Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 16 of 138
Found at i:4545104 original size:12 final size:12
Alignment explanation
Indices: 4545083--4545130 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
4545073 TTCCCGTAAA
*
4545083 ATATTAATATTT
1 ATATTTATATTT
*
4545095 ATATTTATATTA
1 ATATTTATATTT
*
4545107 ATTTTTATATTT
1 ATATTTATATTT
*
4545119 AAATTATATATT
1 ATATT-TATATT
4545131 ATAATTCGTA
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
12 23 0.79
13 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATATTTATATTT
Found at i:4545106 original size:18 final size:18
Alignment explanation
Indices: 4545083--4545130 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
4545073 TTCCCGTAAA
4545083 ATATTAATATTTATATTT
1 ATATTAATATTTATATTT
*
4545101 ATATTAATTTTTATATTT
1 ATATTAATATTTATATTT
*
4545119 AAATTATATATT
1 ATATTA-ATATT
4545131 ATAATTCGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 22 0.85
19 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTAATATTTATATTT
Found at i:4545218 original size:16 final size:17
Alignment explanation
Indices: 4545194--4545226 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
4545184 TATATAAAAT
4545194 TATCATTATAATTTTTA
1 TATCATTATAATTTTTA
*
4545211 TATC-TTATTATTTTTA
1 TATCATTATAATTTTTA
4545227 AATTTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (17 bp):
TATCATTATAATTTTTA
Found at i:4545232 original size:23 final size:23
Alignment explanation
Indices: 4545170--4545234 Score: 58
Period size: 25 Copynumber: 2.7 Consensus size: 23
4545160 TATAAAATTT
*
4545170 TTATTTTTAAAATTTATATAAAA
1 TTATTTTTAAATTTTATATAAAA
* * ***
4545193 TTATCATTATAATTTTTATATCTTA
1 TTAT--TTTTAAATTTTATATAAAA
4545218 TTATTTTTAAATTTTAT
1 TTATTTTTAAATTTTAT
4545235 TTTCGTATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
23 15 0.47
25 17 0.53
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATTTTTAAATTTTATATAAAA
Found at i:4549735 original size:11 final size:12
Alignment explanation
Indices: 4549674--4549742 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
4549664 TTTTAAATAT
*
4549674 AAATATTTAAAA
1 AAATAATTAAAA
* * * *
4549686 ATATTATTATAT
1 AAATAATTAAAA
*
4549698 AAATATATATAAAT
1 AAATA-AT-TAAAA
4549712 AAATAATTAAAA
1 AAATAATTAAAA
*
4549724 AATTAATT-AAA
1 AAATAATTAAAA
4549735 AAATAATT
1 AAATAATT
4549743 TTTTAAATAA
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
11 10 0.23
12 21 0.48
13 4 0.09
14 9 0.20
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATAATTAAAA
Found at i:4552138 original size:9 final size:9
Alignment explanation
Indices: 4552124--4552157 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
4552114 ATCGAATTAT
4552124 ATTTTTTTA
1 ATTTTTTTA
*
4552133 ATTTTTATA
1 ATTTTTTTA
4552142 TATTTTTTTA
1 -ATTTTTTTA
4552152 ATTTTT
1 ATTTTT
4552158 ATAAAATAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTTTTTA
Found at i:4552145 original size:19 final size:19
Alignment explanation
Indices: 4552121--4552160 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
4552111 TAAATCGAAT
4552121 TATATTTTTTTAATTTTTA
1 TATATTTTTTTAATTTTTA
4552140 TATATTTTTTTAATTTTTA
1 TATATTTTTTTAATTTTTA
4552159 TA
1 TA
4552161 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (19 bp):
TATATTTTTTTAATTTTTA
Found at i:4557896 original size:25 final size:23
Alignment explanation
Indices: 4557860--4557909 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
4557850 TATTTCAATC
4557860 TTTAGAAGTGTCCCAAAAAAAAATT
1 TTTAGAAGTGT-CC-AAAAAAAATT
*
4557885 TTTA-AAGATGTCCAGAAAAAATT
1 TTTAGAAG-TGTCCAAAAAAAATT
4557908 TT
1 TT
4557910 CTTTTAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 11 0.48
24 5 0.22
25 7 0.30
ACGTcount: A:0.46, C:0.10, G:0.12, T:0.32
Consensus pattern (23 bp):
TTTAGAAGTGTCCAAAAAAAATT
Found at i:4560282 original size:11 final size:11
Alignment explanation
Indices: 4560256--4560296 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
4560246 TGTGTTTATG
*
4560256 TTTTATGTTTTG
1 TTTTAT-TTTTA
4560268 TTTTATTTTTA
1 TTTTATTTTTA
4560279 TTTTATTTTTA
1 TTTTATTTTTA
*
4560290 ATTTATT
1 TTTTATT
4560297 AAATTACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 21 0.78
12 6 0.22
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:4561310 original size:20 final size:19
Alignment explanation
Indices: 4561278--4561329 Score: 77
Period size: 20 Copynumber: 2.7 Consensus size: 19
4561268 CTTATATTAT
* *
4561278 ATAAATTTGATAATTTAAA
1 ATAAATATGATAATATAAA
4561297 ATATAATATGATAATATAAA
1 ATA-AATATGATAATATAAA
4561317 ATAAATATGATAA
1 ATAAATATGATAA
4561330 AAAAATTTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.37
Consensus pattern (19 bp):
ATAAATATGATAATATAAA
Found at i:4561340 original size:19 final size:17
Alignment explanation
Indices: 4561294--4561335 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 17
4561284 TTGATAATTT
4561294 AAAATATAATATGATAATA
1 AAAATA-AATATGATAA-A
4561313 TAAAATAAATATGATAAA
1 -AAAATAAATATGATAAA
4561331 AAAAT
1 AAAAT
4561336 TTAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 5 0.23
18 1 0.05
19 10 0.45
20 6 0.27
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (17 bp):
AAAATAAATATGATAAA
Found at i:4561344 original size:15 final size:15
Alignment explanation
Indices: 4561326--4561357 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4561316 AATAAATATG
4561326 ATAAAAAAATTTAAA
1 ATAAAAAAATTTAAA
*
4561341 ATAATAAAATTTAAA
1 ATAAAAAAATTTAAA
4561356 AT
1 AT
4561358 TTTAGTAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
ATAAAAAAATTTAAA
Found at i:4561454 original size:18 final size:19
Alignment explanation
Indices: 4561433--4561471 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
4561423 ACAAATTATG
*
4561433 ATATAATTTTAATATA-AA
1 ATATAATATTAATATATAA
*
4561451 ATATGATATTAATATATAA
1 ATATAATATTAATATATAA
4561470 AT
1 AT
4561472 TTTAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (19 bp):
ATATAATATTAATATATAA
Found at i:4561570 original size:2 final size:2
Alignment explanation
Indices: 4561563--4561588 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4561553 ATATTAACTT
4561563 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
4561589 ACACTAATAA
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:4564276 original size:76 final size:77
Alignment explanation
Indices: 4564173--4564337 Score: 251
Period size: 76 Copynumber: 2.1 Consensus size: 77
4564163 CAATAATTTT
* * ** *
4564173 TTTTGTGTGAAAACTATGAGTAGTTAAACACAAAATTTATTATGTGAAAATTTGTTAAA-TTGTT
1 TTTT-TGTGAAAACTAAGAGCAGTTAAACACAAAATTTATTATGTGAAAATTTGCCAAATTTGTG
*
4564237 ATATTAAATTATA
65 ATATTAAATTAAA
*
4564250 TTTTTGTGAAAATTAAGAGCAGTTAAACACAAAATTTATTATGTGAAAATTTGCCAAATTTGTGA
1 TTTTTGTGAAAACTAAGAGCAGTTAAACACAAAATTTATTATGTGAAAATTTGCCAAATTTGTGA
4564315 TATTAAATTAAA
66 TATTAAATTAAA
4564327 TTTTTGTGAAA
1 TTTTTGTGAAA
4564338 TCTTTAAAAT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
76 49 0.61
77 31 0.39
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (77 bp):
TTTTTGTGAAAACTAAGAGCAGTTAAACACAAAATTTATTATGTGAAAATTTGCCAAATTTGTGA
TATTAAATTAAA
Found at i:4564677 original size:34 final size:32
Alignment explanation
Indices: 4564630--4564697 Score: 93
Period size: 34 Copynumber: 2.1 Consensus size: 32
4564620 ATCAAACACA
4564630 TCAATGATCAAGATTAAACCTTACCTATTATATT
1 TCAATGATCAAGATTAAACCTTACCTA--ATATT
*
4564664 TCAATG-TCTAAGATTAATCCTTACCTAATATT
1 TCAATGATC-AAGATTAAACCTTACCTAATATT
4564696 TC
1 TC
4564698 GGTAGATAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
32 7 0.22
33 2 0.06
34 23 0.72
ACGTcount: A:0.35, C:0.19, G:0.06, T:0.40
Consensus pattern (32 bp):
TCAATGATCAAGATTAAACCTTACCTAATATT
Found at i:4581860 original size:237 final size:235
Alignment explanation
Indices: 4581448--4581937 Score: 799
Period size: 240 Copynumber: 2.1 Consensus size: 235
4581438 AAATGTAATA
4581448 TTGATAGACAGCTTGGTTTGTTTCTTCTGCTCTTTCACTGCCAGTTTCTTCTTCATCTCCTTGAC
1 TTGATAGACAGCTTGGTTTGTTTCTTCTGCTCTTTCACTGCCAGTTTCTTCTTCATCTCCTTGAC
*
4581513 TTTCTCTTCTGTCTTTCTCCTCTCTTCCATCTTTCTCTCTTGTTCTTTTCTCTTTTTCTCTTCCA
66 TTTCTCTTCTGTCTTTCTCCTCTCTTCCATCTTTCTCTCTTGTTCTTTTCTCTTCTTCTCTTCCA
* * *
4581578 CTTTCCTTCTCTCGCATTCTTCTCTTTTCTTCTTCTTTCTCTTCTCTTCTTTGGCC-TCCTTCTC
131 CTTTCCTCCTCTCGCATTCTTCTCGTTTCTTCTTCTTTCTCTTCTCTTCTTTGGCCTTCCTTCGC
* * *
4581642 TTTCTGCTGCTGATCTTGTTTCTTCAGTTCAGATATCACC
196 TTTCTGCTGATGATCTTGTTTCGTCAGTTCAAATATCACC
*
4581682 TTGATAGACAGCTTGGTTTGTTTCTTCTTCTGCTCTTTCACTTCCAGTTTCTTCTTCATCTCCTT
1 TTGATAGACAGCTTGGTTTG--T-TTCTTCTGCTCTTTCACTGCCAGTTTCTTCTTCATCTCCTT
*
4581747 GACTTTCTCTTCTGTCTTTCTCCTCTCTTCCATCTTCTTTCTCTGTTGTTCTTTTCTCTTCTTCT
63 GACTTTCTCTTCTGTCTTTCTCCTCTCTTCCA---TCTTTCTCTCTTGTTCTTTTCTCTTCTTCT
4581812 CTTCCACTTTCCTCCTCTCGCATTCTTCTCGTTTCTTC-T-TTT-TCTTCTCTTCTTTGGCCTTT
125 CTTCCACTTTCCTCCTCTCGCATTCTTCTCGTTTCTTCTTCTTTCTCTTCTCTTCTTTGGCC--T
4581874 TCCTTCGCTTTCTGCTGATGATCTTGTTTCGTCAGTTCAAATATCACC
188 TCCTTCGCTTTCTGCTGATGATCTTGTTTCGTCAGTTCAAATATCACC
4581922 TTGATAGACAGCTTGG
1 TTGATAGACAGCTTGG
4581938 GTTGAAAAAT
Statistics
Matches: 238, Mismatches: 9, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
234 20 0.08
236 1 0.00
237 89 0.37
238 3 0.01
239 1 0.00
240 124 0.52
ACGTcount: A:0.08, C:0.30, G:0.10, T:0.52
Consensus pattern (235 bp):
TTGATAGACAGCTTGGTTTGTTTCTTCTGCTCTTTCACTGCCAGTTTCTTCTTCATCTCCTTGAC
TTTCTCTTCTGTCTTTCTCCTCTCTTCCATCTTTCTCTCTTGTTCTTTTCTCTTCTTCTCTTCCA
CTTTCCTCCTCTCGCATTCTTCTCGTTTCTTCTTCTTTCTCTTCTCTTCTTTGGCCTTCCTTCGC
TTTCTGCTGATGATCTTGTTTCGTCAGTTCAAATATCACC
Found at i:4584009 original size:12 final size:11
Alignment explanation
Indices: 4583968--4584010 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
4583958 ATAAAAATAT
4583968 TTTTTTATT-A
1 TTTTTTATTAA
*
4583978 TATTTTTACTAA
1 T-TTTTTATTAA
4583990 TTTTTTATTAA
1 TTTTTTATTAA
4584001 TTTTCTTATT
1 TTTT-TTATT
4584011 TTTTTCAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 1 0.04
11 20 0.71
12 7 0.25
ACGTcount: A:0.23, C:0.05, G:0.00, T:0.72
Consensus pattern (11 bp):
TTTTTTATTAA
Found at i:4584653 original size:19 final size:18
Alignment explanation
Indices: 4584626--4584661 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
4584616 TTATCAAAAA
4584626 TTTTAATTATATTTTTTAT
1 TTTTAATTAT-TTTTTTAT
*
4584645 TTTTTATTATTTTTTTA
1 TTTTAATTATTTTTTTA
4584662 CTAATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTAATTATTTTTTTAT
Found at i:4585878 original size:17 final size:17
Alignment explanation
Indices: 4585856--4585888 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
4585846 AGGGGCAAGT
4585856 GTGGGTCTTGGCAGCGG
1 GTGGGTCTTGGCAGCGG
*
4585873 GTGGGTTTTGGCAGCG
1 GTGGGTCTTGGCAGCG
4585889 CATGGCACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.06, C:0.15, G:0.52, T:0.27
Consensus pattern (17 bp):
GTGGGTCTTGGCAGCGG
Found at i:4585977 original size:21 final size:22
Alignment explanation
Indices: 4585926--4585978 Score: 54
Period size: 23 Copynumber: 2.4 Consensus size: 22
4585916 TTTTGATTAA
* *
4585926 TTAATTATTATCATATTATTAT
1 TTAATTATTAGCATATTAATAT
*
4585948 TTAA-TATTATTGCATTTTAATAT
1 TTAATTATTA--GCATATTAATAT
4585971 TTAATTAT
1 TTAATTAT
4585979 AAAATAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 5 0.20
22 4 0.16
23 13 0.52
24 3 0.12
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (22 bp):
TTAATTATTAGCATATTAATAT
Found at i:4586156 original size:15 final size:13
Alignment explanation
Indices: 4586138--4586179 Score: 59
Period size: 12 Copynumber: 3.2 Consensus size: 13
4586128 ATAAAATAAA
4586138 ATAATATTATTTAAT
1 ATAATATTATTT--T
4586153 ATAATATTA-TTT
1 ATAATATTATTTT
4586165 ATAATATTATTTT
1 ATAATATTATTTT
4586178 AT
1 AT
4586180 TTTATCTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
12 10 0.38
13 5 0.19
14 2 0.08
15 9 0.35
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATAATATTATTTT
Found at i:4586886 original size:145 final size:144
Alignment explanation
Indices: 4586585--4586886 Score: 312
Period size: 145 Copynumber: 2.1 Consensus size: 144
4586575 AAAGAATTAC
* *
4586585 ATAAAAGTTTTTAAGTAAAATTTATAAAGTATTTTACTAATTAAAAATGATTTAATAAAATTTAA
1 ATAAAAATTTTTAAGTAAAATTTATAAAGTATTTTACTAATTAAAAATGATTAAATAAAATTTAA
* * ***
4586650 AATTTAAAGCAAAAATTGAATTACATAAATTAAGTGTGTAAATTTAAAATTTTTTAATAATTTTA
66 AATTTAAAACAAAAATCGAATTACAT-AATT-AGTGAAAAAATTTAAAATTTTTTAATAATTTTA
*
4586715 ATTGATATATTTTTAG
129 ATTAATATATTTTTAG
** * * *
4586731 ATAATTATTTTT-AGTAAAATTTATGAAA-TTTTTTATTAATTAAAAATGATTAAATAAATTTTA
1 ATAAAAATTTTTAAGTAAAATTTAT-AAAGTATTTTACTAATTAAAAATGATTAAATAAAATTTA
** * *
4586794 AAATTTAAAACAGGAATCGAATTACAT-ATT-TTGAAAAAATTTAAATAAATTTATTTGATATAT
65 AAATTTAAAACAAAAATCGAATTACATAATTAGTGAAAAAATTT--A-AAATTT-TTT-A-ATAA
4586857 TTTTAGA-TAAT-TATTTTTA-
124 TTTTA-ATTAATATATTTTTAG
4586876 ATAAAAATTTT
1 ATAAAAATTTT
4586887 GATAGAATTT
Statistics
Matches: 129, Mismatches: 19, Indels: 17
0.78 0.12 0.10
Matches are distributed among these distances:
141 8 0.06
143 4 0.03
144 6 0.05
145 78 0.60
146 21 0.16
147 11 0.09
148 1 0.01
ACGTcount: A:0.47, C:0.02, G:0.07, T:0.45
Consensus pattern (144 bp):
ATAAAAATTTTTAAGTAAAATTTATAAAGTATTTTACTAATTAAAAATGATTAAATAAAATTTAA
AATTTAAAACAAAAATCGAATTACATAATTAGTGAAAAAATTTAAAATTTTTTAATAATTTTAAT
TAATATATTTTTAG
Found at i:4587009 original size:12 final size:12
Alignment explanation
Indices: 4586986--4587019 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4586976 TTGAATTCTA
4586986 TTAAATTATTTAT
1 TTAAATT-TTTAT
4586999 TTAAATTTTTAT
1 TTAAATTTTTAT
*
4587011 TAAAATTTT
1 TTAAATTTT
4587020 AATTGAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 13 0.65
13 7 0.35
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTAAATTTTTAT
Found at i:4587028 original size:23 final size:23
Alignment explanation
Indices: 4586970--4587028 Score: 57
Period size: 23 Copynumber: 2.6 Consensus size: 23
4586960 TATTATTGAC
* *
4586970 TTTTTATTGAA-TTCTATTAAAT
1 TTTTAATTGAATTTCTATTAAAA
* * *
4586992 TATTTATTTAAATTTTTATTAAAA
1 T-TTTAATTGAATTTCTATTAAAA
4587016 TTTTAATTGAATT
1 TTTTAATTGAATT
4587029 GTTTTTATTA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
22 1 0.04
23 17 0.61
24 10 0.36
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.59
Consensus pattern (23 bp):
TTTTAATTGAATTTCTATTAAAA
Found at i:4588215 original size:33 final size:33
Alignment explanation
Indices: 4588177--4588239 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
4588167 GTGATAACTA
*
4588177 TTCTTCTGTTCTTCTTCTTGTT-TCTTCATCCTC
1 TTCTTCTGCTCTTCTTCTT-TTCTCTTCATCCTC
4588210 TTCTTCTGCTCTTCTTCTTTTCTCTTCATC
1 TTCTTCTGCTCTTCTTCTTTTCTCTTCATC
4588240 TCATGTCGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.03, C:0.32, G:0.05, T:0.60
Consensus pattern (33 bp):
TTCTTCTGCTCTTCTTCTTTTCTCTTCATCCTC
Found at i:4591576 original size:46 final size:46
Alignment explanation
Indices: 4591523--4591612 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
4591513 TAGCAGGTGG
* * *
4591523 TTCTAGGATTCAGGGCCAGAAATAAGAGGTGATGAGACATAGGCAA
1 TTCTAGGACTCAGGGCAAGAAATAAGAGGTGATGAAACATAGGCAA
*
4591569 TTCTAGGACTCAGGGCAAGAAATAAGAGGTGATGAAATATAGGC
1 TTCTAGGACTCAGGGCAAGAAATAAGAGGTGATGAAACATAGGC
4591613 GGTCCTACGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.38, C:0.12, G:0.30, T:0.20
Consensus pattern (46 bp):
TTCTAGGACTCAGGGCAAGAAATAAGAGGTGATGAAACATAGGCAA
Found at i:4601982 original size:16 final size:18
Alignment explanation
Indices: 4601961--4601998 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
4601951 AATTATTTTT
4601961 ATTTAAAGT-TT-ATATA
1 ATTTAAAGTATTGATATA
*
4601977 ATTTAAATTATTGATATA
1 ATTTAAAGTATTGATATA
4601995 ATTT
1 ATTT
4601999 TTAAGGGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (18 bp):
ATTTAAAGTATTGATATA
Found at i:4604818 original size:3 final size:3
Alignment explanation
Indices: 4604810--4604846 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
4604800 CAATCCTCTA
*
4604810 ATT ATT ATT ATT ATT AGT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
4604847 ATTTCTTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:4605956 original size:2 final size:2
Alignment explanation
Indices: 4605949--4605978 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4605939 TTGATTTTAT
*
4605949 TA TA TA TA TA TA TA TA TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4605979 GGATCAAAAA
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4610774 original size:121 final size:121
Alignment explanation
Indices: 4610625--4610871 Score: 449
Period size: 121 Copynumber: 2.0 Consensus size: 121
4610615 CTTATACATA
*
4610625 CATATTAGACATCACTTGAGCCAAAAAACGTAAACTATTAGGTTCTTGGGTTCTTCATGCATATA
1 CATATTAGACATCACTTGAGCCAAAAAACGTAAACTATTAGGTTCTTGAGTTCTTCATGCATATA
* *
4610690 TAAGATATCTTATTCAGATTTCTTAATGATGTAAGATTTTTTACTCACATGTGAAC
66 TAAGATATCTCATTCAGATTTCTTAATGATGTAAGAATTTTTACTCACATGTGAAC
* *
4610746 CATATTAGACATCACTTGAGTCAAAAAACGTAAACTATTAGGTTCTTGAGTTTTTCATGCATATA
1 CATATTAGACATCACTTGAGCCAAAAAACGTAAACTATTAGGTTCTTGAGTTCTTCATGCATATA
4610811 TAAGATATCTCATTCAGATTTCTTAATGATGTAAGAATTTTTACTCACATGTGAAC
66 TAAGATATCTCATTCAGATTTCTTAATGATGTAAGAATTTTTACTCACATGTGAAC
4610867 CATAT
1 CATAT
4610872 CCCAACAAAT
Statistics
Matches: 121, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
121 121 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.37
Consensus pattern (121 bp):
CATATTAGACATCACTTGAGCCAAAAAACGTAAACTATTAGGTTCTTGAGTTCTTCATGCATATA
TAAGATATCTCATTCAGATTTCTTAATGATGTAAGAATTTTTACTCACATGTGAAC
Found at i:4614073 original size:12 final size:12
Alignment explanation
Indices: 4614058--4614087 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
4614048 TACAGAAATA
4614058 TATATATTTATG
1 TATATATTTATG
*
4614070 TATATGTTTATG
1 TATATATTTATG
4614082 TATATA
1 TATATA
4614088 AATACATGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (12 bp):
TATATATTTATG
Found at i:4619187 original size:14 final size:15
Alignment explanation
Indices: 4619168--4619201 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
4619158 TATACAACAA
4619168 AAATAA-AAAAAAAT
1 AAATAAGAAAAAAAT
4619182 AAATAAGAAAAAAAT
1 AAATAAGAAAAAAAT
4619197 AAATA
1 AAATA
4619202 TCACTATCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (15 bp):
AAATAAGAAAAAAAT
Found at i:4622788 original size:24 final size:24
Alignment explanation
Indices: 4622760--4622805 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
4622750 TTTGGTGCAT
4622760 TAGGCCTAGCCTCATTATCATTAC
1 TAGGCCTAGCCTCATTATCATTAC
*
4622784 TAGGCCTCGCCTCATTATCATT
1 TAGGCCTAGCCTCATTATCATT
4622806 TCTTTTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (24 bp):
TAGGCCTAGCCTCATTATCATTAC
Found at i:4623784 original size:29 final size:28
Alignment explanation
Indices: 4623747--4623801 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
4623737 ACCTAAAATC
4623747 AATCAAAATCCTTCTTTAAAAACCCTAGT
1 AATCAAAAT-CTTCTTTAAAAACCCTAGT
* * * *
4623776 AATCCAAATGTTTTTTTAAAACCCTA
1 AATCAAAATCTTCTTTAAAAACCCTA
4623802 AATTGCAACA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 14 0.64
29 8 0.36
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.35
Consensus pattern (28 bp):
AATCAAAATCTTCTTTAAAAACCCTAGT
Found at i:4626894 original size:30 final size:30
Alignment explanation
Indices: 4626854--4626911 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
4626844 TCTGTCTTAG
*
4626854 CTTATGAATCCTCTCCTTT-TGAGTTGTCAC
1 CTTATAAATCCTCT-CTTTCTGAGTTGTCAC
4626884 CTTATAAATCCTCTCTTTCTGAGTTGTC
1 CTTATAAATCCTCTCTTTCTGAGTTGTC
4626912 TTCTTCTATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 4 0.15
30 22 0.85
ACGTcount: A:0.17, C:0.26, G:0.12, T:0.45
Consensus pattern (30 bp):
CTTATAAATCCTCTCTTTCTGAGTTGTCAC
Found at i:4628818 original size:12 final size:12
Alignment explanation
Indices: 4628801--4628825 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4628791 TAGTCTTAGA
4628801 TTCCTTCTATTT
1 TTCCTTCTATTT
4628813 TTCCTTCTATTT
1 TTCCTTCTATTT
4628825 T
1 T
4628826 CTCTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.24, G:0.00, T:0.68
Consensus pattern (12 bp):
TTCCTTCTATTT
Found at i:4645661 original size:2 final size:2
Alignment explanation
Indices: 4645654--4645685 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
4645644 CTGTTTTTGG
4645654 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
4645686 TAAGAGTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4646673 original size:9 final size:9
Alignment explanation
Indices: 4646658--4646716 Score: 100
Period size: 9 Copynumber: 6.6 Consensus size: 9
4646648 CTGAACCGGC
4646658 TCTTCTTCA
1 TCTTCTTCA
*
4646667 TCCTCTTCA
1 TCTTCTTCA
4646676 TCTTCTTCA
1 TCTTCTTCA
*
4646685 TTTTCTTCA
1 TCTTCTTCA
4646694 TCTTCTTCA
1 TCTTCTTCA
4646703 TCTTCTTCA
1 TCTTCTTCA
4646712 TCTTC
1 TCTTC
4646717 ATGCTCTTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 46 1.00
ACGTcount: A:0.10, C:0.34, G:0.00, T:0.56
Consensus pattern (9 bp):
TCTTCTTCA
Found at i:4646681 original size:18 final size:18
Alignment explanation
Indices: 4646658--4646732 Score: 93
Period size: 18 Copynumber: 4.3 Consensus size: 18
4646648 CTGAACCGGC
4646658 TCTTCTTCATCCTCTTCA
1 TCTTCTTCATCCTCTTCA
**
4646676 TCTTCTTCATTTTCTTCA
1 TCTTCTTCATCCTCTTCA
*
4646694 TCTTCTTCATCTTCTTCA
1 TCTTCTTCATCCTCTTCA
*
4646712 ---TCTTCATGCTCTTCA
1 TCTTCTTCATCCTCTTCA
4646727 TCTTCT
1 TCTTCT
4646733 ACAACATCTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
15 13 0.27
18 36 0.73
ACGTcount: A:0.11, C:0.33, G:0.01, T:0.55
Consensus pattern (18 bp):
TCTTCTTCATCCTCTTCA
Found at i:4646697 original size:15 final size:15
Alignment explanation
Indices: 4646670--4646731 Score: 69
Period size: 15 Copynumber: 4.3 Consensus size: 15
4646660 TTCTTCATCC
4646670 TCTTCATCTTCTTCA
1 TCTTCATCTTCTTCA
* *
4646685 T-TT--TCTTCATCT
1 TCTTCATCTTCTTCA
4646697 TCTTCATCTTCTTCA
1 TCTTCATCTTCTTCA
4646712 TCTTCATGC-TCTTCA
1 TCTTCAT-CTTCTTCA
4646727 TCTTC
1 TCTTC
4646732 TACAACATCT
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
12 8 0.21
13 2 0.05
14 2 0.05
15 26 0.67
16 1 0.03
ACGTcount: A:0.11, C:0.32, G:0.02, T:0.55
Consensus pattern (15 bp):
TCTTCATCTTCTTCA
Found at i:4646700 original size:27 final size:24
Alignment explanation
Indices: 4646660--4646732 Score: 94
Period size: 27 Copynumber: 2.9 Consensus size: 24
4646650 GAACCGGCTC
4646660 TTCTTCATCCTCTTCATCTTCTTCA
1 TTCTTCAT-CTCTTCATCTTCTTCA
4646685 TTTTCTTCATCTTCTTCATCTTCTTCA
1 --TTCTTCATC-TCTTCATCTTCTTCA
4646712 -TCTTCATGCTCTTCATCTTCT
1 TTCTTCAT-CTCTTCATCTTCT
4646733 ACAACATCTT
Statistics
Matches: 44, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
24 19 0.43
25 1 0.02
26 1 0.02
27 23 0.52
ACGTcount: A:0.11, C:0.33, G:0.01, T:0.55
Consensus pattern (24 bp):
TTCTTCATCTCTTCATCTTCTTCA
Found at i:4646724 original size:9 final size:8
Alignment explanation
Indices: 4646661--4646729 Score: 61
Period size: 9 Copynumber: 8.1 Consensus size: 8
4646651 AACCGGCTCT
4646661 TCTTCATCC
1 TCTTCAT-C
4646670 TCTTCATC
1 TCTTCATC
*
4646678 TTCTTCATTT
1 -TCTTCA-TC
4646688 TCTTCATC
1 TCTTCATC
4646696 TTCTTCATC
1 -TCTTCATC
4646705 TTCTTCA--
1 -TCTTCATC
4646712 TCTTCATGC
1 TCTTCAT-C
4646721 TCTTCATC
1 TCTTCATC
4646729 T
1 T
4646730 TCTACAACAT
Statistics
Matches: 52, Mismatches: 2, Indels: 13
0.78 0.03 0.19
Matches are distributed among these distances:
6 6 0.12
8 4 0.08
9 41 0.79
10 1 0.02
ACGTcount: A:0.12, C:0.33, G:0.01, T:0.54
Consensus pattern (8 bp):
TCTTCATC
Found at i:4646740 original size:27 final size:25
Alignment explanation
Indices: 4646661--4646755 Score: 81
Period size: 24 Copynumber: 3.8 Consensus size: 25
4646651 AACCGGCTCT
**
4646661 TCTTCATCCTCTTCATCTTCTTCATTT
1 TCTTCAT-CTCTTCATCTTC-TCATCA
4646688 TCTTCATCTTCTTCATCTTCT--TCA
1 TCTTCATC-TCTTCATCTTCTCATCA
*
4646712 TCTTCATGCTCTTCATCTTCTACAACA
1 TCTTCAT-CTCTTCATCTTCT-CATCA
*
4646739 TCTT--TCTCTTCCTCTTC
1 TCTTCATCTCTTCATCTTC
4646756 ACCGCCTTCG
Statistics
Matches: 59, Mismatches: 4, Indels: 13
0.78 0.05 0.17
Matches are distributed among these distances:
24 31 0.53
25 2 0.03
26 2 0.03
27 24 0.41
ACGTcount: A:0.13, C:0.35, G:0.01, T:0.52
Consensus pattern (25 bp):
TCTTCATCTCTTCATCTTCTCATCA
Found at i:4647342 original size:4 final size:4
Alignment explanation
Indices: 4647333--4647367 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
4647323 CAATAATCTT
4647333 CATA CATA CATA CATA CATA CATA CATA CATA CAT
1 CATA CATA CATA CATA CATA CATA CATA CATA CAT
4647368 GATAACTCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.26
Consensus pattern (4 bp):
CATA
Found at i:4649058 original size:10 final size:10
Alignment explanation
Indices: 4649038--4649066 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
4649028 TAATATAATT
4649038 TTTAA-TATA
1 TTTAAGTATA
4649047 TTTAAGTATA
1 TTTAAGTATA
4649057 TTTAAGTATA
1 TTTAAGTATA
4649067 AAATAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TTTAAGTATA
Found at i:4649131 original size:18 final size:19
Alignment explanation
Indices: 4649083--4649124 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
4649073 TTATTTTTTT
4649083 TATAAAAATT--TAAAATA
1 TATAAAAATTAATAAAATA
4649100 TATAAAAATTAATAAAAATA
1 TATAAAAATTAAT-AAAATA
4649120 TATAA
1 TATAA
4649125 TTTAATATGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.45
19 1 0.05
20 11 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
TATAAAAATTAATAAAATA
Found at i:4649225 original size:24 final size:24
Alignment explanation
Indices: 4649198--4649251 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
4649188 ATATATATTT
*
4649198 AATATTTAAATTTAATTCAAAAT-A
1 AATATTTAAATTTAAAT-AAAATCA
** *
4649222 AATAAATAATTTTAAATAAAATCA
1 AATATTTAAATTTAAATAAAATCA
4649246 AATATT
1 AATATT
4649252 ATAATTTCAA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (24 bp):
AATATTTAAATTTAAATAAAATCA
Found at i:4652210 original size:2 final size:2
Alignment explanation
Indices: 4652203--4652227 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4652193 ATTAGTGGTT
4652203 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 T
4652228 TGCTTTAGGG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4654299 original size:12 final size:12
Alignment explanation
Indices: 4654282--4654307 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4654272 TTCATATTTA
4654282 TATATATGTATG
1 TATATATGTATG
4654294 TATATATGTATG
1 TATATATGTATG
4654306 TA
1 TA
4654308 ATAGAATCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.15, T:0.50
Consensus pattern (12 bp):
TATATATGTATG
Found at i:4655336 original size:14 final size:14
Alignment explanation
Indices: 4655317--4655346 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4655307 ACAGCCTCCA
4655317 AAAAAAAAAAAAAG
1 AAAAAAAAAAAAAG
*
4655331 AAAAAAAGAAAAAG
1 AAAAAAAAAAAAAG
4655345 AA
1 AA
4655347 TGAGCTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:4658025 original size:3 final size:3
Alignment explanation
Indices: 4658017--4658046 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
4658007 ATACCCTTGA
4658017 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4658047 AATATAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4662414 original size:2 final size:2
Alignment explanation
Indices: 4662407--4662432 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4662397 ATGAACTTCA
4662407 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
4662433 CTGCTTATAT
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):
AT
Found at i:4676208 original size:15 final size:15
Alignment explanation
Indices: 4676189--4676222 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
4676179 TAATTTATTA
*
4676189 ATTTTTT-AAAATAT
1 ATTTTTTAAAAAAAT
4676203 ATTTTTTAAAAAAAT
1 ATTTTTTAAAAAAAT
4676218 ATTTT
1 ATTTT
4676223 AACTTTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTTTAAAAAAAT
Found at i:4678754 original size:16 final size:16
Alignment explanation
Indices: 4678717--4678755 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
4678707 ATTATTTTTA
* *
4678717 ATATAAATATAAAATT
1 ATATATATATAAAAAT
*
4678733 AAATATATATAAAAAT
1 ATATATATATAAAAAT
4678749 ATATATA
1 ATATATA
4678756 ATTAAAAAAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATATATATAAAAAT
Found at i:4679723 original size:27 final size:29
Alignment explanation
Indices: 4679671--4679728 Score: 102
Period size: 27 Copynumber: 2.1 Consensus size: 29
4679661 ACTTAATAAT
4679671 TTAATTATTATAAATTTTTAAATAATTTA
1 TTAATTATTATAAATTTTTAAATAATTTA
4679700 TTAATT-TTATAAA-TTTTAAATAATTTA
1 TTAATTATTATAAATTTTTAAATAATTTA
4679727 TT
1 TT
4679729 TTTTTATTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 16 0.55
28 7 0.24
29 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (29 bp):
TTAATTATTATAAATTTTTAAATAATTTA
Found at i:4687541 original size:7 final size:7
Alignment explanation
Indices: 4687524--4687560 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
4687514 TTAAGACATT
4687524 AATGG-A
1 AATGGAA
4687530 AATGGAA
1 AATGGAA
4687537 AATGGAA
1 AATGGAA
4687544 AATGGAA
1 AATGGAA
4687551 AATGGAA
1 AATGGAA
4687558 AAT
1 AAT
4687561 TGTAAGTCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 5 0.17
7 25 0.83
ACGTcount: A:0.57, C:0.00, G:0.27, T:0.16
Consensus pattern (7 bp):
AATGGAA
Found at i:4696743 original size:41 final size:41
Alignment explanation
Indices: 4696686--4696764 Score: 149
Period size: 41 Copynumber: 1.9 Consensus size: 41
4696676 TATTGATTAA
4696686 ATACGGAATTAAATTGTTAATATTGAAGTTAACAGTAATCC
1 ATACGGAATTAAATTGTTAATATTGAAGTTAACAGTAATCC
*
4696727 ATACGGGATTAAATTGTTAATATTGAAGTTAACAGTAA
1 ATACGGAATTAAATTGTTAATATTGAAGTTAACAGTAA
4696765 AACACATTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.34
Consensus pattern (41 bp):
ATACGGAATTAAATTGTTAATATTGAAGTTAACAGTAATCC
Found at i:4699030 original size:27 final size:26
Alignment explanation
Indices: 4699000--4699050 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
4698990 ATTAAATATA
**
4699000 AATAAATTTTATTATATTAGTTTAATT
1 AATAAATTTTAAAATATTA-TTTAATT
4699027 AATAAATTTTAAAATATTATTTAA
1 AATAAATTTTAAAATATTATTTAA
4699051 AATTTTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
AATAAATTTTAAAATATTATTTAATT
Found at i:4701883 original size:3 final size:3
Alignment explanation
Indices: 4701875--4701900 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
4701865 TCATACAAAA
4701875 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
4701901 ATAAAGATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:4702978 original size:21 final size:22
Alignment explanation
Indices: 4702953--4703004 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 22
4702943 ACATAATAGG
*
4702953 ATAAAATTATTTTAAAATAGAT
1 ATAAAATTATTTTAAAATAAAT
4702975 -TAAAA-T-TTTTAAAATAAAT
1 ATAAAATTATTTTAAAATAAAT
4702994 ATACAAATTAT
1 ATA-AAATTAT
4703005 AAGCTAATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
19 12 0.48
20 3 0.12
21 8 0.32
22 1 0.04
23 1 0.04
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (22 bp):
ATAAAATTATTTTAAAATAAAT
Found at i:4706134 original size:18 final size:18
Alignment explanation
Indices: 4706115--4706149 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4706105 TATCTTAAAT
4706115 TTTTTATA-TTATATTTA
1 TTTTTATATTTATATTTA
4706132 TTTTTATATTTATATTTA
1 TTTTTATATTTATATTTA
4706150 ATGAATATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
TTTTTATATTTATATTTA
Found at i:4706140 original size:12 final size:12
Alignment explanation
Indices: 4706117--4706149 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
4706107 TCTTAAATTT
4706117 TTTATA-TTATA
1 TTTATATTTATA
*
4706128 TTTATTTTTATA
1 TTTATATTTATA
4706140 TTTATATTTA
1 TTTATATTTA
4706150 ATGAATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 5 0.26
12 14 0.74
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTATATTTATA
Found at i:4706311 original size:27 final size:28
Alignment explanation
Indices: 4706281--4706343 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
4706271 TTTTATCTTG
* *
4706281 TATATTTAGATA-ATTTTTTTATAAAAA
1 TATATTAAGATATATTTTTTAATAAAAA
*
4706308 TATATTAATATATATTTTTTAATAAAAA
1 TATATTAAGATATATTTTTTAATAAAAA
4706336 TATATTAA
1 TATATTAA
4706344 TTTTAATTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
27 10 0.31
28 22 0.69
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TATATTAAGATATATTTTTTAATAAAAA
Found at i:4706343 original size:14 final size:14
Alignment explanation
Indices: 4706301--4706344 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
4706291 TAATTTTTTT
4706301 ATAAAAATATATTA
1 ATAAAAATATATTA
* * * *
4706315 ATATATATTTTTTA
1 ATAAAAATATATTA
4706329 ATAAAAATATATTA
1 ATAAAAATATATTA
4706343 AT
1 AT
4706345 TTTAATTAAT
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATAAAAATATATTA
Found at i:4706760 original size:22 final size:24
Alignment explanation
Indices: 4706729--4706772 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
4706719 TTAGAAGAAG
4706729 AAAAAGATAAGT-ATTTTTTAATT
1 AAAAAGATAAGTAATTTTTTAATT
4706752 AAAAA-ATAAGTAATTTTTTAA
1 AAAAAGATAAGTAATTTTTTAA
4706773 AAACTTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (24 bp):
AAAAAGATAAGTAATTTTTTAATT
Found at i:4707309 original size:22 final size:22
Alignment explanation
Indices: 4707272--4707314 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
4707262 ATTGTAATTA
*
4707272 TTTTAAATTATAATTTTTTATT
1 TTTTAAATTATAATTTATTATT
4707294 TTTTAAATTA-ATATTTATTAT
1 TTTTAAATTATA-ATTTATTAT
4707315 AACAAGTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (22 bp):
TTTTAAATTATAATTTATTATT
Found at i:4713239 original size:14 final size:13
Alignment explanation
Indices: 4713213--4713238 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4713203 TTGTTACTTT
4713213 TTAAAAGAAAAAA
1 TTAAAAGAAAAAA
4713226 TTAAAAGAAAAAA
1 TTAAAAGAAAAAA
4713239 AAAACAGATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (13 bp):
TTAAAAGAAAAAA
Found at i:4713354 original size:23 final size:23
Alignment explanation
Indices: 4713323--4713367 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4713313 ATGTATCGAA
*
4713323 ATATAATTTTTTTAAAAATTTAT
1 ATATAATTTTATTAAAAATTTAT
* *
4713346 ATATGATTTTATTAAAATTTTA
1 ATATAATTTTATTAAAAATTTA
4713368 AATTTATTAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (23 bp):
ATATAATTTTATTAAAAATTTAT
Found at i:4714240 original size:2 final size:2
Alignment explanation
Indices: 4714225--4714266 Score: 57
Period size: 2 Copynumber: 20.5 Consensus size: 2
4714215 CTCTCTCGGC
* *
4714225 CT CT GT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CGT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C-T CT C
4714267 GAATCAACGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.00, C:0.50, G:0.05, T:0.45
Consensus pattern (2 bp):
CT
Found at i:4721477 original size:33 final size:36
Alignment explanation
Indices: 4721440--4721535 Score: 92
Period size: 33 Copynumber: 2.7 Consensus size: 36
4721430 CGTATATCTG
*
4721440 TATTATATAAAATATAAAAA-ATTTAT-AT-ATTTA
1 TATTATATAAAATATAAAAATATATATCATAATTTA
* ***
4721473 TATTATTTTTTATATAAAAATTATATATCATAATTTA
1 TATTATATAAAATATAAAAA-TATATATCATAATTTA
4721510 TATTTATATAATAATAT-AAAATATAT
1 TA-TTATATAA-AATATAAAAATATAT
4721536 TTTTTTATTA
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
33 16 0.33
35 5 0.10
36 2 0.04
37 12 0.25
38 9 0.19
39 4 0.08
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (36 bp):
TATTATATAAAATATAAAAATATATATCATAATTTA
Found at i:4721583 original size:28 final size:30
Alignment explanation
Indices: 4721550--4721610 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
4721540 TTATTAAATT
*
4721550 TATTTATA-ACTTTTT-TATAAAATTTATA
1 TATTTATATACTTTTTATATAAAAATTATA
*
4721578 TATTTATATATTTTTTATATAAAAATTATA
1 TATTTATATACTTTTTATATAAAAATTATA
4721608 TAT
1 TAT
4721611 CATAATTCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 8 0.28
29 6 0.21
30 15 0.52
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
TATTTATATACTTTTTATATAAAAATTATA
Found at i:4721639 original size:110 final size:108
Alignment explanation
Indices: 4721457--4721681 Score: 373
Period size: 110 Copynumber: 2.1 Consensus size: 108
4721447 TAAAATATAA
*
4721457 AAAATTTATATATTTATATTATTTTTTATATAAAAATTATATATCATAATTTATATTTATATAAT
1 AAAATTTATATATTTATATTATTTTTTATATAAAAATTATATATCATAATTCATATTTATATAAT
*
4721522 AATATAAAATATATTTTTTTATTAAATTTATTTATAACTTTTT-TAT
66 AAAATAAAATATA-TTTTTTA-TAAATTTATTTATAA-TTTTTAT-T
*
4721568 AAAATTTATATATTTATA-TATTTTTTATATAAAAATTATATATCATAATTCGTATTTATATAAT
1 AAAATTTATATATTTATATTATTTTTTATATAAAAATTATATATCATAATTCATATTTATATAAT
4721632 AAAATAAAATATATTTTTTATAAATTTATTTATAATTTTTATT
66 AAAATAAAATATATTTTTTATAAATTTATTTATAATTTTTATT
4721675 AAAATTT
1 AAAATTT
4721682 TAAATCGTAT
Statistics
Matches: 110, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
107 13 0.12
108 16 0.15
109 7 0.06
110 56 0.51
111 18 0.16
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (108 bp):
AAAATTTATATATTTATATTATTTTTTATATAAAAATTATATATCATAATTCATATTTATATAAT
AAAATAAAATATATTTTTTATAAATTTATTTATAATTTTTATT
Found at i:4721938 original size:10 final size:10
Alignment explanation
Indices: 4721903--4721938 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
4721893 ATTTTAAATC
4721903 ATATTATTTTT
1 ATATT-TTTTT
*
4721914 ATATATTTTT
1 ATATTTTTTT
4721924 ATATTTTTTT
1 ATATTTTTTT
4721934 ATATT
1 ATATT
4721939 ATTCTCATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 19 0.83
11 4 0.17
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
ATATTTTTTT
Found at i:4732026 original size:27 final size:27
Alignment explanation
Indices: 4731992--4732048 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
4731982 TTTTCCAAAT
*
4731992 AAATTA-TTAGAAAAAAATAGAAAATAA
1 AAATTATTTACAAAAAAAT-GAAAATAA
* *
4732019 AAATTATTTTCTAAAAAATGAAAATAA
1 AAATTATTTACAAAAAAATGAAAATAA
4732046 AAA
1 AAA
4732049 ATAAAAACCA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (27 bp):
AAATTATTTACAAAAAAATGAAAATAA
Found at i:4732966 original size:106 final size:104
Alignment explanation
Indices: 4732676--4732999 Score: 363
Period size: 105 Copynumber: 3.1 Consensus size: 104
4732666 AAATAAAAAG
* * * * * **
4732676 ATTTGGTGAGATTTTAGAGTACAAAGACTACGTTTCTTGCATAAGAAAAATAGTTTTTGTAGTTT
1 ATTTGGTGAGATTTTGGTGCACAAAGACTATGTTTCTTACATAAGAAATGTAG-TTTTGTAGTTT
* *
4732741 TTTGTTGT-AAAAAAAGTTTTTGAGAAAGTAAAAAGAGAAA
65 TTTGTTGTAAAAAAAAATTTTGGA-AAAGTAAAAAGAGAAA
* * * * *
4732781 ATATGGTGAGATTTTGGTGCACAAAGATTATGTTTCTTACATTAGAAATGCAGTCTTTATAGTTT
1 ATTTGGTGAGATTTTGGTGCACAAAGACTATGTTTCTTACATAAGAAATGTAGT-TTTGTAGTTT
* *
4732846 TTCT-TTTTACAAAAAAAATTATTGGAAAAGTAAAAGGAGAAA
65 TT-TGTTGTA-AAAAAAAATT-TTGGAAAAGTAAAAAGAGAAA
* *
4732888 ATTTGATGAGATTTTGGTGCACAAA-ACTATGTTTCTTACATAAGAAATGTAGTTTTGTAATTTT
1 ATTTGGTGAGATTTTGGTGCACAAAGACTATGTTTCTTACATAAGAAATGTAGTTTTGTAGTTTT
*
4732952 TTGTTGTAAAAAAAAAATTCTTGGAAAAGT---AAGAGAAG
66 TTGTTGT-AAAAAAAAATT-TTGGAAAAGTAAAAAGAGAAA
4732990 ATTTGGTGAG
1 ATTTGGTGAG
4733000 GTTTGTTGAC
Statistics
Matches: 184, Mismatches: 28, Indels: 17
0.80 0.12 0.07
Matches are distributed among these distances:
102 15 0.08
104 2 0.01
105 89 0.48
106 27 0.15
107 47 0.26
108 4 0.02
ACGTcount: A:0.38, C:0.06, G:0.19, T:0.37
Consensus pattern (104 bp):
ATTTGGTGAGATTTTGGTGCACAAAGACTATGTTTCTTACATAAGAAATGTAGTTTTGTAGTTTT
TTGTTGTAAAAAAAAATTTTGGAAAAGTAAAAAGAGAAA
Found at i:4733753 original size:19 final size:18
Alignment explanation
Indices: 4733717--4733758 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
4733707 GTAATTTAAA
*
4733717 AACAATATTTATTATACTT
1 AACAATATGTATTATAC-T
4733736 AACAATATAGTATT-TACT
1 AACAATAT-GTATTATACT
4733754 AACAA
1 AACAA
4733759 AAATCACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 11 0.52
20 4 0.19
ACGTcount: A:0.48, C:0.12, G:0.02, T:0.38
Consensus pattern (18 bp):
AACAATATGTATTATACT
Found at i:4734857 original size:17 final size:17
Alignment explanation
Indices: 4734835--4734886 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
4734825 ATAAATAAAC
* * *
4734835 AAATAAATAGTGAAATA
1 AAATAAAAAATGAAAGA
4734852 AAATAAAAAATGAAAGA
1 AAATAAAAAATGAAAGA
4734869 AAATGAAAATAAT-AAAGA
1 AAAT-AAAA-AATGAAAGA
4734887 TAAAAGGGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
17 18 0.60
18 9 0.30
19 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.12, T:0.17
Consensus pattern (17 bp):
AAATAAAAAATGAAAGA
Found at i:4734899 original size:21 final size:22
Alignment explanation
Indices: 4734873--4734914 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
4734863 GAAAGAAAAT
*
4734873 GAAAATAAT-AAAGATAAAAGG
1 GAAAATAATAAAAAATAAAAGG
4734894 GAAAATAATAAAAAATAAAAG
1 GAAAATAATAAAAAATAAAAG
4734915 AAAAATACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (22 bp):
GAAAATAATAAAAAATAAAAGG
Found at i:4734919 original size:21 final size:21
Alignment explanation
Indices: 4734853--4734921 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 21
4734843 AGTGAAATAA
* *
4734853 AATAAAAAATGAAAGAAAATGAA
1 AATAAAAAATAAAAGAAAA--AT
*
4734876 AATAATAAAGATAAAAGGGAAAAT
1 AATAA-AAA-ATAAAA-GAAAAAT
4734900 AATAAAAAATAAAAGAAAAAT
1 AATAAAAAATAAAAGAAAAAT
4734921 A
1 A
4734922 CTTAAAGTCG
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
21 7 0.18
22 6 0.15
23 8 0.21
24 9 0.23
25 5 0.13
26 4 0.10
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (21 bp):
AATAAAAAATAAAAGAAAAAT
Found at i:4740102 original size:26 final size:23
Alignment explanation
Indices: 4740073--4740119 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
4740063 AAAAATTATT
4740073 ATTAGAAAAAAAATATAAATTTTAAA
1 ATTA-AAAAAAAAT-T-AATTTTAAA
*
4740099 ATTAATAAAAAATTAATTTTA
1 ATTAAAAAAAAATTAATTTTA
4740120 CTATTCTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 7 0.35
24 1 0.05
25 8 0.40
26 4 0.20
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (23 bp):
ATTAAAAAAAAATTAATTTTAAA
Found at i:4743215 original size:3 final size:3
Alignment explanation
Indices: 4743202--4743230 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
4743192 TTTCTCTTTA
4743202 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
4743231 ATATGATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 23 0.92
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:4751562 original size:5 final size:6
Alignment explanation
Indices: 4751546--4751576 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
4751536 AAATAAAATA
*
4751546 ATTTCT ATTTTT ATTTTT ATTTTT ATTTTT A
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT A
4751577 AAAAAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:4752608 original size:12 final size:12
Alignment explanation
Indices: 4752591--4752615 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4752581 ATTCATTCTC
4752591 TTTTTCTTTTTT
1 TTTTTCTTTTTT
4752603 TTTTTCTTTTTT
1 TTTTTCTTTTTT
4752615 T
1 T
4752616 CCTCTTGTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (12 bp):
TTTTTCTTTTTT
Found at i:4752957 original size:19 final size:18
Alignment explanation
Indices: 4752911--4752957 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
4752901 ATCAAATAAA
4752911 TTAAAAAAA-TAAAAA-T
1 TTAAAAAAATTAAAAATT
4752927 TTAAAGATAAATTAAAAATT
1 TTAAA-A-AAATTAAAAATT
4752947 TTAACAAAAAT
1 TTAA-AAAAAT
4752958 ATCTAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
16 5 0.19
17 1 0.04
18 3 0.12
19 10 0.38
20 6 0.23
21 1 0.04
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (18 bp):
TTAAAAAAATTAAAAATT
Found at i:4755782 original size:23 final size:23
Alignment explanation
Indices: 4755756--4755799 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
4755746 ATTATTATTG
*
4755756 ATAATACATGACATTTATAATGA
1 ATAATACATGACATTCATAATGA
* *
4755779 ATAATACGTGATATTCATAAT
1 ATAATACATGACATTCATAAT
4755800 AAGTTATACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (23 bp):
ATAATACATGACATTCATAATGA
Found at i:4756137 original size:73 final size:72
Alignment explanation
Indices: 4756046--4756389 Score: 255
Period size: 73 Copynumber: 4.8 Consensus size: 72
4756036 ATAATATTAA
* * * * *
4756046 GAAAAGATATTTTTAACATCTATTGTTTTTTCTTATCTTAAAAACATAGTATTTATTAAAATTAT
1 GAAAATATAATTTCAACATCTATTGTTGTTT-TTATCTTAAAAATATAGTATTTATT-AAATTAT
4756111 -AAAATTTT
64 CAAAATTTT
* * * * **
4756119 GAAAATATAATTTCAACATCCATT-ATGTTTTAATCTTAAAAATGT-G-ATTT-TTGTATTA-CA
1 GAAAATATAATTTCAACATCTATTGTTGTTTTTATCTTAAAAATATAGTATTTATTAAATTATCA
4756179 AAATTTT
66 AAATTTT
** * * * *
4756186 GAAAATATGGTTTCAACAT-TCGTCG-TGTTTTTATTTTAAAAATATAGTATTTATTAAATTTTC
1 GAAAATATAATTTCAACATCT-ATTGTTGTTTTTATCTTAAAAATATAGTATTTATTAAATTATC
4756249 AAAATTTT
65 AAAATTTT
* * * * * * * *
4756257 -AAAAGTATTATATCAACATCCATTG-TGCCTTTTCATCTTCAAAATTTGGTATTTGTTAAAATT
1 GAAAA-TATAATTTCAACATCTATTGTTG--TTTTTATCTTAAAAATATAGTATTTATT-AAATT
4756320 -TCAAAATTTT
62 ATCAAAATTTT
* * * *
4756330 GAAAATATAATTTCAACATTTATT-ATGTTTTTAATCGTAAAAATAT-GATATTTGTTAAAT
1 GAAAATATAATTTCAACATCTATTGTTGTTTTT-ATCTTAAAAATATAG-TATTTATTAAAT
4756390 ATAATTTCAA
Statistics
Matches: 213, Mismatches: 42, Indels: 34
0.74 0.15 0.12
Matches are distributed among these distances:
67 47 0.22
68 3 0.01
69 8 0.04
70 10 0.05
71 45 0.21
72 22 0.10
73 69 0.32
74 9 0.04
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (72 bp):
GAAAATATAATTTCAACATCTATTGTTGTTTTTATCTTAAAAATATAGTATTTATTAAATTATCA
AAATTTT
Found at i:4756273 original size:138 final size:143
Alignment explanation
Indices: 4756078--4756349 Score: 342
Period size: 138 Copynumber: 1.9 Consensus size: 143
4756068 TTGTTTTTTC
*
4756078 TTATCTTAAAAACATAGTATTTATTAAAATTATAAAATTTTGAAAATATAATTTCAACATCCATT
1 TTATCTTAAAAACATAGTATTTATTAAAATTATAAAATTTTGAAAATATAATATCAACATCCATT
** **
4756143 ATG-TTTTAATCTTAAAAATGT-G-ATTT-TT-GTATTACAAAATTTTGAAAATATGGTTTCAAC
66 ATGCTTTTAATCTTAAAAATGTGGTATTTGTTAAAATTACAAAATTTTGAAAATATAATTTCAAC
4756203 ATTCGTCGTGTTT
131 ATTCGTCGTGTTT
* * * *
4756216 TTATTTTAAAAATATAGTATTTATT-AAATTTTCAAAATTTT-AAAAGTATTATATCAACATCCA
1 TTATCTTAAAAACATAGTATTTATTAAAATTAT-AAAATTTTGAAAA-TATAATATCAACATCCA
* * * * *
4756279 TTGTGCCTTTTCATCTTCAAAATTTGGTATTTGTTAAAATTTCAAAATTTTGAAAATATAATTTC
64 TTATG-CTTTTAATCTTAAAAATGTGGTATTTGTTAAAATTACAAAATTTTGAAAATATAATTTC
4756344 AACATT
128 AACATT
4756350 TATTATGTTT
Statistics
Matches: 112, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
137 10 0.09
138 50 0.45
140 15 0.13
141 1 0.01
142 4 0.04
143 2 0.02
144 30 0.27
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (143 bp):
TTATCTTAAAAACATAGTATTTATTAAAATTATAAAATTTTGAAAATATAATATCAACATCCATT
ATGCTTTTAATCTTAAAAATGTGGTATTTGTTAAAATTACAAAATTTTGAAAATATAATTTCAAC
ATTCGTCGTGTTT
Found at i:4756452 original size:55 final size:53
Alignment explanation
Indices: 4756332--4756439 Score: 166
Period size: 54 Copynumber: 2.1 Consensus size: 53
4756322 AAAATTTTGA
*
4756332 AAATATAATTTCAACATTTATTATGTTTTTAATCGTAAAAATATGATATTTGTT
1 AAATATAATTTCAACATTCATTATGTTTTTAATCGTAAAAATA-GATATTTGTT
* *
4756386 AAATATAATTTCAACATTCATTATGTTTTTTATCTTAAAAA-A-ATATTTGTT
1 AAATATAATTTCAACATTCATTATGTTTTTAATCGTAAAAATAGATATTTGTT
4756437 AAA
1 AAA
4756440 ATTTCATAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
51 12 0.24
53 1 0.02
54 38 0.75
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (53 bp):
AAATATAATTTCAACATTCATTATGTTTTTAATCGTAAAAATAGATATTTGTT
Found at i:4756477 original size:64 final size:66
Alignment explanation
Indices: 4756396--4756526 Score: 167
Period size: 66 Copynumber: 2.0 Consensus size: 66
4756386 AAATATAATT
* * * * *
4756396 TCAACATTCATTATGTTTTT-TATCTTAAA-AAAATATTTGTTAAAATTTCATAATTTCGAAAAT
1 TCAACATCCATTATGTTTTTATAGCTTAAACAAAATATTTATTAAAATTTCAAAATTTCAAAAAT
4756459 A
66 A
* * * *
4756460 TCAACATCCATTTTGTTTTTATAGCTTAAACATAATCTTTATTAAAATTTCAAAATTTTAAAAAT
1 TCAACATCCATTATGTTTTTATAGCTTAAACAAAATATTTATTAAAATTTCAAAATTTCAAAAAT
4756525 A
66 A
4756526 T
1 T
4756527 AAATTCAACA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
64 18 0.32
65 8 0.14
66 30 0.54
ACGTcount: A:0.40, C:0.11, G:0.04, T:0.45
Consensus pattern (66 bp):
TCAACATCCATTATGTTTTTATAGCTTAAACAAAATATTTATTAAAATTTCAAAATTTCAAAAAT
A
Found at i:4780626 original size:18 final size:19
Alignment explanation
Indices: 4780582--4780619 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
4780572 ACAATTATGG
*
4780582 AAGTATTTAAAAACTAAAA
1 AAGTGTTTAAAAACTAAAA
4780601 AAGTGTTTAAAAACTAAAA
1 AAGTGTTTAAAAACTAAAA
4780620 GGTGTTTGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (19 bp):
AAGTGTTTAAAAACTAAAA
Found at i:4786264 original size:19 final size:20
Alignment explanation
Indices: 4786234--4786280 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
4786224 TCCGGCCAAC
4786234 TTCCGCGCG-AAATTTCCAGA
1 TTCCG-GCGAAAATTTCCAGA
4786254 TTCCGGCGAAAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
*
4786274 ATCCGGC
1 TTCCGGC
4786281 ACCGGTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.12
20 22 0.88
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (20 bp):
TTCCGGCGAAAATTTCCAGA
Found at i:4786532 original size:8 final size:8
Alignment explanation
Indices: 4786519--4786544 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
4786509 GCCGAGCCGA
4786519 GCCAAGCC
1 GCCAAGCC
4786527 GCCAAGCC
1 GCCAAGCC
4786535 GCCAAGCC
1 GCCAAGCC
4786543 GC
1 GC
4786545 TCCCCCGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.50, G:0.27, T:0.00
Consensus pattern (8 bp):
GCCAAGCC
Found at i:4786646 original size:20 final size:19
Alignment explanation
Indices: 4786618--4786666 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
4786608 GGTTTTTTTT
4786618 TTTTTTATTTCT-TTGTTTA
1 TTTTTTATTT-TATTGTTTA
*
4786637 TTTGTTTATTTTATTTTTTA
1 TTT-TTTATTTTATTGTTTA
4786657 TTTTTTATTT
1 TTTTTTATTT
4786667 ATTAGATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.12, C:0.02, G:0.04, T:0.82
Consensus pattern (19 bp):
TTTTTTATTTTATTGTTTA
Found at i:4786663 original size:7 final size:7
Alignment explanation
Indices: 4786610--4786666 Score: 50
Period size: 7 Copynumber: 8.4 Consensus size: 7
4786600 CCACTCCAGG
4786610 TTTTTT-
1 TTTTTTA
4786616 TTTTTT-
1 TTTTTTA
* *
4786622 TTATTTC
1 TTTTTTA
4786629 TTTGTTTA
1 TTT-TTTA
4786637 TTTGTTTA
1 TTT-TTTA
4786645 --TTTTA
1 TTTTTTA
4786650 TTTTTTA
1 TTTTTTA
4786657 TTTTTTA
1 TTTTTTA
4786664 TTT
1 TTT
4786667 ATTAGATTAG
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
5 4 0.09
6 12 0.27
7 17 0.39
8 11 0.25
ACGTcount: A:0.11, C:0.02, G:0.04, T:0.84
Consensus pattern (7 bp):
TTTTTTA
Found at i:4786682 original size:32 final size:32
Alignment explanation
Indices: 4786618--4786682 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
4786608 GGTTTTTTTT
* * * *
4786618 TTTTTTATTTCTTTGTTTATTTGTTTATTTTA
1 TTTTTTATTTCTTTATTTATTAGATTAGTTTA
4786650 TTTTTTATTT-TTTATTTATTAGATTAGGTTTA
1 TTTTTTATTTCTTTATTTATTAGATTA-GTTTA
4786682 T
1 T
4786683 GTAATATTCT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.17, C:0.02, G:0.08, T:0.74
Consensus pattern (32 bp):
TTTTTTATTTCTTTATTTATTAGATTAGTTTA
Found at i:4786815 original size:59 final size:57
Alignment explanation
Indices: 4786755--4787263 Score: 686
Period size: 59 Copynumber: 8.6 Consensus size: 57
4786745 CTAAAAGAAT
*
4786755 ATATTTTTAGTGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC-AAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCAAAAAA
* *
4786812 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC--AAAAAA
* *
4786871 ATATTTTTAGGAAAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCTAAAAA
1 ATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCAAAAAA
4786929 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTT-C-AAAAAA
4786988 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCTAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTC-AAAAAA
*
4787046 ATATTTTTATGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTT-C-AAAAAA
*
4787110 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAA
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAA-TTTCAAAAAA
** *
4787168 AGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCCAAAAA
1 A-TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCAAAAAA
*
4787228 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
4787264 CTAAAAAAAA
Statistics
Matches: 410, Mismatches: 19, Indels: 44
0.87 0.04 0.09
Matches are distributed among these distances:
56 4 0.01
57 80 0.20
58 72 0.18
59 145 0.35
60 50 0.12
61 6 0.01
63 9 0.02
64 44 0.11
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (57 bp):
ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAA
Found at i:4786898 original size:117 final size:116
Alignment explanation
Indices: 4786755--4787263 Score: 712
Period size: 117 Copynumber: 4.3 Consensus size: 116
4786745 CTAAAAGAAT
*
4786755 ATATTTTTAGTGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTCAAAAAATATTTT
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATTTTCAAAAAATATTTT
* *
4786819 TGGGGAAAAGTTGAAAGTATCAATTTTCCTCAG-AAATAAATTTCAAAAAAAA
65 TAGGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAAATAAATTTCCAAAAAAA
*
4786871 ATATTTTTAGGAAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAA-TTTCTAAAAAATATTT
1 ATATTTTTAGG-GAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTC-AAAAAATATTT
4786935 TTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAATAAATTTCCAAAAAAA
64 TTAGGGAAAAGTTGAAAGTATCAATTTTCC-TAGAAAATAAATTTCCAAAAAAA
*
4786988 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCTAAAAAAATATTTT
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTT-TCAAAAAATATTTT
*
4787053 TATGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCAAAAAAA
65 TAGGGAAAAGTTGAAAGTATCAATTTTCC-T---AG-AAAATAAATTTCCAAAAAAA
*
4787110 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTCAAAAAA-AGGGT
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATTTTCAAAAAATA---T
*
4787173 TTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTCC--AAAAA
62 TTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTAGAAAAT--AAATTTCCAAAAAAA
*
4787228 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
4787264 CTAAAAAAAA
Statistics
Matches: 364, Mismatches: 11, Indels: 34
0.89 0.03 0.08
Matches are distributed among these distances:
116 49 0.13
117 147 0.40
118 50 0.14
119 1 0.00
120 11 0.03
121 9 0.02
122 66 0.18
123 31 0.09
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.35
Consensus pattern (116 bp):
ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTTCAAAAAATATTTTT
AGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAAATAAATTTCCAAAAAAA
Found at i:4791121 original size:8 final size:8
Alignment explanation
Indices: 4791084--4791120 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
4791074 AGAAAAAGGG
4791084 GAAAAAAT
1 GAAAAAAT
*
4791092 GAGAAAAT
1 GAAAAAAT
4791100 GAAAAAAT
1 GAAAAAAT
4791108 -AAAAAAT
1 GAAAAAAT
4791115 -AAAAAA
1 GAAAAAA
4791121 AGAGATCCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
7 13 0.48
8 14 0.52
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
GAAAAAAT
Found at i:4791831 original size:12 final size:12
Alignment explanation
Indices: 4791813--4791846 Score: 59
Period size: 12 Copynumber: 2.8 Consensus size: 12
4791803 GTGATGGTGG
4791813 ATGAAATTTGTT
1 ATGAAATTTGTT
*
4791825 TTGAAATTTGTT
1 ATGAAATTTGTT
4791837 ATGAAATTTG
1 ATGAAATTTG
4791847 CTAGCGCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.18, T:0.50
Consensus pattern (12 bp):
ATGAAATTTGTT
Found at i:4792450 original size:42 final size:41
Alignment explanation
Indices: 4792373--4792912 Score: 809
Period size: 42 Copynumber: 13.1 Consensus size: 41
4792363 ATGATTGTCA
4792373 AGGAGCAATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAG
4792413 AGGAGCAATTTACTTTTCCAAAAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCC-AAAGTTCGTTGCCTCTGTTTAG
* *
4792455 AGGAGCAATTTACTTTTCCAAAG-TCATGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTTC--GTTGCCTCTGTTTAG
4792497 AGGAGCAATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAG
4792537 AGGAGCAATTTAC-TTTCCAAAAG-TCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCC-AAAGTTCGT--TGCCTCTGTTTAG
4792579 AGGAGCAATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAG
4792619 AGGAGCAATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAG
4792659 AGGAGCAATTTACTTTTCCAAAG-TCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTTCGT--TGCCTCTGTTTAG
*
4792701 AGGAGCAATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTTCGT--TGCCTCTGTTTAG
*
4792743 AGGAGCAATTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTTCGT--TGCCTCTGTTTAG
4792785 AGGAGCAATTTACTTTT-CAAAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAG
4792825 AGGAGCAATTTACTTTTCC-AAGTTCGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAG
**
4792865 AGGAGCAATTTAC-TTTCCAAAAATCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTTCGT--TGCCTCTGTTTAG
4792907 AGGAGC
1 AGGAGC
4792913 TTTGGTAAAA
Statistics
Matches: 473, Mismatches: 8, Indels: 36
0.91 0.02 0.07
Matches are distributed among these distances:
39 8 0.02
40 193 0.41
41 29 0.06
42 240 0.51
43 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (41 bp):
AGGAGCAATTTACTTTTCCAAAGTTCGTTGCCTCTGTTTAG
Found at i:4792525 original size:82 final size:82
Alignment explanation
Indices: 4792373--4792912 Score: 800
Period size: 82 Copynumber: 6.6 Consensus size: 82
4792363 ATGATTGTCA
*
4792373 AGGAGCAATTTACTTTT-CAAAGT-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAA
1 AGGAGCAATTTACTTTTCCAAAGTCT-GGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCC-AAA
4792436 GTTCGTTGCCTCTGTTTAG
64 GTTCGTTGCCTCTGTTTAG
*
4792455 AGGAGCAATTTACTTTTCCAAAGTCATGGTACCTCTGTTTAGAGGAGCAATTTACTTTT-CAAAG
1 AGGAGCAATTTACTTTTCCAAAGTC-TGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
4792519 TTCGTTGCCTCTGTTTAG
65 TTCGTTGCCTCTGTTTAG
4792537 AGGAGCAATTTAC-TTTCCAAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTT-CAAA
1 AGGAGCAATTTACTTTTCC-AAAGTC-TGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAA
4792600 GTTCGTTGCCTCTGTTTAG
64 GTTCGTTGCCTCTGTTTAG
*
4792619 AGGAGCAATTTACTTTT-CAAAGT-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
1 AGGAGCAATTTACTTTTCCAAAGTCT-GGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
4792682 -TCGTGGTGCCTCTGTTTAG
65 TTCGT--TGCCTCTGTTTAG
*
4792701 AGGAGCAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
1 AGGAGCAATTTACTTTTCCAAAGTC-TGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
*
4792766 -TCGTGGTACCTCTGTTTAG
65 TTCGT--TGCCTCTGTTTAG
*
4792785 AGGAGCAATTTACTTTT-CAAAGT-TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCC-AAG
1 AGGAGCAATTTACTTTTCCAAAGTCT-GGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAG
4792847 TTCGTTGCCTCTGTTTAG
65 TTCGTTGCCTCTGTTTAG
*
4792865 AGGAGCAATTTAC-TTTCCAAAAATCGTGGTGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTACTTTTCC-AAAGTC-TGGTGCCTCTGTTTAGAGGAGC
4792913 TTTGGTAAAA
Statistics
Matches: 427, Mismatches: 13, Indels: 36
0.90 0.03 0.08
Matches are distributed among these distances:
79 4 0.01
80 61 0.14
81 23 0.05
82 213 0.50
83 23 0.05
84 101 0.24
85 2 0.00
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (82 bp):
AGGAGCAATTTACTTTTCCAAAGTCTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGT
TCGTTGCCTCTGTTTAG
Found at i:4792738 original size:206 final size:204
Alignment explanation
Indices: 4792373--4792912 Score: 942
Period size: 206 Copynumber: 2.6 Consensus size: 204
4792363 ATGATTGTCA
4792373 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAAGT
1 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTT-C-AAAGT
* *
4792438 TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCATGGTACCTCTGTTTAGAGGAGC
64 TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGC
*
4792503 AATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAAGTCGTGGT
129 AATTTACTTTTCAAAGTTCGTTACCTCTGTTTAGAGGAGCAATTTACTTTTCC-AAAGTCGTGGT
*
4792567 GCCTCTGTTTAG
193 ACCTCTGTTTAG
4792579 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTC
1 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTC
4792644 GTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
66 GTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
4792709 TTTACTTTTCCAAAG-TCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
131 TTTACTTTT-CAAAGTTCGT--TACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGT
4792773 ACCTCTGTTTAG
193 ACCTCTGTTTAG
*
4792785 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAGTTC
1 AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTC
*
4792850 GTTGCCTCTGTTTAGAGGAGCAATTTAC-TTTCCAAAAATCGTGGTGCCTCTGTTTAGAGGAGC
66 GTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
4792913 TTTGGTAAAA
Statistics
Matches: 323, Mismatches: 6, Indels: 10
0.95 0.02 0.03
Matches are distributed among these distances:
204 83 0.26
205 11 0.03
206 224 0.69
207 5 0.02
ACGTcount: A:0.23, C:0.19, G:0.21, T:0.37
Consensus pattern (204 bp):
AGGAGCAATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTTC
GTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAGAGGAGCAA
TTTACTTTTCAAAGTTCGTTACCTCTGTTTAGAGGAGCAATTTACTTTTCCAAAGTCGTGGTACC
TCTGTTTAG
Found at i:4793026 original size:9 final size:9
Alignment explanation
Indices: 4792919--4793033 Score: 141
Period size: 9 Copynumber: 12.7 Consensus size: 9
4792909 GAGCTTTGGT
4792919 AAAAAAAA-
1 AAAAAAAAC
4792927 AAAAAAAAC
1 AAAAAAAAC
4792936 AAAAAAAAAC
1 -AAAAAAAAC
4792946 AAAAAAAA-
1 AAAAAAAAC
4792954 ACAAAAAAAC
1 A-AAAAAAAC
4792964 AAAAAAAAC
1 AAAAAAAAC
4792973 ---AAAAAC
1 AAAAAAAAC
4792979 AAAAAAAAC
1 AAAAAAAAC
4792988 AAAAAAAAC
1 AAAAAAAAC
4792997 AAAAAAAAAC
1 -AAAAAAAAC
4793007 AAAAAAAAAAC
1 --AAAAAAAAC
4793018 AAAAAAAACC
1 AAAAAAAA-C
4793028 AAAAAA
1 AAAAAA
4793034 TGTTGAGTTG
Statistics
Matches: 97, Mismatches: 0, Indels: 18
0.84 0.00 0.16
Matches are distributed among these distances:
6 6 0.06
8 9 0.09
9 46 0.47
10 26 0.27
11 10 0.10
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:4793030 original size:10 final size:10
Alignment explanation
Indices: 4792919--4793033 Score: 155
Period size: 10 Copynumber: 11.4 Consensus size: 10
4792909 GAGCTTTGGT
4792919 AAAAAAA-AA
1 AAAAAAACAA
4792928 AAAAAAACAA
1 AAAAAAACAA
4792938 AAAAAAACAA
1 AAAAAAACAA
4792948 AAAAAAACAA
1 AAAAAAACAA
4792958 AAAAACAA-AA
1 AAAAA-AACAA
*
4792968 AAAACAAAAACA
1 AAAA-AAACA-A
4792980 AAAAAAAC-A
1 AAAAAAACAA
4792989 AAAAAAACAA
1 AAAAAAACAA
4792999 AAAAAAACAAA
1 AAAAAAAC-AA
4793010 AAAAAAACAA
1 AAAAAAACAA
*
4793020 AAAAAACCAA
1 AAAAAAACAA
4793030 AAAA
1 AAAA
4793034 TGTTGAGTTG
Statistics
Matches: 97, Mismatches: 2, Indels: 13
0.87 0.02 0.12
Matches are distributed among these distances:
9 16 0.16
10 59 0.61
11 17 0.18
12 5 0.05
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (10 bp):
AAAAAAACAA
Found at i:4793033 original size:1 final size:1
Alignment explanation
Indices: 4792919--4793025 Score: 124
Period size: 1 Copynumber: 107.0 Consensus size: 1
4792909 GAGCTTTGGT
* * * * * *
4792919 AAAAAAAAAAAAAAAACAAAAAAAAACAAAAAAAAACAAAAAAACAAAAAAAACAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
4792984 AAACAAAAAAAACAAAAAAAAACAAAAAAAAAACAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
4793026 CCAAAAAATG
Statistics
Matches: 86, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 86 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:4793773 original size:19 final size:20
Alignment explanation
Indices: 4793749--4793787 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
4793739 TCCGGCCAAC
4793749 TTCCGGCG-AAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
4793768 TTCCGGCGAAAATTTCCAGA
1 TTCCGGCGAAAATTTCCAGA
4793788 ATCTGGCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (20 bp):
TTCCGGCGAAAATTTCCAGA
Found at i:4794157 original size:16 final size:15
Alignment explanation
Indices: 4794116--4794181 Score: 63
Period size: 16 Copynumber: 4.7 Consensus size: 15
4794106 CCGCTCCGGG
4794116 TTTTTT-TTT-TTT-
1 TTTTTTATTTGTTTA
*
4794128 TTTATTTCTTTGTTTA
1 TTT-TTTATTTGTTTA
4794144 TTTGTTTATTTGTTTA
1 TTT-TTTATTTGTTTA
4794160 --TTTTATTT-TTTA
1 TTTTTTATTTGTTTA
4794172 TTTTTTATTT
1 TTTTTTATTT
4794182 ATTAGATTAG
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
12 7 0.15
13 10 0.22
14 12 0.26
15 3 0.07
16 14 0.30
ACGTcount: A:0.11, C:0.02, G:0.05, T:0.83
Consensus pattern (15 bp):
TTTTTTATTTGTTTA
Found at i:4794184 original size:4 final size:4
Alignment explanation
Indices: 4794128--4794184 Score: 55
Period size: 4 Copynumber: 14.5 Consensus size: 4
4794118 TTTTTTTTTT
* * * *
4794128 TTTA TTTC TTTG TTTA TTTG TTTA TTTG TTTA TTTTA TTT- TTTA TTT-
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA
4794175 TTTA TTTA TT
1 TTTA TTTA TT
4794185 AGATTAGGTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
3 6 0.14
4 33 0.77
5 4 0.09
ACGTcount: A:0.14, C:0.02, G:0.05, T:0.79
Consensus pattern (4 bp):
TTTA
Found at i:4794325 original size:59 final size:58
Alignment explanation
Indices: 4794262--4794718 Score: 656
Period size: 59 Copynumber: 7.7 Consensus size: 58
4794252 AAAAATTCTA
*
4794262 AAAAAATATATTTTTAGTGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * *
4794321 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAA
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC-C
*
4794379 AAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTT-C
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC
*
4794436 TAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
4794494 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCC
1 -AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC
*
4794553 AAAAAAATATTTTTATGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
*
4794616 AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
1 --AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
*
4794678 -AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
4794719 CTAAAAAAAA
Statistics
Matches: 367, Mismatches: 14, Indels: 34
0.88 0.03 0.08
Matches are distributed among these distances:
57 100 0.27
58 52 0.14
59 146 0.40
60 5 0.01
61 2 0.01
62 8 0.02
63 11 0.03
64 1 0.00
65 42 0.11
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.34
Consensus pattern (58 bp):
AAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:4794389 original size:116 final size:116
Alignment explanation
Indices: 4794261--4794718 Score: 704
Period size: 116 Copynumber: 3.9 Consensus size: 116
4794251 AAAAAATTCT
* *
4794261 AAAAAAATATATTTTTAGTGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTCCAAAA
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATTTCCAAAA
* *
4794325 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
65 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAAGAAATAAATTTC
* *
4794377 AAAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCTAAAAA
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAA
*
4794442 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC
66 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAAGAAATAAATTTC
*
4794493 CAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAA
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCC-AAAA
*
4794558 AATATTTTTATGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
65 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC-T--AAG--AAATAAATTT-C
*
4794616 AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAA-AATCGAAATTTCCAA
1 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAGAAT--AAATTTCCAA
*
4794680 AAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
63 AAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCC
4794719 CTAAAAAAAA
Statistics
Matches: 316, Mismatches: 15, Indels: 14
0.92 0.04 0.04
Matches are distributed among these distances:
116 164 0.52
117 42 0.13
118 1 0.00
120 2 0.01
122 10 0.03
123 48 0.15
124 41 0.13
125 8 0.03
ACGTcount: A:0.45, C:0.08, G:0.12, T:0.34
Consensus pattern (116 bp):
AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAATAAATTTCCAAAAA
ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTAAGAAATAAATTTC
Found at i:4801338 original size:25 final size:25
Alignment explanation
Indices: 4801288--4801338 Score: 68
Period size: 24 Copynumber: 2.0 Consensus size: 25
4801278 AATTTCTCAC
*
4801288 TTAGAGATTTTTAAGAATTTACCAT
1 TTAGAGATTTTTAAGAATTCACCAT
*
4801313 TTAGA-ATTTTTAAGAATCTCATCAT
1 TTAGAGATTTTTAAGAAT-TCACCAT
4801338 T
1 T
4801339 GGATAATTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 12 0.52
25 11 0.48
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (25 bp):
TTAGAGATTTTTAAGAATTCACCAT
Found at i:4801459 original size:177 final size:177
Alignment explanation
Indices: 4801194--4801544 Score: 416
Period size: 178 Copynumber: 2.0 Consensus size: 177
4801184 TTCAACCAAA
*
4801194 ATTTTTTGTTTGGAAAAAGAATACAATTACTTTTATTGAAACTTTCATCTAAATTATTCCATAAT
1 ATTTTTTGTTTGGAAAAAGAATACAATTACTTTTATTGAAACTTTCATATAAATTATTCCATAAT
* * * *
4801259 TTGGAATAAATTTAGAGAAAATTTCTCACTT-AGAGATTTT-TAAGAATTTACCATTT-AGAATT
66 TTGGAACAAATTTAGACAAAATTTCTCACTTGA-AAATTTTATAAAAATTTACCATTTGA-AATT
* * **
4801321 TTTA-AGAA-TCTCATCATTGGATAATTTGTATTTAATTCCCACAATTTTTAT
129 TTTATA-AATTC-CATCATTAGATAAATAATATTT-ATTCCCA-AATTTTTAT
* *
4801372 ATTTTTTGTTT-GAAAATA-AATATTAATTA-TTGTTATTGAAACTTT-ATATAAATTATTTCAC
1 ATTTTTTGTTTGGAAAA-AGAATA-CAATTACTT-TTATTGAAACTTTCATATAAATTATTCCA-
** *
4801433 T-ATTTGGGCCAAATTTAGACAAAATTTCTCACTTGAAAATTTTATAAAAATTTATCATTTGAAA
62 TAATTTGGAACAAATTTAGACAAAATTTCTCACTTGAAAATTTTATAAAAATTTACCATTTGAAA
4801497 TTTTTATAAATTCCATCATTAGATAAATAATATTTATTCCCAAATTTT
127 TTTTTATAAATTCCATCATTAGATAAATAATATTTATTCCCAAATTTT
4801545 GTTTTTATTA
Statistics
Matches: 150, Mismatches: 14, Indels: 20
0.82 0.08 0.11
Matches are distributed among these distances:
176 6 0.04
177 66 0.44
178 74 0.49
179 4 0.03
ACGTcount: A:0.37, C:0.10, G:0.08, T:0.45
Consensus pattern (177 bp):
ATTTTTTGTTTGGAAAAAGAATACAATTACTTTTATTGAAACTTTCATATAAATTATTCCATAAT
TTGGAACAAATTTAGACAAAATTTCTCACTTGAAAATTTTATAAAAATTTACCATTTGAAATTTT
TATAAATTCCATCATTAGATAAATAATATTTATTCCCAAATTTTTAT
Found at i:4801482 original size:26 final size:26
Alignment explanation
Indices: 4801453--4801506 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
4801443 AAATTTAGAC
*
4801453 AAAATTTCTCACTTGAAAATTTTATA
1 AAAATTTATCACTTGAAAATTTTATA
* *
4801479 AAAATTTATCATTTGAAATTTTTATA
1 AAAATTTATCACTTGAAAATTTTATA
4801505 AA
1 AA
4801507 TTCCATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (26 bp):
AAAATTTATCACTTGAAAATTTTATA
Found at i:4801514 original size:25 final size:25
Alignment explanation
Indices: 4801469--4801516 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
4801459 TCTCACTTGA
*
4801469 AAATTTTATAAAAATTTATCATTTG
1 AAATTTTATAAAAATTCATCATTTG
*
4801494 AAATTTT-TATAAATTCCATCATT
1 AAATTTTATAAAAATT-CATCATT
4801517 AGATAAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.42, C:0.08, G:0.02, T:0.48
Consensus pattern (25 bp):
AAATTTTATAAAAATTCATCATTTG
Found at i:4801866 original size:7 final size:6
Alignment explanation
Indices: 4801850--4801966 Score: 76
Period size: 6 Copynumber: 18.7 Consensus size: 6
4801840 CAAGAAACCA
* * * *
4801850 AAAAAT AAAAGT AAAAAT AAAAAC GAAAAT AAGACAAT AAAAAAT AATAA-
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA-A-AAT -AAAAAT AAAAAT
* * *
4801900 AAAACT AAAAAT -AAAAT AAATAAT AATAAT AATAAT AAAAAAT AAATAAAT
1 AAAAAT AAAAAT AAAAAT AAA-AAT AAAAAT AAAAAT -AAAAAT -AA-AAAT
* *
4801951 AAAATT AAAACT AAAA
1 AAAAAT AAAAAT AAAA
4801967 TTGGGCCATT
Statistics
Matches: 89, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
5 8 0.09
6 52 0.58
7 19 0.21
8 8 0.09
9 2 0.02
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (6 bp):
AAAAAT
Found at i:4801909 original size:38 final size:37
Alignment explanation
Indices: 4801862--4801945 Score: 109
Period size: 37 Copynumber: 2.2 Consensus size: 37
4801852 AAATAAAAGT
4801862 AAAAATAAAAACGAAAATAAGACAATAA-AA-AATAATA
1 AAAAATAAAAA-GAAAATAA-ACAATAATAATAATAATA
* *
4801899 AAAAACTAAAAATAAAATAAATAATAATAATAATAATA
1 AAAAA-TAAAAAGAAAATAAACAATAATAATAATAATA
4801937 AAAAATAAA
1 AAAAATAAA
4801946 TAAATAAAAT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
36 6 0.14
37 18 0.43
38 18 0.43
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (37 bp):
AAAAATAAAAAGAAAATAAACAATAATAATAATAATA
Found at i:4801966 original size:26 final size:27
Alignment explanation
Indices: 4801885--4801966 Score: 84
Period size: 26 Copynumber: 3.0 Consensus size: 27
4801875 AAAATAAGAC
4801885 AATAAA-AAATAATAA--AAAACTAAA
1 AATAAATAAATAATAATTAAAACTAAA
4801909 AATAAAATAAATAATAATAATAATAA-TAAAA
1 AAT-AAATAAATAATAAT--TAA-AACT-AAA
4801940 AATAAATAAATAA-AATTAAAACTAAA
1 AATAAATAAATAATAATTAAAACTAAA
4801966 A
1 A
4801967 TTGGGCCATT
Statistics
Matches: 49, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
24 3 0.06
25 3 0.06
26 15 0.31
27 4 0.08
29 3 0.06
30 13 0.27
31 8 0.16
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (27 bp):
AATAAATAAATAATAATTAAAACTAAA
Found at i:4801967 original size:56 final size:56
Alignment explanation
Indices: 4801850--4801966 Score: 134
Period size: 56 Copynumber: 2.1 Consensus size: 56
4801840 CAAGAAACCA
*
4801850 AAAAATAAAAGTAAAAATAAAAACGAAAATAAGACAATAAAAAATAATAAAAAACT
1 AAAAATAAAAGTAAAAATAAAAACGAAAATAAGAAAATAAAAAATAATAAAAAACT
* *
4801906 AAAAATAAAA-TAAATAATAATAA-TAATAATAA-AAAATAAATAAATAA-AATTAAAACT
1 AAAAATAAAAGTAAA-AATAAAAACGAA-AATAAGAAAATAAA-AAATAATAA--AAAACT
4801963 AAAA
1 AAAA
4801967 TTGGGCCATT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
55 15 0.28
56 28 0.53
57 10 0.19
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.19
Consensus pattern (56 bp):
AAAAATAAAAGTAAAAATAAAAACGAAAATAAGAAAATAAAAAATAATAAAAAACT
Found at i:4802269 original size:42 final size:40
Alignment explanation
Indices: 4802210--4802480 Score: 260
Period size: 41 Copynumber: 6.5 Consensus size: 40
4802200 GAAGCGAAAC
*
4802210 AAACTTTGGAAAAATAAATACCTTATCTGAATAGAGGCAACA
1 AAACTTT-GAAAAATAAATAGCTT-TCTGAATAGAGGCAACA
* * *
4802252 AAACTTTGGAAACATAAATGGCCCTTT-TGAATAAAGGCAACA
1 AAACTTT-GAAAAATAAATAG--CTTTCTGAATAGAGGCAACA
** * *
4802294 CTACTTTGAAAAAATAAATGGCTATTCAGAATAGAGGCAACA
1 AAACTTTG-AAAAATAAATAGCT-TTCTGAATAGAGGCAACA
* *
4802336 GAACTTT-AGAAAATAAATAGCTCCTCTGAATAGAGGCAACA
1 AAACTTTGA-AAAATAAATAGCT-TTCTGAATAGAGGCAACA
* * * *
4802377 TAACTTTTAAAAATAAAT-GACTCCTCTGAATAGAGGTAACA
1 AAACTTTGAAAAATAAATAG-CT-TTCTGAATAGAGGCAACA
* * *
4802418 GAACTTTGAAAAATAAATGGCTCTTCTAAATAGAGGCAACA
1 AAACTTTGAAAAATAAATAGCT-TTCTGAATAGAGGCAACA
4802459 AAACTTTGAAAAATAAATAGCT
1 AAACTTTGAAAAATAAATAGCT
4802481 CATTGACAAT
Statistics
Matches: 196, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
40 4 0.02
41 120 0.61
42 68 0.35
43 1 0.01
44 3 0.02
ACGTcount: A:0.45, C:0.15, G:0.15, T:0.25
Consensus pattern (40 bp):
AAACTTTGAAAAATAAATAGCTTTCTGAATAGAGGCAACA
Done.