Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167826.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_1, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 36299135
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Warning! 357000 characters in sequence are not A, C, G, or T
File 10 of 402
Found at i:1951708 original size:81 final size:81
Alignment explanation
Indices: 1951641--1951842 Score: 237
Period size: 81 Copynumber: 2.5 Consensus size: 81
1951631 CTGCAACCGC
*
1951641 CCAAAA-CAGAATC-AACACCAAAGCTACAAACACCAGAAGAACAAAATCCAAAGCCAATACCAT
1 CCAAAAGCAGAA-CAAACACCAAAACTACAAACACCAGAAGAACAAAATCCAAAGCCAATACCAT
*
1951704 CTCCAGAGCCAACACCA
65 CTCCAAAGCCAACACCA
* * ** * *
1951721 CCAAAAGCAGAACAAACACCAAAATTACAACCACCAGAAGAACAACTTCCAAAGCCAATATCGTC
1 CCAAAAGCAGAACAAACACCAAAACTACAAACACCAGAAGAACAAAATCCAAAGCCAATACCATC
* * *
1951786 TCCAGAGCCAAAATCA
66 TCCAAAGCCAACACCA
* * * * *
1951802 CCAAAACCAGAACCAACACCAAAATTACAACCACCAAAAGA
1 CCAAAAGCAGAACAAACACCAAAACTACAAACACCAGAAGA
1951843 CCAATCTCCT
Statistics
Matches: 108, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
80 7 0.06
81 101 0.94
ACGTcount: A:0.50, C:0.33, G:0.08, T:0.08
Consensus pattern (81 bp):
CCAAAAGCAGAACAAACACCAAAACTACAAACACCAGAAGAACAAAATCCAAAGCCAATACCATC
TCCAAAGCCAACACCA
Found at i:1951873 original size:81 final size:81
Alignment explanation
Indices: 1951641--1951876 Score: 230
Period size: 81 Copynumber: 2.9 Consensus size: 81
1951631 CTGCAACCGC
** * * ** * *
1951641 CCAAAA-CAGAATC-AACACCAAAGCTACAAACACCAGAAGAACAAAATCCAAAGCCAATACCAT
1 CCAAAACCAGAA-CAAACACCAAAATTACAACCACCAAAAGAACAACTTCCAAAGCCAAAACCAA
*
1951704 CTCCAGAGCCAACACCA
65 CTCCAGAGCCAAAACCA
* * * * **
1951721 CCAAAAGCAGAACAAACACCAAAATTACAACCACCAGAAGAACAACTTCCAAAGCCAATATCGTC
1 CCAAAACCAGAACAAACACCAAAATTACAACCACCAAAAGAACAACTTCCAAAGCCAAAACCAAC
*
1951786 TCCAGAGCCAAAATCA
66 TCCAGAGCCAAAACCA
* * *
1951802 CCAAAACCAGAACCAACACCAAAATTACAACCACCAAAAGACCAA-TCTCCTGAA-CCAAAACCA
1 CCAAAACCAGAACAAACACCAAAATTACAACCACCAAAAGAACAACT-TCC-AAAGCCAAAACCA
1951865 AC-CGCAGAGCCA
64 ACTC-CAGAGCCA
1951877 TTTCCAAAAC
Statistics
Matches: 133, Mismatches: 18, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
80 9 0.07
81 122 0.92
82 2 0.02
ACGTcount: A:0.49, C:0.34, G:0.09, T:0.08
Consensus pattern (81 bp):
CCAAAACCAGAACAAACACCAAAATTACAACCACCAAAAGAACAACTTCCAAAGCCAAAACCAAC
TCCAGAGCCAAAACCA
Found at i:1952219 original size:21 final size:21
Alignment explanation
Indices: 1952195--1952269 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
1952185 GGTAAGTTCT
* * *
1952195 CCACCACCTCCTGTTTACTCA
1 CCACCACCACCAGTTCACTCA
*
1952216 CCACCACCACCAGTTCATTCA
1 CCACCACCACCAGTTCACTCA
* * * *
1952237 CCACCTCCACCAGTGCATTCT
1 CCACCACCACCAGTTCACTCA
*
1952258 CCGCCACCACCA
1 CCACCACCACCA
1952270 CCAATGCATT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.23, C:0.51, G:0.07, T:0.20
Consensus pattern (21 bp):
CCACCACCACCAGTTCACTCA
Found at i:1952241 original size:24 final size:24
Alignment explanation
Indices: 1952214--1952293 Score: 94
Period size: 24 Copynumber: 3.5 Consensus size: 24
1952204 CCTGTTTACT
*
1952214 CACCACCACCACCAGTTCA-T-T-
1 CACCACCACCACCAGTGCATTCTC
*
1952235 CACCACCTCCACCAGTGCATTCTC
1 CACCACCACCACCAGTGCATTCTC
* *
1952259 CGCCACCACCACCAATGCATTCTC
1 CACCACCACCACCAGTGCATTCTC
*
1952283 CTCCACCACCA
1 CACCACCACCA
1952294 ATCCGTTCAT
Statistics
Matches: 50, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
21 17 0.34
22 1 0.02
23 1 0.02
24 31 0.62
ACGTcount: A:0.25, C:0.51, G:0.06, T:0.17
Consensus pattern (24 bp):
CACCACCACCACCAGTGCATTCTC
Found at i:1952288 original size:21 final size:21
Alignment explanation
Indices: 1952216--1952332 Score: 83
Period size: 21 Copynumber: 5.4 Consensus size: 21
1952206 TGTTTACTCA
* * *
1952216 CCACCACCACCAGTTCATTCA
1 CCACCACCACCAATGCATTCT
* *
1952237 CCACCTCCACCAGTGCATTCT
1 CCACCACCACCAATGCATTCT
1952258 CCGCCACCACCACCAATGCATTCT
1 ---CCACCACCACCAATGCATTCT
* * *
1952282 CCTCCACCACCAATCCGTTCAT
1 CCACCACCACCAATGCATTC-T
* * *
1952304 -CACCGCCACCAATCCACTCT
1 CCACCACCACCAATGCATTCT
*
1952324 ACACCACCA
1 CCACCACCA
1952333 TCGGTTTTCC
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.01
21 57 0.73
22 1 0.01
24 19 0.24
ACGTcount: A:0.26, C:0.50, G:0.06, T:0.18
Consensus pattern (21 bp):
CCACCACCACCAATGCATTCT
Found at i:1953872 original size:32 final size:32
Alignment explanation
Indices: 1953831--1953897 Score: 98
Period size: 32 Copynumber: 2.1 Consensus size: 32
1953821 CATTACTAAA
*
1953831 GTAGACATTGCTACTAGTAGGGTTCGTTAGAG
1 GTAGACATTGCTACTAGTAAGGTTCGTTAGAG
* **
1953863 GTAGACATTGTTGTTAGTAAGGTTCGTTAGAG
1 GTAGACATTGCTACTAGTAAGGTTCGTTAGAG
1953895 GTA
1 GTA
1953898 TTTGATTCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.25, C:0.09, G:0.31, T:0.34
Consensus pattern (32 bp):
GTAGACATTGCTACTAGTAAGGTTCGTTAGAG
Found at i:1955301 original size:14 final size:13
Alignment explanation
Indices: 1955282--1955312 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
1955272 TCACACCTTC
1955282 AAAAAATAAAAGTA
1 AAAAAATAAAA-TA
1955296 AAAAAATAAAATA
1 AAAAAATAAAATA
1955309 AAAA
1 AAAA
1955313 TTGCTAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.35
14 11 0.65
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (13 bp):
AAAAAATAAAATA
Found at i:1968014 original size:32 final size:32
Alignment explanation
Indices: 1967978--1968045 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
1967968 ATAAATTATT
* *
1967978 AAAATTTATTTATT-T-ATATCATATTTAATATA
1 AAAATTTATATATTATAAT-TCATA-TCAATATA
1968010 AAAA-TTATATATTATAATTCATATCAATATA
1 AAAATTTATATATTATAATTCATATCAATATA
1968041 AAAAT
1 AAAAT
1968046 ATAAAATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
31 19 0.61
32 10 0.32
33 2 0.06
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (32 bp):
AAAATTTATATATTATAATTCATATCAATATA
Found at i:1973608 original size:19 final size:20
Alignment explanation
Indices: 1973564--1973608 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
1973554 AATATTGTGA
*
1973564 ATATTT-ATTTATTAATATT
1 ATATTTAATTTATTAAGATT
*
1973583 -TAATTAATTTA-TAAGATT
1 ATATTTAATTTATTAAGATT
1973601 ATATTTAA
1 ATATTTAA
1973609 AAAGTGATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 4
0.75 0.11 0.14
Matches are distributed among these distances:
18 10 0.48
19 11 0.52
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATATTTAATTTATTAAGATT
Found at i:1977045 original size:22 final size:22
Alignment explanation
Indices: 1977017--1977068 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
1977007 TATATCCTTT
1977017 TTTTTTACATCTAAAACTCTTA
1 TTTTTTACATCTAAAACTCTTA
* * * *
1977039 TTTTTTATATTTAAAATTTTTA
1 TTTTTTACATCTAAAACTCTTA
1977061 TATTTTTA
1 T-TTTTTA
1977069 TTTTTGATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 19 0.76
23 6 0.24
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTACATCTAAAACTCTTA
Found at i:1977073 original size:15 final size:15
Alignment explanation
Indices: 1977036--1977079 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1977026 TCTAAAACTC
1977036 TTATTTTTTATATTT
1 TTATTTTTTATATTT
** *
1977051 AAAATTTTTATATTT
1 TTATTTTTTATATTT
*
1977066 TTATTTTTGATATT
1 TTATTTTTTATATT
1977080 AAAAATCATA
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TTATTTTTTATATTT
Found at i:1982466 original size:2 final size:2
Alignment explanation
Indices: 1982454--1982492 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
1982444 AATATACATG
*
1982454 TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1982493 TAGAAGTTTG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1982993 original size:2 final size:2
Alignment explanation
Indices: 1982988--1983015 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
1982978 ATAAAAAATC
1982988 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1983016 TACAACATAC
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1986974 original size:18 final size:19
Alignment explanation
Indices: 1986943--1986980 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1986933 TTTAAATTGA
1986943 TAAATAATAAATTAAAATT
1 TAAATAATAAATTAAAATT
*
1986962 TAAA-AATAGATTAAAATT
1 TAAATAATAAATTAAAATT
1986980 T
1 T
1986981 TCCCAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.37
Consensus pattern (19 bp):
TAAATAATAAATTAAAATT
Found at i:1987163 original size:15 final size:17
Alignment explanation
Indices: 1987129--1987189 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
1987119 ATTTGAATGT
1987129 TTTTATTAAATTAATTA
1 TTTTATTAAATTAATTA
*
1987146 TTTT-TTAAA-TATTTA
1 TTTTATTAAATTAATTA
* *
1987161 TTTATATTTAATTAAAT-
1 TTT-TATTAAATTAATTA
1987178 TTTTATTTAAAT
1 TTTTA-TTAAAT
1987190 AAAATATTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
15 8 0.23
16 8 0.23
17 16 0.46
18 3 0.09
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTATTAAATTAATTA
Found at i:1996442 original size:1 final size:1
Alignment explanation
Indices: 1996436--1996462 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
1996426 AAGTAACCTT
1996436 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAA
1996463 CAGAATAGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:1998241 original size:29 final size:29
Alignment explanation
Indices: 1998216--1998272 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
1998206 TTTATTTGGA
1998216 TATAAATAAAGTAT-AAAGACTTATTTAAC
1 TATAAATAAAGTATCAAA-ACTTATTTAAC
*
1998245 TATAATTAAAGTATCAAAACTTATTTAA
1 TATAAATAAAGTATCAAAACTTATTTAA
1998273 AAACAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 23 0.88
30 3 0.12
ACGTcount: A:0.51, C:0.07, G:0.05, T:0.37
Consensus pattern (29 bp):
TATAAATAAAGTATCAAAACTTATTTAAC
Found at i:1999969 original size:27 final size:27
Alignment explanation
Indices: 1999939--1999990 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
1999929 ACAAATATGA
*
1999939 AATTCAGTTTTAACTTATTTTTAATTT
1 AATTCAGTTTTAACTTAGTTTTAATTT
* * *
1999966 AATTTATTTTTAATTTAGTTTTAAT
1 AATTCAGTTTTAACTTAGTTTTAAT
1999991 ATATAGGAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.62
Consensus pattern (27 bp):
AATTCAGTTTTAACTTAGTTTTAATTT
Found at i:1999972 original size:16 final size:16
Alignment explanation
Indices: 1999947--1999982 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1999937 GAAATTCAGT
1999947 TTTAACTTATTTTTAA
1 TTTAACTTATTTTTAA
*
1999963 TTTAATTTATTTTTAA
1 TTTAACTTATTTTTAA
1999979 TTTA
1 TTTA
1999983 GTTTTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTAACTTATTTTTAA
Found at i:2000381 original size:16 final size:18
Alignment explanation
Indices: 2000359--2000399 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
2000349 ATTTAATTAC
*
2000359 AAAATATCTCAAA-TTTT
1 AAAATATCTAAAAGTTTT
2000376 -AAATAT-TAAAAGTTTT
1 AAAATATCTAAAAGTTTT
2000392 AAAATATC
1 AAAATATC
2000400 ATATATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 4 0.20
16 10 0.50
17 6 0.30
ACGTcount: A:0.51, C:0.07, G:0.02, T:0.39
Consensus pattern (18 bp):
AAAATATCTAAAAGTTTT
Found at i:2000982 original size:17 final size:17
Alignment explanation
Indices: 2000947--2000997 Score: 61
Period size: 16 Copynumber: 3.0 Consensus size: 17
2000937 TCAATTTTAT
*
2000947 AAATATTTAATA-ATTTA
1 AAAT-TTTAATATATATA
2000964 AAATTTTAATATATAT-
1 AAATTTTAATATATATA
2000980 AAATTTTAATATAATATA
1 AAATTTTAATAT-ATATA
2000998 TTTAACGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 19 0.63
17 11 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTTAATATATATA
Found at i:2001142 original size:18 final size:18
Alignment explanation
Indices: 2001119--2001155 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
2001109 TTATTTTTAC
2001119 CATTATTTTCAATTGGAT
1 CATTATTTTCAATTGGAT
2001137 CATTATTTTCAATTGGAT
1 CATTATTTTCAATTGGAT
2001155 C
1 C
2001156 GAAATTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.14, G:0.11, T:0.49
Consensus pattern (18 bp):
CATTATTTTCAATTGGAT
Found at i:2010276 original size:16 final size:16
Alignment explanation
Indices: 2010230--2010275 Score: 58
Period size: 15 Copynumber: 2.8 Consensus size: 16
2010220 TTGTTCAATG
2010230 TTATTATACATTTTGTT
1 TTATTATAC-TTTTGTT
*
2010247 TTATTTTTACTTTTG-T
1 TTA-TTATACTTTTGTT
2010263 TTATTATACTTTT
1 TTATTATACTTTT
2010276 TAGGAAAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 9 0.35
16 4 0.15
17 8 0.31
18 5 0.19
ACGTcount: A:0.20, C:0.07, G:0.04, T:0.70
Consensus pattern (16 bp):
TTATTATACTTTTGTT
Found at i:2014556 original size:19 final size:21
Alignment explanation
Indices: 2014511--2014553 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
2014501 AAAATTAATG
*
2014511 AAATATTAATTTTTTAATATA
1 AAATATTAATTTTTAAATATA
2014532 AAATATT-ATTTTTAAATATA
1 AAATATTAATTTTTAAATATA
2014552 AA
1 AA
2014554 TATAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AAATATTAATTTTTAAATATA
Found at i:2015763 original size:13 final size:11
Alignment explanation
Indices: 2015727--2015757 Score: 55
Period size: 10 Copynumber: 2.9 Consensus size: 11
2015717 TTTAAATAAA
2015727 AATATTATTTT
1 AATATTATTTT
2015738 AATA-TATTTT
1 AATATTATTTT
2015748 AATATTATTT
1 AATATTATTT
2015758 ATTAATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.53
11 9 0.47
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
AATATTATTTT
Found at i:2016421 original size:17 final size:16
Alignment explanation
Indices: 2016385--2016425 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
2016375 TTTATATAAA
2016385 AATTTATATCATAATT
1 AATTTATATCATAATT
2016401 -ATTTATAT-ATAAATAT
1 AATTTATATCAT-AAT-T
2016417 AATTTATAT
1 AATTTATAT
2016426 TATTTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 2 0.09
15 11 0.50
16 1 0.05
17 8 0.36
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTATATCATAATT
Found at i:2016457 original size:34 final size:35
Alignment explanation
Indices: 2016386--2016487 Score: 99
Period size: 36 Copynumber: 3.0 Consensus size: 35
2016376 TTATATAAAA
* *
2016386 ATTTATATC-ATAATTAT-TTATATA-TA-AATAT
1 ATTTATATCTATTATTATATTATATATTATATTAT
*
2016417 AATTTATAT-TATTTTTATA-TATTATATTATATTAT
1 -ATTTATATCTATTATTATATTA-TATATTATATTAT
*
2016452 ATTTATATCCTATTATTATATTATATTTTATATTAT
1 ATTTATAT-CTATTATTATATTATATATTATATTAT
2016488 CAAATTTAAT
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
32 16 0.28
33 4 0.07
34 10 0.18
35 4 0.07
36 21 0.37
37 2 0.04
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (35 bp):
ATTTATATCTATTATTATATTATATATTATATTAT
Found at i:2016487 original size:5 final size:5
Alignment explanation
Indices: 2016420--2016478 Score: 59
Period size: 5 Copynumber: 11.4 Consensus size: 5
2016410 TAAATATAAT
*
2016420 TTATA TTAT- TTTTA -TATA TTATA TTATA TTATA TTTATA TCCTATTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA -TTATA T--TA-TA
2016467 TTATA TTATA TT
1 TTATA TTATA TT
2016479 TTATATTATC
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
4 6 0.13
5 28 0.61
6 7 0.15
7 2 0.04
8 3 0.07
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:2025551 original size:12 final size:12
Alignment explanation
Indices: 2025534--2025558 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2025524 TCAATAACCT
2025534 TTCAAACATATA
1 TTCAAACATATA
2025546 TTCAAACATATA
1 TTCAAACATATA
2025558 T
1 T
2025559 AGCTCAATTT
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:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (12 bp):
TTCAAACATATA
Found at i:2042638 original size:148 final size:147
Alignment explanation
Indices: 2042371--2042661 Score: 539
Period size: 148 Copynumber: 2.0 Consensus size: 147
2042361 CCACGAAAAT
2042371 AACAATGTAACTGCAATCACTCAATAATATAATTTGAAAACAAAAAAATAATAATAAAATATGAA
1 AACAATGTAACTGCAATCACTCAATAATATAATTTGAAAACAAAAAAATAATAATAAAATATGAA
*
2042436 TCACAGAAAATCAGCCAATTAAAAAAAGCATCTAAATATTTATTAAATAAATATATTTATGAGAT
66 TCACAGAAAATCAGCCAATTAAAAAAAGCATCGAAATATTTATTAAATAAATATATTTATGAGAT
2042501 GTTGTTCAACCTCACTC
131 GTTGTTCAACCTCACTC
*
2042518 AACAATGTAACTGCAATCACTCAATAATATAATTTGAAAACAAAAAAAATAATAATAAAGTATGA
1 AACAATGTAACTGCAATCACTCAATAATATAATTTGAAAAC-AAAAAAATAATAATAAAATATGA
2042583 ATCACAGAAAATCAGCCAATTAAAAATAAGCATCGAAATATTTATT-AATAAATATATTTATGAG
65 ATCACAGAAAATCAGCCAATTAAAAA-AAGCATCGAAATATTTATTAAATAAATATATTTATGAG
2042647 ATGTTGTTCAACCTC
129 ATGTTGTTCAACCTC
2042662 GCCAGTGGAA
Statistics
Matches: 140, Mismatches: 2, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
147 41 0.29
148 81 0.58
149 18 0.13
ACGTcount: A:0.50, C:0.13, G:0.08, T:0.29
Consensus pattern (147 bp):
AACAATGTAACTGCAATCACTCAATAATATAATTTGAAAACAAAAAAATAATAATAAAATATGAA
TCACAGAAAATCAGCCAATTAAAAAAAGCATCGAAATATTTATTAAATAAATATATTTATGAGAT
GTTGTTCAACCTCACTC
Found at i:2043586 original size:32 final size:32
Alignment explanation
Indices: 2043516--2043586 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 32
2043506 TATATTTGAT
* *
2043516 AATTTAAAATATGATAATAATAATATAATATA
1 AATTTAAAATATGAAAAAAATAATATAATATA
* *
2043548 AA--TAAAATAT-AAAAAAATAATATGATTTAA
1 AATTTAAAATATGAAAAAAATAATATAATAT-A
2043578 AATTTAAAA
1 AATTTAAAA
2043587 AAATATTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
29 14 0.44
30 11 0.34
32 7 0.22
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (32 bp):
AATTTAAAATATGAAAAAAATAATATAATATA
Found at i:2043612 original size:11 final size:10
Alignment explanation
Indices: 2043576--2043610 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
2043566 AATATGATTT
2043576 AAAATTTAAA
1 AAAATTTAAA
2043586 AAAATATTAAA
1 AAAAT-TTAAA
*
2043597 TAAATTTAAA
1 AAAATTTAAA
2043607 AAAA
1 AAAA
2043611 ATAAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:2043618 original size:21 final size:21
Alignment explanation
Indices: 2043577--2043616 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
2043567 ATATGATTTA
*
2043577 AAATTTAAAAAAATATTAAAT
1 AAATTTAAAAAAATATAAAAT
2043598 AAATTTAAAAAAA-ATAAAA
1 AAATTTAAAAAAATATAAAA
2043617 ATTTTATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (21 bp):
AAATTTAAAAAAATATAAAAT
Found at i:2044421 original size:30 final size:31
Alignment explanation
Indices: 2044312--2044424 Score: 96
Period size: 30 Copynumber: 3.8 Consensus size: 31
2044302 TATATTTTTA
*
2044312 TTATA-CTCAAATAAGAT-CTTAATTTTTAAT
1 TTATATCTCAAATAA-ATCCTTAACTTTTAAT
* *
2044342 TTACA-C-CAAAATAAACCCTTAA-TCTTTAAT
1 TTATATCTC-AAATAAATCCTTAACT-TTTAAT
* * *
2044372 TGATAT-TCAAACAAGTCCTTAACTTTTAAT
1 TTATATCTCAAATAAATCCTTAACTTTTAAT
2044402 TTATATCT-AAATAAATCCTTAAC
1 TTATATCTCAAATAAATCCTTAAC
2044425 AAAAATTAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
29 3 0.05
30 60 0.91
31 3 0.05
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.40
Consensus pattern (31 bp):
TTATATCTCAAATAAATCCTTAACTTTTAAT
Found at i:2044733 original size:2 final size:2
Alignment explanation
Indices: 2044726--2044754 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
2044716 TTTCGAGACT
2044726 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2044755 TTTAGCCTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2046922 original size:30 final size:31
Alignment explanation
Indices: 2046868--2046937 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
2046858 TTTTTTTAAT
* *
2046868 TAAT-TTTTTAATTATATATATATTTATATAA
1 TAATATTTTTAA-TATATATATATTTAAAAAA
* *
2046899 TGATATTTTTAA-ATATTTATATTTAAAAAA
1 TAATATTTTTAATATATATATATTTAAAAAA
2046929 TAATATTTT
1 TAATATTTT
2046938 ATTAATTTCG
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 23 0.70
31 3 0.09
32 7 0.21
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.56
Consensus pattern (31 bp):
TAATATTTTTAATATATATATATTTAAAAAA
Found at i:2047837 original size:17 final size:17
Alignment explanation
Indices: 2047762--2047855 Score: 64
Period size: 17 Copynumber: 5.4 Consensus size: 17
2047752 AAGGACTCAT
* *
2047762 ATTCGCAAGATTTTAAT
1 ATTCACAAGATTTTAAG
* *
2047779 ATTGACAAGATTTTTTAG
1 ATTCACAAGA-TTTTAAG
** ***
2047797 ATTCGTAAGATACAAAG
1 ATTCACAAGATTTTAAG
2047814 CATTCACAAGATTTTAAG
1 -ATTCACAAGATTTTAAG
2047832 ATTCACAAGGA-TTTAAG
1 ATTCACAA-GATTTTAAG
*
2047849 GTTCACA
1 ATTCACA
2047856 TGGCTTTCTC
Statistics
Matches: 57, Mismatches: 17, Indels: 6
0.71 0.21 0.08
Matches are distributed among these distances:
17 31 0.54
18 26 0.46
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (17 bp):
ATTCACAAGATTTTAAG
Found at i:2047900 original size:18 final size:18
Alignment explanation
Indices: 2047879--2047950 Score: 64
Period size: 18 Copynumber: 4.2 Consensus size: 18
2047869 CATTTAAAGA
2047879 TTCATAAGAATTTTCAGT
1 TTCATAAGAATTTTCAGT
2047897 TTCATAAGAA--TTCAGAT
1 TTCATAAGAATTTTCAG-T
*
2047914 TTGC--AAG-ATTCTCAGT
1 TT-CATAAGAATTTTCAGT
* *
2047930 TTCGTAAGAATTTTCAAT
1 TTCATAAGAATTTTCAGT
2047948 TTC
1 TTC
2047951 GCATTTAAGA
Statistics
Matches: 44, Mismatches: 3, Indels: 14
0.72 0.05 0.23
Matches are distributed among these distances:
15 2 0.05
16 11 0.25
17 10 0.23
18 21 0.48
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (18 bp):
TTCATAAGAATTTTCAGT
Found at i:2047938 original size:17 final size:16
Alignment explanation
Indices: 2047891--2047941 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
2047881 CATAAGAATT
*
2047891 TTCAGTTTCATAAGAA
1 TTCAGTTTCGTAAGAA
* *
2047907 TTCAGATTT-GCAAGAT
1 TTCAG-TTTCGTAAGAA
2047923 TCTCAGTTTCGTAAGAA
1 T-TCAGTTTCGTAAGAA
2047940 TT
1 TT
2047942 TTCAATTTCG
Statistics
Matches: 27, Mismatches: 5, Indels: 6
0.71 0.13 0.16
Matches are distributed among these distances:
16 14 0.52
17 13 0.48
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.39
Consensus pattern (16 bp):
TTCAGTTTCGTAAGAA
Found at i:2048424 original size:21 final size:21
Alignment explanation
Indices: 2048376--2048445 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
2048366 TCAAAAGTTA
*
2048376 TCATTTAAAACTCTTTAATGATTC
1 TCATTTAAAACTC---AAAGATTC
* *
2048400 TCATTTAAAATTCAAAGATTT
1 TCATTTAAAACTCAAAGATTC
*
2048421 TCATTTAAAACTCAAAGACTC
1 TCATTTAAAACTCAAAGATTC
2048442 TCAT
1 TCAT
2048446 CATTTTTAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
21 28 0.70
24 12 0.30
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.40
Consensus pattern (21 bp):
TCATTTAAAACTCAAAGATTC
Found at i:2048425 original size:109 final size:108
Alignment explanation
Indices: 2048187--2048385 Score: 281
Period size: 109 Copynumber: 1.8 Consensus size: 108
2048177 GATTTCATCC
* * *
2048187 AAAATTTCAAAGCTTCTCATTCAAATTCAAATATTCACATTCGATAAATTGTAGAGTTTCATATC
1 AAAATTTCAAAGCTTCTCATTCAAATTCAAAGATTCACATTCGATAAATTGTAGAATTTCACATC
* * *
2048252 TAAATTCAAATGTTCTAATTCAAAAAATTTAAGGGTCAATCTCT
66 TAAATTCAAAAGTTATAATTCAAAAAATTTAAGAGTC-ATCTCT
* * * *
2048296 AAAATTTTAAAGCTTCTCATTCAAATTTAAAGATTCATATTCGATAAATTTTAGAATTTCACATC
1 AAAATTTCAAAGCTTCTCATTCAAATTCAAAGATTCACATTCGATAAATTGTAGAATTTCACATC
* *
2048361 TAAATTCAAAAGTTATCATTTAAAA
66 TAAATTCAAAAGTTATAATTCAAAA
2048386 CTCTTTAATG
Statistics
Matches: 79, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
109 79 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (108 bp):
AAAATTTCAAAGCTTCTCATTCAAATTCAAAGATTCACATTCGATAAATTGTAGAATTTCACATC
TAAATTCAAAAGTTATAATTCAAAAAATTTAAGAGTCATCTCT
Found at i:2049595 original size:15 final size:15
Alignment explanation
Indices: 2049577--2049608 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2049567 TCTCTCATTT
*
2049577 TTTTCTTTTTTTCAC
1 TTTTCATTTTTTCAC
2049592 TTTTCATTTTTTCAC
1 TTTTCATTTTTTCAC
2049607 TT
1 TT
2049609 ATTTATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTTCATTTTTTCAC
Found at i:2054904 original size:21 final size:20
Alignment explanation
Indices: 2054864--2054905 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
2054854 TAATTTTTAT
**
2054864 TAAAAAAAATAAATAATAAA
1 TAAAAAAAATAAATTTTAAA
2054884 TAAAATAAAATAAATTTTAAA
1 TAAAA-AAAATAAATTTTAAA
2054905 T
1 T
2054906 TTCAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
TAAAAAAAATAAATTTTAAA
Found at i:2057983 original size:20 final size:22
Alignment explanation
Indices: 2057955--2058013 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 22
2057945 TAAACATGTA
*
2057955 ATAAACATGC-AAT-TTAATAT
1 ATAAACATGCAAATAATAATAT
*
2057975 ATAATCATGCAAATAATAATAT
1 ATAAACATGCAAATAATAATAT
2057997 ATAAACCATGCAAATAA
1 ATAAA-CATGCAAATAA
2058014 ACATGTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 9 0.27
21 3 0.09
22 10 0.30
23 11 0.33
ACGTcount: A:0.54, C:0.12, G:0.05, T:0.29
Consensus pattern (22 bp):
ATAAACATGCAAATAATAATAT
Found at i:2058014 original size:55 final size:54
Alignment explanation
Indices: 2057939--2058122 Score: 280
Period size: 55 Copynumber: 3.4 Consensus size: 54
2057929 TATGCAATTA
* *
2057939 AATATATAAACATG-TAATAAACATGCAATTTAATATATAATCATGCAAATAAT
1 AATATATAAACATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAAT
* *
2057992 AATATATAAACCATGCAAATAAACATGTAATTAAATATATAATCATACAAATAAT
1 AATATATAAA-CATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAAT
*
2058047 AATATATAAATCATACAAATAAACATGCAATTAAATATATAATCATGCAAATAAT
1 AATATATAAA-CATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAAT
*
2058102 AATATATAAAATATGCAAATA
1 AATATAT-AAACATGCAAATA
2058123 TAATATTAGT
Statistics
Matches: 118, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
53 10 0.08
54 4 0.03
55 101 0.86
56 3 0.03
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.30
Consensus pattern (54 bp):
AATATATAAACATGCAAATAAACATGCAATTAAATATATAATCATGCAAATAAT
Found at i:2058036 original size:141 final size:144
Alignment explanation
Indices: 2057815--2058093 Score: 324
Period size: 141 Copynumber: 2.0 Consensus size: 144
2057805 TAACATATAT
* * *
2057815 CATGCAATAAATATAAAATCATGCAATAATAATAATAAATAAATAATCATGCAAATAAATATATT
1 CATGCAATAAATATAAAATCATGCAATAATAATAAT-AATAAATAACCATGCAAATAAACATAGT
* * *
2057880 AATAATCATACAATCACACCAATAAATAA-ATCA-ATAATCAT-CAAATAGATATGCAATTAAAT
65 AATAATCATACAATCACACAAAT-AATAATAT-ATA-AATCATACAAATAAACATGCAATTAAAT
2057942 ATATAAACATGTAATAAA
127 ATATAAACATGTAATAAA
* * *
2057960 CATGCAATTTAATATATAATCATGC-A-AATAATAAT-ATATA-AACCATGCAAATAAACAT-GT
1 CATGCAA-TAAATATAAAATCATGCAATAATAATAATAATAAATAACCATGCAAATAAACATAGT
* *
2058020 AATTAAAT-ATATAATCATACAAATAATAATATATAAATCATACAAATAAACATGCAATTAAATA
65 AA-T-AATCATACAATCACACAAATAATAATATATAAATCATACAAATAAACATGCAATTAAATA
*
2058084 TATAATCATG
128 TATAAACATG
2058094 CAAATAATAA
Statistics
Matches: 116, Mismatches: 12, Indels: 16
0.81 0.08 0.11
Matches are distributed among these distances:
140 15 0.13
141 62 0.53
142 7 0.06
144 9 0.08
145 8 0.07
146 15 0.13
ACGTcount: A:0.55, C:0.11, G:0.04, T:0.29
Consensus pattern (144 bp):
CATGCAATAAATATAAAATCATGCAATAATAATAATAATAAATAACCATGCAAATAAACATAGTA
ATAATCATACAATCACACAAATAATAATATATAAATCATACAAATAAACATGCAATTAAATATAT
AAACATGTAATAAA
Found at i:2058051 original size:20 final size:23
Alignment explanation
Indices: 2058025--2058068 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
2058015 CATGTAATTA
2058025 AATATAT-AATCATACAAATAAT
1 AATATATAAATCATACAAATAAT
2058047 AATATATAAATCATACAAATAA
1 AATATATAAATCATACAAATAA
2058069 ACATGCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.61, C:0.09, G:0.00, T:0.30
Consensus pattern (23 bp):
AATATATAAATCATACAAATAAT
Found at i:2058093 original size:20 final size:22
Alignment explanation
Indices: 2058065--2058128 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
2058055 AATCATACAA
*
2058065 ATAAACATGC-AATTA-AATAT
1 ATAAACATGCAAATAATAATAT
*
2058085 ATAATCATGCAAATAATAATAT
1 ATAAACATGCAAATAATAATAT
*
2058107 ATAAAATATGCAAAT-ATAATAT
1 AT-AAACATGCAAATAATAATAT
2058129 TAGTTATAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
20 9 0.24
21 4 0.11
22 14 0.38
23 10 0.27
ACGTcount: A:0.56, C:0.08, G:0.05, T:0.31
Consensus pattern (22 bp):
ATAAACATGCAAATAATAATAT
Found at i:2058176 original size:20 final size:18
Alignment explanation
Indices: 2058133--2058180 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 18
2058123 TAATATTAGT
2058133 TATAAAAATTCATGTAAAA
1 TATAAAAA-TCATGTAAAA
*
2058152 AATAAAAATCATGTAATAA
1 TATAAAAATCATGTAA-AA
2058171 CTATAAAAAT
1 -TATAAAAAT
2058181 AAGAGTAAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 8 0.32
19 9 0.36
20 8 0.32
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (18 bp):
TATAAAAATCATGTAAAA
Found at i:2058760 original size:15 final size:15
Alignment explanation
Indices: 2058742--2058785 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
2058732 GACTCTTTTG
2058742 ACTAAAAAAAATTAA
1 ACTAAAAAAAATTAA
2058757 ACT-AAAAAAATTAA
1 ACTAAAAAAAATTAA
*
2058771 AATACAAATAAAATT
1 ACTA-AAA-AAAATT
2058786 TAAGGCTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 13 0.52
15 3 0.12
16 3 0.12
17 6 0.24
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (15 bp):
ACTAAAAAAAATTAA
Found at i:2060346 original size:2 final size:2
Alignment explanation
Indices: 2060339--2060366 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2060329 GCTACTTTTA
2060339 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2060367 TAAATAAACT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2062330 original size:23 final size:23
Alignment explanation
Indices: 2062286--2062328 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
2062276 CCTAAAACAC
2062286 CTTTCTGCTCCTCCTTTTCTCTT
1 CTTTCTGCTCCTCCTTTTCTCTT
*
2062309 CTTTCT-CT-CTCCTTCTCTCT
1 CTTTCTGCTCCTCCTTTTCTCT
2062329 CTCTAGACAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 2 0.11
23 6 0.32
ACGTcount: A:0.00, C:0.42, G:0.02, T:0.56
Consensus pattern (23 bp):
CTTTCTGCTCCTCCTTTTCTCTT
Found at i:2063042 original size:18 final size:18
Alignment explanation
Indices: 2063018--2063063 Score: 74
Period size: 18 Copynumber: 2.5 Consensus size: 18
2063008 GTCTACACAA
2063018 ACATATGAGCAGTGTATG
1 ACATATGAGCAGTGTATG
*
2063036 CCATATGAGCAGTGTATG
1 ACATATGAGCAGTGTATG
2063054 ACATACTGAG
1 ACATA-TGAG
2063064 AGGAAGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
18 21 0.84
19 4 0.16
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (18 bp):
ACATATGAGCAGTGTATG
Found at i:2064934 original size:9 final size:9
Alignment explanation
Indices: 2064910--2064939 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
2064900 CGAATTTTTA
2064910 TATTTTAAT
1 TATTTTAAT
2064919 GTATTTTAAT
1 -TATTTTAAT
2064929 TATTTTAAT
1 TATTTTAAT
2064938 TA
1 TA
2064940 ATAAAATATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.63
Consensus pattern (9 bp):
TATTTTAAT
Found at i:2065141 original size:14 final size:14
Alignment explanation
Indices: 2065122--2065148 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
2065112 TGAATTCTAG
2065122 TTAAATTTTGAATA
1 TTAAATTTTGAATA
2065136 TTAAATTTTGAAT
1 TTAAATTTTGAAT
2065149 CAAGCTCGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (14 bp):
TTAAATTTTGAATA
Found at i:2066424 original size:30 final size:29
Alignment explanation
Indices: 2066382--2066464 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 29
2066372 TACATTTTTA
*
2066382 TTGTAACCAAAT-AACATCTTAACTTTTAAT
1 TTGT-ACCAAATAAAC-TCTTAACCTTTAAT
*
2066412 TTGTACCAAAATAAACTTTTAACCTTTAAT
1 TTGTACC-AAATAAACTCTTAACCTTTAAT
* * *
2066442 TAGTATCTAAATAAATTCTTAAC
1 TTGTA-CCAAATAAACTCTTAAC
2066465 AAAATTCAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
29 3 0.07
30 37 0.84
31 4 0.09
ACGTcount: A:0.41, C:0.16, G:0.04, T:0.40
Consensus pattern (29 bp):
TTGTACCAAATAAACTCTTAACCTTTAAT
Found at i:2067516 original size:15 final size:16
Alignment explanation
Indices: 2067491--2067520 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2067481 GATGTTCACC
2067491 CCACAAGCCCCGGCGG
1 CCACAAGCCCCGGCGG
2067507 CCAC-AGCCCCGGCG
1 CCACAAGCCCCGGCG
2067521 TCGGTCACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.17, C:0.53, G:0.30, T:0.00
Consensus pattern (16 bp):
CCACAAGCCCCGGCGG
Found at i:2081805 original size:48 final size:48
Alignment explanation
Indices: 2081749--2081852 Score: 181
Period size: 48 Copynumber: 2.2 Consensus size: 48
2081739 AATTCTAGCT
*
2081749 TTTGCCTTGAATCTTTTGGTTAGTGGTTTCTAGCATTTGCCACAAGCA
1 TTTGCCTTGAATCTTTTGGTTAGTGGTTACTAGCATTTGCCACAAGCA
*
2081797 TTTGCCTTGAATCTTTTGGTTAGTGGTTACTAGCATTTGCCACTAGCA
1 TTTGCCTTGAATCTTTTGGTTAGTGGTTACTAGCATTTGCCACAAGCA
*
2081845 TTTCCCTT
1 TTTGCCTT
2081853 TAGCTTTTCC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 53 1.00
ACGTcount: A:0.17, C:0.20, G:0.19, T:0.43
Consensus pattern (48 bp):
TTTGCCTTGAATCTTTTGGTTAGTGGTTACTAGCATTTGCCACAAGCA
Found at i:2081921 original size:61 final size:61
Alignment explanation
Indices: 2081778--2081921 Score: 162
Period size: 61 Copynumber: 2.4 Consensus size: 61
2081768 TTAGTGGTTT
* ** * * * * * *
2081778 CTAGCATTTGCCACAAGCATTTGCCTTGAATCTTTTGGTTAGTGGTTACTAGCATTTGCCA
1 CTAGCATTTCCCTTAAGCTTTTCCCTCGAATCTATTGGGTAGTGGTTACTAGCACTTGCCA
* * *
2081839 CTAGCATTTCCCTTTAGCTTTTCCCTCGAATCTATTGGGTAGTGGTTTCTAGCACTTGCCT
1 CTAGCATTTCCCTTAAGCTTTTCCCTCGAATCTATTGGGTAGTGGTTACTAGCACTTGCCA
* *
2081900 CTGGCATTTCCCTTAATCTTTT
1 CTAGCATTTCCCTTAAGCTTTT
2081922 GGTTAGTGGT
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
61 68 1.00
ACGTcount: A:0.17, C:0.24, G:0.17, T:0.41
Consensus pattern (61 bp):
CTAGCATTTCCCTTAAGCTTTTCCCTCGAATCTATTGGGTAGTGGTTACTAGCACTTGCCA
Found at i:2081932 original size:47 final size:47
Alignment explanation
Indices: 2081839--2081995 Score: 170
Period size: 47 Copynumber: 3.3 Consensus size: 47
2081829 GCATTTGCCA
* * * * * * *
2081839 CTAGCATTTCCCTTTAGCTTTTCCCTCGAATCTATTGGGTAGTGGTTT
1 CTAGCACTTGCCTCTAGCATTTCCCT-TAATCTTTTGGTTAGTGGTTT
*
2081887 CTAGCACTTGCCTCTGGCATTTCCCTTAATCTTTTGGTTAGTGGTTT
1 CTAGCACTTGCCTCTAGCATTTCCCTTAATCTTTTGGTTAGTGGTTT
* * * *
2081934 CTAGCATTTGCCACTAGCATTTCACTTGAATCTTTTTGGTTAGGGGTTT
1 CTAGCACTTGCCTCTAGCATTTCCCTT-AATC-TTTTGGTTAGTGGTTT
*
2081983 CTAGCAGTTGCCT
1 CTAGCACTTGCCT
2081996 TGGTTTGTGG
Statistics
Matches: 92, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
47 41 0.45
48 25 0.27
49 26 0.28
ACGTcount: A:0.15, C:0.22, G:0.20, T:0.43
Consensus pattern (47 bp):
CTAGCACTTGCCTCTAGCATTTCCCTTAATCTTTTGGTTAGTGGTTT
Found at i:2085795 original size:3 final size:3
Alignment explanation
Indices: 2085745--2085776 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2085735 TATATATATA
2085745 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2085777 AATAATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:2085805 original size:23 final size:23
Alignment explanation
Indices: 2085764--2085828 Score: 64
Period size: 23 Copynumber: 2.8 Consensus size: 23
2085754 TATTATTATT
*
2085764 ATTATTATTATTA-AATAA-TATAA
1 ATTATTATT-TTATATTAATTA-AA
2085787 ATTATTATTTTATATTAATTAAA
1 ATTATTATTTTATATTAATTAAA
2085810 ATTAATATATTTT-TATTAA
1 ATT-AT-TATTTTATATTAA
2085829 AAATATATAA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
22 3 0.08
23 18 0.49
24 10 0.27
25 6 0.16
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
ATTATTATTTTATATTAATTAAA
Found at i:2086523 original size:2 final size:2
Alignment explanation
Indices: 2086516--2086546 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2086506 CAAGGAGACA
2086516 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2086547 AAGTATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2088202 original size:126 final size:126
Alignment explanation
Indices: 2087950--2088195 Score: 386
Period size: 126 Copynumber: 2.0 Consensus size: 126
2087940 CTATAAGAGT
* *
2087950 CTATCCAATCCTGTGTTAGTTAAAAACAGCTTGCTGCTGATTTGGAAACAGCATTACTTAGAGCA
1 CTATCCAATCCTGTGATAGTTAAAAACAGCTTGCTGCTGATTTGGAAACAGCATCACTTAGAGCA
* * * *
2088015 TATCAAGATTCCATTTCTATGAAATTATAAAAGTATGGTCTCTAGATTTAGAGCCAATCAG
66 TATCAAGATTCCATTTCTATCAAATCATAAAAGTAAGATCTCTAGATTTAGAGCCAATCAG
* *
2088076 CTATGCAATCCTGTGATAGTTAAAAACAGCTTGCTGCTGATTTGG-AACTGCATCACTTAGAGCA
1 CTATCCAATCCTGTGATAGTTAAAAACAGCTTGCTGCTGATTTGGAAACAGCATCACTTAGAGCA
* *
2088140 TATCAAGATTCCATTTCTATCAAATCGTAAAAGTAAAGATCTTTAGATTTAGAGCC
66 TATCAAGATTCCATTTCTATCAAATCATAAAAGT-AAGATCTCTAGATTTAGAGCC
2088196 GGTCAGCAAG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
125 48 0.44
126 61 0.56
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (126 bp):
CTATCCAATCCTGTGATAGTTAAAAACAGCTTGCTGCTGATTTGGAAACAGCATCACTTAGAGCA
TATCAAGATTCCATTTCTATCAAATCATAAAAGTAAGATCTCTAGATTTAGAGCCAATCAG
Found at i:2091397 original size:20 final size:19
Alignment explanation
Indices: 2091346--2091397 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
2091336 ATTCAAAATA
*
2091346 AAAAAATTAAATAACACGC
1 AAAAAATTAAATAACACAC
* *
2091365 AAGAAAATATAAAGTAACATAT
1 AA-AAAAT-TAAA-TAACACAC
2091387 AAAAAATTAAA
1 AAAAAATTAAA
2091398 ACATAAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 2 0.07
20 9 0.33
21 9 0.33
22 7 0.26
ACGTcount: A:0.67, C:0.08, G:0.06, T:0.19
Consensus pattern (19 bp):
AAAAAATTAAATAACACAC
Found at i:2091554 original size:20 final size:20
Alignment explanation
Indices: 2091480--2091633 Score: 111
Period size: 20 Copynumber: 7.6 Consensus size: 20
2091470 TTAAAACTAT
* * *
2091480 AAAAAATAGTAATACATTAG
1 AAAAAATAGTAACAAATAAG
* *
2091500 AAAAAAGTATTAATAAATAA-
1 AAAAAA-TAGTAACAAATAAG
*
2091520 ATAAATAAGTAGTAACAAATAAC
1 A-AAA-AA-TAGTAACAAATAAG
2091543 AAAAAATAGTAA-AATATAA-
1 AAAAAATAGTAACAA-ATAAG
*
2091562 AAAAATATAATAACAAATAAG
1 AAAAA-ATAGTAACAAATAAG
* *
2091583 AAAAAGTAGTAACAAATAAT
1 AAAAAATAGTAACAAATAAG
* *
2091603 AAAAATTA-TAAGC-CATAAG
1 AAAAAATAGTAA-CAAATAAG
2091622 AAAAAATAGTAA
1 AAAAAATAGTAA
2091634 TATCTCATAA
Statistics
Matches: 111, Mismatches: 13, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
19 21 0.19
20 50 0.45
21 22 0.20
22 17 0.15
23 1 0.01
ACGTcount: A:0.66, C:0.05, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAAAATAGTAACAAATAAG
Found at i:2091576 original size:40 final size:39
Alignment explanation
Indices: 2091498--2091633 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 39
2091488 GTAATACATT
* * *
2091498 AGAAAAAAGTATTAATAAATAAATAAATAAGTAGTAACAAATA
1 AGAAAAAA-TAGTAACAAAT-AATAAA-AATTA-TAACAAATA
*
2091541 ACAAAAAATAGTAA-AATATAA-AAAAATATAATAACAAATA
1 AGAAAAAATAGTAACAA-ATAATAAAAAT-T-ATAACAAATA
* *
2091581 AGAAAAAGTAGTAACAAATAATAAAAATTATAAGC-CATA
1 AGAAAAAATAGTAACAAATAATAAAAATTATAA-CAAATA
2091620 AGAAAAAATAGTAA
1 AGAAAAAATAGTAA
2091634 TATCTCATAA
Statistics
Matches: 80, Mismatches: 7, Indels: 16
0.78 0.07 0.16
Matches are distributed among these distances:
39 22 0.28
40 31 0.39
41 13 0.16
42 7 0.09
43 7 0.09
ACGTcount: A:0.67, C:0.04, G:0.08, T:0.21
Consensus pattern (39 bp):
AGAAAAAATAGTAACAAATAATAAAAATTATAACAAATA
Found at i:2091613 original size:9 final size:9
Alignment explanation
Indices: 2091544--2091613 Score: 50
Period size: 10 Copynumber: 7.2 Consensus size: 9
2091534 ACAAATAACA
*
2091544 AAAAATAGT
1 AAAAATAAT
*
2091553 AAAATATAAA
1 AAAA-ATAAT
2091563 AAAATATAAT
1 AAAA-ATAAT
*
2091573 AACAAATAAG
1 AA-AAATAAT
*
2091583 AAAAAGTAGT
1 AAAAA-TAAT
2091593 AACAAATAAT
1 AA-AAATAAT
*
2091603 AAAAATTAT
1 AAAAATAAT
2091612 AA
1 AA
2091614 GCCATAAGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
9 15 0.31
10 29 0.59
11 5 0.10
ACGTcount: A:0.70, C:0.03, G:0.06, T:0.21
Consensus pattern (9 bp):
AAAAATAAT
Found at i:2093656 original size:6 final size:6
Alignment explanation
Indices: 2093631--2093668 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
2093621 TATTGTTAAC
*
2093631 AATAAA GAA-AAA AATGAA AATAAA AATAAA AATAAA AA
1 AATAAA -AATAAA AATAAA AATAAA AATAAA AATAAA AA
2093669 AGACTCTGAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
5 2 0.07
6 24 0.86
7 2 0.07
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (6 bp):
AATAAA
Found at i:2093803 original size:2 final size:2
Alignment explanation
Indices: 2093796--2093830 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
2093786 GTTTATTTTA
*
2093796 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2093831 GCAAAATTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2093957 original size:9 final size:9
Alignment explanation
Indices: 2093940--2093969 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2093930 GTGTTAAAGC
2093940 AAAAATAAT
1 AAAAATAAT
*
2093949 AATAATAAT
1 AAAAATAAT
2093958 AAAAATAAT
1 AAAAATAAT
2093967 AAA
1 AAA
2093970 CTGATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAAATAAT
Found at i:2094246 original size:44 final size:44
Alignment explanation
Indices: 2094184--2094284 Score: 157
Period size: 44 Copynumber: 2.3 Consensus size: 44
2094174 TTTTATATAG
* *
2094184 TAGTTTCATGCTTGCCTTTTCCCAAGAGCCAAGAAATTTTGTTA
1 TAGTTTCATGCTTACCTTTCCCCAAGAGCCAAGAAATTTTGTTA
* * *
2094228 TAGTTTCATGGTTACCTTTCCCCAGGGGCCAAGAAATTTTGTTA
1 TAGTTTCATGCTTACCTTTCCCCAAGAGCCAAGAAATTTTGTTA
2094272 TAGTTTCATGCTT
1 TAGTTTCATGCTT
2094285 GTCTTTAGTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.40
Consensus pattern (44 bp):
TAGTTTCATGCTTACCTTTCCCCAAGAGCCAAGAAATTTTGTTA
Found at i:2094763 original size:20 final size:20
Alignment explanation
Indices: 2094738--2094778 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2094728 ATACTATCAA
*
2094738 AGTTTTGAATTAGTTTGGAT
1 AGTTTTAAATTAGTTTGGAT
2094758 AGTTTTAAATTAGTTTGGAT
1 AGTTTTAAATTAGTTTGGAT
2094778 A
1 A
2094779 ACTAAAGTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (20 bp):
AGTTTTAAATTAGTTTGGAT
Found at i:2096043 original size:18 final size:18
Alignment explanation
Indices: 2096017--2096083 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
2096007 AGTTTATTTT
*
2096017 ATATCATATAATTTTAAA
1 ATATTATATAATTTTAAA
**
2096035 ATATTATATAAGTTATATTCA
1 ATATTATATAA-TT-T-TAAA
2096056 AT-TTATATAATTTTAAA
1 ATATTATATAATTTTAAA
2096073 ATATTATATAA
1 ATATTATATAA
2096084 ATTATATCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
17 4 0.10
18 19 0.47
19 4 0.10
20 9 0.22
21 4 0.10
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (18 bp):
ATATTATATAATTTTAAA
Found at i:2096064 original size:38 final size:37
Alignment explanation
Indices: 2096022--2096096 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 37
2096012 ATTTTATATC
*
2096022 ATATAATTTTAAAATATTATATAAGTTATATTCAATTT
1 ATATAATTTTAAAATATTATATAAATTATA-TCAATTT
2096060 ATATAATTTTAAAATATTATATAAATTATATCAATTT
1 ATATAATTTTAAAATATTATATAAATTATATCAATTT
2096097 GTTGTATAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
37 7 0.19
38 29 0.81
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (37 bp):
ATATAATTTTAAAATATTATATAAATTATATCAATTT
Found at i:2096067 original size:9 final size:9
Alignment explanation
Indices: 2096022--2096096 Score: 55
Period size: 9 Copynumber: 8.0 Consensus size: 9
2096012 ATTTTATATC
2096022 ATATAATTT
1 ATATAATTT
*
2096031 -TAAAATATT
1 ATATAAT-TT
*
2096040 ATATAAGTT
1 ATATAATTT
2096049 ATATTCAATTT
1 ATA-T-AATTT
2096060 ATATAATTT
1 ATATAATTT
*
2096069 -TAAAATATT
1 ATATAAT-TT
*
2096078 ATATAAATT
1 ATATAATTT
2096087 ATATCAATTT
1 ATAT-AATTT
2096097 GTTGTATAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 13
0.71 0.11 0.18
Matches are distributed among these distances:
8 10 0.20
9 20 0.39
10 14 0.27
11 7 0.14
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (9 bp):
ATATAATTT
Found at i:2098449 original size:34 final size:35
Alignment explanation
Indices: 2098411--2098477 Score: 84
Period size: 34 Copynumber: 1.9 Consensus size: 35
2098401 ATACACTATG
* *
2098411 TATATTATTATATAAAA-ATTAT-TTAATTTTATAT
1 TATATAATT-TATAAAATATTATATAAATTTTATAT
*
2098445 TATATAATTTTTAAAATATTATATAAATTTTAT
1 TATATAATTTATAAAATATTATATAAATTTTAT
2098478 TCAATTTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 6 0.21
34 13 0.46
35 9 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (35 bp):
TATATAATTTATAAAATATTATATAAATTTTATAT
Found at i:2114527 original size:27 final size:27
Alignment explanation
Indices: 2114489--2114544 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
2114479 AAAAAACCCA
2114489 TGATTGGAATTCTAAACAATCATGATG
1 TGATTGGAATTCTAAACAATCATGATG
2114516 TGATTGGAATTCTAAACAATCATGATG
1 TGATTGGAATTCTAAACAATCATGATG
2114543 TG
1 TG
2114545 CTACAGCCAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.34
Consensus pattern (27 bp):
TGATTGGAATTCTAAACAATCATGATG
Found at i:2115664 original size:3 final size:3
Alignment explanation
Indices: 2115656--2115692 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
2115646 CCACAAGCCC
*
2115656 TCT TCT TCT TCT TCT TCT TCT TCA TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
2115693 TAATACTCCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.03, C:0.32, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:2122439 original size:3 final size:3
Alignment explanation
Indices: 2122431--2122455 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
2122421 ATCAGTTCTT
2122431 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
2122456 ATGATAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:2130871 original size:379 final size:372
Alignment explanation
Indices: 2130075--2131030 Score: 1014
Period size: 379 Copynumber: 2.5 Consensus size: 372
2130065 AATAAAGAAT
* * *
2130075 TAAAGATGTGTTTGGTATATAAGATTATGATAAAATATGATAAGATAATATTATAAATAGTATTA
1 TAAAGATATGTTTGGTATATAAGATTATGATAGAATAAGATAAGATAATATTATAAATAG-ATTA
* * * * * * * *
2130140 GATTAAATAGTATTATTTTATCTTGTATTTGATGTTTGTAAGGATTAAGATAAAATAATTTATTT
65 AATTAAATAATGTTATCTTATCTTATATTTGATGTGTGTAAAGATT-AGATAGAATAATTTATTT
* * *
2130205 ATTGGTTAAAATTATCCTTTCTCAAAATTTATAAAATTTAAATTATTGATATAATTTTTAAGAGT
129 ATT-GTTAAAATTATCTTTTCTCAAAGTTTATAAAATTTAAATTATTGATGTAA-TTTTAAGAGT
* * * *
2130270 ATAATAAGATATGTAAATTCAATCTCATGGATTAAAAATAAATTTTTTACTTTAAGAGGACTTAT
192 ATAATAAGACATGTAAATTCAATATCATGGATTAAAAATAAATTTTTTACTTTAAGAGGAATCAT
* * * * **
2130335 ACCAAGAGGATAATTAATCCTTTTTATAATTTTATCCCTTTTTTTTATACAAACCAAATATAATA
257 ACCAAGA-GATAATTAATCATTTTTATAATCTAATCCATTTTTTAGATACAAACCAAATATAATA
* * * * *
2130400 TAAGATAATTATTATTCTATTTTATCCATCATTCTATGCACCAAATATAACC
321 TAAGATAATTATCACTCTATCTTATCCATCATTCTATACACCAAATATAACA
* ** *
2130452 TAAAGATATGTTTAGTGCATAAGATTTTCG-TAGAATAAGATAAGATAATATTATAAATAGAATT
1 TAAAGATATGTTTGGTATATAAGATTAT-GATAGAATAAGATAAGATAATATTATAAATAG-ATT
* * * * *
2130516 -TATTAAATAATGTTATCTTATCTTATTTTTAATGTGTATAAAGATTATGATAGGATAATTTATT
64 AAATTAAATAATGTTATCTTATCTTATATTTGATGTGTGTAAAGATTA-GATAGAATAATTTATT
* * * *
2130580 TATTGTTCGAAATTA-CTTTTCTTATAGTTTATATAATTTAAATTATTGATGTAATTTTAATG-G
128 TATTGTT-AAAATTATCTTTTCTCAAAGTTTATAAAATTTAAATTATTGATGTAATTTTAA-GAG
* * * * * * *
2130643 TATAATAGGACATGTAAGTTTAATATTATTGATTAAAAATAATCTTTTTTACTTTGGGAAGATTG
191 TATAATAAGACATGTAAATTCAATATCATGGATTAAAAATAA-ATTTTTTACTTT---AAGA-GG
* * * * *
2130708 AATCATGCTATAGA-ATGATTAAT-ATTCTTTATAATACTAAT-CATTTCTTTAGATATAAACTA
251 AATCATACCA-AGAGATAATTAATCATT-TTTATAAT-CTAATCCATTT-TTTAGATACAAACCA
* * *
2130770 AATATAATATAAGATGATTATCACTCTATCTTATCTATCATAT-TATATACCAAATATAACA
312 AATATAATATAAGATAATTATCACTCTATCTTATCCATCAT-TCTATACACCAAATATAACA
* * *
2130831 T-AAGATCATGTTTGGTATATAAAATTATGATAGGATAAGATAAGATGATATTATAAATATGATT
1 TAAAGAT-ATGTTTGGTATATAAGATTATGATAGAATAAGATAAGATAATATTATAAATA-GATT
* * *
2130895 AAATTAAATAATGTTATCCTATCTTATATTTGATGTGTGCAATGATTAGATAGAATAATTTATTT
64 AAATTAAATAATGTTATCTTATCTTATATTTGATGTGTGTAAAGATTAGATAGAATAATTTATTT
** * *
2130960 ATTGATTAAAATTATCTTTAGTCAAAGTTTATACAATTTAAATTATTAATGTAATTTTTAA-AGA
129 ATTG-TTAAAATTATCTTTTCTCAAAGTTTATAAAATTTAAATTATTGATGTAA-TTTTAAGAG-
2131024 TATAATA
191 TATAATA
2131031 TAATACGTAA
Statistics
Matches: 477, Mismatches: 79, Indels: 42
0.80 0.13 0.07
Matches are distributed among these distances:
374 42 0.09
375 49 0.10
376 60 0.13
377 56 0.12
378 31 0.06
379 145 0.30
380 81 0.17
381 13 0.03
ACGTcount: A:0.40, C:0.07, G:0.10, T:0.43
Consensus pattern (372 bp):
TAAAGATATGTTTGGTATATAAGATTATGATAGAATAAGATAAGATAATATTATAAATAGATTAA
ATTAAATAATGTTATCTTATCTTATATTTGATGTGTGTAAAGATTAGATAGAATAATTTATTTAT
TGTTAAAATTATCTTTTCTCAAAGTTTATAAAATTTAAATTATTGATGTAATTTTAAGAGTATAA
TAAGACATGTAAATTCAATATCATGGATTAAAAATAAATTTTTTACTTTAAGAGGAATCATACCA
AGAGATAATTAATCATTTTTATAATCTAATCCATTTTTTAGATACAAACCAAATATAATATAAGA
TAATTATCACTCTATCTTATCCATCATTCTATACACCAAATATAACA
Found at i:2133199 original size:23 final size:25
Alignment explanation
Indices: 2133173--2133219 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
2133163 TTTAAAATGA
*
2133173 AATTT-ACGAAAA-TTTTAAAAAAT
1 AATTTAACAAAAACTTTTAAAAAAT
*
2133196 AATTTAATAAAAACTTTTAAAAAA
1 AATTTAACAAAAACTTTTAAAAAA
2133220 ATTTGAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 5 0.25
24 5 0.25
25 10 0.50
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (25 bp):
AATTTAACAAAAACTTTTAAAAAAT
Found at i:2140462 original size:21 final size:22
Alignment explanation
Indices: 2140424--2140479 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
2140414 ATGTTATTCT
*
2140424 ATTTTCTCTTTT-TCTTCTT-TA
1 ATTTTC-CTTTTATATTCTTATA
*
2140445 ATTTTCCTTTTATATTCTTATT
1 ATTTTCCTTTTATATTCTTATA
*
2140467 ATCTTCCTTTTAT
1 ATTTTCCTTTTAT
2140480 CTTACGTATG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.17
21 12 0.40
22 13 0.43
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTTTCCTTTTATATTCTTATA
Found at i:2144609 original size:25 final size:25
Alignment explanation
Indices: 2144581--2144632 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
2144571 GAAAAAGTTA
*
2144581 CTCTCTTG-ATTTATGTTTAAATTGG
1 CTCTC-TGAATTTATGTTTAAATGGG
2144606 CTCTCTGAATTTATGTTTAAATGGG
1 CTCTCTGAATTTATGTTTAAATGGG
2144631 CT
1 CT
2144633 AATACATTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 2 0.08
25 23 0.92
ACGTcount: A:0.21, C:0.13, G:0.17, T:0.48
Consensus pattern (25 bp):
CTCTCTGAATTTATGTTTAAATGGG
Found at i:2146936 original size:27 final size:28
Alignment explanation
Indices: 2146906--2146963 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
2146896 TTTGAGGTAT
2146906 ATAAAAATTATG-ATAAGATAAAATAAA
1 ATAAAAATTATGAATAAGATAAAATAAA
* * *
2146933 AT-AATATTATGAATAAGATTAAATTAA
1 ATAAAAATTATGAATAAGATAAAATAAA
2146960 ATAA
1 ATAA
2146964 TATCATCTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 8 0.31
27 17 0.65
28 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (28 bp):
ATAAAAATTATGAATAAGATAAAATAAA
Found at i:2146937 original size:84 final size:85
Alignment explanation
Indices: 2146823--2147011 Score: 290
Period size: 85 Copynumber: 2.2 Consensus size: 85
2146813 GTCAGCAAAT
* * * * * *
2146823 TAAACATTATGATAGGATAGAATAAGATAATATTATGAATAA-ATTAGATTAAATAATATCATTT
1 TAAAAATTATGATAAGATAAAATAAAATAATATTATGAATAAGATTAAATTAAATAATATCATCT
*
2146887 TATTTTGTGTTTGAGGTATA
66 TATTTTGTGTTTAAGGTATA
2146907 TAAAAATTATGATAAGATAAAATAAAATAATATTATGAATAAGATTAAATTAAATAATATCATCT
1 TAAAAATTATGATAAGATAAAATAAAATAATATTATGAATAAGATTAAATTAAATAATATCATCT
*
2146972 TATTTTGTGTTTAATGTATA
66 TATTTTGTGTTTAAGGTATA
*
2146992 CAAAAATTATGATAAGATAA
1 TAAAAATTATGATAAGATAA
2147012 TTTATTTATT
Statistics
Matches: 95, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
84 38 0.40
85 57 0.60
ACGTcount: A:0.48, C:0.03, G:0.11, T:0.39
Consensus pattern (85 bp):
TAAAAATTATGATAAGATAAAATAAAATAATATTATGAATAAGATTAAATTAAATAATATCATCT
TATTTTGTGTTTAAGGTATA
Found at i:2146964 original size:27 final size:26
Alignment explanation
Indices: 2146912--2146966 Score: 83
Period size: 27 Copynumber: 2.1 Consensus size: 26
2146902 GTATATAAAA
2146912 ATTATGATAAGATAAAATAAAATAAT
1 ATTATGATAAGATAAAATAAAATAAT
* *
2146938 ATTATGAATAAGATTAAATTAAATAAT
1 ATTATG-ATAAGATAAAATAAAATAAT
2146965 AT
1 AT
2146967 CATCTTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (26 bp):
ATTATGATAAGATAAAATAAAATAAT
Found at i:2153513 original size:2 final size:2
Alignment explanation
Indices: 2153506--2153535 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
2153496 GGATTTTTCC
*
2153506 AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2153536 CTAACTTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2155035 original size:10 final size:10
Alignment explanation
Indices: 2155016--2155054 Score: 55
Period size: 10 Copynumber: 4.1 Consensus size: 10
2155006 TTTCACTAGG
2155016 ATATACATAT
1 ATATACATAT
2155026 ATAT--ATAT
1 ATATACATAT
*
2155034 ATACACATAT
1 ATATACATAT
2155044 ATATACATAT
1 ATATACATAT
2155054 A
1 A
2155055 GAATAAAGTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
8 7 0.28
10 18 0.72
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATACATAT
Found at i:2155037 original size:16 final size:16
Alignment explanation
Indices: 2155016--2155048 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
2155006 TTTCACTAGG
*
2155016 ATATACATATATATAT
1 ATATACACATATATAT
2155032 ATATACACATATATAT
1 ATATACACATATATAT
2155048 A
1 A
2155049 CATATAGAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (16 bp):
ATATACACATATATAT
Found at i:2155043 original size:18 final size:18
Alignment explanation
Indices: 2155020--2155054 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2155010 ACTAGGATAT
*
2155020 ACATATATATATATATAC
1 ACATATATATACATATAC
2155038 ACATATATATACATATA
1 ACATATATATACATATA
2155055 GAATAAAGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.51, C:0.11, G:0.00, T:0.37
Consensus pattern (18 bp):
ACATATATATACATATAC
Found at i:2155709 original size:11 final size:11
Alignment explanation
Indices: 2155693--2155717 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
2155683 CTATGTAACA
2155693 ATATTTTCTTT
1 ATATTTTCTTT
2155704 ATATTTTCTTT
1 ATATTTTCTTT
2155715 ATA
1 ATA
2155718 AACATCCTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (11 bp):
ATATTTTCTTT
Found at i:2157852 original size:48 final size:48
Alignment explanation
Indices: 2157778--2157875 Score: 151
Period size: 48 Copynumber: 2.0 Consensus size: 48
2157768 GCATGGAGAT
*
2157778 TGCCTCTGCTCTTCTATTCCATTAGTACCTACATCAAACCCTCCCCCC
1 TGCCTCTGCTCTTCTATTCCACTAGTACCTACATCAAACCCTCCCCCC
** * *
2157826 TGCCTCTTTTCTTCTATTCTACTAGTACCTACATCAAACCCTCTCCCC
1 TGCCTCTGCTCTTCTATTCCACTAGTACCTACATCAAACCCTCCCCCC
2157874 TG
1 TG
2157876 TCCTTAACAC
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.18, C:0.41, G:0.06, T:0.35
Consensus pattern (48 bp):
TGCCTCTGCTCTTCTATTCCACTAGTACCTACATCAAACCCTCCCCCC
Found at i:2163972 original size:15 final size:16
Alignment explanation
Indices: 2163935--2163974 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
2163925 CTATTAAAAT
*
2163935 ATATTAAAATTATTTA
1 ATATTAAAATTATGTA
*
2163951 TTATTAAAATTA-GTA
1 ATATTAAAATTATGTA
2163966 ATATTAAAA
1 ATATTAAAA
2163975 AATAATTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
ATATTAAAATTATGTA
Found at i:2164009 original size:52 final size:52
Alignment explanation
Indices: 2163945--2164054 Score: 143
Period size: 52 Copynumber: 2.1 Consensus size: 52
2163935 ATATTAAAAT
*
2163945 TATTTATTATTAAAATTAGTAATATTAAAAAATAATTATA-T-TTTAATAATAA
1 TATTTAATATTAAAA-TA-TAATATTAAAAAATAATTATATTATTTAATAATAA
* * * *
2163997 TATTTAATATTAATATATTATGTTAAAAAATAATTATATTATTTATTAATAA
1 TATTTAATATTAAAATATAATATTAAAAAATAATTATATTATTTAATAATAA
2164049 TATTTA
1 TATTTA
2164055 TTAATATATT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
50 19 0.37
51 3 0.06
52 29 0.57
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (52 bp):
TATTTAATATTAAAATATAATATTAAAAAATAATTATATTATTTAATAATAA
Found at i:2164057 original size:49 final size:49
Alignment explanation
Indices: 2163966--2164071 Score: 153
Period size: 49 Copynumber: 2.1 Consensus size: 49
2163956 AAAATTAGTA
2163966 ATATTAAAAAATAATTATATTTTAATAATAATATTTAATATTAATATATT
1 ATATTAAAAAATAATTATATTTTAATAATAATATTT-ATATTAATATATT
* *
2164016 ATGTTAAAAAATAATTATATTATTTATTAATAATA-TT-TATTAATATATT
1 ATATTAAAAAATAATTATA-T-TTTAATAATAATATTTATATTAATATATT
2164065 ATATTAA
1 ATATTAA
2164072 TAGCATATTA
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
49 18 0.35
50 18 0.35
51 3 0.06
52 12 0.24
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (49 bp):
ATATTAAAAAATAATTATATTTTAATAATAATATTTATATTAATATATT
Found at i:2164087 original size:23 final size:23
Alignment explanation
Indices: 2164032--2164304 Score: 132
Period size: 23 Copynumber: 11.5 Consensus size: 23
2164022 AAAAATAATT
*
2164032 ATATTATTTATTA-A-TAATA-T
1 ATATTATTTATTATATTAATAGA
* * *
2164052 TTATTAATATATTATATTAATAGC
1 ATATT-ATTTATTATATTAATAGA
* *
2164076 ATATTATTTATTAATATATTATTATA
1 ATATTATTTA-T--TATATTAATAGA
* *
2164102 ATATTTATTAATTACATTAATA-A
1 ATA-TTATTTATTATATTAATAGA
*
2164125 TATCTATTATTATATTAGTTATTAATATA
1 -A--TATTATT-TATTA--TATTAATAGA
*
2164154 ATATTATTTATTA-ATATATTAGA
1 ATATTATTTATTATAT-TAATAGA
* *
2164177 ATATTATTTATTAATATATTATATTA
1 ATATTATTTATT-ATAT-TAATA-GA
* * *
2164203 ATAGTATATTATT-TATTTATATA
1 ATATTAT-TTATTATATTAATAGA
* *
2164226 ATATTATTTATTA-ATATATTATA
1 ATATTATTTATTATAT-TAATAGA
* * *
2164249 ATAATATTTTATT-GATTAATATA
1 ATATTA-TTTATTATATTAATAGA
*
2164272 ATATTATTTATT-TATTAATATA
1 ATATTATTTATTATATTAATAGA
2164294 ATATTATTTAT
1 ATATTATTTAT
2164305 AAGCAAATTT
Statistics
Matches: 203, Mismatches: 26, Indels: 46
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.02
21 7 0.03
22 36 0.18
23 56 0.28
24 28 0.14
25 19 0.09
26 33 0.16
27 11 0.05
28 8 0.04
29 1 0.00
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (23 bp):
ATATTATTTATTATATTAATAGA
Found at i:2164087 original size:31 final size:31
Alignment explanation
Indices: 2164049--2164283 Score: 146
Period size: 31 Copynumber: 7.3 Consensus size: 31
2164039 TTATTAATAA
*
2164049 TATTTATTAATATATTATATTAATAGCATAT
1 TATTTATTAATATATTATATTAATAGTATAT
*
2164080 TATTTATTAATATATTAT-TATAATA-TTTAT
1 TATTTATTAATATATTATAT-TAATAGTATAT
*
2164110 TAATTACATTAATAATATCTATTATT-ATA-T-TAGT
1 T-ATT-TATTAAT-ATAT-TA-TATTAATAGTATA-T
* * *
2164144 TATTAATATAATATTATTTATTAATATATTAGAATAT
1 TATTTAT-TAATA-TA-TTA-T-AT-TAATAGTATAT
2164181 TATTTATTAATATATTATATTAATAGTATAT
1 TATTTATTAATATATTATATTAATAGTATAT
* *
2164212 TATTTATTTATATAATATTAT-TTATTAATATAT
1 TATTTA-TTA-AT-ATATTATATTAATAGTATAT
* *
2164245 TA--TAATAATATTTTATTGATTAATA-TAATAT
1 TATTTATTAATATATTA-T-ATTAATAGT-ATAT
2164276 TATTTATT
1 TATTTATT
2164284 TATTAATATA
Statistics
Matches: 164, Mismatches: 15, Indels: 48
0.72 0.07 0.21
Matches are distributed among these distances:
28 5 0.03
29 3 0.02
30 8 0.05
31 54 0.33
32 14 0.09
33 37 0.23
34 21 0.13
35 5 0.03
36 8 0.05
37 7 0.04
38 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (31 bp):
TATTTATTAATATATTATATTAATAGTATAT
Found at i:2164098 original size:18 final size:18
Alignment explanation
Indices: 2164077--2164304 Score: 113
Period size: 18 Copynumber: 12.6 Consensus size: 18
2164067 ATTAATAGCA
2164077 TATTATTTATTAATATATTAT
1 TATTATTTATT-A-ATA-TAT
*
2164098 TATAATATTTATTAATTACAT
1 TAT--TATTTATTAA-TATAT
*
2164119 TAATAATATCTATT-AT-TAT
1 T-AT--TATTTATTAATATAT
* *
2164138 -ATTAGTTATTAATATAA
1 TATTATTTATTAATATAT
2164155 TATTATTTATTAATATAT
1 TATTATTTATTAATATAT
** * *
2164173 TAGAATATTATTTAT-TAA
1 TATTAT-TTATTAATATAT
2164191 TA-TATTATATTAATAGTA-
1 TATTATT-TATTAATA-TAT
* *
2164209 TATTATTTATTTATATAA
1 TATTATTTATTAATATAT
2164227 TATTATTTATTAATATAT
1 TATTATTTATTAATATAT
*
2164245 TA-TA---A-TAATATTT
1 TATTATTTATTAATATAT
*
2164258 TATTGA-TTAAT-ATAATAT
1 TATT-ATTTATTAAT-ATAT
*
2164276 TATTTATTTATTAATATAA
1 TA-TTATTTATTAATATAT
2164295 TATTATTTAT
1 TATTATTTAT
2164305 AAGCAAATTT
Statistics
Matches: 164, Mismatches: 21, Indels: 47
0.71 0.09 0.20
Matches are distributed among these distances:
13 9 0.05
14 2 0.01
15 7 0.04
16 3 0.02
17 19 0.12
18 65 0.40
19 26 0.16
20 3 0.02
21 8 0.05
22 14 0.09
23 8 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.56
Consensus pattern (18 bp):
TATTATTTATTAATATAT
Found at i:2164253 original size:13 final size:13
Alignment explanation
Indices: 2163975--2164260 Score: 68
Period size: 13 Copynumber: 22.0 Consensus size: 13
2163965 AATATTAAAA
*
2163975 AATAATTATATTTT
1 AATAA-TATATTAT
2163989 AATAATAATATTTAAT
1 AATAAT-ATA-TT-AT
*
2164005 ATTAATATATTAT
1 AATAATATATTAT
** * * *
2164018 GTTAAAAAATAAT
1 AATAATATATTAT
* *
2164031 TATATTAT-TTATT
1 AATAATATATTA-T
2164044 AATAATAT-TTAT
1 AATAATATATTAT
2164056 --TAATATATTAT
1 AATAATATATTAT
*
2164067 ATTAATAGCATATTATTT
1 AATAAT---ATATTA--T
*
2164085 ATTAATATATTAT
1 AATAATATATTAT
*
2164098 TATAATAT-TTAT
1 AATAATATATTAT
*
2164110 --TAATTACATTAAT
1 AATAA-TATATT-AT
*
2164123 AAT-ATCTATTAT
1 AATAATATATTAT
* *
2164135 TATATTAGTTATTA-
1 AATAATA--TATTAT
2164149 ATATAATATTATT-T
1 A-ATAATA-TATTAT
* *
2164163 ATTAATATATTAG
1 AATAATATATTAT
2164176 AAT-AT-TATT-T
1 AATAATATATTAT
*
2164186 ATTAATATATTAT
1 AATAATATATTAT
*
2164199 ATTAATAGTA-TAT
1 AATAATA-TATTAT
* *
2164212 TAT-TTAT-TTAT
1 AATAATATATTAT
2164223 -ATAATATTATT-T
1 AATAATA-TATTAT
*
2164235 ATTAATATATTAT
1 AATAATATATTAT
*
2164248 AATAATATTTTAT
1 AATAATATATTAT
2164261 TGATTAATAT
Statistics
Matches: 203, Mismatches: 36, Indels: 67
0.66 0.12 0.22
Matches are distributed among these distances:
10 13 0.06
11 18 0.09
12 31 0.15
13 81 0.40
14 19 0.09
15 22 0.11
16 12 0.06
18 7 0.03
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (13 bp):
AATAATATATTAT
Found at i:2193968 original size:18 final size:17
Alignment explanation
Indices: 2193916--2193976 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 17
2193906 CAAATAAAAT
*
2193916 AAATATAACTATTTATC
1 AAATATAATTATTTATC
*
2193933 ATATAATAATTATTTTTATTC
1 AAAT-ATAATTA--TTTA-TC
2193954 AAATATAATTATTTA--
1 AAATATAATTATTTATC
2193969 AAATATAA
1 AAATATAA
2193977 ATAAAATTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
15 8 0.22
17 3 0.08
18 10 0.27
20 11 0.30
21 5 0.14
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (17 bp):
AAATATAATTATTTATC
Found at i:2195508 original size:16 final size:16
Alignment explanation
Indices: 2195487--2195528 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
2195477 AAAGCTCTAG
*
2195487 AAAAACATAA-TCTATT
1 AAAAACA-AATTCAATT
2195503 AAAAACAAATTCAATT
1 AAAAACAAATTCAATT
*
2195519 AAAAAAAAAT
1 AAAAACAAAT
2195529 AAAAAACCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (16 bp):
AAAAACAAATTCAATT
Found at i:2197107 original size:18 final size:18
Alignment explanation
Indices: 2197084--2197150 Score: 73
Period size: 18 Copynumber: 3.6 Consensus size: 18
2197074 TGAATATAAT
2197084 TTATATAATATTTTAAAA
1 TTATATAATATTTTAAAA
* *
2197102 TTATATAA-ATTGAATATAAC
1 TTATATAATATT--TTA-AAA
2197122 TTATATAATATTTTAAAA
1 TTATATAATATTTTAAAA
*
2197140 TTATATGATAT
1 TTATATAATAT
2197151 AAAATAAACT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
17 3 0.08
18 20 0.50
19 4 0.10
20 10 0.25
21 3 0.08
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (18 bp):
TTATATAATATTTTAAAA
Found at i:2197113 original size:38 final size:38
Alignment explanation
Indices: 2197070--2197145 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
2197060 TTTATACAAC
*
2197070 AAATTGAATATAATTTATATAATATTTTAAAATTATAT
1 AAATTGAATATAACTTATATAATATTTTAAAATTATAT
2197108 AAATTGAATATAACTTATATAATATTTTAAAATTATAT
1 AAATTGAATATAACTTATATAATATTTTAAAATTATAT
2197146 GATATAAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (38 bp):
AAATTGAATATAACTTATATAATATTTTAAAATTATAT
Found at i:2198416 original size:20 final size:20
Alignment explanation
Indices: 2198391--2198431 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
2198381 ACACTTTAGT
*
2198391 TATCCAAACTAATTTAAAAC
1 TATCCAAACTAATTCAAAAC
2198411 TATCCAAACTAATTCAAAAC
1 TATCCAAACTAATTCAAAAC
2198431 T
1 T
2198432 TTGATAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (20 bp):
TATCCAAACTAATTCAAAAC
Found at i:2198930 original size:42 final size:44
Alignment explanation
Indices: 2198874--2198977 Score: 133
Period size: 42 Copynumber: 2.4 Consensus size: 44
2198864 ATTTTTTACT
* * *
2198874 AAAGACAAGCATGAAACTA-AACAAAATTTCTTGGC-CCTGGGG
1 AAAGGCAACCATGAAACTATAACAAAATTTCTTGGCTCCTGGGA
* *
2198916 AAAGGTAACCATG-AACTATAACAAAATTTCTTGGCTCTTGGGA
1 AAAGGCAACCATGAAACTATAACAAAATTTCTTGGCTCCTGGGA
*
2198959 AAAGGCAAGCATGAAACTA
1 AAAGGCAACCATGAAACTA
2198978 CTATATAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
41 5 0.10
42 26 0.50
43 16 0.31
44 5 0.10
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.21
Consensus pattern (44 bp):
AAAGGCAACCATGAAACTATAACAAAATTTCTTGGCTCCTGGGA
Found at i:2199204 original size:9 final size:9
Alignment explanation
Indices: 2199192--2199221 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
2199182 TTTTTATCAG
2199192 TTTATTATT
1 TTTATTATT
2199201 TTTATTATT
1 TTTATTATT
*
2199210 ATTATTATT
1 TTTATTATT
2199219 TTT
1 TTT
2199222 GCTTAACACT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTATT
Found at i:2199337 original size:2 final size:2
Alignment explanation
Indices: 2199330--2199360 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
2199320 GTAATTTTGC
*
2199330 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2199361 TAAAATAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:2201563 original size:9 final size:9
Alignment explanation
Indices: 2201546--2201614 Score: 50
Period size: 9 Copynumber: 7.2 Consensus size: 9
2201536 TTCTTATGGC
*
2201546 TTATAATTT
1 TTATTATTT
2201555 TTATTATTT
1 TTATTATTT
*
2201564 GTTACTACTTT
1 -TTATTA-TTT
*
2201575 TTCTTATTT
1 TTATTATTT
2201584 GTTATTATATT
1 -TTATTAT-TT
2201595 TT-TTATATT
1 TTATTAT-TT
*
2201604 TTACTATTT
1 TTATTATTT
2201613 TT
1 TT
2201615 TGTTATTTGT
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
9 24 0.49
10 20 0.41
11 5 0.10
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.70
Consensus pattern (9 bp):
TTATTATTT
Found at i:2201575 original size:20 final size:20
Alignment explanation
Indices: 2201552--2201657 Score: 101
Period size: 20 Copynumber: 5.2 Consensus size: 20
2201542 TGGCTTATAA
2201552 TTTTTATTATTTGTTACTAC
1 TTTTTATTATTTGTTACTAC
* *
2201572 TTTTTCTTATTTGTTATTA-
1 TTTTTATTATTTGTTACTAC
*
2201591 TATTTT-TTATATT-TTACTAT
1 T-TTTTATTAT-TTGTTACTAC
*
2201611 TTTTTGTTATTTGTTACTAC
1 TTTTTATTATTTGTTACTAC
* *
2201631 TTATTTATTTATTTATTAATAC
1 TT-TTTA-TTATTTGTTACTAC
2201653 TTTTT
1 TTTTT
2201658 TCTAATGTAT
Statistics
Matches: 72, Mismatches: 7, Indels: 13
0.78 0.08 0.14
Matches are distributed among these distances:
19 16 0.22
20 36 0.50
21 6 0.08
22 14 0.19
ACGTcount: A:0.21, C:0.07, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTATTATTTGTTACTAC
Found at i:2201608 original size:39 final size:39
Alignment explanation
Indices: 2201524--2201680 Score: 119
Period size: 39 Copynumber: 4.0 Consensus size: 39
2201514 TTTTATGAGA
* * *
2201524 TATTACTATTTTTTCTTATGGCTTA-TAAT-TTTTATTATT
1 TATTACTACTTTTTCTTATTG-TTATTACTATTTT-TTATT
*
2201563 TGTTACTACTTTTTCTTATTTGTTATTA-TATTTTTTATAT
1 TATTACTACTTTTTCTTA-TTGTTATTACTATTTTTTAT-T
* * *
2201603 T-TTACTATTTTTTGTTATTTGTTACTACTTATTTATTTATT
1 TATTACTACTTTTTCTTA-TTGTTATTAC-TATTT-TTTATT
* *
2201644 TATTAATACTTTTT-TCTAATG-TATTACTATTTTTTAT
1 TATTACTACTTTTTCT-TATTGTTATTACTATTTTTTAT
2201681 AGTTTTAAAT
Statistics
Matches: 99, Mismatches: 10, Indels: 19
0.77 0.08 0.15
Matches are distributed among these distances:
38 5 0.05
39 52 0.53
40 15 0.15
41 10 0.10
42 17 0.17
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (39 bp):
TATTACTACTTTTTCTTATTGTTATTACTATTTTTTATT
Found at i:2201621 original size:10 final size:10
Alignment explanation
Indices: 2201552--2201622 Score: 54
Period size: 10 Copynumber: 7.2 Consensus size: 10
2201542 TGGCTTATAA
2201552 TTTTTATTAT
1 TTTTTATTAT
* * *
2201562 TTGTTACTAC
1 TTTTTATTAT
*
2201572 TTTTTCTTAT
1 TTTTTATTAT
*
2201582 TTGTTATTAT
1 TTTTTATTAT
*
2201592 ATTTT-TTAT
1 TTTTTATTAT
* *
2201601 ATTTTACTAT
1 TTTTTATTAT
*
2201611 TTTTTGTTAT
1 TTTTTATTAT
2201621 TT
1 TT
2201623 GTTACTACTT
Statistics
Matches: 45, Mismatches: 15, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
9 9 0.20
10 36 0.80
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.72
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:2205165 original size:126 final size:126
Alignment explanation
Indices: 2204947--2205192 Score: 386
Period size: 126 Copynumber: 2.0 Consensus size: 126
2204937 CTTGCTGACC
** * *
2204947 GGCTCTAAATCTAAAGATCTTTACTTTTACGATTTGATAGAAATGGAATCTTGATATGCTCTAAG
1 GGCTCTAAATCTAAAGATCCATACTTTTACAATTTCATAGAAATGGAATCTTGATATGCTCTAAG
* *
2205012 TGATGCAGTTCCAAATCAGCAGCAAGCTGTTTTTAACTATCACAGGATTGCATAGCTGATT
66 TAATGCAGTTCCAAATCAGCAGCAAGCTGTTTTTAACTAACACAGGATTGCATAGCTGATT
* *
2205073 GGCTCTAAATCTAGAGA-CCATACTTTTATAATTTCATAGAAATGGAATCTTGATATGCTCTAAG
1 GGCTCTAAATCTAAAGATCCATACTTTTACAATTTCATAGAAATGGAATCTTGATATGCTCTAAG
* *
2205137 TAATGCTGTTTCCAAATCAGCAGCAAGCTGTTTTTAACTAACACAGGATTGGATAG
66 TAATGCAG-TTCCAAATCAGCAGCAAGCTGTTTTTAACTAACACAGGATTGCATAG
2205193 ACTCTTATAG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
125 48 0.44
126 61 0.56
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (126 bp):
GGCTCTAAATCTAAAGATCCATACTTTTACAATTTCATAGAAATGGAATCTTGATATGCTCTAAG
TAATGCAGTTCCAAATCAGCAGCAAGCTGTTTTTAACTAACACAGGATTGCATAGCTGATT
Found at i:2208043 original size:21 final size:21
Alignment explanation
Indices: 2208019--2208089 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 21
2208009 TATGCTGAAA
2208019 GAAATAAAAAAAATGGAAAAT
1 GAAATAAAAAAAATGGAAAAT
2208040 GAAA-AATGAAAAAAT-GAAAAT
1 GAAATAA--AAAAAATGGAAAAT
*
2208061 GAAAAATGAAAAAAAATGAAAAAT
1 G--AAAT-AAAAAAAATGGAAAAT
*
2208085 AAAAT
1 GAAAT
2208090 GATGAAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
20 2 0.05
21 11 0.27
22 11 0.27
23 10 0.24
24 5 0.12
25 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.14
Consensus pattern (21 bp):
GAAATAAAAAAAATGGAAAAT
Found at i:2208075 original size:22 final size:23
Alignment explanation
Indices: 2208020--2208105 Score: 108
Period size: 23 Copynumber: 3.7 Consensus size: 23
2208010 ATGCTGAAAG
2208020 AAAT-AAAAAAAATGGAAAATGAA
1 AAATGAAAAAAAAT-GAAAATGAA
2208043 AAATG--AAAAAATGAAAATGAA
1 AAATGAAAAAAAATGAAAATGAA
2208064 AAATGAAAAAAAATGAAAAAT-AA
1 AAATGAAAAAAAATG-AAAATGAA
2208087 AATGATGAAAAAAAATGAA
1 AA--ATGAAAAAAAATGAA
2208106 GCAAGGAGGA
Statistics
Matches: 57, Mismatches: 0, Indels: 11
0.84 0.00 0.16
Matches are distributed among these distances:
21 14 0.25
22 7 0.12
23 16 0.28
24 7 0.12
25 13 0.23
ACGTcount: A:0.73, C:0.00, G:0.13, T:0.14
Consensus pattern (23 bp):
AAATGAAAAAAAATGAAAATGAA
Found at i:2208084 original size:7 final size:7
Alignment explanation
Indices: 2208027--2208073 Score: 69
Period size: 7 Copynumber: 6.7 Consensus size: 7
2208017 AAGAAATAAA
2208027 AAAAATG
1 AAAAATG
*
2208034 GAAAATG
1 AAAAATG
2208041 AAAAATG
1 AAAAATG
2208048 AAAAAATG
1 -AAAAATG
2208056 -AAAATG
1 AAAAATG
2208062 AAAAATG
1 AAAAATG
2208069 AAAAA
1 AAAAA
2208074 AAATGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 6 0.17
7 23 0.64
8 7 0.19
ACGTcount: A:0.72, C:0.00, G:0.15, T:0.13
Consensus pattern (7 bp):
AAAAATG
Found at i:2209157 original size:42 final size:42
Alignment explanation
Indices: 2209105--2209569 Score: 726
Period size: 41 Copynumber: 11.1 Consensus size: 42
2209095 ATGATTGTTA
* *
2209105 AGGAGTAATTTACTTTTCCAAAGTCGTGGTACCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
2209147 AGGAGCAATTTACTTTTTCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
2209189 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTAAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* *
2209231 AGGAGCAATTTACTTTTTCAAAGTCGTGATGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
2209273 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
2209314 AGGAGTAATTTACTTTT-CAAAGTCGTTGTGCCTCTGTTTAA
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
2209355 AGGAGCAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
2209396 AGGAGTAATTTACTTTT-CAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
2209437 AGGAGAAATTTAC-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
*
2209478 AGGAGCAATTTACTCTTTCCAAAGTCGTGATGCCTCTGTTTAG
1 AGGAGCAATTTACT-TTTCCAAAGTCGTGGTGCCTCTGTTTAG
* * *
2209521 AGGAGCAATTTA-TGTTTCTCAAAGTCGTTGAGCCTCTATTTAG
1 AGGAGCAATTTACT-TTTC-CAAAGTCGTGGTGCCTCTGTTTAG
2209564 AGGAGC
1 AGGAGC
2209570 TTTGATAAAA
Statistics
Matches: 391, Mismatches: 25, Indels: 13
0.91 0.06 0.03
Matches are distributed among these distances:
40 6 0.02
41 178 0.46
42 142 0.36
43 65 0.17
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (42 bp):
AGGAGCAATTTACTTTTCCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:2209809 original size:9 final size:9
Alignment explanation
Indices: 2209795--2209828 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2209785 TCCTGTATGT
2209795 TTTTTTTCC
1 TTTTTTTCC
2209804 TTTTTTTCTC
1 TTTTTTTC-C
*
2209814 TTTTTTTTC
1 TTTTTTTCC
2209823 TTTTTT
1 TTTTTT
2209829 ATATATCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTCC
Found at i:2209894 original size:8 final size:8
Alignment explanation
Indices: 2209866--2209913 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
2209856 TAGAATATAT
2209866 TTATATGTA
1 TTATAT-TA
2209875 -TATAGTTA
1 TTATA-TTA
2209883 -TATATTA
1 TTATATTA
2209890 TTATATTA
1 TTATATTA
2209898 TT-TATTA
1 TTATATTA
2209905 TT-TATTA
1 TTATATTA
2209912 TT
1 TT
2209914 TTTTTTAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
7 17 0.46
8 19 0.51
9 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (8 bp):
TTATATTA
Found at i:2209903 original size:7 final size:7
Alignment explanation
Indices: 2209880--2209914 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
2209870 ATGTATATAG
*
2209880 TTATATA
1 TTATTTA
2209887 TTATTATA
1 TTATT-TA
2209895 TTATTTA
1 TTATTTA
2209902 TTATTTA
1 TTATTTA
2209909 TTATTT
1 TTATTT
2209915 TTTTTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (7 bp):
TTATTTA
Done.