.05, G:0.07, T:0.20
Consensus pattern (18 bp):
AAACATTAGAAAATGAAA
Found at i:23280774 original size:18 final size:18
Alignment explanation
Indices: 23280747--23280791 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
23280737 ATTATACAAA
* *
23280747 ATATTAATATTAATATTAT
1 ATATT-ATATAAAAATTAT
*
23280766 ATTTTATATAAAAATTAT
1 ATATTATATAAAAATTAT
23280784 ATATTATA
1 ATATTATA
23280792 ATTTATAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 18 0.82
19 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATTATATAAAAATTAT
Found at i:23281209 original size:23 final size:24
Alignment explanation
Indices: 23281179--23281230 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
23281169 CAAAGCTCTT
* *
23281179 TTAAAAAAAATAAATTCTTTT-AA
1 TTAAAAAAAATAAAATATTTTAAA
*
23281202 TTAAAAAAATTAAAATATTTTAAA
1 TTAAAAAAAATAAAATATTTTAAA
23281226 TTAAA
1 TTAAA
23281231 TCACGTGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
TTAAAAAAAATAAAATATTTTAAA
Found at i:23281217 original size:24 final size:23
Alignment explanation
Indices: 23281179--23281230 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
23281169 CAAAGCTCTT
*
23281179 TTAAAAAAAATAAAT-TCTTTTAA
1 TTAAAAAAAATAAATAT-TTTAAA
*
23281202 TTAAAAAAATTAAAATATTTTAAA
1 TTAAAAAAAAT-AAATATTTTAAA
23281226 TTAAA
1 TTAAA
23281231 TCACGTGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
24 14 0.56
25 1 0.04
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TTAAAAAAAATAAATATTTTAAA
Found at i:23282208 original size:16 final size:16
Alignment explanation
Indices: 23282168--23282221 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
23282158 TTCAAACTTG
*
23282168 AAAATGATTTACAATAGT
1 AAAATGATTTA-AAT-CT
* *
23282186 TAAATGATTTTAATCT
1 AAAATGATTTAAATCT
*
23282202 AAAATGATTTAAATTT
1 AAAATGATTTAAATCT
23282218 AAAA
1 AAAA
23282222 AAAAATTTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
16 18 0.60
17 3 0.10
18 9 0.30
ACGTcount: A:0.50, C:0.04, G:0.07, T:0.39
Consensus pattern (16 bp):
AAAATGATTTAAATCT
Found at i:23284270 original size:3 final size:3
Alignment explanation
Indices: 23284262--23284309 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
23284252 GAATATTACA
23284262 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
23284310 CAATGATGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:23284595 original size:19 final size:19
Alignment explanation
Indices: 23284553--23284598 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
23284543 TAATGGAAAT
23284553 TGATA-AAATAAAAAAATAA
1 TGATATAAA-AAAAAAATAA
*
23284572 T--TATAAAAAAAGAATAA
1 TGATATAAAAAAAAAATAA
23284589 TGATATAAAA
1 TGATATAAAA
23284599 GATAAAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 12 0.52
18 3 0.13
19 8 0.35
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.24
Consensus pattern (19 bp):
TGATATAAAAAAAAAATAA
Found at i:23284673 original size:18 final size:17
Alignment explanation
Indices: 23284650--23284687 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
23284640 ATATGTGTAA
23284650 AAATATATAAATATT-AAT
1 AAATAT-TAAA-ATTAAAT
23284668 AAATATTAAAATTAAAT
1 AAATATTAAAATTAAAT
23284685 AAA
1 AAA
23284688 ATGATATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 3 0.16
17 10 0.53
18 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
AAATATTAAAATTAAAT
Found at i:23284689 original size:18 final size:19
Alignment explanation
Indices: 23284649--23284695 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
23284639 TATATGTGTA
23284649 AAAATATATAAATATTAAT
1 AAAATATATAAATATTAAT
23284668 -AAATAT-TAAA-ATTAAAT
1 AAAATATATAAATATT-AAT
23284685 AAAATGATATA
1 AAAAT-ATATA
23284696 TTATTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 3 0.12
17 7 0.29
18 10 0.42
19 2 0.08
20 2 0.08
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (19 bp):
AAAATATATAAATATTAAT
Found at i:23285544 original size:14 final size:14
Alignment explanation
Indices: 23285525--23285551 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23285515 TGATCTTAAA
23285525 AAATAAAATAAAAT
1 AAATAAAATAAAAT
23285539 AAATAAAATAAAA
1 AAATAAAATAAAA
23285552 CCTCAAATAT
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:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:23296732 original size:1 final size:1
Alignment explanation
Indices: 23296726--23296759 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
23296716 ATGGTAGGTC
* *
23296726 TTTTTTTTTTTTTTTTTTTTTTTCTTTTTCTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
23296760 AATACATTGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.06, G:0.00, T:0.94
Consensus pattern (1 bp):
T
Found at i:23300798 original size:84 final size:84
Alignment explanation
Indices: 23300289--23300786 Score: 676
Period size: 84 Copynumber: 5.9 Consensus size: 84
23300279 GAGTGCTCAC
* * * * * * * * *
23300289 TGACAACAGAAATGATGAT-AACAGAAACGGCAAAGTTAAGGACTGCACTCCAAGGAGACTCAAG
1 TGACAACAGAAATGCTGATGATCA-AAATGGTAAAGGTGAGGACTGTACTCCAAGGAAACTTAAG
*
23300353 TTCAGGCGAAGAGTACTTGT
65 TTCAGGCGAAGAGTTCTTGT
** * * * * * * * *
23300373 TGATGACAGAAATGGTGATAACCAAAATGGTAGAGGTGAGGAGTTTACTCCAAGGAGACTCAAGT
1 TGACAACAGAAATGCTGATGATCAAAATGGTAAAGGTGAGGACTGTACTCCAAGGAAACTTAAGT
* * *
23300438 TCTGGC-AGAGGGTTCTCGT
66 TCAGGCGA-AGAGTTCTTGT
*
23300457 TGACAACAGAAATGCTGATGATCAAAATGGTAAAGGTGATGACTGTACTCCAAGGAAACTTAAGT
1 TGACAACAGAAATGCTGATGATCAAAATGGTAAAGGTGAGGACTGTACTCCAAGGAAACTTAAGT
* *
23300522 TCAGGCAAAGGGTTCTTGT
66 TCAGGCGAAGAGTTCTTGT
* *
23300541 TGACAACAGAAACGCTGATGATCAAAATGGTAAAGGTGAGGACTATACTCCAAGGAAACTTAAGT
1 TGACAACAGAAATGCTGATGATCAAAATGGTAAAGGTGAGGACTGTACTCCAAGGAAACTTAAGT
23300606 TCAGGCGAAGAGTTCTTGT
66 TCAGGCGAAGAGTTCTTGT
*
23300625 TGACAACAGAAATTCTGATGATCAAAATGGTAAAGGTGAGGACTGTACTCCAAGGAAACTTAAGT
1 TGACAACAGAAATGCTGATGATCAAAATGGTAAAGGTGAGGACTGTACTCCAAGGAAACTTAAGT
23300690 TCAGGCGAAGAGTTCTTGT
66 TCAGGCGAAGAGTTCTTGT
* * *
23300709 AGACAACAGAAATTCTGATGATCAAAATGGTAAAGGTGAGGACTGTACTCCTAGGAAACTTAAGT
1 TGACAACAGAAATGCTGATGATCAAAATGGTAAAGGTGAGGACTGTACTCCAAGGAAACTTAAGT
23300774 TCAGGCGAAGAGT
66 TCAGGCGAAGAGT
23300787 GCTGGATGAC
Statistics
Matches: 372, Mismatches: 39, Indels: 6
0.89 0.09 0.01
Matches are distributed among these distances:
83 1 0.00
84 367 0.99
85 4 0.01
ACGTcount: A:0.36, C:0.15, G:0.26, T:0.23
Consensus pattern (84 bp):
TGACAACAGAAATGCTGATGATCAAAATGGTAAAGGTGAGGACTGTACTCCAAGGAAACTTAAGT
TCAGGCGAAGAGTTCTTGT
Found at i:23304942 original size:2 final size:2
Alignment explanation
Indices: 23304937--23304965 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
23304927 ATATATACAT
23304937 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
23304966 TACATACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:23309948 original size:15 final size:15
Alignment explanation
Indices: 23309930--23309970 Score: 66
Period size: 14 Copynumber: 2.8 Consensus size: 15
23309920 GCTTTTAGAA
23309930 TTTTGGATTTTAAGG
1 TTTTGGATTTTAAGG
23309945 TTTTGGATTTT-AGG
1 TTTTGGATTTTAAGG
*
23309959 ATTTGGATTTTA
1 TTTTGGATTTTA
23309971 TGGGGTCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (15 bp):
TTTTGGATTTTAAGG
Found at i:23310065 original size:57 final size:56
Alignment explanation
Indices: 23309992--23310109 Score: 150
Period size: 57 Copynumber: 2.1 Consensus size: 56
23309982 ATTTTTAGGT
* * * *
23309992 TTTTAAAATTTTGGGTTT-AGGTTTTCGATTTTATGGTTTAGAAGTTTAAGGATTT-GA
1 TTTTAAAATTTAGGGTTTAAGG-TTTCAATTTTAAGGTTT-GAAATTTAA-GATTTCGA
*
23310049 TTTTAAAATTTAGGGTTTAAGGTTTCAATTTTAAGGTTTGAAATTTGAGATTTCGA
1 TTTTAAAATTTAGGGTTTAAGGTTTCAATTTTAAGGTTTGAAATTTAAGATTTCGA
23310105 TTTTA
1 TTTTA
23310110 GGGCTTCAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
55 5 0.09
56 14 0.26
57 32 0.59
58 3 0.06
ACGTcount: A:0.27, C:0.03, G:0.20, T:0.50
Consensus pattern (56 bp):
TTTTAAAATTTAGGGTTTAAGGTTTCAATTTTAAGGTTTGAAATTTAAGATTTCGA
Found at i:23310081 original size:14 final size:14
Alignment explanation
Indices: 23310064--23310194 Score: 75
Period size: 14 Copynumber: 9.3 Consensus size: 14
23310054 AAATTTAGGG
23310064 TTTAAGGTTTCAAT
1 TTTAAGGTTTCAAT
* *
23310078 TTTAAGGTTTGAAA
1 TTTAAGGTTTCAAT
* * *
23310092 TTTGAGATTTCGAT
1 TTTAAGGTTTCAAT
* *
23310106 TTTAGGGCTTCAAT
1 TTTAAGGTTTCAAT
* *
23310120 TTTAAAGTTTGAGA-
1 TTTAAGGTTTCA-AT
** **
23310134 TTTGGGGTTTTGAT
1 TTTAAGGTTTCAAT
*
23310148 TTTAGGGTTTCAAT
1 TTTAAGGTTTCAAT
**
23310162 TTTAAGGTTTTGAT
1 TTTAAGGTTTCAAT
* *
23310176 GTTTAGGGTTTTAAT
1 -TTTAAGGTTTCAAT
23310191 TTTA
1 TTTA
23310195 GGATTTGAAA
Statistics
Matches: 85, Mismatches: 29, Indels: 6
0.71 0.24 0.05
Matches are distributed among these distances:
13 1 0.01
14 71 0.84
15 13 0.15
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.50
Consensus pattern (14 bp):
TTTAAGGTTTCAAT
Found at i:23310118 original size:42 final size:42
Alignment explanation
Indices: 23310072--23310171 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
23310062 GGTTTAAGGT
23310072 TTCAATTTTAAGGTTTGAAATTTGAGATTTCGATTTTAGGGC
1 TTCAATTTTAAGGTTTGAAATTTGAGATTTCGATTTTAGGGC
* * * * * *
23310114 TTCAATTTTAAAGTTTGAGATTTGGGGTTTTGATTTTAGGGT
1 TTCAATTTTAAGGTTTGAAATTTGAGATTTCGATTTTAGGGC
23310156 TTCAATTTTAAGGTTT
1 TTCAATTTTAAGGTTT
23310172 TGATGTTTAG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.24, C:0.05, G:0.22, T:0.49
Consensus pattern (42 bp):
TTCAATTTTAAGGTTTGAAATTTGAGATTTCGATTTTAGGGC
Found at i:23310157 original size:28 final size:29
Alignment explanation
Indices: 23310139--23310216 Score: 97
Period size: 28 Copynumber: 2.7 Consensus size: 29
23310129 TGAGATTTGG
23310139 GGTTTTGAT-TTTAGGGTTTCAATTTTAA
1 GGTTTTGATGTTTAGGGTTTCAATTTTAA
*
23310167 GGTTTTGATGTTTAGGGTTTTAATTTT-A
1 GGTTTTGATGTTTAGGGTTTCAATTTTAA
* *
23310195 GGATTTGAAAGGTTTAGGGTTT
1 GGTTTTG--ATGTTTAGGGTTT
23310217 AGAAGATTTA
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 16 0.36
29 16 0.36
30 12 0.27
ACGTcount: A:0.21, C:0.01, G:0.27, T:0.51
Consensus pattern (29 bp):
GGTTTTGATGTTTAGGGTTTCAATTTTAA
Found at i:23310212 original size:30 final size:29
Alignment explanation
Indices: 23310148--23310216 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 29
23310138 GGGTTTTGAT
* *
23310148 TTTAGGGTTTCAATTTTAAGGTTTTGATG
1 TTTAGGGTTTCAATTTTAAGGATTTGAGG
*
23310177 TTTAGGGTTTTAATTTT-AGGATTTGAAAGG
1 TTTAGGGTTTCAATTTTAAGGATTTG--AGG
23310207 TTTAGGGTTT
1 TTTAGGGTTT
23310217 AGAAGATTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 7 0.20
29 16 0.46
30 12 0.34
ACGTcount: A:0.22, C:0.01, G:0.26, T:0.51
Consensus pattern (29 bp):
TTTAGGGTTTCAATTTTAAGGATTTGAGG
Found at i:23310244 original size:29 final size:29
Alignment explanation
Indices: 23310207--23310275 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
23310197 ATTTGAAAGG
*
23310207 TTTAGGGTTTAGAAGATTTAGGGATTTGT
1 TTTAGGGTTTAGAAGATTTAGAGATTTGT
* * * *
23310236 TTTATGGTTTGGAGGGTTTAGAGATTTGAT
1 TTTAGGGTTTAGAAGATTTAGAGATTTG-T
*
23310266 TTCAGGGTTT
1 TTTAGGGTTT
23310276 GAAAGGTTTT
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
29 23 0.72
30 9 0.28
ACGTcount: A:0.20, C:0.01, G:0.32, T:0.46
Consensus pattern (29 bp):
TTTAGGGTTTAGAAGATTTAGAGATTTGT
Found at i:23310255 original size:75 final size:74
Alignment explanation
Indices: 23310176--23310345 Score: 189
Period size: 75 Copynumber: 2.3 Consensus size: 74
23310166 AGGTTTTGAT
* **
23310176 GTTTAGGGTTTTAATTTTAGGATTTGAAAGGTTTAGGGTTTAGAAGATTTAGGGATTT-GTTTTA
1 GTTTAGGGTTTTGATTTTAGGATTTGAAAGGTTTAGGGTTTAGAAGATTTAAAG-TTTAGTTTTA
* *
23310240 TGGTTTGGAGG
65 -GGGTTGGAGA
* * * * * * *
23310251 GTTTAGAGATTTGATTTCAGGGTTTGAAAGGTTTTGGGTTTGGAGGATTTAAAGTTTAGTTTTAG
1 GTTTAGGGTTTTGATTTTAGGATTTGAAAGGTTTAGGGTTTAGAAGATTTAAAGTTTAGTTTTAG
23310316 GGTTGGAGA
66 GGTTGGAGA
* *
23310325 GTTCAGGGTTTTGGTTTTAGG
1 GTTTAGGGTTTTGATTTTAGG
23310346 TTTTCGATTT
Statistics
Matches: 77, Mismatches: 17, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
74 27 0.35
75 50 0.65
ACGTcount: A:0.21, C:0.01, G:0.34, T:0.44
Consensus pattern (74 bp):
GTTTAGGGTTTTGATTTTAGGATTTGAAAGGTTTAGGGTTTAGAAGATTTAAAGTTTAGTTTTAG
GGTTGGAGA
Found at i:23310729 original size:23 final size:23
Alignment explanation
Indices: 23310680--23310729 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 23
23310670 ATTCAATTTT
* *
23310680 TATTATTTTTTTAAAATTATTAT
1 TATTATTGTTTTAAAATTATTAG
** *
23310703 TATTATTGTTTTAGCATTTTTAG
1 TATTATTGTTTTAAAATTATTAG
23310726 TATT
1 TATT
23310730 TTTTAGTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (23 bp):
TATTATTGTTTTAAAATTATTAG
Found at i:23311422 original size:29 final size:28
Alignment explanation
Indices: 23311358--23311422 Score: 67
Period size: 29 Copynumber: 2.2 Consensus size: 28
23311348 ACCCGAAATT
* * *
23311358 AATAAAATATTATTTTTTAAATATAATA
1 AATAAAATATCATTATATAAATATAATA
**
23311386 TTTAAAAATATCATTATATAAATATATATA
1 AAT-AAAATATCATTATATAAATATA-ATA
23311416 AATAAAA
1 AATAAAA
23311423 AAAAAATTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
28 1 0.04
29 23 0.82
30 4 0.14
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
AATAAAATATCATTATATAAATATAATA
Found at i:23312280 original size:21 final size:21
Alignment explanation
Indices: 23312254--23312295 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
23312244 TTTTAAAAAA
*
23312254 TATTTTTTATTATTATTATTT
1 TATTTTTTATTACTATTATTT
23312275 TATTTTTTATTACTATTATTT
1 TATTTTTTATTACTATTATTT
23312296 ACTATTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (21 bp):
TATTTTTTATTACTATTATTT
Found at i:23313800 original size:15 final size:14
Alignment explanation
Indices: 23313744--23313791 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
23313734 TAAATATAAA
23313744 TTTTAAT-AAAATT
1 TTTTAATGAAAATT
*
23313757 TATTTAGT-ATAAATT
1 T-TTTAATGA-AAATT
23313772 TTTTAATGAAAATT
1 TTTTAATGAAAATT
23313786 TTTTAA
1 TTTTAA
23313792 ATTATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
13 1 0.03
14 22 0.73
15 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (14 bp):
TTTTAATGAAAATT
Found at i:23328501 original size:20 final size:21
Alignment explanation
Indices: 23328476--23328528 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
23328466 AATATTTTTA
23328476 AATATTTATATTTT-AAAAAT
1 AATATTTATATTTTAAAAAAT
23328496 AATATTTTATATTTTAAAAAAT
1 AATA-TTTATATTTTAAAAAAT
23328518 AATATTT-TATT
1 AATATTTATATT
23328529 AATTTCAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 8 0.26
21 13 0.42
22 10 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
AATATTTATATTTTAAAAAAT
Found at i:23328502 original size:14 final size:15
Alignment explanation
Indices: 23328451--23328504 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
23328441 AATTATTTAT
*
23328451 ATATATTTATATAATA
1 ATAT-TTTAAATAATA
* *
23328467 ATATTTTTAAATATTT
1 ATA-TTTTAAATAATA
23328483 ATATTTTAAA-AATA
1 ATATTTTAAATAATA
23328497 ATATTTTA
1 ATATTTTA
23328505 TATTTTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
14 10 0.31
15 7 0.22
16 14 0.44
17 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTTTAAATAATA
Found at i:23328506 original size:21 final size:22
Alignment explanation
Indices: 23328476--23328527 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
23328466 AATATTTTTA
23328476 AATA-TTTATATTTT-AAAAAT
1 AATATTTTATATTTTAAAAAAT
23328496 AATATTTTATATTTTAAAAAAT
1 AATATTTTATATTTTAAAAAAT
23328518 AATATTTTAT
1 AATATTTTAT
23328528 TAATTTCAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 4 0.13
21 10 0.33
22 16 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AATATTTTATATTTTAAAAAAT
Found at i:23329031 original size:15 final size:16
Alignment explanation
Indices: 23329011--23329041 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
23329001 TTAAATATTA
23329011 ATTTAA-ATAAAATTT
1 ATTTAATATAAAATTT
23329026 ATTTAATATAAAATTT
1 ATTTAATATAAAATTT
23329042 TTATTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTAATATAAAATTT
Found at i:23329061 original size:26 final size:24
Alignment explanation
Indices: 23329021--23329078 Score: 62
Period size: 26 Copynumber: 2.3 Consensus size: 24
23329011 ATTTAAATAA
*
23329021 AATTTATTTAATATAAAATTTTTATT
1 AATTT-TTTAATATAAAATTATTA-T
**
23329047 AATTTTTTAATTATATTATTATTAT
1 AATTTTTTAA-TATAAAATTATTAT
23329072 AATTTTT
1 AATTTTT
23329079 AATCTTATCA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 13 0.46
26 15 0.54
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
AATTTTTTAATATAAAATTATTAT
Found at i:23329439 original size:18 final size:18
Alignment explanation
Indices: 23329415--23329469 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
23329405 GATTTTAAGC
23329415 TTAAAAATAAAAGCAATGA
1 TTAAAAATAAAA-CAATGA
* *
23329434 TAAAAAATAAAACCATGA
1 TTAAAAATAAAACAATGA
23329452 TTAGAAAATAAAAACAAT
1 TTA-AAAAT-AAAACAAT
23329470 TATCCTAGGG
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 7 0.23
19 16 0.53
20 7 0.23
ACGTcount: A:0.65, C:0.07, G:0.07, T:0.20
Consensus pattern (18 bp):
TTAAAAATAAAACAATGA
Found at i:23330115 original size:54 final size:54
Alignment explanation
Indices: 23330056--23330169 Score: 142
Period size: 54 Copynumber: 2.1 Consensus size: 54
23330046 TCATAAATGA
* * *
23330056 TAAAAACACCA-CAACAATAACATTATC-TCAATAATTACATTACTATAATGATTT
1 TAAAAACACCATC-ACAATAAAATTATCTTC-ATAATTAAATTACTATAATAATTT
* * *
23330110 TAAAAATACCATCATAATAAAATTATCTTCATAATTAAATTATTATAATAATTT
1 TAAAAACACCATCACAATAAAATTATCTTCATAATTAAATTACTATAATAATTT
23330164 TAAAAA
1 TAAAAA
23330170 TAAAACCAAC
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
54 49 0.94
55 3 0.06
ACGTcount: A:0.51, C:0.13, G:0.01, T:0.35
Consensus pattern (54 bp):
TAAAAACACCATCACAATAAAATTATCTTCATAATTAAATTACTATAATAATTT
Found at i:23339183 original size:10 final size:11
Alignment explanation
Indices: 23339151--23339183 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
23339141 CGATATTGTA
23339151 ACTCCTAAAAG
1 ACTCCTAAAAG
23339162 ACTCCTAAAAG
1 ACTCCTAAAAG
23339173 ACTCC-AAAAG
1 ACTCCTAAAAG
23339183 A
1 A
23339184 ACTTATGAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.27
11 16 0.73
ACGTcount: A:0.48, C:0.27, G:0.09, T:0.15
Consensus pattern (11 bp):
ACTCCTAAAAG
Found at i:23344189 original size:20 final size:21
Alignment explanation
Indices: 23344151--23344193 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
23344141 AATTATAAGT
23344151 ATAAATTTCATACAAAATTTTG
1 ATAAATTT-ATACAAAATTTTG
*
23344173 ATAAATTT-TACATAATTTTG
1 ATAAATTTATACAAAATTTTG
23344193 A
1 A
23344194 ATTGTGATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 12 0.60
22 8 0.40
ACGTcount: A:0.44, C:0.07, G:0.05, T:0.44
Consensus pattern (21 bp):
ATAAATTTATACAAAATTTTG
Found at i:23348309 original size:33 final size:32
Alignment explanation
Indices: 23348264--23348329 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 32
23348254 GAGCAATACG
* *
23348264 AAAATTTGATAATTTATATATTTATATTATAT
1 AAAATTTAATAATTTATATATTTATATAATAT
23348296 AAAATATTAATAATTTATATATTTATATAATAT
1 AAAAT-TTAATAATTTATATATTTATATAATAT
23348329 A
1 A
23348330 TTATAAAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 5 0.16
33 26 0.84
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (32 bp):
AAAATTTAATAATTTATATATTTATATAATAT
Found at i:23348333 original size:20 final size:20
Alignment explanation
Indices: 23348275--23348334 Score: 52
Period size: 20 Copynumber: 3.0 Consensus size: 20
23348265 AAATTTGATA
*
23348275 ATTTATATATTTATATTATAT
1 ATTTATATA-ATATATTATAT
**
23348296 A-AAATATTAATA-ATTTATAT
1 ATTTATA-TAATATA-TTATAT
23348316 ATTTATATAATATATTATA
1 ATTTATATAATATATTATA
23348335 AAAATTATAT
Statistics
Matches: 30, Mismatches: 5, Indels: 9
0.68 0.11 0.20
Matches are distributed among these distances:
19 1 0.03
20 22 0.73
21 7 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATTTATATAATATATTATAT
Found at i:23348348 original size:7 final size:7
Alignment explanation
Indices: 23348277--23348350 Score: 50
Period size: 7 Copynumber: 10.7 Consensus size: 7
23348267 ATTTGATAAT
23348277 TTATATA
1 TTATATA
23348284 TT-TATA
1 TTATATA
23348290 TTATATA
1 TTATATA
*
23348297 --AAATA
1 TTATATA
23348302 TTA-ATAA
1 TTATAT-A
23348309 TTTATATA
1 -TTATATA
23348317 TT-TATA
1 TTATATA
*
23348323 TAATATA
1 TTATATA
*
23348330 TTATAAAAA
1 TTAT--ATA
23348339 TTATATA
1 TTATATA
23348346 TTATA
1 TTATA
23348351 ATTTTTATTA
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
5 4 0.08
6 13 0.25
7 24 0.45
8 4 0.08
9 8 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (7 bp):
TTATATA
Found at i:23348436 original size:11 final size:11
Alignment explanation
Indices: 23348409--23348449 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
23348399 TTTTAAAATG
23348409 TATTATTTTTA
1 TATTATTTTTA
*
23348420 TATATTTTATTTA
1 TAT-TATT-TTTA
23348433 TATTATTTTTA
1 TATTATTTTTA
23348444 TATTAT
1 TATTAT
23348450 ATCATAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 13 0.50
12 6 0.23
13 7 0.27
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TATTATTTTTA
Found at i:23348459 original size:24 final size:24
Alignment explanation
Indices: 23348409--23348459 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
23348399 TTTTAAAATG
* * *
23348409 TATTATTTTTATATATTTTATTTA
1 TATTATTTTTATATATATCATTAA
23348433 TATTATTTTTATATTATATCA-TAA
1 TATTATTTTTATA-TATATCATTAA
23348457 TAT
1 TAT
23348460 CATACTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (24 bp):
TATTATTTTTATATATATCATTAA
Found at i:23365959 original size:15 final size:16
Alignment explanation
Indices: 23365923--23365959 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
23365913 TTTATATTAA
*
23365923 AATAAATTAAAAAATT
1 AATAAATTAAAAAATC
23365939 AA-AAATT-AAAAATC
1 AATAAATTAAAAAATC
23365953 AATAAAT
1 AATAAAT
23365960 CAAACCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 8 0.42
15 9 0.47
16 2 0.11
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAAATTAAAAAATC
Found at i:23367910 original size:2 final size:2
Alignment explanation
Indices: 23367903--23367935 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23367893 CATCACTGAC
23367903 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
23367936 GTATTATTAA
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:23371397 original size:254 final size:258
Alignment explanation
Indices: 23370923--23371441 Score: 805
Period size: 254 Copynumber: 2.0 Consensus size: 258
23370913 AATCAATAAA
* *
23370923 AAAAAGATCAGAAGGAGAAAAAAATAAAGAATTGAAAATAAAATGAATTAGAATGATAATAATTG
1 AAAAGGATCAGAAGGAGAAAAAAATAAAGAATTGAAAATAAAATGAATTAGAATGATAATAACTG
* *
23370988 AGTATTTATATTTATAGATAGAAGGTGAGAGACTCTTGAAGATAAAAATGATATGGCCAAATTGA
66 AGTATTCATATTTATAGATAGAAGGTGAGAGACTCTTGAAGATAAAAATGATATGACCAAATTGA
* * *
23371053 TGTGATATTAAATATGTCAAGTTGATTCGACATGTCAGATTAATCTAAATATCCAAAATGTTATT
131 TGTGATATTAAACATGTCAAGTTGATTCGACATGTCAGATTAATCCAAATATCCAAAATGTCATT
* *
23371118 AATTGATATAATCTAAT-AAAAAAAA-ATCAAAATGCTTTTTGGACCACTAAATGCTCTTAAC
196 AATTGACATAACCTAATAAAAAAAAAGATCAAAATGCTTTTTGGACCACTAAATGCTCTTAAC
*
23371179 AAAAGGATCATAAGGAG-AAAAAA-AAAGAATTGAAAATAAAATGAATTAGAATGATAATAACTG
1 AAAAGGATCAGAAGGAGAAAAAAATAAAGAATTGAAAATAAAATGAATTAGAATGATAATAACTG
* * *
23371242 AGTATTCATATTTATAGATAGAAGGTGA-AGAATTCTTGAGGATAAAAATGATATGACCCAATTG
66 AGTATTCATATTTATAGATAGAAGGTGAGAG-ACTCTTGAAGATAAAAATGATATGACCAAATTG
* * * * *
23371306 ATGTGGTATTAAACATGTCAATTTGGTTCGACATGTCAGGTTAATCCAAATATTCAAAATGTCAT
130 ATGTGATATTAAACATGTCAAGTTGATTCGACATGTCAGATTAATCCAAATATCCAAAATGTCAT
* *
23371371 TAATTGACATCACCTAATAAAAAAAAAAGATCAAAATGCTTTTTGGACTACTAAATGCTCTTAAC
195 TAATTGACATAACCTAAT-AAAAAAAAAGATCAAAATGCTTTTTGGACCACTAAATGCTCTTAAC
23371436 AAAAGG
1 AAAAGG
23371442 CATTAATTAG
Statistics
Matches: 239, Mismatches: 20, Indels: 7
0.90 0.08 0.03
Matches are distributed among these distances:
253 2 0.01
254 167 0.70
255 6 0.03
256 23 0.10
257 41 0.17
ACGTcount: A:0.46, C:0.09, G:0.16, T:0.29
Consensus pattern (258 bp):
AAAAGGATCAGAAGGAGAAAAAAATAAAGAATTGAAAATAAAATGAATTAGAATGATAATAACTG
AGTATTCATATTTATAGATAGAAGGTGAGAGACTCTTGAAGATAAAAATGATATGACCAAATTGA
TGTGATATTAAACATGTCAAGTTGATTCGACATGTCAGATTAATCCAAATATCCAAAATGTCATT
AATTGACATAACCTAATAAAAAAAAAGATCAAAATGCTTTTTGGACCACTAAATGCTCTTAAC
Found at i:23372007 original size:21 final size:21
Alignment explanation
Indices: 23371981--23372020 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23371971 ATTAACAGTC
* *
23371981 ATAATAAGATTAATTATTATA
1 ATAATAAAATTAATAATTATA
23372002 ATAATAAAATTAATAATTA
1 ATAATAAAATTAATAATTA
23372021 AATTGTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (21 bp):
ATAATAAAATTAATAATTATA
Found at i:23374273 original size:2 final size:2
Alignment explanation
Indices: 23374266--23374307 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
23374256 CCCATCCATC
23374266 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23374307 T
1 T
23374308 TTTAGTTAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:23379307 original size:22 final size:22
Alignment explanation
Indices: 23379273--23379324 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
23379263 TAAATTGTAC
*
23379273 ATAATTTTA-ATTTATAATTA-A
1 ATAATTATATATTTAT-ATTATA
*
23379294 ATGATTATATATTTATATTATA
1 ATAATTATATATTTATATTATA
23379316 ATAATTATA
1 ATAATTATA
23379325 AGTGAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
21 11 0.42
22 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (22 bp):
ATAATTATATATTTATATTATA
Found at i:23379419 original size:21 final size:21
Alignment explanation
Indices: 23379395--23379438 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
23379385 ATATAAAATA
*
23379395 AATACATAAATTATTAAATTT
1 AATACATAAATAATTAAATTT
** *
23379416 AATATTTAAATAATTTAATTT
1 AATACATAAATAATTAAATTT
23379437 AA
1 AA
23379439 ATATTTAATC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (21 bp):
AATACATAAATAATTAAATTT
Found at i:23379444 original size:13 final size:14
Alignment explanation
Indices: 23379419--23379447 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
23379409 TAAATTTAAT
23379419 ATTTAAATAATTTA
1 ATTTAAATAATTTA
23379433 ATTTAAAT-ATTTA
1 ATTTAAATAATTTA
23379446 AT
1 AT
23379448 CAAAATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTAAATAATTTA
Found at i:23379594 original size:23 final size:25
Alignment explanation
Indices: 23379569--23379616 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
23379559 AAGGATTCGT
23379569 AAATTTATAT-TATATAAAATATTA
1 AAATTTATATATATATAAAATATTA
* *
23379593 AAATTTATATATTTATAATATATT
1 AAATTTATATATATATAAAATATT
23379617 TATACAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 10 0.48
25 11 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
AAATTTATATATATATAAAATATTA
Found at i:23379615 original size:37 final size:36
Alignment explanation
Indices: 23379574--23379645 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
23379564 TTCGTAAATT
*
23379574 TATATTATATA-AAATATTA-AAATTTATATATTTATAA
1 TATATT-TATACAAAAATTATAAA-TTATA-ATTTATAA
23379611 TATATTTATACAAAAATTATAAATTATAATTTATA
1 TATATTTATACAAAAATTATAAATTATAATTTATA
23379646 TAAAAAAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
36 11 0.34
37 18 0.56
38 3 0.09
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (36 bp):
TATATTTATACAAAAATTATAAATTATAATTTATAA
Found at i:23391102 original size:21 final size:21
Alignment explanation
Indices: 23391060--23391107 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
23391050 TCCTTTTATC
* *
23391060 TTTTTTCACTCTCTTTCCTTT
1 TTTTTTCACTCTCTCTACTTT
* *
23391081 TTTTTTCTCTCTCTCTATTTT
1 TTTTTTCACTCTCTCTACTTT
23391102 TTTTTT
1 TTTTTT
23391108 ATTGTTTTAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.73
Consensus pattern (21 bp):
TTTTTTCACTCTCTCTACTTT
Found at i:23391646 original size:14 final size:16
Alignment explanation
Indices: 23391617--23391650 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
23391607 AATAATATTT
23391617 TTAAATATTAATTAAA
1 TTAAATATTAATTAAA
23391633 TTAAA-ATT-ATTAAA
1 TTAAATATTAATTAAA
23391647 TTAA
1 TTAA
23391651 TTTCAAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 10 0.56
15 3 0.17
16 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAATATTAATTAAA
Found at i:23395097 original size:21 final size:21
Alignment explanation
Indices: 23395055--23395099 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23395045 TCATCATTCT
* * *
23395055 TTTTTTTTTTAACATTATAAC
1 TTTTTGTTTTAACATAAAAAC
*
23395076 TTTTTGTTTTAATATAAAAAC
1 TTTTTGTTTTAACATAAAAAC
23395097 TTT
1 TTT
23395100 GCAACTATAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.07, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTTGTTTTAACATAAAAAC
Found at i:23395812 original size:18 final size:18
Alignment explanation
Indices: 23395784--23395824 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
23395774 TCCTTAACAA
23395784 TATTT-ATTATCATCAAC
1 TATTTAATTATCATCAAC
*
23395801 TATTTAATTATCATCAAT
1 TATTTAATTATCATCAAC
23395819 TATTTA
1 TATTTA
23395825 TGAAAAATCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 5 0.23
18 17 0.77
ACGTcount: A:0.37, C:0.12, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTAATTATCATCAAC
Found at i:23407170 original size:28 final size:28
Alignment explanation
Indices: 23407130--23407188 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
23407120 ATGTTTTTGT
*
23407130 CATCAATAGTCGTGGATAACGAAGTGAG
1 CATCAATACTCGTGGATAACGAAGTGAG
* *
23407158 CATCAATACTCGTGGATCATGAAGTGAG
1 CATCAATACTCGTGGATAACGAAGTGAG
23407186 CAT
1 CAT
23407189 GGGAAAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.24
Consensus pattern (28 bp):
CATCAATACTCGTGGATAACGAAGTGAG
Found at i:23410787 original size:20 final size:20
Alignment explanation
Indices: 23410764--23410804 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23410754 TGTTTGGATA
* *
23410764 ATTTTTAAATTAATAAATAT
1 ATTTTGAAATTAAAAAATAT
*
23410784 ATTTTGAATTTAAAAAATAT
1 ATTTTGAAATTAAAAAATAT
23410804 A
1 A
23410805 ATAAGTGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATTTTGAAATTAAAAAATAT
Found at i:23411751 original size:13 final size:13
Alignment explanation
Indices: 23411735--23411759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23411725 AAAAATCAAA
23411735 AATAATAAATAAT
1 AATAATAAATAAT
23411748 AATAATAAATAA
1 AATAATAAATAA
23411760 AAAACTCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATAAATAAT
Found at i:23412140 original size:18 final size:19
Alignment explanation
Indices: 23412111--23412147 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
23412101 TTAAAAAATA
23412111 GAAAATAAAAAAATAAAAG
1 GAAAATAAAAAAATAAAAG
*
23412130 GAAAA-AAAAAAATTAAAG
1 GAAAATAAAAAAATAAAAG
23412148 TGCTTTGTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (19 bp):
GAAAATAAAAAAATAAAAG
Found at i:23417803 original size:107 final size:107
Alignment explanation
Indices: 23417613--23417845 Score: 340
Period size: 107 Copynumber: 2.2 Consensus size: 107
23417603 ATCTTAAAAT
* * * * *
23417613 TTTTCAACATCTAGGCAGAATTTAAAATCATTTTTCTTGCTTAAGATTAAACAAAATACTCTTTA
1 TTTTCAACATCTAGGCAGAATTTAAAATAACTCTTCTCGCTTAAGATTAAACAAAATACTCCTTA
*
23417678 AAATAAAAATAACACTCTTTGTAAAAGATAATTATTAGTGAC
66 AAATAAAAATAACACTCTTTGTAAAAGATAATTATTACTGAC
*
23417720 TTTTCAACATCTAGGTAGAATTTAAAATAACTCTTCTCGCTTAAGATTAAACAAAATACTCCTTA
1 TTTTCAACATCTAGGCAGAATTTAAAATAACTCTTCTCGCTTAAGATTAAACAAAATACTCCTTA
** * *
23417785 AAATAAAAATAATTCTCTTTGTGAAAGATAATTGTTACTGAC
66 AAATAAAAATAACACTCTTTGTAAAAGATAATTATTACTGAC
* * *
23417827 TCTCCAACATCTAAGCAGA
1 TTTTCAACATCTAGGCAGA
23417846 GTACCAAGAA
Statistics
Matches: 111, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
107 111 1.00
ACGTcount: A:0.41, C:0.15, G:0.09, T:0.35
Consensus pattern (107 bp):
TTTTCAACATCTAGGCAGAATTTAAAATAACTCTTCTCGCTTAAGATTAAACAAAATACTCCTTA
AAATAAAAATAACACTCTTTGTAAAAGATAATTATTACTGAC
Found at i:23418489 original size:22 final size:21
Alignment explanation
Indices: 23418436--23418489 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
23418426 TTTTCAGAAT
23418436 TTTGAATTTTAAGGTTTAGGA
1 TTTGAATTTTAAGGTTTAGGA
* *
23418457 TTTTAAATTTTAGGGTTTGAGG-
1 -TTTGAATTTTAAGGTTT-AGGA
23418479 TTTGAAGTTTT
1 TTTGAA-TTTT
23418490 GGTTTTAGGG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 5 0.19
22 19 0.70
23 3 0.11
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (21 bp):
TTTGAATTTTAAGGTTTAGGA
Found at i:23420105 original size:15 final size:15
Alignment explanation
Indices: 23420085--23420128 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
23420075 ATTAAATCGA
* *
23420085 TATTATTATTAATAT
1 TATTATTAATATTAT
*
23420100 TATTATTAATGTTAT
1 TATTATTAATATTAT
*
23420115 TACTATTAATATTA
1 TATTATTAATATTA
23420129 AACTAAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TATTATTAATATTAT
Found at i:23420114 original size:21 final size:21
Alignment explanation
Indices: 23420090--23420129 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
23420080 ATCGATATTA
*
23420090 TTATTAATATTATTATTAATG
1 TTATTAATATTAATATTAATG
*
23420111 TTATTACTATTAATATTAA
1 TTATTAATATTAATATTAA
23420130 ACTAAAATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.55
Consensus pattern (21 bp):
TTATTAATATTAATATTAATG
Found at i:23420128 original size:12 final size:12
Alignment explanation
Indices: 23420084--23420116 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
23420074 AATTAAATCG
23420084 ATATTATTATTA
1 ATATTATTATTA
23420096 ATATTATTATTA
1 ATATTATTATTA
*
23420108 ATGTTATTA
1 ATATTATTA
23420117 CTATTAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (12 bp):
ATATTATTATTA
Found at i:23420778 original size:20 final size:20
Alignment explanation
Indices: 23420755--23420844 Score: 89
Period size: 20 Copynumber: 4.5 Consensus size: 20
23420745 TAAATTAAAG
23420755 ATAAATCAAATAA-AAAAAAA
1 ATAAAT-AAATAACAAAAAAA
*
23420775 ATAAA-AAATCAACAAAACAA
1 ATAAATAAAT-AACAAAAAAA
*
23420795 ATAAATAAATAACCAAAAAA
1 ATAAATAAATAACAAAAAAA
*
23420815 AT-AA-AAATAAAAAAATAAA
1 ATAAATAAATAACAAAA-AAA
*
23420834 ATAAAAAAATA
1 ATAAATAAATA
23420845 GATAAATAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 11
0.79 0.07 0.15
Matches are distributed among these distances:
18 13 0.22
19 9 0.15
20 28 0.47
21 9 0.15
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (20 bp):
ATAAATAAATAACAAAAAAA
Found at i:23420822 original size:39 final size:39
Alignment explanation
Indices: 23420750--23420844 Score: 104
Period size: 39 Copynumber: 2.4 Consensus size: 39
23420740 ACAGATAAAT
*
23420750 TAAAGATAAATCAAATAAAAAAAAAATAAAAAATCAACAAAA
1 TAAA-ATAAAT-AAATAAAAAAAAAATAAAAAAT-AAAAAAA
* *
23420792 -CAAATAAATAAATAACCAAAAAAAT-AAAAATAAAAAAA
1 TAAAATAAATAAATAA-AAAAAAAATAAAAAATAAAAAAA
*
23420830 TAAAATAAAAAAATA
1 TAAAATAAATAAATA
23420845 GATAAATAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
38 6 0.13
39 24 0.52
40 14 0.30
41 2 0.04
ACGTcount: A:0.78, C:0.06, G:0.01, T:0.15
Consensus pattern (39 bp):
TAAAATAAATAAATAAAAAAAAAATAAAAAATAAAAAAA
Found at i:23421111 original size:23 final size:23
Alignment explanation
Indices: 23421067--23421113 Score: 51
Period size: 23 Copynumber: 2.0 Consensus size: 23
23421057 AAGTAAATTT
* *
23421067 AATTATTTAATTATATTTTAATT
1 AATTAATTAATTATATTATAATT
*
23421090 TATTAATTAATTAT-TTAATAATT
1 AATTAATTAATTATATT-ATAATT
23421113 A
1 A
23421114 TAATTTGATT
Statistics
Matches: 19, Mismatches: 4, Indels: 2
0.76 0.16 0.08
Matches are distributed among these distances:
22 2 0.11
23 17 0.89
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
AATTAATTAATTATATTATAATT
Found at i:23424214 original size:32 final size:32
Alignment explanation
Indices: 23424173--23424237 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
23424163 AGCTTTCGTC
*
23424173 TTCTTCATTTATATTGCTCTACCTAAGCTATT
1 TTCTTCATTTATATTGCTCCACCTAAGCTATT
23424205 TTCTTCATTTATATTGCTCCACCTAAGCTATT
1 TTCTTCATTTATATTGCTCCACCTAAGCTATT
23424237 T
1 T
23424238 CTTATGTTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.22, C:0.23, G:0.06, T:0.49
Consensus pattern (32 bp):
TTCTTCATTTATATTGCTCCACCTAAGCTATT
Found at i:23429723 original size:23 final size:21
Alignment explanation
Indices: 23429692--23429749 Score: 53
Period size: 22 Copynumber: 2.6 Consensus size: 21
23429682 TAAGGTTATG
23429692 TAAAGTTCAATTTTAGTTTTCTTT
1 TAAA-TTCAATTTTA-TTTT-TTT
* *
23429716 TAAATTCAAGCTCTATTTTTTT
1 TAAATTCAA-TTTTATTTTTTT
*
23429738 TTAATTCAATTT
1 TAAATTCAATTT
23429750 ACGCTTTCTT
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 1 0.04
22 11 0.39
23 9 0.32
24 7 0.25
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (21 bp):
TAAATTCAATTTTATTTTTTT
Found at i:23430200 original size:3 final size:3
Alignment explanation
Indices: 23430192--23430231 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
23430182 AGCTCCGTAT
23430192 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
23430232 GTAACCTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:23442676 original size:23 final size:24
Alignment explanation
Indices: 23442646--23442690 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
23442636 AAATAAAAGA
*
23442646 AATAGAT-AAATAATAAAAATATT
1 AATAGATAAAAAAATAAAAATATT
23442669 AATAGATAAAAAAATAAAAATA
1 AATAGATAAAAAAATAAAAATA
23442691 AAAAAATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (24 bp):
AATAGATAAAAAAATAAAAATATT
Found at i:23442684 original size:35 final size:34
Alignment explanation
Indices: 23442634--23442736 Score: 109
Period size: 35 Copynumber: 2.9 Consensus size: 34
23442624 AAATAATTGG
23442634 ATAAATAAAAGAAATAGATAAATAATAAAAATATTA
1 ATAAATAAAA-AAATA-ATAAATAATAAAAATATTA
* *
23442670 ATAGATAAAAAAATAA-AAATAAAAAAATTATATTA
1 ATAAATAAAAAAATAATAAATAATAAAA--ATATTA
* * *
23442705 ATAAATAGACAAATAATAAAAAAATAAAAATA
1 ATAAATAAAAAAATAAT-AAATAATAAAAATA
23442737 AAAACCAATT
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
33 10 0.18
34 1 0.02
35 27 0.48
36 9 0.16
37 9 0.16
ACGTcount: A:0.72, C:0.01, G:0.04, T:0.23
Consensus pattern (34 bp):
ATAAATAAAAAAATAATAAATAATAAAAATATTA
Found at i:23443080 original size:41 final size:41
Alignment explanation
Indices: 23443000--23443286 Score: 237
Period size: 41 Copynumber: 7.1 Consensus size: 41
23442990 AATAAACAAA
* * *
23443000 GCTCCTCTAAAT-AGAGGCTCCATGACCTT-AAAAATAAATG
1 GCTCCTCT-AATCAGAGGCTCAACGACTTTGAAAAATAAATG
* *
23443040 GCTCCCCTAATCAAAGGCTCAACGACTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
* *
23443081 GCTCCTCTAATCAGAGGCTCAACGATTTTAAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
* * *
23443122 GCTCTTCTAATCAGAGGCTCAACGACTTTGGAAAATAAATA
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
** * * * * * * * *
23443163 AATTCTTTAAGCAGAAGCACCATGAC-TTCAAAAATAAAT-
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
* * * * * * *
23443202 GCTCCTCTAAACAGAGGCACCA-TAATTTTAAAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAA-TAAATG
* *
23443243 GCTCTTCTAAACAGAGGCATCAA-GACTTTG-AAAATAAATG
1 GCTCCTCTAATCAGAGGC-TCAACGACTTTGAAAAATAAATG
23443283 GCTC
1 GCTC
23443287 ATTAACAATC
Statistics
Matches: 199, Mismatches: 42, Indels: 12
0.79 0.17 0.05
Matches are distributed among these distances:
38 1 0.01
39 26 0.13
40 45 0.23
41 121 0.61
42 6 0.03
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (41 bp):
GCTCCTCTAATCAGAGGCTCAACGACTTTGAAAAATAAATG
Found at i:23446377 original size:23 final size:22
Alignment explanation
Indices: 23446334--23446377 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
23446324 ACAATTATAT
*
23446334 ATTTATCATAATAAATTTAAAC
1 ATTTATCATAATAAATATAAAC
*
23446356 ATTTATCATGCATAAATATAAA
1 ATTTATCAT-AATAAATATAAA
23446378 ATAACAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (22 bp):
ATTTATCATAATAAATATAAAC
Found at i:23454461 original size:16 final size:16
Alignment explanation
Indices: 23454440--23454479 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
23454430 ATCATTAAAA
*
23454440 ATCATCGTAAATCATC
1 ATCATCATAAATCATC
23454456 ATCATCATAAATCATC
1 ATCATCATAAATCATC
*
23454472 ATTATCAT
1 ATCATCAT
23454480 TCATTTATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.40, C:0.23, G:0.03, T:0.35
Consensus pattern (16 bp):
ATCATCATAAATCATC
Found at i:23462420 original size:19 final size:19
Alignment explanation
Indices: 23462396--23462433 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
23462386 AATAGAGACC
23462396 GAATCACCTGCAACAGTTA
1 GAATCACCTGCAACAGTTA
23462415 GAATCACCTGCAACAGTTA
1 GAATCACCTGCAACAGTTA
23462434 ATCAGCGAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.26, G:0.16, T:0.21
Consensus pattern (19 bp):
GAATCACCTGCAACAGTTA
Found at i:23465220 original size:2 final size:2
Alignment explanation
Indices: 23465213--23465245 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23465203 TAAGTGGATT
23465213 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
23465246 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:23465250 original size:2 final size:2
Alignment explanation
Indices: 23465245--23465274 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
23465235 TCTCTCTCTC
*
23465245 TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23465275 ACAAGAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:23477397 original size:33 final size:33
Alignment explanation
Indices: 23477355--23477422 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
23477345 CTCAATAAGT
23477355 AAAAATATCTAGATAACCAATCTTTGAAGGTTC
1 AAAAATATCTAGATAACCAATCTTTGAAGGTTC
23477388 AAAAATATCTAGATAACCAATCTTTGAAGGTTC
1 AAAAATATCTAGATAACCAATCTTTGAAGGTTC
23477421 AA
1 AA
23477423 TTATGAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (33 bp):
AAAAATATCTAGATAACCAATCTTTGAAGGTTC
Found at i:23477746 original size:28 final size:27
Alignment explanation
Indices: 23477715--23477768 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
23477705 ATATTTCATA
23477715 AATTCATAAATCAATGTCAAAACATGTC
1 AATTCATAAATCAATG-CAAAACATGTC
* *
23477743 AATTCATAAATCATTGCAAAATATGT
1 AATTCATAAATCAATGCAAAACATGT
23477769 TATCATTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 9 0.38
28 15 0.62
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.31
Consensus pattern (27 bp):
AATTCATAAATCAATGCAAAACATGTC
Found at i:23478826 original size:17 final size:17
Alignment explanation
Indices: 23478804--23478840 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
23478794 AGTAAAAATT
23478804 AGATAACTTTTCATAAA
1 AGATAACTTTTCATAAA
23478821 AGATAACTTTTCATAAA
1 AGATAACTTTTCATAAA
23478838 AGA
1 AGA
23478841 CTCGGATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.49, C:0.11, G:0.08, T:0.32
Consensus pattern (17 bp):
AGATAACTTTTCATAAA
Found at i:23488718 original size:14 final size:14
Alignment explanation
Indices: 23488678--23488720 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
23488668 TTTACATACC
23488678 ATAACATGTTAGAAA
1 ATAACATGTTAG-AA
* * *
23488693 ACAACATATTAGAG
1 ATAACATGTTAGAA
23488707 ATAACATGTTAGAA
1 ATAACATGTTAGAA
23488721 GAACAGTAAT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 12 0.55
15 10 0.45
ACGTcount: A:0.51, C:0.09, G:0.14, T:0.26
Consensus pattern (14 bp):
ATAACATGTTAGAA
Found at i:23496642 original size:144 final size:144
Alignment explanation
Indices: 23496382--23496809 Score: 811
Period size: 144 Copynumber: 3.0 Consensus size: 144
23496372 AACTCTTAAA
* *
23496382 ATTTCTAATATTTACAACTCCATGGGTACAGAGATAATCGGATTACAAATGAGAATCCAGTTCTT
1 ATTTCTAATATTTACAACTCCATGGGTACGGAGATAATCAGATTACAAATGAGAATCCAGTTCTT
23496447 AAATACAGGGACCAAAAGCTAAAACATTGATCAGCTATTGAAGGGTAGCTCGTTCTTAATTGCAA
66 AAATACAGGGACCAAAAGCTAAAACATTGATCAGCTATTGAAGGGTAGCTCGTTCTTAATTGCAA
23496512 TATGAACTTCTAAT
131 TATGAACTTCTAAT
23496526 ATTTCTAATATTTACAACTCCATGGGTACGGAGATAATCAGATTACAAATGAGAATCCAGTTCTT
1 ATTTCTAATATTTACAACTCCATGGGTACGGAGATAATCAGATTACAAATGAGAATCCAGTTCTT
23496591 AAATACAGGGACCAAAAGCTAAAACATTGATCAGCTATTGAAGGGTAGCTCGTTCTTAATTGCAA
66 AAATACAGGGACCAAAAGCTAAAACATTGATCAGCTATTGAAGGGTAGCTCGTTCTTAATTGCAA
23496656 TATGAACTTCTAAT
131 TATGAACTTCTAAT
*
23496670 ATTTCTAATATTTACAACTCCATGGGTATGGAGATAATCAGATTACAAATGAGAATCCAGTTCTT
1 ATTTCTAATATTTACAACTCCATGGGTACGGAGATAATCAGATTACAAATGAGAATCCAGTTCTT
* *
23496735 AAATACAGGGACCAAAAGTTAAAACATTGATTAGCTATTGAAGGGTAGCTCGTTCTTAATTGCAA
66 AAATACAGGGACCAAAAGCTAAAACATTGATCAGCTATTGAAGGGTAGCTCGTTCTTAATTGCAA
23496800 TATGAACTTC
131 TATGAACTTC
23496810 CAACTCCCAG
Statistics
Matches: 279, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
144 279 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (144 bp):
ATTTCTAATATTTACAACTCCATGGGTACGGAGATAATCAGATTACAAATGAGAATCCAGTTCTT
AAATACAGGGACCAAAAGCTAAAACATTGATCAGCTATTGAAGGGTAGCTCGTTCTTAATTGCAA
TATGAACTTCTAAT
Found at i:23499937 original size:25 final size:23
Alignment explanation
Indices: 23499909--23499954 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
23499899 TATGTTAATA
*
23499909 TAAATTATGATATATAATTTTTTTG
1 TAAA-TATGATAT-TAATATTTTTG
*
23499934 TAAATATTATATTAATATTTT
1 TAAATATGATATTAATATTTT
23499955 ATAAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 8 0.42
24 7 0.37
25 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (23 bp):
TAAATATGATATTAATATTTTTG
Found at i:23500221 original size:17 final size:17
Alignment explanation
Indices: 23500199--23500233 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
23500189 TTTCTCGAGA
* *
23500199 TAAAAATCTTTTTATTT
1 TAAAAATATTTTAATTT
23500216 TAAAAATATTTTAATTT
1 TAAAAATATTTTAATTT
23500233 T
1 T
23500234 TTTAATTAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TAAAAATATTTTAATTT
Found at i:23504174 original size:2 final size:2
Alignment explanation
Indices: 23504167--23504197 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
23504157 GATGTATGTC
23504167 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
23504198 AAATATTTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:23513706 original size:23 final size:22
Alignment explanation
Indices: 23513680--23513723 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 22
23513670 TTATTTCCAT
* *
23513680 AATTAATTTTTTTTTCATATTTC
1 AATTAATTCTTATTTC-TATTTC
*
23513703 AATTCATTCTTATTTCTATTT
1 AATTAATTCTTATTTCTATTT
23513724 TTAAAAACTT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.64
Consensus pattern (22 bp):
AATTAATTCTTATTTCTATTTC
Found at i:23514039 original size:24 final size:24
Alignment explanation
Indices: 23514012--23514066 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 24
23514002 ATTATTTTAT
23514012 AATAATATTTT-TAAATTAAATAAA
1 AATAATATTTTATAAATTAAA-AAA
*
23514036 AATAATTTTTTAATAAATTAAAAAA
1 AATAATATTTT-ATAAATTAAAAAA
*
23514061 ATTAAT
1 AATAAT
23514067 GTGAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 10 0.37
25 8 0.30
26 9 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AATAATATTTTATAAATTAAAAAA
Found at i:23514057 original size:22 final size:23
Alignment explanation
Indices: 23514012--23514063 Score: 65
Period size: 21 Copynumber: 2.3 Consensus size: 23
23514002 ATTATTTTAT
23514012 AATAATATTTTTAAATTAAATAAA
1 AATAAT-TTTTTAAATTAAATAAA
23514036 AATAATTTTTT-AA-TAAATTAAA
1 AATAATTTTTTAAATTAAA-TAAA
23514058 AA-AATT
1 AATAATT
23514064 AATGTGAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 8 0.30
22 8 0.30
23 5 0.19
24 6 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (23 bp):
AATAATTTTTTAAATTAAATAAA
Found at i:23519369 original size:70 final size:71
Alignment explanation
Indices: 23519234--23519369 Score: 161
Period size: 70 Copynumber: 1.9 Consensus size: 71
23519224 TCCTGAAAGA
* * * *
23519234 ATGGAGCAGAATGATTATGAAAAAATTTTTAATTTAATAATTAAAATTTGTAATTATCTATTTAA
1 ATGGAGCAGAATGATGATGAAAAAATTTTTAATTTAATAATCAAAATTTATAATTATCTAATTAA
23519299 TAACGT
66 TAACGT
* * * *
23519305 ATGGA-CAGAGTGATGATG-AAAATTTTATTAATTTTATTATCAAAATTTATAATTAT-TAAATT
1 ATGGAGCAGAATGATGATGAAAAAATTT-TTAATTTAATAATCAAAATTTATAATTATCT-AATT
23519367 AAT
64 AAT
23519370 TTAACTATTA
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
69 8 0.15
70 42 0.76
71 5 0.09
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.42
Consensus pattern (71 bp):
ATGGAGCAGAATGATGATGAAAAAATTTTTAATTTAATAATCAAAATTTATAATTATCTAATTAA
TAACGT
Found at i:23520003 original size:14 final size:15
Alignment explanation
Indices: 23519977--23520005 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
23519967 GCAGTGTGAG
23519977 GCTGCAGCAAATTAA
1 GCTGCAGCAAATTAA
23519992 GCTGCA-CAAATTAA
1 GCTGCAGCAAATTAA
23520006 TTGTTGCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.41, C:0.21, G:0.17, T:0.21
Consensus pattern (15 bp):
GCTGCAGCAAATTAA
Done.