Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000121.1 Hibiscus syriacus cultivar Beakdansim tig00000218_pilon, 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: 2099483
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:1044808 original size:42 final size:41
Alignment explanation
Indices: 1044737--1044844 Score: 135
Period size: 42 Copynumber: 2.6 Consensus size: 41
1044727 ATGAATTACG
* * *
1044737 TTCCAGAAAACGAATTATGTGAAATAAACACGGAAAAATATTT
1 TTCCA-AAAACGAATTACGTGAAACAAACACGGAAAAACA-TT
* *
1044780 TTCCAAAAATGAATTACGTGAGACAAACACGGAAAAACATT
1 TTCCAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
*
1044821 TTCCAAAAAACGAATTACATGAAA
1 TTCC-AAAAACGAATTACGTGAAA
1044845 TAAATACAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 6 0.11
42 45 0.80
43 5 0.09
ACGTcount: A:0.50, C:0.15, G:0.13, T:0.22
Consensus pattern (41 bp):
TTCCAAAAACGAATTACGTGAAACAAACACGGAAAAACATT
Found at i:1048983 original size:26 final size:26
Alignment explanation
Indices: 1048952--1049003 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
1048942 AATTTATGTT
1048952 AGAGAAGATAAATTTATAAAATTTTA
1 AGAGAAGATAAATTTATAAAATTTTA
1048978 AGAGAAGATAAATTTATAAAATTTTA
1 AGAGAAGATAAATTTATAAAATTTTA
1049004 GGGGATAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.54, C:0.00, G:0.12, T:0.35
Consensus pattern (26 bp):
AGAGAAGATAAATTTATAAAATTTTA
Found at i:1055313 original size:12 final size:12
Alignment explanation
Indices: 1055259--1055318 Score: 52
Period size: 12 Copynumber: 5.0 Consensus size: 12
1055249 ATAGATTTTA
1055259 ATTTTTTATTAT
1 ATTTTTTATTAT
*
1055271 A-TTTGTATT-T
1 ATTTTTTATTAT
* **
1055281 AATTGTTTATTGG
1 -ATTTTTTATTAT
1055294 ACTTTTTTATTAT
1 A-TTTTTTATTAT
1055307 ATTTTTTATTAT
1 ATTTTTTATTAT
1055319 TATCATTTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 8
0.71 0.13 0.15
Matches are distributed among these distances:
10 1 0.03
11 8 0.22
12 19 0.51
13 9 0.24
ACGTcount: A:0.23, C:0.02, G:0.07, T:0.68
Consensus pattern (12 bp):
ATTTTTTATTAT
Found at i:1055382 original size:32 final size:34
Alignment explanation
Indices: 1055336--1055408 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
1055326 TAATACTTAC
1055336 TTTATTTCGTTAAATTGGTTGGA-TTTATT-TTAA
1 TTTATTTCGTTAAATTGGTTGGACTTT-TTGTTAA
*
1055369 TTTATTT-GTTAAATTTGTTGGACTTTTTGTTAA
1 TTTATTTCGTTAAATTGGTTGGACTTTTTGTTAA
*
1055402 TGTATTT
1 TTTATTT
1055409 TGGTTAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 16 0.44
33 20 0.56
ACGTcount: A:0.22, C:0.03, G:0.15, T:0.60
Consensus pattern (34 bp):
TTTATTTCGTTAAATTGGTTGGACTTTTTGTTAA
Found at i:1062025 original size:21 final size:21
Alignment explanation
Indices: 1061963--1062054 Score: 80
Period size: 23 Copynumber: 4.3 Consensus size: 21
1061953 TGCTTAATGT
*
1061963 ATCGATACACC-T-AACCGTGC
1 ATCGATACACCTTGAA-TGTGC
*
1061983 ATCGATGCATCCTTGAATGTGC
1 ATCGATACA-CCTTGAATGTGC
* *
1062005 ATCGATACACCATGAAGGTGC
1 ATCGATACACCTTGAATGTGC
* *
1062026 ACCGATGCACGCCTTGAATGTGC
1 ATCGAT--ACACCTTGAATGTGC
1062049 ATCGAT
1 ATCGAT
1062055 GCACAAGGTC
Statistics
Matches: 57, Mismatches: 10, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
20 8 0.14
21 17 0.30
22 13 0.23
23 19 0.33
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (21 bp):
ATCGATACACCTTGAATGTGC
Found at i:1062048 original size:23 final size:23
Alignment explanation
Indices: 1061979--1062059 Score: 96
Period size: 23 Copynumber: 3.7 Consensus size: 23
1061969 ACACCTAACC
*
1061979 GTGCATCGATGCA-TCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
* *
1062001 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACACCTTGAAT
* *
1062022 GTGCACCGATGCACGCCTTGAAT
1 GTGCATCGATGCACACCTTGAAT
1062045 GTGCATCGATGCACA
1 GTGCATCGATGCACA
1062060 AGGTCATGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
20 1 0.02
21 15 0.32
22 10 0.21
23 21 0.45
ACGTcount: A:0.26, C:0.26, G:0.25, T:0.23
Consensus pattern (23 bp):
GTGCATCGATGCACACCTTGAAT
Found at i:1062048 original size:44 final size:42
Alignment explanation
Indices: 1061963--1062054 Score: 123
Period size: 44 Copynumber: 2.1 Consensus size: 42
1061953 TGCTTAATGT
* *
1061963 ATCGATACACCTAACCGTGCATCGATGCATCCTTGAATGTGC
1 ATCGATACACCTAACCGTGCACCGATGCAGCCTTGAATGTGC
*
1062005 ATCGATACACCATGAA-GGTGCACCGATGCACGCCTTGAATGTGC
1 ATCGATACACC-T-AACCGTGCACCGATGCA-GCCTTGAATGTGC
1062049 ATCGAT
1 ATCGAT
1062055 GCACAAGGTC
Statistics
Matches: 44, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 11 0.25
43 13 0.30
44 20 0.45
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (42 bp):
ATCGATACACCTAACCGTGCACCGATGCAGCCTTGAATGTGC
Found at i:1062075 original size:43 final size:42
Alignment explanation
Indices: 1061979--1062075 Score: 106
Period size: 44 Copynumber: 2.3 Consensus size: 42
1061969 ACACCTAACC
* * *
1061979 GTGCATCGATGCATCCTTGAATGTGCATCGATACACCATGAA
1 GTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGAA
* * *
1062021 GGTGCACCGATGCACGCCTTGAATGTGCATCGATGCACAAGGTCA
1 -GTGCATCGATGCA-GCCTTGAATGTGCATCGATACACAAGG-AA
1062066 -TGCATCGATG
1 GTGCATCGATG
1062076 TATCCGTCGG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
43 21 0.47
44 23 0.51
45 1 0.02
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.24
Consensus pattern (42 bp):
GTGCATCGATGCAGCCTTGAATGTGCATCGATACACAAGGAA
Found at i:1064061 original size:2 final size:2
Alignment explanation
Indices: 1064054--1064091 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1064044 ATTTATTATC
1064054 AT AT AT AT AT 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 AT AT AT AT AT
1064092 TTGGTTTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1071357 original size:15 final size:15
Alignment explanation
Indices: 1071337--1071366 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1071327 GGGTTTCTGG
*
1071337 TTTTTTAATTCTTTA
1 TTTTTTAATACTTTA
1071352 TTTTTTAATACTTTA
1 TTTTTTAATACTTTA
1071367 ATATGTTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.07, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTAATACTTTA
Found at i:1072033 original size:2 final size:2
Alignment explanation
Indices: 1072026--1072051 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1072016 CGTCTCCCTC
1072026 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1072052 AAATAAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1073984 original size:12 final size:12
Alignment explanation
Indices: 1073967--1073995 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
1073957 GTATATCGTA
1073967 GTATTTTAAATT
1 GTATTTTAAATT
1073979 GTA-TTTAAATT
1 GTATTTTAAATT
1073990 GTATTT
1 GTATTT
1073996 AAGATAAGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.31, C:0.00, G:0.10, T:0.59
Consensus pattern (12 bp):
GTATTTTAAATT
Found at i:1073987 original size:11 final size:11
Alignment explanation
Indices: 1073971--1073997 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
1073961 ATCGTAGTAT
1073971 TTTAAATTGTA
1 TTTAAATTGTA
1073982 TTTAAATTGTA
1 TTTAAATTGTA
1073993 TTTAA
1 TTTAA
1073998 GATAAGATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (11 bp):
TTTAAATTGTA
Found at i:1081122 original size:20 final size:20
Alignment explanation
Indices: 1081097--1081185 Score: 126
Period size: 20 Copynumber: 4.5 Consensus size: 20
1081087 CAACGCAGAA
1081097 ATCGCAACGC-GAATATGACT
1 ATCGCAACGCGGAA-ATGACT
*
1081117 ATCGCAACACGGAAATGACT
1 ATCGCAACGCGGAAATGACT
* *
1081137 ATCGCAATGCGGAATTGACT
1 ATCGCAACGCGGAAATGACT
*
1081157 ATCGCAACGCAGAAATGACT
1 ATCGCAACGCGGAAATGACT
1081177 ATCGCAACG
1 ATCGCAACG
1081186 AGAGAATCGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
20 58 0.95
21 3 0.05
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGGAAATGACT
Found at i:1081292 original size:33 final size:33
Alignment explanation
Indices: 1081231--1081326 Score: 120
Period size: 33 Copynumber: 2.8 Consensus size: 33
1081221 GCTAAATTCG
*
1081231 CGTTGCGATTTTCATTTTTGCATTGCGATTCACT
1 CGTTGCGATTTTCA-TTTCGCATTGCGATTCACT
*
1081265 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCACT
* ** *
1081298 CATTGCGATAGTCATTTCCGCGTTGCGAT
1 CGTTGCGATTTTCATTT-CGCATTGCGAT
1081327 AGTCTGTTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
33 31 0.56
34 24 0.44
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCACT
Found at i:1081447 original size:14 final size:14
Alignment explanation
Indices: 1081428--1081464 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1081418 CATCAATTAA
1081428 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
1081442 ACAAATCATCTTTT
1 ACAAATCAACATTT
1081456 ACAAATCAA
1 ACAAATCAA
1081465 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:1082924 original size:42 final size:42
Alignment explanation
Indices: 1082817--1082924 Score: 121
Period size: 42 Copynumber: 2.6 Consensus size: 42
1082807 TCTAGAATGT
* * *
1082817 TGGGAG-GGACCTCTTCAACGATGATAGTGGCCTCTTGAACGG
1 TGGGAGAGG-CCTCTTGAACGATGATAGGGGCCTCTTGAACGA
* * **
1082859 TGGGAGGGGACTCTTGAGGGATGATAGGGGCCTCTTGAACGA
1 TGGGAGAGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGA
1082901 TAGGG-GAGGCCTCTTGAACGATGA
1 T-GGGAGAGGCCTCTTGAACGATGA
1082925 CAGGTGAGTC
Statistics
Matches: 54, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 49 0.91
43 5 0.09
ACGTcount: A:0.22, C:0.18, G:0.38, T:0.22
Consensus pattern (42 bp):
TGGGAGAGGCCTCTTGAACGATGATAGGGGCCTCTTGAACGA
Found at i:1083425 original size:20 final size:20
Alignment explanation
Indices: 1083400--1083456 Score: 114
Period size: 20 Copynumber: 2.9 Consensus size: 20
1083390 TAGAATCTGC
1083400 AAATGACTATCGCAACGCGA
1 AAATGACTATCGCAACGCGA
1083420 AAATGACTATCGCAACGCGA
1 AAATGACTATCGCAACGCGA
1083440 AAATGACTATCGCAACG
1 AAATGACTATCGCAACG
1083457 AGAGAATCGC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 37 1.00
ACGTcount: A:0.40, C:0.25, G:0.19, T:0.16
Consensus pattern (20 bp):
AAATGACTATCGCAACGCGA
Found at i:1083478 original size:33 final size:34
Alignment explanation
Indices: 1083428--1083517 Score: 119
Period size: 33 Copynumber: 2.7 Consensus size: 34
1083418 GAAAATGACT
* * *
1083428 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAACGCGAAAATGACTATCGCAACAACAAA
* **
1083462 ATCGCAATGC-AAAATGAAAATCGCAACAACAAA
1 ATCGCAACGCGAAAATGACTATCGCAACAACAAA
1083495 ATCGCAACGCGAAAATGACTATC
1 ATCGCAACGCGAAAATGACTATC
1083518 ACAATGCGAA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
33 27 0.59
34 19 0.41
ACGTcount: A:0.46, C:0.23, G:0.18, T:0.13
Consensus pattern (34 bp):
ATCGCAACGCGAAAATGACTATCGCAACAACAAA
Found at i:1083613 original size:20 final size:20
Alignment explanation
Indices: 1083588--1083751 Score: 207
Period size: 20 Copynumber: 8.5 Consensus size: 20
1083578 GATTCTTTCG
*
1083588 TTGCGATAGTCATTTTCGAA
1 TTGCGATAGTCATTTTCGCA
*
1083608 TTGCGATAGTCACTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1083628 TTGCGATAGTCACTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1083648 TTGCGATAGTCACTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1083668 TTGCGATAGACATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
1083688 TTGCGAT--TC--TCTCG--
1 TTGCGATAGTCATTTTCGCA
*
1083702 TTGCGATAGTCATTTTTG-A
1 TTGCGATAGTCATTTTCGCA
1083721 GTTGCGATAGTCATTTTCGCA
1 -TTGCGATAGTCATTTTCGCA
1083742 TTGCGATAGT
1 TTGCGATAGT
1083752 AATCTATTCT
Statistics
Matches: 128, Mismatches: 9, Indels: 14
0.85 0.06 0.09
Matches are distributed among these distances:
14 7 0.05
16 6 0.05
18 4 0.03
20 110 0.86
21 1 0.01
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.38
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:1085678 original size:20 final size:20
Alignment explanation
Indices: 1085626--1085693 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
1085616 GAAACTTTAA
* *
1085626 ATCGCAACAAGAAAATGAAA
1 ATCGCAACACGAAAATGAAT
*
1085646 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGAAT
* ** *
1085666 ATCGCAACGCGAATTTGATT
1 ATCGCAACACGAAAATGAAT
1085686 ATCGCAAC
1 ATCGCAAC
1085694 GCAAGAATCA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (20 bp):
ATCGCAACACGAAAATGAAT
Found at i:1085764 original size:20 final size:20
Alignment explanation
Indices: 1085739--1085785 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1085729 GATTCTCTCG
1085739 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
1085759 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
1085779 TTGCGAT
1 TTGCGAT
1085786 TCACTCGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:1086382 original size:20 final size:20
Alignment explanation
Indices: 1086357--1086427 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
1086347 GCTATGTAAA
1086357 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
1086377 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAT
*
1086397 TCGCATTGCAATTTACGTAT
1 TCGCATTGCGATTTACGTAT
1086417 TCGCATTGCGA
1 TCGCATTGCGA
1086428 ATTAGGAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 47 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.37
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:1086441 original size:21 final size:21
Alignment explanation
Indices: 1086354--1086469 Score: 78
Period size: 20 Copynumber: 5.7 Consensus size: 21
1086344 GGCGCTATGT
* *
1086354 AAATCGCATTGCG-ATTTACG
1 AAATCGCAATGCGAATTTAGG
* * * *
1086374 TATTCGCATTGCG-ATTTACG
1 AAATCGCAATGCGAATTTAGG
* * *
1086394 TAATCGCATTGC-AATTTACG
1 AAATCGCAATGCGAATTTAGG
* * *
1086414 TATTCGCATTGCGAA-TTAGG
1 AAATCGCAATGCGAATTTAGG
*
1086434 AAAATCGCAACGCGAATTTAGG
1 -AAATCGCAATGCGAATTTAGG
1086456 AAATCGCAATGCGA
1 AAATCGCAATGCGA
1086470 TAGTCAGAAT
Statistics
Matches: 82, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
20 51 0.62
21 26 0.32
22 5 0.06
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (21 bp):
AAATCGCAATGCGAATTTAGG
Found at i:1086457 original size:22 final size:20
Alignment explanation
Indices: 1086424--1086469 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
1086414 TATTCGCATT
1086424 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGG-AAATCGCAAC
*
1086445 GCGAATTTAGGAAATCGCAAT
1 GCGAA-TTAGGAAATCGCAAC
1086466 GCGA
1 GCGA
1086470 TAGTCAGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.39, C:0.17, G:0.26, T:0.17
Consensus pattern (20 bp):
GCGAATTAGGAAATCGCAAC
Found at i:1088237 original size:9 final size:9
Alignment explanation
Indices: 1088221--1088265 Score: 81
Period size: 9 Copynumber: 5.0 Consensus size: 9
1088211 GAGAAAGTTG
1088221 AAATTAAAA
1 AAATTAAAA
*
1088230 ACATTAAAA
1 AAATTAAAA
1088239 AAATTAAAA
1 AAATTAAAA
1088248 AAATTAAAA
1 AAATTAAAA
1088257 AAATTAAAA
1 AAATTAAAA
1088266 TCCCCTCAAC
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (9 bp):
AAATTAAAA
Found at i:1094088 original size:20 final size:20
Alignment explanation
Indices: 1094065--1094114 Score: 91
Period size: 20 Copynumber: 2.5 Consensus size: 20
1094055 TGTAGAGAGA
1094065 GTATTGATACTGTAAGGTTG
1 GTATTGATACTGTAAGGTTG
1094085 GTATTGATACTGTAAGGTTG
1 GTATTGATACTGTAAGGTTG
*
1094105 GTATCGATAC
1 GTATTGATAC
1094115 CTAGGGTATG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.26, C:0.08, G:0.28, T:0.38
Consensus pattern (20 bp):
GTATTGATACTGTAAGGTTG
Found at i:1094486 original size:20 final size:22
Alignment explanation
Indices: 1094452--1094507 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 22
1094442 AAAATAGCTA
*
1094452 TAGGAGTATCGATACCT-TAG-G
1 TAGG-GTATCAATACCTGTAGAG
1094473 TAGGGTATCAATA-CTGTAGAG
1 TAGGGTATCAATACCTGTAGAG
*
1094494 -AGGGTATTAATACC
1 TAGGGTATCAATACC
1094508 ATATGGCTAG
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 2 0.07
20 22 0.73
21 6 0.20
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (22 bp):
TAGGGTATCAATACCTGTAGAG
Found at i:1102053 original size:21 final size:21
Alignment explanation
Indices: 1102029--1102116 Score: 124
Period size: 21 Copynumber: 4.2 Consensus size: 21
1102019 ATAAAACCCT
*
1102029 GCGGGCTAGGCATGTAACCTG
1 GCGGGCTAGGAATGTAACCTG
*
1102050 GCGGGCTAGGCATGTAACCTG
1 GCGGGCTAGGAATGTAACCTG
1102071 GCGGGCTAGGAATGTAACCCT-
1 GCGGGCTAGGAATGTAA-CCTG
* *
1102092 GCGGGCTCGGAATGTAACCTT
1 GCGGGCTAGGAATGTAACCTG
1102113 GCGG
1 GCGG
1102117 AGATGGCATA
Statistics
Matches: 63, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
20 3 0.05
21 57 0.90
22 3 0.05
ACGTcount: A:0.19, C:0.24, G:0.38, T:0.19
Consensus pattern (21 bp):
GCGGGCTAGGAATGTAACCTG
Found at i:1102146 original size:21 final size:21
Alignment explanation
Indices: 1102120--1102167 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
1102110 CTTGCGGAGA
*
1102120 TGGCATATAAACTGGTGGGCT
1 TGGCATATAAACTGGAGGGCT
* *
1102141 TGGCATATGAAGTGGAGGGCT
1 TGGCATATAAACTGGAGGGCT
*
1102162 GGGCAT
1 TGGCAT
1102168 GTACCCCTGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.12, G:0.40, T:0.25
Consensus pattern (21 bp):
TGGCATATAAACTGGAGGGCT
Found at i:1107838 original size:2 final size:2
Alignment explanation
Indices: 1107831--1107863 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1107821 CAATTAGTGA
1107831 AT 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 AT A
1107864 AATGAATTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1111326 original size:103 final size:102
Alignment explanation
Indices: 1111135--1111335 Score: 375
Period size: 103 Copynumber: 2.0 Consensus size: 102
1111125 ATTCTTTTTA
*
1111135 TATGATTTCTTAAAATTAGATTTAAATTTTAGACCACTTATAAACGTTTAGTTAATTATTACCAA
1 TATGATTTCTTAAAATTAGATTTAAATTTTAGACCACTTATAAACGTTTAGTCAATTATTACCAA
1111200 CAATTAGTTTGTATAGTGAGATTATATCAGAGGCTTC
66 CAATTAGTTTGTATAGTGAGATTATATCAGAGGCTTC
*
1111237 TATGATTTCTTAAAATTAGATTTAAATTTTAGACCACTTATAAAACGTTTTGTCAATTATTACCA
1 TATGATTTCTTAAAATTAGATTTAAATTTTAGACCACTTAT-AAACGTTTAGTCAATTATTACCA
1111302 ACAATTAGTTTGTATAGTGAGATTATATCAGAGG
65 ACAATTAGTTTGTATAGTGAGATTATATCAGAGG
1111336 TTTGAATTCT
Statistics
Matches: 96, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
102 41 0.43
103 55 0.57
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (102 bp):
TATGATTTCTTAAAATTAGATTTAAATTTTAGACCACTTATAAACGTTTAGTCAATTATTACCAA
CAATTAGTTTGTATAGTGAGATTATATCAGAGGCTTC
Found at i:1112508 original size:31 final size:28
Alignment explanation
Indices: 1112451--1112525 Score: 80
Period size: 31 Copynumber: 2.5 Consensus size: 28
1112441 AAAAGTATTT
*
1112451 TTTTTGGGTCACAATAAGTATCTAAAATTA
1 TTTTT-GGTCAAAATAAGTATCTAAAA-TA
*
1112481 TCTTTTTGGTCAAAATAGGTA-CTTAAAATA
1 --TTTTTGGTCAAAATAAGTATC-TAAAATA
1112511 TTTTTGGTCAAAATA
1 TTTTTGGTCAAAATA
1112526 TATACCTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
28 15 0.38
30 3 0.08
31 17 0.43
32 5 0.12
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.41
Consensus pattern (28 bp):
TTTTTGGTCAAAATAAGTATCTAAAATA
Found at i:1112535 original size:28 final size:28
Alignment explanation
Indices: 1112483--1112541 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
1112473 TAAAATTATC
* *
1112483 TTTTTGGTCAAAATAGGTACTTAAAATA
1 TTTTTGGTCAAAATAGATACCTAAAATA
* *
1112511 TTTTTGGTCAAAATATATACCTAAAGTA
1 TTTTTGGTCAAAATAGATACCTAAAATA
1112539 TTT
1 TTT
1112542 AAGTTTTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.37, C:0.08, G:0.12, T:0.42
Consensus pattern (28 bp):
TTTTTGGTCAAAATAGATACCTAAAATA
Found at i:1117315 original size:11 final size:11
Alignment explanation
Indices: 1117299--1117329 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
1117289 ATAGAACTTG
1117299 GAGAGGAAAAT
1 GAGAGGAAAAT
1117310 GAGAGGAAAAT
1 GAGAGGAAAAT
1117321 GAGAAGGAA
1 GAG-AGGAA
1117330 GAATAAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.39, T:0.06
Consensus pattern (11 bp):
GAGAGGAAAAT
Found at i:1117894 original size:22 final size:22
Alignment explanation
Indices: 1117869--1117925 Score: 105
Period size: 22 Copynumber: 2.6 Consensus size: 22
1117859 AGTGCTAACA
*
1117869 CACTTTCGTATCATTGTTGAGG
1 CACTTCCGTATCATTGTTGAGG
1117891 CACTTCCGTATCATTGTTGAGG
1 CACTTCCGTATCATTGTTGAGG
1117913 CACTTCCGTATCA
1 CACTTCCGTATCA
1117926 ATGCAAAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.37
Consensus pattern (22 bp):
CACTTCCGTATCATTGTTGAGG
Found at i:1125095 original size:24 final size:24
Alignment explanation
Indices: 1125063--1125120 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
1125053 GAGATAAACT
1125063 GTAATCGTCAAAAGAAATGGGAAA
1 GTAATCGTCAAAAGAAATGGGAAA
1125087 GTAATCGTCAAAAGAAATGGGAAA
1 GTAATCGTCAAAAGAAATGGGAAA
1125111 GTAATCGTCA
1 GTAATCGTCA
1125121 GTGGTTAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.47, C:0.10, G:0.24, T:0.19
Consensus pattern (24 bp):
GTAATCGTCAAAAGAAATGGGAAA
Found at i:1125460 original size:19 final size:19
Alignment explanation
Indices: 1125427--1125463 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1125417 ATGCACTATG
**
1125427 AAGTTTTACTGAAAATTAC
1 AAGTTTTACAAAAAATTAC
1125446 AAGTTTTACAAAAAATTA
1 AAGTTTTACAAAAAATTA
1125464 AATTTTATTC
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:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (19 bp):
AAGTTTTACAAAAAATTAC
Found at i:1127759 original size:15 final size:16
Alignment explanation
Indices: 1127741--1127773 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1127731 TAAAATATTA
1127741 ATTATT-AAAAATTTT
1 ATTATTGAAAAATTTT
*
1127756 ATTATTGATAAATTTT
1 ATTATTGAAAAATTTT
1127772 AT
1 AT
1127774 AATATAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTATTGAAAAATTTT
Found at i:1127859 original size:22 final size:20
Alignment explanation
Indices: 1127833--1127878 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
1127823 TATTATATTT
*
1127833 TTATTTTAATAATATATAATA
1 TTATTTTAATAAAAT-TAATA
1127854 --ATTATTAATAAAATTAATA
1 TTATT-TTAATAAAATTAATA
1127873 TTATTT
1 TTATTT
1127879 ATTAATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
19 8 0.38
20 10 0.48
21 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATTTTAATAAAATTAATA
Found at i:1127884 original size:29 final size:27
Alignment explanation
Indices: 1127838--1127904 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
1127828 TATTTTTATT
* *
1127838 TTAATAATATATAATAATTATTAATAAAA
1 TTAATATTATTTAATAA-T-TTAATAAAA
* *
1127867 TTAATATTATTTATTAATTTCATAAAA
1 TTAATATTATTTAATAATTTAATAAAA
*
1127894 ATAATATTATT
1 TTAATATTATT
1127905 GAGTTGTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 18 0.55
28 1 0.03
29 14 0.42
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAATATTATTTAATAATTTAATAAAA
Found at i:1128895 original size:27 final size:24
Alignment explanation
Indices: 1128833--1128895 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 24
1128823 AAATACTCAA
1128833 AAAATATTATTTTATATATTTAAT
1 AAAATATTATTTTATATATTTAAT
*
1128857 ATTAATACATTATTTTAATATCATTTTAAT
1 A--AA-ATATTATTTT-ATAT-A-TTTAAT
1128887 AAAATATTA
1 AAAATATTA
1128896 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
24 1 0.03
26 2 0.06
27 14 0.45
28 6 0.19
29 1 0.03
30 7 0.23
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (24 bp):
AAAATATTATTTTATATATTTAAT
Found at i:1129013 original size:22 final size:20
Alignment explanation
Indices: 1128988--1129033 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
1128978 TATTATATTT
*
1128988 TTATTTTAATAATATATAATA
1 TTATTTTAATAAAAT-TAATA
1129009 --ATTATTAATAAAATTAATA
1 TTATT-TTAATAAAATTAATA
1129028 TTATTT
1 TTATTT
1129034 ATTAATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
19 8 0.38
20 10 0.48
21 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATTTTAATAAAATTAATA
Found at i:1129039 original size:29 final size:27
Alignment explanation
Indices: 1128993--1129059 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 27
1128983 TATTTTTATT
* *
1128993 TTAATAATATATAATAATTATTAATAAAA
1 TTAATATTATTTAATAA-T-TTAATAAAA
* *
1129022 TTAATATTATTTATTAATTTCATAAAA
1 TTAATATTATTTAATAATTTAATAAAA
*
1129049 ATAATATTATT
1 TTAATATTATT
1129060 GAGTTGTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
27 18 0.55
28 1 0.03
29 14 0.42
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAATATTATTTAATAATTTAATAAAA
Found at i:1130050 original size:27 final size:24
Alignment explanation
Indices: 1129990--1130052 Score: 63
Period size: 27 Copynumber: 2.4 Consensus size: 24
1129980 AAATACTCAA
*
1129990 AAAATATTATTTTATATATTTAAT
1 AAAATATTATTTTATACATTTAAT
1130014 ATTAATATATTATTTTAATAACATTTTAAT
1 A--AA-ATATTATTTT-AT-ACA-TTTAAT
1130044 AAAATATTA
1 AAAATATTA
1130053 ATTATTAAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
24 1 0.03
26 2 0.06
27 16 0.50
28 4 0.12
29 2 0.06
30 7 0.22
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (24 bp):
AAAATATTATTTTATACATTTAAT
Found at i:1130171 original size:22 final size:20
Alignment explanation
Indices: 1130145--1130190 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
1130135 TATTATATTT
*
1130145 TTATTTTAATAATATATAATA
1 TTATTTTAATAAAAT-TAATA
1130166 --ATTATTAATAAAATTAATA
1 TTATT-TTAATAAAATTAATA
1130185 TTATTT
1 TTATTT
1130191 ATTGATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
19 8 0.38
20 10 0.48
21 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATTTTAATAAAATTAATA
Found at i:1131155 original size:19 final size:19
Alignment explanation
Indices: 1131131--1131181 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
1131121 ATGCTCAAAA
1131131 TAATATTATTTTA-TATATT
1 TAATATTATTTTATTAT-TT
* *
1131150 TAATATTAATATATTATTT
1 TAATATTATTTTATTATTT
*
1131169 TAATATCATTTTA
1 TAATATTATTTTA
1131182 ATAAAATATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 23 0.88
20 3 0.12
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (19 bp):
TAATATTATTTTATTATTT
Found at i:1131171 original size:13 final size:13
Alignment explanation
Indices: 1131133--1131174 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
1131123 GCTCAAAATA
1131133 ATATTATTTT-AT
1 ATATTATTTTAAT
*
1131145 ATATTTAATATTAAT
1 ATA-TT-ATTTTAAT
1131160 ATATTATTTTAAT
1 ATATTATTTTAAT
1131173 AT
1 AT
1131175 CATTTTAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
12 3 0.12
13 11 0.44
14 6 0.24
15 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
ATATTATTTTAAT
Found at i:1131190 original size:27 final size:25
Alignment explanation
Indices: 1131132--1131192 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 25
1131122 TGCTCAAAAT
1131132 AATATTATTTTATATATTTAATATTA
1 AATATTATTTTATATATTTAATA-TA
1131158 ATATATTATTTTAATATCATTTTAATA-A
1 A-ATATTATTTT-ATAT-A-TTTAATATA
1131186 AATATTA
1 AATATTA
1131193 ATTATTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
26 1 0.03
27 16 0.52
28 6 0.19
29 1 0.03
30 7 0.23
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (25 bp):
AATATTATTTTATATATTTAATATA
Found at i:1131311 original size:22 final size:20
Alignment explanation
Indices: 1131285--1131330 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 20
1131275 TATTATATTT
*
1131285 TTATTTTAATAATATATAATA
1 TTATTTTAATAAAAT-TAATA
1131306 --ATTATTAATAAAATTAATA
1 TTATT-TTAATAAAATTAATA
1131325 TTATTT
1 TTATTT
1131331 ATTAATTTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 7
0.72 0.03 0.24
Matches are distributed among these distances:
19 8 0.38
20 10 0.48
21 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
TTATTTTAATAAAATTAATA
Found at i:1131336 original size:29 final size:27
Alignment explanation
Indices: 1131290--1131358 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
1131280 TATTTTTATT
* *
1131290 TTAATAATATATAATAATTATTAATAAAA
1 TTAATATTATTTAATAA-T-TTAATAAAA
* *
1131319 TTAATATTATTTATTAATTTCATAAAA
1 TTAATATTATTTAATAATTTAATAAAA
*
1131346 ATAATATTATTTA
1 TTAATATTATTTA
1131359 GTTGTTGAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 20 0.57
28 1 0.03
29 14 0.40
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (27 bp):
TTAATATTATTTAATAATTTAATAAAA
Found at i:1135371 original size:28 final size:28
Alignment explanation
Indices: 1135318--1135376 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
1135308 TATATCTTTT
* *
1135318 TTTTTATCAAAATAGATACTTAAAAGTA
1 TTTTTATCAAAATAGACACTCAAAAGTA
*
1135346 TTTTTAGTCAAAATAGACAC-CCAAAGTA
1 TTTTTA-TCAAAATAGACACTCAAAAGTA
1135374 TTT
1 TTT
1135377 AATCTTTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 15 0.56
29 12 0.44
ACGTcount: A:0.42, C:0.12, G:0.08, T:0.37
Consensus pattern (28 bp):
TTTTTATCAAAATAGACACTCAAAAGTA
Found at i:1135791 original size:26 final size:26
Alignment explanation
Indices: 1135762--1135814 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
1135752 TAAAAAAAAA
1135762 TAGTCAAACATGTTGGAAACAACAAT
1 TAGTCAAACATGTTGGAAACAACAAT
*
1135788 TAGTCAAACATGTTGGAAACAATAAT
1 TAGTCAAACATGTTGGAAACAACAAT
1135814 T
1 T
1135815 TTTTTGATGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.45, C:0.13, G:0.15, T:0.26
Consensus pattern (26 bp):
TAGTCAAACATGTTGGAAACAACAAT
Found at i:1136100 original size:5 final size:5
Alignment explanation
Indices: 1136090--1136162 Score: 76
Period size: 5 Copynumber: 14.8 Consensus size: 5
1136080 GGGTCTGCTT
* * * * *
1136090 TTTTA TTTTA TATAA TTTTA TTTTA TTTTA TTTTA TTTTA TATAA TTATA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* *
1136140 TTTTA TTATA TCTT- TTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA TTTT
1136163 GTTGTAGGAA
Statistics
Matches: 53, Mismatches: 14, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
4 3 0.06
5 50 0.94
ACGTcount: A:0.26, C:0.01, G:0.00, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:1136110 original size:15 final size:15
Alignment explanation
Indices: 1136090--1136145 Score: 85
Period size: 15 Copynumber: 3.7 Consensus size: 15
1136080 GGGTCTGCTT
1136090 TTTTATTTTATATAA
1 TTTTATTTTATATAA
* *
1136105 TTTTATTTTATTTTA
1 TTTTATTTTATATAA
1136120 TTTTATTTTATATAA
1 TTTTATTTTATATAA
*
1136135 TTATATTTTAT
1 TTTTATTTTAT
1136146 TATATCTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 36 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTTATTTTATATAA
Found at i:1136124 original size:30 final size:30
Alignment explanation
Indices: 1136090--1136159 Score: 106
Period size: 30 Copynumber: 2.4 Consensus size: 30
1136080 GGGTCTGCTT
* *
1136090 TTTTATTTTATATAATTTTATTTTATTTTA
1 TTTTATTTTATATAATTATATTTTATTATA
1136120 TTTTATTTTATATAATTATATTTTATTATA
1 TTTTATTTTATATAATTATATTTTATTATA
*
1136150 TCTT-TTTTAT
1 TTTTATTTTAT
1136160 TTTGTTGTAG
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
29 6 0.16
30 31 0.84
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (30 bp):
TTTTATTTTATATAATTATATTTTATTATA
Found at i:1137504 original size:13 final size:13
Alignment explanation
Indices: 1137486--1137513 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1137476 TGACATGTTT
1137486 TTATTTTTTAATA
1 TTATTTTTTAATA
1137499 TTATTTTTTAATA
1 TTATTTTTTAATA
1137512 TT
1 TT
1137514 TCATATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (13 bp):
TTATTTTTTAATA
Found at i:1139503 original size:25 final size:25
Alignment explanation
Indices: 1139455--1139503 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
1139445 AAATTTATAA
*
1139455 AATTTTAGAGAAAATAAACTTAAAG
1 AATTTTAGAGAAAATAAACATAAAG
*
1139480 AATTTTATAGAAATATAAA-ATAAA
1 AATTTTAGAGAAA-ATAAACATAAA
1139504 TTACTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 16 0.76
26 5 0.24
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (25 bp):
AATTTTAGAGAAAATAAACATAAAG
Found at i:1140702 original size:3 final size:3
Alignment explanation
Indices: 1140694--1140720 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1140684 TGTGCTATTC
1140694 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1140721 TGTAACCCCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1140881 original size:20 final size:21
Alignment explanation
Indices: 1140853--1140892 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
1140843 ATAAAATTAT
1140853 TTATAAGTA-CAAAATAAAAA
1 TTATAAGTATCAAAATAAAAA
*
1140873 TTATTAGTATTCAAAATAAA
1 TTATAAGTA-TCAAAATAAA
1140893 CTAGATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
22 9 0.53
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (21 bp):
TTATAAGTATCAAAATAAAAA
Found at i:1145176 original size:37 final size:37
Alignment explanation
Indices: 1145087--1145190 Score: 118
Period size: 37 Copynumber: 2.8 Consensus size: 37
1145077 CTTTCCGTCC
* * *
1145087 TACTAGGATTTAAACTTCTAAAAATAGGAAAAAATTT
1 TACTAGGATTTAAACTCCTAAAAATAGGATAAAATTA
* * * *
1145124 TGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTTA
1 TACTAGGATTTAAACTCCTAAAAATAGGATAAAATTA
** *
1145161 TACTATTATTTAAACTCCTAAAGATAGGAT
1 TACTAGGATTTAAACTCCTAAAAATAGGAT
1145191 CCACAAGCAT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 55 1.00
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (37 bp):
TACTAGGATTTAAACTCCTAAAAATAGGATAAAATTA
Found at i:1145636 original size:23 final size:23
Alignment explanation
Indices: 1145608--1145654 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 23
1145598 TATATATATA
1145608 TATTTAATTAT-ATTTTATTT-ATT
1 TATTT-ATTATAATTTT-TTTCATT
1145631 TATTTATTATAATTTTTTTCATT
1 TATTTATTATAATTTTTTTCATT
1145654 T
1 T
1145655 TTCTTTGTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
TATTTATTATAATTTTTTTCATT
Found at i:1145904 original size:36 final size:34
Alignment explanation
Indices: 1145823--1145907 Score: 88
Period size: 33 Copynumber: 2.5 Consensus size: 34
1145813 CTATGATTAC
* *
1145823 TATTTT-TTTTAGTTAATATTATATGTATATTTA
1 TATTTTATTTTATTTATTATTATATGTATATTTA
1145856 T-TTTTCA-TTTATTTATTATTAT-TGTTACTATTTAA
1 TATTTT-ATTTTATTTATTATTATATG-TA-TATTT-A
1145891 TATTTTATTTTATTTAT
1 TATTTTATTTTATTTAT
1145908 ACTATTTATT
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
32 6 0.14
33 16 0.37
34 5 0.12
35 3 0.07
36 13 0.30
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (34 bp):
TATTTTATTTTATTTATTATTATATGTATATTTA
Found at i:1145929 original size:26 final size:25
Alignment explanation
Indices: 1145862--1145929 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 25
1145852 TTTATTTTTC
1145862 ATTTATTTA--TTATTATTGTTACT
1 ATTTATTTATTTTATTATTGTTACT
*
1145885 ATTTA-ATATTTTATTTTATT-TATACT
1 ATTTATTTATTTTA--TTATTGT-TACT
1145911 ATTTATTTATTTTCATTAT
1 ATTTATTTATTTT-ATTAT
1145930 GTTTTTAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 11
0.73 0.04 0.22
Matches are distributed among these distances:
22 2 0.06
23 5 0.14
24 3 0.08
25 1 0.03
26 18 0.50
27 6 0.17
28 1 0.03
ACGTcount: A:0.28, C:0.04, G:0.01, T:0.66
Consensus pattern (25 bp):
ATTTATTTATTTTATTATTGTTACT
Found at i:1147232 original size:19 final size:19
Alignment explanation
Indices: 1147208--1147244 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1147198 ACCTTACTAA
* *
1147208 CTCTTTTCATTTTTTTCCT
1 CTCTTTTAATTTATTTCCT
1147227 CTCTTTTAATTTATTTCC
1 CTCTTTTAATTTATTTCC
1147245 ATCATCTGTA
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:0.11, C:0.24, G:0.00, T:0.65
Consensus pattern (19 bp):
CTCTTTTAATTTATTTCCT
Found at i:1150544 original size:20 final size:22
Alignment explanation
Indices: 1150504--1150563 Score: 72
Period size: 20 Copynumber: 2.9 Consensus size: 22
1150494 AACAAAAAGG
1150504 GCAAAAAGAAAAAAGAAAAGAA
1 GCAAAAAGAAAAAAGAAAAGAA
*
1150526 GCAAAAA-ATAAAA-AAAAGAA
1 GCAAAAAGAAAAAAGAAAAGAA
**
1150546 -CAAAAATCAAAAAGAAAA
1 GCAAAAAGAAAAAAGAAAA
1150564 AGGGACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 6 0.18
20 11 0.33
21 9 0.27
22 7 0.21
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.03
Consensus pattern (22 bp):
GCAAAAAGAAAAAAGAAAAGAA
Found at i:1151412 original size:23 final size:21
Alignment explanation
Indices: 1151385--1151447 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 21
1151375 TGAAAGAGAC
1151385 AATATTTTCAAAACTTTTGATT
1 AATATTTTCAAAACTTTT-ATT
*
1151407 AAATATTTTTCGAAACTCTTTATT
1 -AATA-TTTTCAAAACT-TTTATT
* *
1151431 GATATTTTCAGAACTTT
1 AATATTTTCAAAACTTT
1151448 GAAAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 2 0.06
22 9 0.26
23 7 0.21
24 13 0.38
25 3 0.09
ACGTcount: A:0.33, C:0.11, G:0.06, T:0.49
Consensus pattern (21 bp):
AATATTTTCAAAACTTTTATT
Found at i:1152293 original size:106 final size:106
Alignment explanation
Indices: 1152174--1153436 Score: 2053
Period size: 106 Copynumber: 11.9 Consensus size: 106
1152164 CGAGATAACA
* *
1152174 CAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCCTAA-TTCAGAGCC
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC-AATTTCAGAGCC
* *
1152238 ATTTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACA
65 AATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
1152280 CAAGTTCAACTTCACGACGAAGGGACCGCTAGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
1152345 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
1152386 CAAGTTTAACTTCACGACGAAGGGACAGCTGGTTGTCAAGAAACAATTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
1152451 ATTTCAACTTCACAGCGAAGGATATTGGACTCAAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
1152492 CAAGTTCAACTTCATGACGAAGGGAACGCTGGTTGTCAATAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1152557 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
1152598 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
1152663 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
1152704 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * *
1152769 ATTTCAACTTCACAGCGAAAGATATTGGACTCGAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * *
1152810 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAATAATTTCCCAATTTCGGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
*
1152875 ATTTCAACTTCACAGCGAAAGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * *
1152916 CAAGTTCAACTTCACGATGAAGGGACCGCTGATTGTCAACAAACAATTTCCCAATTTCGGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1152981 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
1153022 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
1153087 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGTCAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
*
1153128 CAAGTTCAACTTCACGACAAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* *
1153193 ATTTCAACTTCACAGTGAAGGATATTGGACTCGAGACAACG
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* *
1153234 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCCAATTTCGGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * * *
1153299 ATTTCAACTTCACAACAAAGGATATTGGACTCGAGACAACA
66 ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
* * * * *
1153340 CAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAATTTCCCGATTCCAGAGCCA
1 CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
* * *
1153405 ATTTTAACTTCAC-GACGGAGGATATTAGACTC
66 ATTTCAACTTCACAG-CGAAGGATATTGGACTC
1153437 GGAACAATGC
Statistics
Matches: 1084, Mismatches: 71, Indels: 4
0.94 0.06 0.00
Matches are distributed among these distances:
105 2 0.00
106 1082 1.00
ACGTcount: A:0.34, C:0.25, G:0.18, T:0.22
Consensus pattern (106 bp):
CAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCCAATTTCAGAGCCA
ATTTCAACTTCACAGCGAAGGATATTGGACTCCAGACAACG
Found at i:1154210 original size:37 final size:37
Alignment explanation
Indices: 1154120--1154216 Score: 122
Period size: 37 Copynumber: 2.6 Consensus size: 37
1154110 CCTTTTTGTC
1154120 CTACTAGGATTCAAACTCCTAAAAATAGGAAAGAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAAAGAATT
* * * * *
1154157 TTATTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAAAGAATT
** *
1154194 CTACTATTATTTAAACTCCTAAA
1 CTACTAGGATTCAAACTCCTAAA
1154217 GATGGGATCC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.32
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGAAAGAATT
Found at i:1154731 original size:31 final size:34
Alignment explanation
Indices: 1154696--1154764 Score: 92
Period size: 35 Copynumber: 2.1 Consensus size: 34
1154686 TTCTTTGTGT
1154696 TATATTA-TATTATTT-TCCT-A-TTATATATATA
1 TATATTATTATTATTTAT-CTAACTTATATATATA
1154727 TATATTATTATTATTTATCTAACGTTATATATATA
1 TATATTATTATTATTTATCTAAC-TTATATATATA
1154762 TAT
1 TAT
1154765 TCTTACTTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
31 7 0.21
32 10 0.30
33 2 0.06
35 14 0.42
ACGTcount: A:0.36, C:0.06, G:0.01, T:0.57
Consensus pattern (34 bp):
TATATTATTATTATTTATCTAACTTATATATATA
Found at i:1154911 original size:29 final size:28
Alignment explanation
Indices: 1154856--1154911 Score: 67
Period size: 29 Copynumber: 2.0 Consensus size: 28
1154846 TTATTATTGT
** *
1154856 TACTATTTAATATTTTTTTTATTTTTTA
1 TACTATTTAATATTTTCATTATGTTTTA
*
1154884 TACTATTTATTTATTTTCATTATGTTTT
1 TACTATTTA-ATATTTTCATTATGTTTT
1154912 TAGTTTCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 9 0.39
29 14 0.61
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (28 bp):
TACTATTTAATATTTTCATTATGTTTTA
Found at i:1155150 original size:18 final size:19
Alignment explanation
Indices: 1155112--1155151 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
1155102 GTTTTGTTAC
**
1155112 TTTCTTTTATTATTATTAT
1 TTTCTTTTAACATTATTAT
1155131 TTTCTTTTAACATT-TTAT
1 TTTCTTTTAACATTATTAT
1155149 TTT
1 TTT
1155152 AATTTTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.20, C:0.07, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTCTTTTAACATTATTAT
Found at i:1157325 original size:42 final size:41
Alignment explanation
Indices: 1157218--1157439 Score: 148
Period size: 42 Copynumber: 5.3 Consensus size: 41
1157208 TGTTTTTAGA
* * * **
1157218 AAAACGCCGCAATAGGGTGCTAAATTAGCGGCG-TTTATATC
1 AAAACGCCGCAATAGAGTGGTAAATTGGCGGCGATTTA-GCC
** ** *
1157259 ACAAACGCTTCAATAGA-TTATAAATTTTGCGGCGATTTAGCC
1 A-AAACGCCGCAATAGAGTGGTAAA-TTGGCGGCGATTTAGCC
* * *
1157301 AAAACGCCGCAATATAGTGGTAAATTGGCAGCGTTTTTA-CC
1 AAAACGCCGCAATAGAGTGGTAAATTGGCGGCG-ATTTAGCC
* * * * * *
1157342 ACAAACGCCACAATAGAGT-ATAAATTTTGTGGCGATTGAGTC
1 A-AAACGCCGCAATAGAGTGGTAAA-TTGGCGGCGATTTAGCC
* *
1157384 AAAACGCTGCAATAGAGTGGTAAATTGGCGGCG-TTTTGACC
1 AAAACGCCGCAATAGAGTGGTAAATTGGCGGCGATTTAG-CC
1157425 AAAAACGCCGCAATA
1 -AAAACGCCGCAATA
1157440 TATTACACAT
Statistics
Matches: 136, Mismatches: 34, Indels: 21
0.71 0.18 0.11
Matches are distributed among these distances:
40 3 0.02
41 58 0.43
42 71 0.52
43 4 0.03
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (41 bp):
AAAACGCCGCAATAGAGTGGTAAATTGGCGGCGATTTAGCC
Found at i:1157457 original size:83 final size:82
Alignment explanation
Indices: 1157218--1157483 Score: 289
Period size: 83 Copynumber: 3.2 Consensus size: 82
1157208 TGTTTTTAGA
* * * * **
1157218 AAAACGCCGCAATAGGGTGCTAAATTAGCGGCGTTTATATCACAAACGCTTCAATAGATTATAAA
1 AAAACGCCGCAATAGAGTGGTAAATTGGCGGCGTTT-TACCACAAACGCCACAATAGATTATAAA
* *
1157283 TTTTGCGGCGATTTAGCC
65 TTTTGTGGCGATTGAGCC
* * *
1157301 AAAACGCCGCAATATAGTGGTAAATTGGCAGCGTTTTTACCACAAACGCCACAATAGAGTATAAA
1 AAAACGCCGCAATAGAGTGGTAAATTGGCGGCG-TTTTACCACAAACGCCACAATAGATTATAAA
*
1157366 TTTTGTGGCGATTGAGTC
65 TTTTGTGGCGATTGAGCC
* * * * * *
1157384 AAAACGCTGCAATAGAGTGGTAAATTGGCGGCGTTTTGACCAAAAACGCCGCAATATATTACACA
1 AAAACGCCGCAATAGAGTGGTAAATTGGCGGCGTTTT-ACCACAAACGCCACAATAGATTATAAA
* * * **
1157449 TATAGTGGCGTTTGTTCC
65 TTTTGTGGCGATTGAGCC
1157467 TAAAACGCCGCAATAGA
1 -AAAACGCCGCAATAGA
1157484 ATAGTTCCTT
Statistics
Matches: 152, Mismatches: 28, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
82 4 0.03
83 130 0.86
84 18 0.12
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (82 bp):
AAAACGCCGCAATAGAGTGGTAAATTGGCGGCGTTTTACCACAAACGCCACAATAGATTATAAAT
TTTGTGGCGATTGAGCC
Found at i:1157558 original size:42 final size:41
Alignment explanation
Indices: 1157468--1157546 Score: 104
Period size: 42 Copynumber: 1.9 Consensus size: 41
1157458 GTTTGTTCCT
* *
1157468 AAAACGCCGCAATAGAATAGTTCCTTAGTGGCGTTTTCGTAA
1 AAAACGCAGCAATAGAATAGTTACTTAGTGGCGTTTTC-TAA
* * *
1157510 AAAACGCAGCAATAGAGTAGTTATTTTGTGGCGTTTT
1 AAAACGCAGCAATAGAATAGTTACTTAGTGGCGTTTT
1157547 TAATATAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 32 1.00
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (41 bp):
AAAACGCAGCAATAGAATAGTTACTTAGTGGCGTTTTCTAA
Found at i:1158199 original size:20 final size:21
Alignment explanation
Indices: 1158158--1158197 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1158148 CGAGCAATTA
*
1158158 GTTTTTTACTGAACACGAAAT
1 GTTTTTTACTGAACAAGAAAT
1158179 GTTTTTTACTGAACAAGAA
1 GTTTTTTACTGAACAAGAA
1158198 TGATGTTTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (21 bp):
GTTTTTTACTGAACAAGAAAT
Found at i:1159446 original size:12 final size:12
Alignment explanation
Indices: 1159429--1159454 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1159419 TTTAGTTCAT
1159429 CATTTCATCACC
1 CATTTCATCACC
1159441 CATTTCATCACC
1 CATTTCATCACC
1159453 CA
1 CA
1159455 CTAAAACTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.27, C:0.42, G:0.00, T:0.31
Consensus pattern (12 bp):
CATTTCATCACC
Found at i:1167126 original size:21 final size:21
Alignment explanation
Indices: 1167102--1167200 Score: 85
Period size: 21 Copynumber: 4.6 Consensus size: 21
1167092 ATGAAGCAAG
1167102 GGAAACAGAGAGAGCAGCAGC
1 GGAAACAGAGAGAGCAGCAGC
** **
1167123 GGAAGTAGCTAGAGCAGCAGC
1 GGAAACAGAGAGAGCAGCAGC
* *
1167144 GGAAGCAGAGAGAGAAGCAGC
1 GGAAACAGAGAGAGCAGCAGC
*
1167165 GGCAGCACAGAGAGAG--GCAGC
1 GG-A-AACAGAGAGAGCAGCAGC
1167186 GGCAGAACAGAGAGA
1 GG-A-AACAGAGAGA
1167201 AGTAATATAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
21 55 0.85
22 1 0.02
23 9 0.14
ACGTcount: A:0.39, C:0.18, G:0.40, T:0.02
Consensus pattern (21 bp):
GGAAACAGAGAGAGCAGCAGC
Found at i:1167673 original size:43 final size:44
Alignment explanation
Indices: 1167584--1167787 Score: 149
Period size: 43 Copynumber: 4.8 Consensus size: 44
1167574 AGACATATTC
* * * * * * *
1167584 TGCGGCGTTTG-T-AGGAAAACGCCGGTAAAAATAAAAATCTAC
1 TGCGGCGTTTGTTGAAGAAAACGCCGCTAAATATCAACACCTAT
*
1167626 TGCGGCGTTT-TTGAAGAAAACGCCGCTAAACATCAACGA-CTAT
1 TGCGGCGTTTGTTGAAGAAAACGCCGCTAAATATCAAC-ACCTAT
** * *
1167669 TGCGGCGTTTGTCTG--CCAAATGCCGTTAAATATCAACACCTAT
1 TGCGGCGTTTGT-TGAAGAAAACGCCGCTAAATATCAACACCTAT
* *
1167712 TGCGGCG-TT-TT-AATGATAAACGCCGCTAAATATCAATACCTTT
1 TGCGGCGTTTGTTGAA-GA-AAACGCCGCTAAATATCAACACCTAT
* * *
1167755 TGCGGCGTTTGTTGAA-CAATCGCCGCTATATAT
1 TGCGGCGTTTGTTGAAGAAAACGCCGCTAAATAT
1167788 TGTAACCTAT
Statistics
Matches: 129, Mismatches: 20, Indels: 25
0.74 0.11 0.14
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 14 0.11
43 103 0.80
44 4 0.03
45 4 0.03
46 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.28
Consensus pattern (44 bp):
TGCGGCGTTTGTTGAAGAAAACGCCGCTAAATATCAACACCTAT
Found at i:1169389 original size:21 final size:21
Alignment explanation
Indices: 1169365--1169501 Score: 147
Period size: 21 Copynumber: 6.6 Consensus size: 21
1169355 TTTGGAATAA
*
1169365 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
1169386 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
*
1169407 ATCGCAATGCGAA-TAT-GTA-A
1 ATCGCAATGCGAACT-TCG-ACT
*
1169427 ATCGCAATGCGATA-GTCGACT
1 ATCGCAATGCGA-ACTTCGACT
* *
1169448 ATCGCAATGCGAACTTGGGCT
1 ATCGCAATGCGAACTTCGACT
*
1169469 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
1169490 ATCGCATTGCGA
1 ATCGCAATGCGA
1169502 TTTACATATT
Statistics
Matches: 97, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
20 17 0.18
21 80 0.82
ACGTcount: A:0.29, C:0.26, G:0.23, T:0.23
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:1169438 original size:41 final size:42
Alignment explanation
Indices: 1169386--1169501 Score: 130
Period size: 41 Copynumber: 2.8 Consensus size: 42
1169376 AACTTCGACT
* *
1169386 ATCGCAATGCGAACTTGGACTATCGCAATGCGAA-TAT-GTAA
1 ATCGCAATGCGAACTTCGACTATCGCAATGCGAACT-TGGGAA
* **
1169427 ATCGCAATGCGATA-GTCGACTATCGCAATGCGAACTTGGGCT
1 ATCGCAATGCGA-ACTTCGACTATCGCAATGCGAACTTGGGAA
* *
1169469 ATCGCAACGCGAACTTCGACTATCGCATTGCGA
1 ATCGCAATGCGAACTTCGACTATCGCAATGCGA
1169502 TTTACATATT
Statistics
Matches: 63, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
41 32 0.51
42 31 0.49
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.23
Consensus pattern (42 bp):
ATCGCAATGCGAACTTCGACTATCGCAATGCGAACTTGGGAA
Found at i:1169450 original size:62 final size:63
Alignment explanation
Indices: 1169337--1169481 Score: 190
Period size: 62 Copynumber: 2.3 Consensus size: 63
1169327 CGTTGCGATT
* *
1169337 TTGGACTATCGCAA-CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAAC
1 TTGGACTATCGCAAGCGAATATGG-ATAAATCGCAACGCGAACGTCGACTATCGCAATGCGAAC
*
1169400 TTGGACTATCGCAATGCGAATAT-G-TAAATCGCAATGCGATA-GTCGACTATCGCAATGCGAAC
1 TTGGACTATCGCAA-GCGAATATGGATAAATCGCAACGCGA-ACGTCGACTATCGCAATGCGAAC
*
1169462 TTGGGCTATCGCAACGCGAA
1 TTGGACTATCGCAA-GCGAA
1169482 CTTCGACTAT
Statistics
Matches: 74, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
62 52 0.70
63 15 0.20
64 1 0.01
65 6 0.08
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.23
Consensus pattern (63 bp):
TTGGACTATCGCAAGCGAATATGGATAAATCGCAACGCGAACGTCGACTATCGCAATGCGAAC
Found at i:1169516 original size:20 final size:20
Alignment explanation
Indices: 1169491--1169604 Score: 92
Period size: 20 Copynumber: 5.6 Consensus size: 20
1169481 ACTTCGACTA
1169491 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
* * *
1169511 TCGCATTACGATAGT-CGGCTA-
1 TCGCATTGCGAT-TTAC--ATAT
1169532 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
1169552 TCGCATTGCGATAGT-CGACTA-
1 TCGCATTGCGAT-TTAC-A-TAT
*
1169573 TCGCATTACGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
1169593 TCACATTGCGAT
1 TCGCATTGCGAT
1169605 AGTCGAAGTT
Statistics
Matches: 73, Mismatches: 11, Indels: 20
0.70 0.11 0.19
Matches are distributed among these distances:
19 4 0.05
20 38 0.52
21 27 0.37
22 4 0.05
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:1169533 original size:41 final size:41
Alignment explanation
Indices: 1169484--1169735 Score: 291
Period size: 41 Copynumber: 6.1 Consensus size: 41
1169474 AACGCGAACT
*
1169484 TCGACTATCGCATTGCGATTTACATATTCGCATTACGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
*
1169525 TCGGCTATCGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
* *
1169566 TCGACTATCGCATTACGATTTACATATTCACATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
* * *
1169607 TCGAAGT-TCGCGTTGCGATAGTCTA-A-GTTCGCATTGCGATAG
1 TCG-ACTATCGCATTGCGAT--T-TACATATTCGCATTGCGATAG
*
1169649 TCGACTATCACATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
* * *
1169690 TCCAAGT-TCGCATTGCGATAGT-CGA-AGTTCGCATTGCGATAG
1 T-CGACTATCGCATTGCGAT-TTAC-ATA-TTCGCATTGCGATAG
1169732 TCGA
1 TCGA
1169736 AGTTCGCGTT
Statistics
Matches: 181, Mismatches: 19, Indels: 22
0.82 0.09 0.10
Matches are distributed among these distances:
39 2 0.01
40 2 0.01
41 123 0.68
42 50 0.28
43 2 0.01
44 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (41 bp):
TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
Found at i:1169537 original size:21 final size:20
Alignment explanation
Indices: 1169511--1169584 Score: 62
Period size: 21 Copynumber: 3.6 Consensus size: 20
1169501 ATTTACATAT
1169511 TCGCATTACGATAGTCGGCTA
1 TCGCATTACGATAGTC-GCTA
* * *
1169532 TCGCATTGCGAT-TTAC-ATA
1 TCGCATTACGATAGT-CGCTA
*
1169551 TTCGCATTGCGATAGTCGACTA
1 -TCGCATTACGATAGTCG-CTA
1169573 TCGCATTACGAT
1 TCGCATTACGAT
1169585 TTACATATTC
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
19 2 0.05
20 14 0.33
21 24 0.57
22 2 0.05
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.32
Consensus pattern (20 bp):
TCGCATTACGATAGTCGCTA
Found at i:1169622 original size:21 final size:21
Alignment explanation
Indices: 1169596--1169742 Score: 185
Period size: 21 Copynumber: 7.0 Consensus size: 21
1169586 TACATATTCA
1169596 CATTGCGATAGTCGAAGTTCG
1 CATTGCGATAGTCGAAGTTCG
* *
1169617 CGTTGCGATAGTCTAAGTTCG
1 CATTGCGATAGTCGAAGTTCG
* *
1169638 CATTGCGATAGTCG-ACTATCA
1 CATTGCGATAGTCGAAGT-TCG
*
1169659 CATTGCGAT-TTAC-ATA-TTCG
1 CATTGCGATAGT-CGA-AGTTCG
*
1169679 CATTGCGATAGTCCAAGTTCG
1 CATTGCGATAGTCGAAGTTCG
1169700 CATTGCGATAGTCGAAGTTCG
1 CATTGCGATAGTCGAAGTTCG
1169721 CATTGCGATAGTCGAAGTTCG
1 CATTGCGATAGTCGAAGTTCG
1169742 C
1 C
1169743 GTTGAGAATC
Statistics
Matches: 109, Mismatches: 10, Indels: 14
0.82 0.08 0.11
Matches are distributed among these distances:
20 16 0.15
21 92 0.84
22 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (21 bp):
CATTGCGATAGTCGAAGTTCG
Found at i:1169669 original size:83 final size:83
Alignment explanation
Indices: 1169484--1169735 Score: 361
Period size: 83 Copynumber: 3.0 Consensus size: 83
1169474 AACGCGAACT
*
1169484 TCGACTATCGCATTGCGATTTACATATTCGCATTACGATAGTCG--GCTATCGCATTGCGAT--T
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAG-T-TCGCATTGCGATAGT
*
1169545 -TACATATTCGCATTGCGATAG
64 CTA-A-GTTCGCATTGCGATAG
* * *
1169566 TCGACTATCGCATTACGATTTACATATTCACATTGCGATAGTCGAAGTTCGCGTTGCGATAGTCT
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCT
1169631 AAGTTCGCATTGCGATAG
66 AAGTTCGCATTGCGATAG
* * *
1169649 TCGACTATCACATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTCG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCT
1169714 AAGTTCGCATTGCGATAG
66 AAGTTCGCATTGCGATAG
1169732 TCGA
1 TCGA
1169736 AGTTCGCGTT
Statistics
Matches: 154, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
82 52 0.34
83 97 0.63
84 3 0.02
85 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (83 bp):
TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTCGCATTGCGATAGTCT
AAGTTCGCATTGCGATAG
Found at i:1171038 original size:19 final size:19
Alignment explanation
Indices: 1171016--1171121 Score: 97
Period size: 19 Copynumber: 5.4 Consensus size: 19
1171006 AACTTCGACT
* *
1171016 ATCGTAACGAATTTAGAAA
1 ATCGCAACGAATTTGGAAA
**
1171035 ATCGCAACGCGAATTTGGACT
1 ATCGCAA--CGAATTTGGAAA
1171056 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
* * *
1171075 ATCGCAACGCGAACTTCGACA
1 ATCGCAA--CGAATTTGGAAA
1171096 ATCGCAACGAATTT-GAACA
1 ATCGCAACGAATTTGGAA-A
1171115 ATCGCAA
1 ATCGCAA
1171122 TGCGATAGTC
Statistics
Matches: 71, Mismatches: 11, Indels: 10
0.77 0.12 0.11
Matches are distributed among these distances:
18 2 0.03
19 37 0.52
21 32 0.45
ACGTcount: A:0.39, C:0.22, G:0.19, T:0.21
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:1171044 original size:40 final size:40
Alignment explanation
Indices: 1170984--1171126 Score: 189
Period size: 40 Copynumber: 3.5 Consensus size: 40
1170974 ACAAAATTTT
* *
1170984 ATTTAGAATAAATCGTAACGCGAACTTCGACTATCGTAACGA
1 ATTTAG-A-AAATCGCAACGCGAACTTCGACTATCGCAACGA
* *
1171026 ATTTAGAAAATCGCAACGCGAATTTGGACTATCGCAACGA
1 ATTTAGAAAATCGCAACGCGAACTTCGACTATCGCAACGA
* *
1171066 ATTTGGAAAATCGCAACGCGAACTTCGACAATCGCAACGA
1 ATTTAGAAAATCGCAACGCGAACTTCGACTATCGCAACGA
*
1171106 ATTT-GAACAATCGCAATGCGA
1 ATTTAGAA-AATCGCAACGCGA
1171127 TAGTCGAAGT
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
39 3 0.03
40 81 0.89
41 1 0.01
42 6 0.07
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (40 bp):
ATTTAGAAAATCGCAACGCGAACTTCGACTATCGCAACGA
Found at i:1171049 original size:21 final size:20
Alignment explanation
Indices: 1171023--1171126 Score: 97
Period size: 21 Copynumber: 5.2 Consensus size: 20
1171013 ACTATCGTAA
*
1171023 CGAATTTAGAAAATCGCAACG
1 CGAATTTGGAAAATCGCAA-G
**
1171044 CGAATTTGGACTATCGCAA-
1 CGAATTTGGAAAATCGCAAG
1171063 CGAATTTGGAAAATCGCAACG
1 CGAATTTGGAAAATCGCAA-G
* * *
1171084 CGAACTTCGACAATCGCAA-
1 CGAATTTGGAAAATCGCAAG
1171103 CGAATTT-GAACAATCGCAATG
1 CGAATTTGGAA-AATCGCAA-G
1171124 CGA
1 CGA
1171127 TAGTCGAAGT
Statistics
Matches: 68, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
18 2 0.03
19 31 0.46
21 35 0.51
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (20 bp):
CGAATTTGGAAAATCGCAAG
Found at i:1177723 original size:10 final size:10
Alignment explanation
Indices: 1177708--1177746 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
1177698 ATATTATAAC
1177708 ATAAAATTAA
1 ATAAAATTAA
*
1177718 ATAAAAATAAA
1 AT-AAAATTAA
*
1177729 ATAAATTTAA
1 ATAAAATTAA
1177739 ATAAAATT
1 ATAAAATT
1177747 CATAAAAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (10 bp):
ATAAAATTAA
Found at i:1177732 original size:21 final size:21
Alignment explanation
Indices: 1177703--1177744 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1177693 ATCAAATATT
*
1177703 ATAACATAAAATTAAATAAAA
1 ATAAAATAAAATTAAATAAAA
*
1177724 ATAAAATAAATTTAAATAAAA
1 ATAAAATAAAATTAAATAAAA
1177745 TTCATAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (21 bp):
ATAAAATAAAATTAAATAAAA
Found at i:1182899 original size:3 final size:3
Alignment explanation
Indices: 1182891--1182929 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
1182881 CTCCTCACTC
* *
1182891 TCA TCA TCA TTA TCA TCA CCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1182930 AGAGCAGATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:1184954 original size:15 final size:15
Alignment explanation
Indices: 1184926--1184969 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
1184916 CCGCAAAAAT
1184926 TAATAAAAAATTAATA
1 TAAT-AAAAATTAATA
*
1184942 TAATAAAATTTAATA
1 TAATAAAAATTAATA
*
1184957 AAATAATAAATTA
1 TAATAA-AAATTA
1184970 TTAATTTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 15 0.62
16 9 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAATAAAAATTAATA
Found at i:1185106 original size:19 final size:20
Alignment explanation
Indices: 1185079--1185129 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
1185069 AAATAACCAA
* * *
1185079 CAAAATCGCAACGCGATAT-
1 CAAATTCGCAACACAATATC
*
1185098 CAAATTCGCAACACAATTTC
1 CAAATTCGCAACACAATATC
1185118 CAAATTCGCAAC
1 CAAATTCGCAAC
1185130 TCGAACATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.41, C:0.29, G:0.10, T:0.20
Consensus pattern (20 bp):
CAAATTCGCAACACAATATC
Found at i:1186412 original size:30 final size:30
Alignment explanation
Indices: 1186377--1186434 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
1186367 AATTTTCATA
*
1186377 TTCGAGTTAG-GAATTCCAAATTTGCAACTG
1 TTCGAGTT-GCGAATTCCAAATTCGCAACTG
1186407 TTCGAGTTGCGAATTCCAAATTCGCAAC
1 TTCGAGTTGCGAATTCCAAATTCGCAAC
1186435 GCGAATTTGG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 1 0.04
30 25 0.96
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (30 bp):
TTCGAGTTGCGAATTCCAAATTCGCAACTG
Found at i:1187182 original size:23 final size:21
Alignment explanation
Indices: 1187136--1187188 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 21
1187126 TTTTAAGTTT
1187136 TTTTATAATTTAATTTTTTATA
1 TTTT-TAATTTAATTTTTTATA
*
1187158 TTTTTAATTATAATTTATTTTTA
1 TTTTTAATT-TAATTT-TTTATA
*
1187181 TTTGTAAT
1 TTTTTAAT
1187189 ATTTTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 5 0.19
22 10 0.37
23 12 0.44
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (21 bp):
TTTTTAATTTAATTTTTTATA
Found at i:1191570 original size:31 final size:31
Alignment explanation
Indices: 1191535--1191598 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
1191525 CTCATCTCGA
1191535 TGCCTAACGTTTTCTCCGTTATCATTTTAGG
1 TGCCTAACGTTTTCTCCGTTATCATTTTAGG
* *
1191566 TGCCTAATGTTTTCTTCGTTATCATTTTAGG
1 TGCCTAACGTTTTCTCCGTTATCATTTTAGG
1191597 TG
1 TG
1191599 TTCGGGCGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.48
Consensus pattern (31 bp):
TGCCTAACGTTTTCTCCGTTATCATTTTAGG
Found at i:1217950 original size:23 final size:21
Alignment explanation
Indices: 1217923--1217974 Score: 63
Period size: 23 Copynumber: 2.4 Consensus size: 21
1217913 ATTTTTAAAT
1217923 TATTAATTAAA-AAAATCAACTTA
1 TATTAATTAAACAAAAT--A-TTA
1217946 TATT-ATTAAACAAAATATTA
1 TATTAATTAAACAAAATATTA
1217966 TATTAATTA
1 TATTAATTA
1217975 TTAAATATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 7 0.26
21 5 0.19
22 6 0.22
23 9 0.33
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (21 bp):
TATTAATTAAACAAAATATTA
Found at i:1221829 original size:20 final size:20
Alignment explanation
Indices: 1221804--1221886 Score: 105
Period size: 20 Copynumber: 4.1 Consensus size: 20
1221794 CCGTTAGACA
1221804 GGGGGG-ATCGGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
*
1221823 GGGGGGGAATCGGTACCCTCTT
1 -GGGGGGAATCGGTACCC-CCT
* *
1221845 GGGGGGAATCTGTTCCCCCT
1 GGGGGGAATCGGTACCCCCT
*
1221865 GGGGGGAATCTGTACCCCCT
1 GGGGGGAATCGGTACCCCCT
1221885 GG
1 GG
1221887 ACAATCTGAT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
20 29 0.52
21 25 0.45
22 2 0.04
ACGTcount: A:0.12, C:0.28, G:0.40, T:0.20
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCCT
Found at i:1221834 original size:21 final size:21
Alignment explanation
Indices: 1221804--1221886 Score: 107
Period size: 21 Copynumber: 4.0 Consensus size: 21
1221794 CCGTTAGACA
1221804 GGGGGG-ATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
* *
1221824 GGGGGGAATCGGTACCCTCTT
1 GGGGGGAATCGGTACCCCCTG
* *
1221845 GGGGGGAATCTGTTCCCCCT-
1 GGGGGGAATCGGTACCCCCTG
*
1221865 GGGGGGAATCTGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
1221886 G
1 G
1221887 ACAATCTGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
20 25 0.45
21 30 0.55
ACGTcount: A:0.12, C:0.28, G:0.40, T:0.20
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:1221869 original size:41 final size:41
Alignment explanation
Indices: 1221804--1221881 Score: 113
Period size: 41 Copynumber: 1.9 Consensus size: 41
1221794 CCGTTAGACA
1221804 GGGGGGATCGGTACCCCCTGGGGGGGAATCGGTACCCTCTT
1 GGGGGGATCGGTACCCCCTGGGGGGGAATCGGTACCCTCTT
* * *
1221845 GGGGGGAATCTGTTCCCCCT-GGGGGGAATCTGTACCC
1 GGGGGG-ATCGGTACCCCCTGGGGGGGAATCGGTACCC
1221882 CCTGGACAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 22 0.67
42 11 0.33
ACGTcount: A:0.13, C:0.27, G:0.40, T:0.21
Consensus pattern (41 bp):
GGGGGGATCGGTACCCCCTGGGGGGGAATCGGTACCCTCTT
Found at i:1222573 original size:17 final size:16
Alignment explanation
Indices: 1222551--1222584 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1222541 TAAAAACAGT
1222551 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1222568 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1222584 A
1 A
1222585 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1234267 original size:20 final size:19
Alignment explanation
Indices: 1234241--1234300 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 19
1234231 ATTTTTGTGA
1234241 AGAGGGAATCGATCCCCCC
1 AGAGGGAATCGATCCCCCC
*
1234260 ATGAGGGAACCGATTCCCCCC
1 A-GAGGGAATCGA-TCCCCCC
*
1234281 ACAGGGGAATCGATACCCCC
1 AGA-GGGAATCGAT-CCCCC
1234301 TGGGGTTCTG
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
19 1 0.03
20 12 0.35
21 21 0.62
ACGTcount: A:0.27, C:0.37, G:0.25, T:0.12
Consensus pattern (19 bp):
AGAGGGAATCGATCCCCCC
Found at i:1234279 original size:21 final size:20
Alignment explanation
Indices: 1234242--1234281 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
1234232 TTTTTGTGAA
*
1234242 GAGGGAATCGATCCCCCCAT
1 GAGGGAACCGATCCCCCCAT
1234262 GAGGGAACCGATTCCCCCCA
1 GAGGGAACCGA-TCCCCCCA
1234282 CAGGGGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.38, G:0.25, T:0.12
Consensus pattern (20 bp):
GAGGGAACCGATCCCCCCAT
Found at i:1236555 original size:11 final size:12
Alignment explanation
Indices: 1236539--1236573 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
1236529 GGGGATAATT
1236539 GTGTGTTTTAAG
1 GTGTGTTTTAAG
1236551 TGTGTGTTTTAA-
1 -GTGTGTTTTAAG
1236563 GTGTGTTTTAA
1 GTGTGTTTTAA
1236574 AATAAGTGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 11 0.50
13 11 0.50
ACGTcount: A:0.17, C:0.00, G:0.29, T:0.54
Consensus pattern (12 bp):
GTGTGTTTTAAG
Found at i:1236556 original size:13 final size:13
Alignment explanation
Indices: 1236538--1236568 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1236528 GGGGGATAAT
1236538 TGTGTGTTTTAAG
1 TGTGTGTTTTAAG
1236551 TGTGTGTTTTAAG
1 TGTGTGTTTTAAG
1236564 TGTGT
1 TGTGT
1236569 TTTAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.00, G:0.32, T:0.55
Consensus pattern (13 bp):
TGTGTGTTTTAAG
Found at i:1236581 original size:16 final size:16
Alignment explanation
Indices: 1236560--1236592 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
1236550 GTGTGTGTTT
1236560 TAAGTGTGTTTTAAAA
1 TAAGTGTGTTTTAAAA
1236576 TAAGTGTGTTTTAAAA
1 TAAGTGTGTTTTAAAA
1236592 T
1 T
1236593 GATAAATGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (16 bp):
TAAGTGTGTTTTAAAA
Found at i:1237795 original size:21 final size:22
Alignment explanation
Indices: 1237769--1237828 Score: 113
Period size: 21 Copynumber: 2.8 Consensus size: 22
1237759 GATTGTCCAA
1237769 GGGGTACAGATTCCCCCCC-AG
1 GGGGTACAGATTCCCCCCCTAG
1237790 GGGGTACAGATTCCCCCCCTAG
1 GGGGTACAGATTCCCCCCCTAG
1237812 GGGGTACAGATTCCCCC
1 GGGGTACAGATTCCCCC
1237829 TGTCTAACGG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 19 0.50
22 19 0.50
ACGTcount: A:0.18, C:0.37, G:0.28, T:0.17
Consensus pattern (22 bp):
GGGGTACAGATTCCCCCCCTAG
Found at i:1238507 original size:19 final size:19
Alignment explanation
Indices: 1238483--1238553 Score: 88
Period size: 19 Copynumber: 3.7 Consensus size: 19
1238473 TCCCAACAGT
*
1238483 TATGAATTTGAAAATAAGC
1 TATGAATCTGAAAATAAGC
*
1238502 TATGAATCTGACAATAAGC
1 TATGAATCTGAAAATAAGC
* *
1238521 TATGAGTCTGAAAATAAGT
1 TATGAATCTGAAAATAAGC
*
1238540 TGTGAATCTAGAAA
1 TATGAATCT-GAAA
1238554 TATGTTCTGA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
19 40 0.91
20 4 0.09
ACGTcount: A:0.44, C:0.08, G:0.18, T:0.30
Consensus pattern (19 bp):
TATGAATCTGAAAATAAGC
Found at i:1240024 original size:21 final size:21
Alignment explanation
Indices: 1239968--1240018 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
1239958 GATAATCTAT
*
1239968 AATGAGTATCGATACCTCAGG
1 AATGAGTATCGATATCTCAGG
*
1239989 AATGAGTATCGATATCTCATG
1 AATGAGTATCGATATCTCAGG
1240010 AATGAGTAT
1 AATGAGTAT
1240019 TAATATACCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (21 bp):
AATGAGTATCGATATCTCAGG
Found at i:1245892 original size:21 final size:21
Alignment explanation
Indices: 1245866--1245908 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
1245856 GGTTTTTAAC
*
1245866 TCTAGAATGAAGAATAATGTG
1 TCTAGAATGAAGAAGAATGTG
1245887 TCTAGAATGAAGAAGAATGTG
1 TCTAGAATGAAGAAGAATGTG
1245908 T
1 T
1245909 GGGAGAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.42, C:0.05, G:0.26, T:0.28
Consensus pattern (21 bp):
TCTAGAATGAAGAAGAATGTG
Found at i:1248087 original size:17 final size:17
Alignment explanation
Indices: 1248067--1248102 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1248057 AAATTTTATA
1248067 TTTTCTATATTTTTAAT
1 TTTTCTATATTTTTAAT
* *
1248084 TTTTGTATTTTTTTAAT
1 TTTTCTATATTTTTAAT
1248101 TT
1 TT
1248103 CAAAATTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (17 bp):
TTTTCTATATTTTTAAT
Found at i:1248219 original size:18 final size:17
Alignment explanation
Indices: 1248196--1248234 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1248186 AATAGTGAGA
1248196 TATTATAAAACATATTTT
1 TATTAT-AAACATATTTT
**
1248214 TATTATAATTATATTTT
1 TATTATAAACATATTTT
1248231 TATT
1 TATT
1248235 TGTATTTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTATAAACATATTTT
Found at i:1249400 original size:6 final size:6
Alignment explanation
Indices: 1249386--1249420 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
1249376 GAAAATATAT
*
1249386 TAATTA TAATAA TAATTA TAATTA TAATT- TAATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA
1249421 AGTTTTATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 5 0.19
6 21 0.81
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
TAATTA
Found at i:1251125 original size:26 final size:27
Alignment explanation
Indices: 1251070--1251125 Score: 71
Period size: 26 Copynumber: 2.1 Consensus size: 27
1251060 ATAGACTTAT
*
1251070 TAAAAATAAAAAAATAAAAATATGATA
1 TAAAAATAAAAAAATAAAAATATCATA
*
1251097 TAAAAA-AAGAAAATAAAGAATATCA-A
1 TAAAAATAAAAAAATAAA-AATATCATA
1251123 TAA
1 TAA
1251126 TTTATAATCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.73, C:0.02, G:0.05, T:0.20
Consensus pattern (27 bp):
TAAAAATAAAAAAATAAAAATATCATA
Found at i:1258147 original size:43 final size:43
Alignment explanation
Indices: 1257783--1258147 Score: 275
Period size: 43 Copynumber: 8.6 Consensus size: 43
1257773 TATTTTTATT
* **
1257783 TTTATAATTGA-ATCCTTTAATTTTTTT-AT-T-A-TTTTTATT
1 TTTATAATTGATGTCC-TTAATTTTTTTAATCTCACTTTTTACC
* * *
1257822 TTTATAATTGATGTTCC-CAATTTTTGTAAT-TCTACTTTTTATC
1 TTTATAATTGATG-TCCTTAATTTTTTTAATCTC-ACTTTTTACC
* * * *
1257865 TTCATGATTGATATCCTTAATTTTTTTCAATCTCACTTTTTACA
1 TTTATAATTGATGTCCTTAATTTTTTT-AATCTCACTTTTTACC
* * ** * * * *
1257909 TTTATAATTGATGACTTTAAACTTTTCAATCCCACTTTGTACG
1 TTTATAATTGATGTCCTTAATTTTTTTAATCTCACTTTTTACC
** * *
1257952 TTTATAATTGAACT-CTTAA-TTTTTGAATCTCACTTTCTACC
1 TTTATAATTGATGTCCTTAATTTTTTTAATCTCACTTTTTACC
* * * * *
1257993 TCTATAATT-AAGACCCCTAATTTTTATAATCTCACTTTTTACC
1 TTTATAATTGATG-TCCTTAATTTTTTTAATCTCACTTTTTACC
* * *
1258036 TTTATAATTGA-GGCCCTAATTTTTTCAATCTCACTTTTTACC
1 TTTATAATTGATGTCCTTAATTTTTTTAATCTCACTTTTTACC
* * * *
1258078 TTTAAAATTGATGCCCCTAATTTTTTTTATTCTCACTTTTTACC
1 TTTATAATTGATGTCCTTAA-TTTTTTTAATCTCACTTTTTACC
* *
1258122 TTTATAATTGAGGTCTTTAATTTTTT
1 TTTATAATTGATGTCCTTAATTTTTT
1258148 CAATAATACC
Statistics
Matches: 260, Mismatches: 51, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
39 19 0.07
40 5 0.02
41 28 0.11
42 49 0.19
43 90 0.35
44 67 0.26
45 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.06, T:0.52
Consensus pattern (43 bp):
TTTATAATTGATGTCCTTAATTTTTTTAATCTCACTTTTTACC
Found at i:1259291 original size:22 final size:22
Alignment explanation
Indices: 1259261--1259302 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
1259251 CTTTAAATTT
*
1259261 TTAACTAATTTATAATTTTATG
1 TTAAATAATTTATAATTTTATG
1259283 TTAAATAATTTATAATTTTA
1 TTAAATAATTTATAATTTTA
1259303 ATATTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (22 bp):
TTAAATAATTTATAATTTTATG
Found at i:1260261 original size:4 final size:4
Alignment explanation
Indices: 1260252--1260779 Score: 950
Period size: 4 Copynumber: 131.8 Consensus size: 4
1260242 TTAATGTGTC
* * *
1260252 CATA CATA CATA CATA CATA CATA CATG CATG CATA CATG CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1260300 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1260348 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
* * * *
1260396 CATA CATG CATG CATA CATG CATG CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1260444 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1260492 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1260540 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1260588 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1260636 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1260684 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATG
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
*
1260732 CATA TGCATA CATG CATA CAT- CATA CATA CATA CATA CATA CATA CAT
1 CATA --CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CAT
1260780 TATAATTTAC
Statistics
Matches: 509, Mismatches: 12, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
3 3 0.01
4 502 0.99
6 4 0.01
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:1263367 original size:19 final size:19
Alignment explanation
Indices: 1263343--1263380 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1263333 TTGGTTTCAA
*
1263343 AGTATTCGTATTTCTCTTT
1 AGTATTCATATTTCTCTTT
1263362 AGTATTCATATTTCTCTTT
1 AGTATTCATATTTCTCTTT
1263381 CTTTTCATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.18, C:0.16, G:0.08, T:0.58
Consensus pattern (19 bp):
AGTATTCATATTTCTCTTT
Done.