Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 ID=Chr11-JGI_221_v2.0
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: 62681010
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1052928 characters in sequence are not A, C, G, or T
File 113 of 210
Found at i:33267843 original size:15 final size:14
Alignment explanation
Indices: 33267818--33267858 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
33267808 CAAGAAACAA
* *
33267818 AAGACAAAAGAACG
1 AAGAAAAAAGAAAG
33267832 AAGAAGAAAAGAAAG
1 AAGAA-AAAAGAAAG
33267847 AAGAAAAAAGAA
1 AAGAAAAAAGAA
33267859 TAAAAGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 11 0.46
15 13 0.54
ACGTcount: A:0.73, C:0.05, G:0.22, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAGAAAG
Found at i:33267843 original size:22 final size:22
Alignment explanation
Indices: 33267816--33267868 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
33267806 AACAAGAAAC
**
33267816 AAAAGACAAAAGAACGAAGAAG
1 AAAAGACAAAAGAAAAAAGAAG
*
33267838 AAAAGA-AAGAAGAAAAAAGAAT
1 AAAAGACAA-AAGAAAAAAGAAG
33267860 AAAAG-CAAA
1 AAAAGACAAA
33267869 GTGCCAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 3 0.12
22 23 0.88
ACGTcount: A:0.74, C:0.06, G:0.19, T:0.02
Consensus pattern (22 bp):
AAAAGACAAAAGAAAAAAGAAG
Found at i:33290705 original size:22 final size:22
Alignment explanation
Indices: 33290679--33290728 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
33290669 ATCGAAATTT
33290679 CATGAATTTGAGTTAAAAAGGG
1 CATGAATTTGAGTTAAAAAGGG
*
33290701 CATGAATTTGAGTTAAAAATGG
1 CATGAATTTGAGTTAAAAAGGG
33290723 CATGAA
1 CATGAA
33290729 AAAATCTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.06, G:0.24, T:0.28
Consensus pattern (22 bp):
CATGAATTTGAGTTAAAAAGGG
Found at i:33297087 original size:10 final size:10
Alignment explanation
Indices: 33297064--33297111 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
33297054 GAATCTATTG
* *
33297064 AAAATAAATA
1 AAAATTAATT
33297074 AAAATTAATT
1 AAAATTAATT
*
33297084 AAAATTTATTAT
1 AAAA-TTAAT-T
33297096 AAAATTAATT
1 AAAATTAATT
33297106 AAAATT
1 AAAATT
33297112 CAACATGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 19 0.59
11 8 0.25
12 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:33299854 original size:41 final size:42
Alignment explanation
Indices: 33299767--33299921 Score: 133
Period size: 41 Copynumber: 3.8 Consensus size: 42
33299757 AAAAACAGAT
*
33299767 TCACCGGCATTTAGCCTGCTAGGCTTAAAG-CCTGATTCAGTA
1 TCACCGGCATTTAGCCTGCTAGGCTTAAAGTCCTGAAT-AGTA
*
33299809 -CACCGGTATTTAGCCTGCTAGGCTTAAAGTCC-GAA-ATGTA
1 TCACCGGCATTTAGCCTGCTAGGCTTAAAGTCCTGAATA-GTA
** * * *
33299849 TCACCGGCATGAAGCCTGCTAGACGTAAAGT-CTGAATTACT-
1 TCACCGGCATTTAGCCTGCTAGGCTTAAAGTCCTGAA-TAGTA
* ** * *
33299890 TCACCAGCATCAAGCCTGCTAGACGTAAAGTC
1 TCACCGGCATTTAGCCTGCTAGGCTTAAAGTC
33299922 TGTATTACAT
Statistics
Matches: 96, Mismatches: 10, Indels: 14
0.80 0.08 0.12
Matches are distributed among these distances:
39 1 0.01
40 4 0.04
41 87 0.91
42 3 0.03
43 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (42 bp):
TCACCGGCATTTAGCCTGCTAGGCTTAAAGTCCTGAATAGTA
Found at i:33299922 original size:41 final size:42
Alignment explanation
Indices: 33299849--33299934 Score: 138
Period size: 41 Copynumber: 2.1 Consensus size: 42
33299839 CCGAAATGTA
* *
33299849 TCACCGGCATGAAGCCTGCTAGACGTAAAGTCTGAATTAC-T
1 TCACCAGCATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
*
33299890 TCACCAGCATCAAGCCTGCTAGACGTAAAGTCTGTATTACAT
1 TCACCAGCATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
33299932 TCA
1 TCA
33299935 ACCACCTTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 37 0.90
42 4 0.10
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (42 bp):
TCACCAGCATCAAGCCTGCTAGACGTAAAGTCTGAATTACAT
Found at i:33301678 original size:13 final size:13
Alignment explanation
Indices: 33301660--33301685 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
33301650 CAATCAAATG
33301660 CACACAAAATAAT
1 CACACAAAATAAT
33301673 CACACAAAATAAT
1 CACACAAAATAAT
33301686 ATTAATAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.23, G:0.00, T:0.15
Consensus pattern (13 bp):
CACACAAAATAAT
Found at i:33318063 original size:43 final size:43
Alignment explanation
Indices: 33318013--33318130 Score: 139
Period size: 42 Copynumber: 2.8 Consensus size: 43
33318003 CAGAAACACT
* *
33318013 GCTAAAGAACATGATCTTTAGCGGTGCTTTTATCACAAATGCC
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCC
* * * *
33318056 GCTAAAGAACATGACCTTTAGCAGCACTTTT-TCACAAACGTC
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCC
** * *
33318098 GCTAAAGGTCATGTTCTTTAGCGACGCTTTTAT
1 GCTAAAGAACATGATCTTTAGCGGCGCTTTTAT
33318131 TATCTTTAGC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
42 33 0.54
43 28 0.46
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (43 bp):
GCTAAAGAACATGATCTTTAGCGGCGCTTTTATCACAAACGCC
Found at i:33318119 original size:42 final size:43
Alignment explanation
Indices: 33318013--33318104 Score: 123
Period size: 43 Copynumber: 2.2 Consensus size: 43
33318003 CAGAAACACT
* * ** *
33318013 GCTAAAGAACATGATCTTTAGCGGTGCTTTTATCACAAATGCC
1 GCTAAAGAACATGACCTTTAGCAGCACTTTTATCACAAACGCC
*
33318056 GCTAAAGAACATGACCTTTAGCAGCACTTTT-TCACAAACGTC
1 GCTAAAGAACATGACCTTTAGCAGCACTTTTATCACAAACGCC
33318098 GCTAAAG
1 GCTAAAG
33318105 GTCATGTTCT
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 16 0.37
43 27 0.63
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
GCTAAAGAACATGACCTTTAGCAGCACTTTTATCACAAACGCC
Found at i:33318180 original size:64 final size:63
Alignment explanation
Indices: 33318071--33318194 Score: 158
Period size: 64 Copynumber: 2.0 Consensus size: 63
33318061 AGAACATGAC
* * ** **
33318071 CTTTAGCAGCACTTTTTCACAAACGTCGCTAAAGGTCATGTTCTTTAGCGACGCTTTTATTAT
1 CTTTAGCAGCACTTTTACACAAACGCCGCTAAAGAACATAATCTTTAGCGACGCTTTTATTAT
* * *
33318134 CTTTAGCGGCGCTTTTAACACAAACGCCGCTAAAGAACATAATCTTTAGCGGCGCTTTTAT
1 CTTTAGCAGCACTTTT-ACACAAACGCCGCTAAAGAACATAATCTTTAGCGACGCTTTTAT
33318195 CACAAACGCC
Statistics
Matches: 51, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
63 14 0.27
64 37 0.73
ACGTcount: A:0.26, C:0.23, G:0.17, T:0.34
Consensus pattern (63 bp):
CTTTAGCAGCACTTTTACACAAACGCCGCTAAAGAACATAATCTTTAGCGACGCTTTTATTAT
Found at i:33322382 original size:33 final size:33
Alignment explanation
Indices: 33322340--33322407 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
33322330 TAAACCTTGT
33322340 GGATTAACAAAAGTTCTGCAGAGAAAAATCTAG
1 GGATTAACAAAAGTTCTGCAGAGAAAAATCTAG
33322373 GGATTAACAAAAGTTCTGCAGAGAAAAATCTAG
1 GGATTAACAAAAGTTCTGCAGAGAAAAATCTAG
33322406 GG
1 GG
33322408 TTCCAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.44, C:0.12, G:0.24, T:0.21
Consensus pattern (33 bp):
GGATTAACAAAAGTTCTGCAGAGAAAAATCTAG
Found at i:33323218 original size:7 final size:7
Alignment explanation
Indices: 33323206--33323320 Score: 63
Period size: 7 Copynumber: 16.0 Consensus size: 7
33323196 ACTAATTAAT
33323206 CTAAACC
1 CTAAACC
33323213 CTAAACCC
1 CTAAA-CC
33323221 CT-AACC
1 CTAAACC
33323227 TCTAAACC
1 -CTAAACC
* *
33323235 TTGAACC
1 CTAAACC
*
33323242 C-CAACC
1 CTAAACC
33323248 CTTAAACC
1 C-TAAACC
*
33323256 GTAAACC
1 CTAAACC
*
33323263 ATAAACC
1 CTAAACC
* *
33323270 ATAAATC
1 CTAAACC
*
33323277 ATAAACC
1 CTAAACC
33323284 CTAAACC
1 CTAAACC
*
33323291 CATAATCC
1 C-TAAACC
*
33323299 TTAAACC
1 CTAAACC
*
33323306 CATAATCC
1 C-TAAACC
*
33323314 ATAAACC
1 CTAAACC
33323321 TTGAAATAGT
Statistics
Matches: 84, Mismatches: 17, Indels: 14
0.73 0.15 0.12
Matches are distributed among these distances:
6 7 0.08
7 55 0.65
8 22 0.26
ACGTcount: A:0.43, C:0.37, G:0.02, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:33323267 original size:14 final size:14
Alignment explanation
Indices: 33323250--33323320 Score: 70
Period size: 15 Copynumber: 4.9 Consensus size: 14
33323240 CCCCAACCCT
*
33323250 TAAACCGTAAACCA
1 TAAACCATAAACCA
*
33323264 TAAACCATAAATCA
1 TAAACCATAAACCA
*
33323278 TAAACCCTAAACCCA
1 TAAACCATAAA-CCA
* *
33323293 TAATCCTTAAACCCA
1 TAAACCATAAA-CCA
*
33323308 TAATCCATAAACC
1 TAAACCATAAACC
33323321 TTGAAATAGT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
14 24 0.49
15 25 0.51
ACGTcount: A:0.48, C:0.31, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACCATAAACCA
Found at i:33323315 original size:22 final size:22
Alignment explanation
Indices: 33323257--33323322 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
33323247 CCTTAAACCG
*
33323257 TAAA-CCATAAACCATAAAT-CA
1 TAAACCCATAAACCAT-AATCCT
33323278 TAAACCC-TAAACCCATAATCCT
1 TAAACCCATAAA-CCATAATCCT
* *
33323300 TAAACCCATAATCCATAAACCT
1 TAAACCCATAAACCATAATCCT
33323322 T
1 T
33323323 GAAATAGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
21 11 0.29
22 24 0.63
23 3 0.08
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (22 bp):
TAAACCCATAAACCATAATCCT
Found at i:33323369 original size:14 final size:14
Alignment explanation
Indices: 33323344--33323388 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
33323334 TTTTAAACCT
33323344 TAAACCCTAAACTA
1 TAAACCCTAAACTA
* *
33323358 TATACCAC-AAACCA
1 TAAACC-CTAAACTA
33323372 TAAACCCTAAACTA
1 TAAACCCTAAACTA
33323386 TAA
1 TAA
33323389 TGATAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:33323518 original size:15 final size:16
Alignment explanation
Indices: 33323493--33323560 Score: 67
Period size: 15 Copynumber: 4.6 Consensus size: 16
33323483 CCCTAATTTG
33323493 ACCCTTAAATCCCTAA
1 ACCCTTAAATCCCTAA
33323509 ACCC-TAAATCCCT-A
1 ACCCTTAAATCCCTAA
*
33323523 ACTCTT-AA-CCCTTAA
1 ACCCTTAAATCCC-TAA
*
33323538 ACCCTTAACT-CCT-A
1 ACCCTTAAATCCCTAA
33323552 ACCCTTAAA
1 ACCCTTAAA
33323561 CCTTAAATCC
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
13 3 0.07
14 16 0.37
15 17 0.40
16 7 0.16
ACGTcount: A:0.35, C:0.38, G:0.00, T:0.26
Consensus pattern (16 bp):
ACCCTTAAATCCCTAA
Found at i:33323542 original size:29 final size:29
Alignment explanation
Indices: 33323493--33323567 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
33323483 CCCTAATTTG
*
33323493 ACCCTTAAATCCCTAAACCCTAAA-TCCCTA
1 ACCCTTAAA-CCTTAAACCCTAAACT-CCTA
* * *
33323523 ACTCTTAACCCTTAAACCCTTAACTCCTA
1 ACCCTTAAACCTTAAACCCTAAACTCCTA
33323552 ACCCTTAAACCTTAAA
1 ACCCTTAAACCTTAAA
33323568 TCCCAACCAT
Statistics
Matches: 38, Mismatches: 6, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
29 30 0.79
30 8 0.21
ACGTcount: A:0.36, C:0.37, G:0.00, T:0.27
Consensus pattern (29 bp):
ACCCTTAAACCTTAAACCCTAAACTCCTA
Found at i:33323566 original size:21 final size:22
Alignment explanation
Indices: 33323493--33323583 Score: 87
Period size: 22 Copynumber: 4.1 Consensus size: 22
33323483 CCCTAATTTG
*
33323493 ACCCTTAAATCCCTAAACCC-TAA
1 ACCCTTAACT-CCT-AACCCTTAA
* * *
33323516 ATCCCTAACTCTTAACCCTTAA
1 ACCCTTAACTCCTAACCCTTAA
33323538 ACCCTTAACTCCTAACCCTTAA
1 ACCCTTAACTCCTAACCCTTAA
* * *
33323560 A-CCTTAAATCCCAACCATTAA
1 ACCCTTAACTCCTAACCCTTAA
33323581 ACC
1 ACC
33323584 ATAATCCCTA
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
21 23 0.41
22 26 0.46
23 7 0.12
ACGTcount: A:0.36, C:0.38, G:0.00, T:0.25
Consensus pattern (22 bp):
ACCCTTAACTCCTAACCCTTAA
Found at i:33324004 original size:41 final size:41
Alignment explanation
Indices: 33323959--33324137 Score: 218
Period size: 41 Copynumber: 4.4 Consensus size: 41
33323949 TAAAATATTT
*
33323959 TTAGCGGCGCTTTTTCAAAAATACCGCTAAAGCACCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCACCGAGCA
* * * *
33324000 TTAGCGGTGCTTTTTCAAAAACGCCGCTAAAGCCCCTAGCA
1 TTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCACCGAGCA
* * * *
33324041 TTAGCGGCGCTTTCTCAAAAAACGCCGCTAAAG-AACGAAACA
1 TTAGCGGCGCTTTTTC-AAAAACACCGCTAAAGCACCG-AGCA
* * *
33324083 TTAGCGGCGCTTGTTCAAAAACGCCGCTAAAGAACC-AGCA
1 TTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCACCGAGCA
33324123 TTAGCGGCGCTTTTT
1 TTAGCGGCGCTTTTT
33324138 TGAAAACGCC
Statistics
Matches: 119, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
40 17 0.14
41 67 0.56
42 35 0.29
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCACCGAGCA
Found at i:33324128 original size:82 final size:82
Alignment explanation
Indices: 33323959--33324135 Score: 243
Period size: 83 Copynumber: 2.2 Consensus size: 82
33323949 TAAAATATTT
* * * * *
33323959 TTAGCGGCGCTTTTTCAAAAATACCGCTAAAGCACCGAGCATTAGCGGTGCTTTTTCAAAAACGC
1 TTAGCGGCGCTTTCTCAAAAATACCGCTAAAGCAACGAACATTAGCGGCGCTTGTTCAAAAACGC
**
33324024 CGCTAAAGCCCCTAGCA
66 CGCTAAAGAACCTAGCA
33324041 TTAGCGGCGCTTTCTCAAAAA-ACGCCGCTAAAG-AACGAAACATTAGCGGCGCTTGTTCAAAAA
1 TTAGCGGCGCTTTCTCAAAAATA--CCGCTAAAGCAACG-AACATTAGCGGCGCTTGTTCAAAAA
33324104 CGCCGCTAAAGAACC-AGCA
63 CGCCGCTAAAGAACCTAGCA
33324123 TTAGCGGCGCTTT
1 TTAGCGGCGCTTT
33324136 TTTGAAAACG
Statistics
Matches: 85, Mismatches: 7, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
81 1 0.01
82 40 0.47
83 44 0.52
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (82 bp):
TTAGCGGCGCTTTCTCAAAAATACCGCTAAAGCAACGAACATTAGCGGCGCTTGTTCAAAAACGC
CGCTAAAGAACCTAGCA
Found at i:33328369 original size:27 final size:27
Alignment explanation
Indices: 33328056--33328361 Score: 382
Period size: 27 Copynumber: 11.3 Consensus size: 27
33328046 ATTTGGGGGC
* *
33328056 AAATGACCGAAATACCCTCAATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* *
33328083 AAATGACTGAAATACCCTAGATCGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* *
33328110 AAATTA-TCGAAATACCCTCTATGGGTA
1 AAATGACT-GAAATACCCTCGATGGGTA
* * *
33328137 AAATTACTGAAATAACCTTGATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* *
33328164 AAATGACTGAAATACCTTCGATGGATA
1 AAATGACTGAAATACCCTCGATGGGTA
** *
33328191 AAATGACCAAAATACCCTTGATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* **
33328218 AAATAACCAAAATACCCTCGATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
*
33328245 AAATGA-TCGAAATACCTTCGATGGGTA
1 AAATGACT-GAAATACCCTCGATGGGTA
*
33328272 AAATGACTGAAATACCCTTGATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* *
33328299 AAATGATTGAAATACCCTCAATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
*
33328326 AAATGATTGAAATACCCTCGATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
33328353 AAATGACTG
1 AAATGACTG
33328362 TTATACCCCT
Statistics
Matches: 241, Mismatches: 34, Indels: 8
0.85 0.12 0.03
Matches are distributed among these distances:
26 1 0.00
27 238 0.99
28 2 0.01
ACGTcount: A:0.40, C:0.17, G:0.19, T:0.25
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCGATGGGTA
Found at i:33328727 original size:28 final size:28
Alignment explanation
Indices: 33328694--33328754 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
33328684 ATTGTATTGA
* *
33328694 TTACTGTATTGGGCTAAGGCCCACACTG
1 TTACTGTAATGGGCCAAGGCCCACACTG
33328722 TTACTGTAATGGGCCAAGGCCCACACTG
1 TTACTGTAATGGGCCAAGGCCCACACTG
33328750 -TACTG
1 TTACTG
33328755 ATACTGTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
27 5 0.16
28 26 0.84
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (28 bp):
TTACTGTAATGGGCCAAGGCCCACACTG
Found at i:33328775 original size:33 final size:32
Alignment explanation
Indices: 33328686--33328777 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 32
33328676 ATTACTGCAT
* *
33328686 TGTATTGATTACTGTATTGGGCTAAGGCCCACAC
1 TGTA-TGA-TACTGTATAGGGCTCAGGCCCACAC
33328720 TG--T--TACTGTA-ATGGGC-CAAGGCCCACAC
1 TGTATGATACTGTATA-GGGCTC-AGGCCCACAC
33328748 TGTACTGATACTGTATAGGGCTCAGGCCCA
1 TGTA-TGATACTGTATAGGGCTCAGGCCCA
33328778 GATTAATTCT
Statistics
Matches: 47, Mismatches: 2, Indels: 19
0.69 0.03 0.28
Matches are distributed among these distances:
28 23 0.49
31 2 0.04
33 18 0.38
34 4 0.09
ACGTcount: A:0.24, C:0.24, G:0.25, T:0.27
Consensus pattern (32 bp):
TGTATGATACTGTATAGGGCTCAGGCCCACAC
Found at i:33329571 original size:26 final size:26
Alignment explanation
Indices: 33329504--33329575 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
33329494 CAGCGAACCC
* * *
33329504 TAAAGAAAATCTTTTTTGGCGCAATA
1 TAAAGAAAAGCCTTTGTGGCGCAATA
* * *
33329530 TGAAAGGAACGACTTTGTGGCGCAATA
1 T-AAAGAAAAGCCTTTGTGGCGCAATA
33329557 TAAAGAAAAGCCTTTGTGG
1 TAAAGAAAAGCCTTTGTGG
33329576 TGACTTATGA
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
26 16 0.44
27 20 0.56
ACGTcount: A:0.36, C:0.12, G:0.24, T:0.28
Consensus pattern (26 bp):
TAAAGAAAAGCCTTTGTGGCGCAATA
Found at i:33335308 original size:22 final size:22
Alignment explanation
Indices: 33335283--33335324 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
33335273 TTTCCTGAGA
*
33335283 TATTGTGATATC-CTCTTCTTGG
1 TATTGCGATATCACT-TTCTTGG
33335305 TATTGCGATATCACTTTCTT
1 TATTGCGATATCACTTTCTT
33335325 TAAGGGGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (22 bp):
TATTGCGATATCACTTTCTTGG
Found at i:33336780 original size:22 final size:22
Alignment explanation
Indices: 33336748--33336830 Score: 121
Period size: 22 Copynumber: 3.8 Consensus size: 22
33336738 AAGAAAATGC
*
33336748 CTAACGTACTAAGCTCTCATGT
1 CTAACGTACTAAGCTCTCATGG
* * * *
33336770 TTAACGAACTAAACCCTCATGG
1 CTAACGTACTAAGCTCTCATGG
33336792 CTAACGTACTAAGCTCTCATGG
1 CTAACGTACTAAGCTCTCATGG
33336814 CTAACGTACTAAGCTCT
1 CTAACGTACTAAGCTCT
33336831 TATGATGTAT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 52 1.00
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.28
Consensus pattern (22 bp):
CTAACGTACTAAGCTCTCATGG
Found at i:33341897 original size:3 final size:3
Alignment explanation
Indices: 33341889--33341934 Score: 83
Period size: 3 Copynumber: 15.3 Consensus size: 3
33341879 GGTTAAAAAT
*
33341889 ATA ATA ATA ATA ATA ATA ATA ATA ATA AAA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
33341935 AGGTAAAGTT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:33347216 original size:36 final size:35
Alignment explanation
Indices: 33347088--33347216 Score: 109
Period size: 36 Copynumber: 3.6 Consensus size: 35
33347078 AGTACATTAA
* * * *
33347088 TAATCCAACCAAAACACACCAGTTGCTCATAAAAGC
1 TAATACAACCGAAACACACCA-ATGCTCAGAAAAGC
* * *
33347124 TAA-ACCATCCGAAACACACCACTGCTCAGAAGAGC
1 TAATA-CAACCGAAACACACCAATGCTCAGAAAAGC
* *
33347159 TAATACAACCGAAACAAACCAATGACTCCGAAAAGC
1 TAATACAACCGAAACACACCAATG-CTCAGAAAAGC
* *
33347195 -AAGTCCAATCGAAACACACCAA
1 TAA-TACAACCGAAACACACCAA
33347217 AATAGAGAGT
Statistics
Matches: 75, Mismatches: 14, Indels: 8
0.77 0.14 0.08
Matches are distributed among these distances:
35 32 0.43
36 43 0.57
ACGTcount: A:0.46, C:0.31, G:0.11, T:0.12
Consensus pattern (35 bp):
TAATACAACCGAAACACACCAATGCTCAGAAAAGC
Found at i:33354101 original size:35 final size:35
Alignment explanation
Indices: 33354039--33354167 Score: 134
Period size: 36 Copynumber: 3.6 Consensus size: 35
33354029 ACTACATCGA
** *
33354039 TAATCCAACCAAAACACATCAAATGCTCATAAGAGC
1 TAATCCAACTGAAACACA-CCAATGCTCATAAGAGC
* * *
33354075 TAAACCATCTGAAACACACCAATGCTCATAATAGC
1 TAATCCAACTGAAACACACCAATGCTCATAAGAGC
* *
33354110 TAATCCAACTGAAACAAACTAATGGCTC-TGAAGAGC
1 TAATCCAACTGAAACACACCAAT-GCTCAT-AAGAGC
* *
33354146 TAGTCCAACCGAAACACACCAA
1 TAATCCAACTGAAACACACCAA
33354168 AACAAAGAGT
Statistics
Matches: 76, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
35 35 0.46
36 41 0.54
ACGTcount: A:0.44, C:0.28, G:0.11, T:0.17
Consensus pattern (35 bp):
TAATCCAACTGAAACACACCAATGCTCATAAGAGC
Found at i:33361110 original size:39 final size:39
Alignment explanation
Indices: 33361052--33361129 Score: 129
Period size: 39 Copynumber: 2.0 Consensus size: 39
33361042 GATTCCCTTC
** *
33361052 CATTTTCTGTTTGTTTGTTTGTTTCTGGTTAATTCGGGT
1 CATTTTCTGTTTGGCTGTTTGTTTCTGGTTAATCCGGGT
33361091 CATTTTCTGTTTGGCTGTTTGTTTCTGGTTAATCCGGGT
1 CATTTTCTGTTTGGCTGTTTGTTTCTGGTTAATCCGGGT
33361130 AACTTCATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.08, C:0.13, G:0.24, T:0.55
Consensus pattern (39 bp):
CATTTTCTGTTTGGCTGTTTGTTTCTGGTTAATCCGGGT
Found at i:33362751 original size:19 final size:20
Alignment explanation
Indices: 33362727--33362766 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
33362717 AGATGCTTCT
*
33362727 ATTTATG-AATTTGGATTGG
1 ATTTATGCAATTCGGATTGG
*
33362746 ATTTATGCAGTTCGGATTGG
1 ATTTATGCAATTCGGATTGG
33362766 A
1 A
33362767 AAATAATTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.25, C:0.05, G:0.28, T:0.42
Consensus pattern (20 bp):
ATTTATGCAATTCGGATTGG
Found at i:33363514 original size:18 final size:18
Alignment explanation
Indices: 33363471--33363515 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
33363461 AATTGAAAGT
33363471 TATTAAAAT-TTATAAAA
1 TATTAAAATATTATAAAA
* *
33363488 AATAAAAATATTATAAAA
1 TATTAAAATATTATAAAA
*
33363506 TATTCAAATA
1 TATTAAAATA
33363516 ATCACTAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
TATTAAAATATTATAAAA
Found at i:33369940 original size:18 final size:18
Alignment explanation
Indices: 33369900--33369941 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
33369890 TTCCGCGATA
**
33369900 AATAACGTTTTGAAAATT
1 AATAACGTTTTGAAAAAG
*
33369918 TATAACGTTTTGAAAAAG
1 AATAACGTTTTGAAAAAG
33369936 AATAAC
1 AATAAC
33369942 TTATGAATAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (18 bp):
AATAACGTTTTGAAAAAG
Found at i:33371684 original size:24 final size:24
Alignment explanation
Indices: 33371636--33371682 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
33371626 ATTGGTCATA
*
33371636 GAGAGAATTGAGGAGGGATATTTG
1 GAGAGAATTGAGGAGGAATATTTG
*
33371660 GAGAGATTTGAGGAGAGAATATT
1 GAGAGAATTGAGGAG-GAATATT
33371683 GGGATTTGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.36, C:0.00, G:0.38, T:0.26
Consensus pattern (24 bp):
GAGAGAATTGAGGAGGAATATTTG
Found at i:33372573 original size:27 final size:27
Alignment explanation
Indices: 33372338--33372562 Score: 326
Period size: 27 Copynumber: 8.3 Consensus size: 27
33372328 GAGAGGTTAA
*
33372338 TAAAATGATCGAAATACCCCCCATAGGG
1 TAAAATGACCGAAATA-CCCCCATAGGG
*
33372366 TAAAATGACCAAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
33372393 TAAAATGACCGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* *
33372420 TAAAATAACCGAAATACCCCCATAAGG
1 TAAAATGACCGAAATACCCCCATAGGG
* *
33372447 TAAAATGATCGAAATACCCCTATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* *
33372474 TAAAATGACTGAAATACCCCCATAGGC
1 TAAAATGACCGAAATACCCCCATAGGG
* *
33372501 TAGAATGACCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* *
33372528 TAAAATGACC-AAATACCCCTATTGGG
1 TAAAATGACCGAAATACCCCCATAGGG
33372554 TAAAATGAC
1 TAAAATGAC
33372563 TGTTATACCC
Statistics
Matches: 176, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
26 22 0.12
27 140 0.80
28 14 0.08
ACGTcount: A:0.42, C:0.24, G:0.16, T:0.18
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGG
Found at i:33375943 original size:56 final size:57
Alignment explanation
Indices: 33375866--33376152 Score: 291
Period size: 56 Copynumber: 5.1 Consensus size: 57
33375856 ATTTTTCAAT
* * * * * * *
33375866 AGCAT-AATAATGCTTACTTTGAGACACTGAAGCAACA-CTTTAATTTAATTTAGGAC
1 AGCATGAA-AATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGAC
* * * * *
33375922 AGCAT-AATAATACTCAATTTGAAACA-TTAAATAGCAGC-TTAATTTAATTTAAGAC
1 AGCATGAA-AATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGAC
* * *
33375977 AGCATGAAAATGGTCAATTTGATAA-ACTAAAACACCAGCTTTAATTCAATTTATGAC
1 AGCATGAAAATGCTCAATTTGA-AACACTAAAACAACAGCTTTAATTCAATTTAAGAC
* *
33376034 AACATGAAAATGCTCAATTTGAAACACTAAAACAACAGC-TTGATTCAATTTAAGAC
1 AGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGAC
* * * * * *
33376090 AGTATGAAAATGCTAAATTTGAAACACTTAAACAACAACTTTAATTCAATCTATGAC
1 AGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGAC
33376147 AGCATG
1 AGCATG
33376153 CAAACAGTAA
Statistics
Matches: 194, Mismatches: 30, Indels: 13
0.82 0.13 0.05
Matches are distributed among these distances:
55 40 0.21
56 87 0.45
57 67 0.35
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (57 bp):
AGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGCTTTAATTCAATTTAAGAC
Found at i:33376109 original size:113 final size:113
Alignment explanation
Indices: 33375866--33376152 Score: 323
Period size: 113 Copynumber: 2.6 Consensus size: 113
33375856 ATTTTTCAAT
* * * * * * *
33375866 AGCAT-AATAATGCTTACTTTGAGACACTGAAGCAAC-ACTTTAATTTAATTTAGGACAGCAT-A
1 AGCATGAA-AATGCTAAATTTGAAACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGA
* * * *
33375928 ATAATACTCAATTTGAAACATTAAATAGCAGCTTAATTTAATTTAAGAC
65 ATAATACTCAATTTGAAACATAAAACAACAGCTTAATTCAATTTAAGAC
* * * * *
33375977 AGCATGAAAATGGTCAATTTGATAA-ACTAAAACACCAGCTTTAATTCAATTTATGACAACATGA
1 AGCATGAAAATGCTAAATTTGA-AACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGA
* *
33376041 A-AATGCTCAATTTGAAACACTAAAACAACAGCTTGATTCAATTTAAGAC
65 ATAATACTCAATTTGAAACA-TAAAACAACAGCTTAATTCAATTTAAGAC
* * *
33376090 AGTATGAAAATGCTAAATTTGAAACACTTAAACAACAACTTTAATTCAATCTATGACAGCATG
1 AGCATGAAAATGCTAAATTTGAAACACTAAAACAACAACTTTAATTCAATTTATGACAGCATG
33376153 CAAACAGTAA
Statistics
Matches: 145, Mismatches: 25, Indels: 10
0.81 0.14 0.06
Matches are distributed among these distances:
111 24 0.17
112 43 0.30
113 78 0.54
ACGTcount: A:0.43, C:0.16, G:0.11, T:0.30
Consensus pattern (113 bp):
AGCATGAAAATGCTAAATTTGAAACACTAAAACAACAACTTTAATTCAATTTATGACAGCATGAA
TAATACTCAATTTGAAACATAAAACAACAGCTTAATTCAATTTAAGAC
Found at i:33376986 original size:18 final size:18
Alignment explanation
Indices: 33376963--33376998 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33376953 TTTATGATTG
*
33376963 GGTTGGGTAATTGGGTTT
1 GGTTGGATAATTGGGTTT
*
33376981 GGTTGGATACTTGGGTTT
1 GGTTGGATAATTGGGTTT
33376999 AGGTGAATAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.03, G:0.42, T:0.44
Consensus pattern (18 bp):
GGTTGGATAATTGGGTTT
Found at i:33378620 original size:2 final size:2
Alignment explanation
Indices: 33378615--33378641 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
33378605 ACCCTAAATT
33378615 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 T
33378642 GCACCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:33384582 original size:27 final size:27
Alignment explanation
Indices: 33384550--33384607 Score: 91
Period size: 27 Copynumber: 2.1 Consensus size: 27
33384540 CTGCCAGTAC
33384550 AGTATATGTGGCAAAGCCAC-CAGTAAT
1 AGTATATGTGGCAAAGCCACTC-GTAAT
*
33384577 AGTATATGTGGCAGAGCCACTCGTAAT
1 AGTATATGTGGCAAAGCCACTCGTAAT
33384604 AGTA
1 AGTA
33384608 CTTCCTCCAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (27 bp):
AGTATATGTGGCAAAGCCACTCGTAAT
Found at i:33384830 original size:27 final size:26
Alignment explanation
Indices: 33384810--33384991 Score: 115
Period size: 27 Copynumber: 7.0 Consensus size: 26
33384800 ATTTTAACCT
*
33384810 ATAAGGGTATTTCGATAATTTCACAA
1 ATAAGGGTATTTCGATAATTTAACAA
* * *
33384836 ACTAGGGGTATTTCGGTAATTTCACAA
1 A-TAAGGGTATTTCGATAATTTAACAA
*
33384863 ATCAAGGGTATTTCGATAATTTTACAA
1 AT-AAGGGTATTTCGATAATTTAACAA
** * *
33384890 ATTGGGGGTATTTCAATAATTTTACACA
1 A-TAAGGGTATTTCGATAATTTAACA-A
* *
33384918 CTGAGGGTATTT---TAA--TAA-AA
1 ATAAGGGTATTTCGATAATTTAACAA
* * *
33384938 CTAGGGGTATTTCGATAATTTCACAA
1 ATAAGGGTATTTCGATAATTTAACAA
* * * *
33384964 ATTAGGGGTGTTTCGGTAATTTTACAA
1 A-TAAGGGTATTTCGATAATTTAACAA
33384991 A
1 A
33384992 CTGGAGGTAT
Statistics
Matches: 127, Mismatches: 18, Indels: 21
0.77 0.11 0.13
Matches are distributed among these distances:
20 11 0.09
21 1 0.01
22 2 0.02
23 3 0.02
24 3 0.02
25 2 0.02
26 4 0.03
27 99 0.78
28 2 0.02
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (26 bp):
ATAAGGGTATTTCGATAATTTAACAA
Found at i:33384898 original size:54 final size:54
Alignment explanation
Indices: 33384812--33385012 Score: 195
Period size: 54 Copynumber: 3.9 Consensus size: 54
33384802 TTTAACCTAT
* **
33384812 AAGGGTATTTCGATAATTTCACAAACTAGGGGTATTTCGGTAATTTCACAAATC
1 AAGGGTATTTCGATAATTTTACAAACTAGGGGTATTTCAATAATTTCACAAATC
* * * *
33384866 AAGGGTATTTCGATAATTTTACAAATTGGGGGTATTTCAATAATTTTACACA-C
1 AAGGGTATTTCGATAATTTTACAAACTAGGGGTATTTCAATAATTTCACAAATC
* * *
33384919 TGAGGGTATTT---TAA---TA-AAACTAGGGGTATTTCGATAATTTCACAAATT
1 -AAGGGTATTTCGATAATTTTACAAACTAGGGGTATTTCAATAATTTCACAAATC
* * * *
33384967 AGGGGTGTTTCGGTAATTTTACAAACT-GGAGGTATTTCAGTAATTT
1 AAGGGTATTTCGATAATTTTACAAACTAGG-GGTATTTCAATAATTT
33385013 TACACACCGG
Statistics
Matches: 118, Mismatches: 19, Indels: 20
0.75 0.12 0.13
Matches are distributed among these distances:
47 32 0.27
48 2 0.02
50 3 0.03
51 3 0.03
53 5 0.04
54 73 0.62
ACGTcount: A:0.32, C:0.11, G:0.20, T:0.37
Consensus pattern (54 bp):
AAGGGTATTTCGATAATTTTACAAACTAGGGGTATTTCAATAATTTCACAAATC
Found at i:33384957 original size:101 final size:101
Alignment explanation
Indices: 33384834--33385019 Score: 300
Period size: 101 Copynumber: 1.8 Consensus size: 101
33384824 ATAATTTCAC
* * *
33384834 AAACTAGGGGTATTTCGGTAATTTCACAAATCAAGGGTATTTCGATAATTTTACAAATTGGGGGT
1 AAACTAGGGGTATTTCGATAATTTCACAAATCAAGGGTATTTCGATAATTTTACAAACTGGAGGT
33384899 ATTTCAATAATTTTACACACTGAGGGTATTTTAATA
66 ATTTCAATAATTTTACACACTGAGGGTATTTTAATA
* * * *
33384935 AAACTAGGGGTATTTCGATAATTTCACAAATTAGGGGTGTTTCGGTAATTTTACAAACTGGAGGT
1 AAACTAGGGGTATTTCGATAATTTCACAAATCAAGGGTATTTCGATAATTTTACAAACTGGAGGT
*
33385000 ATTTCAGTAATTTTACACAC
66 ATTTCAATAATTTTACACAC
33385020 CGGGAGTATT
Statistics
Matches: 77, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
101 77 1.00
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (101 bp):
AAACTAGGGGTATTTCGATAATTTCACAAATCAAGGGTATTTCGATAATTTTACAAACTGGAGGT
ATTTCAATAATTTTACACACTGAGGGTATTTTAATA
Found at i:33385004 original size:27 final size:27
Alignment explanation
Indices: 33384935--33385045 Score: 111
Period size: 27 Copynumber: 4.1 Consensus size: 27
33384925 TATTTTAATA
33384935 AAACTAGGGGTATTTC-GATAATTTCAC
1 AAACTAGGGGTATTTCAG-TAATTTCAC
* * * *
33384962 AAATTAGGGGTGTTTCGGTAATTTTAC
1 AAACTAGGGGTATTTCAGTAATTTCAC
*
33384989 AAACT-GGAGGTATTTCAGTAATTTTAC
1 AAACTAGG-GGTATTTCAGTAATTTCAC
* *
33385016 ACAC-CGGGAGTATTTCAGTAATTTCAC
1 AAACTAGGG-GTATTTCAGTAATTTCAC
33385043 AAA
1 AAA
33385046 TCGGGGGTCT
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 3 0.04
27 67 0.94
28 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (27 bp):
AAACTAGGGGTATTTCAGTAATTTCAC
Found at i:33388962 original size:22 final size:22
Alignment explanation
Indices: 33388935--33389003 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
33388925 TAATTTCTCC
33388935 TTTCTTTCTTTCTCTTTCTCTT
1 TTTCTTTCTTTCTCTTTCTCTT
* *
33388957 TTTCTTTCTTTCCCTTTCT-GT
1 TTTCTTTCTTTCTCTTTCTCTT
*
33388978 TTTCGTTTCTATCTCTGTT-TCTT
1 TTTC-TTTCTTTCTCT-TTCTCTT
33389001 TTT
1 TTT
33389004 TTATTTTCTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
21 5 0.13
22 28 0.72
23 6 0.15
ACGTcount: A:0.01, C:0.25, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTCTTTCTTTCTCTTTCTCTT
Found at i:33389053 original size:21 final size:20
Alignment explanation
Indices: 33389012--33389065 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
33389002 TTTTATTTTC
* *
33389012 TTTATCTATTTATTCTTTATT
1 TTTAT-TATATATTATTTATT
33389033 TTTATTATATATTATTATATT
1 TTTATTATATATTATT-TATT
* *
33389054 ATTATAATATAT
1 TTTATTATATAT
33389066 ATACTTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 9 0.32
21 19 0.68
ACGTcount: A:0.31, C:0.04, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTATTATATATTATTTATT
Found at i:33389458 original size:3 final size:3
Alignment explanation
Indices: 33389450--33389493 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
33389440 AACTAAAAGA
33389450 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT A
33389494 GCAGAAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:33392975 original size:41 final size:41
Alignment explanation
Indices: 33392872--33392993 Score: 115
Period size: 41 Copynumber: 3.0 Consensus size: 41
33392862 CGTCTCCGAG
* *
33392872 ATAT-TCAGGC-TCAGTGCCTAGCAGGCTTAATGCCGGTGAA
1 ATATATCAGGCTTCAG-GCCTAGCAGGCTTCATGCCGGTGTA
* * * * *
33392912 ATATTTCAGACTTTATGTCTAGCAGGCTTCATGCCGGTGTA
1 ATATATCAGGCTTCAGGCCTAGCAGGCTTCATGCCGGTGTA
* * *
33392953 CTGA-ATCAGGCTTCAGGCCTAGCAGGCTTCGTGCCAGTGTA
1 AT-ATATCAGGCTTCAGGCCTAGCAGGCTTCATGCCGGTGTA
33392994 TCATTTCAAG
Statistics
Matches: 65, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
40 4 0.06
41 58 0.89
42 3 0.05
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.29
Consensus pattern (41 bp):
ATATATCAGGCTTCAGGCCTAGCAGGCTTCATGCCGGTGTA
Found at i:33397357 original size:16 final size:18
Alignment explanation
Indices: 33397331--33397363 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33397321 TTAATTTAAA
33397331 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
33397348 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
33397364 CCCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:33416076 original size:10 final size:10
Alignment explanation
Indices: 33416061--33416085 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33416051 TTTATATGAA
33416061 TCCATAAACT
1 TCCATAAACT
33416071 TCCATAAACT
1 TCCATAAACT
33416081 TCCAT
1 TCCAT
33416086 TCACATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.36, C:0.32, G:0.00, T:0.32
Consensus pattern (10 bp):
TCCATAAACT
Found at i:33431326 original size:51 final size:50
Alignment explanation
Indices: 33431250--33431445 Score: 205
Period size: 51 Copynumber: 3.9 Consensus size: 50
33431240 TATCAACACG
* *
33431250 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGA-AGATAATGGTCACA
* * ** *
33431301 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGTTTTGGTCACT
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAGATAATGGTCACA
* * * * * *
33431352 TGTGTAGTACTATATGCAGGCTACTACGTGAACCGAAAAGT-TTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAGA-TAATGGTCACA
* * *
33431402 TGTGTAGTACTACGTGAAGGCTACTACGTGTATCGAATGATAAT
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA-GATAAT
33431446 AATTACACGA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
50 43 0.36
51 75 0.62
52 2 0.02
ACGTcount: A:0.27, C:0.16, G:0.26, T:0.31
Consensus pattern (50 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAGATAATGGTCACA
Found at i:33443745 original size:32 final size:32
Alignment explanation
Indices: 33443701--33444016 Score: 384
Period size: 32 Copynumber: 9.9 Consensus size: 32
33443691 GTCACAACAA
* * * *
33443701 TAATATGTTCGGCACAAAGCCATCAGTAGCAG
1 TAATATGATCAGCACAAAGCCATCAGTAACGG
* * *
33443733 TGATATGATCGGCACACAGCCATCAGTAACGG
1 TAATATGATCAGCACAAAGCCATCAGTAACGG
* * *
33443765 TAATATGATCAGTACAGAGCCATCAGTAATGG
1 TAATATGATCAGCACAAAGCCATCAGTAACGG
* * *
33443797 TAAAATGATTAGCACAAAGCCATCAATAACGG
1 TAATATGATCAGCACAAAGCCATCAGTAACGG
*
33443829 TAATATGATCGGCACAAAGCCATCAGTAACGG
1 TAATATGATCAGCACAAAGCCATCAGTAACGG
*
33443861 TAATATGATCAACACAAAGCCATCAGTAACGG
1 TAATATGATCAGCACAAAGCCATCAGTAACGG
* * * *
33443893 TAATATGATTATCACAAATCTATCAGTAACGG
1 TAATATGATCAGCACAAAGCCATCAGTAACGG
* *
33443925 TAATATGATCAGTACAAAGCCATCAGTAATGG
1 TAATATGATCAGCACAAAGCCATCAGTAACGG
*
33443957 TAATATGATC-GACACAAAGCCATCAATAACGG
1 TAATATGATCAG-CACAAAGCCATCAGTAACGG
* *
33443989 TAATATGATC-GAAACAAAGCCATTAGTA
1 TAATATGATCAG-CACAAAGCCATCAGTA
33444017 GTATTGCAGC
Statistics
Matches: 245, Mismatches: 38, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
31 1 0.00
32 244 1.00
ACGTcount: A:0.40, C:0.19, G:0.18, T:0.22
Consensus pattern (32 bp):
TAATATGATCAGCACAAAGCCATCAGTAACGG
Found at i:33444066 original size:23 final size:23
Alignment explanation
Indices: 33444034--33444079 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
33444024 AGCAAAGCTG
* *
33444034 ACAGACAAATCAGTCATTTAACC
1 ACAGAAAAATCAATCATTTAACC
33444057 ACAGAAAAATCAATCATTTAACC
1 ACAGAAAAATCAATCATTTAACC
33444080 TCGAGGGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.22
Consensus pattern (23 bp):
ACAGAAAAATCAATCATTTAACC
Found at i:33444127 original size:27 final size:27
Alignment explanation
Indices: 33444088--33444437 Score: 387
Period size: 27 Copynumber: 13.0 Consensus size: 27
33444078 CCTCGAGGGT
* *
33444088 ATTACAGTTATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
33444115 ATTACGGTCATTTGACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
** *
33444142 ATTACTATCATTTTACCATACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
33444169 ATTATGGTTATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
33444196 ATTACGGTCATTTTATCCTAAAAGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
33444223 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
33444250 ATTATGATCATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
33444277 ATTACGGTCATTTAAACCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * * *
33444304 ATTACGATTATTTTACCCTACAAGGAC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
33444331 ATTACGGTTATTTTACCATACAGGGTC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
33444358 ATCACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
* * **
33444385 ATTACGGTTATTTTACCCTATAGGAAC
1 ATTACGGTCATTTTACCCTACAGGGGC
33444412 ATTA-GGTTCATTTTACCCTACAGGGG
1 ATTACGG-TCATTTTACCCTACAGGGG
33444438 TAATTTGATA
Statistics
Matches: 264, Mismatches: 58, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
26 2 0.01
27 262 0.99
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.34
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGC
Found at i:33444451 original size:27 final size:26
Alignment explanation
Indices: 33444421--33444532 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 26
33444411 CATTAGGTTC
33444421 ATTTTACCC-TACAGGGGTAATTTGATA
1 ATTTTACCCAT-CAGGGGT-ATTTGATA
33444448 ATTTTACCCATC-GAGGGTATTTCGATA
1 ATTTTACCCATCAG-GGGTATTT-GATA
* *
33444475 ATTTTACCCATCGGGGGTATTTTAGTA
1 ATTTTACCCATCAGGGGTATTTGA-TA
*
33444502 ATTTTACCCATCAGGGGTATTTTGGTA
1 ATTTTACCCATCAGGGGTA-TTTGATA
33444529 ATTT
1 ATTT
33444533 AACAACCTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 12
0.82 0.04 0.13
Matches are distributed among these distances:
26 6 0.08
27 64 0.85
28 5 0.07
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (26 bp):
ATTTTACCCATCAGGGGTATTTGATA
Found at i:33444466 original size:81 final size:81
Alignment explanation
Indices: 33444088--33444483 Score: 235
Period size: 81 Copynumber: 4.9 Consensus size: 81
33444078 CCTCGAGGGT
* * ** * * * * * * *
33444088 ATTACAGTTATTTTACCCTACAGGGGCATTACGGTCATTTGACCCTACAGGGGTATTACTATCAT
1 ATTACGGTTATTTTACCATACAGGGTAATCACGATAATTTTACCCTATAGGGGTATTACGATTAT
* * *
33444153 TTTACCATACAGGGGC
66 TTTACCCTACAAGGAC
* * * * * * * * * * *
33444169 ATTATGGTTATTTTACCCTACAGGGGT-ATTACGGTCATTTTATCCTAAAAGGGCATTACGGTCA
1 ATTACGGTTATTTTACCATACA-GGGTAATCACGATAATTTTACCCTATAGGGGTATTACGATTA
* * **
33444233 TTTTACCCTATAGGGGT
65 TTTTACCCTACAAGGAC
* * * * ** * * * * * * *
33444250 ATTATGATCATTTTACCCTACAGGGGCATTACGGTCATTTAAACCTACAGGGGCATTACGATTAT
1 ATTACGGTTATTTTACCATACAGGGTAATCACGATAATTTTACCCTATAGGGGTATTACGATTAT
33444315 TTTACCCTACAAGGAC
66 TTTACCCTACAAGGAC
* * * *
33444331 ATTACGGTTATTTTACCATACAGGGTCATCACGGTCATTTTACCCTATAGGGGTATTACGGTTAT
1 ATTACGGTTATTTTACCATACAGGGTAATCACGATAATTTTACCCTATAGGGGTATTACGATTAT
*
33444396 TTTACCCTA-TAGGAAC
66 TTTACCCTACAAGG-AC
* ** * *
33444412 ATTA-GGTTCATTTTACCCTACAGGGGTAAT-TTGATAATTTTACCC-ATCGAGGGTATTTCGAT
1 ATTACGGTT-ATTTTACCATACA-GGGTAATCACGATAATTTTACCCTATAG-GGGTATTACGAT
*
33444474 AATTTTACCC
63 TATTTTACCC
33444484 ATCGGGGGTA
Statistics
Matches: 261, Mismatches: 48, Indels: 12
0.81 0.15 0.04
Matches are distributed among these distances:
80 13 0.05
81 239 0.92
82 9 0.03
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.35
Consensus pattern (81 bp):
ATTACGGTTATTTTACCATACAGGGTAATCACGATAATTTTACCCTATAGGGGTATTACGATTAT
TTTACCCTACAAGGAC
Found at i:33447652 original size:22 final size:21
Alignment explanation
Indices: 33447599--33447662 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
33447589 GCCAGTAGTT
*
33447599 AGAATGGCTAAGAGCCATAAAG
1 AGAATGGCTAA-AGCCATAAAC
* * *
33447621 AGGATAGCTATAAGCTATAAAC
1 AGAATGGCTA-AAGCCATAAAC
33447643 AGAATGGCTACAAGCCATAA
1 AGAATGGCTA-AAGCCATAA
33447663 GTATAGTAAT
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.16, G:0.22, T:0.17
Consensus pattern (21 bp):
AGAATGGCTAAAGCCATAAAC
Found at i:33447722 original size:32 final size:32
Alignment explanation
Indices: 33447679--33447920 Score: 324
Period size: 32 Copynumber: 7.6 Consensus size: 32
33447669 TAATATTTTT
* * *
33447679 GGCACAAAGCCATCAGTAGCAGTGATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* *
33447711 GGCACACAGCCATCAGTAACGATAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
*
33447743 GGTACAAAGCCATCAGTAACGGTAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
*
33447775 GACACAAAGCCATCAGTAACGGTAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* *
33447807 GACACAAAGCCATCAGTAACGGTAATATGACC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * *
33447839 GGTACAAAGCCATCAATAACGGTAATATAATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * *
33447871 GGTACAAAGCCATCAATAACGGTAATAT-AAC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
*
33447902 TGGCACAAGGCCATCAGTA
1 -GGCACAAAGCCATCAGTA
33447921 GCATCGTAGC
Statistics
Matches: 189, Mismatches: 20, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
31 2 0.01
32 187 0.99
ACGTcount: A:0.39, C:0.22, G:0.20, T:0.19
Consensus pattern (32 bp):
GGCACAAAGCCATCAGTAACGGTAATATGATC
Found at i:33448190 original size:27 final size:27
Alignment explanation
Indices: 33448156--33448592 Score: 468
Period size: 27 Copynumber: 16.3 Consensus size: 27
33448146 TTGACCTCAA
* *
33448156 GGGTATTACGGTCATTTTACCCTATAA
1 GGGTATTACGGTCATTTTACCCTACAG
* *
33448183 GGGCATTACGGTCATTTTACCCTATAG
1 GGGTATTACGGTCATTTTACCCTACAG
* * *
33448210 GGGTATTACGATCAGTTTACCCTATAG
1 GGGTATTACGGTCATTTTACCCTACAG
* * ** *
33448237 GGGCATTATGGTCATTTTATGCTACAA
1 GGGTATTACGGTCATTTTACCCTACAG
* *
33448264 GGGTATTACAGTCATTTTACCCTGCAG
1 GGGTATTACGGTCATTTTACCCTACAG
* *
33448291 GGGCATTACGATCATTTTACCCTACAG
1 GGGTATTACGGTCATTTTACCCTACAG
* *
33448318 GGGTATTACGATCATTTTACCCTATAG
1 GGGTATTACGGTCATTTTACCCTACAG
* *
33448345 GGGCATTACGATCATTTTACCCTACAG
1 GGGTATTACGGTCATTTTACCCTACAG
* * *
33448372 GGGTATTACAGTTATTTTACCCTATAG
1 GGGTATTACGGTCATTTTACCCTACAG
* *
33448399 GGGCATTATGGTCATTTTACCCTACAG
1 GGGTATTACGGTCATTTTACCCTACAG
* *
33448426 GGGTATTACGGTTATTTTACCCTACAT
1 GGGTATTACGGTCATTTTACCCTACAG
* * * *
33448453 GGGCATTACGGTCATATTACCTTATAG
1 GGGTATTACGGTCATTTTACCCTACAG
*
33448480 GGGTATTATGGTCATTTTACCCTACAG
1 GGGTATTACGGTCATTTTACCCTACAG
** *
33448507 GGACATTACGGTCATTTTACCCTA-AA
1 GGGTATTACGGTCATTTTACCCTACAG
**
33448533 GGGTATTTTGGTCATTTTACCC-ATC-G
1 GGGTATTACGGTCATTTTACCCTA-CAG
* * *
33448559 GGGTATTTCGGTAATTTTATCC-ATCAG
1 GGGTATTACGGTCATTTTACCCTA-CAG
33448586 GGGTATT
1 GGGTATT
33448593 TCAGTAAAAG
Statistics
Matches: 342, Mismatches: 65, Indels: 6
0.83 0.16 0.01
Matches are distributed among these distances:
25 1 0.00
26 41 0.12
27 300 0.88
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GGGTATTACGGTCATTTTACCCTACAG
Found at i:33448599 original size:27 final size:26
Alignment explanation
Indices: 33448546--33448599 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 26
33448536 TATTTTGGTC
*
33448546 ATTTTACCCATCGGGGTATTTCGGTA
1 ATTTTACCCATCGGGGTATTTCAGTA
*
33448572 ATTTTATCCATCAGGGGTATTTCAGTA
1 ATTTTACCCATC-GGGGTATTTCAGTA
33448599 A
1 A
33448600 AAGGTGTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 11 0.44
27 14 0.56
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (26 bp):
ATTTTACCCATCGGGGTATTTCAGTA
Found at i:33452489 original size:15 final size:17
Alignment explanation
Indices: 33452463--33452494 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
33452453 GTATTATTGA
33452463 ATAAATTTATA-TGTTT
1 ATAAATTTATATTGTTT
33452479 ATAAA-TTATATTGTTT
1 ATAAATTTATATTGTTT
33452495 TCTATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
ATAAATTTATATTGTTT
Found at i:33452819 original size:20 final size:20
Alignment explanation
Indices: 33452796--33452843 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
33452786 TTGCACTCCA
33452796 GTGCCT-TTGTCTACACTTCG
1 GTGCCTCTT-TCTACACTTCG
* *
33452816 GTGCCTCTTTCTGCACTTTG
1 GTGCCTCTTTCTACACTTCG
33452836 GTGCCTCT
1 GTGCCTCT
33452844 GTTATGCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.06, C:0.31, G:0.21, T:0.42
Consensus pattern (20 bp):
GTGCCTCTTTCTACACTTCG
Found at i:33456021 original size:3 final size:3
Alignment explanation
Indices: 33456013--33456074 Score: 79
Period size: 3 Copynumber: 20.7 Consensus size: 3
33456003 AATCATTAAA
* * * * *
33456013 AAT AAT AAT AAT TAT ATT AAC AAT AAT AAT AAT AAT AAT ATT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33456061 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
33456075 AATTCTTATT
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:33456031 original size:21 final size:21
Alignment explanation
Indices: 33456007--33456073 Score: 89
Period size: 21 Copynumber: 3.0 Consensus size: 21
33455997 AATTACAATC
*
33456007 ATTAAAAATAATAATAATTAT
1 ATTAAAAATAATAATAATAAT
33456028 ATTAACAATAATAATAATAATAAT
1 ATT-A-AA-AATAATAATAATAAT
*
33456052 ATTAACAATAATAATAATAAT
1 ATTAAAAATAATAATAATAAT
33456073 A
1 A
33456074 AAATTCTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
21 19 0.46
22 2 0.05
23 3 0.07
24 17 0.41
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (21 bp):
ATTAAAAATAATAATAATAAT
Found at i:33456045 original size:24 final size:24
Alignment explanation
Indices: 33456013--33456074 Score: 115
Period size: 24 Copynumber: 2.6 Consensus size: 24
33456003 AATCATTAAA
*
33456013 AATAATAATAATTATATTAACAAT
1 AATAATAATAATAATATTAACAAT
33456037 AATAATAATAATAATATTAACAAT
1 AATAATAATAATAATATTAACAAT
33456061 AATAATAATAATAA
1 AATAATAATAATAA
33456075 AATTCTTATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (24 bp):
AATAATAATAATAATATTAACAAT
Found at i:33456792 original size:5 final size:5
Alignment explanation
Indices: 33456784--33456828 Score: 74
Period size: 5 Copynumber: 9.2 Consensus size: 5
33456774 ATTTTTACTT
*
33456784 ATATA ATATA ATACA ATATA ATATA ATATA ATATA ATAT- ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
33456829 AACATAAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 4 0.11
5 33 0.89
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:33463410 original size:3 final size:3
Alignment explanation
Indices: 33463402--33463463 Score: 70
Period size: 3 Copynumber: 20.7 Consensus size: 3
33463392 AATCATTAAA
* * * * * *
33463402 AAT AAT AAT AAT TAT ATT AAC AAT AAT AAT AAT AAT TAT ATT AAC AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
33463450 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
33463464 AATTCTTATT
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:33463434 original size:24 final size:24
Alignment explanation
Indices: 33463402--33463461 Score: 120
Period size: 24 Copynumber: 2.5 Consensus size: 24
33463392 AATCATTAAA
33463402 AATAATAATAATTATATTAACAAT
1 AATAATAATAATTATATTAACAAT
33463426 AATAATAATAATTATATTAACAAT
1 AATAATAATAATTATATTAACAAT
33463450 AATAATAATAAT
1 AATAATAATAAT
33463462 AAAATTCTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (24 bp):
AATAATAATAATTATATTAACAAT
Found at i:33464186 original size:5 final size:5
Alignment explanation
Indices: 33464174--33464214 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
33464164 ATTTTTACTT
* *
33464174 ATATA ATACA ATACA ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA A
33464215 AACATAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (5 bp):
ATATA
Found at i:33473286 original size:14 final size:14
Alignment explanation
Indices: 33473264--33473297 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
33473254 AAATACGCAT
*
33473264 TTTATTGATCCTTA
1 TTTACTGATCCTTA
33473278 TTTACTGATCCTTA
1 TTTACTGATCCTTA
33473292 TTTACT
1 TTTACT
33473298 AAGGGTTTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.21, C:0.18, G:0.06, T:0.56
Consensus pattern (14 bp):
TTTACTGATCCTTA
Found at i:33478114 original size:69 final size:69
Alignment explanation
Indices: 33478031--33478285 Score: 350
Period size: 69 Copynumber: 3.7 Consensus size: 69
33478021 TGCCATAGTT
* ** * *
33478031 GGACATTATAATGTCATTTTGATTCTATAAAATATATGTTTCAATTGAATTTTAATGTTGTCTAT
1 GGACATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCAT
33478096 TTTA
66 TTTA
* * *
33478100 GGACATTGTCATGTCATTTTGGTGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTATCCAT
1 GGACATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCAT
*
33478165 TTTG
66 TTTA
* * * *
33478169 GGATATTATCATGTCATTTTGGTTGTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCAT
1 GGACATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCAT
33478234 TTTA
66 TTTA
* * *
33478238 AGACATTACCATGTCATTTT-AGTGGTATAAAATACATGTTTCAATTGA
1 GGACATTATCATGTCATTTTGA-TGGTATAAAATATATGTTTCAATTGA
33478286 GGTAGCAATG
Statistics
Matches: 163, Mismatches: 22, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
69 163 1.00
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (69 bp):
GGACATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGTCCAT
TTTA
Found at i:33478210 original size:138 final size:138
Alignment explanation
Indices: 33478035--33478285 Score: 403
Period size: 138 Copynumber: 1.8 Consensus size: 138
33478025 ATAGTTGGAC
* * *
33478035 ATTATAATGTCATTTTGATTCTATAAAATATATGTTTCAATTGAATTTTAATGTTGTCTATTTTA
1 ATTATAATGTCATTTTGATTCTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTA
* ** * *
33478100 GGACATTGTCATGTCATTTTGGTGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTATCCAT
66 AGACATTACCATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGAAGTTTAATGTTATCCAT
33478165 TTTGGGAT
131 TTTGGGAT
* * *
33478173 ATTATCATGTCATTTTGGTTGTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTA
1 ATTATAATGTCATTTTGATTCTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTA
33478238 AGACATTACCATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGA
66 AGACATTACCATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGA
33478286 GGTAGCAATG
Statistics
Matches: 102, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
138 102 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (138 bp):
ATTATAATGTCATTTTGATTCTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTA
AGACATTACCATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGAAGTTTAATGTTATCCAT
TTTGGGAT
Found at i:33478328 original size:138 final size:138
Alignment explanation
Indices: 33478045--33478326 Score: 323
Period size: 138 Copynumber: 2.0 Consensus size: 138
33478035 ATTATAATGT
* * * * * * **
33478045 CATTTTGATTCTATAAAATATATGTTTCAATTGAATTTTAATGTTGTCTATTTTAGGACATTGTC
1 CATTTTGGTTGTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTAAGACATTACC
* * ** ** ****** * *
33478110 ATGTCATTTTGGTGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTATCCATTTTGGGATAT
66 ATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGAAGTGCAATGCAATCCAAAACAAGACAA
*
33478175 TATCATGT
131 TATCATGA
33478183 CATTTTGGTTGTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTAAGACATTACC
1 CATTTTGGTTGTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTAAGACATTACC
*
33478248 ATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGAGGTAGCAATGCAATCCAAAACAAGACA
66 ATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGAAGT-GCAATGCAATCCAAAACAAGACA
33478313 CAT-TCATGA
130 -ATATCATGA
33478322 CATTT
1 CATTT
33478327 GGCTTAGTTT
Statistics
Matches: 118, Mismatches: 24, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
138 95 0.81
139 22 0.19
140 1 0.01
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (138 bp):
CATTTTGGTTGTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTAAGACATTACC
ATGTCATTTTAGTGGTATAAAATACATGTTTCAATTGAAGTGCAATGCAATCCAAAACAAGACAA
TATCATGA
Found at i:33478510 original size:57 final size:55
Alignment explanation
Indices: 33478367--33478529 Score: 166
Period size: 57 Copynumber: 2.9 Consensus size: 55
33478357 GTTTAATTGT
* * *
33478367 TGTTGTCCATTGTTATTTATTATTGGAATTAAAATGTCAAAAAGGGGTGTTTAGTT
1 TGTTGTCCATTGTTATTTATTATTGGAATTAAGATGTCAAAAA-GGGTGTTTAATC
* * * *
33478423 TGCTATCCAGTT-TTCTTTATTATTGGAATTAAGCTGTCAAAAAGGGTGTTTAATCAC
1 TGTTGTCCA-TTGTTATTTATTATTGGAATTAAGATGTCAAAAAGGGTGTTTAAT--C
* ** * * *
33478480 TGTTGTCCATTGTTATTTATTACTAAAATTAAGTTTTTAAAAAGGGTGTT
1 TGTTGTCCATTGTTATTTATTATTGGAATTAAGATGTCAAAAAGGGTGTT
33478530 ATAAGTTGTT
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
55 10 0.11
56 37 0.43
57 40 0.46
ACGTcount: A:0.29, C:0.09, G:0.18, T:0.44
Consensus pattern (55 bp):
TGTTGTCCATTGTTATTTATTATTGGAATTAAGATGTCAAAAAGGGTGTTTAATC
Found at i:33481800 original size:26 final size:26
Alignment explanation
Indices: 33481771--33481839 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
33481761 CATTCTGACC
*
33481771 CACAGCTCGTGTGAGTAGACCAATTT
1 CACAGCTCGTGTGAGCAGACCAATTT
* * *
33481797 CACAACTCGTGTGAGCAGGCCCATTT
1 CACAGCTCGTGTGAGCAGACCAATTT
* *
33481823 CATAGCTCATGTGAGCA
1 CACAGCTCGTGTGAGCA
33481840 ACGATGTAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (26 bp):
CACAGCTCGTGTGAGCAGACCAATTT
Found at i:33485873 original size:24 final size:25
Alignment explanation
Indices: 33485846--33485924 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
33485836 AATACTCCAC
*
33485846 AGCTCGTGAGAGCA-AACAATTTAT
1 AGCTCATGAGAGCATAACAATTTAT
* * * *
33485870 AGCTTATAAGAGCATATCGATTTAT
1 AGCTCATGAGAGCATAACAATTTAT
* * *
33485895 AGCTCATGAGAGCATACCGATCTAT
1 AGCTCATGAGAGCATAACAATTTAT
33485920 AGCTC
1 AGCTC
33485925 GAGTGAGCAT
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
24 11 0.24
25 34 0.76
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (25 bp):
AGCTCATGAGAGCATAACAATTTAT
Found at i:33485897 original size:25 final size:25
Alignment explanation
Indices: 33485864--33485940 Score: 86
Period size: 25 Copynumber: 3.1 Consensus size: 25
33485854 AGAGCAAACA
* *
33485864 ATTTATAGCTTATAAGAGCATATCG
1 ATTTATAGCTCATAAGAGCATACCG
*
33485889 ATTTATAGCTCATGAGAGCATACCG
1 ATTTATAGCTCATAAGAGCATACCG
*
33485914 ATCTATAGCTCGAGT--GAGCATACCG
1 ATTTATAGCTC-A-TAAGAGCATACCG
33485939 AT
1 AT
33485941 CTACAACTCG
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
25 44 0.96
26 1 0.02
27 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.30
Consensus pattern (25 bp):
ATTTATAGCTCATAAGAGCATACCG
Found at i:33485941 original size:25 final size:25
Alignment explanation
Indices: 33485879--33485986 Score: 123
Period size: 25 Copynumber: 4.3 Consensus size: 25
33485869 TAGCTTATAA
* * *
33485879 GAGCATATCGATTTATAGCTC-ATGA
1 GAGCATACCGATCTATAGCTCGA-GT
33485904 GAGCATACCGATCTATAGCTCGAGT
1 GAGCATACCGATCTATAGCTCGAGT
* *
33485929 GAGCATACCGATCTACAACTCGAGT
1 GAGCATACCGATCTATAGCTCGAGT
33485954 GAGCATACCGA-CTCATAGCTCGTA-T
1 GAGCATACCGATCT-ATAGCTCG-AGT
33485979 GAGCATAC
1 GAGCATAC
33485987 ATGTACATGA
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
24 2 0.03
25 69 0.95
26 2 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (25 bp):
GAGCATACCGATCTATAGCTCGAGT
Found at i:33498042 original size:16 final size:16
Alignment explanation
Indices: 33498015--33498061 Score: 76
Period size: 16 Copynumber: 2.9 Consensus size: 16
33498005 CGCTGTATTA
*
33498015 GAATATAGGCGTAATG
1 GAATAGAGGCGTAATG
*
33498031 GATTAGAGGCGTAATG
1 GAATAGAGGCGTAATG
33498047 GAATAGAGGCGTAAT
1 GAATAGAGGCGTAAT
33498062 AGCAAATCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 28 1.00
ACGTcount: A:0.36, C:0.06, G:0.34, T:0.23
Consensus pattern (16 bp):
GAATAGAGGCGTAATG
Found at i:33498105 original size:45 final size:44
Alignment explanation
Indices: 33498041--33498130 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 44
33498031 GATTAGAGGC
33498041 GTAATGGAATAGAGGCGTAATAGCAAATCAAT-TGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGC-AATC-ATGTGTTTGGTTGAAT
*
33498086 GTAATGGAATAGAGGCGTAATAGCAATCTTGTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGCAATCATGTGTTTGGTTGAAT
33498130 G
1 G
33498131 GAATAGAGGT
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
43 1 0.02
44 18 0.42
45 24 0.56
ACGTcount: A:0.32, C:0.07, G:0.29, T:0.32
Consensus pattern (44 bp):
GTAATGGAATAGAGGCGTAATAGCAATCATGTGTTTGGTTGAAT
Found at i:33498145 original size:39 final size:42
Alignment explanation
Indices: 33498041--33498149 Score: 136
Period size: 45 Copynumber: 2.6 Consensus size: 42
33498031 GATTAGAGGC
33498041 GTAATGGAATAGAGGCGTAATAGCAAATCAATTGTTTGGTTGAAT
1 GTAATGGAATAGAGGCGTAATAGC-AATCAATTGTTTGGTT--AT
*
33498086 GTAATGGAATAGAGGCGTAATAGCAATC-TTGTGTTTGG-T-T
1 GTAATGGAATAGAGGCGTAATAGCAATCAAT-TGTTTGGTTAT
*
33498126 G-AATGGAATAGAGGTGTAATAGCA
1 GTAATGGAATAGAGGCGTAATAGCA
33498150 TAATGGAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 8
0.86 0.03 0.11
Matches are distributed among these distances:
39 22 0.36
40 2 0.03
43 2 0.03
44 11 0.18
45 24 0.39
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.30
Consensus pattern (42 bp):
GTAATGGAATAGAGGCGTAATAGCAATCAATTGTTTGGTTAT
Found at i:33498380 original size:120 final size:120
Alignment explanation
Indices: 33498247--33498621 Score: 705
Period size: 120 Copynumber: 3.1 Consensus size: 120
33498237 AAGATTATTG
*
33498247 ATACTATAAAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
1 ATACTATATAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
33498312 TAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATA
66 TAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATA
*
33498367 ATACTATATAATATAATTTAACATAATTATTGTTAAATATAATTTAATAAAAATATATAATTTAA
1 ATACTATATAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
*
33498432 TAAAATTCTTAATATCAAATATTCTTATATGAATTTAATAAAATCATAATATATA
66 TAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATA
*
33498487 ATACTATATAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
1 ATACTATATAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
*
33498552 TAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAACCATAATATATA
66 TAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATA
33498607 ATACTATATAATATA
1 ATACTATATAATATA
33498622 GATTAATAAT
Statistics
Matches: 248, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 248 1.00
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (120 bp):
ATACTATATAATATAATTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAA
TAAAATTCTTAATATTAAATATTCTTATATGAATTTAATAAAATCATAATATATA
Found at i:33502659 original size:50 final size:50
Alignment explanation
Indices: 33502551--33502797 Score: 217
Period size: 50 Copynumber: 4.8 Consensus size: 50
33502541 ATTTGGGTAA
* * * *
33502551 AGAGATCCCATGTAAGACCATGTTTGGGACATGGCATTGGCATCATTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCA-C-CT-A-G--ATG
*
33502607 AGAGGTCCCATGTAAGACCATATCTGGGACATGACATTGGCACCTAGATG
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCTAGATG
** * * * *
33502657 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCTAGATG
** * ** * *
33502707 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGG-AAGTACAAG
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCTAGATG
* ** ** *
33502756 AAACATCCCATGTAAGACCATGCCTGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCA
33502798 TGTTATTATC
Statistics
Matches: 159, Mismatches: 31, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
49 37 0.23
50 80 0.50
52 1 0.01
53 1 0.01
54 1 0.01
55 1 0.01
56 38 0.24
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATATCTGGGACATGGCATTGGCACCTAGATG
Found at i:33507657 original size:21 final size:21
Alignment explanation
Indices: 33507623--33507673 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
33507613 ATTGTTGAGA
*
33507623 AGGAAGCTGCTGCT-ACAGAAG
1 AGGAAGTTGCTGCTGA-AGAAG
*
33507644 AGGAAGTTGTTGCTGAAGAAG
1 AGGAAGTTGCTGCTGAAGAAG
*
33507665 AAGAAGTTG
1 AGGAAGTTG
33507674 ATGAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 25 0.96
22 1 0.04
ACGTcount: A:0.35, C:0.10, G:0.35, T:0.20
Consensus pattern (21 bp):
AGGAAGTTGCTGCTGAAGAAG
Found at i:33511255 original size:39 final size:38
Alignment explanation
Indices: 33511147--33511261 Score: 104
Period size: 39 Copynumber: 3.0 Consensus size: 38
33511137 TCACATATAG
* * * *
33511147 TCACCTAACATACAAGCATATATCACCATACTCATATAA
1 TCACATAACATTCAAGCATATATCACAATACTC-TAAAA
* ** * * * *
33511186 TCTCATGGCGTTTAAGCATATGTCATAATACTCGTAAAA
1 TCACATAACATTCAAGCATATATCACAATACTC-TAAAA
*
33511225 TCACATAACATTCAAGCATATACCACAATACTCTAAA
1 TCACATAACATTCAAGCATATATCACAATACTCTAAA
33511262 GCATCTTTAT
Statistics
Matches: 56, Mismatches: 20, Indels: 1
0.73 0.26 0.01
Matches are distributed among these distances:
38 4 0.07
39 52 0.93
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (38 bp):
TCACATAACATTCAAGCATATATCACAATACTCTAAAA
Found at i:33525238 original size:13 final size:15
Alignment explanation
Indices: 33525216--33525247 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
33525206 TATCCTATTT
33525216 TATTATTAATTAAC-
1 TATTATTAATTAACA
33525230 TATTA-TAATTAACA
1 TATTATTAATTAACA
33525244 TATT
1 TATT
33525248 TCCATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (15 bp):
TATTATTAATTAACA
Found at i:33534198 original size:14 final size:14
Alignment explanation
Indices: 33534179--33534209 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
33534169 TTTATATTGA
*
33534179 TATTATTTTGTTAT
1 TATTATTTTGATAT
33534193 TATTATTTTGATAT
1 TATTATTTTGATAT
33534207 TAT
1 TAT
33534210 ATAACTCATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (14 bp):
TATTATTTTGATAT
Found at i:33542555 original size:14 final size:15
Alignment explanation
Indices: 33542536--33542572 Score: 51
Period size: 13 Copynumber: 2.5 Consensus size: 15
33542526 AAATCTGTAA
33542536 TTTTTTTTTT-GT-T
1 TTTTTTTTTTAGTAT
33542549 TTTTTTTTTTAGTAT
1 TTTTTTTTTTAGTAT
33542564 TTGTTTTTT
1 TT-TTTTTT
33542573 GGGATTTTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 3 0.14
16 6 0.29
ACGTcount: A:0.05, C:0.00, G:0.08, T:0.86
Consensus pattern (15 bp):
TTTTTTTTTTAGTAT
Found at i:33545381 original size:2 final size:2
Alignment explanation
Indices: 33545368--33545409 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
33545358 ATGGGACAAA
* * *
33545368 TC TC TC TT TC TC TC TC TC TC TT TC TC TC TC TC TC TG TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
33545410 CTCATTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.00, C:0.43, G:0.02, T:0.55
Consensus pattern (2 bp):
TC
Found at i:33545387 original size:14 final size:14
Alignment explanation
Indices: 33545368--33545409 Score: 75
Period size: 14 Copynumber: 3.0 Consensus size: 14
33545358 ATGGGACAAA
33545368 TCTCTCTTTCTCTC
1 TCTCTCTTTCTCTC
33545382 TCTCTCTTTCTCTC
1 TCTCTCTTTCTCTC
*
33545396 TCTCTCTGTCTCTC
1 TCTCTCTTTCTCTC
33545410 CTCATTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.00, C:0.43, G:0.02, T:0.55
Consensus pattern (14 bp):
TCTCTCTTTCTCTC
Found at i:33548368 original size:71 final size:70
Alignment explanation
Indices: 33548191--33548368 Score: 205
Period size: 71 Copynumber: 2.5 Consensus size: 70
33548181 TATTGAACAC
* * * * *
33548191 TGAATGCTTCCCCTCTTGGTTCAAAGTTTGATATCGTGACATGGAGTGGTTGTTGTCGCGACATC
1 TGAATG-TTCCCCTCTTGGTTCAAAGTTAGATGTCATGACATAGAGTGGTGGTTGTCGCGACATC
* *
33548256 GATGGT
65 AACGGT
* * *
33548262 TGAATGTTCCCCTTTTAGGTTCGAAGTTAGATGTCATGACATAGAGTGGTGGTTGTTGCGACATC
1 TGAATGTTCCCCTCTT-GGTTCAAAGTTAGATGTCATGACATAGAGTGGTGGTTGTCGCGACATC
33548327 AACGGT
65 AACGGT
* *
33548333 T-ATTTGTTTCCCCTCTTGGTTCAAAGTTAGGTGTCA
1 TGA-ATG-TTCCCCTCTTGGTTCAAAGTTAGATGTCA
33548369 CAAAATTCCC
Statistics
Matches: 90, Mismatches: 14, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
70 10 0.11
71 71 0.79
72 9 0.10
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (70 bp):
TGAATGTTCCCCTCTTGGTTCAAAGTTAGATGTCATGACATAGAGTGGTGGTTGTCGCGACATCA
ACGGT
Found at i:33551943 original size:59 final size:61
Alignment explanation
Indices: 33551872--33551988 Score: 157
Period size: 62 Copynumber: 1.9 Consensus size: 61
33551862 ATCACTTTGA
* * * *
33551872 TATTAAATTAATATAATATTTA-T-CAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
* *
33551931 TATTAAAATAATAGAATCTTTATCTACAAGATAAACATTAAATTTAATTTAATATTAA
1 TATTAAAATAATAGAATATTTA-CTACAAGATAAACATTAAATTAAATTTAATATTAA
33551989 GATAATCACT
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
59 19 0.39
61 1 0.02
62 29 0.59
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (61 bp):
TATTAAAATAATAGAATATTTACTACAAGATAAACATTAAATTAAATTTAATATTAAATCT
Found at i:33556218 original size:40 final size:40
Alignment explanation
Indices: 33556160--33556246 Score: 99
Period size: 40 Copynumber: 2.2 Consensus size: 40
33556150 CAATTTAGTT
* *
33556160 TTTTTTA-TTTTCCTAATTAATTTT-AATAATGTAATTTTTA
1 TTTTTTATTTTTCCTAATTAATTTTGAA-AATAT-ATATTTA
* *
33556200 TTTTTTATTTTTGC-AATTATTTTTGAAAATATATATTTA
1 TTTTTTATTTTTCCTAATTAATTTTGAAAATATATATTTA
33556239 TTTTTTAT
1 TTTTTTAT
33556247 GCGCATTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
39 14 0.34
40 20 0.49
41 7 0.17
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.64
Consensus pattern (40 bp):
TTTTTTATTTTTCCTAATTAATTTTGAAAATATATATTTA
Found at i:33567791 original size:44 final size:46
Alignment explanation
Indices: 33567728--33568230 Score: 156
Period size: 45 Copynumber: 11.6 Consensus size: 46
33567718 TAACAGATCG
*
33567728 AGTCTTAT-CTCCCTGAAGTTGTAGT-AGAGCAGACT-AAG-TAGGCA
1 AGTCTTATCCTCCCTGAAGTTGCAGTGAG-GCAGACTGAAGAT-GGCA
33567772 AGTCTTATCCT-CCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
1 AGTCTTATCCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
* * * * * ** *
33567817 AATCTTAT-CTCCCTAAAATTGCAGTG-GAGCAGATTAAAGCCGGTA
1 AGTCTTATCCTCCCTGAAGTTGCAGTGAG-GCAGACTGAAGATGGCA
* ** * * ** *
33567862 A-TCCTAT-CTCGTTGAAGTTGCAGTGA-GCGGA-TTAA-A-ACCTT
1 AGTCTTATCCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGC-A
* ** * *
33567903 AGATCTTAT-CTCTCTGAAGTTGCAGACA-GCAGA-TCG--CAT--CT
1 AG-TCTTATCCTCCCTGAAGTTGCAGTGAGGCAGACT-GAAGATGGCA
*
33567944 AGTCTTATCCT-CCTGAAGTTACAGTGAGGCAGACTGAAGATGGCA
1 AGTCTTATCCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
* * * * * ** *
33567989 AATTTTAT-CTCCCTGAAGTTACAGT-AGAGCAGATTAAAGCCGGTA
1 AGTCTTATCCTCCCTGAAGTTGCAGTGAG-GCAGACTGAAGATGGCA
* * * * * ** *
33568034 A-TCCTAT-CTCGCTGAAGTTGTAGTGA-GCGGA-TTAA-A-ACCTT
1 AGTCTTATCCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGC-A
* * * *
33568075 AGATCTTAT-CTCTCTGAAGTTACAGAGA-GCAGA-TCG--CAT--CTA
1 AG-TCTTATCCTCCCTGAAGTTGCAGTGAGGCAGACT-GAAGATGGC-A
*
33568117 A-TCTTAT-CTCCCTGAAGTTGCAGTG-GAGCAAACT-AAG-TGGGCA
1 AGTCTTATCCTCCCTGAAGTTGCAGTGAG-GCAGACTGAAGAT-GGCA
* *
33568160 AGTCTTATCCT-CCTGAAGTTGCAGTGAGGTAGACTAAAGATGGCA
1 AGTCTTATCCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
* *
33568205 AATCTCAT-CTCCCTGAAGTTGCAGTG
1 AGTCTTATCCTCCCTGAAGTTGCAGTG
33568231 GAGCAGATTA
Statistics
Matches: 346, Mismatches: 70, Indels: 85
0.69 0.14 0.17
Matches are distributed among these distances:
40 39 0.11
41 18 0.05
42 12 0.03
43 64 0.18
44 101 0.29
45 110 0.32
46 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (46 bp):
AGTCTTATCCTCCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCA
Found at i:33567839 original size:45 final size:45
Alignment explanation
Indices: 33567730--33568274 Score: 208
Period size: 44 Copynumber: 12.5 Consensus size: 45
33567720 ACAGATCGAG
* *
33567730 TCTTATCTCCCTGAAGTTGTAGT-AGAGCAGACTAAGTAGGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGCAAA
33567774 TCTTATC-CTCCTGAAGTTGCAGTGAG-GCAGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-GGCAAA
* * * ** *
33567819 TCTTATCTCCCTAAAATTGCAGTG-GAGCAGATTAAAGCCGG-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACT-AAGTAGGCAAA
* ** * * ** *
33567863 TCCTATCTCGTTGAAGTTGCAGT--GAGCGGATTAA--AACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGC--AAA
* * * * * * *
33567906 TCTTATCTCTCTGAAGTTGCA--GACAGCAGA-T-CGCA-TCTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGCAAA
*
33567946 TCTTATC-CTCCTGAAGTTACAGTGAG-GCAGACTGAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-GGCAAA
* * * ** *
33567991 TTTTATCTCCCTGAAGTTACAGT-AGAGCAGATTAAAGCCGG-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACT-AAGTAGGCAAA
* * * * * ** *
33568035 TCCTATCTCGCTGAAGTTGTAGT--GAGCGGATTAA--AACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGC--AAA
* * * * * *
33568078 TCTTATCTCTCTGAAGTTACA--GAGAGCAGA-T-CGCA-TCTAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGCAAA
* * *
33568118 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAAACTAAGTGGGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGCAAA
*
33568162 TCTTATC-CTCCTGAAGTTGCAGTGAG-GTAGACTAAAG-ATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGAGCAGACT-AAGTA-GGCAAA
* * *
33568207 TCTCATCTCCCTGAAGTTGCAGTG-GAGCAGATTAA--AGCCGATAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGC-A-AA
* *
33568251 TCCTATCTTCCTGAAGTTGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTG
33568275 GAGTGGATTA
Statistics
Matches: 375, Mismatches: 81, Indels: 90
0.69 0.15 0.16
Matches are distributed among these distances:
39 1 0.00
40 37 0.10
41 11 0.03
42 15 0.04
43 72 0.19
44 127 0.34
45 109 0.29
46 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (45 bp):
TCTTATCTCCCTGAAGTTGCAGTGAGAGCAGACTAAGTAGGCAAA
Found at i:33567878 original size:89 final size:89
Alignment explanation
Indices: 33567730--33568060 Score: 302
Period size: 89 Copynumber: 3.8 Consensus size: 89
33567720 ACAGATCGAG
* * ** * *
33567730 TCTTATCTCCCTGAAGTTGTAGTAGAGCAGACT-AAGTAGGCAAGTCTTATCCTC-CTGAAGTTG
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCGGTAA-TCCTAT-CTCGCTGAAGTTG
33567793 CAGTGAGGCAGACTGAAGATGGCAAA
64 CAGTGAGGCAGACTGAAGATGGCAAA
* * * *
33567819 TCTTATCTCCCTAAAATTGCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGTTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCA
* * * **** *
33567884 GTGA-GCGGA-TTAAAACCTTAGA
66 GTGAGGCAGACTGAAGATGGCAAA
* * * *** * * *
33567906 TCTTATCTCTCTGAAGTTGCAG-ACAGCAGA-T--CGCATCTAGTCTTATCCTC-CTGAAGTTAC
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCGGTAATCCTAT-CTCGCTGAAGTTGC
33567966 AGTGAGGCAGACTGAAGATGGCAAA
65 AGTGAGGCAGACTGAAGATGGCAAA
* * *
33567991 TTTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCA
33568056 GTGAG
66 GTGAG
33568061 CGGATTAAAA
Statistics
Matches: 181, Mismatches: 51, Indels: 20
0.72 0.20 0.08
Matches are distributed among these distances:
83 22 0.12
84 7 0.04
85 26 0.14
86 13 0.07
87 26 0.14
88 10 0.06
89 70 0.39
90 7 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (89 bp):
TCTTATCTCCCTGAAGTTGCAGTAGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCA
GTGAGGCAGACTGAAGATGGCAAA
Found at i:33568021 original size:172 final size:172
Alignment explanation
Indices: 33567772--33568141 Score: 625
Period size: 172 Copynumber: 2.2 Consensus size: 172
33567762 TAAGTAGGCA
33567772 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAATT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAATT
* * *
33567837 GCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGTTGAAGTTGCAGTGAGCGGATTAAAACCT
66 ACAGTAGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCT
*
33567902 TAGATCTTATCTCTCTGAAGTTGCAGACAGCAGATCGCATCT
131 TAGATCTTATCTCTCTGAAGTTACAGACAGCAGATCGCATCT
* * * *
33567944 AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATTTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAATT
*
33568009 ACAGTAGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGTAGTGAGCGGATTAAAACCT
66 ACAGTAGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCT
*
33568074 TAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCT
131 TAGATCTTATCTCTCTGAAGTTACAGACAGCAGATCGCATCT
*
33568116 AATCTTAT-CTCCCTGAAGTTGCAGTG
1 AGTCTTATCCT-CCTGAAGTTGCAGTG
33568142 GAGCAAACTA
Statistics
Matches: 185, Mismatches: 12, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
171 2 0.01
172 183 0.99
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.29
Consensus pattern (172 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAATT
ACAGTAGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCT
TAGATCTTATCTCTCTGAAGTTACAGACAGCAGATCGCATCT
Found at i:33568132 original size:40 final size:40
Alignment explanation
Indices: 33567905--33568135 Score: 115
Period size: 40 Copynumber: 5.5 Consensus size: 40
33567895 AAAACCTTAG
* * *
33567905 ATCTTATCTCTCTGAAGTTGCAGACAGCAGATCGCATCTA
1 ATCTTATCTCCCTGAAGTTACAGAGAGCAGATCGCATCTA
* * * *
33567945 GTCTTATC-CTCCTGAAGTTACAGTGAGGCAGA-CTGAAGATGGCAA
1 ATCTTATCTC-CCTGAAGTTACAGAGA-GCAGATC-G--CAT--CTA
* * ***
33567990 ATTTTATCTCCCTGAAGTTACAGTAGAGCAGATTAAAGCCGGTA
1 ATCTTATCTCCCTGAAGTTACAG-AGAGCAGA-T--CGCATCTA
* * ** * * *** *
33568034 ATCCTATCTCGCTGAAGTTGTAGTGAGCGGATTAAAACCTTA
1 ATCTTATCTCCCTGAAGTTACAGAGAGCAGA-TCGCATC-TA
*
33568076 GATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTA
1 -ATCTTATCTCCCTGAAGTTACAGAGAGCAGATCGCATCTA
33568117 ATCTTATCTCCCTGAAGTT
1 ATCTTATCTCCCTGAAGTT
33568136 GCAGTGGAGC
Statistics
Matches: 137, Mismatches: 39, Indels: 30
0.67 0.19 0.15
Matches are distributed among these distances:
39 1 0.01
40 38 0.28
41 9 0.07
42 5 0.04
43 35 0.26
44 19 0.14
45 26 0.19
46 3 0.02
48 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (40 bp):
ATCTTATCTCCCTGAAGTTACAGAGAGCAGATCGCATCTA
Found at i:33568136 original size:83 final size:83
Alignment explanation
Indices: 33567860--33568141 Score: 278
Period size: 83 Copynumber: 3.3 Consensus size: 83
33567850 TTAAAGCCGG
** *
33567860 TAATCCTATCTCGTTGAAGTTGCAGTGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTG
1 TAATCCTATCTCCCTGAAGTTGCAGTGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTA
*
33567925 CAGACAGCAGATCGCATC
66 CAGAGAGCAGATCGCATC
* * * * * * **** * * *
33567943 TAGTCTTATC-CTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATTTTATCTCCCTGAAG
1 TAATCCTATCTC-CCTGAAGTTGCAGTGA-GCGGA-TTAAAACCTTAGATCTTATCTCTCTGAAG
* ***
33568007 TTACAGTAGAGCAGATTAAAGCCGG
63 TTACAG-AGAGCAGA-T--CGCATC
* *
33568032 TAATCCTATCTCGCTGAAGTTGTAGTGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTA
1 TAATCCTATCTCCCTGAAGTTGCAGTGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTA
33568097 CAGAGAGCAGATCGCATC
66 CAGAGAGCAGATCGCATC
*
33568115 TAATCTTATCTCCCTGAAGTTGCAGTG
1 TAATCCTATCTCCCTGAAGTTGCAGTG
33568142 GAGCAAACTA
Statistics
Matches: 148, Mismatches: 43, Indels: 16
0.71 0.21 0.08
Matches are distributed among these distances:
82 1 0.01
83 47 0.32
84 4 0.03
85 26 0.18
86 15 0.10
87 27 0.18
88 4 0.03
89 23 0.16
90 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (83 bp):
TAATCCTATCTCCCTGAAGTTGCAGTGAGCGGATTAAAACCTTAGATCTTATCTCTCTGAAGTTA
CAGAGAGCAGATCGCATC
Found at i:33568166 original size:216 final size:216
Alignment explanation
Indices: 33567944--33568354 Score: 646
Period size: 216 Copynumber: 1.9 Consensus size: 216
33567934 GATCGCATCT
* * *
33567944 AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATTTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTAAAGATGGCAAATCTCATCTCCCTGAAGTT
* *
33568009 ACAGTAGAGCAGATTAAAGCCGGTAATCCTATC-TCGCTGAAGTTGTAGT-GAGCGGATTAAAAC
66 ACAGTAGAGCAGATTAAAGCCGATAATCCTATCTTC-CTGAAGTTGCAGTGGAGCGGATTAAAAC
*
33568072 CTTAGATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAATCTTATCTCCCTGAAGTTG
130 CTTAGATCTTATCTCTCTGAAGTTAC-GAGAGCAGATCACATCTAATCTTATCTCCCTGAAGTTG
33568137 CAGTGGAGCAAACTAAGTGGGCA
194 CAGTGGAGCAAACTAAGTGGGCA
* *
33568160 AGTCTTATCCTCCTGAAGTTGCAGTGAGGTAGACTAAAGATGGCAAATCTCATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTAAAGATGGCAAATCTCATCTCCCTGAAGTT
* * *
33568225 GCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATTAAAACC
66 ACAGTAGAGCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAACC
* * * * *
33568290 TTGGATCTTATCTCTCTGAAGTTGCGAGAGCAGATCATATTTAGTCTTATCTCCCTGAAGTTGCA
131 TTAGATCTTATCTCTCTGAAGTTACGAGAGCAGATCACATCTAATCTTATCTCCCTGAAGTTGCA
33568355 CCAGGAGTGG
Statistics
Matches: 177, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
216 138 0.78
217 39 0.22
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (216 bp):
AGTCTTATCCTCCTGAAGTTACAGTGAGGCAGACTAAAGATGGCAAATCTCATCTCCCTGAAGTT
ACAGTAGAGCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGCAGTGGAGCGGATTAAAACC
TTAGATCTTATCTCTCTGAAGTTACGAGAGCAGATCACATCTAATCTTATCTCCCTGAAGTTGCA
GTGGAGCAAACTAAGTGGGCA
Found at i:33568223 original size:172 final size:172
Alignment explanation
Indices: 33567774--33568242 Score: 574
Period size: 172 Copynumber: 2.7 Consensus size: 172
33567764 AGTAGGCAAG
* * * * *
33567774 TCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAATTGC
1 TCTTATCCTCCTGAAGTTACAGTGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTAC
* * * * **
33567839 AGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGTTGAAGTTGCAGTGAGCGGATTAAAACCTTA
66 AGTAGAGCAGACTAAAGACGGAAATCCTATCTCCCTGAAGTTGCAGTGAGCGGATTAAAACCTTA
* *
33567904 GATCTTATCTCTCTGAAGTTGCAGACAGCAGATCGCATCTAG
131 GATCTTATCTCTCTGAAGTTACAGACAGCAGATCGCATCTAA
* *
33567946 TCTTATCCTCCTGAAGTTACAGTGAGGCAGACTGAAGATGGCAAATTTTATCTCCCTGAAGTTAC
1 TCTTATCCTCCTGAAGTTACAGTGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTAC
* * * * *
33568011 AGTAGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGTAGTGAGCGGATTAAAACCTTA
66 AGTAGAGCAGACTAAAGACGGAAATCCTATCTCCCTGAAGTTGCAGTGAGCGGATTAAAACCTTA
*
33568076 GATCTTATCTCTCTGAAGTTACAGAGAGCAGATCGCATCTAA
131 GATCTTATCTCTCTGAAGTTACAGACAGCAGATCGCATCTAA
* *
33568118 TCTTAT-CTCCCTGAAGTTGCAGTG-GAGCAAACT-AAG-TGGGCAAGTCTTATC-CTCCTGAAG
1 TCTTATCCT-CCTGAAGTTACAGTGAG-GCAAACTGAAGAT-GGCAAATCTTATCTC-CCTGAAG
* * * *
33568178 TTGCAGT-GAGGTAGACTAAAGATGGCAAAT-CTCATCTCCCTGAAGTTGCAGTGGAGCAGATTA
62 TTACAGTAGA-GCAGACTAAAGACGG-AAATCCT-ATCTCCCTGAAGTTGCAGT-GAGCGGATTA
33568241 AA
123 AA
33568243 GCCGATAATC
Statistics
Matches: 265, Mismatches: 24, Indels: 15
0.87 0.08 0.05
Matches are distributed among these distances:
170 4 0.02
171 43 0.16
172 207 0.78
173 11 0.04
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (172 bp):
TCTTATCCTCCTGAAGTTACAGTGAGGCAAACTGAAGATGGCAAATCTTATCTCCCTGAAGTTAC
AGTAGAGCAGACTAAAGACGGAAATCCTATCTCCCTGAAGTTGCAGTGAGCGGATTAAAACCTTA
GATCTTATCTCTCTGAAGTTACAGACAGCAGATCGCATCTAA
Found at i:33569009 original size:22 final size:24
Alignment explanation
Indices: 33568976--33569022 Score: 71
Period size: 22 Copynumber: 2.0 Consensus size: 24
33568966 TACTTGTATT
*
33568976 TCTATTTTATTTTTTTCA-TTATA
1 TCTATTTTATTTTTATCATTTATA
33568999 TCTA-TTTATTTTTATCATTTATA
1 TCTATTTTATTTTTATCATTTATA
33569022 T
1 T
33569023 AAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.23, C:0.09, G:0.00, T:0.68
Consensus pattern (24 bp):
TCTATTTTATTTTTATCATTTATA
Found at i:33572654 original size:34 final size:34
Alignment explanation
Indices: 33572583--33572662 Score: 99
Period size: 34 Copynumber: 2.4 Consensus size: 34
33572573 ATGCCATTAG
* *
33572583 CCATCCAGCACACCATAAGCTCGTATGATCCAAT
1 CCATCCAGCACACCATAAGCCCGTATAATCCAAT
* * *
33572617 CCATCTAGCACACCATATGCCCGTATAAGT-CAGT
1 CCATCCAGCACACCATAAGCCCGTATAA-TCCAAT
33572651 CCATCCAGCACA
1 CCATCCAGCACA
33572663 TTGTATCCAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
34 38 0.97
35 1 0.03
ACGTcount: A:0.31, C:0.36, G:0.12, T:0.20
Consensus pattern (34 bp):
CCATCCAGCACACCATAAGCCCGTATAATCCAAT
Found at i:33573465 original size:29 final size:29
Alignment explanation
Indices: 33573431--33573487 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
33573421 AGCTAATACC
33573431 AATCCAAAAACATAAAAATTACTAAAAAG
1 AATCCAAAAACATAAAAATTACTAAAAAG
33573460 AATCCAAAAACATAAAAATTACTAAAAA
1 AATCCAAAAACATAAAAATTACTAAAAA
33573488 TGGGGCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.67, C:0.14, G:0.02, T:0.18
Consensus pattern (29 bp):
AATCCAAAAACATAAAAATTACTAAAAAG
Found at i:33581665 original size:26 final size:26
Alignment explanation
Indices: 33581599--33581694 Score: 113
Period size: 26 Copynumber: 3.7 Consensus size: 26
33581589 ACTGTACTGA
*
33581599 CAGCTTTGCTGCGACATTGTTAC-CGG
1 CAGCTTTGCTGCGATATTGTTACTC-G
33581625 CAGCTTTGCTGCGATATTGTTACTCG
1 CAGCTTTGCTGCGATATTGTTACTCG
* * ** *
33581651 CAGCTTTGCTACGATACTACTACTGG
1 CAGCTTTGCTGCGATATTGTTACTCG
*
33581677 CAGCTTCGCTGCGATATT
1 CAGCTTTGCTGCGATATT
33581695 AGTGTGTTAG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
26 59 0.98
27 1 0.02
ACGTcount: A:0.18, C:0.26, G:0.23, T:0.33
Consensus pattern (26 bp):
CAGCTTTGCTGCGATATTGTTACTCG
Found at i:33581836 original size:28 final size:27
Alignment explanation
Indices: 33581795--33581860 Score: 78
Period size: 28 Copynumber: 2.4 Consensus size: 27
33581785 ATTGCACTGT
* *
33581795 ACTGATACTATATTAGGCTAAGGCCCAC
1 ACTG-TACTGTATTAGGCTAAGACCCAC
* *
33581823 ACTGTTACTGTATTGGGTTAAGACCCAC
1 ACTG-TACTGTATTAGGCTAAGACCCAC
33581851 ACTGTACTGT
1 ACTGTACTGT
33581861 TATTGAATAG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (27 bp):
ACTGTACTGTATTAGGCTAAGACCCAC
Found at i:33582556 original size:27 final size:27
Alignment explanation
Indices: 33582526--33582587 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 27
33582516 CTATACAGTA
33582526 ACAGTATAATATGGGCCTTAGCCCAAT
1 ACAGTATAATATGGGCCTTAGCCCAAT
* * * *
33582553 ACAGTACCAGTGTGGGCTTTAGCCCAAT
1 ACAGTA-TAATATGGGCCTTAGCCCAAT
33582581 ACAGTAT
1 ACAGTAT
33582588 CAGTACAATG
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.26
Consensus pattern (27 bp):
ACAGTATAATATGGGCCTTAGCCCAAT
Found at i:33582574 original size:28 final size:28
Alignment explanation
Indices: 33582537--33582591 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
33582527 CAGTATAATA
33582537 TGGGCCTTAGCCCAATACAGTACCAGTG
1 TGGGCCTTAGCCCAATACAGTACCAGTG
* *
33582565 TGGGCTTTAGCCCAATACAGTATCAGT
1 TGGGCCTTAGCCCAATACAGTACCAGT
33582592 ACAATGCAGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.25
Consensus pattern (28 bp):
TGGGCCTTAGCCCAATACAGTACCAGTG
Found at i:33582773 original size:26 final size:26
Alignment explanation
Indices: 33582694--33582774 Score: 90
Period size: 26 Copynumber: 3.1 Consensus size: 26
33582684 AACACACCAA
* *
33582694 TATCACAGCAAATCTGCTAGTAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
** * *
33582720 TATCGTAGCGAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTGCCAGTAATAG
* *
33582746 TATCACAGCAAAGCTACCAGTATTAG
1 TATCACAGCAAAGCTGCCAGTAATAG
33582772 TAT
1 TAT
33582775 ATGTGGTAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.25
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAATAG
Found at i:33582985 original size:27 final size:27
Alignment explanation
Indices: 33582955--33583331 Score: 404
Period size: 27 Copynumber: 14.0 Consensus size: 27
33582945 ATAGTAATTC
*
33582955 TACCCTAT-GAGGGTATTTCAGTCATTT
1 TACCCT-TCGAGGGTATTTCGGTCATTT
* *
33582982 TACCCTAT-GCA-GGTATTTCAGTTATTT
1 TACCCT-TCG-AGGGTATTTCGGTCATTT
* * * *
33583009 TGCGCTTCG-GGGTATTTTGATCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
* *
33583035 TACCCTTAGAGGGTATTTTGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
* *
33583062 T-CTCTTCAAGGGTATTTCGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
* ** *
33583088 TACCTTTCGAGGGTATTTCATTTATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
*
33583115 TACCCTTCGAAGGTATTTCGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
* * *
33583142 TACCCTTCGAAGGTATTTTGATCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
*
33583169 TACCCTTCGAGGGTATTTTGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
*
33583196 TACCCTTCGAGGGTATTTTGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
* ** * *
33583223 TATCCTTTAAGGGTATTTCAGTTATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
** *
33583250 TATTCTTCAAGGGTATTTCGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
* *
33583277 TACCCTTCAAGGGTATTTCGATCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
*
33583304 TACCCTTTGAGGGTATTTCGGTCATTT
1 TACCCTTCGAGGGTATTTCGGTCATTT
33583331 T
1 T
33583332 CCCACGAATC
Statistics
Matches: 299, Mismatches: 46, Indels: 10
0.84 0.13 0.03
Matches are distributed among these distances:
26 41 0.14
27 257 0.86
28 1 0.00
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (27 bp):
TACCCTTCGAGGGTATTTCGGTCATTT
Found at i:33589826 original size:34 final size:34
Alignment explanation
Indices: 33589783--33589849 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 34
33589773 ATGAAACATG
*
33589783 CAGTATTAGTCTGGGTCTAAGCCCAATACAGTAA
1 CAGTATTAGTCTGGGCCTAAGCCCAATACAGTAA
* *
33589817 CAGTATTAGTGTGGGCCTTAGCCCAATACAGTA
1 CAGTATTAGTCTGGGCCTAAGCCCAATACAGTA
33589850 TCAATGTGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (34 bp):
CAGTATTAGTCTGGGCCTAAGCCCAATACAGTAA
Found at i:33589857 original size:28 final size:28
Alignment explanation
Indices: 33589816--33589880 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
33589806 CAATACAGTA
* * *
33589816 ACAGTATTAGTGTGGGCCTTAGCCCAAT
1 ACAGTATCAATGTGAGCCTTAGCCCAAT
33589844 ACAGTATCAATGTGAGCCTTAGCCCAAT
1 ACAGTATCAATGTGAGCCTTAGCCCAAT
33589872 ACAGTATCA
1 ACAGTATCA
33589881 GTACAATGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (28 bp):
ACAGTATCAATGTGAGCCTTAGCCCAAT
Found at i:33590051 original size:26 final size:26
Alignment explanation
Indices: 33589985--33590058 Score: 78
Period size: 26 Copynumber: 2.8 Consensus size: 26
33589975 AACACACCAA
* *
33589985 TATCGCAGCAAAGCTGCCAATAATAG
1 TATCACAGCAAAGCTGCCAGTAATAG
*** *
33590011 TA-CTACAGTGGAGCTACCAGTAATAG
1 TATC-ACAGCAAAGCTGCCAGTAATAG
33590037 TATCACAGCAAAGCTGCCAGTA
1 TATCACAGCAAAGCTGCCAGTA
33590059 TCAGTATATG
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
25 1 0.03
26 34 0.94
27 1 0.03
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (26 bp):
TATCACAGCAAAGCTGCCAGTAATAG
Found at i:33590285 original size:27 final size:26
Alignment explanation
Indices: 33590240--33590603 Score: 165
Period size: 27 Copynumber: 13.5 Consensus size: 26
33590230 GGTATAACAA
* *
33590240 TCATTCTACCCTATGGGGGTATTTCTA-
1 TCATTTTACCCT-TTGGGGTATTT-TAG
* *
33590267 TTATTTTACTCTTTAGGGGTATTTTAG
1 TCATTTTACCCTTT-GGGGTATTTTAG
*
33590294 TCATTTTACCCTTTGAGGGTATTTTGG
1 TCATTTTACCCTTTG-GGGTATTTTAG
* * **
33590321 TCATTTTACCCTTCGAAGGTATTTCGG
1 TCATTTTACCCTTTG-GGGTATTTTAG
* * * * * *
33590348 TTACTTTACCTTTTTGGGGTCTTTCAT
1 TCATTTTACC-CTTTGGGGTATTTTAG
* * * *
33590375 TCATTTTATCCTTCGAGGGTATTTCAT
1 TCATTTTACCCTTTG-GGGTATTTTAG
* **
33590402 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTTG-GGGTATTTTAG
* **
33590429 TCATTTTACCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTTG-GGGTATTTTAG
* ** *
33590456 TCATTTTACCCTTCGAAG-ATATTTCG
1 TCATTTTACCCTTTGGGGTAT-TTTAG
* ** *
33590482 ATCGTTTTACCCTTCAAGGGTATTTAAG
1 -TCATTTTACCCTT-TGGGGTATTTTAG
* **
33590510 TCATTTTACCATTTGAGGGTATTTCGG
1 TCATTTTACCCTTTG-GGGTATTTTAG
** * * **
33590537 TCAAATTATCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTTG-GGGTATTTTAG
* * * *
33590564 TTATTTTATCCTTAGAGGGTATTTTGG
1 TCATTTTACCCTTTG-GGGTATTTTAG
33590591 TCATTTTACCCTT
1 TCATTTTACCCTT
33590604 CAATGGTATC
Statistics
Matches: 271, Mismatches: 56, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
25 2 0.01
26 11 0.04
27 249 0.92
28 7 0.03
29 2 0.01
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (26 bp):
TCATTTTACCCTTTGGGGTATTTTAG
Found at i:33590327 original size:54 final size:55
Alignment explanation
Indices: 33590240--33590650 Score: 381
Period size: 54 Copynumber: 7.6 Consensus size: 55
33590230 GGTATAACAA
* * * ** * * * **
33590240 TCATTCTACCCTATGGGGGTATTTCTATTATTTTACTCTTTAG-GGGTATTTTAG
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACTCCTTCGAGGGTATTTCGG
* *
33590294 TCATTTTACCCTTTGAGGGTATTTTGGTCATTTTAC-CCTTCGAAGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACTCCTTCGAGGGTATTTCGG
* * * * ** **
33590348 TTACTTTACCTTTTTG-GGGTCTTTCATTCATTTTA-TCCTTCGAGGGTATTTCAT
1 TCATTTTACC-CTTTGAGGGTATTTCGGTCATTTTACTCCTTCGAGGGTATTTCGG
*
33590402 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTAC-CCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACTCCTTCGAGGGTATTTCGG
* * * * * * **
33590456 TCATTTTACCCTTCGAAGATATTTCGATCGTTTTAC-CCTTCAAGGGTATTTAAG
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACTCCTTCGAGGGTATTTCGG
* **
33590510 TCATTTTACCATTTGAGGGTATTTCGGTCAAATTA-TCCTTCGAGGGTATTTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACTCCTTCGAGGGTATTTCGG
* * * * * * *
33590564 TTATTTTATCCTTAGAGGGTATTTTGGTCATTTTAC-CCTTCAATGGTATCTCGG
1 TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACTCCTTCGAGGGTATTTCGG
*
33590618 TCATTTTA-CCTTTCGAGGGTATTTCGATCATTT
1 TCATTTTACCCTTT-GAGGGTATTTCGGTCATTT
33590651 GCCCACGAAT
Statistics
Matches: 286, Mismatches: 63, Indels: 16
0.78 0.17 0.04
Matches are distributed among these distances:
53 11 0.04
54 271 0.95
55 4 0.01
ACGTcount: A:0.18, C:0.18, G:0.18, T:0.45
Consensus pattern (55 bp):
TCATTTTACCCTTTGAGGGTATTTCGGTCATTTTACTCCTTCGAGGGTATTTCGG
Found at i:33590611 original size:27 final size:27
Alignment explanation
Indices: 33590283--33590650 Score: 396
Period size: 27 Copynumber: 13.6 Consensus size: 27
33590273 TACTCTTTAG
** *
33590283 GGGTATTTTAGTCATTTTACCCTTTGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
33590310 GGGTATTTTGGTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * * * *
33590337 AGGTATTTCGGTTACTTTACCTTTTTG-
1 GGGTATTTCGGTCATTTTACC-CTTCGA
* ** *
33590364 GGGTCTTTCATTCATTTTATCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
**
33590391 GGGTATTTCATTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
33590418 GGGTATTTCGGTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
33590445 GGGTATTTCGGTCATTTTACCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * * * *
33590472 AGATATTTCGATCGTTTTACCCTTCAA
1 GGGTATTTCGGTCATTTTACCCTTCGA
** * *
33590499 GGGTATTTAAGTCATTTTACCATTTGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
** *
33590526 GGGTATTTCGGTCAAATTATCCTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
33590553 GGGTATTTCGGTTATTTTATCCTTAGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* *
33590580 GGGTATTTTGGTCATTTTACCCTTCAA
1 GGGTATTTCGGTCATTTTACCCTTCGA
* * *
33590607 TGGTATCTCGGTCATTTTACCTTTCGA
1 GGGTATTTCGGTCATTTTACCCTTCGA
*
33590634 GGGTATTTCGATCATTT
1 GGGTATTTCGGTCATTT
33590651 GCCCACGAAT
Statistics
Matches: 280, Mismatches: 59, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
26 3 0.01
27 274 0.98
28 3 0.01
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.45
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACCCTTCGA
Found at i:33595668 original size:21 final size:21
Alignment explanation
Indices: 33595644--33595684 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
33595634 CTTGGCATGT
*
33595644 AAGTCTCAATACTTAACCTAC
1 AAGTCTCAAGACTTAACCTAC
**
33595665 AAGTCTTGAGACTTAACCTA
1 AAGTCTCAAGACTTAACCTA
33595685 TTTATTGTAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (21 bp):
AAGTCTCAAGACTTAACCTAC
Found at i:33598308 original size:39 final size:39
Alignment explanation
Indices: 33598248--33598370 Score: 147
Period size: 39 Copynumber: 3.1 Consensus size: 39
33598238 TGAGCAATAC
* * *
33598248 CTACTAAAATGTATGCGCTATCGTGTCATACCTACTAATT
1 CTACTAAAAT-TATGCTCTATCGAGCCATACCTACTAATT
*
33598288 CTACTAAAATTATGCTCTATCGAGCCATACCTACTGATT
1 CTACTAAAATTATGCTCTATCGAGCCATACCTACTAATT
* * * * **
33598327 CTACTGAAAGTATGCTCTACCGAGCCATATCTACTGGTT
1 CTACTAAAATTATGCTCTATCGAGCCATACCTACTAATT
33598366 CTACT
1 CTACT
33598371 GAAAGTTGTT
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 64 0.86
40 10 0.14
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.33
Consensus pattern (39 bp):
CTACTAAAATTATGCTCTATCGAGCCATACCTACTAATT
Found at i:33598371 original size:39 final size:39
Alignment explanation
Indices: 33598274--33598376 Score: 152
Period size: 39 Copynumber: 2.6 Consensus size: 39
33598264 GCTATCGTGT
* * * *
33598274 CATACCTACTAATTCTACTAAAATTATGCTCTATCGAGC
1 CATACCTACTGATTCTACTGAAAGTATGCTCTACCGAGC
33598313 CATACCTACTGATTCTACTGAAAGTATGCTCTACCGAGC
1 CATACCTACTGATTCTACTGAAAGTATGCTCTACCGAGC
* *
33598352 CATATCTACTGGTTCTACTGAAAGT
1 CATACCTACTGATTCTACTGAAAGT
33598377 TGTTCAAATG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 58 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (39 bp):
CATACCTACTGATTCTACTGAAAGTATGCTCTACCGAGC
Found at i:33599526 original size:18 final size:17
Alignment explanation
Indices: 33599503--33599583 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 17
33599493 TTAAGGATTT
33599503 AAATCTAATTCAAACTTA
1 AAATCTAATT-AAACTTA
*
33599521 AAATCTAATTGAACTTAA
1 AAATCTAATTAAACTT-A
*
33599539 AAGATCTAAAATCTAAAGTTA
1 AA-ATCT--AAT-TAAACTTA
*
33599560 AAAT-T--TTAAACTTT
1 AAATCTAATTAAACTTA
33599574 AAATCTAATT
1 AAATCTAATT
33599584 GAAAGATCTA
Statistics
Matches: 50, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
14 10 0.20
15 2 0.04
17 7 0.14
18 13 0.26
19 5 0.10
20 2 0.04
21 6 0.12
22 5 0.10
ACGTcount: A:0.49, C:0.11, G:0.04, T:0.36
Consensus pattern (17 bp):
AAATCTAATTAAACTTA
Done.