Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1814
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: 173247
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:1849 original size:19 final size:19
Alignment explanation
Indices: 1825--1861 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1815 ACTTTTCCTT
1825 TTTTTTTTGAAAACACAAA
1 TTTTTTTTGAAAACACAAA
* *
1844 TTTTTTTTTAAAATACAA
1 TTTTTTTTGAAAACACAA
1862 GCATTTTAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (19 bp):
TTTTTTTTGAAAACACAAA
Found at i:1868 original size:21 final size:20
Alignment explanation
Indices: 1824--1861 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1814 AACTTTTCCT
1824 TTTTTTTTTGAAAACACAAA
1 TTTTTTTTTGAAAACACAAA
*
1844 TTTTTTTTT-AAAATACAA
1 TTTTTTTTTGAAAACACAA
1862 GCATTTTAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (20 bp):
TTTTTTTTTGAAAACACAAA
Found at i:1905 original size:18 final size:17
Alignment explanation
Indices: 1885--1985 Score: 57
Period size: 17 Copynumber: 5.7 Consensus size: 17
1875 CGAAACTCTT
1885 TTTTTTAAAAACGAAAA
1 TTTTTTAAAAACGAAAA
* *
1902 -TTTTGAAACACG--AA
1 TTTTTTAAAAACGAAAA
*
1916 TTTTTTAGGAAACACGAAATTT
1 TTTTTTA--AAA-ACGAAA--A
*
1938 TCTTTTTGAAACACGAAAA
1 T-TTTTT-AAAAACGAAAA
1957 TTTTTTAAAACAC-AAAA
1 TTTTTTAAAA-ACGAAAA
*
1974 TTTTTTGAAAAC
1 TTTTTTAAAAAC
1986 ATAAAAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 23
0.67 0.09 0.24
Matches are distributed among these distances:
14 2 0.03
15 5 0.08
16 12 0.19
17 18 0.28
18 10 0.16
19 1 0.02
20 1 0.02
21 6 0.09
22 3 0.05
23 5 0.08
24 1 0.02
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.37
Consensus pattern (17 bp):
TTTTTTAAAAACGAAAA
Found at i:1945 original size:39 final size:38
Alignment explanation
Indices: 1902--1977 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 38
1892 AAAACGAAAA
*
1902 TTTTGAAACACG-AATTTTTTAGGAAACACGAAATTTTCT
1 TTTTGAAACACGAAATTTTTTA--AAACACAAAATTTTCT
1941 TTTTGAAACACGAAAATTTTTTAAAACACAAAATTTT
1 TTTTGAAACACG-AAATTTTTTAAAACACAAAATTTT
1978 TTGAAAACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
39 25 0.74
41 9 0.26
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (38 bp):
TTTTGAAACACGAAATTTTTTAAAACACAAAATTTTCT
Found at i:1950 original size:21 final size:20
Alignment explanation
Indices: 1902--1979 Score: 74
Period size: 18 Copynumber: 4.0 Consensus size: 20
1892 AAAACGAAAA
1902 TTTTGAAACACG-AA-TTTT
1 TTTTGAAACACGAAATTTTT
**
1920 TTAGGAAACACGAAATTTTCT
1 TTTTGAAACACGAAATTTT-T
*
1941 TTTTGAAACACGAAA--ATT
1 TTTTGAAACACGAAATTTTT
* *
1959 TTTTAAAACACAAAATTTTT
1 TTTTGAAACACGAAATTTTT
1979 T
1 T
1980 GAAAACATAA
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
18 24 0.51
19 3 0.06
20 6 0.13
21 14 0.30
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (20 bp):
TTTTGAAACACGAAATTTTT
Found at i:1986 original size:18 final size:18
Alignment explanation
Indices: 1940--1991 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
1930 CGAAATTTTC
1940 TTTTTG-AAACACGAAAAT
1 TTTTTGAAAACAC-AAAAT
1958 TTTTT-AAAACACAAAAT
1 TTTTTGAAAACACAAAAT
*
1975 TTTTTGAAAACATAAAA
1 TTTTTGAAAACACAAAA
1992 ATTTGATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
17 10 0.32
18 21 0.68
ACGTcount: A:0.50, C:0.10, G:0.06, T:0.35
Consensus pattern (18 bp):
TTTTTGAAAACACAAAAT
Found at i:2047 original size:17 final size:17
Alignment explanation
Indices: 2006--2245 Score: 96
Period size: 17 Copynumber: 13.6 Consensus size: 17
1996 GATAAAATAC
2006 GAAACACGAGAGAATTTTTT
1 GAAACACGA-A-AA-TTTTT
*
2026 G-AACACGAAAATTTAT
1 GAAACACGAAAATTTTT
**
2042 GAAACACGGTAATTTTTTTT
1 GAAACAC-G-AA-AATTTTT
2062 GAAAACACGAAAATTTTT
1 G-AAACACGAAAATTTTT
* * *
2080 GAAAGACGAGATTTTTT
1 GAAACACGAAAATTTTT
* * *
2097 GAAAACATGGAAATTTAT
1 G-AAACACGAAAATTTTT
**
2115 GAAACAC-AGATTTTTTT
1 GAAACACGA-AAATTTTT
* *
2132 GAAA-ACAAAAAATTTTC
1 GAAACAC-GAAAATTTTT
* * ** *
2149 GGAATACG-GGACTTTT
1 GAAACACGAAAATTTTT
*
2165 GAAAACAAGGAAAATTTTT
1 G-AAAC-ACGAAAATTTTT
*
2184 GAAAACACGACAATTTTT
1 G-AAACACGAAAATTTTT
*
2202 GAAACACTG-GAA-TTTT
1 GAAACAC-GAAAATTTTT
* *
2218 GAAAATACGAAGATTTTT
1 G-AAACACGAAAATTTTT
2236 GAAACACGAA
1 GAAACACGAA
2246 TTTTTTTTAA
Statistics
Matches: 161, Mismatches: 42, Indels: 37
0.67 0.17 0.15
Matches are distributed among these distances:
16 18 0.11
17 67 0.42
18 41 0.25
19 22 0.14
20 7 0.04
21 6 0.04
ACGTcount: A:0.43, C:0.10, G:0.16, T:0.30
Consensus pattern (17 bp):
GAAACACGAAAATTTTT
Found at i:2102 original size:35 final size:35
Alignment explanation
Indices: 2019--2245 Score: 143
Period size: 35 Copynumber: 6.5 Consensus size: 35
2009 ACACGAGAGA
*
2019 ATTTTTTG--AACACGAAAATTTATGAAACACG-G
1 ATTTTTTGAAAACACGAAAATTTTTGAAACACGAG
*
2051 TAATTTTTTTTGAAAACACGAAAATTTTTGAAAGACGAG
1 --A--TTTTTTGAAAACACGAAAATTTTTGAAACACGAG
* * *
2090 ATTTTTTGAAAACATGGAAATTTATGAAACAC-AG
1 ATTTTTTGAAAACACGAAAATTTTTGAAACACGAG
* * * * *
2124 ATTTTTTTGAAAACA-AAAAATTTTCGGAATACGGG
1 A-TTTTTTGAAAACACGAAAATTTTTGAAACACGAG
* * *
2159 A-CTTTTGAAAACAAGGAAAATTTTTGAAAACACGAC
1 ATTTTTTGAAAAC-ACGAAAATTTTTG-AAACACGAG
* * *
2195 AATTTTTG-AAACACTG-GAA-TTTTGAAAATACGAAG
1 ATTTTTTGAAAACAC-GAAAATTTTTG-AAACACG-AG
2230 A-TTTTTG-AAACACGAA
1 ATTTTTTGAAAACACGAA
2246 TTTTTTTTAA
Statistics
Matches: 153, Mismatches: 26, Indels: 28
0.74 0.13 0.14
Matches are distributed among these distances:
33 11 0.07
34 40 0.26
35 56 0.37
36 18 0.12
37 6 0.04
38 21 0.14
39 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (35 bp):
ATTTTTTGAAAACACGAAAATTTTTGAAACACGAG
Found at i:3081 original size:5 final size:5
Alignment explanation
Indices: 3071--3121 Score: 59
Period size: 5 Copynumber: 10.0 Consensus size: 5
3061 AGTCTCGGCG
* *
3071 TTCTC TTCTC TTCTT TTCTC TTC-C TTTTC TTCTTTC TTCTC TTCTC TTCTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTC--TC TTCTC TTCTC TTCTC
3122 CCTTTGACTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 3 0.08
5 31 0.79
7 5 0.13
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (5 bp):
TTCTC
Found at i:5294 original size:76 final size:74
Alignment explanation
Indices: 4996--5329 Score: 453
Period size: 76 Copynumber: 4.5 Consensus size: 74
4986 AGTGTGTAAT
* *
4996 TGAGCGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTAAAAACAGAAATTGAAAATACCT
1 TGAG-GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAATTACCT
*
5061 CAGCTGTGAACC
65 CAGC-GTG-TCC
* *
5073 -GAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTTTTTGAAAACAGAAATTGAAA-TACCTC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAATTACCTC
* *
5136 AACGTGTCT
66 AGCGTGTCC
** * * *
5145 TGAGGCTCAACTCATTTCTCGCAATATAAGTTGA---ATTTTGAAACAGAAATTGAAATTACCTC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAATTACCTC
5207 AGCGTGTCC
66 AGCGTGTCC
**
5216 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTTTTTTTTAACAACAGAAATTGAAATTACC
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTTAA-AACAGAAATTGAAATTACC
5281 TCAGCGTGTCC
64 TCAGCGTGTCC
*
5292 TGAGGCTCAACTCACCTCTAGCAATATGAGTTGATTTT
1 TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
5330 GAAAAAAAAA
Statistics
Matches: 232, Mismatches: 18, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
70 18 0.08
71 46 0.20
72 1 0.00
73 34 0.15
74 8 0.03
75 61 0.26
76 64 0.28
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (74 bp):
TGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTAAAACAGAAATTGAAATTACCTC
AGCGTGTCC
Found at i:5463 original size:67 final size:71
Alignment explanation
Indices: 5344--5515 Score: 187
Period size: 69 Copynumber: 2.5 Consensus size: 71
5334 AAAAAATTAA
* * * * * **
5344 AGGCTTAACTCACCTCTCGCAATATGAG-TCA-ATTTAAAACATAAACTAAAAATA-C-CGGCGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAAATAAAAATACCTCAACGT
5405 GCCCCG
66 GCCCCG
*
5411 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAA-A-AAAATTAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAAATAAAAATACCTCAACGT
* **
5474 GTCTTG
66 GCCCCG
5480 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
5516 CCTTGGAAAG
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
67 36 0.40
68 5 0.06
69 48 0.54
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (71 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTAAAACATAAAATAAAAATACCTCAACGT
GCCCCG
Found at i:17202 original size:19 final size:19
Alignment explanation
Indices: 17180--17351 Score: 64
Period size: 19 Copynumber: 9.3 Consensus size: 19
17170 AACTTTTCCT
17180 TTTTTTTGAAAACACAAAA
1 TTTTTTTGAAAACACAAAA
* *
17199 TTTTTTT-AAAATACAAGCA
1 TTTTTTTGAAAACACAA-AA
* *
17218 --TTTTAG-AAACACGAAACTCT
1 TTTTTTTGAAAACAC-AAA---A
*
17238 TTTTTTTTAAAA-ACGAAAA
1 TTTTTTTGAAAACAC-AAAA
* *
17257 --T-TTTG-AAACACGAGA
1 TTTTTTTGAAAACACAAAA
* * * *
17272 TTTTTTAGGAAACACGAAT
1 TTTTTTTGAAAACACAAAA
17291 TTTCTTTTTG-AAACACGAAAA
1 TTT-TT-TTGAAAACAC-AAAA
17312 -T-TTTT-AAAACACAAAA
1 TTTTTTTGAAAACACAAAA
*
17328 TTTTTTTGAAAACATAAAA
1 TTTTTTTGAAAACACAAAA
17347 TTTTT
1 TTTTT
17352 GATAAAATAC
Statistics
Matches: 113, Mismatches: 19, Indels: 42
0.65 0.11 0.24
Matches are distributed among these distances:
15 5 0.04
16 9 0.08
17 20 0.18
18 19 0.17
19 34 0.30
20 9 0.08
21 4 0.04
22 10 0.09
23 3 0.03
ACGTcount: A:0.42, C:0.11, G:0.08, T:0.38
Consensus pattern (19 bp):
TTTTTTTGAAAACACAAAA
Found at i:17305 original size:20 final size:18
Alignment explanation
Indices: 17257--17338 Score: 67
Period size: 19 Copynumber: 4.4 Consensus size: 18
17247 AAAACGAAAA
17257 TTTTGAAACACGAGATTTT
1 TTTTGAAACACGA-ATTTT
**
17276 TTAGGAAACACGAATTTTCT
1 TTTTGAAACACGAA-TTT-T
**
17296 TTTTGAAACACGAA-AAT
1 TTTTGAAACACGAATTTT
* * *
17313 TTTTAAAACACAAAATTT
1 TTTTGAAACACGAATTTT
17331 TTTTGAAA
1 TTTTGAAA
17339 ACATAAAATT
Statistics
Matches: 49, Mismatches: 11, Indels: 7
0.73 0.16 0.10
Matches are distributed among these distances:
17 13 0.27
18 9 0.18
19 14 0.29
20 13 0.27
ACGTcount: A:0.40, C:0.11, G:0.11, T:0.38
Consensus pattern (18 bp):
TTTTGAAACACGAATTTT
Found at i:17314 original size:55 final size:57
Alignment explanation
Indices: 17178--17338 Score: 147
Period size: 55 Copynumber: 2.8 Consensus size: 57
17168 ACAACTTTTC
* *
17178 CTTTTTTTTGAAAACAC-AAAATTTTTTTAAAATACAAGCA--TTTTAGAAACACGAAACT
1 CTTTTTTTTGAAAA-ACGAAAA--TTTTTAAAACACAA-AATTTTTTAGAAACACGAAACT
* * * *
17236 CTTTTTTTTTAAAAACGAAAA-TTTTGAAACACGAGATTTTTTAGGAAACACG-AA-T
1 CTTTTTTTTGAAAAACGAAAATTTTTAAAACACAAAATTTTTTA-GAAACACGAAACT
* *
17291 -TTTCTTTTTGAAACACGAAAATTTTTAAAACACAAAATTTTTTTGAAA
1 CTTT-TTTTTGAAAAACGAAAATTTTTAAAACACAAAATTTTTTAGAAA
17339 ACATAAAATT
Statistics
Matches: 86, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
54 4 0.05
55 30 0.35
56 25 0.29
57 10 0.12
58 17 0.20
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.38
Consensus pattern (57 bp):
CTTTTTTTTGAAAAACGAAAATTTTTAAAACACAAAATTTTTTAGAAACACGAAACT
Found at i:17322 original size:56 final size:56
Alignment explanation
Indices: 17218--17338 Score: 140
Period size: 56 Copynumber: 2.2 Consensus size: 56
17208 AATACAAGCA
* * * *
17218 TTTTAGAAACACGAAACTCTTTTTTTTTAAAAACGAAAATTTTGAAACACGAGATT
1 TTTTAGAAACACGAAACTCTTTTTTTTGAAAAACGAAAATTTTAAAACACAAAATT
*
17274 TTTTAGGAAACACG-AA-T-TTTCTTTTTGAAACACGAAAATTTTTAAAACACAAAATT
1 TTTTA-GAAACACGAAACTCTTT-TTTTTGAAAAACGAAAA-TTTTAAAACACAAAATT
*
17330 TTTTTGAAA
1 TTTTAGAAA
17339 ACATAAAATT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
54 3 0.05
55 20 0.36
56 25 0.45
57 8 0.14
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.37
Consensus pattern (56 bp):
TTTTAGAAACACGAAACTCTTTTTTTTGAAAAACGAAAATTTTAAAACACAAAATT
Found at i:17358 original size:19 final size:18
Alignment explanation
Indices: 17301--17358 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 18
17291 TTTCTTTTTG
17301 AAACACGAAAA-TTTT-TA
1 AAACAC-AAAATTTTTATA
*
17318 AAACACAAAATTTTTTTGA
1 AAACACAAAATTTTTAT-A
*
17337 AAACATAAAATTTTTGATA
1 AAACACAAAATTTTT-ATA
17356 AAA
1 AAA
17359 TACGAAACAC
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
16 4 0.11
17 10 0.29
18 1 0.03
19 19 0.54
20 1 0.03
ACGTcount: A:0.53, C:0.09, G:0.05, T:0.33
Consensus pattern (18 bp):
AAACACAAAATTTTTATA
Found at i:17394 original size:18 final size:18
Alignment explanation
Indices: 17362--17505 Score: 82
Period size: 18 Copynumber: 7.9 Consensus size: 18
17352 GATAAAATAC
**
17362 GAAACACGAGGATTTTTT
1 GAAACACGAAAATTTTTT
*
17380 GAAACACGAAAA-TTTAT
1 GAAACACGAAAATTTTTT
**
17397 GAAACACGGTCAATTTTTTTT
1 GAAACAC-G--AAAATTTTTT
17418 GAAAACACGAAAA-TTTTT
1 G-AAACACGAAAATTTTTT
* *
17436 GAAAGACG-AGATTTTTT
1 GAAACACGAAAATTTTTT
* * *
17453 GAAAACATGGAAA-TTTAT
1 G-AAACACGAAAATTTTTT
*
17471 GAAACAC-AGAATTTTTTT
1 GAAACACGA-AAATTTTTT
*
17489 GAAAACAAGAAAATTTT
1 G-AAACACGAAAATTTT
17506 CGGAATACGG
Statistics
Matches: 94, Mismatches: 20, Indels: 23
0.69 0.15 0.17
Matches are distributed among these distances:
16 2 0.02
17 30 0.32
18 32 0.34
19 15 0.16
20 3 0.03
21 6 0.06
22 6 0.06
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.32
Consensus pattern (18 bp):
GAAACACGAAAATTTTTT
Found at i:17401 original size:17 final size:17
Alignment explanation
Indices: 17375--17604 Score: 106
Period size: 17 Copynumber: 12.9 Consensus size: 17
17365 ACACGAGGAT
17375 TTTTTGAAACACGAAAA
1 TTTTTGAAACACGAAAA
* **
17392 TTTATGAAACACGGTCAATTT
1 TTTTTGAAACAC-G--AA-AA
17413 TTTTTGAAAACACGAAAA
1 TTTTTG-AAACACGAAAA
* * *
17431 TTTTTGAAAGACGAGAT
1 TTTTTGAAACACGAAAA
* *
17448 TTTTTGAAAACATGGAAA
1 TTTTTG-AAACACGAAAA
* **
17466 TTTATGAAACACAGAATT
1 TTTTTGAAACAC-GAAAA
*
17484 TTTTTGAAAACAAGAAAA
1 TTTTTG-AAACACGAAAA
* * * **
17502 TTTTCGGAATACG-GGA
1 TTTTTGAAACACGAAAA
* * *
17518 CTTTTGAAAACAAGGAAATT
1 TTTTTG-AAAC-ACGAAA-A
*
17538 TTTTTGAAAACACGACAA
1 TTTTTG-AAACACGAAAA
*
17556 TTTTTGAAACACTG-GAA
1 TTTTTGAAACAC-GAAAA
*
17573 -TTTTGAAAACACGAAGA
1 TTTTTG-AAACACGAAAA
17590 TTTTTGAAACACGAA
1 TTTTTGAAACACGAA
17605 TTTTTTTTAA
Statistics
Matches: 153, Mismatches: 44, Indels: 32
0.67 0.19 0.14
Matches are distributed among these distances:
16 11 0.07
17 60 0.39
18 47 0.31
19 11 0.07
20 12 0.08
21 6 0.04
22 6 0.04
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (17 bp):
TTTTTGAAACACGAAAA
Found at i:17401 original size:35 final size:37
Alignment explanation
Indices: 17362--17504 Score: 163
Period size: 35 Copynumber: 3.9 Consensus size: 37
17352 GATAAAATAC
*
17362 GAAACACGAGGA-TTTTTTG-AAACACGAAAATTTAT
1 GAAACACGAGAATTTTTTTGAAAACACGAAAATTTAT
*
17397 GAAACACG-GTCAATTTTTTTTGAAAACACGAAAATTTTT
1 GAAACACGAG--AA-TTTTTTTGAAAACACGAAAATTTAT
* * *
17436 GAAAGACGAG-A-TTTTTTGAAAACATGGAAATTTAT
1 GAAACACGAGAATTTTTTTGAAAACACGAAAATTTAT
*
17471 GAAACAC-AGAATTTTTTTGAAAACAAGAAAATTT
1 GAAACACGAGAATTTTTTTGAAAACACGAAAATTT
17505 TCGGAATACG
Statistics
Matches: 91, Mismatches: 9, Indels: 15
0.79 0.08 0.13
Matches are distributed among these distances:
34 3 0.03
35 36 0.40
36 21 0.23
37 1 0.01
38 7 0.08
39 22 0.24
40 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.15, T:0.31
Consensus pattern (37 bp):
GAAACACGAGAATTTTTTTGAAAACACGAAAATTTAT
Found at i:17557 original size:20 final size:20
Alignment explanation
Indices: 17519--17560 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
17509 AATACGGGAC
*
17519 TTTTGAAAACAAGGAAATTT
1 TTTTGAAAACAACGAAATTT
17539 TTTTGAAAAC-ACGACAATTT
1 TTTTGAAAACAACGA-AATTT
17559 TT
1 TT
17561 GAAACACTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 3 0.15
20 17 0.85
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (20 bp):
TTTTGAAAACAACGAAATTT
Found at i:17593 original size:54 final size:54
Alignment explanation
Indices: 17363--17604 Score: 159
Period size: 54 Copynumber: 4.5 Consensus size: 54
17353 ATAAAATACG
* * *
17363 AAACACGAGGA-TTTTTTGAAACACGAAAATTTATGAAACAC-GGTCAATTTTTTTTGA
1 AAACACGAAGATTTTTTTGAAACACGAAAATTTTTGAAACACTGG--AA---ATTTTGA
* * * *
17420 AAACACGAA-A-ATTTTTGAAAGACGAGATTTTTTGAAA-ACATGGAAATTTATG-
1 AAACACGAAGATTTTTTTGAAACACGAAAATTTTTGAAACAC-TGGAAATTT-TGA
* * * * * *
17472 AAACAC--AGAATTTTTTTGAAAACAAGAAAATTTTCGGAATAC-GGGACTTTTGA
1 AAACACGAAG-ATTTTTTTG-AAACACGAAAATTTTTGAAACACTGGAAATTTTGA
* *
17525 AAACAAGGAA-ATTTTTTTGAAAACACGACAATTTTTGAAACACTGG-AATTTTGA
1 AAAC-ACGAAGATTTTTTTG-AAACACGAAAATTTTTGAAACACTGGAAATTTTGA
17579 AAACACGAAGA--TTTTTGAAACACGAA
1 AAACACGAAGATTTTTTTGAAACACGAA
17605 TTTTTTTTAA
Statistics
Matches: 146, Mismatches: 25, Indels: 34
0.71 0.12 0.17
Matches are distributed among these distances:
50 1 0.01
51 8 0.05
52 18 0.12
53 22 0.15
54 55 0.38
55 8 0.05
56 24 0.16
57 10 0.07
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.30
Consensus pattern (54 bp):
AAACACGAAGATTTTTTTGAAACACGAAAATTTTTGAAACACTGGAAATTTTGA
Found at i:17610 original size:17 final size:17
Alignment explanation
Indices: 17413--17609 Score: 111
Period size: 17 Copynumber: 11.3 Consensus size: 17
17403 CGGTCAATTT
17413 TTTTTGAAAACACGAAAA
1 TTTTTGAAAACACG-AAA
* *
17431 TTTTTG-AAAGACGAGAT
1 TTTTTGAAAACACGA-AA
*
17448 TTTTTGAAAACATGGAAA
1 TTTTTGAAAACA-CGAAA
* *
17466 TTTATG-AAACACAGAATT
1 TTTTTGAAAACAC-GAA-A
*
17484 TTTTTGAAAACAAGAAAA
1 TTTTTGAAAACACG-AAA
* * * **
17502 TTTTCG-GAATACGGGA
1 TTTTTGAAAACACGAAA
* *
17518 CTTTTGAAAACAAGGAAA
1 TTTTTGAAAAC-ACGAAA
17536 TTTTTTTGAAAACACGACAA
1 --TTTTTGAAAACACGA-AA
*
17556 TTTTTG-AAACACTGGAA
1 TTTTTGAAAACAC-GAAA
17573 -TTTTGAAAACACGAAGA
1 TTTTTGAAAACACGAA-A
17590 TTTTTG-AAACACG-AA
1 TTTTTGAAAACACGAAA
17605 TTTTT
1 TTTTT
17610 TTTAAATGCC
Statistics
Matches: 135, Mismatches: 28, Indels: 35
0.68 0.14 0.18
Matches are distributed among these distances:
15 6 0.04
16 14 0.10
17 49 0.36
18 42 0.31
19 12 0.09
20 12 0.09
ACGTcount: A:0.42, C:0.10, G:0.16, T:0.32
Consensus pattern (17 bp):
TTTTTGAAAACACGAAA
Found at i:18452 original size:5 final size:5
Alignment explanation
Indices: 18442--18493 Score: 65
Period size: 5 Copynumber: 11.0 Consensus size: 5
18432 AGTCTCGGCG
* *
18442 TTCTC TTCTC TTCTT TTCTC TTC-C TT-TT TTCTC TTC-C TTCTC TTCTC
1 TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC TTCTC
18489 TTCTC
1 TTCTC
18494 CCTTTGACTT
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
4 9 0.22
5 31 0.77
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (5 bp):
TTCTC
Found at i:22658 original size:21 final size:21
Alignment explanation
Indices: 22632--22673 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22622 TAGTTTATAG
*
22632 ATTTTTATATTAAATTTGATAT
1 ATTTTTA-GTTAAATTTGATAT
*
22654 ATTTTTAGTTTAATTTGATA
1 ATTTTTAGTTAAATTTGATA
22674 AATTAATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
ATTTTTAGTTAAATTTGATAT
Found at i:22778 original size:37 final size:36
Alignment explanation
Indices: 22663--22781 Score: 98
Period size: 37 Copynumber: 3.2 Consensus size: 36
22653 TATTTTTAGT
* *
22663 TTAATTTGATAAATTAATACAAAGTAGTATCCAAATA
1 TTAATTTGATAAA-TAATACAAAGTAGTATCTAAGTA
* * *** * *
22700 TTAATTTGGTTAAAAAATATTTAGTAAAATAT-TTAGT-
1 TTAATTT-GATAAATAATACAAAGT--AGTATCTAAGTA
22737 TTAATTTGATAAACTAATACAAAGTAGTATCTAAGTA
1 TTAATTTGATAAA-TAATACAAAGTAGTATCTAAGTA
22774 TTAATTTG
1 TTAATTTG
22782 GTAAGTAAAT
Statistics
Matches: 60, Mismatches: 16, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
35 4 0.07
36 9 0.15
37 36 0.60
38 7 0.12
39 4 0.07
ACGTcount: A:0.45, C:0.05, G:0.10, T:0.40
Consensus pattern (36 bp):
TTAATTTGATAAATAATACAAAGTAGTATCTAAGTA
Found at i:23079 original size:10 final size:10
Alignment explanation
Indices: 23050--23080 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
23040 TTTTGCCCTT
23050 GTGACATATG
1 GTGACATATG
23060 GTGTACATATG
1 GTG-ACATATG
23071 GTGACATATG
1 GTGACATATG
23081 TACTAAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.29, C:0.10, G:0.29, T:0.32
Consensus pattern (10 bp):
GTGACATATG
Found at i:24336 original size:17 final size:19
Alignment explanation
Indices: 24314--24359 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
24304 ATGACGATAG
*
24314 AAAATA-ACA-ATATATAT
1 AAAATATACATATACATAT
24331 AAAATATACATATACATAT
1 AAAATATACATATACATAT
*
24350 -ATATATACAT
1 AAAATATACAT
24360 GGCATACATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 6 0.24
18 12 0.48
19 7 0.28
ACGTcount: A:0.59, C:0.09, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAATATACATATACATAT
Found at i:24559 original size:25 final size:25
Alignment explanation
Indices: 24531--24580 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
24521 AAATAAGATG
* *
24531 TTTAAAATACATACATAATATAGTA
1 TTTAAAATACACACATAAGATAGTA
* *
24556 TTTAAGATGCACACATAAGATAGTA
1 TTTAAAATACACACATAAGATAGTA
24581 CAAAAAACAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (25 bp):
TTTAAAATACACACATAAGATAGTA
Found at i:25213 original size:3 final size:3
Alignment explanation
Indices: 25207--25263 Score: 84
Period size: 3 Copynumber: 20.0 Consensus size: 3
25197 CATATGCTAG
*
25207 TAA TAA TAA TAA TAA TAA TAA TAA T-A TAA TAA T-A TAA TAA TAA -CA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
25252 TAA TAA TAA TAA
1 TAA TAA TAA TAA
25264 CATAAAGTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
2 5 0.10
3 44 0.90
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:25268 original size:11 final size:11
Alignment explanation
Indices: 25207--25262 Score: 78
Period size: 11 Copynumber: 5.0 Consensus size: 11
25197 CATATGCTAG
25207 TAATAATAATAA
1 TAATAATAAT-A
25219 TAATAATAATA
1 TAATAATAATA
25230 -ATATAATAATA
1 TA-ATAATAATA
*
25241 TAATAATAACA
1 TAATAATAATA
25252 TAATAATAATA
1 TAATAATAATA
25263 ACATAAAGTA
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
10 1 0.03
11 28 0.70
12 11 0.28
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (11 bp):
TAATAATAATA
Found at i:27928 original size:16 final size:16
Alignment explanation
Indices: 27896--27936 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
27886 ATAATTTTTT
*
27896 AAACTTAAAATAACCA
1 AAACTTAAAACAACCA
27912 AAAC-TAAAACAATCC-
1 AAACTTAAAACAA-CCA
27927 AAACTTAAAA
1 AAACTTAAAA
27937 AATATTCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.63, C:0.20, G:0.00, T:0.17
Consensus pattern (16 bp):
AAACTTAAAACAACCA
Found at i:40392 original size:25 final size:24
Alignment explanation
Indices: 40358--40417 Score: 77
Period size: 25 Copynumber: 2.5 Consensus size: 24
40348 GAGAGGGTTT
40358 TTATTATTATTTAATATTAATATAA
1 TTATTATTATTTAATATTAAT-TAA
* * *
40383 TTATTTTTATTTAATCTTAATTTA
1 TTATTATTATTTAATATTAATTAA
40407 TTATTA-TATTT
1 TTATTATTATTT
40418 TTTGAAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 5 0.16
24 7 0.23
25 19 0.61
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
TTATTATTATTTAATATTAATTAA
Found at i:40453 original size:9 final size:9
Alignment explanation
Indices: 40416--40463 Score: 53
Period size: 9 Copynumber: 5.2 Consensus size: 9
40406 ATTATTATAT
40416 TTTTTGAAAA
1 TTTTT-AAAA
* *
40426 TATTTATATA
1 TTTTTA-AAA
40436 TTTTT-AAA
1 TTTTTAAAA
40444 TTTTTAAAA
1 TTTTTAAAA
40453 TTTTTAAAA
1 TTTTTAAAA
40462 TT
1 TT
40464 AAGATCAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
8 7 0.22
9 15 0.47
10 10 0.31
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:40923 original size:39 final size:39
Alignment explanation
Indices: 40873--40949 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
40863 TACTTTTAAA
* *
40873 ATTTTAGGTAGAATAACTTATTTAGTCCTCCATTTTTAC
1 ATTTTAAGTAGAATAAATTATTTAGTCCTCCATTTTTAC
40912 ATTTTAAGTAGAATAAATTATTTAGTCCTCCATTTTTA
1 ATTTTAAGTAGAATAAATTATTTAGTCCTCCATTTTTA
40950 TATCACCTCA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (39 bp):
ATTTTAAGTAGAATAAATTATTTAGTCCTCCATTTTTAC
Found at i:58417 original size:59 final size:59
Alignment explanation
Indices: 58350--58468 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
58340 CAAAGATAAA
58350 AAGAAATATAAAATTATTGGGTTGGTCAACCTTCCAATTATTTGTACCATCACCCCATT
1 AAGAAATATAAAATTATTGGGTTGGTCAACCTTCCAATTATTTGTACCATCACCCCATT
58409 AAGAAATATAAAATTATTGGGTTGGTCAACCTTCCAATTATTTGTACCATCACCCCATT
1 AAGAAATATAAAATTATTGGGTTGGTCAACCTTCCAATTATTTGTACCATCACCCCATT
58468 A
1 A
58469 CATTGTCAAT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.34, C:0.20, G:0.12, T:0.34
Consensus pattern (59 bp):
AAGAAATATAAAATTATTGGGTTGGTCAACCTTCCAATTATTTGTACCATCACCCCATT
Found at i:58958 original size:10 final size:10
Alignment explanation
Indices: 58933--58992 Score: 70
Period size: 10 Copynumber: 6.0 Consensus size: 10
58923 TAATTCTAGG
58933 ATTTAT-TTT
1 ATTTATCTTT
58942 CATTTATCTTT
1 -ATTTATCTTT
*
58953 ACTTATCTTT
1 ATTTATCTTT
*
58963 AATTATCTTT
1 ATTTATCTTT
58973 ATTTAT-TTGT
1 ATTTATCTT-T
58983 ATTTATCTTT
1 ATTTATCTTT
58993 TAGAATTTCA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
9 2 0.05
10 37 0.84
11 5 0.11
ACGTcount: A:0.22, C:0.10, G:0.02, T:0.67
Consensus pattern (10 bp):
ATTTATCTTT
Found at i:59709 original size:17 final size:18
Alignment explanation
Indices: 59678--59711 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
59668 TATTCCTCAT
59678 TTTAATTTCTGCAATTTA
1 TTTAATTTCTGCAATTTA
59696 TTTAATTT-TGCAATTT
1 TTTAATTTCTGCAATTT
59712 CAATTCACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.26, C:0.09, G:0.06, T:0.59
Consensus pattern (18 bp):
TTTAATTTCTGCAATTTA
Found at i:59888 original size:12 final size:13
Alignment explanation
Indices: 59867--59900 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
59857 CTACTTCCCC
59867 TTTT-CTATTA-T
1 TTTTACTATTATT
59878 TTTTACTATTATT
1 TTTTACTATTATT
59891 TTTTACTATT
1 TTTTACTATT
59901 TTACAGGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 4 0.19
12 6 0.29
13 11 0.52
ACGTcount: A:0.21, C:0.09, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTACTATTATT
Found at i:68278 original size:22 final size:20
Alignment explanation
Indices: 68234--68286 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 20
68224 TTTGTTTAAA
68234 AAAATA-AAATATAAATTTAT
1 AAAATATAAA-ATAAATTTAT
68254 AAAATATAAAATAAATTTAAT
1 AAAATATAAAATAAATTT-AT
*
68275 TAAATAATAAAA
1 AAAAT-ATAAAA
68287 AGATAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 14 0.48
21 9 0.31
22 6 0.21
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATATAAAATAAATTTAT
Found at i:68337 original size:15 final size:14
Alignment explanation
Indices: 68314--68347 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
68304 TATATGTGTA
68314 TTTTAATAAAAATAT
1 TTTTAAT-AAAATAT
*
68329 TTTTTATAAAATAT
1 TTTTAATAAAATAT
68343 TTTTA
1 TTTTA
68348 CGAAATCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
TTTTAATAAAATAT
Found at i:77612 original size:2 final size:2
Alignment explanation
Indices: 77605--77631 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
77595 AACCCAACAC
77605 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
77632 AGGGAGTCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:80191 original size:12 final size:12
Alignment explanation
Indices: 80174--80198 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
80164 TAATGGAGAT
80174 ATATGCCTTATG
1 ATATGCCTTATG
80186 ATATGCCTTATG
1 ATATGCCTTATG
80198 A
1 A
80199 CATAGCATTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (12 bp):
ATATGCCTTATG
Found at i:81057 original size:20 final size:19
Alignment explanation
Indices: 81018--81057 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
81008 TTTACAAGTG
* *
81018 TATTTAAATGATAATGTGA
1 TATTTAAATAATAATATGA
81037 TATTTAGAATAATAATATGA
1 TATTTA-AATAATAATATGA
81057 T
1 T
81058 GTTCCTAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (19 bp):
TATTTAAATAATAATATGA
Found at i:86260 original size:3 final size:3
Alignment explanation
Indices: 86252--86282 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
86242 AACTCGTCCA
86252 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
86283 CTCCTCCTCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
CTT
Found at i:88987 original size:14 final size:14
Alignment explanation
Indices: 88970--88997 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
88960 AACTGACTTC
88970 TAGAAAATGATTTA
1 TAGAAAATGATTTA
88984 TAGAAAATGATTTA
1 TAGAAAATGATTTA
88998 CTTTTCTGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
TAGAAAATGATTTA
Found at i:89492 original size:15 final size:15
Alignment explanation
Indices: 89472--89523 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
89462 ACTACAAAAC
89472 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
89487 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
89506 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
89521 ATT
1 ATT
89524 AATATTGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:89583 original size:15 final size:16
Alignment explanation
Indices: 89563--89593 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
89553 AATAACATTA
89563 TTTAAAA-TTATTATT
1 TTTAAAATTTATTATT
89578 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
89594 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:89644 original size:22 final size:22
Alignment explanation
Indices: 89618--89661 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
89608 ATATTAAATA
89618 ATTTATTAAAATAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
* *
89640 ATTTATTATATTAATAATTTAT
1 ATTTATTAAAATAATAATTTAT
89662 TATATGACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTATTAAAATAATAATTTAT
Found at i:96757 original size:15 final size:14
Alignment explanation
Indices: 96724--96763 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
96714 ATTGATAGCA
* *
96724 TTATTAAAATTATT
1 TTATTAAAATAAAT
96738 TTATTAAATATAAAT
1 TTATTAAA-ATAAAT
96753 TTATTAAAATA
1 TTATTAAAATA
96764 TTATTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTATTAAAATAAAT
Found at i:100827 original size:31 final size:31
Alignment explanation
Indices: 100792--100853 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
100782 CTTAACAATC
* * *
100792 TAGTGATTTCAATAAAGA-CTTTTGAATAGTT
1 TAGTGATTTAAACAAA-ATCTTTCGAATAGTT
100823 TAGTGATTTAAACAAAATCTTTCGAATAGTT
1 TAGTGATTTAAACAAAATCTTTCGAATAGTT
100854 CAATAACCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (31 bp):
TAGTGATTTAAACAAAATCTTTCGAATAGTT
Found at i:104119 original size:24 final size:26
Alignment explanation
Indices: 104092--104139 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
104082 TAATATAATC
104092 TCAAA-AAATAAACATAAA-AACACA
1 TCAAATAAATAAACATAAATAACACA
*
104116 TCAAATAAATCAACATAAATAACA
1 TCAAATAAATAAACATAAATAACA
104140 TTTTAAGTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.24
25 12 0.57
26 4 0.19
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (26 bp):
TCAAATAAATAAACATAAATAACACA
Found at i:104559 original size:29 final size:29
Alignment explanation
Indices: 104517--104575 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
104507 TTTATTTACG
104517 GGTTGGGAGTTAGGAAAGTGCTATAGATA
1 GGTTGGGAGTTAGGAAAGTGCTATAGATA
104546 GGTTGGGAGTTAGGAAAGTGCTATAGATA
1 GGTTGGGAGTTAGGAAAGTGCTATAGATA
104575 G
1 G
104576 TTTTAGATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.03, G:0.39, T:0.27
Consensus pattern (29 bp):
GGTTGGGAGTTAGGAAAGTGCTATAGATA
Found at i:104825 original size:26 final size:27
Alignment explanation
Indices: 104779--104831 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
104769 TTTCTATCAA
*
104779 TTTTTATAATTAAATTCAAATTTAATT
1 TTTTTATAATTAAATTCAAATTAAATT
*
104806 TTTTTATTATTTAAA-T-AAATTAAATT
1 TTTTTA-TAATTAAATTCAAATTAAATT
104832 CAAACTAGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 9 0.39
27 7 0.30
28 7 0.30
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (27 bp):
TTTTTATAATTAAATTCAAATTAAATT
Found at i:105015 original size:31 final size:29
Alignment explanation
Indices: 104980--105050 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 29
104970 ATTAAAAATG
*
104980 AAATTTGATTAAATGTGTAAT-GAGATACATA
1 AAATTTGATT-AA-CTGTAATCGA-ATACATA
*
105011 AAATTTGATTTACTGTAATCGAATACATA
1 AAATTTGATTAACTGTAATCGAATACATA
105040 AATATTTGATT
1 AA-ATTTGATT
105051 TTATTCAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
29 15 0.42
30 11 0.31
31 10 0.28
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (29 bp):
AAATTTGATTAACTGTAATCGAATACATA
Found at i:105036 original size:29 final size:30
Alignment explanation
Indices: 104995--105051 Score: 91
Period size: 29 Copynumber: 1.9 Consensus size: 30
104985 TGATTAAATG
104995 TGTAATGAGATACATAAA-ATTTGATTTAC
1 TGTAATGAGATACATAAATATTTGATTTAC
105024 TGTAATCGA-ATACATAAATATTTGATTT
1 TGTAAT-GAGATACATAAATATTTGATTT
105052 TATTCAATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
29 15 0.58
30 11 0.42
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (30 bp):
TGTAATGAGATACATAAATATTTGATTTAC
Found at i:109335 original size:17 final size:17
Alignment explanation
Indices: 109313--109346 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
109303 GAAAAAGTCA
*
109313 AAATATTTTTTAAAAAT
1 AAATATTTATTAAAAAT
109330 AAATATTTATTAAAAAT
1 AAATATTTATTAAAAAT
109347 TATAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AAATATTTATTAAAAAT
Found at i:111531 original size:15 final size:16
Alignment explanation
Indices: 111511--111540 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
111501 GCCGTTGTTC
111511 GAAGAGAAA-AAGAGA
1 GAAGAGAAACAAGAGA
111526 GAAGAGAAACAAGAG
1 GAAGAGAAACAAGAG
111541 CTGAGATTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.63, C:0.03, G:0.33, T:0.00
Consensus pattern (16 bp):
GAAGAGAAACAAGAGA
Found at i:116620 original size:38 final size:38
Alignment explanation
Indices: 116569--116648 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
116559 GGAAAATATA
116569 TACTTTTCATTGGCAATTCTAGCAAAGCTTTTCAAACC
1 TACTTTTCATTGGCAATTCTAGCAAAGCTTTTCAAACC
116607 TACTTTTCATTGGCAATTCTAGCAAAGCTTTTCAAACC
1 TACTTTTCATTGGCAATTCTAGCAAAGCTTTTCAAACC
116645 -ACTT
1 TACTT
116649 CTGTGAATAT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
37 4 0.10
38 38 0.90
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (38 bp):
TACTTTTCATTGGCAATTCTAGCAAAGCTTTTCAAACC
Found at i:117130 original size:35 final size:35
Alignment explanation
Indices: 117083--117158 Score: 118
Period size: 35 Copynumber: 2.2 Consensus size: 35
117073 GATTTCTAGT
* *
117083 AAAAA-CAACAAAAATATATTCACTCAAATAGCTC
1 AAAAAGCAACAAAAATATATTCACACAAAAAGCTC
*
117117 AAAAAGCAACAAAAATATATTCACACAAAAAGTTC
1 AAAAAGCAACAAAAATATATTCACACAAAAAGCTC
117152 AAAAAGC
1 AAAAAGC
117159 TTTGCAAGAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
34 5 0.13
35 33 0.87
ACGTcount: A:0.59, C:0.18, G:0.05, T:0.17
Consensus pattern (35 bp):
AAAAAGCAACAAAAATATATTCACACAAAAAGCTC
Found at i:125993 original size:20 final size:18
Alignment explanation
Indices: 125969--126020 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
125959 AATAGGATTT
125969 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
125987 CTAATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
126007 T-TTAATTTAATATT
1 TATTAATTTAATATT
126021 TATCTTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 10 0.33
18 2 0.07
19 4 0.13
20 14 0.47
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.52
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:126124 original size:58 final size:60
Alignment explanation
Indices: 125998--126130 Score: 157
Period size: 58 Copynumber: 2.2 Consensus size: 60
125988 TAATTATCTT
* ** *
125998 AATATTAAATTTAATTTAATATTTATCTTGTAGATAAATATTTTATTAATTTAATAGATTT
1 AATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTAGATTAATTTAATA-ATTA
*
126059 AATATTAAATTTAATCTAATATTTATC-T-T-GATAATTATTAGATTAATTTAAT-ATTA
1 AATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTAGATTAATTTAATAATTA
*
126115 AAGTGATTAAGTTTAA
1 AA-T-ATTAAATTTAA
126131 CCGAACTCTC
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 30 0.47
59 1 0.02
60 1 0.02
61 26 0.41
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (60 bp):
AATATTAAATTTAATCTAATATTTATCTTGTAGATAAATATTAGATTAATTTAATAATTA
Found at i:130308 original size:35 final size:37
Alignment explanation
Indices: 130258--130343 Score: 149
Period size: 36 Copynumber: 2.4 Consensus size: 37
130248 TAGCTAAAGC
130258 TAGCGATTCCAAATCTTTT-TTTTTTTTTACTTTCTT
1 TAGCGATTCCAAATCTTTTATTTTTTTTTACTTTCTT
130294 TAG-GATTCCAAATCTTTTATTTTTTTTTACTTTCTT
1 TAGCGATTCCAAATCTTTTATTTTTTTTTACTTTCTT
*
130330 TAGCGGTTCCAAAT
1 TAGCGATTCCAAAT
130344 TTTCCATTTA
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
35 15 0.32
36 23 0.49
37 9 0.19
ACGTcount: A:0.20, C:0.16, G:0.08, T:0.56
Consensus pattern (37 bp):
TAGCGATTCCAAATCTTTTATTTTTTTTTACTTTCTT
Found at i:130573 original size:18 final size:19
Alignment explanation
Indices: 130531--130573 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
130521 TTTTAATAGA
*
130531 ATTTTTTAAATTAATTTTT
1 ATTTTTTAAATTAATTTGT
* *
130550 AGTTTTTATA-TAATTTGT
1 ATTTTTTAAATTAATTTGT
130568 ATTTTT
1 ATTTTT
130574 GGTATCCAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (19 bp):
ATTTTTTAAATTAATTTGT
Found at i:131550 original size:13 final size:13
Alignment explanation
Indices: 131532--131556 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
131522 AATATTGCAT
131532 GAAAAATTTTATA
1 GAAAAATTTTATA
131545 GAAAAATTTTAT
1 GAAAAATTTTAT
131557 CAAATATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.08, T:0.40
Consensus pattern (13 bp):
GAAAAATTTTATA
Found at i:132749 original size:33 final size:32
Alignment explanation
Indices: 132712--132791 Score: 81
Period size: 31 Copynumber: 2.5 Consensus size: 32
132702 TACCCAAATG
*
132712 GTACAATTTGAAAAGGTTATGTACACCTTGTGT
1 GTAC-ATTTGAAAAGGTTAGGTACACCTTGTGT
* * *
132745 GTACACTTG-AAAGGTTAGGTATACTTTGTGT
1 GTACATTTGAAAAGGTTAGGTACACCTTGTGT
* *
132776 ATACCATATGAAAAGG
1 GTA-CATTTGAAAAGG
132792 AAAGGTATAC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
31 21 0.55
32 8 0.21
33 9 0.24
ACGTcount: A:0.33, C:0.11, G:0.23, T:0.34
Consensus pattern (32 bp):
GTACATTTGAAAAGGTTAGGTACACCTTGTGT
Found at i:132824 original size:33 final size:33
Alignment explanation
Indices: 132742--132826 Score: 95
Period size: 33 Copynumber: 2.6 Consensus size: 33
132732 GTACACCTTG
** *
132742 TGTGTA-CACTT-GAAAGGTTAGGTATACTTTG
1 TGTGTACCACTTGGAAAGGAAAGGTATACTTTA
* *
132773 TGTATACCA-TATGAAAAGGAAAGGTATACTTTA
1 TGTGTACCACT-TGGAAAGGAAAGGTATACTTTA
132806 TGTGTACCACTTGGAAAGGAA
1 TGTGTACCACTTGGAAAGGAA
132827 TGTACACCTT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
31 6 0.14
32 3 0.07
33 33 0.77
34 1 0.02
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.32
Consensus pattern (33 bp):
TGTGTACCACTTGGAAAGGAAAGGTATACTTTA
Found at i:137716 original size:4 final size:4
Alignment explanation
Indices: 137707--137744 Score: 67
Period size: 4 Copynumber: 9.5 Consensus size: 4
137697 ACTAATTTAG
*
137707 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AGGT AT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT AT
137745 TCCCTGATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (4 bp):
ATGT
Found at i:142257 original size:23 final size:23
Alignment explanation
Indices: 142231--142274 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
142221 AAACGTGGAG
142231 CTTA-AAAATTAATATTTAATAAA
1 CTTAGAAAATT-ATATTTAATAAA
*
142254 CTTAGAAAATTTTATTTAATA
1 CTTAGAAAATTATATTTAATA
142275 TTTAATAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (23 bp):
CTTAGAAAATTATATTTAATAAA
Found at i:147207 original size:239 final size:240
Alignment explanation
Indices: 146644--147363 Score: 1424
Period size: 239 Copynumber: 3.0 Consensus size: 240
146634 GCCCAACAAA
146644 GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTCTCTTAA
1 GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTCTCTTAA
146709 GGGGTCATTGGATAAAGCGCAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
66 GGGGTCATTGGATAAAGCGCAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
146774 CGGGCTTTTTAACAGCGTAGATCTTGAGGTAACAGTCGCGAGACTCGACTCCGGTGGCTCCGCGA
131 CGGGCTTTTTAACAGCGTAGATCTTGAGGTAACAGTCGCGAGACTCGACTCCGGTGGCTCCGCGA
146839 TCGCCTCCGCCGAGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
196 TCGCCTCCGCCGAGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
146884 GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTCTCTTAA
1 GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTCTCTTAA
146949 GGGGTCATTGGATAAAGCGCAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
66 GGGGTCATTGGATAAAGCGCAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
147014 CGGGCTTTTTAACAGCGTAGATCTTGAGGTAA-AGTCGCGAGACTCGACTCCGGTGGCTCCGCGA
131 CGGGCTTTTTAACAGCGTAGATCTTGAGGTAACAGTCGCGAGACTCGACTCCGGTGGCTCCGCGA
147078 TCGCCTCCGCCGAGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
196 TCGCCTCCGCCGAGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
147123 GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTCTCTTAA
1 GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTCTCTTAA
147188 GGGGTCATTGGATAAAGCGCAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
66 GGGGTCATTGGATAAAGCGCAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
*
147253 CGGGCTTTTTAACAGCGTAGATCTTGAGGTAACAGTCGCGAGACTCGACTCCGGTGGCTCCGCCA
131 CGGGCTTTTTAACAGCGTAGATCTTGAGGTAACAGTCGCGAGACTCGACTCCGGTGGCTCCGCGA
147318 TCGCCTCCGCCGAGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
196 TCGCCTCCGCCGAGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
147363 G
1 G
147364 ATTTGGTTTA
Statistics
Matches: 478, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
239 239 0.50
240 239 0.50
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (240 bp):
GCTTGAACAAGAGCTTCCTTGTTAAAAATATTGCCTAGTTTATCAATGACGCAAGGTTCTCTTAA
GGGGTCATTGGATAAAGCGCAATTGAGTCACTTACCGAACCTTTGCTCATTCGGGTCGACTTTGT
CGGGCTTTTTAACAGCGTAGATCTTGAGGTAACAGTCGCGAGACTCGACTCCGGTGGCTCCGCGA
TCGCCTCCGCCGAGGAGCGGGAAAGGAGAAAGCGGGTGAATTAGG
Found at i:149858 original size:93 final size:93
Alignment explanation
Indices: 149671--149862 Score: 255
Period size: 93 Copynumber: 2.1 Consensus size: 93
149661 CATGAAACTG
* * * *
149671 AAAGAAAATTTCTTTAGTGGTTTGGCCGAGAAATATGCTGGTGTGTTATATGGTCTTGGTGTTGA
1 AAAGAAAACTTCTTTAGTGGTTCGACCGAGAAATATGCTGGTGTGTTATATGGTCTTGGTGTTCA
149736 GAATGGACAGAATACTCTCTAATAAATC
66 GAATGGACAGAATACTCTCTAATAAATC
* * *
149764 AAAGAAAACTTCTTTAGTTGG-TCGACTGAGAGATATGCTGGTTTGTTATATGGTCTTGGTCGTT
1 AAAGAAAACTTCTTTAG-TGGTTCGACCGAGAAATATGCTGGTGTGTTATATGGTCTTGGT-GTT
* *
149828 CAGAATTGACAGAATACT-TCTTAA-ATATC
64 CAGAATGGACAGAATACTCTC-TAATAAATC
149857 AAAGAA
1 AAAGAA
149863 TTATGAAATA
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
93 62 0.71
94 25 0.29
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.34
Consensus pattern (93 bp):
AAAGAAAACTTCTTTAGTGGTTCGACCGAGAAATATGCTGGTGTGTTATATGGTCTTGGTGTTCA
GAATGGACAGAATACTCTCTAATAAATC
Found at i:154812 original size:17 final size:16
Alignment explanation
Indices: 154787--154818 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
154777 GGTACAAGAT
154787 TTTAATTTTTTTTATC
1 TTTAATTTTTTTTATC
154803 TTTAACTTTTTTTTAT
1 TTTAA-TTTTTTTTAT
154819 ATAATTACAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.75
Consensus pattern (16 bp):
TTTAATTTTTTTTATC
Done.