Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168026.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_28, 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: 15507587
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 97000 characters in sequence are not A, C, G, or T
File 66 of 91
Found at i:10944560 original size:3 final size:3
Alignment explanation
Indices: 10944541--10944588 Score: 55
Period size: 3 Copynumber: 16.7 Consensus size: 3
10944531 GGAAAGTAGG
* * *
10944541 ATA AAA ATA ACA ATA ATA ATA ATA ATA ATA A-A ATG ATA ATA AT- ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10944587 AT
1 AT
10944589 GTACTATATA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
2 4 0.11
3 33 0.89
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:10945561 original size:21 final size:22
Alignment explanation
Indices: 10945536--10945578 Score: 52
Period size: 23 Copynumber: 1.9 Consensus size: 22
10945526 CAATTTTTCT
*
10945536 TTTTTCTTTTT-TTATTTTAACC
1 TTTTACTTTTTATT-TTTTAACC
10945558 TTTTAACTTTTTATTTTTTAA
1 TTTT-ACTTTTTATTTTTTAA
10945579 AAAATATCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 12 0.67
24 2 0.11
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTTACTTTTTATTTTTTAACC
Found at i:10950480 original size:63 final size:63
Alignment explanation
Indices: 10950395--10950532 Score: 222
Period size: 63 Copynumber: 2.2 Consensus size: 63
10950385 TAAAAGACAT
* *
10950395 ACCTTTGCATTTTGTGTACCTTTTAGCTTACTTTATTCTTATCTAATTTATTCAATGATGAAA
1 ACCTTTGCATTTTGTGTACCTTTTAACTTACTTTATTCTAATCTAATTTATTCAATGATGAAA
* * * *
10950458 ACCTTTGCATTTTGTTTCCCTTTTAACTTACTTTATTCTAATCTAATTTATTCCATGATGAAT
1 ACCTTTGCATTTTGTGTACCTTTTAACTTACTTTATTCTAATCTAATTTATTCAATGATGAAA
10950521 ACCTTTGCATTT
1 ACCTTTGCATTT
10950533 ATTCCACGAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 69 1.00
ACGTcount: A:0.24, C:0.18, G:0.08, T:0.50
Consensus pattern (63 bp):
ACCTTTGCATTTTGTGTACCTTTTAACTTACTTTATTCTAATCTAATTTATTCAATGATGAAA
Found at i:10953653 original size:14 final size:14
Alignment explanation
Indices: 10953634--10953661 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
10953624 ATTTATTAAA
10953634 ATTTAAAATTAATT
1 ATTTAAAATTAATT
10953648 ATTTAAAATTAATT
1 ATTTAAAATTAATT
10953662 TTTTTACAAA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATTTAAAATTAATT
Found at i:10958034 original size:12 final size:12
Alignment explanation
Indices: 10958017--10958063 Score: 51
Period size: 12 Copynumber: 3.7 Consensus size: 12
10958007 TTATTTCATC
10958017 TAAATTATAAAT
1 TAAATTATAAAT
10958029 TAAATTATTAAGCAT
1 TAAATTA-TAA--AT
10958044 T-AATATATAAAT
1 TAAAT-TATAAAT
10958056 TAAATTAT
1 TAAATTAT
10958064 TGAGCGACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
12 13 0.43
13 6 0.20
14 6 0.20
15 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (12 bp):
TAAATTATAAAT
Found at i:10964020 original size:2 final size:2
Alignment explanation
Indices: 10964015--10964044 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
10964005 CGCGCGCGGG
*
10964015 CA CA CA CA CA CA CA CA CA CA CA CA TA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
10964045 AACAGATGAA
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:0.50, C:0.47, G:0.00, T:0.03
Consensus pattern (2 bp):
CA
Found at i:10969892 original size:23 final size:24
Alignment explanation
Indices: 10969865--10969913 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
10969855 CCTAGGGTTT
* *
10969865 AGAGAAAGAGAGGAAA-ACTGGGG
1 AGAGAAAGAGAGAAAAGACTGCGG
*
10969888 AGAGAGAGAGAGAAAAGACTGCGG
1 AGAGAAAGAGAGAAAAGACTGCGG
10969912 AG
1 AG
10969914 GGAGACAGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 14 0.64
24 8 0.36
ACGTcount: A:0.47, C:0.06, G:0.43, T:0.04
Consensus pattern (24 bp):
AGAGAAAGAGAGAAAAGACTGCGG
Found at i:10978818 original size:99 final size:99
Alignment explanation
Indices: 10978647--10978843 Score: 385
Period size: 99 Copynumber: 2.0 Consensus size: 99
10978637 AACAAAACTC
10978647 TTGATCACATGAAACCAACTTGCCAGTGGCAGAGTCCTTAATATTGTATAAAGTAAGATCTATCT
1 TTGATCACATGAAACCAACTTGCCAGTGGCAGAGTCCTTAATATTGTATAAAGTAAGATCTATCT
10978712 GTAACCATAGCATATAAATAAAACAAACACGATA
66 GTAACCATAGCATATAAATAAAACAAACACGATA
10978746 TTGATCACATGAAACCAACTTGCCAGTGGCAGAGTCCTTAATATTGTATAAAGTAAGATCTATCT
1 TTGATCACATGAAACCAACTTGCCAGTGGCAGAGTCCTTAATATTGTATAAAGTAAGATCTATCT
*
10978811 GTAACCATGGCATATAAATAAAACAAACACGAT
66 GTAACCATAGCATATAAATAAAACAAACACGAT
10978844 CAAATAAGAT
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (99 bp):
TTGATCACATGAAACCAACTTGCCAGTGGCAGAGTCCTTAATATTGTATAAAGTAAGATCTATCT
GTAACCATAGCATATAAATAAAACAAACACGATA
Found at i:10980408 original size:25 final size:25
Alignment explanation
Indices: 10980371--10980434 Score: 67
Period size: 25 Copynumber: 2.5 Consensus size: 25
10980361 TAAAATATTA
* * *
10980371 TTTTATTAATTAAAATTTTTATTTAAT
1 TTTTATT--TTAAAATGTTAATATAAT
10980398 TTTTATTTTAAAATGTTAATATAAT
1 TTTTATTTTAAAATGTTAATATAAT
*
10980423 TTAT-TTTTAAAA
1 TTTTATTTTAAAA
10980435 AATAATCATA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 8 0.24
25 18 0.55
27 7 0.21
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTTATTTTAAAATGTTAATATAAT
Found at i:10983043 original size:45 final size:46
Alignment explanation
Indices: 10982957--10983050 Score: 127
Period size: 45 Copynumber: 2.0 Consensus size: 46
10982947 CATTCATTTG
10982957 GATTGAGAGTTGGAGAAAAAAAAAGAAATTTAAGGGTTTCTTTCGTTT
1 GATTGAGAGTTGGAG--AAAAAAAGAAATTTAAGGGTTTCTTTCGTTT
* * * *
10983005 GATTGAGAGTTGGAG-AGAAAATAAATTTAATGGTTTCTTTGGTTT
1 GATTGAGAGTTGGAGAAAAAAAGAAATTTAAGGGTTTCTTTCGTTT
10983050 G
1 G
10983051 GATAGCAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
45 27 0.64
48 15 0.36
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.36
Consensus pattern (46 bp):
GATTGAGAGTTGGAGAAAAAAAGAAATTTAAGGGTTTCTTTCGTTT
Found at i:10989406 original size:3 final size:3
Alignment explanation
Indices: 10989398--10989438 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10989388 GTCATTTAAC
10989398 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10989439 AAGATTAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:10992908 original size:20 final size:21
Alignment explanation
Indices: 10992870--10992908 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
10992860 CATGATTTTT
* *
10992870 GTAATCTTTTTTTTTCTTTGG
1 GTAATCTTTTGTTTCCTTTGG
10992891 GTAAT-TTTTGTTTCCTTT
1 GTAATCTTTTGTTTCCTTT
10992909 TATATATTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.10, C:0.10, G:0.13, T:0.67
Consensus pattern (21 bp):
GTAATCTTTTGTTTCCTTTGG
Found at i:10993859 original size:15 final size:14
Alignment explanation
Indices: 10993839--10993875 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 14
10993829 TTTGATGGAT
10993839 AAAAAAATTTGTAAA
1 AAAAAAATTT-TAAA
10993854 AAAAAAATTTTAAA
1 AAAAAAATTTTAAA
10993868 AGAAAAAA
1 A-AAAAAA
10993876 GATTTTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (14 bp):
AAAAAAATTTTAAA
Found at i:10993860 original size:16 final size:15
Alignment explanation
Indices: 10993839--10993881 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 15
10993829 TTTGATGGAT
10993839 AAAAAAATTTGTAAA-
1 AAAAAAATTT-TAAAG
10993854 AAAAAAATTTTAAAAG
1 AAAAAAATTTT-AAAG
10993870 AAAAAAGATTTT
1 AAAAAA-ATTTT
10993882 TAATAGGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 1 0.04
15 13 0.52
16 6 0.24
17 5 0.20
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (15 bp):
AAAAAAATTTTAAAG
Found at i:10993937 original size:52 final size:51
Alignment explanation
Indices: 10993854--10993995 Score: 176
Period size: 52 Copynumber: 2.7 Consensus size: 51
10993844 AATTTGTAAA
* * *
10993854 AAAAAAATTTTAAAAGAAAAAAGATTTTTAATAGGTAAGTTTGACTTGCAAG
1 AAAAGAATTTTAAAA-AAAAGAGATTTTTAATAGGTAAGTTTGACTTACAAG
* *
10993906 AAAAGAATTTTAAAATAAAAGATATTTTTAATAGGTAAGTTTGACTTACATG
1 AAAAGAATTTTAAAA-AAAAGAGATTTTTAATAGGTAAGTTTGACTTACAAG
* * * *
10993958 AGAAGAATTCTAAAAAGAGAGAGATTCTTAATAGGTAA
1 AAAAGAATTTTAAAAA-AAAGAGATTTTTAATAGGTAA
10993996 ATTTATATAG
Statistics
Matches: 78, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
51 1 0.01
52 77 0.99
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (51 bp):
AAAAGAATTTTAAAAAAAAGAGATTTTTAATAGGTAAGTTTGACTTACAAG
Found at i:10999876 original size:10 final size:10
Alignment explanation
Indices: 10999861--10999885 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
10999851 AAATGACATT
10999861 GATCATATCA
1 GATCATATCA
10999871 GATCATATCA
1 GATCATATCA
10999881 GATCA
1 GATCA
10999886 ATCTAACATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (10 bp):
GATCATATCA
Found at i:11011780 original size:12 final size:12
Alignment explanation
Indices: 11011743--11011786 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 12
11011733 TAAGTTACTA
11011743 TTTTTTATTAACT
1 TTTTTTATTAA-T
11011756 TTTACTATTATTAAT
1 TTT--T-TTATTAAT
11011771 TTTTTTATTAAT
1 TTTTTTATTAAT
11011783 TTTT
1 TTTT
11011787 ATCGATATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 12 0.43
13 4 0.14
15 5 0.18
16 7 0.25
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (12 bp):
TTTTTTATTAAT
Found at i:11012083 original size:13 final size:13
Alignment explanation
Indices: 11012062--11012111 Score: 55
Period size: 13 Copynumber: 3.7 Consensus size: 13
11012052 CATTTTTAAA
*
11012062 TATTTTAAAATAT
1 TATTATAAAATAT
11012075 TATTATAAATAATAT
1 TATTAT-AA-AATAT
*
11012090 TATTTTAAAATAT
1 TATTATAAAATAT
*
11012103 TACTATAAA
1 TATTATAAA
11012112 TAATGTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 17 0.55
14 4 0.13
15 10 0.32
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTATAAAATAT
Found at i:11012090 original size:15 final size:15
Alignment explanation
Indices: 11012070--11012115 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
11012060 AATATTTTAA
11012070 AATATTATTATAAAT
1 AATATTATTATAAAT
*
11012085 AATATTATT-TTAA-
1 AATATTATTATAAAT
*
11012098 AATATTACTATAAAT
1 AATATTATTATAAAT
11012113 AAT
1 AAT
11012116 GTTCTAGTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 8 0.31
14 6 0.23
15 12 0.46
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (15 bp):
AATATTATTATAAAT
Found at i:11012095 original size:28 final size:28
Alignment explanation
Indices: 11012062--11012115 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
11012052 CATTTTTAAA
*
11012062 TATTTTAAAATATTATTATAAATAATAT
1 TATTTTAAAATATTACTATAAATAATAT
11012090 TATTTTAAAATATTACTATAAATAAT
1 TATTTTAAAATATTACTATAAATAAT
11012116 GTTCTAGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (28 bp):
TATTTTAAAATATTACTATAAATAATAT
Found at i:11012447 original size:16 final size:16
Alignment explanation
Indices: 11012413--11012467 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
11012403 ATTTTATTTA
**
11012413 TATATATTTGTATAAT
1 TATATATTTAAATAAT
11012429 TATATATTTAAAT-AT
1 TATATATTTAAATAAT
*
11012444 T-TATATTTAAAAAAT
1 TATATATTTAAATAAT
*
11012459 AATAT-TTTA
1 TATATATTTA
11012468 TTAATTTTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
14 10 0.30
15 9 0.27
16 14 0.42
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:11013718 original size:22 final size:23
Alignment explanation
Indices: 11013672--11013718 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
11013662 TTTTTTATAT
* **
11013672 ATTTATAATTATTAAAATTTTAA
1 ATTTATAATCATTAAAATTAAAA
11013695 ATTT-TAATCATTAAAATTAAAA
1 ATTTATAATCATTAAAATTAAAA
11013717 AT
1 AT
11013719 AGTCAAATTC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTATAATCATTAAAATTAAAA
Found at i:11015006 original size:20 final size:19
Alignment explanation
Indices: 11014969--11015011 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
11014959 TTAATTAAAA
11014969 TTAATATAATAATAAAATAT
1 TTAATATAATAATAAAAT-T
* * *
11014989 TTAATATGATACTTAAATT
1 TTAATATAATAATAAAATT
11015008 TTAA
1 TTAA
11015012 AAATATTTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
TTAATATAATAATAAAATT
Found at i:11016872 original size:9 final size:10
Alignment explanation
Indices: 11016845--11016869 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11016835 ATAAAAAATT
11016845 TTAAAATTAA
1 TTAAAATTAA
11016855 TTAAAATTAA
1 TTAAAATTAA
11016865 TTAAA
1 TTAAA
11016870 TTATATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
TTAAAATTAA
Found at i:11017693 original size:20 final size:20
Alignment explanation
Indices: 11017668--11017711 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
11017658 CTCGAAATTA
*
11017668 ATAAAATATTATTTTTTAAT
1 ATAAAATATTATTTTTAAAT
11017688 ATAAAATATTATTTTTAAAT
1 ATAAAATATTATTTTTAAAT
11017708 ATAA
1 ATAA
11017712 TTATATAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:11021442 original size:14 final size:13
Alignment explanation
Indices: 11021415--11021439 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11021405 ATTTTACTTG
11021415 TAATTTTTTATTA
1 TAATTTTTTATTA
11021428 TAATTTTTTATT
1 TAATTTTTTATT
11021440 TATTTAATTA
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (13 bp):
TAATTTTTTATTA
Found at i:11022364 original size:35 final size:36
Alignment explanation
Indices: 11022318--11022387 Score: 97
Period size: 35 Copynumber: 2.0 Consensus size: 36
11022308 CGTATATGTC
* **
11022318 AAGTCAGTTGTAGGTTTATG-CTTAAAAAATATTTA
1 AAGTCAGTTGTAGATTTATGCCCAAAAAAATATTTA
*
11022353 AAGTCAGTTGTATATTTATGCCCAAAAAAATATTT
1 AAGTCAGTTGTAGATTTATGCCCAAAAAAATATTT
11022388 GGTTTATATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
35 18 0.60
36 12 0.40
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (36 bp):
AAGTCAGTTGTAGATTTATGCCCAAAAAAATATTTA
Found at i:11023179 original size:20 final size:21
Alignment explanation
Indices: 11023133--11023181 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
11023123 AAATTGAAAG
11023133 GAAA-AAAATTACTTAATACA
1 GAAATAAAATTACTTAATACA
*
11023153 TAAATAAAATTACTT-ATGA-A
1 GAAATAAAATTACTTAAT-ACA
11023173 GAAATAAAA
1 GAAATAAAA
11023182 GATATATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
20 14 0.56
21 11 0.44
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (21 bp):
GAAATAAAATTACTTAATACA
Found at i:11026031 original size:6 final size:6
Alignment explanation
Indices: 11026016--11026051 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
11026006 TTAGTTAAAA
*
11026016 AAAATC AAAATAA AAAATC AAAATC AAAATC AAAAT
1 AAAATC AAAAT-C AAAATC AAAATC AAAATC AAAAT
11026052 AGAAAGAAAG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 22 0.81
7 5 0.19
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:11026032 original size:13 final size:13
Alignment explanation
Indices: 11026014--11026052 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
11026004 GATTAGTTAA
11026014 AAAAAATCAAAAT
1 AAAAAATCAAAAT
11026027 AAAAAATCAAAAT
1 AAAAAATCAAAAT
*
11026040 -CAAAATCAAAAT
1 AAAAAATCAAAAT
11026052 A
1 A
11026053 GAAAGAAAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.74, C:0.10, G:0.00, T:0.15
Consensus pattern (13 bp):
AAAAAATCAAAAT
Found at i:11026258 original size:55 final size:57
Alignment explanation
Indices: 11026086--11026412 Score: 425
Period size: 56 Copynumber: 5.7 Consensus size: 57
11026076 TCTTGTGTAG
* *
11026086 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTGAAAATTT-TACTTTAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATATTTTTTTGGAAATTTAT-TTTTAA
* *
11026143 GGAAAA-TGATACTTTCAACTTTTCCCTAAAATATTTTTTTTGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTTTAA
*
11026199 GGAAAATTGATACTTTCAACTTTTCCC-AAAATA-TTTTTTGGAAATTTATTTATAA
1 GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTTTAA
* * **
11026254 GGAAAATTGATACTTTCAACTTTTACTCAAAAATATTTTTTTTTGAAACTTTGATTTCCAA
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAATA-TTTTTTTGGAAA-TTT-ATTTTTAA
***
11026315 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCTTTTT-GAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAATATTTTTTTGGAAATTTATTTTTAA
11026371 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAATATTTTTTT
11026413 TTGGAATTTT
Statistics
Matches: 239, Mismatches: 19, Indels: 24
0.85 0.07 0.09
Matches are distributed among these distances:
55 54 0.23
56 85 0.36
57 41 0.17
58 4 0.02
59 15 0.06
60 4 0.02
61 36 0.15
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.44
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAATATTTTTTTGGAAATTTATTTTTAA
Found at i:11026464 original size:15 final size:17
Alignment explanation
Indices: 11026434--11026465 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11026424 TATTTTTATT
11026434 TAAAGAAAATAGAATAA
1 TAAAGAAAATAGAATAA
11026451 TAAA-AAAATA-AATAA
1 TAAAGAAAATAGAATAA
11026466 AGAAAAGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 6 0.40
17 4 0.27
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (17 bp):
TAAAGAAAATAGAATAA
Found at i:11026487 original size:11 final size:10
Alignment explanation
Indices: 11026453--11026509 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 10
11026443 TAGAATAATA
11026453 AAAAAATAAAT
1 AAAAAA-AAAT
* *
11026464 AAAGAAAAGT
1 AAAAAAAAAT
11026474 AAAACAAAAAT
1 AAAA-AAAAAT
11026485 AAAAATAAAAT
1 AAAAA-AAAAT
11026496 AAAGATAAAAAT
1 AAA-A-AAAAAT
11026508 AA
1 AA
11026510 TATTAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 7 0.18
11 22 0.58
12 8 0.21
13 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (10 bp):
AAAAAAAAAT
Found at i:11026493 original size:17 final size:17
Alignment explanation
Indices: 11026468--11026509 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
11026458 ATAAATAAAG
*
11026468 AAAAGTAAAACAAAAAT
1 AAAAATAAAACAAAAAT
* *
11026485 AAAAATAAAATAAAGAT
1 AAAAATAAAACAAAAAT
11026502 AAAAATAA
1 AAAAATAA
11026510 TATTAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (17 bp):
AAAAATAAAACAAAAAT
Found at i:11026926 original size:21 final size:19
Alignment explanation
Indices: 11026892--11026936 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
11026882 GATATTTCGT
* *
11026892 CGGATTCTGAAAATTATCGC
1 CGGAATCTGAAAATT-TCAC
11026912 CGGAATCTGGAAAATTTCAC
1 CGGAATCT-GAAAATTTCAC
11026932 CGGAA
1 CGGAA
11026937 GTTCGTCGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.24
Consensus pattern (19 bp):
CGGAATCTGAAAATTTCAC
Found at i:11027577 original size:16 final size:15
Alignment explanation
Indices: 11027567--11027695 Score: 84
Period size: 16 Copynumber: 8.1 Consensus size: 15
11027557 AAATATATAT
11027567 ATAATATAATAATAA
1 ATAATATAATAATAA
11027582 AT-ATATAACTATATAA
1 ATAATATAA-TA-ATAA
*
11027598 ATAAAATACAT-ATAA
1 ATAATATA-ATAATAA
*
11027613 ATCTAATCTAATGAATAA
1 A--TAATATAAT-AATAA
*
11027631 ATAA-ATAAATAAATAT
1 ATAATAT-AAT-AATAA
* *
11027647 ATACATATATTAATAC
1 ATA-ATATAATAATAA
11027663 ATAATAATAATAATAA
1 ATAAT-ATAATAATAA
*
11027679 ATAATAAAATACATAA
1 ATAATATAATA-ATAA
11027695 A
1 A
11027696 ATACAAAAGA
Statistics
Matches: 90, Mismatches: 11, Indels: 25
0.71 0.09 0.20
Matches are distributed among these distances:
14 6 0.07
15 17 0.19
16 46 0.51
17 13 0.14
18 8 0.09
ACGTcount: A:0.62, C:0.05, G:0.01, T:0.32
Consensus pattern (15 bp):
ATAATATAATAATAA
Found at i:11027677 original size:9 final size:10
Alignment explanation
Indices: 11027642--11027700 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 10
11027632 TAAATAAATA
11027642 AATATATACAT
1 AATA-ATACAT
11027653 ATATTAATACAT
1 A-A-TAATACAT
11027665 AATAATA-AT
1 AATAATACAT
11027674 AATAAATA-AT
1 AAT-AATACAT
11027684 AA-AATACAT
1 AATAATACAT
11027693 AA-AATACA
1 AATAATACA
11027701 AAAGAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
8 4 0.09
9 15 0.34
10 13 0.30
11 2 0.05
12 8 0.18
13 2 0.05
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.31
Consensus pattern (10 bp):
AATAATACAT
Found at i:11027854 original size:24 final size:24
Alignment explanation
Indices: 11027807--11027857 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11027797 CACACCCTTT
*
11027807 AGTAAACCATTCAAAATGTCATTC
1 AGTAAACCATTCAAAATATCATTC
** *
11027831 AGTAAACCATTCAGCATATGATTC
1 AGTAAACCATTCAAAATATCATTC
11027855 AGT
1 AGT
11027858 TAGCAATATC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (24 bp):
AGTAAACCATTCAAAATATCATTC
Found at i:11028746 original size:62 final size:60
Alignment explanation
Indices: 11028661--11028953 Score: 177
Period size: 62 Copynumber: 4.7 Consensus size: 60
11028651 CAAAAATTTT
* *
11028661 TTAAAAAAAATT-GTTGAAGGCATTTGTTCTTAAAAAACGCCTTCAATAATTATGTACAAAAA
1 TTAAAAGAAATTAG-TGAAGGCATTT-TTCTTAAAAAACGCCTTCAATAATTATCT-CAAAAA
** ** * *
11028723 TTAAAAGAAATTAGTGAAGGCATTTTT-TTAGAATAAACGCCTTCGCTAATCGTCTTAAAAT
1 TTAAAAGAAATTAGTGAAGGCATTTTTCTTA-AA-AAACGCCTTCAATAATTATCTCAAAAA
* * * * * * * *
11028784 TTAAGTAGTAAACTATTGAAGGCATTTTTCATTAGAAGAC-CATT--TTAATAATCTCAAAAA
1 TTAA-AAG-AAATTAGTGAAGGCATTTTTC-TTAAAAAACGCCTTCAATAATTATCTCAAAAA
* * * * * *
11028844 TTTTTTTAAA-AAATTATTAAAGGCATTTGTTCTCAAAAAACACCTTCAATAATTATGTACAAAA
1 ----TTAAAAGAAATTAGTGAAGGCATTT-TTCTTAAAAAACGCCTTCAATAATTATCT-CAAAA
11028908 A
60 A
* *
11028909 TTAAAAGGAATTAGTGAAGGCATTTTT-TTAGAATAAATGCCTTCA
1 TTAAAAGAAATTAGTGAAGGCATTTTTCTTA-AA-AAACGCCTTCA
11028954 CTAACCGTCT
Statistics
Matches: 175, Mismatches: 37, Indels: 38
0.70 0.15 0.15
Matches are distributed among these distances:
60 16 0.09
61 43 0.25
62 73 0.42
63 23 0.13
64 11 0.06
65 9 0.05
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.35
Consensus pattern (60 bp):
TTAAAAGAAATTAGTGAAGGCATTTTTCTTAAAAAACGCCTTCAATAATTATCTCAAAAA
Found at i:11028925 original size:186 final size:184
Alignment explanation
Indices: 11028611--11029417 Score: 868
Period size: 186 Copynumber: 4.4 Consensus size: 184
11028601 TTTTTAAAAT
* * *
11028611 TATTGAAGGCATTTTAT-ACTAAAAGACACCTTTAATAATC-CAAAAATTTTTTAAAAAAAATTG
1 TATTGAAGGCATTTT-TCACTAGAAGAC-CATTTAATAATCTCAAAAATTTTTT-AAAAAAATTA
* *
11028674 TTGAAGGCATTTGTTCTTAAAAAACGCCTTCAATAATTATGTACAAAAATTAAAAGAAATTAGTG
63 TTGAAGGCATTTGTTCTCAAAAAACACCTTCAATAATTATGTACAAAAATTAAAAGAAATTAGTG
* * *
11028739 AAGGCATTTTTTTAGAATAAACGCCTTCGCTAATCGTCTTAAAATTTAAGTAGTAAA
128 AAGGCATTTTTTTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTAGTAAA
* *
11028796 CTATTGAAGGCATTTTTCATTAGAAGACCATTTTAATAATCTCAAAAATTTTTTTAAAAAATTAT
1 -TATTGAAGGCATTTTTCACTAGAAGACCA-TTTAATAATCTCAAAAATTTTTTAAAAAAATTAT
* *
11028861 TAAAGGCATTTGTTCTCAAAAAACACCTTCAATAATTATGTACAAAAATTAAAAGGAATTAGTGA
64 TGAAGGCATTTGTTCTCAAAAAACACCTTCAATAATTATGTACAAAAATTAAAAGAAATTAGTGA
* * *
11028926 AGGCATTTTTTTAGAATAAATGCCTTCACTAACCGTCTTAAAATTTGAA-TAATAGAA
129 AGGCATTTTTTTAGAATAAACGCCTTCACTAACCATCTTAAAATTT-AAGTAGTA-AA
* * * ***
11028983 TATTGAAGGTATTTTTTACTAAAAGATACC-TTTAATAATC-CTAAAAATTTAAAAAAAAAAATT
1 TATTGAAGGCATTTTTCACTAGAAG--ACCATTTAATAATCTC-AAAAATTT-TTTAAAAAAATT
* * *
11029046 ATTGAAGGCATTTGTTCTCAAAAAATACCTTCAATAATTATATACAAAAATTAAAA-AAATTATT
62 ATTGAAGGCATTTGTTCTCAAAAAACACCTTCAATAATTATGTACAAAAATTAAAAGAAATTAGT
* * * * * * * *
11029110 GAAAGTA-TTTTTT-GAATAAACACCTTCATTAATCATCTTAAATTTTGAGTACTAATA
127 GAAGGCATTTTTTTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTAGTAA-A
* * ** * * *
11029167 TATTAAATGTGTTTTTCACTAGAAGACACTTTTAATAATCTCAAAATTTTTTTTAAAAAAAATAT
1 TATTGAAGGCATTTTTCACTAGAAGAC-CATTTAATAATCTCAAAA-ATTTTTTAAAAAAATTAT
** * * *
11029232 TGAAGGTGTTTGTTAT-AAAAAATACCTTCAATAATTATGTACATAAATTAAAAGAAATTAGTGA
64 TGAAGGCATTTGTTCTCAAAAAACACCTTCAATAATTATGTACAAAAATTAAAAGAAATTAGTGA
* ** * * * * *
11029296 ATGTGTTTTTCTGGAATAAA--TCATCAACTAACCATCTTAAAATTTAAATAGTAAAA
129 AGGCATTTTTTTAGAATAAACGCCTTC-ACTAACCATCTTAAAATTTAAGTAGT-AAA
* *
11029352 TATTGAAGGCATTTTTCACTAGAAGATGCC-TTTAAT--TTTAAAAAATTTTTTAAAAAAATTAT
1 TATTGAAGGCATTTTTCACTAGAAGA--CCATTTAATAATCTCAAAAATTTTTTAAAAAAATTAT
11029414 TGAA
64 TGAA
11029418 AGCGTTTTTC
Statistics
Matches: 528, Mismatches: 71, Indels: 48
0.82 0.11 0.07
Matches are distributed among these distances:
182 22 0.04
183 44 0.08
184 104 0.20
185 67 0.13
186 210 0.40
187 78 0.15
188 3 0.01
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (184 bp):
TATTGAAGGCATTTTTCACTAGAAGACCATTTAATAATCTCAAAAATTTTTTAAAAAAATTATTG
AAGGCATTTGTTCTCAAAAAACACCTTCAATAATTATGTACAAAAATTAAAAGAAATTAGTGAAG
GCATTTTTTTAGAATAAACGCCTTCACTAACCATCTTAAAATTTAAGTAGTAAA
Found at i:11029102 original size:62 final size:62
Alignment explanation
Indices: 11028851--11029112 Score: 173
Period size: 62 Copynumber: 4.2 Consensus size: 62
11028841 AAATTTTTTT
* * * *
11028851 AAAAAATTATTAAAGGCATTTGTTCTCAAAAAACACCTTCAATAATTATGTACAAAAATTAA
1 AAAAAATTATTGAAGGCATTTGTTCTCAAAAAATACCTTCAATAATCATATACAAAAATTAA
** * * * * * * * * *
11028913 AAGGAATTAGTGAAGGCATTT-TT-TTAGAATAAATGCCTTCACTAACCGTCT-TAAAATTTGAA
1 AAAAAATTATTGAAGGCATTTGTTCTCA-AA-AAATACCTTCAATAATCATATACAAAAATT-AA
* * * * * *
11028975 TAATAGAA-TATTGAAGGTATTTTTTACT-AAAAGATACCTTTAATAATCCTA-A-AAATTTAA-
1 -AA-AAAATTATTGAAGGCATTTGTT-CTCAAAAAATACCTTCAATAATCATATACAAA---AAT
*
11029035 AAA
60 TAA
*
11029038 AAAAAATTATTGAAGGCATTTGTTCTCAAAAAATACCTTCAATAATTATATACAAAAATT-A
1 AAAAAATTATTGAAGGCATTTGTTCTCAAAAAATACCTTCAATAATCATATACAAAAATTAA
11029099 AAAAAATTATTGAA
1 AAAAAATTATTGAA
11029113 AGTATTTTTT
Statistics
Matches: 149, Mismatches: 34, Indels: 35
0.68 0.16 0.16
Matches are distributed among these distances:
60 2 0.01
61 32 0.21
62 72 0.48
63 30 0.20
64 10 0.07
65 2 0.01
66 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (62 bp):
AAAAAATTATTGAAGGCATTTGTTCTCAAAAAATACCTTCAATAATCATATACAAAAATTAA
Found at i:11029294 original size:370 final size:371
Alignment explanation
Indices: 11028605--11029387 Score: 1022
Period size: 370 Copynumber: 2.1 Consensus size: 371
11028595 TTGATTTTTT
* * ***
11028605 TAAAATTATTGAAGGCATTTTATACTAAAAGACACCTTTAATAATCCAAAAATTTTTTAAAAAAA
1 TAAAA-TATTGAAGGCATTTTTTACTAAAAGATACCTTTAATAATCCAAAAATTTAAAAAAAAAA
* * * *
11028670 ATTGTTGAAGGCATTTGTTCTTAAAAAACGCCTTCAATAATTATGTACAAAAATTAAAAGAAATT
65 ATTATTGAAGGCATTTGTTCTCAAAAAACACCTTCAATAATTATATACAAAAATTAAAAGAAATT
* * * * *
11028735 AGTGAAGGCATTTTTTTAGAATAAACGCCTTCGCTAATCGTCTTAAAATTTAAGTAGTAAACTAT
130 AGTGAAAGCATTTTTTTAGAATAAACACCTTCACTAATCATCTTAAAATTTAAGTACTAAACTAT
* * *
11028800 TGAAGGCATTTTTCATTAGAAGACCATTTTAATAATCTCAAAAATTTTTTTAAAAAATTATTAAA
195 TAAAGGCATTTTTCACTAGAAGACCATTTTAATAATCTCAAAAATTTTTTTAAAAAAATATTAAA
* *
11028865 GGCATTTGTTCTCAAAAAACACCTTCAATAATTATGTACAAAAATTAAAAGGAATTAGTGAAGGC
260 GGCATTTGTTATCAAAAAACACCTTCAATAATTATGTACAAAAATTAAAAGAAATTAGTGAAGGC
* * * *
11028930 ATTTTTTTAGAATAAATGCCTTC-ACTAACCGTCTTAAAATTTGAATAA
325 ATTTTTCTAGAATAAAT--CATCAACTAACCATCTTAAAATTTAAATAA
* *
11028978 TAGAATATTGAAGGTATTTTTTACTAAAAGATACCTTTAATAATCCTAAAAATTTAAAAAAAAAA
1 TAAAATATTGAAGGCATTTTTTACTAAAAGATACCTTTAATAATCC-AAAAATTTAAAAAAAAAA
*
11029043 ATTATTGAAGGCATTTGTTCTCAAAAAATACCTTCAATAATTATATACAAAAATTAAAA-AAATT
65 ATTATTGAAGGCATTTGTTCTCAAAAAACACCTTCAATAATTATATACAAAAATTAAAAGAAATT
* * * * *
11029107 ATTGAAAGTA-TTTTTT-GAATAAACACCTTCATTAATCATCTTAAATTTTGAGTACTAATA-TA
130 AGTGAAAGCATTTTTTTAGAATAAACACCTTCACTAATCATCTTAAAATTTAAGTACTAA-ACTA
* ** *
11029169 TTAAATGTGTTTTTCACTAGAAGA-CACTTTTAATAATCTCAAAATTTTTTTTAAAAAAAATATT
194 TTAAAGGCATTTTTCACTAGAAGACCA-TTTTAATAATCTCAAAAATTTTTTT-AAAAAAATATT
* ** * *
11029233 GAAGGTGTTTGTTAT-AAAAAATACCTTCAATAATTATGTACATAAATTAAAAGAAATTAGTGAA
257 AAAGGCATTTGTTATCAAAAAACACCTTCAATAATTATGTACAAAAATTAAAAGAAATTAGTGAA
* ** * *
11029297 TGTGTTTTTCTGGAATAAATCATCAACTAACCATCTTAAAATTTAAATAG
322 GGCATTTTTCTAGAATAAATCATCAACTAACCATCTTAAAATTTAAATAA
* * *
11029347 TAAAATATTGAAGGCATTTTTCACTAGAAGATGCCTTTAAT
1 TAAAATATTGAAGGCATTTTTTACTAAAAGATACCTTTAAT
11029388 TTTAAAAAAT
Statistics
Matches: 355, Mismatches: 50, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
368 3 0.01
369 60 0.17
370 141 0.40
371 28 0.08
372 50 0.14
373 73 0.21
ACGTcount: A:0.43, C:0.11, G:0.10, T:0.36
Consensus pattern (371 bp):
TAAAATATTGAAGGCATTTTTTACTAAAAGATACCTTTAATAATCCAAAAATTTAAAAAAAAAAA
TTATTGAAGGCATTTGTTCTCAAAAAACACCTTCAATAATTATATACAAAAATTAAAAGAAATTA
GTGAAAGCATTTTTTTAGAATAAACACCTTCACTAATCATCTTAAAATTTAAGTACTAAACTATT
AAAGGCATTTTTCACTAGAAGACCATTTTAATAATCTCAAAAATTTTTTTAAAAAAATATTAAAG
GCATTTGTTATCAAAAAACACCTTCAATAATTATGTACAAAAATTAAAAGAAATTAGTGAAGGCA
TTTTTCTAGAATAAATCATCAACTAACCATCTTAAAATTTAAATAA
Found at i:11029479 original size:122 final size:122
Alignment explanation
Indices: 11029279--11029499 Score: 311
Period size: 122 Copynumber: 1.8 Consensus size: 122
11029269 TGTACATAAA
* *
11029279 TTAAAAGAAATTAGTGAATGTGTTTTTCTGGAATAAATCATCAACTAACCATCTTAAAATTTAAA
1 TTAAAAGAAATTAGTGAAAGCGTTTTTCTGGAATAAATCATCAACTAACCATCTTAAAATTTAAA
* *
11029344 TAGTAAAATATTGAAGGCATTTTTCACTAGAAGATGCCTTTAATTTTAAAAAATTTT
66 TAGTAAAACATTGAAGACATTTTTCACTAGAAGATGCCTTTAATTTTAAAAAATTTT
* * * *
11029401 TTAAAA-AAATTATTGAAAGCGTTTTTCTGGAATAAATGCCTTC-ACTAACCATTTTAAAATTTG
1 TTAAAAGAAATTAGTGAAAGCGTTTTTCTGGAATAAAT--CATCAACTAACCATCTTAAAATTTA
* * *
11029464 AGTAGTGAAACATTGAAGATATTTTTCACTAGAAGA
64 AATAGTAAAACATTGAAGACATTTTTCACTAGAAGA
11029500 CACCTTCAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
121 28 0.33
122 55 0.64
123 3 0.03
ACGTcount: A:0.40, C:0.10, G:0.13, T:0.37
Consensus pattern (122 bp):
TTAAAAGAAATTAGTGAAAGCGTTTTTCTGGAATAAATCATCAACTAACCATCTTAAAATTTAAA
TAGTAAAACATTGAAGACATTTTTCACTAGAAGATGCCTTTAATTTTAAAAAATTTT
Found at i:11037734 original size:21 final size:22
Alignment explanation
Indices: 11037686--11037734 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
11037676 CAAGCAAGCA
* *
11037686 TTTTTATTTACTTTATTTTTAT
1 TTTTTATTTACTTCATTTTGAT
* *
11037708 TATTTATTTA-TTCCTTTTGAT
1 TTTTTATTTACTTCATTTTGAT
11037729 TTTTTA
1 TTTTTA
11037735 AAAATAAATC
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.18, C:0.06, G:0.02, T:0.73
Consensus pattern (22 bp):
TTTTTATTTACTTCATTTTGAT
Found at i:11038212 original size:8 final size:9
Alignment explanation
Indices: 11038177--11038211 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
11038167 AGATAATAAT
11038177 AAAAAAATA
1 AAAAAAATA
11038186 AAATCAAAATA
1 AAA--AAAATA
11038197 AAAAAAATA
1 AAAAAAATA
11038206 AAAAAA
1 AAAAAA
11038212 TTACATATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 15 0.62
11 9 0.38
ACGTcount: A:0.86, C:0.03, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATA
Found at i:11038314 original size:68 final size:68
Alignment explanation
Indices: 11038178--11038314 Score: 170
Period size: 68 Copynumber: 2.0 Consensus size: 68
11038168 GATAATAATA
*** *
11038178 AAAAAATAAAATCAAAATAAAAAAAATAAAAAAATTACATATGGATCGAGTCAAAAGTTGGTCGG
1 AAAAAATAAAATCAAAATAAAAAAAATAAAAAAATTACATATGGATCGAGTCAAAAGCAAGTCAG
11038243 TGC
66 TGC
* * * *
11038246 AAAAAATAAAATC-AAATCAAAAAAGAA-AAAAAAATTACATATGGGTTGGGTCAAACGCAAGTC
1 AAAAAATAAAATCAAAAT-AAAAAA-AATAAAAAAATTACATATGGATCGAGTCAAAAGCAAGTC
11038309 AGTGC
64 AGTGC
11038314 A
1 A
11038315 TCGATTTGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
67 4 0.07
68 53 0.90
69 2 0.03
ACGTcount: A:0.55, C:0.10, G:0.15, T:0.19
Consensus pattern (68 bp):
AAAAAATAAAATCAAAATAAAAAAAATAAAAAAATTACATATGGATCGAGTCAAAAGCAAGTCAG
TGC
Found at i:11041190 original size:14 final size:15
Alignment explanation
Indices: 11041160--11041204 Score: 53
Period size: 14 Copynumber: 3.2 Consensus size: 15
11041150 TTACATGCAT
11041160 AAATATTAATAATAA
1 AAATATTAATAATAA
11041175 AAAT-TTAA-AATAA
1 AAATATTAATAATAA
11041188 AAA-A-TAATATATAA
1 AAATATTAATA-ATAA
11041202 AAA
1 AAA
11041205 AATCTTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
12 3 0.11
13 9 0.33
14 11 0.41
15 4 0.15
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATATTAATAATAA
Found at i:11042153 original size:8 final size:8
Alignment explanation
Indices: 11042140--11042210 Score: 54
Period size: 8 Copynumber: 8.2 Consensus size: 8
11042130 CCACAGCCAG
11042140 AAAAAGAA
1 AAAAAGAA
11042148 AAAAAGAA
1 AAAAAGAA
* *
11042156 ATAGAGAAA
1 AAAAAG-AA
11042165 AAGAAAGAA
1 AA-AAAGAA
11042174 ATAGAAA-AA
1 A-A-AAAGAA
11042183 AAAAAGAA
1 AAAAAGAA
*
11042191 AAAATAAATA
1 AAAA-AGA-A
11042201 AAAAAGAA
1 AAAAAGAA
11042209 AA
1 AA
11042211 TAAATAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
7 3 0.06
8 22 0.43
9 13 0.25
10 13 0.25
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.06
Consensus pattern (8 bp):
AAAAAGAA
Found at i:11042165 original size:14 final size:14
Alignment explanation
Indices: 11042138--11042194 Score: 55
Period size: 14 Copynumber: 4.0 Consensus size: 14
11042128 AGCCACAGCC
11042138 AGAAAAAGAAAAAA
1 AGAAAAAGAAAAAA
* *
11042152 AGAAATAGAGAAAA
1 AGAAAAAGAAAAAA
11042166 AGAAAGAA-ATAGAAAA
1 AGAAA-AAGA-A-AAAA
11042182 A-AAAAAGAAAAAA
1 AGAAAAAGAAAAAA
11042195 TAAATAAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
13 4 0.11
14 21 0.60
15 5 0.14
16 5 0.14
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.04
Consensus pattern (14 bp):
AGAAAAAGAAAAAA
Found at i:11042182 original size:17 final size:17
Alignment explanation
Indices: 11042146--11042191 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 17
11042136 CCAGAAAAAG
11042146 AAAAAAAGAAATAGAGA
1 AAAAAAAGAAATAGAGA
*
11042163 AAAAGAAAGAAATAGAAA
1 AAAA-AAAGAAATAGAGA
11042181 AAAAAAAGAAA
1 AAAAAAAGAAA
11042192 AAATAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 11 0.41
18 16 0.59
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.04
Consensus pattern (17 bp):
AAAAAAAGAAATAGAGA
Found at i:11042203 original size:18 final size:19
Alignment explanation
Indices: 11042140--11042210 Score: 65
Period size: 18 Copynumber: 3.5 Consensus size: 19
11042130 CCACAGCCAG
11042140 AAAAAGAAAAAA-AGAAATAGA
1 AAAAAGAAAAAATA-AAA-A-A
11042161 GAAAAAGAAAGAAATAGAAAAA
1 -AAAAAGAAA-AAATA-AAAAA
*
11042183 AAAAAGAAAAAAT-AAATA
1 AAAAAGAAAAAATAAAAAA
11042201 AAAAAGAAAA
1 AAAAAGAAAA
11042211 TAAATAATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 8
0.84 0.02 0.15
Matches are distributed among these distances:
18 14 0.30
20 4 0.09
21 9 0.20
22 10 0.22
23 4 0.09
24 5 0.11
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.06
Consensus pattern (19 bp):
AAAAAGAAAAAATAAAAAA
Found at i:11042210 original size:23 final size:23
Alignment explanation
Indices: 11042172--11042230 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
11042162 AAAAAGAAAG
11042172 AAATAGAAAAAAAAAAGAAAAAAT
1 AAATA-AAAAAAAAAAGAAAAAAT
* * *
11042196 AAATAAAAAAGAAAATAAATAAT
1 AAATAAAAAAAAAAAGAAAAAAT
*
11042219 AAATAAATAAAA
1 AAATAAAAAAAA
11042231 TGATAATAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
23 25 0.83
24 5 0.17
ACGTcount: A:0.81, C:0.00, G:0.05, T:0.14
Consensus pattern (23 bp):
AAATAAAAAAAAAAAGAAAAAAT
Found at i:11042427 original size:49 final size:48
Alignment explanation
Indices: 11042374--11042687 Score: 266
Period size: 49 Copynumber: 6.6 Consensus size: 48
11042364 AAAAAGCTCT
* * * *
11042374 TCTAATCAGAGGCTCAACAAATTTAAAAATTTATCTTTGAAAAAATTTC-
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATC-TT-AAAAAAATTCA
11042423 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTAAAAAAGATTCA
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTAAAAAA-ATTCA
* * ** *
11042472 TCTAAGCAGAAGCTCAACAATTTTAAAAATTCATCTTAAAAAAGCTCT
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTAAAAAAATTCA
** * * *
11042520 TCTAAATAGAGGTTCAACAACTTTAAAAATTTATCTTAAAAAAAAGCTCA
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTT-AAAAAAA-TTCA
* * * * * *
11042570 TCTAAGCAAAGACTCAATAATTTTAAAAA-T--TCTTATAAAAACTGC-
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTA-AAAAAATTCA
* * * *
11042615 TCTCAGCAGAGGCTCAACAACTTTAAATATT--T-TTTAAAAAGTTCA
1 TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTAAAAAAATTCA
* * * *
11042660 TCTCAGTAGAGGCTCTATAACTTTAAAA
1 TCTAAGCAGAGGCTCAACAACTTTAAAA
11042688 TCTCATTTTG
Statistics
Matches: 218, Mismatches: 40, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
44 7 0.03
45 49 0.22
46 4 0.02
47 15 0.07
48 38 0.17
49 80 0.37
50 25 0.11
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (48 bp):
TCTAAGCAGAGGCTCAACAACTTTAAAAATTCATCTTAAAAAAATTCA
Found at i:11042476 original size:98 final size:97
Alignment explanation
Indices: 11042364--11042641 Score: 323
Period size: 98 Copynumber: 2.9 Consensus size: 97
11042354 TTTTTAATTT
* * * *
11042364 AAAAAGCTCTTCTAATCAGAGGCTCAACAAATTTAAAAATTTATCTTTGAAAAAATTTCTCTAAG
1 AAAAAGCTCATCTAAGCAGAGGCTCAACAATTTTAAAAATTTATC-TT-AAAAAACTTCTCTAAG
11042429 CAGAGGCTCAACAACTTTAAAAATTCATCTTAAA
64 CAGAGGCTCAACAACTTTAAAAATTCATCTTAAA
* * * * *
11042463 AAAGA-TTCATCTAAGCAGAAGCTCAACAATTTTAAAAATTCATCTTAAAAAAGC-TCTTCTAAA
1 AAAAAGCTCATCTAAGCAGAGGCTCAACAATTTTAAAAATTTATCTTAAAAAA-CTTC-TCTAAG
* * *
11042526 TAGAGGTTCAACAACTTTAAAAATTTATCTTAAA
64 CAGAGGCTCAACAACTTTAAAAATTCATCTTAAA
* * * * *
11042560 AAAAAGCTCATCTAAGCAAAGACTCAATAATTTTAAAAA--T-TCTTATAAAAACTGCTCTCAGC
1 AAAAAGCTCATCTAAGCAGAGGCTCAACAATTTTAAAAATTTATCTTA-AAAAACTTCTCTAAGC
11042622 AGAGGCTCAACAACTTTAAA
65 AGAGGCTCAACAACTTTAAA
11042642 TATTTTTTAA
Statistics
Matches: 150, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
95 29 0.19
96 14 0.09
97 42 0.28
98 61 0.41
99 4 0.03
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (97 bp):
AAAAAGCTCATCTAAGCAGAGGCTCAACAATTTTAAAAATTTATCTTAAAAAACTTCTCTAAGCA
GAGGCTCAACAACTTTAAAAATTCATCTTAAA
Found at i:11043084 original size:99 final size:98
Alignment explanation
Indices: 11042923--11043452 Score: 443
Period size: 99 Copynumber: 5.3 Consensus size: 98
11042913 ACCACTGAAG
* * * * * ** *
11042923 GAAACTTAAATATCACCATTGAAAAAATGTAAATGATTTTTTAATGCTTGGATATCATCACTGAG
1 GAAACTCAAATATCACCATTGAGAAAATGCAAATCAATTTTTAACACTTGGATATCACCACTGAG
11042988 AATATGCAAATGACTTCGTATATCGTCACCGAAA
66 AATATGCAAATGACTTCG-ATATCGTCACCGAAA
* * * ** *
11043022 AAAAATCAAATATCACCATTGAGAGAATGCAAAT-AATTTTTTAATGCTCGGATATCACCACTGA
1 GAAACTCAAATATCACCATTGAGAAAATGCAAATCAA-TTTTTAACACTTGGATATCACCACTGA
* **
11043086 GAATATGCAAATGATTTCAGATATCGTCATTGAAA
65 GAATATGCAAATGACTTC-GATATCGTCACCGAAA
* * * * * *
11043121 GAAACTCAAATATCACCATCGAGAGAATGCAAATCAAATCTTAACACTTGAATATCACCACCGAG
1 GAAACTCAAATATCACCATTGAGAAAATGCAAATCAATTTTTAACACTTGGATATCACCACTGAG
* *** *
11043186 AATATGCAAATGACTTTGAATATTACCACCGAAG
66 AATATGCAAATGACTTCG-ATATCGTCACCGAAA
* * * * * ** * * *
11043220 GAAACTCGAATATCATCATTAAGAAAATGCAATTGAAGCTTTAACACTTAGATATCACCATTAAG
1 GAAACTCAAATATCACCATTGAGAAAATGCAAATCAATTTTTAACACTTGGATATCACCACTGAG
*
11043285 AATATGCAAATGACTTCGGATATCGTCACTGAAA
66 AATATGCAAATGACTTC-GATATCGTCACCGAAA
* * ** * ** ** **
11043319 GAAACTCGAATGA-CATCATCAAGAAAAATGCAAATGAAGCTTTAACACTCAGATATCACCACCA
1 GAAACTCAAAT-ATCACCATTGAG-AAAATGCAAATCAATTTTTAACACTTGGATATCACCACTG
* * ** *
11043383 AGAATATGCAAATGATTTTGGATATCACCACCGAAG
64 AGAATATGCAAATGA-CTTCGATATCGTCACCGAAA
* * * *
11043419 GAAATTCAAATATCACCATCGAAAAAATGTAAAT
1 GAAACTCAAATATCACCATTGAGAAAATGCAAAT
11043453 AACTTAGGAT
Statistics
Matches: 354, Mismatches: 68, Indels: 18
0.80 0.15 0.04
Matches are distributed among these distances:
98 2 0.01
99 266 0.75
100 84 0.24
101 2 0.01
ACGTcount: A:0.42, C:0.18, G:0.14, T:0.26
Consensus pattern (98 bp):
GAAACTCAAATATCACCATTGAGAAAATGCAAATCAATTTTTAACACTTGGATATCACCACTGAG
AATATGCAAATGACTTCGATATCGTCACCGAAA
Found at i:11043195 original size:198 final size:199
Alignment explanation
Indices: 11042969--11043437 Score: 525
Period size: 198 Copynumber: 2.4 Consensus size: 199
11042959 TTTTTTAATG
* * * * * ** **
11042969 CTTGGATATCATCACTGAGAATATGCAAATGACTTCGTATATCGTCACCGAAAAAAAATCAAATA
1 CTTGAATATCACCACCGAGAATATGCAAATGACTTTGAATATCACCACCGAAGGAAAATCAAATA
* * ** ** * *
11043034 TCACCATTGAGAGAATGCAAAT-AATTTTTTAATGCTCGGATATCACCACTGAGAATATGCAAAT
66 TCACCATTAAGAAAATGCAAATGAA-GCTTTAACACTCAGATATCACCACTAAGAATATGCAAAT
* * * * *
11043098 GATTTCAGATATCGTCATTGAAAGAAACTCAAAT-ATCACCATCGAG-AGAATGCAAATCAAATC
130 GACTTCAGATATCGTCACTGAAAGAAACTCAAATGA-CACCATCAAGAAAAATGCAAAT-AAAGC
11043161 -TTAACA
193 TTTAACA
* * *
11043167 CTTGAATATCACCACCGAGAATATGCAAATGACTTTGAATATTACCACCGAAGGAAACTCGAATA
1 CTTGAATATCACCACCGAGAATATGCAAATGACTTTGAATATCACCACCGAAGGAAAATCAAATA
* * * *
11043232 TCATCATTAAGAAAATGCAATTGAAGCTTTAACACTTAGATATCACCATTAAGAATATGCAAATG
66 TCACCATTAAGAAAATGCAAATGAAGCTTTAACACTCAGATATCACCACTAAGAATATGCAAATG
* * * *
11043297 ACTTCGGATATCGTCACTGAAAGAAACTCGAATGACATCATCAAGAAAAATGCAAATGAAGCTTT
131 ACTTCAGATATCGTCACTGAAAGAAACTCAAATGACACCATCAAGAAAAATGCAAATAAAGCTTT
11043362 AACA
196 AACA
* * * * *
11043366 C-TCAGATATCACCACCAAGAATATGCAAATGATTTTGGATATCACCACCGAAGGAAATTCAAAT
1 CTTGA-ATATCACCACCGAGAATATGCAAATGACTTTGAATATCACCACCGAAGGAAAATCAAAT
11043430 ATCACCAT
65 ATCACCAT
11043438 CGAAAAAATG
Statistics
Matches: 225, Mismatches: 41, Indels: 9
0.82 0.15 0.03
Matches are distributed among these distances:
198 145 0.64
199 80 0.36
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.25
Consensus pattern (199 bp):
CTTGAATATCACCACCGAGAATATGCAAATGACTTTGAATATCACCACCGAAGGAAAATCAAATA
TCACCATTAAGAAAATGCAAATGAAGCTTTAACACTCAGATATCACCACTAAGAATATGCAAATG
ACTTCAGATATCGTCACTGAAAGAAACTCAAATGACACCATCAAGAAAAATGCAAATAAAGCTTT
AACA
Found at i:11043721 original size:75 final size:75
Alignment explanation
Indices: 11043497--11043730 Score: 272
Period size: 75 Copynumber: 3.1 Consensus size: 75
11043487 ATCTCCATCG
* * * *
11043497 AGAAAATGTAATTTAAGCTTTTAACACTCAGATATCACCACCGA-AAGTATGCAAATGACTTCGG
1 AGAAAATGAAATTCAAAC-TTTAACACTCGGATATCACCACCGAGAA-TATGCAAATGACTTCGG
* *
11043561 ATATCGCCATTG
64 ATATCGCCACTA
* * * * *
11043573 AGAAAATGCAATTCAAACTTTGACACTCGAATATCACCACCGAGAATATGTAAATGACTTTGGAT
1 AGAAAATGAAATTCAAACTTTAACACTCGGATATCACCACCGAGAATATGCAAATGACTTCGGAT
11043638 ATCGCCACTA
66 ATCGCCACTA
* * * * *
11043648 AGAAAATGAAATTCAAACTTTAACACTTGGATAACACCACTGAGAATACGCAAATTACTTCGGAT
1 AGAAAATGAAATTCAAACTTTAACACTCGGATATCACCACCGAGAATATGCAAATGACTTCGGAT
*
11043713 ATCACCACTGA
66 ATCGCCACT-A
11043724 AGGAAAA
1 A-GAAAA
11043731 CTCAAATATC
Statistics
Matches: 134, Mismatches: 21, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
75 110 0.82
76 19 0.14
77 5 0.04
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (75 bp):
AGAAAATGAAATTCAAACTTTAACACTCGGATATCACCACCGAGAATATGCAAATGACTTCGGAT
ATCGCCACTA
Found at i:11043831 original size:35 final size:35
Alignment explanation
Indices: 11043768--11043864 Score: 105
Period size: 35 Copynumber: 2.9 Consensus size: 35
11043758 ATTTAAGTCC
*
11043768 TAACAC-TCGGATATCACCA-TCGAGAAAATACAAA
1 TAACACTTCGGATATCACCACT-GAAAAAATACAAA
**
11043802 TAACACTTCGGATATCACCACTGAAAAAATGTAAA
1 TAACACTTCGGATATCACCACTGAAAAAATACAAA
*
11043837 T-A-A-TTCAGATATCACCACTGAAGAAAAT
1 TAACACTTCGGATATCACCACTGAA-AAAAT
11043865 TTGAATATTA
Statistics
Matches: 56, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
32 18 0.32
33 6 0.11
34 7 0.12
35 24 0.43
36 1 0.02
ACGTcount: A:0.46, C:0.21, G:0.11, T:0.22
Consensus pattern (35 bp):
TAACACTTCGGATATCACCACTGAAAAAATACAAA
Found at i:11043915 original size:133 final size:134
Alignment explanation
Indices: 11043668--11043919 Score: 294
Period size: 133 Copynumber: 1.9 Consensus size: 134
11043658 ATTCAAACTT
* * * *
11043668 TAACACTTGGATAACACCACTGAGAATACGCAAATTACTTCGGATATCACCACTGAAGGAAAACT
1 TAACACTTGGATAACACCACTGAAAAAACGCAAATTAATTCAGATATCACCACTGAAGGAAAACT
* * * * *
11043733 CAAATATCACCATCGAGAAAATGTAATTTAAGTCCTAACACTCGGATATCACCATCGAGAAAATA
66 CAAATATCACCATAGAGAAAATGCAAATCAAGTCCTAACACTCAGATATCACCATCGAGAAAATA
11043798 CAAA
131 CAAA
* * * *
11043802 TAACACTTCGGATATCACCACTGAAAAAATGTAAA-TAATTCAGATATCACCACTGAA-GAAAAT
1 TAACACTT-GGATAACACCACTGAAAAAACGCAAATTAATTCAGATATCACCACTGAAGGAAAAC
** * * * *
11043865 TTGAATATTACCATAGAGAAAATGCAAATCAAG-CTTTAATACTCATATATCACCA
65 TCAAATATCACCATAGAGAAAATGCAAATCAAGTC-CTAACACTCAGATATCACCA
11043920 CCAAAAAAAT
Statistics
Matches: 97, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
132 1 0.01
133 47 0.48
134 28 0.29
135 21 0.22
ACGTcount: A:0.44, C:0.21, G:0.12, T:0.24
Consensus pattern (134 bp):
TAACACTTGGATAACACCACTGAAAAAACGCAAATTAATTCAGATATCACCACTGAAGGAAAACT
CAAATATCACCATAGAGAAAATGCAAATCAAGTCCTAACACTCAGATATCACCATCGAGAAAATA
CAAA
Found at i:11044324 original size:35 final size:37
Alignment explanation
Indices: 11044242--11044373 Score: 119
Period size: 35 Copynumber: 3.6 Consensus size: 37
11044232 ACACCATTAT
* *
11044242 GATGCAAATGGCTTCTCTTAAAATGATGATACAAATGA
1 GATGCAAATGTCTTATCTTAAAATGATGATAC-AATGA
* *
11044280 AATGCAAATGTCTTATCTTAAAATGATGCT-C-ATGA
1 GATGCAAATGTCTTATCTTAAAATGATGATACAATGA
* * * *
11044315 GATGTAAATGTCTTTTCTTAAAAAGAT-ATAC-ATAA
1 GATGCAAATGTCTTATCTTAAAATGATGATACAATGA
* * * *
11044350 AATACAAATGTCTTTTCTAAAAAT
1 GATGCAAATGTCTTATCTTAAAAT
11044374 ACTAATGCAT
Statistics
Matches: 78, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
34 1 0.01
35 50 0.64
37 1 0.01
38 26 0.33
ACGTcount: A:0.41, C:0.12, G:0.13, T:0.34
Consensus pattern (37 bp):
GATGCAAATGTCTTATCTTAAAATGATGATACAATGA
Found at i:11045285 original size:23 final size:24
Alignment explanation
Indices: 11045259--11045315 Score: 73
Period size: 22 Copynumber: 2.5 Consensus size: 24
11045249 AGAGCTTTAT
*
11045259 TTTTTTATTTTTTC-TTTCTTTCA
1 TTTTTTATTTTTTCTTTTCTTCCA
*
11045282 -TTTTTATTTTTTCTTTTCTTCCT
1 TTTTTTATTTTTTCTTTTCTTCCA
*
11045305 TTTTTTGTTTT
1 TTTTTTATTTT
11045316 GATGATTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 13 0.45
23 7 0.24
24 9 0.31
ACGTcount: A:0.05, C:0.12, G:0.02, T:0.81
Consensus pattern (24 bp):
TTTTTTATTTTTTCTTTTCTTCCA
Found at i:11045649 original size:19 final size:18
Alignment explanation
Indices: 11045625--11045661 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
11045615 TCCAATCATC
11045625 TCTTTTTTCTTTCTTTTTT
1 TCTTTTTTCTTT-TTTTTT
11045644 TCTTTTTTCTTTTTTTTT
1 TCTTTTTTCTTTTTTTTT
11045662 CAATTTCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (18 bp):
TCTTTTTTCTTTTTTTTT
Found at i:11049593 original size:8 final size:8
Alignment explanation
Indices: 11049580--11049623 Score: 52
Period size: 8 Copynumber: 5.0 Consensus size: 8
11049570 ATCATTTTAA
11049580 TAAAATTT
1 TAAAATTT
11049588 TAAAATTAAT
1 TAAAATT--T
11049598 TAAAATTT
1 TAAAATTT
11049606 TAAAATTAAT
1 TAAAATT--T
11049616 TAAAATTT
1 TAAAATTT
11049624 ATTAAAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 16 0.50
10 16 0.50
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (8 bp):
TAAAATTT
Found at i:11049601 original size:18 final size:18
Alignment explanation
Indices: 11049576--11049623 Score: 89
Period size: 18 Copynumber: 2.7 Consensus size: 18
11049566 ATCTATCATT
11049576 TTAA-TAAAATTTTAAAA
1 TTAATTAAAATTTTAAAA
11049593 TTAATTAAAATTTTAAAA
1 TTAATTAAAATTTTAAAA
11049611 TTAATTAAAATTT
1 TTAATTAAAATTT
11049624 ATTAAAAAGA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 4 0.13
18 26 0.87
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATTAAAATTTTAAAA
Found at i:11049602 original size:10 final size:10
Alignment explanation
Indices: 11049576--11049630 Score: 66
Period size: 10 Copynumber: 6.0 Consensus size: 10
11049566 ATCTATCATT
11049576 TTAA-TAAAA
1 TTAATTAAAA
11049585 TT--TTAAAA
1 TTAATTAAAA
11049593 TTAATTAAAA
1 TTAATTAAAA
11049603 TT--TTAAAA
1 TTAATTAAAA
11049611 TTAATTAAAA
1 TTAATTAAAA
*
11049621 TTTATTAAAA
1 TTAATTAAAA
11049631 AGATAATTTT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
8 15 0.38
9 2 0.05
10 23 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TTAATTAAAA
Found at i:11051390 original size:18 final size:17
Alignment explanation
Indices: 11051358--11051397 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
11051348 CACTGCTAGA
11051358 AAAAAAAAAAAAAAGAG
1 AAAAAAAAAAAAAAGAG
* *
11051375 AGAAAAAGAAACAAAGAG
1 A-AAAAAAAAAAAAAGAG
11051393 AAAAA
1 AAAAA
11051398 TAAATGAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAAAAAAGAG
Found at i:11051434 original size:23 final size:25
Alignment explanation
Indices: 11051376--11051434 Score: 77
Period size: 24 Copynumber: 2.4 Consensus size: 25
11051366 AAAAAAGAGA
11051376 GAAAAAGAAACAAAGAGAAAAATAAAT
1 GAAAAA-AAA-AAAGAGAAAAATAAAT
11051403 GAAAAAAAAAAAGA-AAAAATAAAT
1 GAAAAAAAAAAAGAGAAAAATAAAT
*
11051427 -AAATAAAA
1 GAAAAAAAA
11051435 TGATAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
23 7 0.23
24 10 0.32
25 5 0.16
26 3 0.10
27 6 0.19
ACGTcount: A:0.80, C:0.02, G:0.10, T:0.08
Consensus pattern (25 bp):
GAAAAAAAAAAAGAGAAAAATAAAT
Found at i:11054123 original size:11 final size:11
Alignment explanation
Indices: 11054107--11054147 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
11054097 ATATGATACG
11054107 ATATAAAAATA
1 ATATAAAAATA
*
11054118 ATATAAATAAAAA
1 ATAT-AA-AAATA
11054131 ATATAAAAATA
1 ATATAAAAATA
11054142 ATATAA
1 ATATAA
11054148 TTTAAGAGTC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 14 0.54
12 4 0.15
13 8 0.31
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:11067291 original size:13 final size:13
Alignment explanation
Indices: 11067269--11067320 Score: 56
Period size: 12 Copynumber: 4.2 Consensus size: 13
11067259 TTTATCATTA
11067269 TTTTTA-TGTTAT
1 TTTTTATTGTTAT
11067281 TTTTTATTGTTAT
1 TTTTTATTGTTAT
*
11067294 TATTTTAAT-TTAT
1 T-TTTTATTGTTAT
*
11067307 TTTTT-TGGTTAT
1 TTTTTATTGTTAT
11067319 TT
1 TT
11067321 AAATAACCTT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
12 16 0.47
13 12 0.35
14 6 0.18
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (13 bp):
TTTTTATTGTTAT
Found at i:11073813 original size:6 final size:6
Alignment explanation
Indices: 11073783--11073880 Score: 74
Period size: 6 Copynumber: 16.7 Consensus size: 6
11073773 TTAATACTCT
* * *
11073783 AATTAA AAATAA AA-TAA AA-TAA AATTGA AATTAA AATTAA CATTAA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA
* * * * * * * * *
11073829 CATTAA AATCAA AATTTA AACTAA AATCAA AAGTAT GATCAA AATTAA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA AATTAA
11073877 AATT
1 AATT
11073881 TTTGGGTTTT
Statistics
Matches: 70, Mismatches: 21, Indels: 2
0.75 0.23 0.02
Matches are distributed among these distances:
5 10 0.14
6 60 0.86
ACGTcount: A:0.62, C:0.06, G:0.03, T:0.29
Consensus pattern (6 bp):
AATTAA
Found at i:11073969 original size:24 final size:25
Alignment explanation
Indices: 11073916--11073971 Score: 64
Period size: 24 Copynumber: 2.3 Consensus size: 25
11073906 AAATTTTTTT
*
11073916 ATTTAAAATTTAATTACACAATCAA
1 ATTTAAAATTTAATAACACAATCAA
*
11073941 A-TTAAAATTTAA-AACTCAAT-AA
1 ATTTAAAATTTAATAACACAATCAA
11073963 ATTTTAAAA
1 A-TTTAAAA
11073972 AAATTTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 3 0.11
23 6 0.22
24 17 0.63
25 1 0.04
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (25 bp):
ATTTAAAATTTAATAACACAATCAA
Found at i:11074576 original size:20 final size:20
Alignment explanation
Indices: 11074551--11074589 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
11074541 AAATATATAA
*
11074551 TTTAATTTAATTTTTGATTT
1 TTTAATTTAAATTTTGATTT
11074571 TTTAATTTAAATTTTGATT
1 TTTAATTTAAATTTTGATT
11074590 CAAATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (20 bp):
TTTAATTTAAATTTTGATTT
Found at i:11074960 original size:48 final size:48
Alignment explanation
Indices: 11074901--11074997 Score: 149
Period size: 48 Copynumber: 2.0 Consensus size: 48
11074891 AAAGGAAAAC
* *
11074901 AAAGTATATTTTTAAGAATTTCAAATAAAAAATTAATTTAGTTGATAA
1 AAAGTATATTTTTAAGAATTTCAAATAAAAAATTAATTAAGTTAATAA
** *
11074949 AAAGTATATTTTTAAGAATTTTGAATAAAAGATTAATTAAGTTAATAA
1 AAAGTATATTTTTAAGAATTTCAAATAAAAAATTAATTAAGTTAATAA
11074997 A
1 A
11074998 GAATGTCTTT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.51, C:0.01, G:0.09, T:0.39
Consensus pattern (48 bp):
AAAGTATATTTTTAAGAATTTCAAATAAAAAATTAATTAAGTTAATAA
Found at i:11075490 original size:25 final size:25
Alignment explanation
Indices: 11075451--11075516 Score: 87
Period size: 25 Copynumber: 2.6 Consensus size: 25
11075441 AACAAACATC
*
11075451 TTCATTAATAATAAACAAATATATG
1 TTCATAAATAATAAACAAATATATG
* * *
11075476 TTTATGAATAATAAACAAATATTTG
1 TTCATAAATAATAAACAAATATATG
11075501 TTCATAAATAAATAAA
1 TTCATAAAT-AATAAA
11075517 TTTAAATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
25 29 0.83
26 6 0.17
ACGTcount: A:0.53, C:0.06, G:0.05, T:0.36
Consensus pattern (25 bp):
TTCATAAATAATAAACAAATATATG
Found at i:11077041 original size:13 final size:13
Alignment explanation
Indices: 11077023--11077061 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
11077013 TTTTATTCGA
11077023 ATTAAATTTAAAT
1 ATTAAATTTAAAT
* *
11077036 ATTAAATATATAT
1 ATTAAATTTAAAT
*
11077049 ATTAAATTCAAAT
1 ATTAAATTTAAAT
11077062 TAAAAAATCA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (13 bp):
ATTAAATTTAAAT
Found at i:11077597 original size:5 final size:5
Alignment explanation
Indices: 11077587--11077615 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
11077577 GAAAAAAAGC
11077587 CGAAA CGAAA CGAAA CGAAA CGAAA CGAA
1 CGAAA CGAAA CGAAA CGAAA CGAAA CGAA
11077616 GGCACATTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.59, C:0.21, G:0.21, T:0.00
Consensus pattern (5 bp):
CGAAA
Found at i:11084613 original size:33 final size:33
Alignment explanation
Indices: 11084571--11084766 Score: 212
Period size: 33 Copynumber: 5.9 Consensus size: 33
11084561 CCGTCAACCA
11084571 CACAGCCAAGTGCTAATCCATATGGCCAACCTG
1 CACAGCCAAGTGCTAATCCATATGGCCAACCTG
* * *
11084604 CACAGCCAAGTGCTAACCCCTGTGGCCAACCTG
1 CACAGCCAAGTGCTAATCCATATGGCCAACCTG
* * * * * * *
11084637 GACAGCCAAGTTCAAATGCGTATGGCCAATCTT
1 CACAGCCAAGTGCTAATCCATATGGCCAACCTG
* * *
11084670 CTCAGCCAAGTGCTAATCCCTATGGCCAACCCG
1 CACAGCCAAGTGCTAATCCATATGGCCAACCTG
* ** **
11084703 CACTGCCAAGTGCTAATCCATACAGCCAACCCA
1 CACAGCCAAGTGCTAATCCATATGGCCAACCTG
* *
11084736 CACAGCCAAATGCTAATCCATATGCCCAACC
1 CACAGCCAAGTGCTAATCCATATGGCCAACC
11084767 CATGCAACCA
Statistics
Matches: 131, Mismatches: 32, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
33 131 1.00
ACGTcount: A:0.30, C:0.36, G:0.17, T:0.18
Consensus pattern (33 bp):
CACAGCCAAGTGCTAATCCATATGGCCAACCTG
Found at i:11086109 original size:2 final size:2
Alignment explanation
Indices: 11086096--11086125 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11086086 TCATTCTTCC
*
11086096 AT AT AA 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
11086126 TTTCTTTCAC
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):
AT
Found at i:11086206 original size:15 final size:15
Alignment explanation
Indices: 11086186--11086219 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
11086176 AATAAATCTA
*
11086186 ATCATTCATTTTTCC
1 ATCATTCATTTTCCC
*
11086201 ATCATTTATTTTCCC
1 ATCATTCATTTTCCC
11086216 ATCA
1 ATCA
11086220 GCAATAGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.26, G:0.00, T:0.50
Consensus pattern (15 bp):
ATCATTCATTTTCCC
Found at i:11089899 original size:100 final size:100
Alignment explanation
Indices: 11089718--11089925 Score: 348
Period size: 100 Copynumber: 2.1 Consensus size: 100
11089708 ATAAAGTTTG
* *
11089718 ATAA-AAGAAAAACATATATCCCTGTATCTCCTGGACAAGTTGGATAGAGCTAGATTGCTTAGAA
1 ATAACAAGAAAAACATACATCCCTGTATCTCCTAGACAAGTTGGATAGAGCTAGATTGCTTAGAA
11089782 ATTTTTGGATCACAAAATCATGGATTCTGACAACT
66 ATTTTTGGATCACAAAATCATGGATTCTGACAACT
* *
11089817 ATAACAAGAAAAACATGCATCCCTGTATCTCCTAGACAAGTTGGATAGAGCTATATTGCTTAGAA
1 ATAACAAGAAAAACATACATCCCTGTATCTCCTAGACAAGTTGGATAGAGCTAGATTGCTTAGAA
*
11089882 ATTTTTGGATC-CTAAAATCATGGATTCTTACAACT
66 ATTTTTGGATCAC-AAAATCATGGATTCTGACAACT
11089917 ATAACAAGA
1 ATAACAAGA
11089926 GAATGGATGC
Statistics
Matches: 102, Mismatches: 5, Indels: 3
0.93 0.05 0.03
Matches are distributed among these distances:
99 5 0.05
100 97 0.95
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (100 bp):
ATAACAAGAAAAACATACATCCCTGTATCTCCTAGACAAGTTGGATAGAGCTAGATTGCTTAGAA
ATTTTTGGATCACAAAATCATGGATTCTGACAACT
Found at i:11092072 original size:2 final size:2
Alignment explanation
Indices: 11092059--11092091 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11092049 AATTATTAGC
*
11092059 AG AG AG AA AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11092092 TCAAAGCCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11096722 original size:21 final size:21
Alignment explanation
Indices: 11096676--11096722 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
11096666 AATTATAATT
*
11096676 TTTA-ATTAAAATAATATAAA
1 TTTATATTAAAATAATAAAAA
*
11096696 TATATATTAAAAT-ATAAAAAA
1 TTTATATTAAAATAAT-AAAAA
11096717 TTTATA
1 TTTATA
11096723 AATTATTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TTTATATTAAAATAATAAAAA
Found at i:11097374 original size:20 final size:20
Alignment explanation
Indices: 11097326--11097376 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
11097316 ATTCTGTATA
*
11097326 TATATATATATATATAATTT
1 TATATTTATATATATAATTT
* * * *
11097346 TTTAATTATTTATTTAATTT
1 TATATTTATATATATAATTT
11097366 TATATTTATAT
1 TATATTTATAT
11097377 TAAAAAATAA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (20 bp):
TATATTTATATATATAATTT
Found at i:11097439 original size:27 final size:27
Alignment explanation
Indices: 11097395--11097447 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
11097385 AATATTTTAT
11097395 TAATTTTAAATTAAATCAAATTAAATA
1 TAATTTTAAATTAAATCAAATTAAATA
*
11097422 TAATTTTATA-TAACATCAAATTAAAT
1 TAATTTTAAATTAA-ATCAAATTAAAT
11097448 TTAAATATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 3 0.12
27 21 0.88
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (27 bp):
TAATTTTAAATTAAATCAAATTAAATA
Found at i:11098359 original size:17 final size:18
Alignment explanation
Indices: 11098337--11098383 Score: 51
Period size: 19 Copynumber: 2.6 Consensus size: 18
11098327 TAAGTGTTAG
*
11098337 ATTTTTAATTTAGTGATA
1 ATTTTTAATTTAGTGAAA
* *
11098355 ATTTTATAAATTATTGAAA
1 ATTTT-TAATTTAGTGAAA
11098374 A-TTTTAATTT
1 ATTTTTAATTT
11098384 TAATTATTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 5 0.21
18 8 0.33
19 11 0.46
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.55
Consensus pattern (18 bp):
ATTTTTAATTTAGTGAAA
Found at i:11098926 original size:21 final size:21
Alignment explanation
Indices: 11098900--11098949 Score: 70
Period size: 19 Copynumber: 2.5 Consensus size: 21
11098890 ATATATATTT
11098900 ATATATATATTAAATAA-ATAA
1 ATATAT-TATTAAATAATATAA
11098921 ATATATT-TTAAATAATATAA
1 ATATATTATTAAATAATATAA
11098941 A-ATATTATT
1 ATATATTATT
11098950 TTAGAATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 13 0.48
20 8 0.30
21 6 0.22
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
ATATATTATTAAATAATATAA
Found at i:11098946 original size:19 final size:19
Alignment explanation
Indices: 11098902--11098957 Score: 67
Period size: 19 Copynumber: 2.7 Consensus size: 19
11098892 ATATATTTAT
*
11098902 ATATATATTAAATAAATAA
1 ATATATTTTAAATAAATAA
11098921 ATATATTTTAAATAATATAAA
1 ATATATTTTAAATAA-AT-AA
11098942 ATATTATTTTAGAATA
1 ATA-TATTTTA-AATA
11098958 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 14 0.44
20 2 0.06
21 5 0.16
22 7 0.22
23 4 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (19 bp):
ATATATTTTAAATAAATAA
Found at i:11098949 original size:22 final size:22
Alignment explanation
Indices: 11098900--11098965 Score: 68
Period size: 22 Copynumber: 3.1 Consensus size: 22
11098890 ATATATATTT
*
11098900 ATATATATATTAAATAA-AT-AA
1 ATAT-TATTTTAAATAATATAAA
11098921 ATA-TATTTTAAATAATATAAA
1 ATATTATTTTAAATAATATAAA
*
11098942 ATATTATTTTAGAAT-ATTTAAA
1 ATATTATTTTA-AATAATATAAA
11098964 AT
1 AT
11098966 TAATATATAT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
19 11 0.28
20 2 0.05
21 8 0.21
22 15 0.38
23 3 0.08
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATTATTTTAAATAATATAAA
Found at i:11098981 original size:32 final size:30
Alignment explanation
Indices: 11098918--11099025 Score: 76
Period size: 30 Copynumber: 3.5 Consensus size: 30
11098908 ATTAAATAAA
* *
11098918 TAAATATATTTTAAA-TAATATAAAATATTATTT
1 TAAA-ATA-TTTAAATTAATAT-ATATTTTA-TT
*
11098951 TAGAATATTTAAAATTAATATATATTTTATT
1 TAAAATATTT-AAATTAATATATATTTTATT
* * * *
11098982 TAAAAAATGTATATTAATATATA-TTTATA
1 TAAAATATTTAAATTAATATATATTTTATT
*
11099011 AAAAATTATTTAAAT
1 TAAAA-TATTTAAAT
11099026 ATCAAAATAA
Statistics
Matches: 60, Mismatches: 12, Indels: 9
0.74 0.15 0.11
Matches are distributed among these distances:
29 9 0.15
30 18 0.30
31 12 0.20
32 12 0.20
33 9 0.15
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (30 bp):
TAAAATATTTAAATTAATATATATTTTATT
Found at i:11098996 original size:20 final size:21
Alignment explanation
Indices: 11098956--11098996 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
11098946 TATTTTAGAA
11098956 TATTTAAAATTAATATATATTT
1 TATTTAAAA-TAATATATATTT
*
11098978 TATTTAAAA-AATGTATATT
1 TATTTAAAATAATATATATT
11098997 AATATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (21 bp):
TATTTAAAATAATATATATTT
Found at i:11099026 original size:26 final size:29
Alignment explanation
Indices: 11098964--11099027 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 29
11098954 AATATTTAAA
11098964 ATTAATATATATTTTATTTAAAAAATGTAT
1 ATTAATATATATTTTA-TTAAAAAATGTAT
11098994 ATTAATATATA-TTTA-TAAAAAAT-TAT
1 ATTAATATATATTTTATTAAAAAATGTAT
11099020 -TTAA-ATAT
1 ATTAATATAT
11099028 CAAAATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
24 4 0.12
25 4 0.12
26 3 0.09
27 8 0.24
29 4 0.12
30 11 0.32
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (29 bp):
ATTAATATATATTTTATTAAAAAATGTAT
Found at i:11099447 original size:8 final size:8
Alignment explanation
Indices: 11099427--11099467 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
11099417 TATTATTTTT
11099427 TAAA-ATA
1 TAAATATA
*
11099434 TAAATATT
1 TAAATATA
11099442 TAAATATA
1 TAAATATA
*
11099450 TAATTATA
1 TAAATATA
11099458 TAAATATA
1 TAAATATA
11099466 TA
1 TA
11099468 TAAATAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
7 4 0.14
8 25 0.86
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TAAATATA
Found at i:11099473 original size:26 final size:24
Alignment explanation
Indices: 11099431--11099482 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
11099421 ATTTTTTAAA
* *
11099431 ATATAAATATTTAAATATATAATT
1 ATATAAATATTTAAATAAAAAATT
11099455 ATATAAATATATATAAATAAAAAATT
1 ATATAAATAT-T-TAAATAAAAAATT
11099481 AT
1 AT
11099483 TTTAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 10 0.42
25 1 0.04
26 13 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATATAAATATTTAAATAAAAAATT
Found at i:11099500 original size:14 final size:13
Alignment explanation
Indices: 11099472--11099498 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11099462 TATATATAAA
11099472 TAAAAAATTATTT
1 TAAAAAATTATTT
11099485 TAAAAAATTATTT
1 TAAAAAATTATTT
11099498 T
1 T
11099499 TATATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TAAAAAATTATTT
Found at i:11099811 original size:20 final size:20
Alignment explanation
Indices: 11099758--11099815 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
11099748 TATAAAATAT
*
11099758 AATTTTTTAATTTTATTAAAC
1 AATTTATTAATTTT-TTAAAC
11099779 TAATTTA-TAATTTTTTAAA-
1 -AATTTATTAATTTTTTAAAC
11099798 AATTTATTATATTTTTTA
1 AATTTATTA-ATTTTTTA
11099816 TTTATATTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
18 6 0.18
19 2 0.06
20 13 0.39
21 7 0.21
22 5 0.15
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
AATTTATTAATTTTTTAAAC
Found at i:11110927 original size:21 final size:22
Alignment explanation
Indices: 11110886--11110931 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
11110876 AATTTAAAAT
* *
11110886 TTTAATAAAAATTATATATAAA
1 TTTAATAAAAATAATAAATAAA
11110908 TTTAAT-AAAATAATAAATAAA
1 TTTAATAAAAATAATAAATAAA
11110929 TTT
1 TTT
11110932 TTTATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (22 bp):
TTTAATAAAAATAATAAATAAA
Found at i:11110975 original size:18 final size:20
Alignment explanation
Indices: 11110954--11111001 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
11110944 TCTATATGAA
11110954 ATATAATATA-TAA-ATTTT
1 ATATAATATATTAATATTTT
11110972 ATATAA-ATTATTAATATTTT
1 ATATAATA-TATTAATATTTT
*
11110992 ATATTATATA
1 ATATAATATA
11111002 AAAAATACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 1 0.04
18 8 0.32
19 3 0.12
20 12 0.48
21 1 0.04
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATATAATATATTAATATTTT
Found at i:11112206 original size:2 final size:2
Alignment explanation
Indices: 11112199--11112241 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
11112189 TGTAACAATC
11112199 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11112241 A
1 A
11112242 AGCCAGGTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11118858 original size:12 final size:12
Alignment explanation
Indices: 11118841--11118867 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11118831 ACACAAAAAT
11118841 AATTTTATTTAA
1 AATTTTATTTAA
11118853 AATTTTATTTAA
1 AATTTTATTTAA
11118865 AAT
1 AAT
11118868 CATACAAAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTTTATTTAA
Found at i:11118936 original size:12 final size:12
Alignment explanation
Indices: 11118919--11118963 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
11118909 TTTTATGTCA
11118919 ATATAAATTATT
1 ATATAAATTATT
11118931 ATATAAAATTATT
1 ATAT-AAATTATT
* * *
11118944 GTATAAAATATA
1 ATATAAATTATT
11118956 ATATAAAT
1 ATATAAAT
11118964 ATATAAAAGT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
12 16 0.59
13 11 0.41
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
ATATAAATTATT
Found at i:11118941 original size:13 final size:13
Alignment explanation
Indices: 11118919--11118962 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
11118909 TTTTATGTCA
11118919 ATAT-AAATTATT
1 ATATAAAATTATT
11118931 ATATAAAATTATT
1 ATATAAAATTATT
* *
11118944 GTATAAAA-TATA
1 ATATAAAATTATT
11118956 ATATAAA
1 ATATAAA
11118963 TATATAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
12 13 0.46
13 15 0.54
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (13 bp):
ATATAAAATTATT
Found at i:11118967 original size:13 final size:12
Alignment explanation
Indices: 11118918--11118969 Score: 50
Period size: 13 Copynumber: 4.2 Consensus size: 12
11118908 TTTTTATGTC
*
11118918 AATATAAATTAT
1 AATATAAAATAT
*
11118930 TATATAAAATTAT
1 AATATAAAA-TAT
**
11118943 TGTATAAAATAT
1 AATATAAAATAT
11118955 AATATAAATATAT
1 AATATAAA-ATAT
11118968 AA
1 AA
11118970 AAGTATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
12 16 0.48
13 17 0.52
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (12 bp):
AATATAAAATAT
Found at i:11123222 original size:2 final size:2
Alignment explanation
Indices: 11123217--11123242 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11123207 CTCCACACAA
11123217 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
11123243 CACTCCAAGA
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:11126392 original size:16 final size:19
Alignment explanation
Indices: 11126350--11126388 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
11126340 AATATTTTAC
11126350 ATATAA-TAATTATAATAT
1 ATATAATTAATTATAATAT
11126368 ATATAATTAATTATAAT-T
1 ATATAATTAATTATAATAT
11126386 ATA
1 ATA
11126389 ATTATATAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAATTAATTATAATAT
Found at i:11126856 original size:33 final size:33
Alignment explanation
Indices: 11126800--11126897 Score: 92
Period size: 34 Copynumber: 2.9 Consensus size: 33
11126790 ATATTCACTC
* **
11126800 TTTTAAATAAATCAAAACCCTTTTTGAAAAAAAA
1 TTTTAAA-AAATCATAATACTTTTTGAAAAAAAA
* *
11126834 TTTTAAAAAATCATAATAC-TTTTCAAAAATACA
1 TTTTAAAAAATCATAATACTTTTTGAAAAA-AAA
* *
11126867 TTTCTAAAAACTCATAATA-TTTTTGGAAAAA
1 TTT-TAAAAAATCATAATACTTTTTGAAAAAA
11126898 CTTTTTCGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
32 9 0.17
33 15 0.28
34 29 0.55
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (33 bp):
TTTTAAAAAATCATAATACTTTTTGAAAAAAAA
Found at i:11127563 original size:32 final size:33
Alignment explanation
Indices: 11127515--11127576 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
11127505 TATAAAAATG
11127515 TTATGATTTTTCGAAAATGTATTTTGAAAAGTA
1 TTATGATTTTTCGAAAATGTATTTTGAAAAGTA
* *
11127548 TTAT-ATTTTTTGAAAATTTATTTTGAAAA
1 TTATGATTTTTCGAAAATGTATTTTGAAAA
11127577 ATTATAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.37, C:0.02, G:0.11, T:0.50
Consensus pattern (33 bp):
TTATGATTTTTCGAAAATGTATTTTGAAAAGTA
Found at i:11128330 original size:59 final size:58
Alignment explanation
Indices: 11128204--11128331 Score: 134
Period size: 59 Copynumber: 2.2 Consensus size: 58
11128194 TTAAAATATA
* * *
11128204 AAAAATT-AATTAAATTTATGAGCTAAAATTAAATATAATAATATTTAAATTTAATTT
1 AAAAATTAAATTAAATTTATGAACTAAAATTAAATATAATAATAATTAAATTGAATTT
** * * * * *
11128261 ATTTAA-TAAATTAAATTATTTGAATTTAAATTTAATTTAATAATAATTAAATTGAATTT
1 A-AAAATTAAATTAAATT-TATGAACTAAAATTAAATATAATAATAATTAAATTGAATTT
11128320 AAAAATTAAATT
1 AAAAATTAAATT
11128332 TTAAATAATT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
57 2 0.04
58 13 0.24
59 40 0.73
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.45
Consensus pattern (58 bp):
AAAAATTAAATTAAATTTATGAACTAAAATTAAATATAATAATAATTAAATTGAATTT
Found at i:11129336 original size:6 final size:6
Alignment explanation
Indices: 11129314--11129373 Score: 58
Period size: 6 Copynumber: 10.7 Consensus size: 6
11129304 ATTTTTTAAT
*
11129314 TATTT- TATTTA -ATTTTA TATTTA TA--TA TA-TTA TATATA TATTTA
1 TATTTA TATTTA TA-TTTA TATTTA TATTTA TATTTA TATTTA TATTTA
*
11129358 AATTTA TATTTA TATT
1 TATTTA TATTTA TATT
11129374 AAAAATAATA
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
4 4 0.09
5 10 0.22
6 31 0.67
7 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TATTTA
Found at i:11129366 original size:18 final size:18
Alignment explanation
Indices: 11129314--11129396 Score: 75
Period size: 18 Copynumber: 4.8 Consensus size: 18
11129304 ATTTTTTAAT
*
11129314 TATTT-TATTTAATTTTA
1 TATTTATATTTAAATTTA
*
11129331 TATTTATA--TATA-TTA
1 TATTTATATTTAAATTTA
*
11129346 TATATATATTTAAATTTA
1 TATTTATATTTAAATTTA
* * *
11129364 TATTTATATTAAAAATAA
1 TATTTATATTTAAATTTA
11129382 TATTTTATATTTAAA
1 TA-TTTATATTTAAA
11129397 AAATAATATT
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
15 10 0.19
16 2 0.04
17 8 0.15
18 21 0.40
19 11 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TATTTATATTTAAATTTA
Found at i:11129421 original size:21 final size:20
Alignment explanation
Indices: 11129325--11129410 Score: 79
Period size: 21 Copynumber: 4.3 Consensus size: 20
11129315 ATTTTATTTA
* * *
11129325 ATTTTATATTTATATATATT
1 ATTTTATATTTAAAAATAAT
* * *
11129345 ATATATATATTT-AAATTTAT
1 AT-TTTATATTTAAAAATAAT
11129365 A-TTTATA-TTAAAAATAAT
1 ATTTTATATTTAAAAATAAT
11129383 ATTTTATATTTAAAAAATAAT
1 ATTTTATATTT-AAAAATAAT
11129404 ATTTTAT
1 ATTTTAT
11129411 TAATTTTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
17 2 0.04
18 12 0.23
19 6 0.12
20 8 0.15
21 24 0.46
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (20 bp):
ATTTTATATTTAAAAATAAT
Found at i:11129586 original size:3 final size:3
Alignment explanation
Indices: 11129578--11129606 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11129568 ATTTTTTAAT
11129578 TTA TTA TTA TTA TTA TT- TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11129607 ATGTCTTAAA
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:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:11131072 original size:22 final size:23
Alignment explanation
Indices: 11131036--11131084 Score: 73
Period size: 22 Copynumber: 2.2 Consensus size: 23
11131026 TGAGAATAGA
*
11131036 AAAAGTTATAATTTATATGTATT
1 AAAAGTTATAATTTATATATATT
*
11131059 AAAATTTA-AATTTATATATATT
1 AAAAGTTATAATTTATATATATT
11131081 AAAA
1 AAAA
11131085 ATCATTTCGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 17 0.71
23 7 0.29
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (23 bp):
AAAAGTTATAATTTATATATATT
Found at i:11136404 original size:13 final size:13
Alignment explanation
Indices: 11136388--11136426 Score: 60
Period size: 13 Copynumber: 2.9 Consensus size: 13
11136378 AATTATTAAA
11136388 TAAAAATCAAAAT
1 TAAAAATCAAAAT
11136401 TAAAAATCAAAAT
1 TAAAAATCAAAAT
*
11136414 TGAAAAATTAAAA
1 T-AAAAATCAAAA
11136427 AATTAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
13 14 0.58
14 10 0.42
ACGTcount: A:0.69, C:0.05, G:0.03, T:0.23
Consensus pattern (13 bp):
TAAAAATCAAAAT
Found at i:11136663 original size:17 final size:17
Alignment explanation
Indices: 11136632--11136665 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11136622 TATTTATTTG
**
11136632 AATTTTTTATTAAAATT
1 AATTTTTTAAAAAAATT
11136649 AATTTTTTAAAAAAATT
1 AATTTTTTAAAAAAATT
11136666 CACAAATTTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTTTTTAAAAAAATT
Found at i:11137742 original size:3 final size:3
Alignment explanation
Indices: 11137734--11137791 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
11137724 AATATATAGT
11137734 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11137782 ATA ATA ATA A
1 ATA ATA ATA A
11137792 CAAAAAGACG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11138112 original size:18 final size:20
Alignment explanation
Indices: 11138089--11138133 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
11138079 TTAGATTAAA
*
11138089 AAAATTA-TAAAATCAA-AT
1 AAAATTATTAAAATAAATAT
*
11138107 AAAATTATTATAATAAATAT
1 AAAATTATTAAAATAAATAT
11138127 AAAATTA
1 AAAATTA
11138134 AAATATATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 7 0.30
19 7 0.30
20 9 0.39
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAATTATTAAAATAAATAT
Found at i:11140774 original size:45 final size:45
Alignment explanation
Indices: 11140710--11140796 Score: 165
Period size: 45 Copynumber: 1.9 Consensus size: 45
11140700 GGGGATCGGA
*
11140710 TAAATGAGAGCAACCAGCTCATATTATATGCTGGAAATAGTCAGC
1 TAAATGAGAGCAACCAGCTCATATTATATGCTAGAAATAGTCAGC
11140755 TAAATGAGAGCAACCAGCTCATATTATATGCTAGAAATAGTC
1 TAAATGAGAGCAACCAGCTCATATTATATGCTAGAAATAGTC
11140797 GAAGAGCAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.25
Consensus pattern (45 bp):
TAAATGAGAGCAACCAGCTCATATTATATGCTAGAAATAGTCAGC
Found at i:11142430 original size:26 final size:25
Alignment explanation
Indices: 11142373--11142445 Score: 69
Period size: 26 Copynumber: 3.0 Consensus size: 25
11142363 GTTCAATTAA
* * *
11142373 ATTAAACGAACTTATTTATG-A-AT
1 ATTAAATGAACATATTTACGAACAT
* *
11142396 ATTAAATGAATATGTTTACGAACAT
1 ATTAAATGAACATATTTACGAACAT
*
11142421 ATATAAATGAACATATTTATGAACA
1 AT-TAAATGAACATATTTACGAACA
11142446 ATAAACAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
23 15 0.38
24 1 0.03
25 4 0.10
26 19 0.49
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.36
Consensus pattern (25 bp):
ATTAAATGAACATATTTACGAACAT
Found at i:11142481 original size:14 final size:15
Alignment explanation
Indices: 11142462--11142490 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
11142452 AAATCATAAT
11142462 CAAATAAA-TTTAAA
1 CAAATAAACTTTAAA
11142476 CAAATAAACTTTAAA
1 CAAATAAACTTTAAA
11142491 TAAACATATA
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:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (15 bp):
CAAATAAACTTTAAA
Found at i:11146706 original size:39 final size:39
Alignment explanation
Indices: 11146662--11146741 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
11146652 ACACTTCCCA
*
11146662 AACTCCCTTTCATGTCCAAAACATCAAACCAAATCCTCC
1 AACTCCCTTTCAAGTCCAAAACATCAAACCAAATCCTCC
*
11146701 AACTCCCTTTCAAGTCCAAAACATCCAACCAAATCCTCC
1 AACTCCCTTTCAAGTCCAAAACATCAAACCAAATCCTCC
11146740 AA
1 AA
11146742 GCCCGAAGTC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.38, C:0.39, G:0.03, T:0.21
Consensus pattern (39 bp):
AACTCCCTTTCAAGTCCAAAACATCAAACCAAATCCTCC
Done.