Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 204 of 213
Found at i:61015284 original size:28 final size:29
Alignment explanation
Indices: 61015253--61015308 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
61015243 TTTAAATAAA
* * *
61015253 AAAATATAT-GACTTAATTTTTAATTTTT
1 AAAATATATGGACTAAAATTTAAATTTTT
61015281 AAAATATATGGACTAAAATTTAAATTTT
1 AAAATATATGGACTAAAATTTAAATTTT
61015309 ATCAAAGTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.46
Consensus pattern (29 bp):
AAAATATATGGACTAAAATTTAAATTTTT
Found at i:61015309 original size:28 final size:28
Alignment explanation
Indices: 61015253--61015309 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
61015243 TTTAAATAAA
** *
61015253 AAAATATATGACTTAATTTTTAATTTTT
1 AAAATATATGACTTAAAATTTAAATTTT
61015281 AAAATATATGGAC-TAAAATTTAAATTTT
1 AAAATATAT-GACTTAAAATTTAAATTTT
61015309 A
1 A
61015310 TCAAAGTACA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 22 0.88
29 3 0.12
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (28 bp):
AAAATATATGACTTAAAATTTAAATTTT
Found at i:61016768 original size:21 final size:22
Alignment explanation
Indices: 61016742--61016796 Score: 87
Period size: 21 Copynumber: 2.6 Consensus size: 22
61016732 AATAGCGGTG
*
61016742 GCGGTGAGATTAG-TTACTGTA
1 GCGGTGAGATTAGCATACTGTA
61016763 GCGGTGAGATT-GCATACTGTA
1 GCGGTGAGATTAGCATACTGTA
61016784 GCGGTGAGATTAG
1 GCGGTGAGATTAG
61016797 AAACAATGGT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 1 0.03
21 29 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.11, G:0.36, T:0.29
Consensus pattern (22 bp):
GCGGTGAGATTAGCATACTGTA
Found at i:61035103 original size:18 final size:18
Alignment explanation
Indices: 61035082--61035119 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
61035072 TAATATTTTA
*
61035082 AAATAATTAGAATTATTC
1 AAATAAATAGAATTATTC
*
61035100 AAATAAATATAATTATTC
1 AAATAAATAGAATTATTC
61035118 AA
1 AA
61035120 CCGATACATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (18 bp):
AAATAAATAGAATTATTC
Found at i:61037926 original size:18 final size:20
Alignment explanation
Indices: 61037903--61037943 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
61037893 TATATATACA
61037903 TTTTTAAC-TT-GAATTTAT
1 TTTTTAACTTTCGAATTTAT
*
61037921 TTTTTATCTTTCGAATTTAT
1 TTTTTAACTTTCGAATTTAT
61037941 TTT
1 TTT
61037944 ATTTTATTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 7 0.35
19 2 0.10
20 11 0.55
ACGTcount: A:0.22, C:0.07, G:0.05, T:0.66
Consensus pattern (20 bp):
TTTTTAACTTTCGAATTTAT
Found at i:61041011 original size:14 final size:15
Alignment explanation
Indices: 61040979--61041011 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
61040969 TTTTTTTAAG
*
61040979 AAAATATATAAAATT
1 AAAATATATAAAATA
61040994 AAAAT-TATAAAATA
1 AAAATATATAAAATA
61041008 AAAA
1 AAAA
61041012 ATTAGCTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATATATAAAATA
Found at i:61043007 original size:17 final size:17
Alignment explanation
Indices: 61042987--61043020 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
61042977 GGGAGTTTTC
61042987 GGTAAAAACATACCACA
1 GGTAAAAACATACCACA
61043004 GGTAAAAACATACCACA
1 GGTAAAAACATACCACA
61043021 TTGTTTCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.24, G:0.12, T:0.12
Consensus pattern (17 bp):
GGTAAAAACATACCACA
Found at i:61045040 original size:11 final size:11
Alignment explanation
Indices: 61045026--61045052 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
61045016 AAAATAAAAA
61045026 TAAAAGTATTT
1 TAAAAGTATTT
61045037 TAAAAGTATTT
1 TAAAAGTATTT
61045048 TAAAA
1 TAAAA
61045053 TTAAAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (11 bp):
TAAAAGTATTT
Found at i:61045083 original size:12 final size:12
Alignment explanation
Indices: 61045048--61045086 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
61045038 AAAAGTATTT
*
61045048 TAAAATTAAAAT
1 TAAAATTAAAAA
61045060 TAAAATTAAAAAA
1 TAAAATT-AAAAA
*
61045073 TAAAAATAAAAA
1 TAAAATTAAAAA
61045085 TA
1 TA
61045087 TATATTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (12 bp):
TAAAATTAAAAA
Found at i:61045687 original size:35 final size:35
Alignment explanation
Indices: 61045642--61046045 Score: 232
Period size: 35 Copynumber: 11.3 Consensus size: 35
61045632 AACATAAATT
* * *
61045642 TTTTTTAAAACATGAAAATTTGTGAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
** *
61045677 TCGTTGAAAACACGCAAATTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACGAAAA
**
61045713 TTTTTG-AAACACGAAAATTTTAAAAACACGAAAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
* * *
61045747 TTTTTAAAAACACGACAATTTTTGAAACACGAGAACTTT
1 TTTTTGAAAACACGAAAATTTTTGAAACACGA-AA---A
* * *
61045786 TTTTTTAAAACA-TACAAATTTTTAAAACACGAAAA
1 TTTTTGAAAACACGA-AAATTTTTGAAACACGAAAA
* * * *
61045821 TTTGTG-AAACACGAGAATTGTTGAAAACATG-AAA
1 TTTTTGAAAACACGAAAATTTTTG-AAACACGAAAA
* **
61045855 TTTTTTAAAACAC-AGAAATTTTTAGAAAACACGAATT
1 TTTTTGAAAACACGA-AAATTTTT-G-AAACACGAAAA
* * * *
61045892 TTTTTTAAAATCACCG-GAATTTTTGGGAACACGAAGA
1 TTTTTGAAAA-CA-CGAAAATTTTT-GAAACACGAAAA
* * *
61045929 TTTTTGAAAACATGAAGATTTTTGAAACGC-AAGAA
1 TTTTTGAAAACACGAAAATTTTTGAAACACGAA-AA
** * * * *
61045964 TTTTTTGAAAACGCAAAAAAAATTTT-AAAAATG-GAA
1 -TTTTTGAAAA--CACGAAAATTTTTGAAACACGAAAA
* ** *
61046000 TTTTCTAAAAACACGAGCATTTTTGAAATCATGAAAA
1 TTTT-TGAAAACACGAAAATTTTTGAAA-CACGAAAA
61046037 TTTTTGAAA
1 TTTTTGAAA
61046046 CACATGATTT
Statistics
Matches: 279, Mismatches: 64, Indels: 51
0.71 0.16 0.13
Matches are distributed among these distances:
34 45 0.16
35 91 0.33
36 57 0.20
37 37 0.13
38 22 0.08
39 27 0.10
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (35 bp):
TTTTTGAAAACACGAAAATTTTTGAAACACGAAAA
Found at i:61045689 original size:18 final size:18
Alignment explanation
Indices: 61045642--61046045 Score: 244
Period size: 18 Copynumber: 22.5 Consensus size: 18
61045632 AACATAAATT
* *
61045642 TTTTTTAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
61045660 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
** *
61045677 TCGTTGAAAACACGCAAA
1 TTTTTGAAAACACGAAAA
61045695 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
61045713 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
61045730 -TTTTAAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
61045747 TTTTTAAAAACACGACAA
1 TTTTTGAAAACACGAAAA
*
61045765 TTTTTG-AAACACGAGAACTTT
1 TTTTTGAAAACACGA-AA---A
* *
61045786 TTTTTTAAAACA-TACAAA
1 TTTTTGAAAACACGA-AAA
61045804 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
61045821 TTTGTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
* *
61045838 TTGTTGAAAACATG-AAA
1 TTTTTGAAAACACGAAAA
*
61045855 TTTTTTAAAACAC-AGAAA
1 TTTTTGAAAACACGA-AAA
**
61045873 TTTTTAGAAAACACGAATT
1 TTTTT-GAAAACACGAAAA
* *
61045892 TTTTTTAAAATCACCG-GAA
1 TTTTTGAAAA-CA-CGAAAA
** *
61045911 TTTTTGGGAACACGAAGA
1 TTTTTGAAAACACGAAAA
* *
61045929 TTTTTGAAAACATGAAGA
1 TTTTTGAAAACACGAAAA
*
61045947 TTTTTG-AAACGC-AAGAA
1 TTTTTGAAAACACGAA-AA
**
61045964 TTTTTTGAAAACGCAAAAAAA
1 -TTTTTGAAAA--CACGAAAA
* * *
61045985 ATTTT-AAAA-ATG-GAA
1 TTTTTGAAAACACGAAAA
* **
61046000 TTTTCTAAAAACACGAGCA
1 TTTT-TGAAAACACGAAAA
* *
61046019 TTTTTGAAATCATGAAAA
1 TTTTTGAAAACACGAAAA
61046037 TTTTTGAAA
1 TTTTTGAAA
61046046 CACATGATTT
Statistics
Matches: 297, Mismatches: 61, Indels: 56
0.72 0.15 0.14
Matches are distributed among these distances:
15 5 0.02
16 8 0.03
17 93 0.31
18 131 0.44
19 35 0.12
20 7 0.02
21 11 0.04
22 7 0.02
ACGTcount: A:0.46, C:0.11, G:0.12, T:0.31
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:61045814 original size:91 final size:90
Alignment explanation
Indices: 61045710--61045877 Score: 223
Period size: 91 Copynumber: 1.9 Consensus size: 90
61045700 GAAAACACGA
* * *
61045710 AAATTTTTGAAACACGAAAATTT-TAAAAACACGAAAATTTTTAAAAACACGACAA-TTTTTGAA
1 AAATTTTTAAAACACGAAAATTTGT-AAAACACGAAAATTGTTAAAAACACGA-AATTTTTTAAA
*
61045773 ACACGAGAACTTTTTTTTTAAAACATAC
64 ACAC-AGAAATTTTTTTTTAAAACATAC
* * * *
61045801 AAATTTTTAAAACACGAAAATTTGTGAAACACGAGAATTGTTGAAAACATGAAATTTTTTAAAAC
1 AAATTTTTAAAACACGAAAATTTGTAAAACACGAAAATTGTTAAAAACACGAAATTTTTTAAAAC
61045866 ACAGAAATTTTT
66 ACAGAAATTTTT
61045878 AGAAAACACG
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
90 11 0.16
91 55 0.82
92 1 0.01
ACGTcount: A:0.47, C:0.11, G:0.10, T:0.32
Consensus pattern (90 bp):
AAATTTTTAAAACACGAAAATTTGTAAAACACGAAAATTGTTAAAAACACGAAATTTTTTAAAAC
ACAGAAATTTTTTTTTAAAACATAC
Found at i:61045923 original size:108 final size:107
Alignment explanation
Indices: 61045691--61045937 Score: 290
Period size: 108 Copynumber: 2.3 Consensus size: 107
61045681 TGAAAACACG
61045691 CAAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTTAAAAACACGAAAATTTTTAAAA
1 CAAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTTAAAAACACGAAAATTTTTAAAA
61045756 ACACGACAATTTTTGAAACACGAGAACTTTTTTTTTAAAACATA
66 ACACGACAATTTTTGAAACAC-AGAAC-TTTTTTTTAAAACATA
* * * * *
61045800 CAAATTTTT-AAAACACGAAAATTTGTGAAACACGAGAATTGTTGAAAACATG-AAATTTTTTAA
1 CAAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAATT-TTAAAAACACGAAAATTTTTAAA
*
61045863 AACACAGA-AATTTTTAGAAA-ACACGAA-TTTTTTTTAAAATCA-C
65 AACAC-GACAATTTTT-GAAACACA-GAACTTTTTTTTAAAA-CATA
* ** *
61045906 CGGAATTTTTGGGAACACGAAGATTTTTGAAA
1 C-AAATTTTTGAAAACACGAAAATTTTTGAAA
61045938 ACATGAAGAT
Statistics
Matches: 120, Mismatches: 11, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
106 13 0.11
107 10 0.08
108 73 0.61
109 24 0.20
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.32
Consensus pattern (107 bp):
CAAATTTTTGAAAACACGAAAATTTTTGAAACACGAAAATTTTAAAAACACGAAAATTTTTAAAA
ACACGACAATTTTTGAAACACAGAACTTTTTTTTAAAACATA
Found at i:61046258 original size:16 final size:17
Alignment explanation
Indices: 61046221--61046260 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
61046211 AATACGAAAA
*
61046221 AAAATTTTGAAGACACG
1 AAAATTTCGAAGACACG
61046238 AAAATTTCGAA-ACACG
1 AAAATTTCGAAGACACG
*
61046254 GAAATTT
1 AAAATTT
61046261 TTTTTGAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.25
Consensus pattern (17 bp):
AAAATTTCGAAGACACG
Found at i:61046442 original size:11 final size:11
Alignment explanation
Indices: 61046397--61046450 Score: 51
Period size: 10 Copynumber: 5.1 Consensus size: 11
61046387 TGCCTTATTT
61046397 ATTAAAATT-A
1 ATTAAAATTAA
*
61046407 TTTAAAA-TAA
1 ATTAAAATTAA
*
61046417 AGTAAAATTAAA
1 ATTAAAATT-AA
*
61046429 ATTAAAATTGA
1 ATTAAAATTAA
61046440 ATT-AAATTAA
1 ATTAAAATTAA
61046450 A
1 A
61046451 AATATAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
9 1 0.03
10 19 0.54
11 5 0.14
12 10 0.29
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (11 bp):
ATTAAAATTAA
Found at i:61046779 original size:17 final size:17
Alignment explanation
Indices: 61046757--61046795 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
61046747 GCCTGCTTCT
61046757 TTTTTTTGCTTTGGGCA
1 TTTTTTTGCTTTGGGCA
*
61046774 TTTTTTTGCTTTGGGCC
1 TTTTTTTGCTTTGGGCA
61046791 TTTTT
1 TTTTT
61046796 GTTTCTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.03, C:0.13, G:0.21, T:0.64
Consensus pattern (17 bp):
TTTTTTTGCTTTGGGCA
Found at i:61046958 original size:9 final size:9
Alignment explanation
Indices: 61046946--61047009 Score: 56
Period size: 9 Copynumber: 6.6 Consensus size: 9
61046936 ATTTTCAATA
*
61046946 TTTTTTTGT
1 TTTTTTTCT
61046955 TTTTTTTCT
1 TTTTTTTCT
61046964 TTTTTCTTCT
1 TTTTT-TTCT
* *
61046974 TCTTCTTCTT
1 TTTTTTTC-T
61046984 TCTTTCTTTCTT
1 T-TTT-TTTC-T
61046996 TTTTTTTCT
1 TTTTTTTCT
61047005 TTTTT
1 TTTTT
61047010 CCTCTTCTTC
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
9 22 0.48
10 13 0.28
11 5 0.11
12 6 0.13
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:61047015 original size:10 final size:10
Alignment explanation
Indices: 61046954--61047015 Score: 65
Period size: 10 Copynumber: 6.2 Consensus size: 10
61046944 TATTTTTTTG
61046954 TTTTTT-TTC
1 TTTTTTCTTC
61046963 TTTTTTCTTC
1 TTTTTTCTTC
*
61046973 -TTCTTCTTC
1 TTTTTTCTTC
61046982 TTTCTTTCTTTC
1 TTT-TTTC-TTC
*
61046994 TTTTTTTTTC
1 TTTTTTCTTC
*
61047004 TTTTTTCCTC
1 TTTTTTCTTC
61047014 TT
1 TT
61047016 CTTCTCTCGG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
9 14 0.32
10 18 0.41
11 6 0.14
12 6 0.14
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (10 bp):
TTTTTTCTTC
Found at i:61047163 original size:23 final size:23
Alignment explanation
Indices: 61047120--61047164 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
61047110 TCTCCTCTTT
*
61047120 TCTCTTTTTTTTGAAGCTTTTTC
1 TCTCTTTTTTTTGAAACTTTTTC
*
61047143 TCTCTTTTTTTTGAAATTTTTT
1 TCTCTTTTTTTTGAAACTTTTT
61047165 TGGTAATTGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.11, C:0.13, G:0.07, T:0.69
Consensus pattern (23 bp):
TCTCTTTTTTTTGAAACTTTTTC
Found at i:61047444 original size:58 final size:57
Alignment explanation
Indices: 61047372--61047552 Score: 179
Period size: 58 Copynumber: 3.1 Consensus size: 57
61047362 GGCAAAAACA
* *
61047372 TAATTTTGAGAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTGGTGGGACAAAATG
1 TAATTTT-AAAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTAG-GGGACAAAATG
** * * * **
61047431 TAATTTTAAAAAATTTTA-GGGTTTAAATATAATTTTAGAAAAATTTAGGGGTTAAAATG
1 TAATTTTAAAAAA-TTTAGGGGTCAAAATGTAA-TTT-CAAAAAGTTAGGGGACAAAATG
* *
61047490 TAATTTT-AAAAGTTTAGGGGTCAAAATGTAATTTC-AAAAGTTCAGGGGTCAAAATG
1 TAATTTTAAAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTT-AGGGGACAAAATG
*
61047546 TATTTTT
1 TAATTTT
61047553 TTTTGAAAAA
Statistics
Matches: 100, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
55 6 0.06
56 18 0.18
57 7 0.07
58 31 0.31
59 30 0.30
60 8 0.08
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.36
Consensus pattern (57 bp):
TAATTTTAAAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTAGGGGACAAAATG
Found at i:61047449 original size:59 final size:56
Alignment explanation
Indices: 61047372--61047552 Score: 177
Period size: 59 Copynumber: 3.1 Consensus size: 56
61047362 GGCAAAAACA
*
61047372 TAATTTTGAGAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTGGTGGGACAAAATG
1 TAATTTT-A-AAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTAG-GGGACAAAATG
** * * * **
61047431 TAATTTTAAAAAATTTTA-GGGTTTAAATATAATTTTAGAAAAATTTAGGGGTTAAAATG
1 TAATTTT-AAAAA-TTTAGGGGTCAAAATGTAA-TTT-CAAAAAGTTAGGGGACAAAATG
* *
61047490 TAATTTTAAAAGTTTAGGGGTCAAAATGTAATTTC-AAAAGTTCAGGGGTCAAAATG
1 TAATTTTAAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTT-AGGGGACAAAATG
*
61047546 TATTTTT
1 TAATTTT
61047553 TTTTGAAAAA
Statistics
Matches: 100, Mismatches: 17, Indels: 13
0.77 0.13 0.10
Matches are distributed among these distances:
55 6 0.06
56 18 0.18
57 7 0.07
58 30 0.30
59 31 0.31
60 8 0.08
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.36
Consensus pattern (56 bp):
TAATTTTAAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTAGGGGACAAAATG
Found at i:61047509 original size:28 final size:29
Alignment explanation
Indices: 61047372--61047552 Score: 174
Period size: 28 Copynumber: 6.2 Consensus size: 29
61047362 GGCAAAAACA
61047372 TAATTTTGAGAAAA-TTTAGGGGTCAAAATG
1 TAATTTT-A-AAAAGTTTAGGGGTCAAAATG
* * *
61047402 TAATTTCAAAAAG-TTGGTGGGACAAAATG
1 TAATTTTAAAAAGTTTAG-GGGTCAAAATG
* ** *
61047431 TAATTTTAAAAAATTTTA-GGGTTTAAATA
1 TAATTTT-AAAAAGTTTAGGGGTCAAAATG
* *
61047460 TAATTTTAGAAAAATTTAGGGGTTAAAATG
1 TAATTTTA-AAAAGTTTAGGGGTCAAAATG
61047490 TAATTTT-AAAAGTTTAGGGGTCAAAATG
1 TAATTTTAAAAAGTTTAGGGGTCAAAATG
* *
61047518 TAA-TTTCAAAAGTTCAGGGGTCAAAATG
1 TAATTTTAAAAAGTTTAGGGGTCAAAATG
*
61047546 TATTTTT
1 TAATTTT
61047553 TTTTGAAAAA
Statistics
Matches: 126, Mismatches: 17, Indels: 17
0.79 0.11 0.11
Matches are distributed among these distances:
27 3 0.02
28 52 0.41
29 42 0.33
30 27 0.21
31 2 0.02
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.36
Consensus pattern (29 bp):
TAATTTTAAAAAGTTTAGGGGTCAAAATG
Found at i:61047901 original size:77 final size:77
Alignment explanation
Indices: 61047727--61048876 Score: 1048
Period size: 76 Copynumber: 14.8 Consensus size: 77
61047717 CCTTGGTATG
* * * ** *
61047727 TGACTCGAGGCTCAACTCACCTC-CAGCATTATAAGTTGATTTTTGGAAAACAGAAATGT---A-
1 TGACCCGAGGCTCAACTCACCTCTC-GCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAG
*
61047787 AAATACCTTAGCA
65 AAATACCTCAGCA
* * *
61047800 TGACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTAATTTTTAAAAAACAGAAATTTAAAAGA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAGA
* *
61047865 AATACCTCGGTA
66 AATACCTCAGCA
* * **
61047877 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAATTAATTTAAAAAAAACAGAAATTTAAAAGA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAGA
* *
61047942 AATACTTCGGCA
66 AATACCTCAGCA
** ** *
61047954 TGTGTCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAAAAAAACAGAAATTCAAA
1 TG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT--TTAAAAAACAGAAATTTAAA
* *
61048019 AGAATTACCTCAGCG
63 AGAAATACCTCAGCA
* * * ***
61048034 TGACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAA-AAAAACAGAAAT
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT-AAAAAACAGAAATTTAAA-
* *
61048098 TAAAAATACCTCAGCGTG
63 -AGAAATACCTCAGC--A
61048116 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAACAGAAA-TT--
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT---AAAAAACAGAAATTTAA
*
61048178 AA-AAATACCTCAGCG
62 AAGAAATACCTCAGCA
* * * *
61048193 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAATTGATTTTAAAAAAAAAAGACAGAAATTTA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT----TAAAAA-ACAGAAATTTA
*
61048258 AAAGAAATACCTCGGCA
61 AAAGAAATACCTCAGCA
* *
61048275 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAAAAAAACAAAAATTTAAAAGA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAGA
* *
61048339 AATACATCGGCA
66 AATACCTCAGCA
** * * * *
61048351 TGTGTCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTAAAAAAATAGAAATTGAAAAG
1 TG-ACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAG
*
61048415 AATTACCTCAGCA
65 AAATACCTCAGCA
* * **
61048428 TGACCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAA-A-AAATAGAAATT
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTAAAAAACAGAAATTTAAA--
* *
61048491 AAAAATACCTCAGCGTG
63 AGAAATACCTCAGC--A
61048508 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAAA-TT--A
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT--AAAAAACAGAAATTTAAA
*
61048570 A-AAATACCTCAGCG
63 AGAAATACCTCAGCA
* * *
61048584 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTAAAAAAAAGACAGAAA-TT--A
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT--TAAAAA-ACAGAAATTTAAA
*
61048646 A-AAATACCTCA-AA
63 AGAAATACCTCAGCA
* ** *
61048659 GTGACCCGAGGCTCAACTTACCTCTCTTATTATGAGTTGATTTTTAAAAAAAGACAGAAA-TT--
1 -TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--AAAAA-ACAGAAATTTAA
*
61048721 AA-AAATACCTCAGCG
62 AAGAAATACCTCAGCA
* * **
61048736 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTAAAAAAAATACAGAAA-TT--AA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT-TTAAAAA-ACAGAAATTTAAAA
* *
61048798 -AAATACCTCAACG
64 GAAATACCTCAGCA
* * *
61048811 TGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAAA
1 TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT---AAAAAACAGAAATTTAAA
61048876 A
63 A
61048877 TATTTCTCGA
Statistics
Matches: 931, Mismatches: 95, Indels: 96
0.83 0.08 0.09
Matches are distributed among these distances:
73 52 0.06
74 1 0.00
75 79 0.08
76 248 0.27
77 204 0.22
78 82 0.09
79 56 0.06
80 92 0.10
81 6 0.01
82 97 0.10
83 1 0.00
84 9 0.01
85 4 0.00
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (77 bp):
TGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAACAGAAATTTAAAAGA
AATACCTCAGCA
Found at i:61048710 original size:152 final size:151
Alignment explanation
Indices: 61047726--61048878 Score: 1221
Period size: 152 Copynumber: 7.5 Consensus size: 151
61047716 ACCTTGGTAT
* * * **
61047726 GTGACTCGAGGCTCAACTCACCTC-CAGCATTATAAGTTGATTTTT---GGAAAACAGAAATGT-
1 GTGACCCGAGGCTCAACTCACCTCTC-GCAATATGAGTTGATTTTTAAAAAAAAACAGAAAT-TA
* * * * * *
61047786 AAAATACCTTAGCATGACCCGAGGCTCAACTCACCTCTCGCATTATAAGTTAATTTT--TAAAAA
64 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAA
***
61047849 ACAGAAATTTAAAAGAAATACCTCGGT
129 ACAGAAA-TT--AA-AAATACCTCAAC
* * *
61047876 ATGACCCGAGGCTCAACTCACCTCTCGCAATATGAATT-A-ATTT-AAAAAAAACAGAAATTTAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAAACAGAAA-TT--
* * * *
61047938 AAGAAATACTTCGGCATGTG-TCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTAAAAA
63 AA-AAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAA
*
61048002 AAAAACAGAAATTCAAAAGAATTACCTCAGC
125 AAAAACAGAAATT--AAA-AA-TACCTCAAC
* *
61048033 GTGACCTGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAAAAAACAGAAAT
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTT---AAAAAAAAACAGAAAT
*
61048098 TAAAAATACCTCAGCGTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA
62 TAAAAATACCTCAGC--GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTAA
*
61048163 AAAAAAACAGAAATTAAAAATACCTCAGC
123 AAAAAAACAGAAATTAAAAATACCTCAAC
* * * *
61048192 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAATTGATTTTAAAAAAAAAAGACAGAAATTT
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TAAAAAAAA-ACAGAAA-TT
* *
61048257 AAAAGAAATACCTCGGCATGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTAAAA
63 --AA-AAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAA
* * * *
61048321 AAACAA-A-AATTTAAAAGAAATACATCGGCAT
125 AAA-AACAGAAATT--AA-AAATACCTC--AAC
* * *
61048352 GTG-TCCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA--TTT--AAAAAAATAGAAATTGAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAAACAGAAATT--A
* *
61048412 AAGAATTACCTCAGCATGACCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAA
64 AA-AA-TACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTT-AAA
* *
61048477 AAAAAATAGAAATTAAAAATACCTCAGC
124 AAAAAACAGAAATTAAAAATACCTCAAC
**
61048505 GTGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAAAACAGAAATTA
1 --GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAAACAGAAATTA
* *
61048570 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTAAAAAAAA
64 AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAA
*
61048635 GACAGAAATTAAAAATACCTCAAA
129 -ACAGAAATTAAAAATACCTCAAC
* ** * *
61048659 GTGACCCGAGGCTCAACTTACCTCTCTTATTATGAGTTGATTTTTAAAAAAAGACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAAACAGAAATTAAA
* *
61048724 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGA-TTTAAAAAAAATA
66 AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAA-A
61048788 CAGAAATTAAAAATACCTCAAC
130 CAGAAATTAAAAATACCTCAAC
* * *
61048810 GTGACCCGAGGCTCAACTCACCTCTCGTATTATGAGTTGATTTTTGAAAAAAAACAGAAATTAAA
1 GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAAACAGAAATTAAA
61048875 AATA
66 AATA
61048879 TTTCTCGAAA
Statistics
Matches: 867, Mismatches: 84, Indels: 103
0.82 0.08 0.10
Matches are distributed among these distances:
148 3 0.00
149 1 0.00
150 42 0.05
151 101 0.12
152 116 0.13
153 62 0.07
154 39 0.04
155 51 0.06
156 113 0.13
157 76 0.09
158 25 0.03
159 114 0.13
160 38 0.04
161 51 0.06
163 21 0.02
164 14 0.02
ACGTcount: A:0.39, C:0.20, G:0.15, T:0.26
Consensus pattern (151 bp):
GTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAAAAACAGAAATTAAA
AATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTAAAAAAAAAC
AGAAATTAAAAATACCTCAAC
Found at i:61055461 original size:19 final size:19
Alignment explanation
Indices: 61055437--61055473 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
61055427 GAAATATAAG
61055437 AATTTTTTTTAAAAACATA
1 AATTTTTTTTAAAAACATA
*
61055456 AATTTTTTTTTAAAACAT
1 AATTTTTTTTAAAAACAT
61055474 GAAAATTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
AATTTTTTTTAAAAACATA
Found at i:61055506 original size:35 final size:34
Alignment explanation
Indices: 61055461--61055863 Score: 197
Period size: 35 Copynumber: 11.3 Consensus size: 34
61055451 ACATAAATTT
* *
61055461 TTTTTTAAAACATGAAAATTTGTGAAACACGAAAA
1 TTTTTGAAAACA-GAAAATTTTTGAAACACGAAAA
** *
61055496 TCGTTGAAAACACGCAAATTTTTGAAAACACGAAAA
1 TTTTTGAAAACA-GAAAATTTTTG-AAACACGAAAA
**
61055532 TTTTTGAAACACA-AAAATTTTAAAAACACGAAAA
1 TTTTTGAAA-ACAGAAAATTTTTGAAACACGAAAA
* * *
61055566 TTTTTAAAAACAAGACAATTTTTGAAACACGAGAACTT
1 TTTTTGAAAAC-AGAAAATTTTTGAAACACGA-AA--A
* * *
61055604 TTTTTTAAAACATACAAATTTTTAAAACACGAAAA
1 TTTTTGAAAACAGA-AAATTTTTGAAACACGAAAA
* * * *
61055639 TTTGTG-AAACACGAGAATTGTTGAAAACATG-AAA
1 TTTTTGAAAACA-GAAAATTTTTG-AAACACGAAAA
* * ***
61055673 TTTTTTAAAACACGGAAATTTTTAGAAAACACGATTTT
1 TTTTTGAAAACA-GAAAATTTTT-G-AAACACGA-AAA
* * * *
61055711 TTTTTTAAAATCACCG-GAATTTTTGGGAACACGAAGA
1 TTTTTGAAAA-CA--GAAAATTTTT-GAAACACGAAAA
* * *
61055748 TTTTTGAAAACATGAAGATTTTTGAAACGCGAGAAT
1 TTTTTGAAAACA-GAAAATTTTTGAAACACGA-AAA
* * * *
61055784 TTTTTGAAAACGCAAAAAAATTTTGAAA-ATG-GAA
1 TTTTTGAAAA--CAGAAAATTTTTGAAACACGAAAA
* ** *
61055818 TTTTCTAAAAACACGAGCATTTTTGAAATCATGAAAA
1 TTTT-TGAAAACA-GAAAATTTTTGAAA-CACGAAAA
61055855 TTTTTGAAA
1 TTTTTGAAA
61055864 CACATGATTT
Statistics
Matches: 278, Mismatches: 65, Indels: 49
0.71 0.17 0.12
Matches are distributed among these distances:
33 4 0.01
34 53 0.19
35 77 0.28
36 55 0.20
37 33 0.12
38 44 0.16
39 10 0.04
40 2 0.01
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (34 bp):
TTTTTGAAAACAGAAAATTTTTGAAACACGAAAA
Found at i:61055508 original size:18 final size:18
Alignment explanation
Indices: 61055461--61055863 Score: 238
Period size: 18 Copynumber: 22.5 Consensus size: 18
61055451 ACATAAATTT
* *
61055461 TTTTTTAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
*
61055479 TTTGTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
** *
61055496 TCGTTGAAAACACGCAAA
1 TTTTTGAAAACACGAAAA
61055514 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
61055532 TTTTTG-AAACAC-AAAA
1 TTTTTGAAAACACGAAAA
* *
61055548 ATTTTAAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
61055566 TTTTTAAAAACAAGACAA
1 TTTTTGAAAACACGAAAA
*
61055584 TTTTTG-AAACACGAGAACTT
1 TTTTTGAAAACACGA-AA--A
* *
61055604 TTTTTTAAAACA-TACAAA
1 TTTTTGAAAACACGA-AAA
61055622 TTTTT-AAAACACGAAAA
1 TTTTTGAAAACACGAAAA
* *
61055639 TTTGTG-AAACACGAGAA
1 TTTTTGAAAACACGAAAA
* *
61055656 TTGTTGAAAACATG-AAA
1 TTTTTGAAAACACGAAAA
* *
61055673 TTTTTTAAAACACGGAAA
1 TTTTTGAAAACACGAAAA
***
61055691 TTTTTAGAAAACACGATTTT
1 TTTTT-GAAAACACGA-AAA
* *
61055711 TTTTTTAAAATCACCG-GAA
1 TTTTTGAAAA-CA-CGAAAA
** *
61055730 TTTTTGGGAACACGAAGA
1 TTTTTGAAAACACGAAAA
* *
61055748 TTTTTGAAAACATGAAGA
1 TTTTTGAAAACACGAAAA
* *
61055766 TTTTTG-AAACGCGAGAAT
1 TTTTTGAAAACACGA-AAA
* *
61055784 TTTTTGAAAACGCAAAAAA
1 TTTTTGAAAACAC-GAAAA
* * *
61055803 ATTTTG-AAA-ATG-GAA
1 TTTTTGAAAACACGAAAA
* **
61055818 TTTTCTAAAAACACGAGCA
1 TTTT-TGAAAACACGAAAA
* *
61055837 TTTTTGAAATCATGAAAA
1 TTTTTGAAAACACGAAAA
61055855 TTTTTGAAA
1 TTTTTGAAA
61055864 CACATGATTT
Statistics
Matches: 292, Mismatches: 70, Indels: 46
0.72 0.17 0.11
Matches are distributed among these distances:
15 5 0.02
16 9 0.03
17 83 0.28
18 134 0.46
19 38 0.13
20 16 0.05
21 7 0.02
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:61056248 original size:16 final size:16
Alignment explanation
Indices: 61056227--61056264 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
61056217 TTAAAATTAT
61056227 TTAAAA-TAAAGTAAAA
1 TTAAAATTAAA-TAAAA
*
61056243 TTAAAATTAAATTAAA
1 TTAAAATTAAATAAAA
61056259 TTAAAA
1 TTAAAA
61056265 ATATAAATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (16 bp):
TTAAAATTAAATAAAA
Found at i:61056764 original size:10 final size:10
Alignment explanation
Indices: 61056751--61056826 Score: 71
Period size: 10 Copynumber: 7.3 Consensus size: 10
61056741 ATTTTCAACA
61056751 TTTTTTTGTTT
1 TTTTTTTG-TT
61056762 TTTCTTTTGTT
1 TTT-TTTTGTT
*
61056773 TTCTTTTGTT
1 TTTTTTTGTT
61056783 TTTTTTTGTT
1 TTTTTTTGTT
* *
61056793 TTTTCTTCTT
1 TTTTTTTGTT
* * *
61056803 CTTCTTTCTT
1 TTTTTTTGTT
61056813 TCTTTTTTGTT
1 T-TTTTTTGTT
61056824 TTT
1 TTT
61056827 CCTCTTCTTC
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
10 33 0.62
11 15 0.28
12 5 0.09
ACGTcount: A:0.00, C:0.11, G:0.07, T:0.83
Consensus pattern (10 bp):
TTTTTTTGTT
Found at i:61056782 original size:22 final size:23
Alignment explanation
Indices: 61056754--61056813 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
61056744 TTCAACATTT
61056754 TTTTGTTTTTTCTTT-TGTTTTC
1 TTTTGTTTTTTCTTTGTGTTTTC
*
61056776 TTTTGTTTTTT-TTTGTTTTTTC
1 TTTTGTTTTTTCTTTGTGTTTTC
* *
61056798 TTCTTCTTCTTTCTTT
1 TT-TTGTTTTTTCTTT
61056814 CTTTTTTGTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 3 0.09
22 19 0.59
23 7 0.22
24 3 0.09
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.82
Consensus pattern (23 bp):
TTTTGTTTTTTCTTTGTGTTTTC
Found at i:61056795 original size:31 final size:31
Alignment explanation
Indices: 61056751--61056837 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 31
61056741 ATTTTCAACA
* *
61056751 TTTTTTTGTTTTTTCTTTTGTTTTCTTT-TGTT
1 TTTTTTTGTTTTTTCTTCT-TCTTCTTTCT-TT
61056783 TTTTTTTGTTTTTTCTTCTTCTTCTTTCTTT
1 TTTTTTTGTTTTTTCTTCTTCTTCTTTCTTT
* *
61056814 CTTTTTTG-TTTTTCCTCTTCTTCT
1 TTTTTTTGTTTTTTCTTCTTCTTCT
61056838 CTTGGATCTA
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
30 15 0.30
31 16 0.32
32 19 0.38
ACGTcount: A:0.00, C:0.15, G:0.06, T:0.79
Consensus pattern (31 bp):
TTTTTTTGTTTTTTCTTCTTCTTCTTTCTTT
Found at i:61056832 original size:24 final size:24
Alignment explanation
Indices: 61056791--61056840 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
61056781 TTTTTTTTTG
*
61056791 TTTTTTCTTCTTCTTCTTTCTT-TC
1 TTTTTTCTTCTTCCTC-TTCTTCTC
* *
61056815 TTTTTTGTTTTTCCTCTTCTTCTC
1 TTTTTTCTTCTTCCTCTTCTTCTC
61056839 TT
1 TT
61056841 GGATCTAGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.00, C:0.24, G:0.02, T:0.74
Consensus pattern (24 bp):
TTTTTTCTTCTTCCTCTTCTTCTC
Found at i:61056925 original size:15 final size:14
Alignment explanation
Indices: 61056905--61056934 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
61056895 TCCCGACGCT
61056905 TCCCTTCTCTTCCTC
1 TCCCTTCTC-TCCTC
61056920 TCCCTTCTCTCCTC
1 TCCCTTCTCTCCTC
61056934 T
1 T
61056935 TTTCTCTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (14 bp):
TCCCTTCTCTCCTC
Found at i:61057249 original size:29 final size:29
Alignment explanation
Indices: 61057181--61057374 Score: 194
Period size: 29 Copynumber: 6.6 Consensus size: 29
61057171 AAAACTTCTG
** *
61057181 GGGTCAAAACATAATTTTGAGAAAA-TTTAG
1 GGGTCAAAATGTAATTTT-A-AAAAGTTTAT
* **
61057211 GGGTCAAAATGTAATTTCAAAAAGTTGGT
1 GGGTCAAAATGTAATTTTAAAAAGTTTAT
* *
61057240 GGGACAAAATGTAATTTTAAAAAATTT-T
1 GGGTCAAAATGTAATTTTAAAAAGTTTAT
* * * *
61057268 AGGGTTAAAATATAATTTTAGAAAAATTTAA
1 -GGGTCAAAATGTAATTTTA-AAAAGTTTAT
* * *
61057299 GGGTCAAAATATAATTTTAAAAAGTCTAG
1 GGGTCAAAATGTAATTTTAAAAAGTTTAT
61057328 GGGTCAAAATGTAATTTTAAAAAGTTTAT
1 GGGTCAAAATGTAATTTTAAAAAGTTTAT
*
61057357 GGGTCAAAATGTATTTTT
1 GGGTCAAAATGTAATTTT
61057375 TTTTGAAAAA
Statistics
Matches: 138, Mismatches: 22, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
28 5 0.04
29 92 0.67
30 41 0.30
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.35
Consensus pattern (29 bp):
GGGTCAAAATGTAATTTTAAAAAGTTTAT
Found at i:61057269 original size:59 final size:58
Alignment explanation
Indices: 61057181--61057374 Score: 219
Period size: 59 Copynumber: 3.3 Consensus size: 58
61057171 AAAACTTCTG
** * * **
61057181 GGGTCAAAACATAATTTTGAGAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTGGT
1 GGGTCAAAATGTAATTTT-AAAAAATTTAGGGGTCAAAATGTAATTTTAAAAAGTTTAT
* * * * *
61057240 GGGACAAAATGTAATTTTAAAAAATTTTA-GGGTTAAAATATAATTTTAGAAAAATTTAA
1 GGGTCAAAATGTAATTTTAAAAAA-TTTAGGGGTCAAAATGTAATTTTA-AAAAGTTTAT
* * *
61057299 GGGTCAAAATATAATTTTAAAAAGTCTAGGGGTCAAAATGTAATTTTAAAAAGTTTAT
1 GGGTCAAAATGTAATTTTAAAAAATTTAGGGGTCAAAATGTAATTTTAAAAAGTTTAT
*
61057357 GGGTCAAAATGTATTTTT
1 GGGTCAAAATGTAATTTT
61057375 TTTTGAAAAA
Statistics
Matches: 111, Mismatches: 21, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
58 48 0.43
59 63 0.57
ACGTcount: A:0.43, C:0.05, G:0.18, T:0.35
Consensus pattern (58 bp):
GGGTCAAAATGTAATTTTAAAAAATTTAGGGGTCAAAATGTAATTTTAAAAAGTTTAT
Found at i:61057366 original size:88 final size:88
Alignment explanation
Indices: 61057181--61057366 Score: 252
Period size: 88 Copynumber: 2.1 Consensus size: 88
61057171 AAAACTTCTG
* * * *
61057181 GGGTCAAAACATAATTTTGAGAAAATTTAGGGGTCAAAATGTAATTTCAAAAAGTTGGTGGGACA
1 GGGTCAAAATATAATTTTGAGAAAATTTAAGGGTCAAAATATAATTTCAAAAAGTTAGTGGGACA
61057246 AAATGTAATTTTAAAAAATTTTA
66 AAATGTAATTTTAAAAAATTTTA
* * *
61057269 GGGTTAAAATATAATTTT-AGAAAAATTTAAGGGTCAAAATATAATTTTAAAAAGTCTAG-GGGT
1 GGGTCAAAATATAATTTTGAG-AAAATTTAAGGGTCAAAATATAATTTCAAAAAGT-TAGTGGGA
*
61057332 CAAAATGTAATTTT-AAAAAGTTTA
64 CAAAATGTAATTTTAAAAAATTTTA
61057356 TGGGTCAAAAT
1 -GGGTCAAAAT
61057367 GTATTTTTTT
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
87 11 0.13
88 73 0.85
89 2 0.02
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (88 bp):
GGGTCAAAATATAATTTTGAGAAAATTTAAGGGTCAAAATATAATTTCAAAAAGTTAGTGGGACA
AAATGTAATTTTAAAAAATTTTA
Found at i:61058050 original size:92 final size:92
Alignment explanation
Indices: 61057450--61058033 Score: 873
Period size: 92 Copynumber: 6.3 Consensus size: 92
61057440 ACTGTTTATA
* * * * * *
61057450 GTTATACATTGTCGAAATTGATTTGCATATGAATATAAGTTGCTGAATTGATTTGTATATGATTG
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
61057515 TACATTGCTGAAATTAATTTGTATATG
66 TACATTGCTGAAATTAATTTGTATATG
61057542 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* *
61057607 TACATTGCTTAAATTAATTTGTACATG
66 TACATTGCTGAAATTAATTTGTATATG
* * *
61057634 GTTATACATTATTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATAATTG
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
61057699 TACATTGCTGAAATTAATTTGTATATG
66 TACATTGCTGAAATTAATTTGTATATG
* ** * *
61057726 GTGATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTCATATATGGTTG
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
61057791 TACATTGCTGAAATTAATTTGTATATG
66 TACATTGCTGAAATTAATTTGTATATG
* * *
61057818 GTTATACATTGTTGAAATTGAATTATATAAGGATATAAGTTGCCGAATTGATTTTTATATGATTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* * *
61057883 TATATTGTTGAAATTAATTTGTACATG
66 TACATTGCTGAAATTAATTTGTATATG
* * *
61057910 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCAAATTGATTCGTATATGGTTA
1 GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
* *
61057975 TACATTGCTGAATTTAATTTGCATATG
66 TACATTGCTGAAATTAATTTGTATATG
* ** *
61058002 ATTATACATTACTGAACTTG-ATTCGTATATGG
1 GTTATACATTGTTGAAATTGAATT-GTATATGG
61058034 TTGTACATTG
Statistics
Matches: 447, Mismatches: 44, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
91 3 0.01
92 444 0.99
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.43
Consensus pattern (92 bp):
GTTATACATTGTTGAAATTGAATTGTATATGGATATAAGTTGCCGAATTGATTTGTATATGATTA
TACATTGCTGAAATTAATTTGTATATG
Found at i:61058058 original size:31 final size:31
Alignment explanation
Indices: 61057497--61058059 Score: 159
Period size: 31 Copynumber: 18.3 Consensus size: 31
61057487 AGTTGCTGAA
* * * *
61057497 TTGATTTGTATATGATTGTACATTGCTGAAA-
1 TTGATTCGTATATGGTTATACATTGC-CAAAT
* * **
61057528 TTAATTTGTATATGGTTATACATTGTTGAAA-
1 TTGATTCGTATATGGTTATACATTG-CCAAAT
* *
61057559 TTGAATT-GTATATGGATATA-AGTTGCCGAA-
1 TTG-ATTCGTATATGGTTATACA-TTGCCAAAT
* * *
61057589 TTGATTTGTATATGATTATACATTGCTTAAA-
1 TTGATTCGTATATGGTTATACATTGC-CAAAT
* * * ***
61057620 TTAATTTGTACATGGTTATACATTATTGAAA-
1 TTGATTCGTATATGGTTATACATT-GCCAAAT
* *
61057651 TTGAATT-GTATATGGATATA-AGTTGCCGAA-
1 TTG-ATTCGTATATGGTTATACA-TTGCCAAAT
* ** * *
61057681 TTGATTTGTATATAATTGTACATTGCTGAAA-
1 TTGATTCGTATATGGTTATACATTGC-CAAAT
* * * **
61057712 TTAATTTGTATATGGTGATACATTGTTGAAA-
1 TTGATTCGTATATGGTTATACATTG-CCAAAT
* *
61057743 TTGAATT-GTATATGGATATA-AGTTGCCGAA-
1 TTG-ATTCGTATATGGTTATACA-TTGCCAAAT
* * *
61057773 TTGATTCATATATGGTTGTACATTGCTGAAA-
1 TTGATTCGTATATGGTTATACATTGC-CAAAT
* * **
61057804 TTAATTTGTATATGGTTATACATTGTTGAAA-
1 TTGATTCGTATATGGTTATACATTG-CCAAAT
* * * *
61057835 TTGAATT-ATATAAGGATATA-AGTTGCCGAA-
1 TTG-ATTCGTATATGGTTATACA-TTGCCAAAT
** * * **
61057865 TTGATTTTTATATGATTATATATTGTTGAAA-
1 TTGATTCGTATATGGTTATACATTG-CCAAAT
* * * **
61057896 TTAATTTGTACATGGTTATACATTGTTGAAA-
1 TTGATTCGTATATGGTTATACATTG-CCAAAT
*
61057927 TTGAATT-GTATATGGATATA-AGTTGCCAAA-
1 TTG-ATTCGTATATGGTTATACA-TTGCCAAAT
**
61057957 TTGATTCGTATATGGTTATACATTGCTGAAT
1 TTGATTCGTATATGGTTATACATTGCCAAAT
* * * * * ** *
61057988 TTAATTTGCATATGATTATACATTACTGAAC
1 TTGATTCGTATATGGTTATACATTGCCAAAT
*
61058019 TTGATTCGTATATGGTTGTACATTGCCAAAT
1 TTGATTCGTATATGGTTATACATTGCCAAAT
*
61058050 TTGGTTCGTA
1 TTGATTCGTA
61058060 CATGAATATA
Statistics
Matches: 406, Mismatches: 97, Indels: 58
0.72 0.17 0.10
Matches are distributed among these distances:
29 15 0.04
30 103 0.25
31 273 0.67
32 15 0.04
ACGTcount: A:0.32, C:0.07, G:0.18, T:0.43
Consensus pattern (31 bp):
TTGATTCGTATATGGTTATACATTGCCAAAT
Found at i:61065623 original size:14 final size:15
Alignment explanation
Indices: 61065594--61065629 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
61065584 TTCCAATTCG
*
61065594 AATAATTTTTCAAAA
1 AATAATTTTACAAAA
61065609 AATAATTTTACAAAA
1 AATAATTTTACAAAA
61065624 AA-AATT
1 AATAATT
61065630 ATTTGAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 4 0.20
15 16 0.80
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATTTTACAAAA
Found at i:61066341 original size:13 final size:13
Alignment explanation
Indices: 61066323--61066383 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 13
61066313 TTTTCATTTT
61066323 TTTTGAAAAGTGC
1 TTTTGAAAAGTGC
*
61066336 TTTTGAAAATTGC
1 TTTTGAAAAGTGC
***
61066349 TGCGGAAAAGTGC
1 TTTTGAAAAGTGC
* *
61066362 TTCTGAGAAGTGC
1 TTTTGAAAAGTGC
61066375 TTTTGAAAA
1 TTTTGAAAA
61066384 ATTTTGAGTG
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
13 38 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (13 bp):
TTTTGAAAAGTGC
Found at i:61067708 original size:18 final size:18
Alignment explanation
Indices: 61067618--61068227 Score: 402
Period size: 18 Copynumber: 34.2 Consensus size: 18
61067608 GACAATTATT
*
61067618 TTTTTCAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
* *
61067637 ATTTT-AAAACACGAGAA
1 TTTTTGAAAACACGAAAA
* *
61067654 TTTTAG-AGACACGAAAA
1 TTTTTGAAAACACGAAAA
* * *
61067671 TTCTTAAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
*
61067689 TTTTTGAAAACACGACAA
1 TTTTTGAAAACACGAAAA
*
61067707 -TTTTG-AAACACGATAATTTT
1 TTTTTGAAAACACGA-AA---A
**
61067727 TTTTTGAAAACACG-ATT
1 TTTTTGAAAACACGAAAA
*
61067744 TTTTTG-AAACGCGAAAA
1 TTTTTGAAAACACGAAAA
* * *
61067761 TTTGTG-AAATACGAGAA
1 TTTTTGAAAACACGAAAA
61067778 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
61067796 TTTTTGAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
*
61067814 TTTTTG-AAACACTG-AAG
1 TTTTTGAAAACAC-GAAAA
61067831 TTTTTAGAAAACACGAAAAAA
1 TTTTT-GAAAACACG--AAAA
* *
61067852 TTTTTG--ATCATCG-GAA
1 TTTTTGAAAACA-CGAAAA
*
61067868 TTTTTGAGAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
61067886 TTTTTG-AAACACGAAAG
1 TTTTTGAAAACACGAAAA
**
61067903 TTTTTAGAAAACACGAATT
1 TTTTT-GAAAACACGAAAA
* ** *
61067922 TTTTTTATTA-TCG-AAA
1 TTTTTGAAAACACGAAAA
61067938 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACGAAAA
***
61067956 TTTTTG-AAACACCTGAA
1 TTTTTGAAAACACGAAAA
* * **
61067973 TTTTTGAAAATAGGATGA
1 TTTTTGAAAACACGAAAA
61067991 TTTTTG-AAACACGAAAA
1 TTTTTGAAAACACGAAAA
*
61068008 TTTTTGAAAACACAAAAA
1 TTTTTGAAAACACGAAAA
* *
61068026 TTTTTGAAAACACGGGAAT
1 TTTTTGAAAACAC-GAAAA
*
61068045 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
* *
61068063 -TTTTG-AAACACCG-GAG
1 TTTTTGAAAACA-CGAAAA
*
61068079 TTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAA
**
61068097 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAAAA
*
61068114 TTTTCTGAAAACACAAAAA
1 TTTT-TGAAAACACGAAAA
* ** * *
61068133 ATTTTGAAAA-TTGGAAT
1 TTTTTGAAAACACGAAAA
* **
61068150 TTTTTGAAAATACGGGAATT
1 TTTTTGAAAACAC--GAAAA
*
61068170 TTTTTGAAAACATGAAAA
1 TTTTTGAAAACACGAAAA
**
61068188 TTTTTG-AAACACGGGAA
1 TTTTTGAAAACACGAAAA
61068205 TTTTTGAAAACACGAAAAA
1 TTTTTGAAAACACG-AAAA
61068224 TTTT
1 TTTT
61068228 CTGATTTTTA
Statistics
Matches: 451, Mismatches: 102, Indels: 76
0.72 0.16 0.12
Matches are distributed among these distances:
16 36 0.08
17 160 0.35
18 163 0.36
19 57 0.13
20 16 0.04
21 12 0.03
22 7 0.02
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (18 bp):
TTTTTGAAAACACGAAAA
Found at i:61067749 original size:38 final size:38
Alignment explanation
Indices: 61067689--61067763 Score: 105
Period size: 38 Copynumber: 2.0 Consensus size: 38
61067679 AACACAAAAA
*
61067689 TTTTTGAAAACACGACAATTTTGAAACACGATAATTTT
1 TTTTTGAAAACACGACAATTTTGAAACACGAAAATTTT
*** *
61067727 TTTTTGAAAACACGATTTTTTTGAAACGCGAAAATTT
1 TTTTTGAAAACACGACAATTTTGAAACACGAAAATTT
61067764 GTGAAATACG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (38 bp):
TTTTTGAAAACACGACAATTTTGAAACACGAAAATTTT
Found at i:61067835 original size:53 final size:52
Alignment explanation
Indices: 61067618--61068227 Score: 406
Period size: 53 Copynumber: 11.4 Consensus size: 52
61067608 GACAATTATT
* * * * *
61067618 TTTTTCAAAACACGAAAAAATTTT-AAAACACGAGAATTTTAGAGACACGAAAA
1 TTTTTGAAAACACG-AAAATTTTTGAAAACACGAAAATTTTTGAAACACG-AAA
* * * *
61067671 TTCTTAAAAACACAAAAATTTTTGAAAACACGACAA-TTTTGAAACACGATAA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACACGA-AA
** * * *
61067723 TTTTTTTTTGAAAACACG-ATTTTTTTG-AAACGCGAAAATTTGTGAAATACGAGAA
1 ----TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACACGA-AA
* *
61067778 TTTTTGAAAACACGAAAATTTTTGAAAACACAAAAATTTTTGAAACACTGAAG
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACAC-GAAA
* *
61067831 TTTTTAGAAAACACGAAAAAATTTTTG--ATCATCG-GAATTTTTGAGAACACGAAAA
1 TTTTT-GAAAACACG--AAAATTTTTGAAAACA-CGAAAATTTTTGA-AACACG-AAA
* ** * * *
61067886 TTTTTG-AAACACGAAAGTTTTTAGAAAACACGAATTTTTTTTATTA-TCGAAA
1 TTTTTGAAAACACGAAAATTTTT-GAAAACACGAAAATTTTTGA-AACACGAAA
*** * * *
61067938 TTTTTGAAAACACGAAAATTTTTG-AAACACCTGAATTTTTGAAAATAGGATGA
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTG-AAACACGA-AA
* *
61067991 TTTTTG-AAACACGAAAATTTTTGAAAACACAAAAATTTTTGAAAACACGGGAAT
1 TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTG-AAACAC--GAAA
* * *
61068045 TTTTTGAAAACATGAAAA-TTTTG-AAACACCG-GAGTTTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAAAATTTTTGAAAACA-CGAAAATTTTTG-AAACACGAA-A
** * * * *
61068097 TTTTTG-AAACACGGGAATTTTCTGAAAACACAAAAAATTTTGAAA-ATTGGAAT
1 TTTTTGAAAACACGAAAATTTT-TGAAAACACGAAAATTTTTGAAACA--CGAAA
* ** * *
61068150 TTTTTGAAAATACGGGAATTTTTTTGAAAACATGAAAATTTTTGAAACACGGGAA
1 TTTTTGAAAACAC--GAAAATTTTTGAAAACACGAAAATTTTTGAAACAC-GAAA
*
61068205 TTTTTGAAAACACGAAAAATTTT
1 TTTTTGAAAACACGAAAATTTTT
61068228 CTGATTTTTA
Statistics
Matches: 432, Mismatches: 84, Indels: 82
0.72 0.14 0.14
Matches are distributed among these distances:
51 46 0.11
52 68 0.16
53 137 0.32
54 75 0.17
55 79 0.18
56 27 0.06
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.32
Consensus pattern (52 bp):
TTTTTGAAAACACGAAAATTTTTGAAAACACGAAAATTTTTGAAACACGAAA
Found at i:61068153 original size:70 final size:68
Alignment explanation
Indices: 61067794--61068159 Score: 313
Period size: 70 Copynumber: 5.2 Consensus size: 68
61067784 AAAACACGAA
* *
61067794 AATTTTTGAAAACACAAAAATTTTTGAAACACTGAAGTTTTTAGAAAACACGAAAAAATTTTTGA
1 AATTTTTGAAAACACGAAAATTTTTGAAACACGGAA-TTTTT-GAAAACAC-AAAAAA-TTTTGA
**
61067859 TCATCGG
62 AAATCGG
* * * *** * **
61067866 AATTTTTGAGAACACGAAAATTTTTGAAACACGAAAGTTTTTAGAAAACACGAATTTTTTTTATT
1 AATTTTTGAAAACACGAAAATTTTTGAAACACGGAA-TTTTT-GAAAACACAAAAAATTTTGAAA
*
61067931 ATCGA
64 ATCGG
* * ** ** *
61067936 AATTTTTGAAAACACGAAAATTTTTGAAACACCTGAATTTTTGAAAATAGGATGATTTTTGAAAC
1 AATTTTTGAAAACACGAAAATTTTTGAAACA-CGGAATTTTTGAAAACACAAAAAATTTTGAAA-
*
61068001 A-CGAA
64 ATCG-G
* **
61068006 AATTTTTGAAAACACAAAAATTTTTGAAAACACGGGAATTTTTTGAAAACA-TGAAAATTTTGAA
1 AATTTTTGAAAACACGAAAATTTTTG-AAACAC-GGAA-TTTTTGAAAACACAAAAAATTTTGAA
*
61068070 ACACCGG
63 A-ATCGG
* *
61068077 AGTTTTTGAAAACACGAAGATTTTTGAAACACGGGAATTTTCTGAAAACACAAAAAATTTTGAAA
1 AATTTTTGAAAACACGAAAATTTTTGAAACAC-GGAATTTT-TGAAAACACAAAAAATTTTGAAA
*
61068142 ATTGG
64 ATCGG
61068147 AATTTTTTGAAAA
1 AA-TTTTTGAAAA
61068160 TACGGGAATT
Statistics
Matches: 245, Mismatches: 39, Indels: 21
0.80 0.13 0.07
Matches are distributed among these distances:
69 20 0.08
70 96 0.39
71 69 0.28
72 60 0.24
ACGTcount: A:0.43, C:0.10, G:0.14, T:0.33
Consensus pattern (68 bp):
AATTTTTGAAAACACGAAAATTTTTGAAACACGGAATTTTTGAAAACACAAAAAATTTTGAAAAT
CGG
Found at i:61068202 original size:37 final size:36
Alignment explanation
Indices: 61067638--61068227 Score: 237
Period size: 35 Copynumber: 16.6 Consensus size: 36
61067628 CACGAAAAAA
* * * **
61067638 TTTT-AAAACACGAGAATTTTAG-AGACACGAAAAT
1 TTTTGAAAACACGAAAATTTTTGAAAACACGGGAAT
* * * **
61067672 TCTTAAAAACACAAAAATTTTTGAAAACACGACAA-
1 TTTTGAAAACACGAAAATTTTTGAAAACACGGGAAT
* *
61067707 TTTTG-AAACACGATAATTTTTTTTTGAAAACAC--GATTT
1 TTTTGAAAACACGA-AA---ATTTTTGAAAACACGGGA-AT
* * * *
61067745 TTTTG-AAACGCGAAAATTTGTG-AAATACGAGAAT
1 TTTTGAAAACACGAAAATTTTTGAAAACACGGGAAT
***
61067779 TTTTGAAAACACGAAAATTTTTGAAAACACAAAAAT
1 TTTTGAAAACACGAAAATTTTTGAAAACACGGGAAT
* **
61067815 TTTTG-AAACACTG-AAGTTTTTAGAAAACACGAAAAAAT
1 TTTTGAAAACAC-GAAAATTTTT-GAAAACACG--GGAAT
* * * **
61067853 TTTTG--ATCATCG-GAATTTTTGAGAACACGAAAAT
1 TTTTGAAAACA-CGAAAATTTTTGAAAACACGGGAAT
*
61067887 TTTTG-AAACACGAAAGTTTTTAGAAAACAC--GAAT
1 TTTTGAAAACACGAAAATTTTT-GAAAACACGGGAAT
*** ** **
61067921 TTTTTTTATTATCG-AAATTTTTGAAAACACGAAAAT
1 TTTTGAAAACA-CGAAAATTTTTGAAAACACGGGAAT
*** *
61067957 TTTTG-AAACACCTGAATTTTTGAAAATA--GGATGAT
1 TTTTGAAAACACGAAAATTTTTGAAAACACGGGA--AT
***
61067992 TTTTG-AAACACGAAAATTTTTGAAAACACAAAAAT
1 TTTTGAAAACACGAAAATTTTTGAAAACACGGGAAT
* * * * *
61068027 TTTTGAAAACACGGGAATTTTTTGAAAACA-TGAAAA
1 TTTTGAAAACAC-GAAAATTTTTGAAAACACGGGAAT
* * *
61068063 TTTTG-AAACACCG-GAGTTTTTGAAAACAC-GAAGAT
1 TTTTGAAAACA-CGAAAATTTTTGAAAACACGGGA-AT
** *** *
61068098 TTTTG-AAACACGGGAATTTTCTGAAAACACAAAAAA
1 TTTTGAAAACACGAAAATTTT-TGAAAACACGGGAAT
** * * *
61068134 TTTTGAAAA-TTGGAATTTTTTGAAAATACGGGAATTT
1 TTTTGAAAACACGAAAATTTTTGAAAACACGGGAA--T
*
61068171 TTTTGAAAACATGAAAATTTTTG-AAACACGGGAAT
1 TTTTGAAAACACGAAAATTTTTGAAAACACGGGAAT
*
61068206 TTTTGAAAACACGAAAAATTTT
1 TTTTGAAAACACGAAAATTTTT
61068228 CTGATTTTTA
Statistics
Matches: 435, Mismatches: 80, Indels: 81
0.73 0.13 0.14
Matches are distributed among these distances:
33 6 0.01
34 67 0.15
35 170 0.39
36 94 0.22
37 52 0.12
38 46 0.11
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (36 bp):
TTTTGAAAACACGAAAATTTTTGAAAACACGGGAAT
Found at i:61068352 original size:18 final size:18
Alignment explanation
Indices: 61068329--61068430 Score: 57
Period size: 18 Copynumber: 5.4 Consensus size: 18
61068319 TTCGTTGCAT
61068329 TATTTTTGAAAACACGAA
1 TATTTTTGAAAACACGAA
61068347 TATTTTTTG-AAACACGAGAAA
1 TA-TTTTTGAAAACAC--G-AA
* *
61068368 AATTTTTGAAGACACGAA
1 TATTTTTGAAAACACGAA
* *
61068386 -AATTTCG-AAACACGGGAA
1 TATTTTTGAAAACAC--GAA
*
61068404 TTTTTTTTCGAAAACACGAA
1 -TATTTTT-GAAAACACGAA
*
61068424 AATTTTT
1 TATTTTT
61068431 TGAATATTTT
Statistics
Matches: 63, Mismatches: 10, Indels: 21
0.67 0.11 0.22
Matches are distributed among these distances:
16 5 0.08
17 5 0.08
18 13 0.21
19 12 0.19
20 13 0.21
21 9 0.14
22 6 0.10
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.33
Consensus pattern (18 bp):
TATTTTTGAAAACACGAA
Found at i:61068414 original size:21 final size:22
Alignment explanation
Indices: 61068388--61068431 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
61068378 GACACGAAAA
**
61068388 TTTCG-AAACACGGGAATTTTT
1 TTTCGAAAACACGAAAATTTTT
61068409 TTTCGAAAACACGAAAATTTTT
1 TTTCGAAAACACGAAAATTTTT
61068431 T
1 T
61068432 GAATATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.39
Consensus pattern (22 bp):
TTTCGAAAACACGAAAATTTTT
Found at i:61068760 original size:9 final size:9
Alignment explanation
Indices: 61068746--61068800 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
61068736 GCAAATTGAA
61068746 TCTTTTTTT
1 TCTTTTTTT
*
61068755 TC-TTTTTC
1 TCTTTTTTT
*
61068763 TCTTTTCTCT
1 TCTTTT-TTT
61068773 T-TTTTTTT
1 TCTTTTTTT
*
61068781 TCCTTTTTT
1 TCTTTTTTT
61068790 TCTTCTTTTT
1 TCTT-TTTTT
61068800 T
1 T
61068801 TCTACTGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
8 10 0.28
9 18 0.50
10 8 0.22
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (9 bp):
TCTTTTTTT
Found at i:61068780 original size:20 final size:21
Alignment explanation
Indices: 61068751--61068803 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
61068741 TTGAATCTTT
61068751 TTTTTCTTTTTCTC-TTTTCTC
1 TTTTT-TTTTTCTCTTTTTCTC
*
61068772 TTTTTTTTTTC-CTTTTTTTC
1 TTTTTTTTTTCTCTTTTTCTC
*
61068792 TTCTTTTTTTCT
1 TTTTTTTTTTCT
61068804 ACTGGGCTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 22 0.79
21 5 0.18
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (21 bp):
TTTTTTTTTTCTCTTTTTCTC
Found at i:61068959 original size:15 final size:15
Alignment explanation
Indices: 61068933--61068976 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
61068923 TTGGACAGGC
61068933 CTGCTG-TTTTTTTAG
1 CTGCTGCTTTTTTT-G
61068948 -TGCTGCTTTTTTTG
1 CTGCTGCTTTTTTTG
61068962 CTGCTGCTGTTTTTT
1 CTGCTGCT-TTTTTT
61068977 TGGGCTGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.23
15 14 0.54
16 6 0.23
ACGTcount: A:0.02, C:0.16, G:0.20, T:0.61
Consensus pattern (15 bp):
CTGCTGCTTTTTTTG
Found at i:61069103 original size:21 final size:21
Alignment explanation
Indices: 61069077--61069135 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 21
61069067 CGATTTTAAT
61069077 TTTTTTCTTCTTTCTTTCTTC
1 TTTTTTCTTCTTTCTTTCTTC
61069098 TTTTTTCTTCGTTTC-TTCTTC
1 TTTTTTCTTC-TTTCTTTCTTC
*
61069119 TTCCTTTTCTTCCTTCT
1 TT--TTTTCTTCTTTCT
61069136 CCGTTCACCC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
21 18 0.55
22 7 0.21
23 8 0.24
ACGTcount: A:0.00, C:0.27, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTTTCTTCTTTCTTTCTTC
Found at i:61069256 original size:17 final size:18
Alignment explanation
Indices: 61069234--61069284 Score: 63
Period size: 17 Copynumber: 2.9 Consensus size: 18
61069224 TTCCCCCTTT
61069234 TCTTTTTTC-TTCTTTGC
1 TCTTTTTTCTTTCTTTGC
*
61069251 TC-TTTTTCTTTCTTTTC
1 TCTTTTTTCTTTCTTTGC
61069268 TCTTTTTTTCTTT-TTTG
1 TC-TTTTTTCTTTCTTTG
61069285 TTGTTTCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 6 0.21
17 11 0.38
18 3 0.10
19 9 0.31
ACGTcount: A:0.00, C:0.20, G:0.04, T:0.76
Consensus pattern (18 bp):
TCTTTTTTCTTTCTTTGC
Found at i:61069641 original size:30 final size:30
Alignment explanation
Indices: 61069586--61069763 Score: 144
Period size: 30 Copynumber: 6.0 Consensus size: 30
61069576 TAATGGCAGC
* * *
61069586 AAAACTTTTGGGGTCAAAACGTAATTTTTA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTTA
* * * **
61069616 TAAAGTTTAGGAGTCAAAATATAATTTCAA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTTA
* * * *
61069646 AAAAGTTCAAGTGTCAAAATGTAA-TTTCA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTTA
* * ** *
61069675 AAATGTTTTGGGGTTGAAATGTAATTTTGA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTTA
* *
61069705 AAAAGTTTAGGGGTCAAAATAT-AGTTTTA
1 AAAAGTTTAGGGGTCAAAATGTAATTTTTA
* *
61069734 GAAAAGTTTAAGGGTCAAAATGTATTTTTT
1 -AAAAGTTTAGGGGTCAAAATGTAATTTTT
61069764 TTAAACACAA
Statistics
Matches: 111, Mismatches: 34, Indels: 5
0.74 0.23 0.03
Matches are distributed among these distances:
29 25 0.23
30 82 0.74
31 4 0.04
ACGTcount: A:0.39, C:0.06, G:0.19, T:0.37
Consensus pattern (30 bp):
AAAAGTTTAGGGGTCAAAATGTAATTTTTA
Found at i:61069722 original size:89 final size:89
Alignment explanation
Indices: 61069591--61069757 Score: 235
Period size: 89 Copynumber: 1.9 Consensus size: 89
61069581 GCAGCAAAAC
* *
61069591 TTTTGGGGTCAAAACGTAATTTTTATAAAGTTTAGGAGTCAAAATATAATTTCAAAAAAGTTCAA
1 TTTTGGGGTCAAAACGTAATTTTGAAAAAGTTTAGGAGTCAAAATATAATTTCAAAAAAGTTCAA
*
61069656 GTGTCAAAATGTAATTTCAAAATG
66 GGGTCAAAATGTAATTTCAAAATG
** * * * * * *
61069680 TTTTGGGGTTGAAATGTAATTTTGAAAAAGTTTAGGGGTCAAAATATAGTTTTAGAAAAGTTTAA
1 TTTTGGGGTCAAAACGTAATTTTGAAAAAGTTTAGGAGTCAAAATATAATTTCAAAAAAGTTCAA
61069745 GGGTCAAAATGTA
66 GGGTCAAAATGTA
61069758 TTTTTTTTAA
Statistics
Matches: 67, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
89 67 1.00
ACGTcount: A:0.40, C:0.05, G:0.20, T:0.35
Consensus pattern (89 bp):
TTTTGGGGTCAAAACGTAATTTTGAAAAAGTTTAGGAGTCAAAATATAATTTCAAAAAAGTTCAA
GGGTCAAAATGTAATTTCAAAATG
Found at i:61072621 original size:10 final size:9
Alignment explanation
Indices: 61072607--61072753 Score: 68
Period size: 10 Copynumber: 15.8 Consensus size: 9
61072597 TTAGAATTTT
61072607 TAAAAATTA
1 TAAAAATTA
61072616 TAAAAA-TA
1 TAAAAATTA
61072624 TAAAAATTA
1 TAAAAATTA
*
61072633 CTAAAAATAA
1 -TAAAAATTA
61072643 TAAAAAATTA
1 T-AAAAATTA
*
61072653 TTTAAGAATTA
1 --TAAAAATTA
* **
61072664 T-GAAAGCA
1 TAAAAATTA
*
61072672 TAACAAACTA
1 TAA-AAATTA
61072682 TAAAAA-TA
1 TAAAAATTA
* *
61072690 TTTAAAACTA
1 -TAAAAATTA
**
61072700 TAAAAGCTA
1 TAAAAATTA
61072709 TTAAAAATTA
1 -TAAAAATTA
*
61072719 CAAAATATTA
1 TAAAA-ATTA
**
61072729 TAATGCATTA
1 TAA-AAATTA
61072739 TAAAAA-TA
1 TAAAAATTA
61072747 TAAAAAT
1 TAAAAAT
61072754 ATTTAGTAAA
Statistics
Matches: 104, Mismatches: 21, Indels: 26
0.69 0.14 0.17
Matches are distributed among these distances:
8 22 0.21
9 30 0.29
10 44 0.42
11 7 0.07
12 1 0.01
ACGTcount: A:0.61, C:0.05, G:0.03, T:0.30
Consensus pattern (9 bp):
TAAAAATTA
Found at i:61076316 original size:22 final size:21
Alignment explanation
Indices: 61076284--61076344 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 21
61076274 AATAATAATA
61076284 TTATTATTTATATAAAATAAAT
1 TTATTA-TTATATAAAATAAAT
* *
61076306 TATATTATTATTTAAAA-ATAT
1 T-TATTATTATATAAAATAAAT
61076327 TT-TTA--ATATAAAATAAAT
1 TTATTATTATATAAAATAAAT
61076345 AAAATCACAC
Statistics
Matches: 33, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 7 0.21
18 3 0.09
19 3 0.09
20 1 0.03
21 4 0.12
22 10 0.30
23 5 0.15
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTATTATTATATAAAATAAAT
Found at i:61080983 original size:6 final size:6
Alignment explanation
Indices: 61080936--61080982 Score: 67
Period size: 6 Copynumber: 7.5 Consensus size: 6
61080926 GCTTTAAATC
*
61080936 TATCTA TATCTA TATCTA TATCTA TATCTA TCTATCTA TATATA TAT
1 TATCTA TATCTA TATCTA TATCTA TATCTA --TATCTA TATCTA TAT
61080983 AACATTATTC
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
6 32 0.84
8 6 0.16
ACGTcount: A:0.34, C:0.15, G:0.00, T:0.51
Consensus pattern (6 bp):
TATCTA
Found at i:61081512 original size:29 final size:29
Alignment explanation
Indices: 61081470--61081547 Score: 77
Period size: 31 Copynumber: 2.6 Consensus size: 29
61081460 AAGTTGTGGG
* * *
61081470 TTTAGTC-TCTATACTTTTATTTGATTAAT
1 TTTAGTCAT-TATACTTTTAATTGATCAAA
*
61081499 TTTAGTCATTATACATTTCGAATTGATCAAA
1 TTTAGTCATTATAC-TTT-TAATTGATCAAA
*
61081530 TTTAGTCATTGTACTTTT
1 TTTAGTCATTATACTTTT
61081548 TAAAATTTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
29 12 0.30
30 7 0.17
31 21 0.52
ACGTcount: A:0.27, C:0.12, G:0.09, T:0.53
Consensus pattern (29 bp):
TTTAGTCATTATACTTTTAATTGATCAAA
Found at i:61083504 original size:33 final size:33
Alignment explanation
Indices: 61083457--61083534 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
61083447 TAAATTTGAT
*
61083457 TATATAAATAAAATTTTAATTGTAATTCAAATA
1 TATATATATAAAATTTTAATTGTAATTCAAATA
* * * *
61083490 TGTATATATAAAATTTTAATTTTGATTCAATTA
1 TATATATATAAAATTTTAATTGTAATTCAAATA
*
61083523 TATATATTTAAA
1 TATATATATAAA
61083535 TAAATAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (33 bp):
TATATATATAAAATTTTAATTGTAATTCAAATA
Found at i:61086597 original size:2 final size:2
Alignment explanation
Indices: 61086592--61086619 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
61086582 GTGTGTGTGT
61086592 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
61086620 CTTTGCTAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:61091142 original size:34 final size:34
Alignment explanation
Indices: 61091063--61091144 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
61091053 GGTACATGAG
* * * **
61091063 TAATTACACCATACTAGATTGCTTGTCCAAGCAT
1 TAATTACACCACACTAAATTACTCATCCAAGCAT
* * *
61091097 TAACTAAACCACACTAAATTACTCATCTAAGCAT
1 TAATTACACCACACTAAATTACTCATCCAAGCAT
61091131 TAATTACACCACAC
1 TAATTACACCACAC
61091145 CAAGGCACCA
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.39, C:0.27, G:0.06, T:0.28
Consensus pattern (34 bp):
TAATTACACCACACTAAATTACTCATCCAAGCAT
Found at i:61092098 original size:15 final size:15
Alignment explanation
Indices: 61092078--61092116 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
61092068 TTTGTCTTAA
61092078 TTAATTAATAAAAAC
1 TTAATTAATAAAAAC
* *
61092093 TTAATTAATTAAACC
1 TTAATTAATAAAAAC
61092108 TTAACTTAA
1 TTAA-TTAA
61092117 AGTTAGTGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (15 bp):
TTAATTAATAAAAAC
Found at i:61096384 original size:22 final size:22
Alignment explanation
Indices: 61096358--61096400 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
61096348 TATGTGTGTT
61096358 CATGTTCGTTTAAATGAACATG
1 CATGTTCGTTTAAATGAACATG
61096380 CATGTTCGTTTAAATGAACAT
1 CATGTTCGTTTAAATGAACAT
61096401 ACATTAAACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.37
Consensus pattern (22 bp):
CATGTTCGTTTAAATGAACATG
Found at i:61099826 original size:21 final size:22
Alignment explanation
Indices: 61099800--61099841 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
61099790 TAACAATGTT
*
61099800 TAGAGAAT-ATAATTTTTTGTC
1 TAGAGAATCACAATTTTTTGTC
61099821 TAGAGAATCACAATTTTTTGT
1 TAGAGAATCACAATTTTTTGT
61099842 AATTACAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.33, C:0.07, G:0.14, T:0.45
Consensus pattern (22 bp):
TAGAGAATCACAATTTTTTGTC
Found at i:61106094 original size:6 final size:7
Alignment explanation
Indices: 61106067--61106092 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
61106057 ATGAGATTTA
61106067 AAAAAAG
1 AAAAAAG
61106074 AAAAAAG
1 AAAAAAG
61106081 AAAAAAG
1 AAAAAAG
61106088 AAAAA
1 AAAAA
61106093 GATTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAAAAG
Found at i:61108433 original size:13 final size:14
Alignment explanation
Indices: 61108409--61108437 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
61108399 CTTAAATTGA
61108409 TAATTGAATTTTTT
1 TAATTGAATTTTTT
61108423 TAATT-AATTTTTT
1 TAATTGAATTTTTT
61108436 TA
1 TA
61108438 TAATTCTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (14 bp):
TAATTGAATTTTTT
Found at i:61109671 original size:17 final size:17
Alignment explanation
Indices: 61109651--61109688 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
61109641 GTTATCAAAA
*
61109651 TAATAACAAT-AATAATT
1 TAATAA-AATGAATAAAT
61109668 TAATAAAATGAATAAAT
1 TAATAAAATGAATAAAT
61109685 TAAT
1 TAAT
61109689 CTTTTTTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (17 bp):
TAATAAAATGAATAAAT
Found at i:61116312 original size:20 final size:20
Alignment explanation
Indices: 61116283--61116327 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
61116273 TGTTACTATA
*
61116283 TTTTAGTTTTAGACTTTTAC
1 TTTTAATTTTAGACTTTTAC
* *
61116303 TTTTAATTTTAGATTTTTAT
1 TTTTAATTTTAGACTTTTAC
61116323 TTTTA
1 TTTTA
61116328 TTTATTAAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.22, C:0.04, G:0.07, T:0.67
Consensus pattern (20 bp):
TTTTAATTTTAGACTTTTAC
Found at i:61131000 original size:24 final size:23
Alignment explanation
Indices: 61130965--61131023 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 23
61130955 AAAATAAAAT
61130965 ATTTATATTATTTTTAAT-TTAATA
1 ATTTATA-TATTTTTAATATTAA-A
*
61130989 ATTTAATATATTTTTTATATTAAA
1 ATTT-ATATATTTTTAATATTAAA
61131013 ATTTTATATAT
1 A-TTTATATAT
61131024 GGTCATCTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
24 21 0.68
25 10 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (23 bp):
ATTTATATATTTTTAATATTAAA
Found at i:61138311 original size:22 final size:22
Alignment explanation
Indices: 61138286--61138375 Score: 101
Period size: 22 Copynumber: 4.1 Consensus size: 22
61138276 AAATTCAATA
* *
61138286 TCAATTTCTTTCAAAAATTCTC
1 TCAATTCCCTTCAAAAATTCTC
* *
61138308 TCAATTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTCTC
*
61138330 TCAATTCCCTTCAAAATTTC-C
1 TCAATTCCCTTCAAAAATTCTC
* *
61138351 ATCAATTTCCTTCCAAAATTCTC
1 -TCAATTCCCTTCAAAAATTCTC
61138374 TC
1 TC
61138376 GAACTCTCAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
21 1 0.02
22 58 0.97
23 1 0.02
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (22 bp):
TCAATTCCCTTCAAAAATTCTC
Found at i:61138343 original size:44 final size:44
Alignment explanation
Indices: 61138286--61138375 Score: 112
Period size: 44 Copynumber: 2.0 Consensus size: 44
61138276 AAATTCAATA
* * *
61138286 TCAATTTCTTTCAAAAATTCTC-TCAA-TTCCTTTCAAAATTTCTC
1 TCAATTCCCTTCAAAAATTC-CATCAATTTCCTTCCAAAA-TTCTC
*
61138330 TCAATTCCCTTCAAAATTTCCATCAATTTCCTTCCAAAATTCTC
1 TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
61138374 TC
1 TC
61138376 GAACTCTCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
43 1 0.03
44 28 0.70
45 11 0.28
ACGTcount: A:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (44 bp):
TCAATTCCCTTCAAAAATTCCATCAATTTCCTTCCAAAATTCTC
Found at i:61138384 original size:52 final size:52
Alignment explanation
Indices: 61138327--61138425 Score: 123
Period size: 52 Copynumber: 1.9 Consensus size: 52
61138317 TTCAAAATTT
* *
61138327 CTCTC-AATTCCCTT-CAAAATTTCC-ATCAATTTCCTTCCAAAATTCTCTCGAA
1 CTCTCAAATT-CCTTCCAAAA--TCCTATCAATTTCCTTCAAAAAATCTCTCGAA
*
61138379 CTCTCAAATTCCTTCCAAAATCCTCTCAATTTCCTTCAAAAAATCTC
1 CTCTCAAATTCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTC
61138426 CAAATCCATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
51 3 0.07
52 29 0.71
53 9 0.22
ACGTcount: A:0.30, C:0.33, G:0.01, T:0.35
Consensus pattern (52 bp):
CTCTCAAATTCCTTCCAAAATCCTATCAATTTCCTTCAAAAAATCTCTCGAA
Found at i:61138418 original size:21 final size:22
Alignment explanation
Indices: 61138379--61138420 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
61138369 TTCTCTCGAA
61138379 CTCTCAAATTCCTTCCAAAATC
1 CTCTCAAATTCCTTCCAAAATC
* *
61138401 CTCTCAATTTCCTTCAAAAA
1 CTCTCAAATTCCTTCCAAAA
61138421 ATCTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (22 bp):
CTCTCAAATTCCTTCCAAAATC
Found at i:61138527 original size:31 final size:30
Alignment explanation
Indices: 61138462--61138519 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
61138452 ATTAAATTTC
61138462 ATTTTTTTAAAGAAAATTTTAAAATTTTTT
1 ATTTTTTTAAAGAAAATTTTAAAATTTTTT
* *
61138492 ATTTTTTTTAA-ATAATTTTAAAATTTTT
1 ATTTTTTTAAAGAAAATTTTAAAATTTTT
61138520 AATATTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.62
30 10 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
ATTTTTTTAAAGAAAATTTTAAAATTTTTT
Found at i:61138706 original size:24 final size:23
Alignment explanation
Indices: 61138674--61138718 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
61138664 AAAAAATTTT
61138674 CCTGGACCCCT-AACTCCTAAAAAG
1 CCTGGA-CCCTAAAC-CCTAAAAAG
*
61138698 CCTGTACCCTAAACCCTAAAA
1 CCTGGACCCTAAACCCTAAAA
61138719 CTCATAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.36, C:0.38, G:0.09, T:0.18
Consensus pattern (23 bp):
CCTGGACCCTAAACCCTAAAAAG
Found at i:61150334 original size:15 final size:14
Alignment explanation
Indices: 61150310--61150339 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
61150300 GATTCCAAAG
61150310 ACATTTTAAAAAAA
1 ACATTTTAAAAAAA
61150324 ACATATTTAAAAAAA
1 ACAT-TTTAAAAAAA
61150339 A
1 A
61150340 AGGATCGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.27
Consensus pattern (14 bp):
ACATTTTAAAAAAA
Found at i:61152118 original size:10 final size:10
Alignment explanation
Indices: 61152103--61152127 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
61152093 TTTTGGGCTA
61152103 GGGTTTAGTT
1 GGGTTTAGTT
61152113 GGGTTTAGTT
1 GGGTTTAGTT
61152123 GGGTT
1 GGGTT
61152128 GTTTAGGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.00, G:0.44, T:0.48
Consensus pattern (10 bp):
GGGTTTAGTT
Found at i:61152145 original size:16 final size:16
Alignment explanation
Indices: 61152124--61152158 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
61152114 GGTTTAGTTG
*
61152124 GGTTGTTTAGGTGTTA
1 GGTTGTTTAGGTATTA
*
61152140 GGTTGTTTGGGTATTA
1 GGTTGTTTAGGTATTA
61152156 GGT
1 GGT
61152159 CATTGTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.11, C:0.00, G:0.40, T:0.49
Consensus pattern (16 bp):
GGTTGTTTAGGTATTA
Found at i:61152647 original size:46 final size:46
Alignment explanation
Indices: 61152535--61153043 Score: 333
Period size: 46 Copynumber: 10.6 Consensus size: 46
61152525 CGCTAGGAAG
* * *
61152535 ATAAGATTCGCTGCCTACAACTTTAATCTGCTCCGCTGCAACGCCA-AGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTACT--GC-G--ACGCCAGA-GAA
61152586 ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGAGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGAGAA
* * * * * * *
61152632 ATAAGATTTGTTGCCTTCAACCTTAATCTATTTCACTACAATGCCA-AGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATC----T-ACTGCGACGCCAGA-GAA
* * * **
61152683 ATGAGATTCGTTGCCTTGAGCTTTAATCTACTATGACGCCAGAGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGAGAA
* * * * * * * *
61152729 ATGAGATTTGTTGTCTTCAGTTTTAATCTACTGTGAAGCCAGGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGAGAA
* ** * * *
61152775 ATAAGATTCACTATCTTCAGCTTTAATCTACTGTGACGTCAGGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGAGAA
* * * * *
61152821 ATAAGATTTGTTGCCTTGAGCTTTAATCTGTTCCACTGCAACGCCAAAGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATC---T--ACTGCGACGCCAGAGAA
* *
61152872 ATGAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCTA-AGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGA-GAA
* * * * *
61152918 ATAAGATTTGCTGCCTTCAGCTTTAATCTA-TTCCACTACAACGATAAGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGAC-GC--C-A-GA-GAA
* * * * * * *
61152969 ATGAGATTCTCTGCATTTAGCTATAATCTACTGTGACGCCAGGGAA
1 ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGAGAA
*
61153015 ATGAGATTCGCTGCCTTCAGCTTTAATCT
1 ATAAGATTCGCTGCCTTCAGCTTTAATCT
61153044 GTTCCACTGC
Statistics
Matches: 365, Mismatches: 72, Indels: 47
0.75 0.15 0.10
Matches are distributed among these distances:
45 5 0.01
46 214 0.59
47 3 0.01
48 3 0.01
49 5 0.01
50 2 0.01
51 130 0.36
52 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (46 bp):
ATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGAGAA
Found at i:61152678 original size:97 final size:97
Alignment explanation
Indices: 61152535--61153056 Score: 552
Period size: 97 Copynumber: 5.4 Consensus size: 97
61152525 CGCTAGGAAG
* * * * ** * * *
61152535 ATAAGATTCGCTGCCTACAACTTTAATCTGCTCCGCTGCAACGCCAAGGAAATAAGATTCGCTGC
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATGAGATTCGCTGC
*
61152600 CTTCAGCTTTAATCTACTGCGACGCCAGAGAA
66 CTTCAGCTTTAATCTACTGTGACGCCAGAGAA
* * * * *
61152632 ATAAGATTTGTTGCCTTCAACCTTAATCTATTTCACTACAATGCCAAGGAAATGAGATTCGTTGC
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATGAGATTCGCTGC
* *
61152697 CTTGAGCTTTAATCTACTATGACGCCAGAGAA
66 CTTCAGCTTTAATCTACTGTGACGCCAGAGAA
* * * ** * * * * **
61152729 ATGAGATTTGTTGTCTTCAGTTTTAATCTA---CTGT-GAA-GCCAGGGAAATAAGATTCACTAT
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATGAGATTCGCTGC
* *
61152789 CTTCAGCTTTAATCTACTGTGACGTCAGGGAA
66 CTTCAGCTTTAATCTACTGTGACGCCAGAGAA
* * * *
61152821 ATAAGATTTGTTGCCTTGAGCTTTAATCTGTTCCACTGCAACGCCAAAGAAATGAGATTCGCTGC
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATGAGATTCGCTGC
* *
61152886 CTTCAGCTTTAATCTACTGCGACGCTA-AGGAA
66 CTTCAGCTTTAATCTACTGTGACGCCAGA-GAA
* ** *
61152918 ATAAGATTTGCTGCCTTCAGCTTTAATCTATTCCACTACAACGATAAGGAAATGAGATTCTCTGC
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATGAGATTCGCTGC
* * * *
61152983 ATTTAGCTATAATCTACTGTGACGCCAGGGAA
66 CTTCAGCTTTAATCTACTGTGACGCCAGAGAA
* * * * *
61153015 ATGAGATTCGCTGCCTTCAGCTTTAATCTGTTCCACTGCAAC
1 ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAAC
61153057 TTTAGTTGTA
Statistics
Matches: 349, Mismatches: 69, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
92 70 0.20
93 2 0.01
94 2 0.01
95 2 0.01
96 2 0.01
97 271 0.78
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (97 bp):
ATAAGATTTGTTGCCTTCAGCTTTAATCTATTCCACTACAACGCCAAGGAAATGAGATTCGCTGC
CTTCAGCTTTAATCTACTGTGACGCCAGAGAA
Found at i:61152801 original size:143 final size:140
Alignment explanation
Indices: 61152575--61153043 Score: 491
Period size: 143 Copynumber: 3.3 Consensus size: 140
61152565 CTCCGCTGCA
* *
61152575 ACGCCA-AGGAAATAAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGAGAAATAAGAT
1 ACGCCAGA-GAAATGAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGGGAAATAAGAT
* * *
61152639 TTGTTGCCTTCAACCTTAATCTATTTCACTACAATGCCAAGGAAATGAGATTCGTTGCCTTGAGC
65 TTGCTGCCTTCAGCTTTAATCTATTTCACTACAA-G--AAGGAAATGAGATTCGTTGCCTTGAGC
61152704 TTTAATCTACTATG
127 TTTAATCTACTATG
* * * * * *
61152718 ACGCCAGAGAAATGAGATTTGTTGTCTTCAGTTTTAATCTACTGTGAAGCCAGGGAAATAAGATT
1 ACGCCAGAGAAATGAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGGGAAATAAGATT
** ** * * * *
61152783 CACTATCTTCAGCTTTAATCTACTGTGACGT-C-AG--GGAAATAAGATTTGTTGCCTTGAGCTT
66 TGCTGCCTTCAGCTTTAATCTA-TTTCAC-TACAAGAAGGAAATGAGATTCGTTGCCTTGAGCTT
* *
61152844 TAATCTGTTCCACTG
129 TAATC--TACTA-TG
* * *
61152859 CAACGCCAAAGAAATGAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCTAAGGAAATAAGA
1 --ACGCCAGAGAAATGAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGGGAAATAAGA
* * *
61152924 TTTGCTGCCTTCAGCTTTAATCTATTCCACTACAACGATAAGGAAATGAGATTC-TCTGCATTTA
64 TTTGCTGCCTTCAGCTTTAATCTATTTCACTACAA-G--AAGGAAATGAGATTCGT-TGCCTTGA
* *
61152988 GCTATAATCTACTGTG
125 GCTTTAATCTACTATG
*
61153004 ACGCCAGGGAAATGAGATTCGCTGCCTTCAGCTTTAATCT
1 ACGCCAGAGAAATGAGATTCGCTGCCTTCAGCTTTAATCT
61153044 GTTCCACTGC
Statistics
Matches: 263, Mismatches: 47, Indels: 32
0.77 0.14 0.09
Matches are distributed among these distances:
138 30 0.11
140 3 0.01
141 3 0.01
142 5 0.02
143 184 0.70
144 7 0.03
145 3 0.01
146 2 0.01
147 1 0.00
148 25 0.10
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (140 bp):
ACGCCAGAGAAATGAGATTCGCTGCCTTCAGCTTTAATCTACTGCGACGCCAGGGAAATAAGATT
TGCTGCCTTCAGCTTTAATCTATTTCACTACAAGAAGGAAATGAGATTCGTTGCCTTGAGCTTTA
ATCTACTATG
Found at i:61153395 original size:24 final size:24
Alignment explanation
Indices: 61153338--61153395 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
61153328 TGAATTGCCC
* *
61153338 CCATTGTAATTTTCAAGGTTCAAT
1 CCATTGTAATCTTCAAGGTTAAAT
* * * *
61153362 CGACTATAATCTTCAATGTTAAAT
1 CCATTGTAATCTTCAAGGTTAAAT
61153386 CCATTGTAAT
1 CCATTGTAAT
61153396 TTTGGGACAT
Statistics
Matches: 25, Mismatches: 9, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.17, G:0.10, T:0.40
Consensus pattern (24 bp):
CCATTGTAATCTTCAAGGTTAAAT
Found at i:61168985 original size:15 final size:15
Alignment explanation
Indices: 61168951--61168999 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
61168941 AATTAAGATT
*
61168951 GTAATAAAAATAATA
1 GTAATAAAAATGATA
* *
61168966 CTAATAAAAATGAGA
1 GTAATAAAAATGATA
*
61168981 GTAATAACAATGATA
1 GTAATAAAAATGATA
61168996 GTAA
1 GTAA
61169000 CAATAAAATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.59, C:0.04, G:0.12, T:0.24
Consensus pattern (15 bp):
GTAATAAAAATGATA
Found at i:61169253 original size:15 final size:14
Alignment explanation
Indices: 61169199--61169254 Score: 62
Period size: 14 Copynumber: 3.9 Consensus size: 14
61169189 TAACAATATA
61169199 GTAATAATAATAA-
1 GTAATAATAATAAG
61169212 GTACATAAATAATAAGG
1 GTA-AT-AATAATAA-G
61169229 GTAA-AATAATAATG
1 GTAATAATAATAA-G
61169243 GTAATAATAATA
1 GTAATAATAATA
61169255 TTAATTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
13 3 0.08
14 15 0.41
15 15 0.41
16 1 0.03
17 3 0.08
ACGTcount: A:0.57, C:0.02, G:0.12, T:0.29
Consensus pattern (14 bp):
GTAATAATAATAAG
Found at i:61181128 original size:3 final size:3
Alignment explanation
Indices: 61181120--61181154 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
61181110 AGGCAACCCA
61181120 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
61181155 ACTTGGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:61182479 original size:26 final size:24
Alignment explanation
Indices: 61182450--61182501 Score: 59
Period size: 26 Copynumber: 2.1 Consensus size: 24
61182440 TAATTTTTAA
* *
61182450 ATGTGTAGGATTAAATTAAAAAAATT
1 ATGTATAGAATTAAA-T-AAAAAATT
*
61182476 ATGTATATAATTAAATAAAAAATT
1 ATGTATAGAATTAAATAAAAAATT
61182500 AT
1 AT
61182502 ATATTAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 10 0.43
25 1 0.04
26 12 0.52
ACGTcount: A:0.54, C:0.00, G:0.10, T:0.37
Consensus pattern (24 bp):
ATGTATAGAATTAAATAAAAAATT
Found at i:61182495 original size:24 final size:25
Alignment explanation
Indices: 61182459--61182511 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
61182449 AATGTGTAGG
*
61182459 ATTAAATTAAAAAAATTATGTATATA
1 ATTAAATTAAAAAAATTATATAT-TA
61182485 ATTAAA-T-AAAAAATTATATATTA
1 ATTAAATTAAAAAAATTATATATTA
61182508 ATTA
1 ATTA
61182512 TGTCAAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 6 0.23
24 13 0.50
25 1 0.04
26 6 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (25 bp):
ATTAAATTAAAAAAATTATATATTA
Found at i:61182993 original size:19 final size:19
Alignment explanation
Indices: 61182969--61183027 Score: 52
Period size: 18 Copynumber: 3.1 Consensus size: 19
61182959 TAGTAACTTG
61182969 TTTTATTAGATTTTAAAAT
1 TTTTATTAGATTTTAAAAT
**
61182988 TTTTA-T-GTATTTTTTAA-
1 TTTTATTAG-ATTTTAAAAT
61183005 TTTTATTAAGATTTTTAAAAT
1 TTTTATT-AGA-TTTTAAAAT
61183026 TT
1 TT
61183028 GTAAGATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
17 6 0.20
18 9 0.30
19 6 0.20
20 7 0.23
21 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (19 bp):
TTTTATTAGATTTTAAAAT
Found at i:61183026 original size:20 final size:20
Alignment explanation
Indices: 61182969--61183053 Score: 58
Period size: 19 Copynumber: 4.4 Consensus size: 20
61182959 TAGTAACTTG
61182969 TTTTATT-AGA-TTTTAAAA
1 TTTTATTAAGATTTTTAAAA
* *
61182987 -TTT-TTATGTATTTTT-TAA
1 TTTTATTAAG-ATTTTTAAAA
61183005 TTTTATTAAGATTTTTAAAA
1 TTTTATTAAGATTTTTAAAA
*
61183025 -TTT-GTAAGATTTACTTGAAAA
1 TTTTATTAAGATTT--TT-AAAA
61183046 TTTTATTA
1 TTTTATTA
61183054 TTTTTGGAAT
Statistics
Matches: 50, Mismatches: 6, Indels: 17
0.68 0.08 0.23
Matches are distributed among these distances:
16 2 0.04
17 4 0.08
18 11 0.22
19 16 0.32
20 8 0.16
21 4 0.08
22 3 0.06
23 2 0.04
ACGTcount: A:0.34, C:0.01, G:0.07, T:0.58
Consensus pattern (20 bp):
TTTTATTAAGATTTTTAAAA
Found at i:61183032 original size:18 final size:18
Alignment explanation
Indices: 61182979--61183036 Score: 62
Period size: 19 Copynumber: 3.1 Consensus size: 18
61182969 TTTTATTAGA
*
61182979 TTTTAAAATTTTTATGTAT
1 TTTTAAAATTTTTAAG-AT
* *
61182998 TTTTTAATTTTATTAAGAT
1 TTTTAAAATTT-TTAAGAT
*
61183017 TTTTAAAATTTGTAAGAT
1 TTTTAAAATTTTTAAGAT
61183035 TT
1 TT
61183037 ACTTGAAAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 8 0.25
19 20 0.62
20 4 0.12
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (18 bp):
TTTTAAAATTTTTAAGAT
Found at i:61184224 original size:43 final size:43
Alignment explanation
Indices: 61184177--61184273 Score: 122
Period size: 43 Copynumber: 2.3 Consensus size: 43
61184167 AAAATGCCTT
* * * *
61184177 CAATAATTAAAATACTGGTAAGGCTCCATTCAATACCAAACTC
1 CAATAATTAAAATACCGATAAAGATCCATTCAATACCAAACTC
* *
61184220 CAATAATTAGAATACCGATAAAGATCCATTCAATATCAAACTC
1 CAATAATTAAAATACCGATAAAGATCCATTCAATACCAAACTC
**
61184263 CTTTAATTAAA
1 CAATAATTAAA
61184274 TCTTTTATTT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (43 bp):
CAATAATTAAAATACCGATAAAGATCCATTCAATACCAAACTC
Found at i:61184731 original size:24 final size:21
Alignment explanation
Indices: 61184692--61184735 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
61184682 ATATTTATAT
61184692 ATTTTATATTTAAATTCAAATA
1 ATTTTATATTTAAATT-AAATA
*
61184714 ATTTTTTATTTAATAATTAAAT
1 ATTTTATATTT-A-AATTAAAT
61184736 TGAGCTAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 10 0.53
23 5 0.26
24 4 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
ATTTTATATTTAAATTAAATA
Found at i:61185245 original size:21 final size:20
Alignment explanation
Indices: 61185212--61185262 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
61185202 TCTCTCTCAA
61185212 TAAAAATTACAAAAAGAATTT
1 TAAAAATT-CAAAAAGAATTT
*
61185233 TCAAAAATTC-AAAATAATTT
1 T-AAAAATTCAAAAAGAATTT
*
61185253 TTAAAATTCA
1 TAAAAATTCA
61185263 CATTATTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
19 7 0.27
20 10 0.38
21 2 0.08
22 7 0.27
ACGTcount: A:0.57, C:0.08, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAAATTCAAAAAGAATTT
Found at i:61185260 original size:19 final size:19
Alignment explanation
Indices: 61185236--61185310 Score: 55
Period size: 19 Copynumber: 3.9 Consensus size: 19
61185226 AGAATTTTCA
61185236 AAAATTCAAAATAATTTTT
1 AAAATTCAAAATAATTTTT
* * *
61185255 AAAATTC-ACATTATTTATA
1 AAAATTCAAAATAATTT-TT
* *
61185274 AAAATTCCAATATATATATTT
1 AAAATT-CAAAATA-ATTTTT
*
61185295 AAAATT-ATAATAATTT
1 AAAATTCAAAATAATTT
61185311 AAAAAATCTA
Statistics
Matches: 42, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
18 10 0.24
19 18 0.43
20 1 0.02
21 10 0.24
22 3 0.07
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATTCAAAATAATTTTT
Found at i:61193541 original size:11 final size:11
Alignment explanation
Indices: 61193511--61193548 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
61193501 TGACTTAATT
*
61193511 TAATATATAT-
1 TAATATATTTA
61193521 TAAT-TATTTA
1 TAATATATTTA
61193531 TAATATATTTA
1 TAATATATTTA
61193542 TAATATA
1 TAATATA
61193549 AAATATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 4 0.16
10 8 0.32
11 13 0.52
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (11 bp):
TAATATATTTA
Found at i:61197603 original size:56 final size:56
Alignment explanation
Indices: 61197505--61197639 Score: 189
Period size: 56 Copynumber: 2.4 Consensus size: 56
61197495 GGTATTTATG
* **
61197505 ATCTTTTAGCAATTTGATTCCTAATGAGATATTATAGGATATTACTATGGAATATT
1 ATCTTTTAGCAATTTGATTCCTAATGAGATATTACAAAATATTACTATGGAATATT
* * * *
61197561 ATCTCTTAGCAATTTGATTCCTAATGAGATGTTACAAAATATTATTATGGTATATT
1 ATCTTTTAGCAATTTGATTCCTAATGAGATATTACAAAATATTACTATGGAATATT
* *
61197617 ATCTTTTGGTAATTTGATTCCTA
1 ATCTTTTAGCAATTTGATTCCTA
61197640 CGTAATTATT
Statistics
Matches: 69, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.32, C:0.10, G:0.13, T:0.44
Consensus pattern (56 bp):
ATCTTTTAGCAATTTGATTCCTAATGAGATATTACAAAATATTACTATGGAATATT
Found at i:61216635 original size:23 final size:23
Alignment explanation
Indices: 61216593--61216636 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
61216583 GTAAAACCGA
*
61216593 ATAATTGTCACATGTTTATTACC
1 ATAATTGTCACATGTATATTACC
61216616 ATAATTG-CACATGTAATATTA
1 ATAATTGTCACATGT-ATATTA
61216637 TTAACCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
ATAATTGTCACATGTATATTACC
Found at i:61217382 original size:3 final size:3
Alignment explanation
Indices: 61217374--61217418 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
61217364 AGCAAATAGT
61217374 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
61217419 TTCAACGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:61219666 original size:19 final size:16
Alignment explanation
Indices: 61219636--61219683 Score: 60
Period size: 19 Copynumber: 2.8 Consensus size: 16
61219626 AAAATCATAT
61219636 ATATATATTATTAATAAA
1 ATATA-ATTATTAA-AAA
61219654 ATTATTAATTATTAAAAA
1 A-TA-TAATTATTAAAAA
61219672 ATATAATTATTA
1 ATATAATTATTA
61219684 CCAAAATTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 9 0.32
17 2 0.07
18 5 0.18
19 10 0.36
20 2 0.07
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATATAATTATTAAAAA
Found at i:61237022 original size:25 final size:25
Alignment explanation
Indices: 61236916--61237056 Score: 76
Period size: 25 Copynumber: 5.6 Consensus size: 25
61236906 GTGGACACAC
* *
61236916 CACAGCTCGTATGAGC-TTCTCAATT
1 CACAGCTCATATGAGCTTTCT-GATT
* * * *
61236941 TACAACTCATATAAGCTTCCCT-ATAT
1 CACAGCTCATATGAGCTT-TCTGAT-T
*
61236967 -ACAGCTCATATGAGCTTCCTGATT
1 CACAGCTCATATGAGCTTTCTGATT
*** *
61236991 TGTAGCTCGTATGAGCTTTCTGATT
1 CACAGCTCATATGAGCTTTCTGATT
*
61237016 CACAGCTCATGA-GAGCATAT-TGATT
1 CACAGCTCAT-ATGAGC-TTTCTGATT
* *
61237041 CATAGCTCGTATGAGC
1 CACAGCTCATATGAGC
61237057 ATACATGAAT
Statistics
Matches: 90, Mismatches: 18, Indels: 16
0.73 0.15 0.13
Matches are distributed among these distances:
24 5 0.06
25 78 0.87
26 5 0.06
27 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.33
Consensus pattern (25 bp):
CACAGCTCATATGAGCTTTCTGATT
Found at i:61237057 original size:25 final size:26
Alignment explanation
Indices: 61236993--61237059 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
61236983 TCCTGATTTG
*
61236993 TAGCTCGTATGAGC-TTTCTGATTCA
1 TAGCTCGTATGAGCATATCTGATTCA
* *
61237018 CAGCTCATGA-GAGCATAT-TGATTCA
1 TAGCTCGT-ATGAGCATATCTGATTCA
61237043 TAGCTCGTATGAGCATA
1 TAGCTCGTATGAGCATA
61237060 CATGAATATG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
24 1 0.03
25 30 0.88
26 3 0.09
ACGTcount: A:0.27, C:0.19, G:0.21, T:0.33
Consensus pattern (26 bp):
TAGCTCGTATGAGCATATCTGATTCA
Found at i:61244288 original size:24 final size:24
Alignment explanation
Indices: 61244273--61244324 Score: 86
Period size: 24 Copynumber: 2.2 Consensus size: 24
61244263 AATCAATGTC
61244273 AAATATATTATACTAATAAATGCT
1 AAATATATTATACTAATAAATGCT
* *
61244297 AAATATATTATACTAATAAGTACT
1 AAATATATTATACTAATAAATGCT
61244321 AAAT
1 AAAT
61244325 CTACTAGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATGCT
Found at i:61250110 original size:13 final size:14
Alignment explanation
Indices: 61250092--61250120 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
61250082 TTCAAATAAA
61250092 AAAAATAAAAA-AT
1 AAAAATAAAAATAT
61250105 AAAAATAAAAATAT
1 AAAAATAAAAATAT
61250119 AA
1 AA
61250121 TTTTAACCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (14 bp):
AAAAATAAAAATAT
Found at i:61262638 original size:18 final size:19
Alignment explanation
Indices: 61262595--61262638 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
61262585 AAGAAAAGAG
61262595 AATAATAAAATCACATAAT
1 AATAATAAAATCACATAAT
*
61262614 AAAAATAAAA-CA-ATAAAT
1 AATAATAAAATCACAT-AAT
61262632 AATAATA
1 AATAATA
61262639 GGGTAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 2 0.09
18 11 0.50
19 9 0.41
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (19 bp):
AATAATAAAATCACATAAT
Found at i:61267203 original size:26 final size:26
Alignment explanation
Indices: 61267169--61267241 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 26
61267159 TGGCTATCCA
61267169 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAAAGGCTCTTCGT
* * *
61267194 GAGCTTCCTGATTAAAAGTTCTTTGT
1 GAGCTTCCTGATTAAAGGCTCTTCGT
* *
61267220 GAACTTCCTGATT-ATGGCTCTT
1 GAGCTTCCTGATTAAAGGCTCTT
61267242 ATGAACTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
25 10 0.25
26 30 0.75
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (26 bp):
GAGCTTCCTGATTAAAGGCTCTTCGT
Found at i:61269190 original size:43 final size:43
Alignment explanation
Indices: 61269142--61269247 Score: 149
Period size: 43 Copynumber: 2.5 Consensus size: 43
61269132 TATCCCAGAT
* * * * *
61269142 ATGGTCTTAGATGTTATCACATATCGATGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAAC
*
61269185 ATGGTCTTACACGTAATCTCATATCGATGCCAATGTCCCAAAC
1 ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAAC
*
61269228 ATGGTCTTACACGAAATCAC
1 ATGGTCTTACACGTAATCAC
61269248 TCCTTGAAAG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCACATATCGATGCCAATGTCCCAAAC
Found at i:61273203 original size:17 final size:18
Alignment explanation
Indices: 61273166--61273204 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
61273156 TTTTATAAAT
61273166 TGTGAAATTATATTGATA
1 TGTGAAATTATATTGATA
61273184 TGTG-AATTAATATTGA-A
1 TGTGAAATT-ATATTGATA
61273201 TGTG
1 TGTG
61273205 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.36, C:0.00, G:0.21, T:0.44
Consensus pattern (18 bp):
TGTGAAATTATATTGATA
Found at i:61273457 original size:23 final size:23
Alignment explanation
Indices: 61273431--61273475 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
61273421 GTGTTATTGA
*
61273431 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTACGGCTACATT
61273454 TCAGTGGTAGCTACGGCTACAT
1 TCAGTGGTAGCTACGGCTACAT
61273476 ATCCATGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.22, G:0.27, T:0.31
Consensus pattern (23 bp):
TCAGTGGTAGCTACGGCTACATT
Found at i:61276846 original size:15 final size:16
Alignment explanation
Indices: 61276828--61276861 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
61276818 CCAGATAATC
61276828 TCATTATTCTGA-ATT
1 TCATTATTCTGACATT
61276843 TCATTATTCTGACATT
1 TCATTATTCTGACATT
61276859 TCA
1 TCA
61276862 AATTGGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.26, C:0.18, G:0.06, T:0.50
Consensus pattern (16 bp):
TCATTATTCTGACATT
Found at i:61289509 original size:21 final size:21
Alignment explanation
Indices: 61289483--61289523 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
61289473 ATCTGCTCAA
* *
61289483 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
61289504 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
61289524 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:61296981 original size:30 final size:30
Alignment explanation
Indices: 61296942--61297000 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
61296932 GGAGGTGGGA
*
61296942 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAA-ATTTAGGGGAAAAG
* *
61296973 TGGG-AGGGAGTAAAAATTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTAGGGGAAAA
61297001 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 11 0.44
30 10 0.40
31 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.41, T:0.19
Consensus pattern (30 bp):
TGGGAAGGGAATAAAAATTTAGGGGAAAAG
Found at i:61301041 original size:42 final size:42
Alignment explanation
Indices: 61300994--61301088 Score: 136
Period size: 42 Copynumber: 2.3 Consensus size: 42
61300984 CTGTTACAGC
* * *
61300994 CCAGGCCGTGTGAGTCACACGGGCAAGGACACGGGCGTGTGT
1 CCAGGCCGTGTGAGTCACACGAGCAAGGACACGAGCCTGTGT
* *
61301036 CCAGGCCATGTGAGTCACACGAGCAGGGACACGAGCCTGTGT
1 CCAGGCCGTGTGAGTCACACGAGCAAGGACACGAGCCTGTGT
*
61301078 CCAGGTCGTGT
1 CCAGGCCGTGT
61301089 AACTCACTGT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.20, C:0.27, G:0.37, T:0.16
Consensus pattern (42 bp):
CCAGGCCGTGTGAGTCACACGAGCAAGGACACGAGCCTGTGT
Found at i:61308772 original size:125 final size:126
Alignment explanation
Indices: 61308507--61309026 Score: 715
Period size: 125 Copynumber: 4.1 Consensus size: 126
61308497 TTTGTTTTTA
* * * * * * *
61308507 TTTCTACACTAGTT-TCAGAAAAATTAATTTTGAGAAGATGGTTCTGAAAAGATAATGTCAAAAA
1 TTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAAA
* * *
61308571 CGCTTCAAGTAGGATGCACTGTCAGTAAAATTACTGAAAATAGCTCCCACGTGAACGCTCTT
65 CGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
**
61308633 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTAAAAAAC
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAAAC
** * * *
61308698 GCTTCAAGTAGGATG-TTTGTCAACAAAATTACTGAAAAAAACTCCCACGTGGACACTCTT
66 GCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
* *
61308758 TTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGGCGGTTCT-ATAAAAATAGTGTAAAAAA
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGA-AAAAATAGTGTAAAAAA
* * * *
61308822 CACTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAATGCTCTCATGTGGACGCTCTT
65 CGCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
* * * *
61308884 TTTCTACAATAGTTTTTGAAAAAATAATTTTGAGAAGATGGTTCTG-AAAAATAGTGTCAAAAAC
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAAAC
* * * *
61308948 GCTTCAAGCAGGATGCATTGTCAGCAAAATTACTGAAAAAGGCTCCCACGTGGATGCTCTT
66 GCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
61309009 TTTCTACAGTAGTTCTTG
1 TTTCTACAGTAGTTCTTG
61309027 CTTGGCCTTA
Statistics
Matches: 345, Mismatches: 45, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
124 1 0.00
125 197 0.57
126 146 0.42
127 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (126 bp):
TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTAAAAAAC
GCTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTCTT
Found at i:61308978 original size:251 final size:251
Alignment explanation
Indices: 61308507--61309026 Score: 733
Period size: 251 Copynumber: 2.1 Consensus size: 251
61308497 TTTGTTTTTA
* * * * * *
61308507 TTTCTACACTAGTT-TCAGAAAAATTAATTTTGAGAAGATGGTTCTGAAAAGATAATGTCAAAAA
1 TTTCTACAGTAGTTCT-TGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTAAAAAA
* *
61308571 CGCTTCAAGTAGGATGCACTGTCAGTAAAATTACTGAAAATAGCTCCCACGTGAACGCTCTTTTT
65 CACTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAATAGCTCCCACGTGAACGCTCTTTTT
*
61308636 CTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTAAAAAACGCT
130 CTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTAAAAAACGCT
* *
61308701 TCAAGTAGGATGTTTGTCAACAAAATTACTGAAAAAAACTCCCACGTGGACACTCTT
195 TCAAGCAGGATGATTGTCAACAAAATTACTGAAAAAAACTCCCACGTGGACACTCTT
* * *
61308758 TTTCTATAGTAGTTCTTGAAAAAATAATTTTGAGAAGGCGGTTCT-ATAAAAATAGTGTAAAAAA
1 TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGA-AAAAATAATGTAAAAAA
* * *
61308822 CACTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAA-ATGCTCTCATGTGGACGCTCTTTT
65 CACTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAATA-GCTCCCACGTGAACGCTCTTTT
* *** *
61308886 TCTACAATAGTTTTTGAAAAAATAATTTTGAGAAGATGGTTCTG-AAAAATAGTGTCAAAAACGC
129 TCTACAATAGTTCTTGAAAAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTAAAAAACGC
* ** **
61308950 TTCAAGCAGGATGCATTGTCAGCAAAATTACTGAAAAAGGCTCCCACGTGGATGCTCTT
194 TTCAAGCAGGATG-ATTGTCAACAAAATTACTGAAAAAAACTCCCACGTGGACACTCTT
61309009 TTTCTACAGTAGTTCTTG
1 TTTCTACAGTAGTTCTTG
61309027 CTTGGCCTTA
Statistics
Matches: 237, Mismatches: 28, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
250 33 0.14
251 203 0.86
252 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.30
Consensus pattern (251 bp):
TTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAATGTAAAAAAC
ACTTCAAGTAGGATGCACTGTCAGCAAAATTACTGAAAATAGCTCCCACGTGAACGCTCTTTTTC
TACAATAGTTCTTGAAAAAATAATTTTGAGAAGACAATTCTGAAAAAATAGTGTAAAAAACGCTT
CAAGCAGGATGATTGTCAACAAAATTACTGAAAAAAACTCCCACGTGGACACTCTT
Found at i:61312075 original size:21 final size:21
Alignment explanation
Indices: 61312046--61312103 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
61312036 TTTCGGCGGG
* *
61312046 GGTTGTGGTTGCTCTGACGGA
1 GGTTGTGGTTGCTCTAACAGA
*
61312067 GGTTATGGTTGCTCTAACAGA
1 GGTTGTGGTTGCTCTAACAGA
*
61312088 GGTTGTGGTTGTTCTA
1 GGTTGTGGTTGCTCTA
61312104 GTTGTGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.14, C:0.12, G:0.36, T:0.38
Consensus pattern (21 bp):
GGTTGTGGTTGCTCTAACAGA
Found at i:61312380 original size:18 final size:18
Alignment explanation
Indices: 61312354--61312397 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
61312344 GACTGTGAAA
* * *
61312354 AGGAAACATATAAGTGTT
1 AGGATACATATAAGGGCT
61312372 AGGATACATATAAGGGCT
1 AGGATACATATAAGGGCT
61312390 AGGATACA
1 AGGATACA
61312398 CACCTAGCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.23
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:61316025 original size:20 final size:20
Alignment explanation
Indices: 61316000--61316084 Score: 80
Period size: 20 Copynumber: 4.2 Consensus size: 20
61315990 GATTCGAGTT
*
61316000 AAACAACAAAGAATCAATTC
1 AAACAACAAACAATCAATTC
* *
61316020 AAACAATAAACAATCTATTC
1 AAACAACAAACAATCAATTC
* * * *
61316040 AAAGAATCAAAGAATCGATTTA
1 AAACAA-CAAACAATC-AATTC
*
61316062 AAACAACAAACAATCGATTC
1 AAACAACAAACAATCAATTC
61316082 AAA
1 AAA
61316085 GAAGCAACAA
Statistics
Matches: 49, Mismatches: 14, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
20 27 0.55
21 15 0.31
22 7 0.14
ACGTcount: A:0.58, C:0.18, G:0.06, T:0.19
Consensus pattern (20 bp):
AAACAACAAACAATCAATTC
Found at i:61316071 original size:21 final size:21
Alignment explanation
Indices: 61316000--61316080 Score: 67
Period size: 21 Copynumber: 3.9 Consensus size: 21
61315990 GATTCGAGTT
* * *
61316000 AAACAACAAAGAATC-AATTC
1 AAACAACAAACAATCGATTTA
* * *
61316020 AAACAATAAACAATCTATTCA
1 AAACAACAAACAATCGATTTA
* *
61316041 AAGA-ATCAAAGAATCGATTTA
1 AA-ACAACAAACAATCGATTTA
61316062 AAACAACAAACAATCGATT
1 AAACAACAAACAATCGATT
61316081 CAAAGAAGCA
Statistics
Matches: 46, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
20 14 0.30
21 31 0.67
22 1 0.02
ACGTcount: A:0.57, C:0.17, G:0.06, T:0.20
Consensus pattern (21 bp):
AAACAACAAACAATCGATTTA
Found at i:61316073 original size:42 final size:41
Alignment explanation
Indices: 61316006--61316087 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 41
61315996 AGTTAAACAA
* * *
61316006 CAAAGAATCAATTCAAACAATAAACAATCTATTCAAAGAAT
1 CAAAGAATCAATTAAAACAACAAACAATCGATTCAAAGAAT
*
61316047 CAAAGAATCGATTTAAAACAACAAACAATCGATTCAAAGAA
1 CAAAGAATC-AATTAAAACAACAAACAATCGATTCAAAGAA
61316088 GCAACAATGC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
41 9 0.25
42 27 0.75
ACGTcount: A:0.56, C:0.17, G:0.07, T:0.20
Consensus pattern (41 bp):
CAAAGAATCAATTAAAACAACAAACAATCGATTCAAAGAAT
Found at i:61317126 original size:24 final size:24
Alignment explanation
Indices: 61317105--61317161 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
61317095 AAGATTTAGT
*
61317105 ATTTATTAGTATAATATATTTAAC
1 ATTTATTAGCATAATATATTTAAC
*
61317129 ATTTATTAGCATAATATATCTAAC
1 ATTTATTAGCATAATATATTTAAC
*
61317153 ATTGATTAG
1 ATTTATTAG
61317162 AATTAGATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.46
Consensus pattern (24 bp):
ATTTATTAGCATAATATATTTAAC
Done.