Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold407
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: 4418299
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 127125 characters in sequence are not A, C, G, or T
File 10 of 28
Found at i:1416933 original size:27 final size:27
Alignment explanation
Indices: 1416901--1416954 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1416891 AGGAGAAAGA
1416901 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1416928 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1416955 AAAAAGAGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.26, C:0.15, G:0.37, T:0.22
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:1417023 original size:34 final size:33
Alignment explanation
Indices: 1416921--1417268 Score: 274
Period size: 34 Copynumber: 10.4 Consensus size: 33
1416911 TTGTGGACTT
* *
1416921 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAA-AG
** *
1416955 AAAAAGAGTGCCATAGAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACGGAGTTGTGGAC-TTAAAAAG
* *
1416990 AAAAAGGTGCCACGCAGTCGTGGACTT----AG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* * *
1417019 AAAAGAGATGCCACTGAGTTGTGGACTT-ACAAG
1 AAAA-AGGTGCCACGGAGTTGTGGACTTAAAAAG
** ** *
1417052 AAAAAGGAATGCCACTAAGTTGTGGACTTTGAAGG
1 AAAAAGG--TGCCACGGAGTTGTGGACTTAAAAAG
* * * *
1417087 AAAGAGATGCCACGGAGTTATGGACTTTGAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAG
* * * *
1417121 AAAAAGAGTGCCACTGAGTTGTGGGCTTTAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAAG
* *
1417155 AAAAAGATGCCATGGAGTTGTGGACTTAAAAAAG
1 AAAAAGGTGCCACGGAGTTGTGGACTT-AAAAAG
* * * *
1417189 AAAAAGAGTGCCACGAAGTTGTGGGCTTTAAAGG
1 AAAAAG-GTGCCACGGAGTTGTGGACTTAAAAAG
* *
1417223 AAAAAGATGCCACGGAGTTGTGGACTTAAAAGG
1 AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
* *
1417256 AACAAGGTACCAC
1 AAAAAGGTGCCAC
1417269 TTGTGGACTT
Statistics
Matches: 248, Mismatches: 53, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
29 6 0.02
30 19 0.08
32 2 0.01
33 73 0.29
34 80 0.32
35 62 0.25
36 6 0.02
ACGTcount: A:0.37, C:0.13, G:0.30, T:0.20
Consensus pattern (33 bp):
AAAAAGGTGCCACGGAGTTGTGGACTTAAAAAG
Found at i:1417032 original size:30 final size:29
Alignment explanation
Indices: 1416988--1417429 Score: 112
Period size: 33 Copynumber: 14.0 Consensus size: 29
1416978 GGCTTTAAAA
*
1416988 AGAAAAAGGTGCCAC-GCAGTCGTGGACTT
1 AGAAAAAGATGCCACTG-AGTCGTGGACTT
*
1417017 AGAAAAGAGATGCCACTGAGTTGTGGACTT
1 AGAAAA-AGATGCCACTGAGTCGTGGACTT
* *
1417047 ACAAGAAAAAGGAATGCCACTAAGTTGTGGACTTT
1 ---AGAAAAA-G-ATGCCACTGAGTCGTGGAC-TT
* * **
1417082 GAAGGAAAGAGATGCCACGGAGTTATGGACTTT
1 --A-GAAAAAGATGCCACTGAGTCGTGGAC-TT
* *
1417115 GAAAAGAAAAAGAGTGCCACTGAGTTGTGGGCTTT
1 ----AGAAAAAGA-TGCCACTGAGTCGTGGAC-TT
*
1417150 AAAGGAAAAAGATGCCA-TGGAGTTGTGGACTT
1 --A-GAAAAAGATGCCACT-GAGTCGTGGACTT
* *
1417182 AAAAAAGAAAAAGAGTGCCAC-GAAGTTGTGGGCTTT
1 -----AGAAAAAGA-TGCCACTG-AGTCGTGGAC-TT
* *
1417218 AAAGGAAAAAGATGCCACGGAGTTGTGGACTT
1 --A-GAAAAAGATGCCACTGAGTCGTGGACTT
* * *
1417250 AAAAGGAACAAGGTACCACT---T-GTGGACTT
1 ---A-GAAAAAGATGCCACTGAGTCGTGGACTT
* * * *
1417279 -TAAAAAGATGCCACGGAGTTGTGGGCTT
1 AGAAAAAGATGCCACTGAGTCGTGGACTT
* *
1417307 TGAAGAAAAGATGCCACTGAGTCATGGACTT
1 AG-A-AAAAGATGCCACTGAGTCGTGGACTT
* * * *
1417338 TGAAAAGAGATTGCCATTAAGTTGTGGACTTT
1 AGAAAA-AGA-TGCCACTGAGTCGTGGAC-TT
* *
1417370 GGAGAAAAA-ATGCCACTGAGTCATGGGCTTT
1 --AGAAAAAGATGCCACTGAGTCGTGGAC-TT
* *
1417401 GGGACAAA-ATGCCACTGAGTCGTGGACTT
1 -AGAAAAAGATGCCACTGAGTCGTGGACTT
1417430 TAAGAAGGGA
Statistics
Matches: 332, Mismatches: 45, Indels: 72
0.74 0.10 0.16
Matches are distributed among these distances:
24 10 0.03
27 1 0.00
28 7 0.02
29 19 0.06
30 48 0.14
31 55 0.17
32 9 0.03
33 78 0.23
34 59 0.18
35 44 0.13
36 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (29 bp):
AGAAAAAGATGCCACTGAGTCGTGGACTT
Found at i:1417111 original size:33 final size:33
Alignment explanation
Indices: 1416928--1417338 Score: 325
Period size: 33 Copynumber: 12.6 Consensus size: 33
1416918 CTTAAAAGGG
*
1416928 TGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGA
1 TGCCACGGAGTTGTGGACTTTAAA-GGAAAAAGA
** * * *
1416962 GTGCCATAGAGTTGTGGGCTTTAAAAAGAAAAAGG
1 -TGCCACGGAGTTGTGGACTTT-AAAGGAAAAAGA
* *
1416997 TGCCACGCAGTCGTGGAC-TT--A-GAAAAGAGA
1 TGCCACGGAGTTGTGGACTTTAAAGGAAAA-AGA
*
1417027 TGCCACTGAGTTGTGGAC-TTACAA-GAAAAAGGAA
1 TGCCACGGAGTTGTGGACTTTA-AAGGAAAAA-G-A
** * *
1417061 TGCCACTAAGTTGTGGACTTTGAAGGAAAGAGA
1 TGCCACGGAGTTGTGGACTTTAAAGGAAAAAGA
* *
1417094 TGCCACGGAGTTATGGACTTTGAAAAGAAAAAGA
1 TGCCACGGAGTTGTGGACTTT-AAAGGAAAAAGA
* *
1417128 GTGCCACTGAGTTGTGGGCTTTAAAGGAAAAAGA
1 -TGCCACGGAGTTGTGGACTTTAAAGGAAAAAGA
* * *
1417162 TGCCATGGAGTTGTGGACTTAAAAAAGAAAAAGA
1 TGCCACGGAGTTGTGGACTT-TAAAGGAAAAAGA
* *
1417196 GTGCCACGAAGTTGTGGGCTTTAAAGGAAAAAGA
1 -TGCCACGGAGTTGTGGACTTTAAAGGAAAAAGA
* * *
1417230 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACGGAGTTGTGGACTTTAAAGGAAAAAGA
*
1417263 TACCAC----TTGTGGACTTT-----AAAAAGA
1 TGCCACGGAGTTGTGGACTTTAAAGGAAAAAGA
* *
1417287 TGCCACGGAGTTGTGGGCTTTGAA-G-AAAAGA
1 TGCCACGGAGTTGTGGACTTTAAAGGAAAAAGA
* **
1417318 TGCCACTGAGTCATGGACTTT
1 TGCCACGGAGTTGTGGACTTT
1417339 GAAAAGAGAT
Statistics
Matches: 302, Mismatches: 53, Indels: 46
0.75 0.13 0.11
Matches are distributed among these distances:
24 10 0.03
28 10 0.03
29 15 0.05
30 20 0.07
31 23 0.08
32 1 0.00
33 78 0.26
34 76 0.25
35 66 0.22
36 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.22
Consensus pattern (33 bp):
TGCCACGGAGTTGTGGACTTTAAAGGAAAAAGA
Found at i:1417163 original size:68 final size:67
Alignment explanation
Indices: 1416921--1417307 Score: 376
Period size: 68 Copynumber: 5.9 Consensus size: 67
1416911 TTGTGGACTT
* * ** *
1416921 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGAAAAAGAGTGCCATAGAGTTGTGGGCTTTAA
1 AAAAGAGTGCCAC-GAGTTGTGGACTTTAAA-GGAAAAAGA-TGCCACGGAGTTGTGGACTTTAA
1416986 AAAGA
63 AAAGA
* * *
1416991 AAAAG-GTGCCACGCAGTCGTGGAC-TT--A-GAAAAGAGATGCCACTGAGTTGTGGAC-TT-AC
1 AAAAGAGTGCCACG-AGTTGTGGACTTTAAAGGAAAA-AGATGCCACGGAGTTGTGGACTTTAAA
1417049 AAGA
64 AAGA
* * * * * *
1417053 AAAAGGAATGCCACTAAGTTGTGGACTTTGAAGGAAAGAGATGCCACGGAGTTATGGACTTTGAA
1 AAAA-GAGTGCCAC-GAGTTGTGGACTTTAAAGGAAAAAGATGCCACGGAGTTGTGGACTTTAAA
1417118 AAGA
64 AAGA
* * *
1417122 AAAAGAGTGCCACTGAGTTGTGGGCTTTAAAGGAAAAAGATGCCATGGAGTTGTGGACTTAAAAA
1 AAAAGAGTGCCAC-GAGTTGTGGACTTTAAAGGAAAAAGATGCCACGGAGTTGTGGACTTTAAAA
1417187 AGA
65 AGA
*
1417190 AAAAGAGTGCCACGAAGTTGTGGGCTTTAAAGGAAAAAGATGCCACGGAGTTGTGGAC-TTAAAA
1 AAAAGAGTGCCACG-AGTTGTGGACTTTAAAGGAAAAAGATGCCACGGAGTTGTGGACTTTAAAA
*
1417254 GGA
65 AGA
* * *
1417257 ACAAG-GTACCAC---TTGTGGACTTT-----AAAAAGATGCCACGGAGTTGTGGGCTTT
1 AAAAGAGTGCCACGAGTTGTGGACTTTAAAGGAAAAAGATGCCACGGAGTTGTGGACTTT
1417308 GAAGAAAAGA
Statistics
Matches: 275, Mismatches: 29, Indels: 38
0.80 0.08 0.11
Matches are distributed among these distances:
57 24 0.09
58 2 0.01
62 19 0.07
63 3 0.01
64 35 0.13
65 5 0.02
66 7 0.03
67 32 0.12
68 118 0.43
69 25 0.09
70 5 0.02
ACGTcount: A:0.36, C:0.13, G:0.30, T:0.21
Consensus pattern (67 bp):
AAAAGAGTGCCACGAGTTGTGGACTTTAAAGGAAAAAGATGCCACGGAGTTGTGGACTTTAAAAA
GA
Found at i:1418408 original size:11 final size:11
Alignment explanation
Indices: 1418380--1418417 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1418370 TTCCTTCTTC
1418380 TTTT-TTTGTT
1 TTTTGTTTGTT
1418390 TGTTTGTTTGTT
1 T-TTTGTTTGTT
*
1418402 TTTTGTTTTTT
1 TTTTGTTTGTT
1418413 TTTTG
1 TTTTG
1418418 GAAAAGAACA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
10 1 0.04
11 17 0.68
12 7 0.28
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (11 bp):
TTTTGTTTGTT
Found at i:1427017 original size:13 final size:13
Alignment explanation
Indices: 1426999--1427026 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1426989 CAAATATCAG
1426999 TGTATCGATACAA
1 TGTATCGATACAA
1427012 TGTATCGATACAA
1 TGTATCGATACAA
1427025 TG
1 TG
1427027 AGTAATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1427103 original size:13 final size:13
Alignment explanation
Indices: 1427085--1427109 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1427075 ACAACACTTA
1427085 TGTATCGATACAT
1 TGTATCGATACAT
1427098 TGTATCGATACA
1 TGTATCGATACA
1427110 AATTGTTGAA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1436723 original size:20 final size:20
Alignment explanation
Indices: 1436654--1436733 Score: 108
Period size: 20 Copynumber: 4.0 Consensus size: 20
1436644 TCAAAAACCT
*
1436654 AGAATGTATCGATACAATG-
1 AGAATGTATCGATACATTGA
*
1436673 AGAAATATATCGATACATTGCA
1 AG-AATGTATCGATACATTG-A
*
1436695 AGCATGTATCGATACATTGA
1 AGAATGTATCGATACATTGA
1436715 AGAATGTATCGATACATTG
1 AGAATGTATCGATACATTG
1436734 GATCAAAACC
Statistics
Matches: 53, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
19 2 0.04
20 34 0.64
21 15 0.28
22 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1436725 original size:41 final size:41
Alignment explanation
Indices: 1436657--1436823 Score: 140
Period size: 41 Copynumber: 3.9 Consensus size: 41
1436647 AAAACCTAGA
*
1436657 ATGTATCGATACAATGAGAAATATATCGATACATTGCAAGC
1 ATGTATCGATACAATGAGAAATGTATCGATACATTGCAAGC
* *
1436698 ATGTATCGATACATTGA-AGAATGTATCGATACATTGGATCAAAACCC
1 ATGTATCGATACAATGAGA-AATGTATCGATACATT-G--C--AA-GC
*
1436745 AAAATGTATTGATACAATGAGAAATGTATCGATACATTGCAAGC
1 ---ATGTATCGATACAATGAGAAATGTATCGATACATTGCAAGC
* * ** *
1436789 ATGTTTCAATACGTTGA-AGAATTTATCGATACATT
1 ATGTATCGATACAATGAGA-AATGTATCGATACATT
1436824 TGAGTCAAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 24
0.74 0.09 0.17
Matches are distributed among these distances:
40 2 0.02
41 58 0.57
42 1 0.01
44 2 0.02
45 2 0.02
46 2 0.02
47 2 0.02
49 1 0.01
50 31 0.30
51 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.30
Consensus pattern (41 bp):
ATGTATCGATACAATGAGAAATGTATCGATACATTGCAAGC
Found at i:1436776 original size:91 final size:91
Alignment explanation
Indices: 1436604--1436850 Score: 343
Period size: 91 Copynumber: 2.7 Consensus size: 91
1436594 AAATAGCCTA
* *
1436604 CATGTATCGATACATTAAAGAATGTATGGATACATTTAGG-TCAAAAACCTAGAATGTATCGATA
1 CATGTATCGATACATTGAAGAATGTATCGATACA-TT-GGATC-AAAACCTAGAATGTATCGATA
1436668 CAATGAGAAATATATCGATACATTGCAAG
63 CAATGAGAAATATATCGATACATTGCAAG
* * *
1436697 CATGTATCGATACATTGAAGAATGTATCGATACATTGGATCAAAACCCAAAATGTATTGATACAA
1 CATGTATCGATACATTGAAGAATGTATCGATACATTGGATCAAAACCTAGAATGTATCGATACAA
*
1436762 TGAGAAATGTATCGATACATTGCAAG
66 TGAGAAATATATCGATACATTGCAAG
* * * * * *
1436788 CATGTTTCAATACGTTGAAGAATTTATCGATACATTTGAGTCAAAACCTAGAATGTACCGATA
1 CATGTATCGATACATTGAAGAATGTATCGATACATTGGA-TCAAAACCTAGAATGTATCGATA
1436851 TATTATAAGA
Statistics
Matches: 137, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
91 82 0.60
92 23 0.17
93 32 0.23
ACGTcount: A:0.40, C:0.14, G:0.17, T:0.29
Consensus pattern (91 bp):
CATGTATCGATACATTGAAGAATGTATCGATACATTGGATCAAAACCTAGAATGTATCGATACAA
TGAGAAATATATCGATACATTGCAAG
Found at i:1436961 original size:20 final size:20
Alignment explanation
Indices: 1436936--1436976 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
1436926 TGGTCTAGTG
*
1436936 TCGATACATTTACTTACGTA
1 TCGATACATTCACTTACGTA
*
1436956 TCGATACATTCACTTATGTA
1 TCGATACATTCACTTACGTA
1436976 T
1 T
1436977 TAGTACATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (20 bp):
TCGATACATTCACTTACGTA
Found at i:1437664 original size:70 final size:69
Alignment explanation
Indices: 1437580--1438089 Score: 427
Period size: 70 Copynumber: 7.3 Consensus size: 69
1437570 AAAAGACGTC
* *
1437580 CTGCT-TTTAGAGGACTAAAAAGGCAAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAATA
1 CTGCTCTTTA-AGGACTAAAAAGGTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAA-A
*
1437644 AGCATA
64 AGCATT
* * ** * * ***
1437650 CTGCTTTTTAAGGACTATAAAGGTAAAAAATGCCATCAACTTGTGTGTAATTTAAAAGCAAAAAA
1 CTGCTCTTTAAGGACTAAAAAGGTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAG-AAAAAA
*
1437715 -AATGT
65 GCAT-T
* * *
1437720 CTTGCACATTGAA-GACTAAAAACGTAAAAGGTGCCACCAGCTTGTGT-GGCTTTAAAAGGAAAG
1 C-TGCTC-TTTAAGGACTAAAAAGGTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAA-GAAA-
*
1437783 AAAG-AGTC
62 AAAGCA-TT
* * * * *
1437791 CTGCTCTTTAAAGACCAAAAAGGTAAAAGGTGCCACCAGCTTATGCGGGATTTAAAAGAAAAAAA
1 CTGCTCTTTAAGGACTAAAAAGGTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAG--AAAAA
1437856 AG-ATGT
64 AGCAT-T
* *
1437862 CTTGATCTTTAAGGACTAAAAAAGATAAAAGGTGCCACCAGCTTGTGTGGGCTTT-AAA-AAAAA
1 C-TGCTCTTTAAGGACT-AAAAAGGTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAA
*
1437925 AGCATC
64 AGCATT
* * * * * *
1437931 CTACCCTTTAAGGACTAAAAAGGTAAAAGGTGCTATCAACTTGTGTGGG-TTT-TAA-AAAAAAG
1 CTGCTCTTTAAGGACTAAAAAGGTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAG
1437993 TCATT
66 -CATT
* * * *
1437998 CTGC-ATTTGAGGACTAAAAAACGTAAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAG-AAAAA
1 CTGCTCTTTAAGGACT-AAAAAGGTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAA
1438061 GTCA-T
65 G-CATT
* *
1438066 CTTGCTTTTTAAAGACTAAAAAGG
1 C-TGCTCTTTAAGGACTAAAAAGG
1438090 GTTGTATAGG
Statistics
Matches: 353, Mismatches: 63, Indels: 49
0.76 0.14 0.11
Matches are distributed among these distances:
66 21 0.06
67 63 0.18
68 17 0.05
69 34 0.10
70 102 0.29
71 60 0.17
72 23 0.07
73 33 0.09
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (69 bp):
CTGCTCTTTAAGGACTAAAAAGGTAAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAG
CATT
Found at i:1437737 original size:141 final size:139
Alignment explanation
Indices: 1437604--1438089 Score: 535
Period size: 141 Copynumber: 3.5 Consensus size: 139
1437594 CTAAAAAGGC
* * * * *
1437604 AAAAGGTGCCACTAGCTTGTGTGGGCTTTAAAAGAAAATAAGCATACTGCTTTTTAAGGACTATA
1 AAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAA-AAGCATCCTGCTCTTTAAAGACTAAA
** **
1437669 AAGGTAAAAAATGCCATCAACTTGTGTGTAATTTAAAAGCAAAAAAAATGTCTTGCACATTGAAG
65 AAGGTAAAAGGTGCCATCAACTTGTGTGGGATTTAAAAG-AAAAAAAATGTCTTGCAC-TTGAAG
1437734 ACT-AAAAACGT
128 ACTAAAAAACGT
*
1437745 AAAAGGTGCCACCAGCTTGTGT-GGCTTTAAAAGGAAAGAAAG-AGTCCTGCTCTTTAAAGACCA
1 AAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAA-GAAA-AAAGCA-TCCTGCTCTTTAAAGACTA
* * * * *
1437808 AAAAGGTAAAAGGTGCCACCAGCTTATGCGGGATTTAAAAGAAAAAAAAGATGTCTTG-ATCTTT
63 AAAAGGTAAAAGGTGCCATCAACTTGTGTGGGATTTAAAAG-AAAAAAA-ATGTCTTGCA-CTTG
1437872 AAGGACTAAAAAA-GAT
125 AA-GACTAAAAAACG-T
* * *
1437888 AAAAGGTGCCACCAGCTTGTGTGGGCTTT-AAA-AAAAAAGCATCCTACCCTTTAAGGACTAAAA
1 AAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAGCATCCTGCTCTTTAAAGACTAAAA
* * *** * *
1437951 AGGTAAAAGGTGCTATCAACTTGTGTGGGTTTTAAAA-AAAAGTCAT-TC-TGCATTTGAGGACT
66 AGGTAAAAGGTGCCATCAACTTGTGTGGGATTTAAAAGAAAAAAAATGTCTTGCACTTGAAGACT
1438013 AAAAAACGT
131 AAAAAACGT
* * *
1438022 AAAAGGTGCCACCAGCTTATGTGGGCTTTAAAAG-AAAAAGTCATCTTGCTTTTTAAAGACTAAA
1 AAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAG-CATCCTGCTCTTTAAAGACTAAA
1438086 AAGG
65 AAGG
1438090 GTTGTATAGG
Statistics
Matches: 292, Mismatches: 38, Indels: 35
0.80 0.10 0.10
Matches are distributed among these distances:
134 39 0.13
135 15 0.05
136 25 0.09
137 2 0.01
138 4 0.01
140 64 0.22
141 91 0.31
142 15 0.05
143 31 0.11
144 6 0.02
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.25
Consensus pattern (139 bp):
AAAAGGTGCCACCAGCTTGTGTGGGCTTTAAAAGAAAAAAGCATCCTGCTCTTTAAAGACTAAAA
AGGTAAAAGGTGCCATCAACTTGTGTGGGATTTAAAAGAAAAAAAATGTCTTGCACTTGAAGACT
AAAAAACGT
Found at i:1438151 original size:35 final size:35
Alignment explanation
Indices: 1438111--1438221 Score: 97
Period size: 35 Copynumber: 3.1 Consensus size: 35
1438101 TTTAAAAGAA
1438111 AAAAGGCATCCTACTCTTTGAGGATTAAAAAGGGT
1 AAAAGGCATCCTACTCTTTGAGGATTAAAAAGGGT
* * *
1438146 AAAAGGCA-CTCTCAGCT-TGTGTGA-GCTTTAAAA--GA
1 AAAAGGCATC-CT-A-CTCT-T-TGAGGATTAAAAAGGGT
*
1438181 AAAATGGCATCCTACTCTTTGAGGATTAAAATGGGT
1 AAAA-GGCATCCTACTCTTTGAGGATTAAAAAGGGT
1438217 AAAAG
1 AAAAG
1438222 TTGGGACCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 22
0.67 0.08 0.25
Matches are distributed among these distances:
33 3 0.05
34 10 0.17
35 18 0.31
36 13 0.22
37 11 0.19
38 3 0.05
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.26
Consensus pattern (35 bp):
AAAAGGCATCCTACTCTTTGAGGATTAAAAAGGGT
Found at i:1438316 original size:71 final size:68
Alignment explanation
Indices: 1438091--1438326 Score: 224
Period size: 71 Copynumber: 3.3 Consensus size: 68
1438081 CTAAAAAGGG
1438091 TTGTAT-AGGCTTTAAAAGAAAAAAGGCATCCTACTCTTTGAGGATTAAAAAGGGTAAAAG-GCA
1 TTGTATGA-GCTTTAAAAGAAAAAAGGCATCCTACTCTTTGAGGATTAAAAA-GGTAAAAGTGCA
1438154 CTCTCAGC
64 -T-T-AGC
* * * *
1438162 TTGTGTGAGCTTTAAAAGAAAAATGGCATCCTACTCTTTGAGGATTAAAATGGGTAAAAGTTGGG
1 TTGTATGAGCTTTAAAAGAAAAAAGGCATCCTACTCTTTGAGGATTAAAA-AGGTAAAAG-T-GC
** *
1438227 ACCAAC
63 ATTAGC
*** * * * * *
1438233 TTACGTGGGCTTTAAAAAAACAAAAGGCATCTTGCTCTTTGAGGACTAAAAAGGTAAAAGCTGCC
1 TTGTATGAGCTTTAAAAGAA-AAAAGGCATCCTACTCTTTGAGGATTAAAAAGGTAAAAG-TG-C
1438298 ATTAGC
63 ATTAGC
1438304 TTGTATGAGCTTTAAAAGAAAAA
1 TTGTATGAGCTTTAAAAGAAAAA
1438327 GATGTCCTTT
Statistics
Matches: 132, Mismatches: 26, Indels: 15
0.76 0.15 0.09
Matches are distributed among these distances:
70 4 0.03
71 99 0.75
72 27 0.20
74 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.22, T:0.27
Consensus pattern (68 bp):
TTGTATGAGCTTTAAAAGAAAAAAGGCATCCTACTCTTTGAGGATTAAAAAGGTAAAAGTGCATT
AGC
Found at i:1438343 original size:64 final size:64
Alignment explanation
Indices: 1438269--1438398 Score: 149
Period size: 64 Copynumber: 2.0 Consensus size: 64
1438259 GCATCTTGCT
* ** * *
1438269 CTTTGAGGACTAAAAAGG-TAAAA-GCTGCCATTAGCTTGTAT-GAGCTTTAAAAGAAAAAGATG
1 CTTTAAGGACT-AAAAGGATAAAATG-TGCCACCAGCTTATATGGA-CTTTAAAAGAAAAAGATA
1438331 TC
63 TC
* *
1438333 CTTTAAGGACTAAAAGGATAAAATGTGCCACCAGCTTATATGGACTTTGAAGGAAAAAGATATC
1 CTTTAAGGACTAAAAGGATAAAATGTGCCACCAGCTTATATGGACTTTAAAAGAAAAAGATATC
1438397 CT
1 CT
1438399 GCTCTTTGAA
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
63 6 0.11
64 47 0.84
65 3 0.05
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (64 bp):
CTTTAAGGACTAAAAGGATAAAATGTGCCACCAGCTTATATGGACTTTAAAAGAAAAAGATATC
Found at i:1444538 original size:59 final size:59
Alignment explanation
Indices: 1444384--1444545 Score: 159
Period size: 58 Copynumber: 2.7 Consensus size: 59
1444374 CATCTTCTTT
* * *
1444384 TAAGCCCAATGTCATTGGCCTTGAATCAACACACTAGCACTTGTTAAACCATCTTTCTC
1 TAAGCCCAATGTCATTGGCCTTGAATCAAAACATTGGCACTTGTTAAACCATCTTTCTC
* * * * * * *
1444443 T-AGCCAAATGCCATTGGCCTTGATTTAAAATATTGGCACTT-TTCAAATCTTCTTTCT-
1 TAAGCCCAATGTCATTGGCCTTGAATCAAAACATTGGCACTTGTT-AAACCATCTTTCTC
* **
1444500 TAAAGCCCAATGTCATTGGCGTTGAATCAGGACATTGGCACCTTGT
1 T-AAGCCCAATGTCATTGGCCTTGAATCAAAACATTGGCA-CTTGT
1444546 CTATGTCAAA
Statistics
Matches: 80, Mismatches: 18, Indels: 8
0.75 0.17 0.08
Matches are distributed among these distances:
57 3 0.04
58 43 0.54
59 30 0.38
60 3 0.04
61 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (59 bp):
TAAGCCCAATGTCATTGGCCTTGAATCAAAACATTGGCACTTGTTAAACCATCTTTCTC
Found at i:1445381 original size:20 final size:21
Alignment explanation
Indices: 1445339--1445389 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
1445329 TTCAATAATT
1445339 TGTATCGATATAATAAGGTAA
1 TGTATCGATATAATAAGGTAA
1445360 TGTATCGATAT-ATAA-GTGAA
1 TGTATCGATATAATAAGGT-AA
*
1445380 TGTATTGATA
1 TGTATCGATA
1445390 CATGCTTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 2 0.07
20 15 0.54
21 11 0.39
ACGTcount: A:0.39, C:0.04, G:0.20, T:0.37
Consensus pattern (21 bp):
TGTATCGATATAATAAGGTAA
Found at i:1445523 original size:32 final size:32
Alignment explanation
Indices: 1445477--1445538 Score: 115
Period size: 32 Copynumber: 1.9 Consensus size: 32
1445467 CATTGCATTG
1445477 ATACATTTTAGGTTTTTGACCCAAATGTATCC
1 ATACATTTTAGGTTTTTGACCCAAATGTATCC
*
1445509 ATACATTTTGGGTTTTTGACCCAAATGTAT
1 ATACATTTTAGGTTTTTGACCCAAATGTAT
1445539 TGATATTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.16, G:0.15, T:0.42
Consensus pattern (32 bp):
ATACATTTTAGGTTTTTGACCCAAATGTATCC
Found at i:1447401 original size:22 final size:21
Alignment explanation
Indices: 1447359--1447398 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1447349 ATTTAGGCTA
1447359 CTAAAAAGTTCATGAAATTCC
1 CTAAAAAGTTCATGAAATTCC
1447380 CTAAAAAGTTCATGAAATT
1 CTAAAAAGTTCATGAAATT
1447399 TCCTTTCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.15, G:0.10, T:0.30
Consensus pattern (21 bp):
CTAAAAAGTTCATGAAATTCC
Found at i:1449397 original size:13 final size:13
Alignment explanation
Indices: 1449379--1449403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1449369 ATAATGCATA
1449379 GTATCGATACATT
1 GTATCGATACATT
1449392 GTATCGATACAT
1 GTATCGATACAT
1449404 GACCACTATA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1449490 original size:13 final size:13
Alignment explanation
Indices: 1449472--1449498 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1449462 CCTTAACTGT
1449472 TTGTATCGATACA
1 TTGTATCGATACA
1449485 TTGTATCGATACA
1 TTGTATCGATACA
1449498 T
1 T
1449499 GACCAAATGT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1455682 original size:13 final size:13
Alignment explanation
Indices: 1455664--1455701 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1455654 CAGCATTCTC
*
1455664 TGTATCGATACAT
1 TGTATCGATACAG
1455677 TGTATCGATACAG
1 TGTATCGATACAG
1455690 TGTATCGATACA
1 TGTATCGATACA
1455702 AAGGGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1456694 original size:18 final size:17
Alignment explanation
Indices: 1456667--1456700 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1456657 CAAAGAGGGC
*
1456667 TCGATTCCTCGAAACAT
1 TCGATTCCTCAAAACAT
1456684 TCGAGTTCCTCAAAACA
1 TCGA-TTCCTCAAAACA
1456701 AAGCCACACA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.29, G:0.12, T:0.26
Consensus pattern (17 bp):
TCGATTCCTCAAAACAT
Found at i:1457609 original size:23 final size:24
Alignment explanation
Indices: 1457563--1457612 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
1457553 TTAAAGGAAA
1457563 TTGTTTTAAGGGGGAGAAATTTTT
1 TTGTTTTAAGGGGGAGAAATTTTT
*
1457587 TTGTTTTGAGGGGGAGAAATTTTT
1 TTGTTTTAAGGGGGAGAAATTTTT
1457611 TT
1 TT
1457613 TATTATTTGA
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:0.30, T:0.48
Consensus pattern (24 bp):
TTGTTTTAAGGGGGAGAAATTTTT
Found at i:1458428 original size:19 final size:19
Alignment explanation
Indices: 1458382--1458466 Score: 83
Period size: 19 Copynumber: 4.7 Consensus size: 19
1458372 TTTCAATAAT
*
1458382 TTGTATCGATACAAACAGTAA
1 TTGTATCGATACATA-AGT-A
*
1458403 ATGTATCGATACATAAGTA
1 TTGTATCGATACATAAGTA
1458422 TTGTATCGATAC---A--A
1 TTGTATCGATACATAAGTA
*
1458436 -TGTATCGATACATAAGTT
1 TTGTATCGATACATAAGTA
1458454 TTGTATCGATACA
1 TTGTATCGATACA
1458467 ATGTATCGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
19 24 0.44
20 3 0.06
21 13 0.24
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACATAAGTA
Found at i:1458441 original size:13 final size:13
Alignment explanation
Indices: 1458423--1458480 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
1458413 ACATAAGTAT
1458423 TGTATCGATACAA
1 TGTATCGATACAA
1458436 TGTATCGATACATAA
1 TGTATCGATAC--AA
1458451 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
1458468 TGTATCGCTACAA
1 TGTATCGATACAA
1458481 AGCTACTACC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1458443 original size:32 final size:32
Alignment explanation
Indices: 1458402--1458479 Score: 138
Period size: 32 Copynumber: 2.4 Consensus size: 32
1458392 ACAAACAGTA
1458402 AATGTATCGATACATAAGTATTGTATCGATAC
1 AATGTATCGATACATAAGTATTGTATCGATAC
*
1458434 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTATTGTATCGATAC
*
1458466 AATGTATCGCTACA
1 AATGTATCGATACA
1458480 AAGCTACTAC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (32 bp):
AATGTATCGATACATAAGTATTGTATCGATAC
Found at i:1463536 original size:9 final size:9
Alignment explanation
Indices: 1463521--1463613 Score: 100
Period size: 9 Copynumber: 10.0 Consensus size: 9
1463511 CATTCTTTTT
1463521 CAAAAAAAA
1 CAAAAAAAA
*
1463530 TAAAAAAACA
1 CAAAAAAA-A
*
1463540 AAAAAAAAA
1 CAAAAAAAA
1463549 CAAAAAAAA
1 CAAAAAAAA
1463558 CAAAAAAAA
1 CAAAAAAAA
1463567 CAAAAAAAA
1 CAAAAAAAA
1463576 CAACCAAAAAA
1 CAA--AAAAAA
1463587 -AAAACAAAA
1 CAAAA-AAAA
*
1463596 -AAACAAAA
1 CAAAAAAAA
1463604 CAAAGAAAAA
1 CAAA-AAAAA
1463614 AGATAGAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
8 6 0.08
9 47 0.64
10 14 0.19
11 6 0.08
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.01
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:1463545 original size:18 final size:19
Alignment explanation
Indices: 1463522--1463614 Score: 114
Period size: 20 Copynumber: 4.6 Consensus size: 19
1463512 ATTCTTTTTC
*
1463522 AAAAAAAATAAAAAAACAA
1 AAAAAAAAAAAAAAAACAA
1463541 AAAAAAAACAAAAAAAACAA
1 AAAAAAAA-AAAAAAAACAA
1463561 AAAAAACAAAAAAAACAACCAA
1 AAAAAA-AAAAAAAA-AA-CAA
*
1463583 AAAAAAAACAAAAAAACAA
1 AAAAAAAAAAAAAAAACAA
1463602 AACAAAGAAAAAA
1 AA-AAA-AAAAAA
1463615 GATAGAAAAG
Statistics
Matches: 65, Mismatches: 3, Indels: 10
0.83 0.04 0.13
Matches are distributed among these distances:
19 13 0.20
20 27 0.42
21 16 0.25
22 9 0.14
ACGTcount: A:0.87, C:0.11, G:0.01, T:0.01
Consensus pattern (19 bp):
AAAAAAAAAAAAAAAACAA
Found at i:1463629 original size:1 final size:1
Alignment explanation
Indices: 1463522--1463614 Score: 78
Period size: 1 Copynumber: 93.0 Consensus size: 1
1463512 ATTCTTTTTC
* * * * * * **
1463522 AAAAAAAATAAAAAAACAAAAAAAAAACAAAAAAAACAAAAAAAACAAAAAAAACAACCAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * * *
1463587 AAAACAAAAAAACAAAACAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1463615 GATAGAAAAG
Statistics
Matches: 70, Mismatches: 22, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 70 1.00
ACGTcount: A:0.87, C:0.11, G:0.01, T:0.01
Consensus pattern (1 bp):
A
Found at i:1463629 original size:41 final size:41
Alignment explanation
Indices: 1463523--1463614 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 41
1463513 TTCTTTTTCA
*
1463523 AAAAAAA-TAAAAAAAC-A-AAA-AAAAAACAAAAAAAACA
1 AAAAAAACAAAAAAAACAACAAAAAAAAAACAAAAAAAACA
1463560 AAAAAAACAAAAAAAACAACCAAAAAAAAAAC-AAAAAAACA
1 AAAAAAACAAAAAAAACAA-CAAAAAAAAAACAAAAAAAACA
* *
1463601 AAACAAAGAAAAAA
1 AAAAAAACAAAAAA
1463615 GATAGAAAAG
Statistics
Matches: 47, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
37 7 0.15
38 8 0.17
39 1 0.02
41 24 0.51
42 7 0.15
ACGTcount: A:0.87, C:0.11, G:0.01, T:0.01
Consensus pattern (41 bp):
AAAAAAACAAAAAAAACAACAAAAAAAAAACAAAAAAAACA
Found at i:1464766 original size:55 final size:55
Alignment explanation
Indices: 1464583--1465184 Score: 676
Period size: 55 Copynumber: 10.5 Consensus size: 55
1464573 CTCCTTTCAC
1464583 TTTT-CAGTCCTCAAAGAGCAGGACGTCTTTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACG-C-----CTTTCAAAGCCCACACAAGTTGGTGGCA
*
1464643 CCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACG-C---CTTTCAAAGCCCACACAAGTTGGTGGCA
*
1464702 CCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1464757 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCACGC-CAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
1464811 TTTTCCTAGTCCTCAAAGAGCAGGATGTCTTTCAAAGCCTACACAAGTTGGTGGCA
1 TTTTCC-AGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1464867 TTTTTCAGTCCTCAAAGAGCTGGACACCTTTCAAAGCCCACACAAGTTTGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1464922 TTTTCCAGTCCTCAAAGAGCAAGATGTCTTTCAAAACCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1464977 TTTTCCAGTCCTCAAAGAGCAGGATGTTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1465038 TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGCTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCC-TTTC----AAAGCCCACACAAGTTGGTGGCA
**
1465098 CCTT-CAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACGCCTT-T-C----AAAGCCCACACAAGTTGGTGGCA
*
1465158 -CTTCCTAGTCCTCAAAGAGCAGGACGC
1 TTTTCC-AGTCCTCAAAGAGCAGGACGC
1465185 TCTCTCCTTT
Statistics
Matches: 484, Mismatches: 39, Indels: 36
0.87 0.07 0.06
Matches are distributed among these distances:
54 22 0.05
55 204 0.42
56 22 0.05
58 3 0.01
59 84 0.17
60 52 0.11
61 97 0.20
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.26
Consensus pattern (55 bp):
TTTTCCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1464925 original size:165 final size:165
Alignment explanation
Indices: 1464615--1465460 Score: 700
Period size: 165 Copynumber: 5.0 Consensus size: 165
1464605 ACGTCTTTTT
* * *
1464615 CTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCTTTC
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGA----TGTCTTTC
**
1464679 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
61 AAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
1464744 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
126 CAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* *
1464784 CTTTTAAAGCACGC-CAAGTTGGTGGCATTTTCCTAGTCCTCAAAGAGCAGGATGTCTTTCAAAG
1 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGATGTCTTTCAAAG
* * *
1464848 CCTACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCTGGACACCTTTCAAAGCCCACACAAG
65 CCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAG
* * ***
1464913 TTTGTGGCATTTTCCAGTCCTCAAAGAGCAAGATGT
130 TTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
* *
1464949 CTTTCAAAACCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGTTTTTTCTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATG-----TC-TTT
*
1465014 CAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAG
60 CAAAGCCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCC-TTTC----AAAG
* ** *
1465079 CCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGACGCCTTCTC
120 CCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA------CAC
* *
1465130 CTTTTAAAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACG-C--T-----
1 CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCC-AGTCCTCAAAGAGCAGGATGTCTTTCAAAG
* * * * * *
1465186 CTCTC-C---TT--TCGCCTTTTT--GTCCTCAAAGAGCAGGATGCC-ATCTAAAGCCCACACAA
65 CCCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTC-AAAGCCCACACAA
* * ** *
1465242 GCTGGTGACACCTT-CAGTCCTCAAAGAGCAGGACGCCTTCTC
129 GTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGA------CAC
**
1465284 CTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAATAGGATGCTTTCTTTTT
1 CTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGATG---TC--TTT
** * *
1465348 GCAAAGCCCACACAAGTTGGTGGCA-CCTTCTAGCCCTCAAAG-GACAAGACGCCTTTTCTTTTC
60 -CAAAGCCCACACAAGTTGGTGGCATTTTTC-AGTCCTCAAAGAG-CAGGACG-C----C-TTTC
* *
1465411 AAAGCCCACACGAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGTAGGACAC
116 AAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTCAAAGAGCAGGACAC
1465461 ACTTCTTTCC
Statistics
Matches: 558, Mismatches: 64, Indels: 102
0.77 0.09 0.14
Matches are distributed among these distances:
154 100 0.18
155 1 0.00
156 2 0.00
157 2 0.00
158 1 0.00
159 20 0.04
161 7 0.01
162 1 0.00
163 2 0.00
165 132 0.24
166 20 0.04
167 6 0.01
168 17 0.03
169 30 0.05
170 2 0.00
171 51 0.09
172 7 0.01
173 2 0.00
174 3 0.01
175 20 0.04
176 37 0.07
177 3 0.01
180 4 0.01
181 46 0.08
182 20 0.04
183 22 0.04
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (165 bp):
CTTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGTCTTTCAAAGC
CCACACAAGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACAAGT
TGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACAC
Found at i:1465354 original size:61 final size:60
Alignment explanation
Indices: 1465229--1465451 Score: 263
Period size: 61 Copynumber: 3.7 Consensus size: 60
1465219 GATGCCATCT
* * * *
1465229 AAAGCCCACACAAGCTGGTGACACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT-
1 AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAACAGGACGCCTT-TCTTTTTC
* * *
1465289 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAATAGGATG-CTTTCTTTTTGC
1 AAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGAACAGGACGCCTTTCTTTTT-C
* * *
1465350 AAAGCCCACACAAGTTGGTGGCACCTTCTAGCCCTCAAAGGACAAGACGCCTTT-TCTTTTC
1 AAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAACAGGACGCCTTTCT-TTTTC
* *
1465411 AAAGCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGA
1 AAAGCCCACACAAGTTGGTGGCAC-CTTCAGTCCTCAAAGA
1465452 GTAGGACACA
Statistics
Matches: 139, Mismatches: 17, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
59 6 0.04
60 28 0.20
61 94 0.68
62 11 0.08
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (60 bp):
AAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAACAGGACGCCTTTCTTTTTC
Found at i:1465427 original size:122 final size:121
Alignment explanation
Indices: 1465229--1465457 Score: 354
Period size: 122 Copynumber: 1.9 Consensus size: 121
1465219 GATGCCATCT
* *
1465229 AAAGCCCACACAAGCTGGTGACACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGC
1 AAAGCCCACACAAGCTGGTGACACCTTCAGCCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGC
1465294 CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAATAGGATGCTTTCTTTTTGC
66 CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAATAGGATGCTTTCTTTTTGC
* * *
1465350 AAAGCCCACACAAGTTGGTGGCACCTTCTAGCCCTCAAAG-GACAAGACGCCTT-TTCTTTTCAA
1 AAAGCCCACACAAGCTGGTGACACCTTC-AGCCCTCAAAGAG-CAAGACGCCTTCTCCTTTT-AA
* *
1465413 AGCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGTAGGA
63 AGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAATAGGA
1465458 CACACTTCTT
Statistics
Matches: 98, Mismatches: 7, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
121 33 0.34
122 65 0.66
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (121 bp):
AAAGCCCACACAAGCTGGTGACACCTTCAGCCCTCAAAGAGCAAGACGCCTTCTCCTTTTAAAGC
CCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAATAGGATGCTTTCTTTTTGC
Found at i:1465562 original size:42 final size:42
Alignment explanation
Indices: 1465494--1465574 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 42
1465484 TTGTCCTCAA
*
1465494 AGAGCAGGACGCACTTTATTTTCCTTTTTCATTTATCCTTAG
1 AGAGCAGGACGCACTTTATTTCCCTTTTTCATTTATCCTTAG
* * * *
1465536 AGAGCAGGACGTA-TTTCGTTTCCCTTTTTCCTTTGTCCT
1 AGAGCAGGACGCACTTT-ATTTCCCTTTTTCATTTATCCT
1465575 CGAAAAACAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 3 0.09
42 30 0.91
ACGTcount: A:0.17, C:0.23, G:0.16, T:0.43
Consensus pattern (42 bp):
AGAGCAGGACGCACTTTATTTCCCTTTTTCATTTATCCTTAG
Found at i:1466379 original size:31 final size:32
Alignment explanation
Indices: 1466341--1466418 Score: 113
Period size: 32 Copynumber: 2.5 Consensus size: 32
1466331 TACAAACAGT
* *
1466341 AAATGTATCGATGCGTAAG-TTTGTATCGATA
1 AAATGTATCGATACATAAGTTTTGTATCGATA
1466372 AAATGTATCGATACATAAGTTTTGTATCGATA
1 AAATGTATCGATACATAAGTTTTGTATCGATA
* *
1466404 TAATGTATCGCTACA
1 AAATGTATCGATACA
1466419 AAGCTACTGC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
31 17 0.40
32 25 0.60
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AAATGTATCGATACATAAGTTTTGTATCGATA
Found at i:1466475 original size:13 final size:13
Alignment explanation
Indices: 1466457--1466517 Score: 71
Period size: 13 Copynumber: 5.2 Consensus size: 13
1466447 TATTTTTCAA
1466457 TGTATCGATACAT
1 TGTATCGATACAT
1466470 TGTATCGATACAT
1 TGTATCGATACAT
*
1466483 T-T-T---T-CAA
1 TGTATCGATACAT
1466490 TGTATCGATACAT
1 TGTATCGATACAT
1466503 TGTATCGATACAT
1 TGTATCGATACAT
1466516 TG
1 TG
1466518 ATCTTTGTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 12
0.74 0.04 0.22
Matches are distributed among these distances:
7 3 0.08
8 2 0.05
9 1 0.03
11 1 0.03
12 2 0.05
13 31 0.77
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1466479 original size:33 final size:33
Alignment explanation
Indices: 1466437--1466535 Score: 153
Period size: 33 Copynumber: 3.0 Consensus size: 33
1466427 GCCAAAGAAA
*
1466437 TGTATCGATATATTTTTCAATGTATCGATACAT
1 TGTATCGATACATTTTTCAATGTATCGATACAT
1466470 TGTATCGATACATTTTTCAATGTATCGATACAT
1 TGTATCGATACATTTTTCAATGTATCGATACAT
** **
1466503 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTTTTCAATGTATCGATACAT
1466536 CTAGAAAGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.29, C:0.14, G:0.13, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATTTTTCAATGTATCGATACAT
Found at i:1466495 original size:20 final size:20
Alignment explanation
Indices: 1466435--1466503 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1466425 CTGCCAAAGA
*
1466435 AATGTATCGATATATTTTTC
1 AATGTATCGATACATTTTTC
1466455 AATGTATCGATACA----T-
1 AATGTATCGATACATTTTTC
1466470 --TGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
1466488 AATGTATCGATACATT
1 AATGTATCGATACATT
1466504 GTATCGATAC
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
13 12 0.29
16 1 0.02
17 1 0.02
20 27 0.66
ACGTcount: A:0.32, C:0.13, G:0.12, T:0.43
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:1468935 original size:51 final size:51
Alignment explanation
Indices: 1468879--1469217 Score: 371
Period size: 51 Copynumber: 6.6 Consensus size: 51
1468869 TTAAGTTTCT
* *
1468879 CAATTTTTCATAATCGAGGG-TACTCCAACCCCGGTTTTATTTCTAAAACAC
1 CAATTTTTCACAATCG-GGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * * *
1468930 TAATTTTTCACAATCGGGGATACTCTAACTCCGATTTTATTT-TCGAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCT-AAAACAC
* * * * *
1468981 CAATTTTCCACAATCGGGGATACTCCAACTCTGATTTTTTTTC-GAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * * *
1469031 CAATTTTCCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTA-TTTCTAAAACAC
* * *
1469083 CAA-TTTTCTATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACAC
1 CAATTTTTC-ACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
* * * * * *
1469134 CAATTCTCCGCAATCGGGGATATTCCAACTCCGATTTTATTTCCAAAACAC
1 CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
** *
1469185 TGACTTTTCACAATCGGGGATACTCCAACCCCG
1 CAATTTTTCACAATCGGGGATACTCCAACCCCG
1469218 TTATTTTCGA
Statistics
Matches: 244, Mismatches: 37, Indels: 14
0.83 0.13 0.05
Matches are distributed among these distances:
50 47 0.19
51 158 0.65
52 39 0.16
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (51 bp):
CAATTTTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCTAAAACAC
Found at i:1469109 original size:102 final size:100
Alignment explanation
Indices: 1468883--1469214 Score: 409
Period size: 102 Copynumber: 3.3 Consensus size: 100
1468873 GTTTCTCAAT
* * * *
1468883 TTTTCATAATCGAGGG-TACTCCAACCCCGGTTTTATTTCTAAAACACTAATTTTTCACAATCGG
1 TTTTCACAATCG-GGGATACTCCAA-CCTGGTTTTATTTCTAAAACACCAATTTTCCACAATCGG
* *
1468947 GGATACTCTAACTCCGATTTTATTTTCGAAACACCAA
64 GGATACTCCAACTCCGATTTTATTTTCAAAACACCAA
* * *
1468984 TTTTCCACAATCGGGGATACTCCAACTCTGATTTTTTTTC-GAAACACCAATTTTCCACAATCGG
1 TTTT-CACAATCGGGGATACTCCAAC-CTGGTTTTATTTCTAAAACACCAATTTTCCACAATCGG
*
1469048 GGATACTCCAAC-CCTGGTTTTATTTTCAAAAACACCAA
64 GGATACTCCAACTCC-GATTTTATTTTC-AAAACACCAA
* * *
1469086 TTTTCTATAATCGGGGATACTCCAACCTCGGTTTTATTTCTAAAACACCAATTCTCCGCAATCGG
1 TTTTC-ACAATCGGGGATACTCCAACCT-GGTTTTATTTCTAAAACACCAATTTTCCACAATCGG
* * * *
1469151 GGATATTCCAACTCCGATTTTATTTCCAAAACACTGAC
64 GGATACTCCAACTCCGATTTTATTTTCAAAACAC-CAA
1469189 TTTTCACAATCGGGGATACTCCAACC
1 TTTTCACAATCGGGGATACTCCAACC
1469215 CCGTTATTTT
Statistics
Matches: 199, Mismatches: 22, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
100 2 0.01
101 54 0.27
102 93 0.47
103 48 0.24
104 2 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (100 bp):
TTTTCACAATCGGGGATACTCCAACCTGGTTTTATTTCTAAAACACCAATTTTCCACAATCGGGG
ATACTCCAACTCCGATTTTATTTTCAAAACACCAA
Found at i:1469281 original size:79 final size:79
Alignment explanation
Indices: 1469149--1469418 Score: 305
Period size: 79 Copynumber: 3.4 Consensus size: 79
1469139 CTCCGCAATC
* * *
1469149 GGGGATATTCCAACTCC-GATTTTATTTCCAAAACA-CTGACTTTTCACAATCGGGGATACTCCA
1 GGGGATACTCCAAC-CCTGATTTTATTTCCAAAACATC-AATTTTTCACAATCGGGGATACTCCA
1469212 ACCCCGTTATTTTCGA
64 ACCCCGTTATTTTCGA
* * * * *
1469228 GGGGATACTCCAACCCTGGTTTTATTTCTAAAACATCAATTTTTTATAGTCGGGGATACTCCAAC
1 GGGGATACTCCAACCCTGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
1469293 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * * * * * *
1469307 GAGAATGCTCCAA-TCTCGATTTTATTTCCAAATCATCGATTTTTCACAACCAGGGATACTCCAA
1 GGGGATACTCCAACCCT-GATTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAA
* *
1469371 CCCCATTATTTTCAA
65 CCCCGTTATTTTCGA
*
1469386 GGGGATACTCCAACCCTG-TTATTATCTCCAAAA
1 GGGGATACTCCAACCCTGATT-TTATTTCCAAAA
1469419 TATTAAATTT
Statistics
Matches: 157, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
78 6 0.04
79 148 0.94
80 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
GGGGATACTCCAACCCTGATTTTATTTCCAAAACATCAATTTTTCACAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:1474146 original size:13 final size:13
Alignment explanation
Indices: 1474128--1474152 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1474118 ATAATGCACA
1474128 GTATCGATACATT
1 GTATCGATACATT
1474141 GTATCGATACAT
1 GTATCGATACAT
1474153 GACCATTGTA
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
GTATCGATACATT
Found at i:1474259 original size:13 final size:13
Alignment explanation
Indices: 1474241--1474266 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1474231 ACATACAAGA
1474241 TGTATCGATACAT
1 TGTATCGATACAT
1474254 TGTATCGATACAT
1 TGTATCGATACAT
1474267 GACCAAATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1474282 original size:33 final size:32
Alignment explanation
Indices: 1474221--1474288 Score: 111
Period size: 33 Copynumber: 2.1 Consensus size: 32
1474211 CCCTAACTGT
1474221 TTGTATCGATACATACAAGATGTATCGATACA
1 TTGTATCGATACATACAAGATGTATCGATACA
1474253 TTGTATCGATACATGACCAA-ATGTATCGATACA
1 TTGTATCGATACAT-A-CAAGATGTATCGATACA
1474286 TTG
1 TTG
1474289 GCTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
32 14 0.41
33 17 0.50
34 3 0.09
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (32 bp):
TTGTATCGATACATACAAGATGTATCGATACA
Found at i:1475559 original size:4 final size:4
Alignment explanation
Indices: 1475550--1475580 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
1475540 TTTTGAGATG
1475550 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1475581 GTTTTGTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:1485682 original size:10 final size:10
Alignment explanation
Indices: 1485666--1485699 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
1485656 TTTCTTTTTT
1485666 AAAAAAAAA-
1 AAAAAAAAAC
1485675 ATAAAAAAAAC
1 A-AAAAAAAAC
1485686 AAAAAAAAAC
1 AAAAAAAAAC
1485696 AAAA
1 AAAA
1485700 TAAAGAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 1 0.04
10 21 0.91
11 1 0.04
ACGTcount: A:0.91, C:0.06, G:0.00, T:0.03
Consensus pattern (10 bp):
AAAAAAAAAC
Found at i:1485709 original size:10 final size:9
Alignment explanation
Indices: 1485668--1485718 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
1485658 TCTTTTTTAA
*
1485668 AAAAAAAAT
1 AAAAAAAAG
*
1485677 AAAAAAAAC
1 AAAAAAAAG
1485686 AAAAAAAA-
1 AAAAAAAAG
1485694 ACAAAATAAAG
1 A-AAAA-AAAG
1485705 AAAAAAAGAG
1 AAAAAAA-AG
1485715 AAAA
1 AAAA
1485719 TGAAAGAACC
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
8 1 0.03
9 22 0.59
10 13 0.35
11 1 0.03
ACGTcount: A:0.86, C:0.04, G:0.06, T:0.04
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:1485724 original size:20 final size:19
Alignment explanation
Indices: 1485667--1485726 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
1485657 TTCTTTTTTA
* * *
1485667 AAAAAAAAATAAAAAAAAC
1 AAAAAAAAACAAAATAAAG
1485686 AAAAAAAAACAAAATAAAG
1 AAAAAAAAACAAAATAAAG
* *
1485705 AAAAAAAGAGAAAATGAAAG
1 AAAAAAAAACAAAAT-AAAG
1485725 AA
1 AA
1485727 CCTGCTTAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.83
20 6 0.17
ACGTcount: A:0.83, C:0.03, G:0.08, T:0.05
Consensus pattern (19 bp):
AAAAAAAAACAAAATAAAG
Found at i:1486905 original size:60 final size:60
Alignment explanation
Indices: 1486812--1487303 Score: 673
Period size: 60 Copynumber: 8.1 Consensus size: 60
1486802 GAGCAGGATG
* * *
1486812 CCTTTCAAAGCCCACACAAATTGGTGGCACCTTCAGTCCTTAAAGAGTAGGATGCCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * *
1486872 CCTTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
1486932 CCTTTCAAAGCCTACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAAAGTAGGATGCCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGATGCCTTTT
* *
1486994 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGATG-CTTTCT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCCTTT-T
*
1487055 CCTTTCAAAGCCCACACAAGTTGGTGGGACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
* *
1487115 CCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAACAGCAGGATGCCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCAC-CTTC-AGTCCTCAAAGAGCAGGATGCCTTTT
* * * *
1487177 CCTTTTAAAGCCCACGCAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGTCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGATGCCTTTT
* * * * * *
1487238 CTTTTCAAATCCCACACGAGTTGGTGACACTTTCTAGTCCTCAAAGAGCAAGATGCCTTTT
1 CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGATGCCTTTT
1487299 -CTTTC
1 CCTTTC
1487304 TCTCATTTGT
Statistics
Matches: 381, Mismatches: 42, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
60 139 0.36
61 135 0.35
62 107 0.28
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (60 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTT
Found at i:1487001 original size:122 final size:121
Alignment explanation
Indices: 1486787--1487303 Score: 687
Period size: 122 Copynumber: 4.3 Consensus size: 121
1486777 CTCCTTTCAC
*
1486787 CCTT-TAGTCCTCAAAGAGCAGGATG------CCTTTCAAAGCCCACACAAATTGGTGGCACCTT
1 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
* * * *
1486845 CAGTCCTTAAAGAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGCTAGTGGCA
66 CAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1486901 CCTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCTACACAAGTTGGTGGCACTTT
1 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCAC-CT
* *
1486965 TCTAGTCCTCAAAAAGTAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
65 TC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * *
1487023 CCTTCCAATCCTCAAAGAGCAGGATG-CTTTCTCCTTTCAAAGCCCACACAAGTTGGTGGGACCT
1 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTT-TCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
*
1487087 TCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
65 TCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1487144 CTTTTCTAGTCCTCAAACAGCAGGATGCCTTTTCCTTTTAAAGCCCACGCAAGTTGGTGGCACCT
1 C-CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCT
* * * * *
1487209 TCCAGTCCTCAAAGAGCAGGACGTCTTTT-CTTTTCAAATCCCACACGAGTTGGTGACA
65 T-CAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTT-AAAGCCCACACAAGTTGGTGGCA
* *
1487267 CTTTCTAGTCCTCAAAGAGCAAGATGCCTTTT-CTTTC
1 CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTC
1487304 TCTCATTTGT
Statistics
Matches: 358, Mismatches: 30, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
114 24 0.07
120 28 0.08
121 60 0.17
122 148 0.41
123 98 0.27
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (121 bp):
CCTTCTAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACCTT
CAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1487092 original size:183 final size:183
Alignment explanation
Indices: 1486812--1487303 Score: 756
Period size: 183 Copynumber: 2.7 Consensus size: 183
1486802 GAGCAGGATG
* * * *
1486812 CCTTTCAAAGCCCACACAAATTGGTGGCACCTT-CAGTCCTTAAAGAGTAGGATGCCTTTTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCCTT
* * *
1486876 TTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAA
66 TCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAA
* *
1486941 GCCTACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAAAGTAGGATGCCTTTT
131 GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAAAGCAGGATGCCTTTT
*
1486994 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAATCCTCAAAGAGCAGGATG-CTTTCTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTT-TCCT
*
1487058 TTCAAAGCCCACACAAGTTGGTGGGACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAA
65 TTCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAA
*
1487123 AGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAACAGCAGGATGCCTTTT
130 AGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAAAGCAGGATGCCTTTT
* * * *
1487177 CCTTTTAAAGCCCACGCAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGACGTCTTTTCTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCCTT
* * * * *
1487242 TCAAATCCCACACGAGTTGGTGACACTTTCTAGTCCTCAAAGAGCAAGATGCCTTTT-CTTTC
66 TCAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCAGGATGCCTTTTCCTTTC
1487304 TCTCATTTGT
Statistics
Matches: 284, Mismatches: 22, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
182 35 0.12
183 220 0.77
184 29 0.10
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.28
Consensus pattern (183 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCCTTTTCCTT
TCAAAGCCCACACAAGTTGGTGGCACCTTCAGTCCTCAAAGAGCAGGATGCCTTTTCCTTTCAAA
GCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAAAGCAGGATGCCTTTT
Found at i:1487361 original size:46 final size:46
Alignment explanation
Indices: 1487309--1487398 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
1487299 CTTTCTCTCA
*
1487309 TTTGTCCTCAAAGAGTAAGACAC-ATTCCATTCCTTTCTTTTCCCCT
1 TTTGTCCTCAAAGAGCAAGACACGATT-CATTCCTTTCTTTTCCCCT
* * *
1487355 TTTGTCCTCAAAGAGCAGGACACGCTTCATTTCTTTCTTTTCCC
1 TTTGTCCTCAAAGAGCAAGACACGATTCATTCCTTTCTTTTCCC
1487399 TTCTAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 37 0.95
47 2 0.05
ACGTcount: A:0.20, C:0.30, G:0.11, T:0.39
Consensus pattern (46 bp):
TTTGTCCTCAAAGAGCAAGACACGATTCATTCCTTTCTTTTCCCCT
Found at i:1487510 original size:41 final size:41
Alignment explanation
Indices: 1487432--1487510 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
1487422 GCGCTTTAAT
* ***
1487432 TTCCTTTTCCCTTTGTCCTCAAAGGGCATGTTGCATTTTAC
1 TTCCTTTTCCCTTTGTCCTCAAAGGGCAAGACCCATTTTAC
*
1487473 TTCCTTTTTCCTTTGTCCTC-AAGGAGCAAGACCCATTT
1 TTCCTTTTCCCTTTGTCCTCAAAGG-GCAAGACCCATTT
1487511 CTTTCTCCTT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
40 4 0.12
41 28 0.88
ACGTcount: A:0.16, C:0.28, G:0.14, T:0.42
Consensus pattern (41 bp):
TTCCTTTTCCCTTTGTCCTCAAAGGGCAAGACCCATTTTAC
Found at i:1490775 original size:102 final size:101
Alignment explanation
Indices: 1490599--1490862 Score: 366
Period size: 102 Copynumber: 2.6 Consensus size: 101
1490589 AGGGGAAACT
* * * * *
1490599 CCAACCCCGGATTTATTTCTAAAATATTAATTTCTCACAATCGAGGATAATCCAACCCTAATTTT
1 CCAACCCCGGCTTTATTTCT-AAATATTGATTTCTCACAATCGGGGATACTCCAACCCCAATTTT
*
1490664 ATTTCTAAAATGCCAATTTTTCACAATCAGGGATACA
65 ATTTCTAAAACGCCAATTTTTCACAATCAGGGATACA
* *
1490701 CCAACCCCGGCTTTATTTCTCAAATATTGATTTCTCATAATCGGGGATACTCAAACCCCAATTTT
1 CCAACCCCGGCTTTATTTCT-AAATATTGATTTCTCACAATCGGGGATACTCCAACCCCAATTTT
* *
1490766 ATTTCTAAAACGCCAATTTTTCACAATCGGGGATACT
65 ATTTCTAAAACGCCAATTTTTCACAATCAGGGATACA
* * * * *
1490803 CCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATTGGGGATACTCCAACCCCA
1 CCAACCCCGGCTTTATTTCTAAA-TATTGATTTCTCACAATCGGGGATACTCCAACCCCA
1490863 TTATTTTCAC
Statistics
Matches: 143, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
101 3 0.02
102 140 0.98
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (101 bp):
CCAACCCCGGCTTTATTTCTAAATATTGATTTCTCACAATCGGGGATACTCCAACCCCAATTTTA
TTTCTAAAACGCCAATTTTTCACAATCAGGGATACA
Found at i:1490819 original size:51 final size:51
Alignment explanation
Indices: 1490590--1490861 Score: 265
Period size: 51 Copynumber: 5.3 Consensus size: 51
1490580 TTATTTTCAA
* * * *
1490590 GGGGAAACTCCAACCCCGGATTTATTTCTAAAATATTAATTTCTCACAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCAATTTTTCACAATC
* * **** **
1490641 GAGGATAATCCAACCCTAATTTTATTTCTAAAATGCCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCAATTTTTCACAATC
* * * ** * *
1490692 AGGGATACACCAACCCCGGCTTTATTTCTCAAATATTGATTTCTCATAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCAATTTTTCACAATC
* *** ***
1490743 GGGGATACTCAAACCCCAATTTTATTTCTAAAACGCCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCAATTTTTCACAATC
* ** * *
1490794 GGGGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTTCACAATT
1 GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCAATTTTTCACAATC
1490845 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
1490862 ATTATTTTCA
Statistics
Matches: 171, Mismatches: 50, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
51 171 1.00
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGGCTTTATTTCTAAAATATCAATTTTTCACAATC
Found at i:1495964 original size:50 final size:51
Alignment explanation
Indices: 1495889--1496005 Score: 191
Period size: 51 Copynumber: 2.3 Consensus size: 51
1495879 AAATGCCTGC
* *
1495889 ATGTATTGATACATTTGGGTCAAAA-CTAGAATGTATCGATATAATGAAAA
1 ATGTATTGATACATTTGGGTCAAAACCCAGAATGTATCGATACAATGAAAA
1495939 ATGTATTGATACATTTGGGTCAAAACCCAGAATGTATCGATACAATGAAAA
1 ATGTATTGATACATTTGGGTCAAAACCCAGAATGTATCGATACAATGAAAA
**
1495990 ATGTATCAATACATTT
1 ATGTATTGATACATTT
1496006 TGTTTCCAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 25 0.40
51 37 0.60
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.32
Consensus pattern (51 bp):
ATGTATTGATACATTTGGGTCAAAACCCAGAATGTATCGATACAATGAAAA
Found at i:1496176 original size:21 final size:22
Alignment explanation
Indices: 1496152--1496195 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
1496142 ATTAAGACCT
*
1496152 TGTATCGATACATTCAAG-AAA
1 TGTATCAATACATTCAAGCAAA
*
1496173 TGTATCAATACATTGAAGCAAA
1 TGTATCAATACATTCAAGCAAA
1496195 T
1 T
1496196 TTGTGACTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.30
Consensus pattern (22 bp):
TGTATCAATACATTCAAGCAAA
Found at i:1499824 original size:13 final size:13
Alignment explanation
Indices: 1499806--1499831 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1499796 CATTATTCGA
1499806 TGTATCGATACAT
1 TGTATCGATACAT
1499819 TGTATCGATACAT
1 TGTATCGATACAT
1499832 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1502263 original size:51 final size:50
Alignment explanation
Indices: 1502200--1502367 Score: 176
Period size: 51 Copynumber: 3.3 Consensus size: 50
1502190 TTTTTATCTT
* * *
1502200 GGGGATACTCCAA-TCCCGGTTTCATTTCCAAAACATCAATTTTTCTCAATC
1 GGGGATACTCCAACT-CCGATTTTATTTCCAAAACA-CAATTTTTCACAATC
* * * ** *
1502251 GGGGATACTCCAACTCCGATTTTATTTCTAAAACGCCCATTTCCCCGCAATC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAAC-ACAATTT-TTCACAATC
* *
1502303 GGGGATACTCCAACTCTGATTTTATTTTCAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACTCCGATTTTATTTCCAAAACAC-AATTTTTCACAATC
*
1502354 GAGGATACTCCAAC
1 GGGGATACTCCAAC
1502368 CCCGTTATTT
Statistics
Matches: 96, Mismatches: 17, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
51 54 0.56
52 42 0.44
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (50 bp):
GGGGATACTCCAACTCCGATTTTATTTCCAAAACACAATTTTTCACAATC
Found at i:1502389 original size:28 final size:28
Alignment explanation
Indices: 1502358--1502427 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
1502348 ACAATCGAGG
1502358 ATACTCCAACCCCGTTA-TTTC-ATCGGGC
1 ATACTCCAACCCCGTTACTTTCGA--GGGC
* * *
1502386 ATACTCCCACCCTGTTACTTTCGAGGGG
1 ATACTCCAACCCCGTTACTTTCGAGGGC
1502414 ATACTCCAACCCCG
1 ATACTCCAACCCCG
1502428 GCTTTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
28 30 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.21, C:0.37, G:0.16, T:0.26
Consensus pattern (28 bp):
ATACTCCAACCCCGTTACTTTCGAGGGC
Found at i:1502497 original size:107 final size:107
Alignment explanation
Indices: 1502303--1502505 Score: 255
Period size: 107 Copynumber: 1.9 Consensus size: 107
1502293 CCCCGCAATC
* * * *
1502303 GGGGATACTCCAACTCTGATTTTATTTTCAAAACACTAATTTTTCACAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTCTCACAATCGAGGATACTCCAAC
* *
1502368 CCCGTTATTTCATCGGGCATACTCCCACCCTGTTACTTTCGA
66 CCCGTTATTTCATAGGGCATACTCCAACCCTGTTACTTTCGA
* * * * * * * *
1502410 GGGGATACTCCAACCCCGGCTTTATTTTTAAAATATTAATTTCTCATAATCGGGGATATTCCAAT
1 GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTCTCACAATCGAGGATACTCCAAC
*
1502475 CCCGTTATTTC-TGAGGGGATACTCCAACCCT
66 CCCGTTATTTCAT-AGGGCATACTCCAACCCT
1502506 AGTTTTATTT
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
106 1 0.01
107 79 0.99
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTTCAAAACACTAATTTCTCACAATCGAGGATACTCCAAC
CCCGTTATTTCATAGGGCATACTCCAACCCTGTTACTTTCGA
Found at i:1502513 original size:79 final size:79
Alignment explanation
Indices: 1502379--1502552 Score: 201
Period size: 79 Copynumber: 2.2 Consensus size: 79
1502369 CCGTTATTTC
* * * *
1502379 ATCGGGCATACTCCCA-CCCTGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATTTTTAAAA
1 ATCGGGGATACTCCAATCCC-GTTACTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAA
* ** *
1502443 TATTAATT-TCTCATA
65 CACCAATTCTC-CACA
* * *
1502458 ATCGGGGATATTCCAATCCCGTTA-TTTCTGAGGGGATACTCCAACCCTAGTTTTATTTCTAAAA
1 ATCGGGGATACTCCAATCCCGTTACTTTC-GAGGGGATACTCCAACCCCAGCTTTATTTCTAAAA
1502522 CACCAATTCTCCACA
65 CACCAATTCTCCACA
1502537 ATCGGGGATACTCCAA
1 ATCGGGGATACTCCAA
1502553 CTCCGATTTT
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
78 4 0.05
79 71 0.89
80 5 0.06
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
ATCGGGGATACTCCAATCCCGTTACTTTCGAGGGGATACTCCAACCCCAGCTTTATTTCTAAAAC
ACCAATTCTCCACA
Found at i:1502549 original size:51 final size:50
Alignment explanation
Indices: 1502489--1502610 Score: 163
Period size: 51 Copynumber: 2.4 Consensus size: 50
1502479 TTATTTCTGA
*
1502489 GGGGATACTCCAACCCTAGTTTTATTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCTA-TTTTATTTCCAAAACACCAATTCTCCACAATC
* * * *
1502540 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAAC-CCTATTTTATTTCCAAAACACCAATTCTCCACAATC
* *
1502591 AGGGATACTCCAGCCCTATT
1 GGGGATACTCCAACCCTATT
1502611 ATTTCATCGG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 5 0.08
51 54 0.87
52 3 0.05
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.30
Consensus pattern (50 bp):
GGGGATACTCCAACCCTATTTTATTTCCAAAACACCAATTCTCCACAATC
Found at i:1502640 original size:28 final size:27
Alignment explanation
Indices: 1502592--1502664 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
1502582 TTCACAATCA
* **
1502592 GGGATACTCCAGCCCTATTA-TTTCATCG
1 GGGATACTCCAACCCCGTTATTTTCA--G
1502620 GGGATACTCCAACCCCGTTATTTTCGAG
1 GGGATACTCCAACCCCGTTATTTTC-AG
1502648 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
1502665 GCTTTATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
28 35 0.88
29 4 0.10
30 1 0.03
ACGTcount: A:0.22, C:0.32, G:0.21, T:0.26
Consensus pattern (27 bp):
GGGATACTCCAACCCCGTTATTTTCAG
Found at i:1502667 original size:237 final size:237
Alignment explanation
Indices: 1502251--1502741 Score: 718
Period size: 237 Copynumber: 2.1 Consensus size: 237
1502241 TTTCTCAATC
* * *
1502251 GGGGATACTCCAACTCCGATTTTATTTCTAAAACGCCCATTTCCCCGCAATCGGGGATACTCCAA
1 GGGGATACTCCAAC-CCGATTTTATTTCTAAAACGACCAATTCCCCACAATCGGGGATACTCCAA
* * *
1502316 CTCTGATTTTATTTTCAAAACACTAATTTTTCACAATCGAGGATACTCCAACCCCGTTATTTCAT
65 CTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACCCCATTATTTCAT
* * ** *
1502381 CGGGCATACTCCCACCCTGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATTTTTAAAATAT
130 CGGGCATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAC
* * * *
1502446 TAATTTCTCATAATCGGGGATATTCCAATCCCGTTA-TTTCTGA
195 TAATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTC-AA
* *
1502489 GGGGATACTCCAACCCTAGTTTTATTTCTAAAAC-ACCAATTCTCCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCGA-TTTTATTTCTAAAACGACCAATTCCCCACAATCGGGGATACTCCAA
* *
1502553 CTCCGATTTTATTTCCAAAACACTAATTTTTCACAATC-AGGGATACTCCAGCCCTATTATTTCA
65 CTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGA-GGATACTCCAACCCCATTATTTCA
* *
1502617 TCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATA
129 TCGGGCATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATA
*
1502682 CTAATTTTTCACAATCGGGGATACTCCAACCCCGTTATTTTCAA
194 CTAATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCAA
*
1502726 AGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1502742 CGTTATGATC
Statistics
Matches: 227, Mismatches: 23, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
236 1 0.00
237 193 0.85
238 33 0.15
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (237 bp):
GGGGATACTCCAACCCGATTTTATTTCTAAAACGACCAATTCCCCACAATCGGGGATACTCCAAC
TCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGAGGATACTCCAACCCCATTATTTCATC
GGGCATACTCCAACCCCGTTACTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATACT
AATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTTCAA
Found at i:1502673 original size:107 final size:107
Alignment explanation
Indices: 1502540--1502747 Score: 310
Period size: 107 Copynumber: 1.9 Consensus size: 107
1502530 CTCCACAATC
* * *
1502540 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATACTCCAGC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATACTCCAAC
* **
1502605 CCTATTA-TTTCATCGGGGATACTCCAACCCCGTTATTTTCGA
66 CCCATTATTTTCA-AAGGGATACTCCAACCCCGTTATTTTCGA
* * *
1502647 GGGGATACTCCAACCCCGGCTTTATTTCCAAAATACTAATTTTTCACAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATACTCCAAC
*
1502712 CCCGTTATTTTCAAAGGGATACTCCAACCCCGTTAT
66 CCCATTATTTTCAAAGGGATACTCCAACCCCGTTAT
1502748 GATCTCCAAA
Statistics
Matches: 90, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
107 85 0.94
108 5 0.06
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTTCACAATCAGGGATACTCCAAC
CCCATTATTTTCAAAGGGATACTCCAACCCCGTTATTTTCGA
Found at i:1504813 original size:4 final size:4
Alignment explanation
Indices: 1504804--1504864 Score: 122
Period size: 4 Copynumber: 15.2 Consensus size: 4
1504794 TATTTTGAGG
1504804 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
1 TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT TATT
1504852 TATT TATT TATT T
1 TATT TATT TATT T
1504865 TGTTTTATCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 57 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TATT
Found at i:1511032 original size:52 final size:52
Alignment explanation
Indices: 1510886--1511011 Score: 234
Period size: 52 Copynumber: 2.4 Consensus size: 52
1510876 AATATGAAAT
1510886 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
* *
1510938 TTTGTCTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1 TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
1510990 TTTGCCTGCATGTATCGATACA
1 TTTGCCTGCATGTATCGATACA
1511012 AAGATCAATG
Statistics
Matches: 70, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.26, C:0.18, G:0.19, T:0.37
Consensus pattern (52 bp):
TTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGCAAA
Found at i:1511113 original size:19 final size:19
Alignment explanation
Indices: 1511084--1511146 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
1511074 AGCAGTACAT
1511084 TGTAT-GATACAACACTTA
1 TGTATCGATACAACACTTA
1511102 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
*
1511115 TGTATCGATACAACACTAA
1 TGTATCGATACAACACTTA
1511134 TGTATCGATACAA
1 TGTATCGATACAA
1511147 ATCGTTGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 13
0.73 0.02 0.25
Matches are distributed among these distances:
13 9 0.24
14 1 0.03
16 6 0.16
18 5 0.14
19 16 0.43
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:1511120 original size:13 final size:13
Alignment explanation
Indices: 1511102--1511126 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1511092 ACAACACTTA
1511102 TGTATCGATACAT
1 TGTATCGATACAT
1511115 TGTATCGATACA
1 TGTATCGATACA
1511127 ACACTAATGT
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1511130 original size:32 final size:31
Alignment explanation
Indices: 1511079--1511145 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 31
1511069 TTCGTAGCAG
*
1511079 TACATTGTATGATACAACACTTATGTATCGA
1 TACATTGTATGATACAACACTAATGTATCGA
1511110 TACATTGTATCGATACAACACTAATGTATCGA
1 TACATTGTAT-GATACAACACTAATGTATCGA
1511142 TACA
1 TACA
1511146 AATCGTTGAA
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 10 0.29
32 24 0.71
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (31 bp):
TACATTGTATGATACAACACTAATGTATCGA
Found at i:1517019 original size:52 final size:51
Alignment explanation
Indices: 1516941--1517089 Score: 235
Period size: 52 Copynumber: 2.9 Consensus size: 51
1516931 CGAAATATGA
1516941 AAATTTGCCTGCATGTATCGATACATTGAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTG-ATAGTGTATCGATACATCTGGGC
* *
1516993 AAATTTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA-TTGATAGTGTATCGATACATCTGGGC
**
1517045 AAATTTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACATTGAT-AGTGTATCGATACA
1517090 ATGTATCGAT
Statistics
Matches: 89, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 85 0.96
53 2 0.02
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (51 bp):
AAATTTGCCTGCATGTATCGATACATTGATAGTGTATCGATACATCTGGGC
Found at i:1517096 original size:13 final size:13
Alignment explanation
Indices: 1517078--1517102 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1517068 CAAAGATCAG
1517078 TGTATCGATACAA
1 TGTATCGATACAA
1517091 TGTATCGATACA
1 TGTATCGATACA
1517103 TTTAAGTGAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1517180 original size:33 final size:33
Alignment explanation
Indices: 1517143--1517209 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1517133 AGTAGCTTAA
1517143 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1517176 ATTGTATCGATACAACACTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1517209 A
1 A
1517210 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.12, T:0.33
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1517183 original size:13 final size:13
Alignment explanation
Indices: 1517165--1517189 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1517155 CAAAAAAATA
1517165 TGTATCGATACAT
1 TGTATCGATACAT
1517178 TGTATCGATACA
1 TGTATCGATACA
1517190 ACACTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1517735 original size:17 final size:17
Alignment explanation
Indices: 1517713--1517767 Score: 85
Period size: 17 Copynumber: 3.3 Consensus size: 17
1517703 TCTTTTTAAA
1517713 AAAAAACAAAAAACAAC
1 AAAAAACAAAAAACAAC
* *
1517730 AAAAAATAAAAAACAAA
1 AAAAAACAAAAAACAAC
1517747 AAAAAACAAAAAA-AAC
1 AAAAAACAAAAAACAAC
1517763 AAAAA
1 AAAAA
1517768 GAAAAAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
16 7 0.21
17 27 0.79
ACGTcount: A:0.87, C:0.11, G:0.00, T:0.02
Consensus pattern (17 bp):
AAAAAACAAAAAACAAC
Found at i:1517744 original size:24 final size:24
Alignment explanation
Indices: 1517710--1517775 Score: 96
Period size: 24 Copynumber: 2.7 Consensus size: 24
1517700 CATTCTTTTT
*
1517710 AAAAAAAAACAAAAAACAACAAAA
1 AAAAAAAAACAAAAAAAAACAAAA
*
1517734 AATAAAAAACAAAAAAAAACAAAA
1 AAAAAAAAACAAAAAAAAACAAAA
*
1517758 AAAACAAAAAGAAAAAAA
1 AAAA-AAAAACAAAAAAA
1517776 GAGGAAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 25 0.68
25 12 0.32
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.02
Consensus pattern (24 bp):
AAAAAAAAACAAAAAAAAACAAAA
Found at i:1517788 original size:1 final size:1
Alignment explanation
Indices: 1517710--1517775 Score: 60
Period size: 1 Copynumber: 66.0 Consensus size: 1
1517700 CATTCTTTTT
* * * * * * * *
1517710 AAAAAAAAACAAAAAACAACAAAAAATAAAAAACAAAAAAAAACAAAAAAAACAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1517775 A
1 A
1517776 GAGGAAAAAA
Statistics
Matches: 49, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 49 1.00
ACGTcount: A:0.88, C:0.09, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:1519068 original size:61 final size:60
Alignment explanation
Indices: 1518885--1519367 Score: 477
Period size: 61 Copynumber: 7.8 Consensus size: 60
1518875 TAGGACGCCC
* *
1518885 TTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACG---GC-TT
1 TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTTTCTTT
* * * * *
1518941 TT-AAAGCCCACATAAGCTGGTGGCAC-CTTAAGTCCTCAAAGAGCAGGACGCCTTCTCCTT
1 TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACG-CTT-TCTTT
* *
1519001 TT-AAAGCCCATACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTT
1 TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTTTCTTT
* *
1519060 TTGCAAAGCCCACACAAGTTGGTGGCAC-TTCCTAGTCCTCAAAAAGCAGGACGCTCTCTCCTTT
1 TT-CAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAAGAGCAGGACG-------CTTT
1519124 CGCCTTT
57 ---CTTT
* * * * *
1519131 TTCTTTTAAAGCCCATATAAGCTGGTGGCAC-CTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCT
1 TTC----AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACG-CTT-TCTT
1519195 T
60 T
*
1519196 TT-AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTT
1 TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTTTC-TTT
* *
1519256 TTCAAAGCCCACACAAGTTGGTGGCA-TCTTCCAGTCCTCAAAGGGCAGGACGCCTTT-TCTT
1 TTCAAAGCCCACACAAGTTGGTGGCACT-TTTCAGTCCTCAAAGAGCAGGACG-CTTTCT-TT
* *
1519317 TTCAAAGCCCACACGAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCGGGAC
1 TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGAC
1519368 ACACTTCCTT
Statistics
Matches: 359, Mismatches: 36, Indels: 59
0.79 0.08 0.13
Matches are distributed among these distances:
54 22 0.06
55 22 0.06
56 2 0.01
59 9 0.03
60 61 0.17
61 175 0.49
62 5 0.01
65 5 0.01
67 4 0.01
68 5 0.01
70 1 0.00
71 6 0.02
73 19 0.05
74 23 0.06
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.27
Consensus pattern (60 bp):
TTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACGCTTTCTTT
Found at i:1519270 original size:195 final size:195
Alignment explanation
Indices: 1518938--1519308 Score: 672
Period size: 195 Copynumber: 1.9 Consensus size: 195
1518928 AGCAGGACGG
1518938 CTTTTAAAGCCCACATAAGCTGGTGGCACCTTAAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
1 CTTTTAAAGCCCACATAAGCTGGTGGCACCTTAAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
*
1519003 AAAGCCCATACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAG
66 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAG
1519068 CCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAAAGCAGGACGCTCTCTCCTTTCGCCTTTT
131 CCCACACAAGTTGGTGGCATCTTCC-AGTCCTCAAAAAGCAGGACGCTCTCTCCTTTCGCCTTTT
1519132 T
195 T
* *
1519133 CTTTTAAAGCCCATATAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
1 CTTTTAAAGCCCACATAAGCTGGTGGCACCTTAAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
*
1519198 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTTCAAAG
66 AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAG
**
1519263 CCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAGGGCAGGACGC
131 CCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAAAGCAGGACGC
1519309 CTTTTCTTTT
Statistics
Matches: 169, Mismatches: 6, Indels: 2
0.95 0.03 0.01
Matches are distributed among these distances:
195 164 0.97
196 5 0.03
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (195 bp):
CTTTTAAAGCCCACATAAGCTGGTGGCACCTTAAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTT
AAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGATGCTTTCTTTTTGCAAAG
CCCACACAAGTTGGTGGCATCTTCCAGTCCTCAAAAAGCAGGACGCTCTCTCCTTTCGCCTTTTT
Found at i:1519418 original size:45 final size:42
Alignment explanation
Indices: 1519351--1519487 Score: 114
Period size: 42 Copynumber: 3.2 Consensus size: 42
1519341 CACTTTTCAG
* *
1519351 TCCTCAAAGAGCGGGACACACTTCCTTCCATT-CTTTTCTCTTTTA
1 TCCTCAAAGAGCAGGACACACTTCATT---TTCCTTTT-TCTTTTA
** *
1519396 TCCTCAAAGAGCAGGATGCACTTTATTTTCCTTTTTCTTTTA
1 TCCTCAAAGAGCAGGACACACTTCATTTTCCTTTTTCTTTTA
* ** * * * * *
1519438 TCCTCAGAGAGCAGGACGTATTTCGTTTCCCTTTTTCCTTTG
1 TCCTCAAAGAGCAGGACACACTTCATTTTCCTTTTTCTTTTA
1519480 TCCTCAAA
1 TCCTCAAA
1519488 AAAATGGGAT
Statistics
Matches: 76, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
42 49 0.64
43 5 0.07
45 22 0.29
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (42 bp):
TCCTCAAAGAGCAGGACACACTTCATTTTCCTTTTTCTTTTA
Found at i:1519471 original size:42 final size:42
Alignment explanation
Indices: 1519383--1519487 Score: 122
Period size: 42 Copynumber: 2.5 Consensus size: 42
1519373 TCCTTCCATT
* *
1519383 CTTTTCTCTTTTATCCTCAAAGAGCAGGATGCACTTTATTTTC
1 CTTTT-TCTTTTATCCTCAAAGAGCAGGACGCACTTTATTTCC
* * *
1519426 CTTTTTCTTTTATCCTCAGAGAGCAGGACGTA-TTTCGTTTCC
1 CTTTTTCTTTTATCCTCAAAGAGCAGGACGCACTTT-ATTTCC
* *
1519468 CTTTTTCCTTTGTCCTCAAA
1 CTTTTTCTTTTATCCTCAAA
1519488 AAAATGGGAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
41 3 0.06
42 45 0.85
43 5 0.09
ACGTcount: A:0.18, C:0.25, G:0.12, T:0.45
Consensus pattern (42 bp):
CTTTTTCTTTTATCCTCAAAGAGCAGGACGCACTTTATTTCC
Found at i:1520048 original size:19 final size:19
Alignment explanation
Indices: 1520024--1520090 Score: 92
Period size: 19 Copynumber: 3.8 Consensus size: 19
1520014 ATTCAACTAT
1520024 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1520043 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
1520057 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
1520075 TTGTATCGATACATAA
1 TTGTATCGATACATAA
1520091 TTCGCTACTG
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 27 0.64
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:1520062 original size:13 final size:13
Alignment explanation
Indices: 1520044--1520068 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1520034 ACATAAGTGT
1520044 TGTATCGATACAA
1 TGTATCGATACAA
1520057 TGTATCGATACA
1 TGTATCGATACA
1520069 TAAGTGTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1520066 original size:32 final size:32
Alignment explanation
Indices: 1520025--1520087 Score: 126
Period size: 32 Copynumber: 2.0 Consensus size: 32
1520015 TTCAACTATT
1520025 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1520057 TGTATCGATACATAAGTGTTGTATCGATACA
1 TGTATCGATACATAAGTGTTGTATCGATACA
1520088 TAATTCGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1520137 original size:20 final size:20
Alignment explanation
Indices: 1520112--1520176 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
1520102 CAAGAAAATA
1520112 TATCGATACATTACTCATTG
1 TATCGATACATTACTCATTG
1520132 TATCG----A-TA--CATTG
1 TATCGATACATTACTCATTG
1520145 TATCGATACATTACTCATTG
1 TATCGATACATTACTCATTG
1520165 TATCGATACATT
1 TATCGATACATT
1520177 GTATCGATAC
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 10 0.26
15 2 0.05
16 1 0.03
17 1 0.03
18 2 0.05
20 22 0.58
ACGTcount: A:0.31, C:0.18, G:0.11, T:0.40
Consensus pattern (20 bp):
TATCGATACATTACTCATTG
Found at i:1520145 original size:13 final size:13
Alignment explanation
Indices: 1520127--1520187 Score: 80
Period size: 13 Copynumber: 5.2 Consensus size: 13
1520117 ATACATTACT
1520127 CATTGTATCGATA
1 CATTGTATCGATA
1520140 CATTGTATCGATA
1 CATTGTATCGATA
1520153 CA-T-TA-C--T-
1 CATTGTATCGATA
1520160 CATTGTATCGATA
1 CATTGTATCGATA
1520173 CATTGTATCGATA
1 CATTGTATCGATA
1520186 CA
1 CA
1520188 CTGATCTTTG
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 2 0.05
10 2 0.05
11 2 0.05
12 2 0.05
13 30 0.71
ACGTcount: A:0.31, C:0.18, G:0.13, T:0.38
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1520154 original size:33 final size:33
Alignment explanation
Indices: 1520112--1520208 Score: 160
Period size: 33 Copynumber: 2.9 Consensus size: 33
1520102 CAAGAAAATA
1520112 TATCGATACATTACTCATTGTATCGATACATTG
1 TATCGATACATTACTCATTGTATCGATACATTG
1520145 TATCGATACATTACTCATTGTATCGATACATTG
1 TATCGATACATTACTCATTGTATCGATACATTG
* *
1520178 TATCGATACACTGA-TCTTTGTATCGATACAT
1 TATCGATACA-TTACTCATTGTATCGATACAT
1520209 GCAGGCAAAT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
33 59 0.97
34 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (33 bp):
TATCGATACATTACTCATTGTATCGATACATTG
Found at i:1523931 original size:13 final size:13
Alignment explanation
Indices: 1523913--1523938 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1523903 CATTATTCGA
1523913 TGTATCGATACAT
1 TGTATCGATACAT
1523926 TGTATCGATACAT
1 TGTATCGATACAT
1523939 CGATCTTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1526397 original size:52 final size:50
Alignment explanation
Indices: 1526309--1526452 Score: 180
Period size: 52 Copynumber: 2.8 Consensus size: 50
1526299 TCCCGGTTTC
** *
1526309 ATTTCCAAAACATAAATTTTGCTCAATCGGGGATACTCCAACTCCAATTTT
1 ATTTCCAAAACACCAATTTT-CACAATCGGGGATACTCCAACTCCAATTTT
* * *
1526360 ATTTCTAAAACACCCATTTCTCCACAATCGGGGATACTCCAACTCCGATTTT
1 ATTTCCAAAACACCAATTT-T-CACAATCGGGGATACTCCAACTCCAATTTT
* * *
1526412 ATTTCCAAAACACTAATTTTCACAATTGGGAATACTCCAAC
1 ATTTCCAAAACACCAATTTTCACAATCGGGGATACTCCAAC
1526453 CCCGTTATTT
Statistics
Matches: 80, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
50 19 0.24
51 16 0.20
52 45 0.56
ACGTcount: A:0.33, C:0.26, G:0.09, T:0.31
Consensus pattern (50 bp):
ATTTCCAAAACACCAATTTTCACAATCGGGGATACTCCAACTCCAATTTT
Found at i:1526475 original size:28 final size:27
Alignment explanation
Indices: 1526443--1526511 Score: 95
Period size: 28 Copynumber: 2.5 Consensus size: 27
1526433 ACAATTGGGA
1526443 ATACTCCAACCCCGTTA-TTTCATCGGGG
1 ATACTCCAACCCCGTTATTTTCA--GGGG
*
1526471 ATACTCCCACCCCGTTATTTTCGAGGGG
1 ATACTCCAACCCCGTTATTTTC-AGGGG
1526499 ATACTCCAACCCC
1 ATACTCCAACCCC
1526512 AACTTTATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
28 32 0.86
29 4 0.11
30 1 0.03
ACGTcount: A:0.22, C:0.36, G:0.16, T:0.26
Consensus pattern (27 bp):
ATACTCCAACCCCGTTATTTTCAGGGG
Found at i:1526555 original size:79 final size:79
Alignment explanation
Indices: 1526464--1526638 Score: 253
Period size: 79 Copynumber: 2.2 Consensus size: 79
1526454 CCGTTATTTC
* * *
1526464 ATCGGGGATACTCCCACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCTAAAAT
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAACTTTATTTCTAAAAC
** *
1526529 ATTAATT-TCTCATA
66 ACCAATTCTC-CACA
* **
1526543 ATCGGGGATACTCCAATCCCGTTATTTCCGAGGGGATACTCCAACCCCAGTTTTATTTCTAAAAC
1 ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAACTTTATTTCTAAAAC
1526608 ACCAATTCTCCACA
66 ACCAATTCTCCACA
1526622 ATCGGGGATACTCCAAC
1 ATCGGGGATACTCCAAC
1526639 TCCGATTTTA
Statistics
Matches: 85, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 83 0.98
80 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.29
Consensus pattern (79 bp):
ATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCAACTTTATTTCTAAAAC
ACCAATTCTCCACA
Found at i:1526581 original size:107 final size:106
Alignment explanation
Indices: 1526389--1526590 Score: 269
Period size: 107 Copynumber: 1.9 Consensus size: 106
1526379 CTCCACAATC
* * * *
1526389 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTCACAATTGGGAATACTCCAACC
1 GGGGATACTCCAACCCCAACTTTATTTCCAAAACACTAATTTTCACAATCGGGAATACTCCAACC
** *
1526454 CCGTTATTTCATCGGGGATACTCCCACCCCGTTATTTTCGA
66 CCGTTATTTCAGAGGGGATACTCCAACCCCGTTATTTTCGA
* * * * * *
1526495 GGGGATACTCCAACCCCAACTTTATTTCTAAAATATTAATTTCTCATAATCGGGGATACTCCAAT
1 GGGGATACTCCAACCCCAACTTTATTTCCAAAACACTAATTT-TCACAATCGGGAATACTCCAAC
*
1526560 CCCGTTATTTCCGAGGGGATACTCCAACCCC
65 CCCGTTATTTCAGAGGGGATACTCCAACCCC
1526591 AGTTTTATTT
Statistics
Matches: 81, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
106 36 0.44
107 45 0.56
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.30
Consensus pattern (106 bp):
GGGGATACTCCAACCCCAACTTTATTTCCAAAACACTAATTTTCACAATCGGGAATACTCCAACC
CCGTTATTTCAGAGGGGATACTCCAACCCCGTTATTTTCGA
Found at i:1526634 original size:51 final size:51
Alignment explanation
Indices: 1526574--1526683 Score: 159
Period size: 51 Copynumber: 2.2 Consensus size: 51
1526564 TTATTTCCGA
*
1526574 GGGGATACTCCAACCCC-AGTTTTATTTCTAAAACACCAATTCTCCACAATC
1 GGGGATACTCCAACCCCGA-TTTTATTTCCAAAACACCAATTCTCCACAATC
* * * *
1526625 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
1526676 GGGGATAC
1 GGGGATAC
1526684 ACCAGCCCTG
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
51 52 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTCTCCACAATC
Found at i:1526757 original size:237 final size:237
Alignment explanation
Indices: 1526337--1526827 Score: 768
Period size: 237 Copynumber: 2.1 Consensus size: 237
1526327 TTGCTCAATC
* *
1526337 GGGGATACTCCAACTCCAATTTTATTTCTAAAACACCCATTTCTCCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCCAATTCTCCACAATCGGGGATACTCCAA
* *
1526402 CTCCGATTTTATTTCCAAAACACTAATTTTCACAATTGGGAATACTCCAACCCCGTTATTTCATC
66 CTCCGATTTTATTTCCAAAACACTAATTTTCACAATCGGGAATACACCAACCCCGTTATTTCATC
* *
1526467 GGGGATACTCCCACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCTAAAATATT
131 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCTAAAATACT
* * *
1526532 AATTTCTCATAATCGGGGATACTCCAATCCCGTTATTTCCGA
196 AATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCAA
*
1526574 GGGGATACTCCAACCCCAGTTTTATTTCTAAAACA-CCAATTCTCCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCCAATTCTCCACAATCGGGGATACTCCAA
* * * *
1526638 CTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACACCAGCCCTGTTGTTTCAT
66 CTCCGATTTTATTTCCAAAACACTAA-TTTTCACAATCGGGAATACACCAACCCCGTTATTTCAT
** * *
1526703 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTTTGAAATAC
130 CGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCTAAAATAC
* * * *
1526768 TGATTTTTCACAATTGGGGATACTCCAACCCCGTTATTTTCAA
195 TAATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCAA
1526811 GGGGATACTCCAACCCC
1 GGGGATACTCCAACCCC
1526828 GTTATGATCT
Statistics
Matches: 231, Mismatches: 22, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
236 54 0.23
237 177 0.77
ACGTcount: A:0.27, C:0.28, G:0.14, T:0.31
Consensus pattern (237 bp):
GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCCAATTCTCCACAATCGGGGATACTCCAA
CTCCGATTTTATTTCCAAAACACTAATTTTCACAATCGGGAATACACCAACCCCGTTATTTCATC
GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAACTTTATTTCTAAAATACT
AATTTCTCACAATCGGGGATACTCCAACCCCGTTATTTCCAA
Found at i:1526815 original size:107 final size:107
Alignment explanation
Indices: 1526625--1526832 Score: 274
Period size: 107 Copynumber: 1.9 Consensus size: 107
1526615 CTCCACAATC
* * *
1526625 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACACCAGC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACACCAAC
* *
1526690 CCTGTTGTTTCATCGGGGATACTCCAACCCCGTTATTTTCGA
66 CCCGTTGTTTCATAGGGGATACTCCAACCCCGTTATTTTCGA
* *** * * * *
1526732 GGGGATACTCCAACCCCGGCTTTATTTTTGAAATACTGATTTTTCACAATTGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACACCAAC
*
1526797 CCCGTTATTTTCA-AGGGGATACTCCAACCCCGTTAT
66 CCCGTT-GTTTCATAGGGGATACTCCAACCCCGTTAT
1526833 GATCTCCAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
107 81 0.94
108 5 0.06
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAACACTAATTTTTCACAATCGGGGATACACCAAC
CCCGTTGTTTCATAGGGGATACTCCAACCCCGTTATTTTCGA
Found at i:1530048 original size:166 final size:163
Alignment explanation
Indices: 1529732--1530247 Score: 594
Period size: 163 Copynumber: 3.1 Consensus size: 163
1529722 GTTCAATGAC
** *** * * **
1529732 AATATTAT-ATGAATTTTAAAAATTTTAAATTGAGAAAAATCCCCTCGAAAACCTTTATGGAATA
1 AATATT-TGATGAATTTTAAAAATTAAAAACAAAGAAAAATCCCCTCAAAAACATTTA-CAAATA
** * * * *
1529796 GAAAACTCGGTTTTTC-TAAAAA-TAATTTCAAGGAAAAAATTCAAAAACTCATGAAAAT-ATTT
64 GAAAACTCTATATTTCAAAAAAAGAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATT
*
1529858 AAATTTTTGAAAAGTGGTTTAATATGAAATAAATTAT
129 -AATTTTTGAAAA-TGATTTAATATGAAATAAATTAT
*
1529895 AATATTTGATGAATTTTAAAAATTAAAAACAAAGAAAAATCCCCTCAACAACATTTACAAAATAG
1 AATATTTGATGAATTTTAAAAATTAAAAACAAAGAAAAATCCCCTCAAAAACATTTAC-AAATAG
* * *
1529960 AAAACTAC-GTATTTCAAAAAAAGGAGAATTTCAA-GAAAAAATTTAAAAACTCATGACAATGAA
65 AAAACT-CTATATTTCAAAAAAA-GA-AATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAA
*
1530023 TTAATTTTTGAAAACTGATTTAATATGAAATACATTAT
127 TTAATTTTTGAAAA-TGATTTAATATGAAATAAATTAT
* * * * * * * *
1530061 AATATTTGGTTAATTCTAAAAATTAAAAACTAGGAAAAATCCTCTCAAAAATATTTACAGATAGA
1 AATATTTGATGAATTTTAAAAATTAAAAACAAAGAAAAATCCCCTCAAAAACATTTACAAATAGA
** * *
1530126 AAACTCTATATTTTTAAAAAATAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATGAA
66 AAACTCTATATTTCAAAAAAAGAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAA
*
1530191 TTTTTGAAAATGATTTAATATGAAATAAATGAT
131 TTTTTGAAAATGATTTAATATGAAATAAATTAT
*
1530224 GATATTTGATGAATTTTAAAAATT
1 AATATTTGATGAATTTTAAAAATT
1530248 TTGGAGTAAT
Statistics
Matches: 302, Mismatches: 41, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
162 1 0.00
163 113 0.37
164 48 0.16
165 22 0.07
166 107 0.35
167 11 0.04
ACGTcount: A:0.49, C:0.09, G:0.09, T:0.32
Consensus pattern (163 bp):
AATATTTGATGAATTTTAAAAATTAAAAACAAAGAAAAATCCCCTCAAAAACATTTACAAATAGA
AAACTCTATATTTCAAAAAAAGAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATTAA
TTTTTGAAAATGATTTAATATGAAATAAATTAT
Found at i:1530265 original size:163 final size:163
Alignment explanation
Indices: 1529732--1530308 Score: 593
Period size: 163 Copynumber: 3.5 Consensus size: 163
1529722 GTTCAATGAC
* ** * ** **
1529732 AATATTAT-ATGAATTTTAAAAATTT-TAAATTGAGAAAAATCCCCTCGAAAACCTTTATGGAAT
1 AATATT-TGATGAATTTTAAAAATTTAAAAATAAAGAAAAATCCTCTC-AAAAAATTTA-CAAAT
1529795 AGAAAACTCGGT-TTTTCT-AAAAAT-AATTTCAAGGAAAAAATTCAAAAACTCATGAAAAT-AT
63 AGAAAACTC-GTATTTT-TAAAAAATAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGA-
* * *
1529856 TTAAATTTTTGAAAAGTGGTTTAATATGAAATAAATTAT
125 ATAAATTTTTGAAAACTGATTTAATATGAAATAAATTAT
* * *
1529895 AATATTTGATGAATTTTAAAAA-TTAAAAACAAAGAAAAATCCCCTCAACAACATTTACAAAATA
1 AATATTTGATGAATTTTAAAAATTTAAAAATAAAGAAAAATCCTCTCAA-AAAATTTAC-AAATA
** * * *
1529959 GAAAACTACGTATTTCAAAAAAAGGAGAATTTCAA-GAAAAAATTTAAAAACTCATGACAATGAA
64 GAAAACT-CGTATTTTTAAAAAA-TA-AATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAA
* *
1530023 TTAATTTTTGAAAACTGATTTAATATGAAATACATTAT
126 TAAATTTTTGAAAACTGATTTAATATGAAATAAATTAT
* * * * *
1530061 AATATTTGGTTAATTCTAAAAA-TTAAAAACT-AGGAAAAATCCTCTCAAAAATATTTACAGATA
1 AATATTTGATGAATTTTAAAAATTTAAAAA-TAAAGAAAAATCCTCTCAAAAA-ATTTACAAATA
* *
1530124 GAAAACTCTATATTTTTAAAAAATAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATG
64 GAAAACTC-GTATTTTTAAAAAATAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATA
*
1530189 AATTTTTGAAAA-TGATTTAATATGAAATAAATGAT
128 AATTTTTGAAAACTGATTTAATATGAAATAAATTAT
* *** * * *
1530224 GATATTTGATGAATTTTAAAAATTTTGGAGTAATG-AAAATCCTCCCAAAAAATTTACAAAGTAG
1 AATATTTGATGAATTTTAAAAATTTAAAAATAAAGAAAAATCCTCTCAAAAAATTTACAAA-TAG
*
1530288 AAAACTCCGTATTTTTGAAAA
65 AAAACT-CGTATTTTTAAAAA
1530309 TAGGAGGAAC
Statistics
Matches: 348, Mismatches: 47, Indels: 38
0.80 0.11 0.09
Matches are distributed among these distances:
162 13 0.04
163 140 0.40
164 57 0.16
165 24 0.07
166 105 0.30
167 9 0.03
ACGTcount: A:0.49, C:0.09, G:0.10, T:0.32
Consensus pattern (163 bp):
AATATTTGATGAATTTTAAAAATTTAAAAATAAAGAAAAATCCTCTCAAAAAATTTACAAATAGA
AAACTCGTATTTTTAAAAAATAAATTTCAAGGAAAAAATTCAAAAACTCATGAAAATGAATAAAT
TTTTGAAAACTGATTTAATATGAAATAAATTAT
Found at i:1532327 original size:157 final size:155
Alignment explanation
Indices: 1532038--1532834 Score: 632
Period size: 157 Copynumber: 5.1 Consensus size: 155
1532028 AGGTTACCAA
* * * * * * ***
1532038 GATACTTTCATGTCGAAGGTATACTCGTAGGGGCATTTTTGT-ATTTTCCTAAAATTGAGTCCTA
1 GATACTTTTACGTCGAAAGTATACCCCTAAGGGCATTTTTGTAATTTT-CTAAAACCAAGTCCTA
* * * * * * * * * *
1532102 GGATGTCACCGAG-CCTACTTTTGTGCCAAAAGTAGGCATTTAGGATAGGTTCATCCCATATATG
65 GGTTGTCACCGGGTTC-GCTTTTATGCCGAAGGTGGGCATTTAAGATAGGTTCATCCCATCTAT-
* *
1532166 AGTCTTTTTAAGTCTTTTAGGGTTACCAG
128 AGTCTTTTTAAGTCTTTAAGGG-TATCAG
* * * * *
1532195 GATACTTTTACGTCGAAGGTATACCCCTAGGGGCA-TTTTGATAATTTTCTAGAACAAAATCCTA
1 GATACTTTTACGTCGAAAGTATACCCCTAAGGGCATTTTTG-TAATTTTCTAAAACCAAGTCCTA
* *
1532259 GGTTGTCATCGGGTTCGCTTTTATGCCGAAGGTGGGCATTTAAGATAGGTTCATCACCATCTCTA
65 GGTTGTCACCGGGTTCGCTTTTATGCCGAAGGTGGGCATTTAAGATAGGTTCATC-CCATCTATA
1532324 GTCTTTTTAAGTCCTTTAAGGGTATCAG
129 GTCTTTTTAAGT-CTTTAAGGGTATCAG
* * * * * * *
1532352 G-TACTTTTATGTCGAAAGTATCCCCCTAAGGGTATTTTTGTAATTTTTTTAGAACCGAGTCTTA
1 GATACTTTTACGTCGAAAGTATACCCCTAAGGGCATTTTTGTAA-TTTTCTAAAACCAAGTCCTA
* * * * * * * *
1532416 GGTTATCACTGGG-TCTGCTTTCATGTCGAAGGTGGGTATCTAGGATAGGTTCAACCCATCTATA
65 GGTTGTCACCGGGTTC-GCTTTTATGCCGAAGGTGGGCATTTAAGATAGGTTCATCCCATCTATA
* *
1532480 -TCTTTTTTAAGTCTTTTAGGGTTATTAG
129 GTC-TTTTTAAGTCTTTAAGGG-TATCAG
* * ** *
1532508 GATACTTTCACGTCGAAAGTATA--CCTATAGGCGCATTTTTGTAATTTTTTAAAACCAACCCCA
1 GATACTTTTACGTCGAAAGTATACCCCTA-AGG-GCATTTTTGTAATTTTCTAAAACCAAGTCCT
* * * * * *
1532571 AGGTCGTCACCGGGTCCGCTTTTATGCTGAAAGT-GGCATTTAAGATAGGTTCATCCCATTTCTA
64 AGGTTGTCACCGGGTTCGCTTTTATGCCGAAGGTGGGCATTTAAGATAGGTTCATCCCATCTATA
*
1532635 ATCTTTTTAAGTTCTTTAAGGGTATC-G
129 GTCTTTTTAAG-TCTTTAAGGGTATCAG
* * * * * * ** * *
1532662 GATATTTTTACGTTGAAGGTAT-CCCTTAAGGGTAGTTTCATAATTTTCTAAAATCGAGTCCTAG
1 GATACTTTTACGTCGAAAGTATACCCCTAAGGGCATTTTTGTAATTTTCTAAAACCAAGTCCTAG
* * * ** * * * * *
1532726 GTTGTCACCGAGTTTGCTTTTATGTCGAAGGTGGATATTT-AGAATAGTTTCATCCCTTTTAAAA
66 GTTGTCACCGGGTTCGCTTTTATGCCGAAGGTGGGCATTTAAG-ATAGGTTCATCCCATCTATAG
* *
1532790 TCCTTTTTAAGTTTTTTAGGAGTATCAG
130 T-CTTTTTAAGTCTTTAAGG-GTATCAG
1532818 G-TACTTTTACGTC-AAAG
1 GATACTTTTACGTCGAAAG
1532835 ATGTCCCTTA
Statistics
Matches: 513, Mismatches: 104, Indels: 49
0.77 0.16 0.07
Matches are distributed among these distances:
153 50 0.10
154 55 0.11
155 76 0.15
156 114 0.22
157 198 0.39
158 20 0.04
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (155 bp):
GATACTTTTACGTCGAAAGTATACCCCTAAGGGCATTTTTGTAATTTTCTAAAACCAAGTCCTAG
GTTGTCACCGGGTTCGCTTTTATGCCGAAGGTGGGCATTTAAGATAGGTTCATCCCATCTATAGT
CTTTTTAAGTCTTTAAGGGTATCAG
Found at i:1535524 original size:22 final size:20
Alignment explanation
Indices: 1535499--1535538 Score: 62
Period size: 22 Copynumber: 1.9 Consensus size: 20
1535489 ATCGAAAAAT
1535499 TATTTTTATATTAATATTTATA
1 TATTTTTA-ATTAA-ATTTATA
1535521 TATTTTTAATTAAATTTA
1 TATTTTTAATTAAATTTA
1535539 AATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 5 0.28
22 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
TATTTTTAATTAAATTTATA
Found at i:1539931 original size:16 final size:16
Alignment explanation
Indices: 1539912--1539951 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
1539902 TTTTCACTAC
*
1539912 ACTTTTTTTAAT-TTAA
1 ACTTTTTTT-ATCTCAA
1539928 ACTTTTTTTATCTCAA
1 ACTTTTTTTATCTCAA
1539944 ACTTTTTT
1 ACTTTTTT
1539952 AAACTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 20 0.91
ACGTcount: A:0.25, C:0.12, G:0.00, T:0.62
Consensus pattern (16 bp):
ACTTTTTTTATCTCAA
Found at i:1542054 original size:13 final size:12
Alignment explanation
Indices: 1542017--1542054 Score: 58
Period size: 13 Copynumber: 3.0 Consensus size: 12
1542007 TTGTTTTATA
1542017 TTTTAATTATTT
1 TTTTAATTATTT
1542029 TTTTAAATTATTT
1 TTTT-AATTATTT
1542042 TTTTAATTCATTT
1 TTTTAATT-ATTT
1542055 CGTAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 8 0.33
13 16 0.67
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTAATTATTT
Found at i:1542185 original size:12 final size:12
Alignment explanation
Indices: 1542168--1542206 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
1542158 GAGAAAAAAC
1542168 TATTTTATTTTT
1 TATTTTATTTTT
1542180 TATTTTATTTTT
1 TATTTTATTTTT
*
1542192 AATGATTTATTTTT
1 TAT--TTTATTTTT
1542206 T
1 T
1542207 GAAAGAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 14 0.61
14 9 0.39
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (12 bp):
TATTTTATTTTT
Found at i:1548981 original size:157 final size:160
Alignment explanation
Indices: 1548798--1549200 Score: 465
Period size: 157 Copynumber: 2.5 Consensus size: 160
1548788 TTTTTCTTGA
* *
1548798 TTTTTGATTTTTAAAATTCACCAAATATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATT
1 TTTTTTATTTTTAAAATTCATCAAATATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATT
* * ** * * **
1548863 CATTCATTTCCATAAATGTT-AAATTTTTTCCTTGAGATTTCTTTTTTTTTTAAAATGCGGAGTT
66 CATTCATTTCCATAAATGTTGAAATTTTTTCCTT-AAAATTCTCCTTTTTTCAAAATACAAAGTT
*
1548927 TTCTA-TTC-CATAAATTTTTT-AAGGGGA-T
130 TTCTACTTCGCA-AAATTTTTTCAAGAGGATT
* *
1548955 TTTTTTATTTTTAAAATTCATCAAATATTATTATTTATTTTGTATTAATTCAGTTTTCAAAAATT
1 TTTTTTATTTTTAAAATTCATCAAATATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATT
* ** * *
1549020 CATTCATTTCCATAAATTTTGACTTTTTTTTCTTAAAATTCTCCTTTTTTCGAAATACAAAGTTT
66 CATTCATTTCCATAAATGTTGAAATTTTTTCCTTAAAATTCTCCTTTTTTCAAAATACAAAGTTT
**
1549085 TCTACTTCGCAATTTTTTTTCAAGAGGATTTTTCT
131 TCTACTTCGCAAAATTTTTTCAAGAGGA----T-T
* * * *
1549120 TGGTTTTTAATTTTTAAAATTCATCAAATATCATTATTTATTTCACATTAATTTAGTTTTAAAAA
1 T--TTTTT-ATTTTTAAAATTCATCAAATATTATTATTTATTTTATATTAATTTAGTTTTCAAAA
1549185 ATTCATTCATTTCCAT
63 ATTCATTCATTTCCAT
1549201 TGTCGCGACG
Statistics
Matches: 207, Mismatches: 26, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
157 106 0.51
158 20 0.10
159 8 0.04
165 2 0.01
167 5 0.02
168 66 0.32
ACGTcount: A:0.30, C:0.11, G:0.06, T:0.52
Consensus pattern (160 bp):
TTTTTTATTTTTAAAATTCATCAAATATTATTATTTATTTTATATTAATTTAGTTTTCAAAAATT
CATTCATTTCCATAAATGTTGAAATTTTTTCCTTAAAATTCTCCTTTTTTCAAAATACAAAGTTT
TCTACTTCGCAAAATTTTTTCAAGAGGATT
Found at i:1550459 original size:79 final size:79
Alignment explanation
Indices: 1550232--1550765 Score: 917
Period size: 79 Copynumber: 6.8 Consensus size: 79
1550222 ATCGGGGTTA
* * * *
1550232 GAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCAGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGG
*
1550297 AAATAACGGGGTTG
66 AAATAACGGGATTG
*
1550311 GAGTATCCCGGATTATG-AAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGG
1550375 AAATAACGGGATTG
66 AAATAACGGGATTG
1550389 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGG
1550454 AAATAACGGGATTG
66 AAATAACGGGATTG
* *
1550468 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAGCCGGGGTTGGAGTATCCCTTCGG
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGG
* *
1550533 AAACAACGGGGTTG
66 AAATAACGGGATTG
1550547 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGG
1550612 AAATAACGGGATTG
66 AAATAACGGGATTG
*
1550626 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAGCCGGGGTTGGAGTATCCCCTCGG
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGG
* *
1550691 AAACAACGGGGTTG
66 AAATAACGGGATTG
* * *
1550705 GAGTATCCCCGATTATGAAAAATTGATGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCC
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCC
1550766 GATTGTGAAA
Statistics
Matches: 433, Mismatches: 21, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
78 73 0.17
79 360 0.83
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (79 bp):
GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAGATAAAACCGGGGTTGGAGTATCCCCTCGG
AAATAACGGGATTG
Found at i:1552059 original size:35 final size:35
Alignment explanation
Indices: 1551990--1552211 Score: 365
Period size: 35 Copynumber: 6.4 Consensus size: 35
1551980 TCATTTTTAT
*
1551990 CCATCATTCCATGCCTTCA-TTTCTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
1552024 CCATCATTCTATGCCTTCATTTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
* *
1552059 CCATCATCCCATGCCTTCAATTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
1552094 CCATCATCCCATGCCTTCATTTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
*
1552129 CCATCATTCTATGCCTTCATTTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
* *
1552164 CCATCATCCCATGCCTTCAATTTTTTATTCCATGC
1 CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
1552199 CCATCATTCCATG
1 CCATCATTCCATG
1552212 TTTTTTTTTT
Statistics
Matches: 175, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
34 18 0.10
35 157 0.90
ACGTcount: A:0.18, C:0.33, G:0.06, T:0.43
Consensus pattern (35 bp):
CCATCATTCCATGCCTTCATTTTTTTATTCCATGC
Found at i:1552143 original size:105 final size:104
Alignment explanation
Indices: 1551990--1552211 Score: 417
Period size: 105 Copynumber: 2.1 Consensus size: 104
1551980 TCATTTTTAT
1551990 CCATCATTCCATGCCTTCATTTCTTATTCCATGCCCATCATTCTATGCCTTCATTTTTTTATTCC
1 CCATCATTCCATGCCTTCATTTCTTATTCCATGCCCATCATTCTATGCCTTCATTTTTTTATTCC
1552055 ATGCCCATCATCCCATGCCTTCAATTTTTTATTCCATGC
66 ATGCCCATCATCCCATGCCTTCAATTTTTTATTCCATGC
* *
1552094 CCATCATCCCATGCCTTCATTTTTTTATTCCATGCCCATCATTCTATGCCTTCATTTTTTTATTC
1 CCATCATTCCATGCCTTCA-TTTCTTATTCCATGCCCATCATTCTATGCCTTCATTTTTTTATTC
1552159 CATGCCCATCATCCCATGCCTTCAATTTTTTATTCCATGC
65 CATGCCCATCATCCCATGCCTTCAATTTTTTATTCCATGC
1552199 CCATCATTCCATG
1 CCATCATTCCATG
1552212 TTTTTTTTTT
Statistics
Matches: 114, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
104 18 0.16
105 96 0.84
ACGTcount: A:0.18, C:0.33, G:0.06, T:0.43
Consensus pattern (104 bp):
CCATCATTCCATGCCTTCATTTCTTATTCCATGCCCATCATTCTATGCCTTCATTTTTTTATTCC
ATGCCCATCATCCCATGCCTTCAATTTTTTATTCCATGC
Found at i:1553202 original size:13 final size:13
Alignment explanation
Indices: 1553186--1553210 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1553176 AGCTGAAAGA
1553186 AGAGAGAGAAAAT
1 AGAGAGAGAAAAT
1553199 AGAGAGAGAAAA
1 AGAGAGAGAAAA
1553211 AAAGAAAAAT
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:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (13 bp):
AGAGAGAGAAAAT
Found at i:1555194 original size:154 final size:154
Alignment explanation
Indices: 1554926--1555280 Score: 394
Period size: 154 Copynumber: 2.3 Consensus size: 154
1554916 GGGTATCGTG
* * * * * * ***
1554926 TACTTTTACGTCGAAGGTATCCCCTAAGAGTATTTTGGTAATTTTTTAAAACCAAGTCCT-AGAT
1 TACTTCTACATCGAAAGTATCCCCTAAAAGCATTTTCGTAA-TTTTTAAAATTGAGTCCTAAG-T
** *
1554990 CATCACCGGGTCCGCTTTTATGCCGAAAGTTGATATTTAGAGTAGGTTCA-TCCTAGTTAAAATC
64 TGTCACCGGGTCCGCTTTTATGCCGAAAGTAGATATTTAGAGTAGGTTCATTCCT-GTTAAAATC
*
1555054 TTTTTTAAGTCCTTTAGGGGTATCAAA
128 CTTTTTAAGTCCTTTAGGGGTATCAAA
* * *
1555081 TACTTCTATATCGAAAGTATCCCCTAGAGGCATTTTCGTAATTTTTAAAATTGAGTCCTAAGTTG
1 TACTTCTACATCGAAAGTATCCCCTAAAAGCATTTTCGTAATTTTTAAAATTGAGTCCTAAGTTG
* * *
1555146 TCACCGGG-CCTGCTTTTATGCTGAAGGTAGATATTTAG-GATAGGTTCATTCCTTTTAAAATCC
66 TCACCGGGTCC-GCTTTTATGCCGAAAGTAGATATTTAGAG-TAGGTTCATTCCTGTTAAAATCC
* ***
1555209 TTTTTAAGTCCTTTAGTGGTATCGGG
129 TTTTTAAGTCCTTTAGGGGTATCAAA
* * * *
1555235 TACTTTTACATTGAAGGTATCCCTTAAAAGCATTTTCGTAATTTTT
1 TACTTCTACATCGAAAGTATCCCCTAAAAGCATTTTCGTAATTTTT
1555281 CTTGAACTTA
Statistics
Matches: 166, Mismatches: 30, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
153 3 0.02
154 125 0.75
155 38 0.23
ACGTcount: A:0.26, C:0.17, G:0.18, T:0.39
Consensus pattern (154 bp):
TACTTCTACATCGAAAGTATCCCCTAAAAGCATTTTCGTAATTTTTAAAATTGAGTCCTAAGTTG
TCACCGGGTCCGCTTTTATGCCGAAAGTAGATATTTAGAGTAGGTTCATTCCTGTTAAAATCCTT
TTTAAGTCCTTTAGGGGTATCAAA
Found at i:1556948 original size:20 final size:20
Alignment explanation
Indices: 1556923--1556972 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
1556913 ACCCTGAAAA
*
1556923 GTATCGATACACGTTTAATT
1 GTATCGATACACGTTGAATT
* *
1556943 GTATCGATACATGTTGCATT
1 GTATCGATACACGTTGAATT
1556963 GTATCGATAC
1 GTATCGATAC
1556973 TTGAAAAAGA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (20 bp):
GTATCGATACACGTTGAATT
Found at i:1557051 original size:19 final size:20
Alignment explanation
Indices: 1557027--1557077 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1557017 TAGCTAAACT
**
1557027 TGTATCGATACA-CATAGTA
1 TGTATCGATACACCATAAAA
1557046 TGTATCGATACACCATAAAA
1 TGTATCGATACACCATAAAA
1557066 TGTATCGATACA
1 TGTATCGATACA
1557078 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (20 bp):
TGTATCGATACACCATAAAA
Found at i:1560523 original size:12 final size:12
Alignment explanation
Indices: 1560506--1560558 Score: 67
Period size: 12 Copynumber: 4.7 Consensus size: 12
1560496 GCTAGTTTTT
1560506 TATTTTCTTCTC
1 TATTTTCTTCTC
*
1560518 TATTTT-TCCTC
1 TATTTTCTTCTC
1560529 T-TTTTCTT-TC
1 TATTTTCTTCTC
*
1560539 TTTTTTCTTCTC
1 TATTTTCTTCTC
1560551 TATTTTCT
1 TATTTTCT
1560559 CTTAATTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
10 7 0.20
11 13 0.37
12 15 0.43
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.72
Consensus pattern (12 bp):
TATTTTCTTCTC
Found at i:1560540 original size:10 final size:11
Alignment explanation
Indices: 1560508--1560558 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
1560498 TAGTTTTTTA
1560508 TTTTCTTCTCT
1 TTTTCTTCTCT
*
1560519 ATTTT-TCCTCT
1 -TTTTCTTCTCT
1560530 TTTTCTT-TCTT
1 TTTTCTTCTC-T
1560541 TTTTCTTCTCT
1 TTTTCTTCTCT
1560552 ATTTTCT
1 -TTTTCT
1560559 CTTAATTTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 6 0.18
11 15 0.45
12 12 0.36
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (11 bp):
TTTTCTTCTCT
Found at i:1561046 original size:108 final size:108
Alignment explanation
Indices: 1560864--1561072 Score: 355
Period size: 108 Copynumber: 1.9 Consensus size: 108
1560854 ATTTTACAAA
* *
1560864 AAATACTTTGGTGTTGAAAAATCAATATATACAAAAAAATTTAAAATTCATGAAATAAATTGAAT
1 AAATACTTTGGCGTTGAAAAATCAATATATACAAAAAAATTCAAAATTCATGAAATAAATTGAAT
* *
1560929 TTTTTAAAAATGATTTAATAGGAGTTCAATGAAAATTTACGAG
66 TTCTCAAAAATGATTTAATAGGAGTTCAATGAAAATTTACGAG
* *
1560972 AAATACTTTGGCGTTGAAAAATCAATATATACAAAAAAATTCAAAATTTATGAAATAAATTTAAT
1 AAATACTTTGGCGTTGAAAAATCAATATATACAAAAAAATTCAAAATTCATGAAATAAATTGAAT
*
1561037 TTCTCAAAAATGATTTAATGGGAGTTCAATGAAAAT
66 TTCTCAAAAATGATTTAATAGGAGTTCAATGAAAAT
1561073 ATTATATGAA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
108 94 1.00
ACGTcount: A:0.48, C:0.07, G:0.11, T:0.33
Consensus pattern (108 bp):
AAATACTTTGGCGTTGAAAAATCAATATATACAAAAAAATTCAAAATTCATGAAATAAATTGAAT
TTCTCAAAAATGATTTAATAGGAGTTCAATGAAAATTTACGAG
Found at i:1564357 original size:21 final size:19
Alignment explanation
Indices: 1564322--1564380 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
1564312 TATAAAAAAG
*
1564322 ATTATATAGATATTAAATT
1 ATTATATAAATATTAAATT
*
1564341 AGTTATATAAATAATTAATTT
1 A-TTATATAAAT-ATTAAATT
1564362 ATTCATAT-AAT-TTAAATT
1 ATT-ATATAAATATTAAATT
1564380 A
1 A
1564381 ATTCTTACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 7 0.21
19 1 0.03
20 14 0.41
21 12 0.35
ACGTcount: A:0.47, C:0.02, G:0.03, T:0.47
Consensus pattern (19 bp):
ATTATATAAATATTAAATT
Found at i:1566866 original size:35 final size:35
Alignment explanation
Indices: 1566815--1566881 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
1566805 ATTATAATAA
*
1566815 ATAATTAAAATTATATTTATCTTAAATAATAAAAT
1 ATAAATAAAATTATATTTATCTTAAATAATAAAAT
*
1566850 ATAAATAAAATTATATTTATGTTAAATAATAA
1 ATAAATAAAATTATATTTATCTTAAATAATAA
1566882 TTAAAATTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (35 bp):
ATAAATAAAATTATATTTATCTTAAATAATAAAAT
Done.