Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 28 of 113
Found at i:9465710 original size:23 final size:25
Alignment explanation
Indices: 9465680--9465730 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
9465670 GAAAAATAAG
9465680 AAAAAAAA-GAAA-AAAG-ATGATGA
1 AAAAAAAAGGAAAGAAAGAATGA-GA
9465703 AAAAAAAAGGAAAGAAAGAATGAGA
1 AAAAAAAAGGAAAGAAAGAATGAGA
9465728 AAA
1 AAA
9465731 TGGAAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 8 0.32
24 4 0.16
25 9 0.36
26 4 0.16
ACGTcount: A:0.75, C:0.00, G:0.20, T:0.06
Consensus pattern (25 bp):
AAAAAAAAGGAAAGAAAGAATGAGA
Found at i:9466856 original size:22 final size:22
Alignment explanation
Indices: 9466831--9466885 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
9466821 ATGTTTTGAT
9466831 TGAGAATTTTTGAGAACTC-AAA
1 TGAGAATTTTTGA-AACTCAAAA
* **
9466853 TGAGAATCTATTGAATTTCAAAA
1 TGAGAAT-TTTTGAAACTCAAAA
9466876 TGAGAATTTT
1 TGAGAATTTT
9466886 GAGGAGTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.36
Consensus pattern (22 bp):
TGAGAATTTTTGAAACTCAAAA
Found at i:9467494 original size:41 final size:41
Alignment explanation
Indices: 9467439--9467718 Score: 364
Period size: 41 Copynumber: 6.7 Consensus size: 41
9467429 ACTTTTTCTA
* *
9467439 AAAGTCATGGTGCCTTTGTTTAGAGGAGCAATTTACTTTCC
1 AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCC
*
9467480 AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTTTCA
1 AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTAC--TTTCC
*
9467523 AAAGT-ATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCC
1 AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCC
* *
9467563 AAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTC
1 AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCC
*
9467604 AAAGTCGTGGTGTCTCTGTTTAGAGGAGCAATTTACTTTCTC
1 AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTC-C
* * * *
9467646 AAAAGTCGTGGTACCTCTGTTTAGAGGAACAATTTATTTTGTTC
1 -AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTA-CTT-TCC
* * **
9467690 AAAGTCATTGAACCTCTGTTTAGAGGAGC
1 AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
9467719 TTTGGTAAAA
Statistics
Matches: 212, Mismatches: 20, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
40 9 0.04
41 103 0.49
42 30 0.14
43 66 0.31
44 3 0.01
45 1 0.00
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (41 bp):
AAAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCC
Found at i:9467545 original size:83 final size:83
Alignment explanation
Indices: 9467419--9467718 Score: 442
Period size: 83 Copynumber: 3.6 Consensus size: 83
9467409 TGATTGTCAG
* *
9467419 GGAGCGATTTACTTTTTCTAAAAGTCATGGTGCCTTTGTTTAGAGGAGCAATTTACTTTCCAAAG
1 GGAGCAATTTACTTTTTC--AAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAG
*
9467484 TCGTGGTGCCTCTGTTTAGA
64 TCGTGGTACCTCTGTTTAGA
9467504 GGAGCAATTTACTTTTTCAAAAGT-ATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
1 GGAGCAATTTACTTTTTC-AAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGT
9467568 CGTGGTACCTCTGTTTAGA
65 CGTGGTACCTCTGTTTAGA
* *
9467587 GGAGCAATTTAC-TTTTCAAAGTCGTGGTGTCTCTGTTTAGAGGAGCAATTTACTTTCTCAAAAG
1 GGAGCAATTTACTTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTC-C-AAAG
9467651 TCGTGGTACCTCTGTTTAGA
64 TCGTGGTACCTCTGTTTAGA
* * * **
9467671 GGAACAATTTATTTTGTTCAAAGTCATTGAACCTCTGTTTAGAGGAGC
1 GGAGCAATTTACTTT-TTCAAAGTCATGGTGCCTCTGTTTAGAGGAGC
9467719 TTTGGTAAAA
Statistics
Matches: 198, Mismatches: 12, Indels: 9
0.90 0.05 0.04
Matches are distributed among these distances:
81 5 0.03
82 37 0.19
83 70 0.35
84 40 0.20
85 19 0.10
86 27 0.14
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (83 bp):
GGAGCAATTTACTTTTTCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTC
GTGGTACCTCTGTTTAGA
Found at i:9467593 original size:124 final size:127
Alignment explanation
Indices: 9467439--9467718 Score: 422
Period size: 124 Copynumber: 2.2 Consensus size: 127
9467429 ACTTTTTCTA
* *
9467439 AAAGTCATGGTGCCTTTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
1 AAAGTCATGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
* * *
9467504 GGAGCAATTTACTTTTTCAAAAGT-ATGGTGCCTCTGTTTAGAGGAGCAATTTA-CTT-TCC
66 GGAGCAATTTACTTTCTCAAAAGTCATGGTACCTCTGTTTAGAGGAACAATTTATCTTGTCC
* * *
9467563 AAAGTCGTGGTACCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGTCTCTGTTTAGA
1 AAAGTCATGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
* * *
9467628 GGAGCAATTTACTTTCTCAAAAGTCGTGGTACCTCTGTTTAGAGGAACAATTTATTTTGTTC
66 GGAGCAATTTACTTTCTCAAAAGTCATGGTACCTCTGTTTAGAGGAACAATTTATCTTGTCC
* *
9467690 AAAGTCATTGAACCTCTGTTTAGAGGAGC
1 AAAGTCATGGTACCTCTGTTTAGAGGAGC
9467719 TTTGGTAAAA
Statistics
Matches: 139, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
124 83 0.60
125 26 0.19
126 2 0.01
127 28 0.20
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (127 bp):
AAAGTCATGGTACCTCTGTTTAGAGGAGCAATTTACTTTCCAAAGTCGTGGTGCCTCTGTTTAGA
GGAGCAATTTACTTTCTCAAAAGTCATGGTACCTCTGTTTAGAGGAACAATTTATCTTGTCC
Found at i:9467780 original size:12 final size:11
Alignment explanation
Indices: 9467726--9467791 Score: 53
Period size: 12 Copynumber: 5.5 Consensus size: 11
9467716 AGCTTTGGTA
*
9467726 AAAAAAAAAAA
1 AAAAAAAAAAC
9467737 AATTAAAAAAAAC
1 AA--AAAAAAAAC
9467750 AAAAGCAAAGCAAA-
1 AAAA--AAA--AAAC
9467764 AAAAAAAAAAC
1 AAAAAAAAAAC
9467775 ACAAAAAAAAAC
1 A-AAAAAAAAAC
9467787 AAAAA
1 AAAAA
9467792 TGAAAATGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 16
0.73 0.02 0.25
Matches are distributed among these distances:
10 3 0.07
11 9 0.20
12 14 0.30
13 13 0.28
14 4 0.09
15 3 0.07
ACGTcount: A:0.85, C:0.09, G:0.03, T:0.03
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:9467782 original size:10 final size:10
Alignment explanation
Indices: 9467725--9467791 Score: 50
Period size: 10 Copynumber: 6.5 Consensus size: 10
9467715 GAGCTTTGGT
9467725 AAAAAAAAA-
1 AAAAAAAAAC
9467734 AAAAATTAAAA-
1 AAAAA--AAAAC
*
9467745 AAAACAAAAGC
1 AAAA-AAAAAC
9467756 AAAGCAAAAAA-
1 AAA--AAAAAAC
*
9467767 AAAAAAACAC
1 AAAAAAAAAC
9467777 AAAAAAAAAC
1 AAAAAAAAAC
9467787 AAAAA
1 AAAAA
9467792 TGAAAATGTT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
9 10 0.21
10 17 0.36
11 14 0.30
12 5 0.11
13 1 0.02
ACGTcount: A:0.85, C:0.09, G:0.03, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:9468017 original size:12 final size:12
Alignment explanation
Indices: 9468002--9468119 Score: 81
Period size: 12 Copynumber: 9.9 Consensus size: 12
9467992 TTATTGTATT
9468002 TATTATTATTTA
1 TATTATTATTTA
9468014 TATTATT-TTGTA
1 TATTATTATT-TA
*
9468026 T-TTATATCTTTA
1 TATTAT-TATTTA
9468038 T-TTATTTATTTA
1 TATTA-TTATTTA
9468050 TTATTA-TATTTA
1 -TATTATTATTTA
9468062 TATGTATTTATTTA
1 TAT-TA-TTATTTA
*
9468076 TA-TAGTTATATA
1 TATTA-TTATTTA
9468088 T-TTATTA-TTA
1 TATTATTATTTA
*
9468098 TATTATAATTTA
1 TATTATTATTTA
*
9468110 T-GTATTATTT
1 TATTATTATTT
9468120 TTTTTGGTAT
Statistics
Matches: 87, Mismatches: 7, Indels: 25
0.73 0.06 0.21
Matches are distributed among these distances:
10 3 0.03
11 24 0.28
12 45 0.52
13 4 0.05
14 11 0.13
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (12 bp):
TATTATTATTTA
Found at i:9468024 original size:26 final size:26
Alignment explanation
Indices: 9467995--9468119 Score: 89
Period size: 26 Copynumber: 4.7 Consensus size: 26
9467985 TTGTATTTTA
9467995 TTGTATTTATTATTATTTATATTATT
1 TTGTATTTATTATTATTTATATTATT
*
9468021 TTGTATTTA-TA-TCTTTAT-TTATT
1 TTGTATTTATTATTATTTATATTATT
*
9468044 TATTTA-TTATTA-TATTTATATGTATT
1 T-TGTATTTATTATTATTTATAT-TATT
* * *
9468070 TATTTATATAGTTATATATTTATTATTATA
1 T-TGTATTTA-TTAT-TATTTA-TATTATT
*
9468100 TTATAATTTATGTATTATTT
1 TTGT-ATTTAT-TATTATTT
9468120 TTTTTGGTAT
Statistics
Matches: 81, Mismatches: 7, Indels: 19
0.76 0.07 0.18
Matches are distributed among these distances:
23 9 0.11
24 17 0.21
25 3 0.04
26 19 0.23
27 2 0.02
28 3 0.04
29 8 0.10
30 17 0.21
31 3 0.04
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.66
Consensus pattern (26 bp):
TTGTATTTATTATTATTTATATTATT
Found at i:9468057 original size:42 final size:43
Alignment explanation
Indices: 9467991--9468104 Score: 135
Period size: 42 Copynumber: 2.7 Consensus size: 43
9467981 TCTTTTGTAT
* *
9467991 TTTATTGTATTTA-TTATTATTTATATTAT-TTTGTATTTATATC
1 TTTATT-TATTTATTTATTA-TTATATTATATATGTATTTATATA
*
9468034 TTTATTTATTTATTTATTATTATATT-TATATGTATTTATTTA
1 TTTATTTATTTATTTATTATTATATTATATATGTATTTATATA
* * *
9468076 TATAGTTATATATTTATTATTATATTATA
1 TTTATTTATTTATTTATTATTATATTATA
9468105 ATTTATGTAT
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
41 1 0.02
42 47 0.76
43 14 0.23
ACGTcount: A:0.30, C:0.01, G:0.04, T:0.66
Consensus pattern (43 bp):
TTTATTTATTTATTTATTATTATATTATATATGTATTTATATA
Found at i:9468074 original size:46 final size:46
Alignment explanation
Indices: 9467991--9468119 Score: 126
Period size: 46 Copynumber: 2.8 Consensus size: 46
9467981 TCTTTTGTAT
**
9467991 TTTATTGTATTTATTA-T-TATTTATAT-TATTTTGTATTTATATCTTTA
1 TTTATT-TATTTATTATTATATTTATATGTA--TT-TATTTATATAGTTA
9468038 TTTATTTATTTATTATTATATTTATATGTATTTATTTATATAGTTA
1 TTTATTTATTTATTATTATATTTATATGTATTTATTTATATAGTTA
* *
9468084 TATATTTA-TTATTATATTATAATT-TATGTA-TTATTT
1 TTTATTTATTTA-T-TATTATATTTATATGTATTTATTT
9468120 TTTTTGGTAT
Statistics
Matches: 73, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
45 9 0.12
46 35 0.48
47 18 0.25
48 9 0.12
49 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (46 bp):
TTTATTTATTTATTATTATATTTATATGTATTTATTTATATAGTTA
Found at i:9468079 original size:16 final size:15
Alignment explanation
Indices: 9467991--9468103 Score: 90
Period size: 16 Copynumber: 7.3 Consensus size: 15
9467981 TCTTTTGTAT
*
9467991 TTTATTGTATTTATTA
1 TTTATT-TATATATTA
9468007 -TTATTTATATTATT-
1 TTTATTTATA-TATTA
*
9468021 TTGTATTTATATCTTTA
1 TT-TATTTATAT-ATTA
*
9468038 TTTATTTATTTATTA
1 TTTATTTATATATTA
*
9468053 TTATATTTATAT-GTA
1 TT-TATTTATATATTA
9468068 TTTATTTATATAGTTA
1 TTTATTTATATA-TTA
*
9468084 TATATTTAT-TATTA
1 TTTATTTATATATTA
9468098 TATTAT
1 T-TTAT
9468104 AATTTATGTA
Statistics
Matches: 79, Mismatches: 9, Indels: 19
0.74 0.08 0.18
Matches are distributed among these distances:
14 16 0.20
15 25 0.32
16 36 0.46
17 2 0.03
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (15 bp):
TTTATTTATATATTA
Found at i:9469057 original size:16 final size:15
Alignment explanation
Indices: 9469033--9469091 Score: 52
Period size: 14 Copynumber: 4.0 Consensus size: 15
9469023 CCGCTCCAGG
*
9469033 TTTTTT-TTTTTGAA
1 TTTTTTATTTTTTAA
*
9469047 TTTTTTATTTTTTAT
1 TTTTTTATTTTTTAA
9469062 TTATTTTATTTATTT-A
1 TT-TTTTATTT-TTTAA
*
9469078 -TTTTTATTTATTAA
1 TTTTTTATTTTTTAA
9469092 ATTAGGTTTA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
13 2 0.05
14 15 0.41
15 9 0.24
16 8 0.22
17 3 0.08
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (15 bp):
TTTTTTATTTTTTAA
Found at i:9469066 original size:4 final size:4
Alignment explanation
Indices: 9469046--9469089 Score: 51
Period size: 4 Copynumber: 11.8 Consensus size: 4
9469036 TTTTTTTTGA
9469046 ATTT -TTT ATTT -TTT ATTT ATTTT ATTT ATTT A-TT -TTT ATTT ATT
1 ATTT ATTT ATTT ATTT ATTT A-TTT ATTT ATTT ATTT ATTT ATTT ATT
9469090 AAATTAGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
3 10 0.29
4 21 0.60
5 4 0.11
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (4 bp):
ATTT
Found at i:9469072 original size:23 final size:23
Alignment explanation
Indices: 9469046--9469089 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
9469036 TTTTTTTTGA
9469046 ATTT-TTTATTTTTTATTTATTTT
1 ATTTATTTA-TTTTTATTTATTTT
9469069 ATTTATTTATTTTTATTTATT
1 ATTTATTTATTTTTATTTATT
9469090 AAATTAGGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (23 bp):
ATTTATTTATTTTTATTTATTTT
Found at i:9469133 original size:17 final size:18
Alignment explanation
Indices: 9469111--9469150 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
9469101 AGTTAATATT
9469111 TTTTTATCTTTATTTTA-
1 TTTTTATCTTTATTTTAC
* *
9469128 TTTTTATTTTTGTTTTAC
1 TTTTTATCTTTATTTTAC
9469146 TTTTT
1 TTTTT
9469151 TATTCAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (18 bp):
TTTTTATCTTTATTTTAC
Found at i:9469322 original size:124 final size:123
Alignment explanation
Indices: 9469174--9469403 Score: 347
Period size: 124 Copynumber: 1.9 Consensus size: 123
9469164 TAAATAAAAA
*
9469174 TAAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAATAAAATTTAAAA
1 TAAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAT-AAATTTAAAA
* * *
9469238 AAAAAAGATTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTT
65 AAAAAACA--ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTT
*
9469299 TAAAAAAATAT-TTTTTGAGGAAAAGTTGAAAGTATCTATTTTCCTTAAAAAATAAATTTAAAAA
1 TAAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTAAAAA
* * *
9469363 AAAATCAATTTTTGGGGAAAAGTTGAAAGTGTCAATTTTTC
66 AAAAACAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTC
9469404 CTGCACAAGA
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
122 30 0.31
124 49 0.51
125 17 0.18
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (123 bp):
TAAAAAAATATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAATAAATTTAAAAA
AAAAACAATTTTTGAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTT
Found at i:9469334 original size:61 final size:59
Alignment explanation
Indices: 9469175--9469401 Score: 274
Period size: 61 Copynumber: 3.7 Consensus size: 59
9469165 AAATAAAAAT
*
9469175 AAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTAAAA
1 AAAAAAATAT-TTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAATAAAATTT--AA
* * * **
9469238 AAAAAAGATTTTTTTTTAGGAAAAGTTGAAAGTATCAATTTTTCTTGAAAATCAAAATTTTT
1 AAAAAA-ATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAAAT-AAAATTTAA
* *
9469300 AAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCTATTTTCCTTAAAAAATAAATTTAA
1 AAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATA-AAATTTAA
* * *
9469360 AAAAAAATCAATTTTTGGGGAAAAGTTGAAAGTGTCAATTTT
1 AAAAAAAT-ATTTTTTGAGGAAAAGTTGAAAGTATCAATTTT
9469402 TCCTGCACAA
Statistics
Matches: 142, Mismatches: 18, Indels: 10
0.84 0.11 0.06
Matches are distributed among these distances:
59 1 0.01
60 18 0.13
61 64 0.45
62 6 0.04
63 43 0.30
64 10 0.07
ACGTcount: A:0.46, C:0.05, G:0.12, T:0.37
Consensus pattern (59 bp):
AAAAAAATATTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAATTTAA
Found at i:9471396 original size:16 final size:15
Alignment explanation
Indices: 9471377--9471482 Score: 63
Period size: 15 Copynumber: 6.8 Consensus size: 15
9471367 TTGTTTTAGA
9471377 GTTTTAGGGTTTCAAG
1 GTTTTAGGGTTTC-AG
* *
9471393 GTTTT-GGGTTTTAT
1 GTTTTAGGGTTTCAG
*
9471407 GTTTATAAGGTTTCAAG
1 GTTT-TAGGGTTTC-AG
**
9471424 TGTCATAGGGTTT-AG
1 -GTTTTAGGGTTTCAG
* *
9471439 GCTTTTAGAGTTTCAT
1 G-TTTTAGGGTTTCAG
*
9471455 GTTTTAAGGTTTCGAG
1 GTTTTAGGGTTTC-AG
*
9471471 GTTTTAAGGTTT
1 GTTTTAGGGTTT
9471483 TAGGGTTTAA
Statistics
Matches: 68, Mismatches: 15, Indels: 14
0.70 0.15 0.14
Matches are distributed among these distances:
14 6 0.09
15 27 0.40
16 25 0.37
17 8 0.12
18 2 0.03
ACGTcount: A:0.19, C:0.06, G:0.27, T:0.48
Consensus pattern (15 bp):
GTTTTAGGGTTTCAG
Found at i:9471480 original size:8 final size:8
Alignment explanation
Indices: 9471455--9471524 Score: 50
Period size: 8 Copynumber: 8.6 Consensus size: 8
9471445 AGAGTTTCAT
9471455 GTTTTAAG
1 GTTTTAAG
**
9471463 GTTTCGAG
1 GTTTTAAG
9471471 GTTTTAAG
1 GTTTTAAG
*
9471479 GTTTTAGG
1 GTTTTAAG
* *
9471487 GTTTAAAAT
1 GTTT-TAAG
* *
9471496 TTTTTAGG
1 GTTTTAAG
*
9471504 GTTTTGAG
1 GTTTTAAG
*
9471512 GTTTTATG
1 GTTTTAAG
9471520 GTTTT
1 GTTTT
9471525 CTAATTTTTT
Statistics
Matches: 44, Mismatches: 17, Indels: 2
0.70 0.27 0.03
Matches are distributed among these distances:
8 40 0.91
9 4 0.09
ACGTcount: A:0.19, C:0.01, G:0.27, T:0.53
Consensus pattern (8 bp):
GTTTTAAG
Found at i:9471489 original size:16 final size:16
Alignment explanation
Indices: 9471455--9471524 Score: 61
Period size: 16 Copynumber: 4.3 Consensus size: 16
9471445 AGAGTTTCAT
*
9471455 GTTTTAAGG-TTTCGAG
1 GTTTTAAGGTTTTAG-G
9471471 GTTTTAAGGTTTTAGG
1 GTTTTAAGGTTTTAGG
* **
9471487 GTTTAAAATTTTTTAGG
1 GTTT-TAAGGTTTTAGG
* *
9471504 GTTTTGAGGTTTTATG
1 GTTTTAAGGTTTTAGG
9471520 GTTTT
1 GTTTT
9471525 CTAATTTTTT
Statistics
Matches: 43, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
16 26 0.60
17 17 0.40
ACGTcount: A:0.19, C:0.01, G:0.27, T:0.53
Consensus pattern (16 bp):
GTTTTAAGGTTTTAGG
Found at i:9471989 original size:42 final size:42
Alignment explanation
Indices: 9471930--9472016 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
9471920 TAATTTTTTG
* *
9471930 AAACATAATTTAAATTTCCTGTAATATCTAGGCAATGTTTCA
1 AAACATAATTTAAATTTCCTGTAACATCTAGGCAAGGTTTCA
* *
9471972 AAACATAATTTAAATTTCCTTTAACATCTAGGTAAGGTTTCA
1 AAACATAATTTAAATTTCCTGTAACATCTAGGCAAGGTTTCA
9472014 AAA
1 AAA
9472017 ATCATTTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.40, C:0.14, G:0.09, T:0.37
Consensus pattern (42 bp):
AAACATAATTTAAATTTCCTGTAACATCTAGGCAAGGTTTCA
Found at i:9474542 original size:35 final size:35
Alignment explanation
Indices: 9474503--9474588 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
9474493 GATTGAGTCG
* * *
9474503 TGAGTCAAAGTATAAAAACAATTGGGATTGAACCA
1 TGAGTCAAAGAATAAAAACAACTGGGACTGAACCA
* **
9474538 TGAGTCGAAGAATAAAAATGACTGGGACTGAACCA
1 TGAGTCAAAGAATAAAAACAACTGGGACTGAACCA
* *
9474573 TAAGTCAAAAAATAAA
1 TGAGTCAAAGAATAAA
9474589 TATAGCGAAT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
35 42 1.00
ACGTcount: A:0.49, C:0.12, G:0.20, T:0.20
Consensus pattern (35 bp):
TGAGTCAAAGAATAAAAACAACTGGGACTGAACCA
Found at i:9474866 original size:70 final size:69
Alignment explanation
Indices: 9474657--9475005 Score: 168
Period size: 70 Copynumber: 5.0 Consensus size: 69
9474647 CGACTGGAAC
* * *
9474657 TAAATCGCAA-TTCAAAAAA-ATAAAATGATCAAGACTAAGCTACAAGTCAGAAAATGAAAATGA
1 TAAATCGCAAGTT-AAAAAATA-AAAATGATCAAGACTAAACTGCAAGTCA-AAAATAAAAATGA
*
9474720 -TCAGGAT
63 CTGA-GAT
* * * * * * *** * * * ** *
9474727 TGAATTGCGAGTTGAAGAATAAAGATGATTGTGACTAAATTGTAAGTAAAGAAATAAAAACAACC
1 TAAATCGCAAGTTAAAAAATAAAAATGATCAAGACTAAACTGCAAGTCAA-AAATAAAAATGACT
9474792 GAGAT
65 GAGAT
*
9474797 TAAATCGCAAGTTAAAAAATAAAAATGATCAAGACAAAACTGCAAGTCAACAAATAAAAATGACT
1 TAAATCGCAAGTTAAAAAATAAAAATGATCAAGACTAAACTGCAAGTCAA-AAATAAAAATGACT
9474862 GAGAT
65 GAGAT
* * * * ** * *** * * * *
9474867 TGAACCACAAGTCAGGAACTAAAAATGATTGGGACCAAGCTGCAAGTTAGGAAATAAAAATGA-T
1 TAAATCGCAAGTTAAAAAATAAAAATGATCAAGACTAAACTGCAAGTCA-AAAATAAAAATGACT
*
9474931 CAAGAT
65 -GAGAT
* * *** * * * * *
9474937 TGAGTTATAAGTTAAAAAATAAAAACGA-CTAAAATTAAACCGCAAGTCAAAAAATAAATATGAC
1 TAAATCGCAAGTTAAAAAATAAAAATGATC-AAGACTAAACTGCAAGTC-AAAAATAAAAATGAC
9475001 TGAGA
64 TGAGA
9475006 CTAAGTCACA
Statistics
Matches: 198, Mismatches: 72, Indels: 18
0.69 0.25 0.06
Matches are distributed among these distances:
69 2 0.01
70 190 0.96
71 6 0.03
ACGTcount: A:0.51, C:0.11, G:0.17, T:0.21
Consensus pattern (69 bp):
TAAATCGCAAGTTAAAAAATAAAAATGATCAAGACTAAACTGCAAGTCAAAAATAAAAATGACTG
AGAT
Found at i:9476434 original size:23 final size:23
Alignment explanation
Indices: 9476404--9476450 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
9476394 TTTGGGCTTG
9476404 GATGTCAGTTAATCTGAGCTTAA
1 GATGTCAGTTAATCTGAGCTTAA
9476427 GATGTCAGTTAATCTGAGCTTAA
1 GATGTCAGTTAATCTGAGCTTAA
9476450 G
1 G
9476451 GTGCTAACTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (23 bp):
GATGTCAGTTAATCTGAGCTTAA
Found at i:9476484 original size:23 final size:23
Alignment explanation
Indices: 9476406--9476540 Score: 89
Period size: 23 Copynumber: 5.9 Consensus size: 23
9476396 TGGGCTTGGA
* *
9476406 TGTCAGTTAATCTGAGCTTAAGA
1 TGTCAGCTAATCTGAGCTTAAGG
*
9476429 TGTCAGTTAATCTGAGCTTAAGG
1 TGTCAGCTAATCTGAGCTTAAGG
* *
9476452 TG-CTAACTAATCTG-GACTTTAGG
1 TGTC-AGCTAATCTGAG-CTTAAGG
* **
9476475 TGTCAGCTAATTTTG-GCTTAAAA
1 TGTCAGCTAA-TCTGAGCTTAAGG
* *
9476498 TATCAGCTAAAT-TGAGCTTAAAG
1 TGTCAGCT-AATCTGAGCTTAAGG
* * *
9476521 TGCCAGCTAAACTGGGCTTA
1 TGTCAGCTAATCTGAGCTTA
9476541 TAATTTGGAT
Statistics
Matches: 90, Mismatches: 15, Indels: 14
0.76 0.13 0.12
Matches are distributed among these distances:
22 6 0.07
23 77 0.86
24 7 0.08
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.33
Consensus pattern (23 bp):
TGTCAGCTAATCTGAGCTTAAGG
Found at i:9476582 original size:22 final size:23
Alignment explanation
Indices: 9476436--9476604 Score: 76
Period size: 23 Copynumber: 7.1 Consensus size: 23
9476426 AGATGTCAGT
* * *
9476436 TAATCTGAGCTTAAGGTGCTAAC
1 TAATCTGGGCTTAAAGTGCTAGC
* * *
9476459 TAATCTGGACTTTAGGTG-TCAGC
1 TAATCTGGGCTTAAAGTGCT-AGC
* * * *
9476482 TAATTTTGGCTTAAAAT-ATCAGC
1 TAATCTGGGCTTAAAGTGCT-AGC
* *
9476505 TAAAT-TGAGCTTAAAGTGCCAGC
1 T-AATCTGGGCTTAAAGTGCTAGC
* *
9476528 TAAACTGGGCTTATAATTTGGATGCCAGC
1 TAATCTGGGCTTA-AA----G-TGCTAGC
*
9476557 TAATCTGGGCTT-GAGTGCTAGC
1 TAATCTGGGCTTAAAGTGCTAGC
* *
9476579 TAATTTGGGTTTAAAGTGCTAGC
1 TAATCTGGGCTTAAAGTGCTAGC
9476602 TAA
1 TAA
9476605 ATTGGACTCA
Statistics
Matches: 111, Mismatches: 23, Indels: 24
0.70 0.15 0.15
Matches are distributed among these distances:
22 19 0.17
23 67 0.60
24 5 0.05
27 1 0.01
28 1 0.01
29 18 0.16
ACGTcount: A:0.28, C:0.15, G:0.23, T:0.33
Consensus pattern (23 bp):
TAATCTGGGCTTAAAGTGCTAGC
Found at i:9476617 original size:23 final size:23
Alignment explanation
Indices: 9476570--9476618 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
9476560 TCTGGGCTTG
* ** *
9476570 AGTGCTAGCTAATTTGGGTTTAA
1 AGTGCTAGCTAAATTGGACTCAA
9476593 AGTGCTAGCTAAATTGGACTCAA
1 AGTGCTAGCTAAATTGGACTCAA
9476616 AGT
1 AGT
9476619 TTAAGTGTCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (23 bp):
AGTGCTAGCTAAATTGGACTCAA
Found at i:9478848 original size:12 final size:12
Alignment explanation
Indices: 9478833--9478886 Score: 54
Period size: 12 Copynumber: 4.1 Consensus size: 12
9478823 TTTTAATTCC
9478833 AATTTTAGTTTT
1 AATTTTAGTTTT
*
9478845 AATTTTGGTTTTT
1 AATTTTAG-TTTT
9478858 ATTTGATTTTAGTTTT
1 A----ATTTTAGTTTT
9478874 AATTTTAGTTTT
1 AATTTTAGTTTT
9478886 A
1 A
9478887 TTATTCTTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 10
0.74 0.04 0.21
Matches are distributed among these distances:
12 19 0.54
13 5 0.14
16 5 0.14
17 6 0.17
ACGTcount: A:0.22, C:0.00, G:0.11, T:0.67
Consensus pattern (12 bp):
AATTTTAGTTTT
Found at i:9479211 original size:118 final size:118
Alignment explanation
Indices: 9479003--9479241 Score: 469
Period size: 118 Copynumber: 2.0 Consensus size: 118
9478993 AATTAATAGC
9479003 ACAATCAAATCAAATCACAAAGAATCATAGAAAATCAAATCAATAATTGGTTTGATTTAGTTTCT
1 ACAATCAAATCAAATCACAAAGAATCATAGAAAATCAAATCAATAATTGGTTTGATTTAGTTTCT
9479068 AGATTTGAAAGGGATTAAATCACTATAAGAATAGAATCAACCACGAAGAAAAG
66 AGATTTGAAAGGGATTAAATCACTATAAGAATAGAATCAACCACGAAGAAAAG
*
9479121 ACAATCAAATGAAATCACAAAGAATCATAGAAAATCAAATCAATAATTGGTTTGATTTAGTTTCT
1 ACAATCAAATCAAATCACAAAGAATCATAGAAAATCAAATCAATAATTGGTTTGATTTAGTTTCT
9479186 AGATTTGAAAGGGATTAAATCACTATAAGAATAGAATCAACCACGAAGAAAAG
66 AGATTTGAAAGGGATTAAATCACTATAAGAATAGAATCAACCACGAAGAAAAG
9479239 ACA
1 ACA
9479242 CACACAGACA
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
118 120 1.00
ACGTcount: A:0.49, C:0.13, G:0.14, T:0.25
Consensus pattern (118 bp):
ACAATCAAATCAAATCACAAAGAATCATAGAAAATCAAATCAATAATTGGTTTGATTTAGTTTCT
AGATTTGAAAGGGATTAAATCACTATAAGAATAGAATCAACCACGAAGAAAAG
Found at i:9480094 original size:2 final size:2
Alignment explanation
Indices: 9480087--9480111 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9480077 ATCATGTTTT
9480087 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
9480112 TTATGATTGT
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:9480187 original size:18 final size:22
Alignment explanation
Indices: 9480163--9480214 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 22
9480153 TATGATAATA
9480163 ATTGCATGATATAT-TA-TA-T
1 ATTGCATGATATATATATTATT
9480182 -TTGCATGATAT-TATATTATT
1 ATTGCATGATATATATATTATT
9480202 ATTGCATGATATA
1 ATTGCATGATATA
9480215 ATTTATATGA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
17 1 0.04
18 13 0.46
19 2 0.07
20 1 0.04
21 11 0.39
ACGTcount: A:0.35, C:0.06, G:0.12, T:0.48
Consensus pattern (22 bp):
ATTGCATGATATATATATTATT
Found at i:9480311 original size:14 final size:14
Alignment explanation
Indices: 9480292--9480322 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
9480282 TCTTTGAAAC
9480292 TTTAAAAAAATATT
1 TTTAAAAAAATATT
*
9480306 TTTAAAAAAATGTT
1 TTTAAAAAAATATT
9480320 TTT
1 TTT
9480323 CCATCCTACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (14 bp):
TTTAAAAAAATATT
Found at i:9482937 original size:16 final size:17
Alignment explanation
Indices: 9482913--9482945 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
9482903 GCTAAAATTG
9482913 AAAGTGATTAAAAGTTT
1 AAAGTGATTAAAAGTTT
*
9482930 AAAG-GATTCAAAGTTT
1 AAAGTGATTAAAAGTTT
9482946 GAACATAAGA
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:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (17 bp):
AAAGTGATTAAAAGTTT
Found at i:9484220 original size:45 final size:45
Alignment explanation
Indices: 9484129--9484220 Score: 107
Period size: 45 Copynumber: 2.0 Consensus size: 45
9484119 GTTACAAATC
* * **
9484129 TTTTTTGTTTAGGTGCAATTAGCCACCTAATTAAATCTGTTTCAT
1 TTTTTTGTTTAGGTACAATTAGCCACCTAATTAAATATGTCCCAT
*
9484174 TTTTTTGTTTCA-GTACAATTTA-CCACCTAATTGAATATGTCCCAT
1 TTTTTTGTTT-AGGTACAA-TTAGCCACCTAATTAAATATGTCCCAT
9484219 TT
1 TT
9484221 AAAAGATAAG
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 36 0.90
46 4 0.10
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (45 bp):
TTTTTTGTTTAGGTACAATTAGCCACCTAATTAAATATGTCCCAT
Found at i:9490909 original size:2 final size:2
Alignment explanation
Indices: 9490904--9490952 Score: 80
Period size: 2 Copynumber: 24.5 Consensus size: 2
9490894 TGTGCGTGTG
* *
9490904 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9490946 TA TA TA T
1 TA TA TA T
9490953 TTATTTATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:9500598 original size:89 final size:89
Alignment explanation
Indices: 9500442--9500619 Score: 288
Period size: 88 Copynumber: 2.0 Consensus size: 89
9500432 ACAGAACGAT
* *
9500442 ATTTATATGGATCAGCCTAAGCGTTTTGAAATAAAAAGAAAAGAACACTTAGTTTTCAAATTGAA
1 ATTTATATGGATCAGCCTAAGCGTTTTGAAATAAAAAGAAAAGAACACTTAGTTTGCAAACTGAA
9500507 AAAAAGTTTGTATGGCTTGAAATA
66 AAAAAGTTTGTATGGCTTGAAATA
* * *
9500531 ATTTATATGGATTAGCCTGAG-GATTTTGAAAT-GAAAGAAAAGAACACTTAGTTTGCAAACTGA
1 ATTTATATGGATCAGCCTAAGCG-TTTTGAAATAAAAAGAAAAGAACACTTAGTTTGCAAACTGA
9500594 AAAAAAGTTTGTATGGCTTGAAATA
65 AAAAAAGTTTGTATGGCTTGAAATA
9500619 A
1 A
9500620 GTTTTGCAAT
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
88 55 0.66
89 28 0.34
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (89 bp):
ATTTATATGGATCAGCCTAAGCGTTTTGAAATAAAAAGAAAAGAACACTTAGTTTGCAAACTGAA
AAAAAGTTTGTATGGCTTGAAATA
Found at i:9502423 original size:11 final size:11
Alignment explanation
Indices: 9502407--9502448 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
9502397 ATCCCATAAA
9502407 AGATTTGTTTG
1 AGATTTGTTTG
**
9502418 AGATTTGTTAA
1 AGATTTGTTTG
9502429 AGATTTGTTTG
1 AGATTTGTTTG
*
9502440 AAATTTGTT
1 AGATTTGTT
9502449 AGATATTGCT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:9502432 original size:22 final size:22
Alignment explanation
Indices: 9502405--9502449 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
9502395 AAATCCCATA
*
9502405 AAAGATTTGTTTGAGATTTGTT
1 AAAGATTTGTTTGAAATTTGTT
9502427 AAAGATTTGTTTGAAATTTGTT
1 AAAGATTTGTTTGAAATTTGTT
9502449 A
1 A
9502450 GATATTGCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (22 bp):
AAAGATTTGTTTGAAATTTGTT
Found at i:9502560 original size:52 final size:51
Alignment explanation
Indices: 9502472--9502627 Score: 213
Period size: 52 Copynumber: 3.0 Consensus size: 51
9502462 TGGACAAGAA
* *
9502472 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGA-GATTCTTAATAGGCAAGTTT
*
9502524 GACTTGCAAGAGAAGAATTCTAAAAGGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGA-GAAAGAGATTCTTAATAGGCAAGTTT
* * * * * *
9502576 AACTTACAGGAGAAGAATTCTAAGAGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGATTCTTAATAGGCAAGTTT
9502627 G
1 G
9502628 TATGGTTATA
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
51 23 0.25
52 63 0.68
53 6 0.07
ACGTcount: A:0.40, C:0.09, G:0.25, T:0.26
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:9502764 original size:18 final size:18
Alignment explanation
Indices: 9502741--9502777 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9502731 TTCTACGTCT
*
9502741 TATGGGTGTGTATGTTTG
1 TATGGGTGTGTATATTTG
9502759 TATGGGTGTGTATATTTG
1 TATGGGTGTGTATATTTG
9502777 T
1 T
9502778 TTGTGAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (18 bp):
TATGGGTGTGTATATTTG
Found at i:9503168 original size:31 final size:31
Alignment explanation
Indices: 9503130--9503214 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
9503120 AGGCTTTTAG
* *
9503130 CCCAACAAATGGTATTAGAGCTGTGGTGATC
1 CCCAACAAGTGGTATTAGAGCTGTGATGATC
* * *
9503161 CCCAACAAGTGGTATTAGAACTGTGATGTTT
1 CCCAACAAGTGGTATTAGAGCTGTGATGATC
* *
9503192 CCCAACAAGTGATATCAGAGCTG
1 CCCAACAAGTGGTATTAGAGCTG
9503215 AATGTTCGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (31 bp):
CCCAACAAGTGGTATTAGAGCTGTGATGATC
Found at i:9503516 original size:11 final size:11
Alignment explanation
Indices: 9503500--9503539 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
9503490 AATCTCATAA
9503500 GAGATTTGTTT
1 GAGATTTGTTT
*
9503511 GAGATTTGTTA
1 GAGATTTGTTT
*
9503522 AAGATTTGTTT
1 GAGATTTGTTT
*
9503533 GAAATTT
1 GAGATTT
9503540 ATTAGATAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:9503654 original size:52 final size:51
Alignment explanation
Indices: 9503566--9503721 Score: 204
Period size: 52 Copynumber: 3.0 Consensus size: 51
9503556 TGGACAAGAA
* *
9503566 GACTTGCAAAAGAAGAATTCTACGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGA-GATTCTTAATAGGTAAGTTT
*
9503618 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGAGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCT-AAGAGAAAGAGATTCTTAATAGGTAAGTTT
* * * * * * *
9503670 AACTTACAAGAGAAAAATTCTAAGAGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGATTCTTAATAGGTAAGTTT
9503721 G
1 G
9503722 TATGGTTATA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
51 25 0.27
52 58 0.64
53 8 0.09
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGATTCTTAATAGGTAAGTTT
Found at i:9503858 original size:18 final size:18
Alignment explanation
Indices: 9503835--9503871 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
9503825 TTTTACGTCT
9503835 TATGGGTGTGTATATTTG
1 TATGGGTGTGTATATTTG
*
9503853 TATGGGTGTGTATGTTTG
1 TATGGGTGTGTATATTTG
9503871 T
1 T
9503872 TTGTGAGTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.14, C:0.00, G:0.35, T:0.51
Consensus pattern (18 bp):
TATGGGTGTGTATATTTG
Found at i:9504262 original size:31 final size:31
Alignment explanation
Indices: 9504224--9504308 Score: 107
Period size: 31 Copynumber: 2.7 Consensus size: 31
9504214 AGGCTTTTAG
* *
9504224 CCCAACAAATGGTATCAGAGCTGTGGTGATC
1 CCCAACAAGTGGTATCAGAGCTGTGATGATC
* * * *
9504255 CCCAACAAGTGGTATTAGAACTGTGATGTTT
1 CCCAACAAGTGGTATCAGAGCTGTGATGATC
*
9504286 CCCAACAAGTGATATCAGAGCTG
1 CCCAACAAGTGGTATCAGAGCTG
9504309 AATGTTCGAA
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (31 bp):
CCCAACAAGTGGTATCAGAGCTGTGATGATC
Found at i:9504611 original size:11 final size:11
Alignment explanation
Indices: 9504595--9504637 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
9504585 AATCTCATAA
9504595 GAGATTTGTTT
1 GAGATTTGTTT
*
9504606 GAGATTTGTTA
1 GAGATTTGTTT
*
9504617 AAGATTTGTTT
1 GAGATTTGTTT
*
9504628 GAAATTTGTT
1 GAGATTTGTT
9504638 AGATATTGCT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:9504623 original size:22 final size:22
Alignment explanation
Indices: 9504596--9504638 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
9504586 ATCTCATAAG
*
9504596 AGATTTGTTTGAGATTTGTTAA
1 AGATTTGTTTGAAATTTGTTAA
9504618 AGATTTGTTTGAAATTTGTTA
1 AGATTTGTTTGAAATTTGTTA
9504639 GATATTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.51
Consensus pattern (22 bp):
AGATTTGTTTGAAATTTGTTAA
Found at i:9504749 original size:52 final size:51
Alignment explanation
Indices: 9504661--9504816 Score: 204
Period size: 52 Copynumber: 3.0 Consensus size: 51
9504651 TGGACAAGAA
* *
9504661 GACTTGCAAAAGAAGAATTCTAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGA-GATTCTTAATAGGCAAGTTT
*
9504713 GACTTGCAAGAGAAGAATTCTAAAAAGAAAGAGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCT-AAGAGAAAGAGATTCTTAATAGGCAAGTTT
* * * * * * *
9504765 AACTTACAGGAGAAAAATTCTAAGAGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGATTCTTAATAGGCAAGTTT
9504816 G
1 G
9504817 TATGGTTATA
Statistics
Matches: 91, Mismatches: 12, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
51 26 0.29
52 56 0.62
53 9 0.10
ACGTcount: A:0.42, C:0.09, G:0.24, T:0.26
Consensus pattern (51 bp):
GACTTGCAAGAGAAGAATTCTAAGAGAAAGAGATTCTTAATAGGCAAGTTT
Found at i:9506356 original size:32 final size:33
Alignment explanation
Indices: 9506315--9506380 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
9506305 ATATATAATC
* *
9506315 AATTATCTCTTTATACGTGAATT-ATCTAAAAA
1 AATTATCTCTTTACACGTGAATTAATCCAAAAA
*
9506347 AATTATCTCTTTACATGTGAATTAATCCAAAAA
1 AATTATCTCTTTACACGTGAATTAATCCAAAAA
9506380 A
1 A
9506381 TTCAACAGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 21 0.70
33 9 0.30
ACGTcount: A:0.42, C:0.14, G:0.06, T:0.38
Consensus pattern (33 bp):
AATTATCTCTTTACACGTGAATTAATCCAAAAA
Found at i:9507180 original size:2 final size:2
Alignment explanation
Indices: 9507173--9507198 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9507163 ATCAGCATTA
9507173 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
9507199 TATTGACTTG
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:9507232 original size:83 final size:82
Alignment explanation
Indices: 9507098--9507258 Score: 268
Period size: 83 Copynumber: 2.0 Consensus size: 82
9507088 AATGAATCTT
* * *
9507098 TATATATATATATATATATATTGATTTGAACATTTCAAAGCTGGAAGTCTGAGGATTTATCAACT
1 TATATATATATATATATATATTGACTTGAACATTTCAAAGCTGGAAGTCTGACGATCTATCAACT
*
9507163 ATCAGCATTAATATATA
66 ATCAGCATCAATATATA
*
9507180 TATATATATATATATATATTATTGACTTGGACATTTCAAAGCTGGAAGTCTGACGATCTATCAAC
1 TATATATATATATATATA-TATTGACTTGAACATTTCAAAGCTGGAAGTCTGACGATCTATCAAC
9507245 TATCAGCATCAATA
65 TATCAGCATCAATA
9507259 CCAAAATTTT
Statistics
Matches: 73, Mismatches: 5, Indels: 1
0.92 0.06 0.01
Matches are distributed among these distances:
82 18 0.25
83 55 0.75
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.37
Consensus pattern (82 bp):
TATATATATATATATATATATTGACTTGAACATTTCAAAGCTGGAAGTCTGACGATCTATCAACT
ATCAGCATCAATATATA
Found at i:9509390 original size:21 final size:23
Alignment explanation
Indices: 9509365--9509413 Score: 75
Period size: 21 Copynumber: 2.2 Consensus size: 23
9509355 ACCTTGACCC
*
9509365 AGAAAAGTGACC-T-TCTTGATA
1 AGAAAAGTGACCTTATCTTGACA
9509386 AGAAAAGTGACCTTATCTTGACA
1 AGAAAAGTGACCTTATCTTGACA
9509409 AGAAA
1 AGAAA
9509414 TAGGATTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 12 0.48
22 1 0.04
23 12 0.48
ACGTcount: A:0.43, C:0.14, G:0.18, T:0.24
Consensus pattern (23 bp):
AGAAAAGTGACCTTATCTTGACA
Found at i:9511003 original size:24 final size:26
Alignment explanation
Indices: 9510951--9511008 Score: 84
Period size: 24 Copynumber: 2.3 Consensus size: 26
9510941 CAAATTTTAA
* *
9510951 AAAAATTTGTCATCTATGAATTTTTT
1 AAAAATTTGTCATCTATGAAATTTCT
9510977 AAAAATTTGTCAT-T-TGAAATTTCT
1 AAAAATTTGTCATCTATGAAATTTCT
9511001 AAAAATTT
1 AAAAATTT
9511009 TATCATAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 16 0.53
25 1 0.03
26 13 0.43
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.47
Consensus pattern (26 bp):
AAAAATTTGTCATCTATGAAATTTCT
Found at i:9511573 original size:16 final size:17
Alignment explanation
Indices: 9511533--9511576 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
9511523 CGAAATCTAG
*
9511533 ATTTCTTCACCAGAAAC
1 ATTTCATCACCAGAAAC
9511550 GATATTCATCACCAGAAAC
1 -AT-TTCATCACCAGAAAC
9511569 -TTTCATCA
1 ATTTCATCA
9511577 AAATCTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 7 0.29
17 1 0.04
18 2 0.08
19 14 0.58
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (17 bp):
ATTTCATCACCAGAAAC
Found at i:9515924 original size:3 final size:3
Alignment explanation
Indices: 9515916--9515944 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9515906 TTCCACTATG
9515916 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
9515945 CATGTTTGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:9517095 original size:21 final size:21
Alignment explanation
Indices: 9517070--9517115 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
9517060 ATTTTGTGAG
9517070 TTTTTTTT-TTCTTGATGTTTA
1 TTTTTTTTCTTCTTG-TGTTTA
* *
9517091 TTTTTTTTCTTGTTGTTTTTA
1 TTTTTTTTCTTCTTGTGTTTA
9517112 TTTT
1 TTTT
9517116 AAGTTTTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.07, C:0.04, G:0.09, T:0.80
Consensus pattern (21 bp):
TTTTTTTTCTTCTTGTGTTTA
Found at i:9517115 original size:19 final size:18
Alignment explanation
Indices: 9517070--9517115 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
9517060 ATTTTGTGAG
9517070 TTTTTTTTTTCTTGATGT
1 TTTTTTTTTTCTTGATGT
*
9517088 TTATTTTTTTTCTTGTTGT
1 TT-TTTTTTTTCTTGATGT
*
9517107 TTTTATTTT
1 TTTTTTTTT
9517116 AAGTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.32
19 17 0.68
ACGTcount: A:0.07, C:0.04, G:0.09, T:0.80
Consensus pattern (18 bp):
TTTTTTTTTTCTTGATGT
Found at i:9520730 original size:30 final size:30
Alignment explanation
Indices: 9520694--9520750 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
9520684 AAGAGTATGT
9520694 ATATATAGTTATTATTACAATTTTAAACCC
1 ATATATAGTTATTATTACAATTTTAAACCC
* * *
9520724 ATATATATTTATTGTTATAATTTTAAA
1 ATATATAGTTATTATTACAATTTTAAA
9520751 TTGTGTCACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATATAGTTATTATTACAATTTTAAACCC
Found at i:9523057 original size:40 final size:40
Alignment explanation
Indices: 9523002--9523081 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
9522992 GTCAATAAAG
9523002 CTTTTATTAATCATTTAGAAAATCACATAGCAGTTAACAT
1 CTTTTATTAATCATTTAGAAAATCACATAGCAGTTAACAT
9523042 CTTTTATTAATCATTTAGAAAATCACATAGCAGTTAACAT
1 CTTTTATTAATCATTTAGAAAATCACATAGCAGTTAACAT
9523082 ACACCTTATC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.15, G:0.07, T:0.38
Consensus pattern (40 bp):
CTTTTATTAATCATTTAGAAAATCACATAGCAGTTAACAT
Found at i:9526989 original size:3 final size:3
Alignment explanation
Indices: 9526981--9527096 Score: 58
Period size: 3 Copynumber: 42.3 Consensus size: 3
9526971 TTAGTTTGTA
* *
9526981 TAT TAT TA- TAT TA- TAT TA- TCT TAT TA- TAT TAT ATAG TA- TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* ** * *
9527022 TA- TAT TAG TAT TGC TAT TAT TAT TAT TA- TAT CA- TAT CA- TAT TA-
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
9527065 TAT TAT T-T TAT T-T TAT TTT TAT TAT TTT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
9527097 TTCTTTCTTT
Statistics
Matches: 83, Mismatches: 17, Indels: 26
0.66 0.13 0.21
Matches are distributed among these distances:
2 21 0.25
3 60 0.72
4 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:9526994 original size:5 final size:5
Alignment explanation
Indices: 9526984--9527089 Score: 69
Period size: 5 Copynumber: 21.2 Consensus size: 5
9526974 GTTTGTATAT
* *
9526984 TATTA TATTA TATTA T-CT- TATTA TATTA TATAGTA TATTA TATTA GTATTGC
1 TATTA TATTA TATTA TATTA TATTA TATTA TAT--TA TATTA TATTA -TATT-A
* * * * *
9527036 TA-T- TATTA TTATTA TATCA TATCA TATTA TATTA TTTTA TTTTA T-TTT
1 TATTA TATTA -TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
9527084 TATTA T
1 TATTA T
9527090 TTTTATTTTC
Statistics
Matches: 83, Mismatches: 8, Indels: 20
0.75 0.07 0.18
Matches are distributed among these distances:
3 3 0.04
4 6 0.07
5 58 0.70
6 11 0.13
7 5 0.06
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:9527006 original size:18 final size:18
Alignment explanation
Indices: 9526983--9527081 Score: 76
Period size: 18 Copynumber: 5.3 Consensus size: 18
9526973 AGTTTGTATA
9526983 TTATTATATTATATTATC
1 TTATTATATTATATTATC
9527001 TTATTATATTATA-TAGT-
1 TTATTATATTATATTA-TC
* * *
9527018 ATATTATATTAGTATTGCTA
1 TTATTATATTA-TATT-ATC
9527038 TTATTATTATTATATCATATC
1 TTATTA-TATTATAT--TATC
* * *
9527059 ATATTATATTATTTTATT
1 TTATTATATTATATTATC
9527077 TTATT
1 TTATT
9527082 TTTATTATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
17 12 0.19
18 23 0.36
19 2 0.03
20 15 0.23
21 11 0.17
22 1 0.02
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (18 bp):
TTATTATATTATATTATC
Found at i:9527107 original size:15 final size:14
Alignment explanation
Indices: 9527075--9527116 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
9527065 TATTATTTTA
*
9527075 TTTTATTTTTATTAT
1 TTTTATTTTT-TTCT
9527090 TTTTATTTTCTTTCT
1 TTTTATTTT-TTTCT
9527105 TTTT-TTTTTTTC
1 TTTTATTTTTTTC
9527117 GATTTCTGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 4 0.16
14 4 0.16
15 16 0.64
16 1 0.04
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTATTTTTTTCT
Found at i:9527958 original size:10 final size:10
Alignment explanation
Indices: 9527885--9527959 Score: 57
Period size: 10 Copynumber: 7.5 Consensus size: 10
9527875 TGAACACAAG
*
9527885 TTTTTTTTTG
1 TTTTTTTTTA
9527895 TTTTTTTTTA
1 TTTTTTTTTA
*
9527905 --TTTTTTGA
1 TTTTTTTTTA
*
9527913 TTTTATTTTA
1 TTTTTTTTTA
9527923 TTTTATTTTTA
1 TTTT-TTTTTA
* *
9527934 -TTTTCTTAA
1 TTTTTTTTTA
9527943 GTTTTTTTTTTA
1 --TTTTTTTTTA
9527955 TTTTT
1 TTTTT
9527960 AGTTTTGTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 12
0.70 0.13 0.17
Matches are distributed among these distances:
8 7 0.14
9 4 0.08
10 27 0.54
11 5 0.10
12 7 0.14
ACGTcount: A:0.12, C:0.01, G:0.04, T:0.83
Consensus pattern (10 bp):
TTTTTTTTTA
Found at i:9530195 original size:6 final size:6
Alignment explanation
Indices: 9530180--9530274 Score: 54
Period size: 7 Copynumber: 15.2 Consensus size: 6
9530170 CTCGATCCAG
* *
9530180 ATTTTT -TTTTT ATTTTTT GATTTTT GATTTTT GATTTTG ATTTTG A-TTTT
1 ATTTTT ATTTTT A-TTTTT -ATTTTT -ATTTTT -ATTTTT ATTTTT ATTTTT
* *
9530230 ATTTTG ATTTCATT AATTTT A-TTTT -TTTTT ATTCTCTT ATTTTT A
1 ATTTTT ATTT--TT ATTTTT ATTTTT ATTTTT ATT-T-TT ATTTTT A
9530275 GTATTTAATT
Statistics
Matches: 74, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
5 17 0.23
6 22 0.30
7 25 0.34
8 10 0.14
ACGTcount: A:0.17, C:0.03, G:0.06, T:0.74
Consensus pattern (6 bp):
ATTTTT
Found at i:9530210 original size:20 final size:20
Alignment explanation
Indices: 9530187--9530256 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
9530177 CAGATTTTTT
9530187 TTTTATTTTTTGATTTTTGA
1 TTTTATTTTTTGATTTTTGA
*
9530207 TTTT-TGATTTTGA-TTTTGA
1 TTTTAT-TTTTTGATTTTTGA
*
9530226 TTTTA--TTTTGATTTCATTAA
1 TTTTATTTTTTGATTT--TTGA
9530246 TTTTATTTTTT
1 TTTTATTTTTT
9530257 TTTATTCTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
17 6 0.15
18 2 0.05
19 11 0.27
20 18 0.44
22 4 0.10
ACGTcount: A:0.17, C:0.01, G:0.09, T:0.73
Consensus pattern (20 bp):
TTTTATTTTTTGATTTTTGA
Found at i:9530225 original size:12 final size:12
Alignment explanation
Indices: 9530194--9530239 Score: 67
Period size: 11 Copynumber: 3.8 Consensus size: 12
9530184 TTTTTTTATT
9530194 TTTTGATTTTTGA
1 TTTTGA-TTTTGA
9530207 TTTTTGATTTTGA
1 -TTTTGATTTTGA
9530220 TTTTGATTTT-A
1 TTTTGATTTTGA
9530231 TTTTGATTT
1 TTTTGATTT
9530240 CATTAATTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
11 10 0.31
12 10 0.31
13 6 0.19
14 6 0.19
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (12 bp):
TTTTGATTTTGA
Found at i:9530273 original size:24 final size:25
Alignment explanation
Indices: 9530219--9530274 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
9530209 TTTGATTTTG
*
9530219 ATTTTGATTTTATTTTGATTTCATT
1 ATTTTTATTTTATTTTGATTTCATT
* *
9530244 AATTTTATTTT-TTTTTATTCTC-TT
1 ATTTTTATTTTATTTTGATT-TCATT
9530268 ATTTTTA
1 ATTTTTA
9530275 GTATTTAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 15 0.58
25 11 0.42
ACGTcount: A:0.20, C:0.05, G:0.04, T:0.71
Consensus pattern (25 bp):
ATTTTTATTTTATTTTGATTTCATT
Found at i:9532876 original size:2 final size:2
Alignment explanation
Indices: 9532869--9532900 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
9532859 TATTGGCTTA
9532869 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
9532901 ATATATATAT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:9532905 original size:2 final size:2
Alignment explanation
Indices: 9532900--9532925 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9532890 TCTCTCTCTC
9532900 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
9532926 AACGTGTTAT
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:9539115 original size:11 final size:11
Alignment explanation
Indices: 9539099--9539126 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
9539089 CCAACCAAAG
9539099 TATTTTGACAA
1 TATTTTGACAA
9539110 TATTTTGACAA
1 TATTTTGACAA
9539121 TATTTT
1 TATTTT
9539127 TTCCCAAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.32, C:0.07, G:0.07, T:0.54
Consensus pattern (11 bp):
TATTTTGACAA
Found at i:9544421 original size:22 final size:22
Alignment explanation
Indices: 9544363--9544430 Score: 68
Period size: 22 Copynumber: 3.0 Consensus size: 22
9544353 TTTCTTTTTC
* * *
9544363 AAATAATATTAATATAACTATT
1 AAATAATATTAAAATTATTATT
9544385 -AA-AATATTAAAAAATTATTATT
1 AAATAATATT--AAAATTATTATT
9544407 AAATAATATTAAAATTATTTATT
1 AAATAATATTAAAATTA-TTATT
9544430 A
1 A
9544431 CTAAAATTAG
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 6 0.16
21 2 0.05
22 16 0.42
23 8 0.21
24 6 0.16
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATAATATTAAAATTATTATT
Found at i:9544439 original size:22 final size:22
Alignment explanation
Indices: 9544395--9544439 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
9544385 AAAATATTAA
*
9544395 AAAATTATTATTAAATAATATT
1 AAAATTATTATTAAATAAAATT
*
9544417 AAAATTATTTATT-ACTAAAATT
1 AAAATTA-TTATTAAATAAAATT
9544439 A
1 A
9544440 GTAATATTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATTATTATTAAATAAAATT
Found at i:9550716 original size:3 final size:3
Alignment explanation
Indices: 9550708--9550736 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9550698 AGCTGCTTTG
9550708 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9550737 TTGCTTCCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:9551521 original size:19 final size:18
Alignment explanation
Indices: 9551499--9551548 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
9551489 TTTTATAACA
*
9551499 TTTTTACATTTTTAATTTT
1 TTTTTA-ATTTTTAAATTT
*
9551518 TTTTTAATTTTAAAATTT
1 TTTTTAATTTTTAAATTT
*
9551536 TTGTTATATTTTT
1 TTTTTA-ATTTTT
9551549 TCTTAGTGGC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTTAATTTTTAAATTT
Found at i:9551800 original size:2 final size:2
Alignment explanation
Indices: 9551795--9551821 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9551785 ATTAAATGTT
9551795 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
9551822 CAGTTCACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9552089 original size:2 final size:2
Alignment explanation
Indices: 9552082--9552118 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
9552072 AACGTCATGT
9552082 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9552119 GATACGATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9557218 original size:19 final size:18
Alignment explanation
Indices: 9557194--9557231 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
9557184 ATTGTATGCG
9557194 TTTAATTAT-TTAATTAAAT
1 TTTAATT-TGTTAA-TAAAT
9557213 TTTAATTTGTTAATAAAT
1 TTTAATTTGTTAATAAAT
9557231 T
1 T
9557232 ATTTAATAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
TTTAATTTGTTAATAAAT
Found at i:9562726 original size:13 final size:13
Alignment explanation
Indices: 9562708--9562744 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
9562698 AATCCTTCTG
9562708 AATTTTAACTCTT
1 AATTTTAACTCTT
9562721 AATTTTAA-T-TT
1 AATTTTAACTCTT
*
9562732 AATTTAAACTCTT
1 AATTTTAACTCTT
9562745 CATACAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
11 9 0.43
12 2 0.10
13 10 0.48
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (13 bp):
AATTTTAACTCTT
Found at i:9563001 original size:44 final size:44
Alignment explanation
Indices: 9562940--9563048 Score: 146
Period size: 44 Copynumber: 2.5 Consensus size: 44
9562930 TCAGACTTCT
* * *
9562940 TCTAAATCAAGGGCTCAATAACTTCAAAAAATAAAATTAGGCTTC
1 TCTAAA-CAAAGGCTCAATAACTTCAAAAAATAAAATAAGGCTCC
* * * *
9562985 TCTAAACAGATGCTCAACAACTTCAAAAAATAAACTAAGGCTCC
1 TCTAAACAAAGGCTCAATAACTTCAAAAAATAAAATAAGGCTCC
9563029 TCTAAACAAAGGCTCAATAA
1 TCTAAACAAAGGCTCAATAA
9563049 TTTTGAAAAA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
44 48 0.89
45 6 0.11
ACGTcount: A:0.46, C:0.21, G:0.10, T:0.23
Consensus pattern (44 bp):
TCTAAACAAAGGCTCAATAACTTCAAAAAATAAAATAAGGCTCC
Found at i:9563058 original size:44 final size:43
Alignment explanation
Indices: 9562966--9563440 Score: 318
Period size: 44 Copynumber: 11.2 Consensus size: 43
9562956 AATAACTTCA
* * * * **
9562966 AAAAATAAAATTAGGCTTCTCTAAACAGATGCTCAACAACTTCA
1 AAAAAT-AAATAAGGCTCCTCTAAACAGAGGCTCAACAATTTTG
* *
9563010 AAAAATAAACTAAGGCTCCTCTAAACAAAGGCTCAATAATTTTG
1 AAAAATAAA-TAAGGCTCCTCTAAACAGAGGCTCAACAATTTTG
* * * **
9563054 AAAAAAAAAT-A--CTCATCTAAATAGAGGCTCAATGATTTTG
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAATTTTG
* * * * *
9563094 AAAAAT-AA-AAGGCTCCTCTAAATAGAAGCTTAACGACTTTG
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAATTTTG
* * *
9563135 AAAAAT-AA-AAGGCT-CTCTAAACAGAGCCTTAACAACTTTG
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAATTTTG
* * * * * *
9563175 AAAAAATAAATAAGGTTCTTTTAAGCAGAAGCTTAACAACTTTT-
1 -AAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAA-TTTTG
* * * *
9563219 AAAAGAT--A-AA-GCTTCTCTAATCAGAGACTCAACAACTTTG
1 AAAA-ATAAATAAGGCTCCTCTAAACAGAGGCTCAACAATTTTG
* * * * * *
9563259 AAAGAT--A-AAGGCTCCTTTAAGCATAGGGTCAATAACTTTTG
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAA-TTTTG
**
9563300 AAAAATAAATAAGGCTCCTCTAATTAGAGGCTCAACAACTTTTG
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAA-TTTTG
* * *
9563344 AAAAATAAAT-AGGCTCATCTAAACAGAGGTTCAACAACTTTTAA
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAA-TTTT-G
* ** * *
9563388 AAAAATAAATAAGGCTCTTCTAAGTAGAAGCTCAGCAACTTTTG
1 AAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAA-TTTTG
9563432 AAAAATAAA
1 AAAAATAAA
9563441 GCTCATTTAA
Statistics
Matches: 346, Mismatches: 67, Indels: 36
0.77 0.15 0.08
Matches are distributed among these distances:
39 11 0.03
40 90 0.26
41 55 0.16
42 4 0.01
43 42 0.12
44 115 0.33
45 29 0.08
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (43 bp):
AAAAATAAATAAGGCTCCTCTAAACAGAGGCTCAACAATTTTG
Found at i:9563082 original size:40 final size:40
Alignment explanation
Indices: 9562983--9563479 Score: 241
Period size: 40 Copynumber: 11.9 Consensus size: 40
9562973 AAATTAGGCT
* ** *
9562983 TCTCTAAACAGATGCTCAACAACTTCAAAAAATAAACTAAGGC
1 TCTCTAAACAGAGGCTCAACAACTTTGAAAAAT-AA--AAGAC
* * * *
9563026 TCCTCTAAACAAAGGCTCAATAATTTTGAAAAA-AAAATAC
1 T-CTCTAAACAGAGGCTCAACAACTTTGAAAAATAAAAGAC
* ** * *
9563066 TCATCTAAATAGAGGCTCAATGATTTTGAAAAATAAAAGGC
1 TC-TCTAAACAGAGGCTCAACAACTTTGAAAAATAAAAGAC
* * * * *
9563107 TCCTCTAAATAGAAGCTTAACGACTTTGAAAAATAAAAGGC
1 T-CTCTAAACAGAGGCTCAACAACTTTGAAAAATAAAAGAC
* * **
9563148 TCTCTAAACAGAGCCTTAACAACTTTGAAAAAATAAATAAGGT
1 TCTCTAAACAGAGGCTCAACAACTTTG-AAAAAT-AA-AAGAC
* * * * *
9563191 TCTTTTAAGCAGAAGCTTAACAACTTTTAAAAGAT-AAAG-C
1 TC-TCTAAACAGAGGCTCAACAACTTTGAAAA-ATAAAAGAC
* * * *
9563231 TTCTCTAATCAGAGACTCAACAACTTTGAAAGAT-AAAGGC
1 -TCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAAAGAC
* * * * * *
9563271 TCCTTTAAGCATAGGGTCAATAACTTTTGAAAAATAAATAAGGC
1 T-CTCTAAACAGAGGCTCAACAAC-TTTGAAAAAT-AA-AAGAC
** *
9563315 TCCTCTAATTAGAGGCTCAACAACTTTTGAAAAATAAATAGGC
1 T-CTCTAAACAGAGGCTCAACAAC-TTTGAAAAATAAA-AGAC
* * *
9563358 TCATCTAAACAGAGGTTCAACAACTTTTAAAAAAATAAATAAGGC
1 TC-TCTAAACAGAGGCTCAACAAC-TTT-GAAAAAT-AA-AAGAC
** * *
9563403 TCTTCTAAGTAGAAGCTCAGCAACTTTTGAAAAAT-AAAG-C
1 TC-TCTAAACAGAGGCTCAACAAC-TTTGAAAAATAAAAGAC
* * * * *
9563443 TCATTTAAGCAGAAGCTCAATAACTTTGAAAGATAAA
1 TC-TCTAAACAGAGGCTCAACAACTTTGAAAAATAAA
9563480 GGCTCATCTG
Statistics
Matches: 367, Mismatches: 65, Indels: 47
0.77 0.14 0.10
Matches are distributed among these distances:
39 17 0.05
40 114 0.31
41 64 0.17
42 9 0.02
43 41 0.11
44 93 0.25
45 28 0.08
46 1 0.00
ACGTcount: A:0.44, C:0.17, G:0.13, T:0.26
Consensus pattern (40 bp):
TCTCTAAACAGAGGCTCAACAACTTTGAAAAATAAAAGAC
Found at i:9563419 original size:212 final size:206
Alignment explanation
Indices: 9563089--9563484 Score: 548
Period size: 212 Copynumber: 1.9 Consensus size: 206
9563079 GGCTCAATGA
* *
9563089 TTTTGAAAAATAAAAGGCTCCTCTAAATAGAAGCTTAACGACTTTGAAAAATAAAAGGCTCTCTA
1 TTTTGAAAAATAAAAGGCTCCTCTAAATAGAAGCTCAACAACTTTGAAAAATAAAAGGCTCTCTA
* * * *
9563154 AACAGAGCCTTAACAACTTTGAAAAAATAAATAAGGTTCTTTTAAGCAGAAGCTTAACAACTTTT
66 AACAGAGCCTTAACAACTTTAAAAAAATAAATAAGGCTCTTCTAAGCAGAAGCTCAACAACTTTT
*
9563219 -AAAAGATAAAGCTTC-TCTAATCAG-AGACTCAACAACTTTGAAAGATAAAGGCTCCTTTAAGC
131 GAAAA-ATAAAGC-TCATCTAAGCAGAAG-CTCAACAACTTTGAAAGATAAAGGCTCCTTTAAGC
9563281 ATAGGGTCAATAAC
193 ATAGGGTCAATAAC
* *
9563295 TTTTGAAAAATAAATAAGGCTCCTCTAATTAGAGGCTCAACAACTTTTGAAAAATAAATAGGCTC
1 TTTTGAAAAAT-AA-AAGGCTCCTCTAAATAGAAGCTCAACAAC-TTTGAAAAATAAA-AGGCTC
* * *
9563360 ATCTAAACAGAG-GTTCAACAACTTTTAAAAAAATAAATAAGGCTCTTCTAAGTAGAAGCTCAGC
62 -TCTAAACAGAGCCTT-AACAAC-TTTAAAAAAATAAATAAGGCTCTTCTAAGCAGAAGCTCAAC
* *
9563424 AACTTTTGAAAAATAAAGCTCATTTAAGCAGAAGCTCAATAACTTTGAAAGATAAAGGCTC
124 AACTTTTGAAAAATAAAGCTCATCTAAGCAGAAGCTCAACAACTTTGAAAGATAAAGGCTC
9563485 ATCTGAGTAG
Statistics
Matches: 166, Mismatches: 14, Indels: 14
0.86 0.07 0.07
Matches are distributed among these distances:
206 11 0.07
207 2 0.01
208 25 0.15
209 13 0.08
210 8 0.05
211 19 0.11
212 82 0.49
213 6 0.04
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.27
Consensus pattern (206 bp):
TTTTGAAAAATAAAAGGCTCCTCTAAATAGAAGCTCAACAACTTTGAAAAATAAAAGGCTCTCTA
AACAGAGCCTTAACAACTTTAAAAAAATAAATAAGGCTCTTCTAAGCAGAAGCTCAACAACTTTT
GAAAAATAAAGCTCATCTAAGCAGAAGCTCAACAACTTTGAAAGATAAAGGCTCCTTTAAGCATA
GGGTCAATAAC
Found at i:9564548 original size:10 final size:9
Alignment explanation
Indices: 9564537--9564587 Score: 61
Period size: 10 Copynumber: 5.6 Consensus size: 9
9564527 TCATTTTTTA
9564537 TTTTTCTTT
1 TTTTTCTTT
9564546 ATTTTTAC-TT
1 -TTTTT-CTTT
9564556 TTTTTCTCTT
1 TTTTTCT-TT
9564566 TTTTTC-TT
1 TTTTTCTTT
9564574 TTTTTCTTT
1 TTTTTCTTT
9564583 TTTTT
1 TTTTT
9564588 AAGCATAGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
8 9 0.24
9 12 0.32
10 15 0.41
11 1 0.03
ACGTcount: A:0.04, C:0.12, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTCTTT
Found at i:9564558 original size:18 final size:18
Alignment explanation
Indices: 9564537--9564588 Score: 79
Period size: 19 Copynumber: 2.8 Consensus size: 18
9564527 TCATTTTTTA
9564537 TTTTTCTTTATTTTTACTT
1 TTTTTCTTT-TTTTTACTT
9564556 TTTTTCTCTTTTTTT-CTT
1 TTTTTCT-TTTTTTTACTT
9564574 TTTTTCTTTTTTTTA
1 TTTTTCTTTTTTTTA
9564589 AGCATAGTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.23
18 10 0.32
19 12 0.39
20 2 0.06
ACGTcount: A:0.06, C:0.12, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTTTTACTT
Found at i:9564575 original size:7 final size:8
Alignment explanation
Indices: 9564555--9564586 Score: 55
Period size: 8 Copynumber: 3.9 Consensus size: 8
9564545 TATTTTTACT
9564555 TTTTTTCTC
1 TTTTTT-TC
9564564 TTTTTTTC
1 TTTTTTTC
9564572 TTTTTTTC
1 TTTTTTTC
9564580 TTTTTTT
1 TTTTTTT
9564587 TAAGCATAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 17 0.74
9 6 0.26
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTC
Found at i:9564575 original size:16 final size:16
Alignment explanation
Indices: 9564524--9564586 Score: 56
Period size: 16 Copynumber: 3.8 Consensus size: 16
9564514 TCGACTTGAG
* *
9564524 TTCTCATTTTTTATTT
1 TTCTCTTTTTTTCTTT
9564540 TTCT-TTATTTTTACTTTTT
1 TTCTCTT-TTTTT-C--TTT
9564559 TTCTCTTTTTTTCTTT
1 TTCTCTTTTTTTCTTT
*
9564575 TTTTCTTTTTTT
1 TTCTCTTTTTTT
9564587 TAAGCATAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.03
16 23 0.59
18 1 0.03
19 12 0.31
20 2 0.05
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (16 bp):
TTCTCTTTTTTTCTTT
Found at i:9575525 original size:181 final size:182
Alignment explanation
Indices: 9575312--9575638 Score: 421
Period size: 182 Copynumber: 1.8 Consensus size: 182
9575302 AAAAGAATAA
* * * * ***
9575312 AATTATTTTTATTGAAATTTCATGTAAATTATTCTATCATTTGAGATAAATTTTTTTTAAAA-TT
1 AATTATTGTTATTGAAATTTCATCTAAATTATTCTACCATTTGAGACAAA-TTTAGATAAAATTT
* * * * * * * *
9575376 -TCACTTAGAGATTTCT-TAGAAATTTATCATTTGAAATTTTTAAGAATCTCATCATTGGGTAAT
65 CTCACCTAAAAATTT-TATAAAAATTTACCATTTGAAATTTCTAAAAATCTCATCATTGGATAAT
9575439 TAGTATTTAATT-TCAAAATTTTTATTTTTTATTTTTTGATTGAAAATAAATATT
129 TAGTATTT-ATTCTCAAAATTTTTATTTTTTATTTTTTGATTGAAAATAAATATT
9575493 AATTATTGTTATTGAAACTTT-ATCTAAATTATTCTACCATTTGAGACAAATTTAGATAAAATTT
1 AATTATTGTTATTGAAA-TTTCATCTAAATTATTCTACCATTTGAGACAAATTTAGATAAAATTT
* *
9575557 CTCACCTAAAAATTTTATAAAAATTTACCATTTGAAATTTCTAAAAATTTCATTATTGGATAATT
65 CTCACCTAAAAATTTTATAAAAATTTACCATTTGAAATTTCTAAAAATCTCATCATTGGATAATT
*
9575622 ATTATTTATTCTCAAAA
130 AGTATTTATTCTCAAAA
9575639 AAATATTTTA
Statistics
Matches: 123, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
180 8 0.07
181 48 0.39
182 67 0.54
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.47
Consensus pattern (182 bp):
AATTATTGTTATTGAAATTTCATCTAAATTATTCTACCATTTGAGACAAATTTAGATAAAATTTC
TCACCTAAAAATTTTATAAAAATTTACCATTTGAAATTTCTAAAAATCTCATCATTGGATAATTA
GTATTTATTCTCAAAATTTTTATTTTTTATTTTTTGATTGAAAATAAATATT
Found at i:9576526 original size:16 final size:15
Alignment explanation
Indices: 9576485--9576529 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
9576475 ACTTAACACA
9576485 TATTTTTTTCATTTTT
1 TATTTTTTT-ATTTTT
*
9576501 TCTATTTTTTATTTTT
1 TAT-TTTTTTATTTTT
9576517 TATTTATTTTATT
1 TATTT-TTTTATT
9576530 AACAAAACCA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 2 0.08
16 17 0.68
17 6 0.24
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (15 bp):
TATTTTTTTATTTTT
Found at i:9578962 original size:18 final size:18
Alignment explanation
Indices: 9578941--9578984 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
9578931 GTCAAACTTA
*
9578941 CCTATTAAGAATCCCTTT
1 CCTATTAAGAATCCATTT
9578959 CCTATTAAGAATCCATTT
1 CCTATTAAGAATCCATTT
*
9578977 CCTTTTAA
1 CCTATTAA
9578985 AATTCTTCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.30, C:0.25, G:0.05, T:0.41
Consensus pattern (18 bp):
CCTATTAAGAATCCATTT
Found at i:9582454 original size:16 final size:16
Alignment explanation
Indices: 9582428--9582467 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
9582418 TTTTTTATTT
9582428 TTTATTTTATGTAATTA
1 TTTA-TTTATGTAATTA
**
9582445 TTTATTTATGTGTTTA
1 TTTATTTATGTAATTA
9582461 TTTATTT
1 TTTATTT
9582468 TTAGAGGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 17 0.81
17 4 0.19
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
TTTATTTATGTAATTA
Found at i:9582508 original size:23 final size:24
Alignment explanation
Indices: 9582457--9582506 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
9582447 TATTTATGTG
*
9582457 TTTATTTATTTTTAGAGGTATTTT
1 TTTATTTATTTTTAGAAGTATTTT
9582481 TTTATTTATTTTTAGAAGTATTTT
1 TTTATTTATTTTTAGAAGTATTTT
9582505 TT
1 TT
9582507 ATAGATACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.22, C:0.00, G:0.10, T:0.68
Consensus pattern (24 bp):
TTTATTTATTTTTAGAAGTATTTT
Found at i:9582618 original size:11 final size:11
Alignment explanation
Indices: 9582604--9582767 Score: 62
Period size: 11 Copynumber: 15.4 Consensus size: 11
9582594 ATATTACCAC
*
9582604 TATACTCTTAT
1 TATACTATTAT
*
9582615 TATATTATTAT
1 TATACTATTAT
*
9582626 TATAGTATTAT
1 TATACTATTAT
* *
9582637 GT-CAGTA-TAT
1 -TATACTATTAT
*
9582647 TGATACTA-T-G
1 T-ATACTATTAT
9582657 T-TACTATTAT
1 TATACTATTAT
*
9582667 TATATTA-TAT
1 TATACTATTAT
*
9582677 TAGGA-TATTAT
1 TA-TACTATTAT
9582688 TATACTATTAT
1 TATACTATTAT
* *
9582699 TATAGTAGTAT
1 TATACTATTAT
*
9582710 TATAGTA-TAT
1 TATACTATTAT
*
9582720 TATTAAGATATTAT
1 TA-T-A-CTATTAT
*
9582734 TATACTGTTAT
1 TATACTATTAT
**
9582745 TATGGTATTA-
1 TATACTATTAT
9582755 TATA-T-TTAT
1 TATACTATTAT
9582764 TATA
1 TATA
9582768 TTGTATTAGT
Statistics
Matches: 119, Mismatches: 20, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
8 8 0.07
9 7 0.06
10 21 0.18
11 72 0.61
12 3 0.03
13 3 0.03
14 5 0.04
ACGTcount: A:0.35, C:0.04, G:0.09, T:0.52
Consensus pattern (11 bp):
TATACTATTAT
Found at i:9582711 original size:46 final size:46
Alignment explanation
Indices: 9582661--9582769 Score: 134
Period size: 46 Copynumber: 2.4 Consensus size: 46
9582651 ACTATGTTAC
*
9582661 TATTATTATATTATATTAGGATATTATTATACTATTATTATAGTAG
1 TATTATTATATTATATTAAGATATTATTATACTATTATTATAGTAG
* * *
9582707 TATTA-TAGTA-TATTATTAAGATATTATTATACTGTTATTATGGTAT
1 TATTATTA-TATTA-TATTAAGATATTATTATACTATTATTATAGTAG
9582753 TATATATT-TATTATATT
1 TAT-TATTATATTATATT
9582770 GTATTAGTAT
Statistics
Matches: 54, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
45 4 0.07
46 45 0.83
47 4 0.07
48 1 0.02
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.54
Consensus pattern (46 bp):
TATTATTATATTATATTAAGATATTATTATACTATTATTATAGTAG
Found at i:9583896 original size:19 final size:19
Alignment explanation
Indices: 9583874--9583912 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
9583864 TTGTAAAAAC
9583874 AAAAAATCATTTCAAATAA
1 AAAAAATCATTTCAAATAA
* *
9583893 AAAAAATCTTTTGAAATAA
1 AAAAAATCATTTCAAATAA
9583912 A
1 A
9583913 TTCATGGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAAAATCATTTCAAATAA
Found at i:9584617 original size:26 final size:25
Alignment explanation
Indices: 9584588--9584636 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
9584578 ATAATTATCC
9584588 AATGATGAAATTTTTTAAAAATTTAA
1 AATGAT-AAATTTTTTAAAAATTTAA
* *
9584614 AATGGTAAATTTTTTATAAATTT
1 AATGATAAATTTTTTAAAAATTT
9584637 CTTAGGTGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (25 bp):
AATGATAAATTTTTTAAAAATTTAA
Found at i:9589233 original size:28 final size:28
Alignment explanation
Indices: 9589180--9589233 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
9589170 TTAAAATTAA
* *
9589180 ATTAATTAAATTATTTTATTTTATTTTT
1 ATTAATTAAATTAATTTATTTGATTTTT
9589208 ATTAATTAAATTAAATTTA-TTGATTT
1 ATTAATTAAATT-AATTTATTTGATTT
9589234 CAAAAATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 18 0.78
29 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (28 bp):
ATTAATTAAATTAATTTATTTGATTTTT
Found at i:9598331 original size:29 final size:28
Alignment explanation
Indices: 9598278--9598332 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 28
9598268 AAAATAAATT
* *
9598278 TTTATATTTTTATTGTATTCCAATAAGA
1 TTTATACTTTTATTGTATTCAAATAAGA
9598306 TTTATACTTTTATTTGTA-TCTAAATAA
1 TTTATACTTTTA-TTGTATTC-AAATAA
9598333 ATATTTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 13 0.57
29 10 0.43
ACGTcount: A:0.33, C:0.07, G:0.05, T:0.55
Consensus pattern (28 bp):
TTTATACTTTTATTGTATTCAAATAAGA
Found at i:9600907 original size:22 final size:22
Alignment explanation
Indices: 9600873--9600917 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
9600863 TTAATTCTGT
* *
9600873 AATTGGCAATGACAAGAAAAGA
1 AATTGACAATGACAACAAAAGA
*
9600895 AATTGACAGTGACAACAAAAGA
1 AATTGACAATGACAACAAAAGA
9600917 A
1 A
9600918 CCTTCGGTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.56, C:0.11, G:0.20, T:0.13
Consensus pattern (22 bp):
AATTGACAATGACAACAAAAGA
Found at i:9602540 original size:21 final size:20
Alignment explanation
Indices: 9602506--9602545 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
9602496 TATTTTAAGT
*
9602506 AATTTTTAAAATTTTATATC
1 AATTTTTAAAATTTAATATC
*
9602526 AATTTTTATACATTTAATAT
1 AATTTTTA-AAATTTAATAT
9602546 TCTTATATGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
AATTTTTAAAATTTAATATC
Found at i:9602959 original size:19 final size:19
Alignment explanation
Indices: 9602935--9602982 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
9602925 TATTAGTGAG
9602935 TTTAATTAAGTTTTTA-TAT
1 TTTAATTAA-TTTTTATTAT
9602954 TTTAA-TATATTTTTATTAT
1 TTTAATTA-ATTTTTATTAT
9602973 TTTAATTAAT
1 TTTAATTAAT
9602983 AAAATATCTC
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
18 8 0.31
19 16 0.62
20 2 0.08
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTAATTAATTTTTATTAT
Found at i:9603819 original size:17 final size:17
Alignment explanation
Indices: 9603792--9603843 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
9603782 TATTTTATAA
9603792 TAAATATTATTAATTTAT
1 TAAATA-TATTAATTTAT
*
9603810 TAAATATATTTATTTAT
1 TAAATATATTAATTTAT
* *
9603827 TAAATAAAATAATTTAT
1 TAAATATATTAATTTAT
9603844 AATATAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 24 0.80
18 6 0.20
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TAAATATATTAATTTAT
Found at i:9603834 original size:21 final size:21
Alignment explanation
Indices: 9603770--9603843 Score: 62
Period size: 21 Copynumber: 3.5 Consensus size: 21
9603760 AAAATACAGT
* *
9603770 AATATTTTTATTTATTTTAT-
1 AATATATTTATTTATTTAATA
* * *
9603790 AATAAATATTATTAATTTATTA
1 AATATAT-TTATTTATTTAATA
*
9603812 AATATATTTATTTATTAAATA
1 AATATATTTATTTATTTAATA
9603833 AA-ATAATTTAT
1 AATAT-ATTTAT
9603844 AATATAAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
20 7 0.17
21 29 0.69
22 6 0.14
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AATATATTTATTTATTTAATA
Found at i:9603909 original size:31 final size:32
Alignment explanation
Indices: 9603873--9603947 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 32
9603863 ATATTTAATT
9603873 AAAAAATAAAATTAATT-TAT-TAAAATCAT-A
1 AAAAAATAAAATTAATTATATGTAAAAT-ATGA
* *
9603903 ACAAAAATAAATTTTATTATATGTAAAATATGA
1 A-AAAAATAAAATTAATTATATGTAAAATATGA
9603936 AAAAAAGTAAAA
1 AAAAAA-TAAAA
9603948 AATATACAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
30 1 0.03
31 14 0.38
32 10 0.27
33 12 0.32
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (32 bp):
AAAAAATAAAATTAATTATATGTAAAATATGA
Found at i:9603909 original size:32 final size:33
Alignment explanation
Indices: 9603873--9603947 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 33
9603863 ATATTTAATT
9603873 AAAAAATAAAATTAATT-TAT-TAAAATCAT-AA
1 AAAAAATAAAATTAATTATATGTAAAAT-ATGAA
* * *
9603904 CAAAAATAAATTTTATTATATGTAAAATATGAA
1 AAAAAATAAAATTAATTATATGTAAAATATGAA
*
9603937 AAAAAGTAAAA
1 AAAAAATAAAA
9603948 AATATACAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
31 14 0.40
32 5 0.14
33 16 0.46
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.31
Consensus pattern (33 bp):
AAAAAATAAAATTAATTATATGTAAAATATGAA
Found at i:9604910 original size:20 final size:20
Alignment explanation
Indices: 9604885--9604924 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
9604875 AATTTTTTAC
*
9604885 TTTTTATATTTTA-AAATTAT
1 TTTTTA-ATATTACAAATTAT
9604905 TTTTTAATATTACAAATTAT
1 TTTTTAATATTACAAATTAT
9604925 AAAACTTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.60
Consensus pattern (20 bp):
TTTTTAATATTACAAATTAT
Found at i:9604942 original size:16 final size:17
Alignment explanation
Indices: 9604921--9604957 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
9604911 ATATTACAAA
9604921 TTATAAAAC-TTTAATT
1 TTATAAAACATTTAATT
9604937 TTATAAAACAATTTAATT
1 TTATAAAAC-ATTTAATT
9604955 TTA
1 TTA
9604958 ATATTAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
18 10 0.53
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATAAAACATTTAATT
Found at i:9606092 original size:2 final size:2
Alignment explanation
Indices: 9606085--9606127 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
9606075 TTGTGAAGAG
9606085 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
9606127 T
1 T
9606128 GCACAAAAAA
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9606597 original size:15 final size:15
Alignment explanation
Indices: 9606577--9606624 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 15
9606567 TATTTTATGA
9606577 TTTATTTTATAATTT
1 TTTATTTTATAATTT
* * *
9606592 TTTATTTAAAAATAT
1 TTTATTTTATAATTT
9606607 TTT-TTTTATATATTT
1 TTTATTTTATA-ATTT
9606622 TTT
1 TTT
9606625 CATCTTAATT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
14 5 0.19
15 21 0.81
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTATTTTATAATTT
Found at i:9607184 original size:21 final size:21
Alignment explanation
Indices: 9607160--9607202 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
9607150 ATTGATTTAG
9607160 TTTTAGAGAGAA-AAAATAAAT
1 TTTTAGAGA-AAGAAAATAAAT
*
9607181 TTTTAGAGAAAGAATATAAAT
1 TTTTAGAGAAAGAAAATAAAT
9607202 T
1 T
9607203 CAAATAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (21 bp):
TTTTAGAGAAAGAAAATAAAT
Found at i:9607376 original size:2 final size:2
Alignment explanation
Indices: 9607363--9607392 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
9607353 TATGAAGTTA
*
9607363 AT AT AC 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
9607393 CTTCTCTCTG
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:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9611108 original size:9 final size:9
Alignment explanation
Indices: 9611096--9611124 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
9611086 TATATATGTA
9611096 TGTTCTTTG
1 TGTTCTTTG
9611105 TGTTCTTTG
1 TGTTCTTTG
9611114 TGTTCTTTG
1 TGTTCTTTG
9611123 TG
1 TG
9611125 GAGGGAATCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.00, C:0.10, G:0.24, T:0.66
Consensus pattern (9 bp):
TGTTCTTTG
Found at i:9612957 original size:13 final size:14
Alignment explanation
Indices: 9612933--9612961 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9612923 TGTAATTTTG
9612933 GAATATAAAAAAAT
1 GAATATAAAAAAAT
9612947 GAATA-AAAAAAAT
1 GAATATAAAAAAAT
9612960 GA
1 GA
9612962 GATTGATGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.72, C:0.00, G:0.10, T:0.17
Consensus pattern (14 bp):
GAATATAAAAAAAT
Found at i:9628886 original size:33 final size:34
Alignment explanation
Indices: 9628828--9628897 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 34
9628818 TCTTAAATTC
9628828 ATTTAATATTAATTTAAAAAAATATTAGATAGTG
1 ATTTAATATTAATTTAAAAAAATATTAGATAGTG
* * * *
9628862 ATTTGATATTGATTT-AAAAAATATTATATATTG
1 ATTTAATATTAATTTAAAAAAATATTAGATAGTG
9628895 ATT
1 ATT
9628898 GAAATAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
33 19 0.59
34 13 0.41
ACGTcount: A:0.46, C:0.00, G:0.09, T:0.46
Consensus pattern (34 bp):
ATTTAATATTAATTTAAAAAAATATTAGATAGTG
Found at i:9628947 original size:15 final size:16
Alignment explanation
Indices: 9628927--9628964 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
9628917 ATTTAGTCAT
*
9628927 TATTTTTA-TTTATTA
1 TATTTTTATTTTATAA
9628942 TATTTTTTATTTTATAA
1 TA-TTTTTATTTTATAA
9628959 TATTTT
1 TATTTT
9628965 ACCTTTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 2 0.10
16 10 0.50
17 8 0.40
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (16 bp):
TATTTTTATTTTATAA
Found at i:9628950 original size:16 final size:17
Alignment explanation
Indices: 9628929--9628964 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
9628919 TTAGTCATTA
*
9628929 TTTTTA-TTTATTATAT
1 TTTTTATTTTATAATAT
9628945 TTTTTATTTTATAATAT
1 TTTTTATTTTATAATAT
9628962 TTT
1 TTT
9628965 ACCTTTGTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTTTATTTTATAATAT
Found at i:9632063 original size:2 final size:2
Alignment explanation
Indices: 9632056--9632091 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
9632046 GCCTTCTTTT
*
9632056 TA TA TA TA TA TA TA TA TA TA TT TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9632092 AAGGAGGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9634120 original size:23 final size:23
Alignment explanation
Indices: 9634078--9634133 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
9634068 ATTGATATTT
9634078 TATTAAAATTT-A--ATTTTTAA
1 TATTAAAATTTAATGATTTTTAA
9634098 TACTT-AAATTTAATGATTTTTAA
1 TA-TTAAAATTTAATGATTTTTAA
9634121 TATTAAAATTTAA
1 TATTAAAATTTAA
9634134 AAAATCATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
20 8 0.26
21 3 0.10
22 2 0.06
23 18 0.58
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTAAAATTTAATGATTTTTAA
Found at i:9635225 original size:5 final size:6
Alignment explanation
Indices: 9635211--9635276 Score: 62
Period size: 6 Copynumber: 10.7 Consensus size: 6
9635201 TTTTATTTTA
* * * *
9635211 TTTTCT TTTTCT TTTTCT TTTTCT TTTTAT ATTT-A TATTCT TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
9635258 TTTTCAT TTATCTCT TTTT
1 TTTTC-T TT-T-TCT TTTT
9635277 ATATTAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 2 0.04
6 37 0.76
7 4 0.08
8 4 0.08
9 2 0.04
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTCT
Done.