Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 9158330
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 35
Found at i:1198533 original size:42 final size:41
Alignment explanation
Indices: 1198483--1198579 Score: 113
Period size: 42 Copynumber: 2.3 Consensus size: 41
1198473 ACAATTTAAG
* * *
1198483 TCATTCGGGCCATCAGTAAGTCTTTCGAGCATGATGATGAAA
1 TCATTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGAT-AAA
* * * *
1198525 TCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGATAAG
1 TCATTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAA
*
1198566 TCATTCAGGCCATC
1 TCATTCGGGCCATC
1198580 CATAAGACCT
Statistics
Matches: 45, Mismatches: 10, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 13 0.29
42 32 0.71
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (41 bp):
TCATTCGGGCCATCAGTAAGCCTTTAGAGCAAGATGATAAA
Found at i:1198591 original size:42 final size:41
Alignment explanation
Indices: 1198479--1198591 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 41
1198469 ATAAACAATT
* * *
1198479 TAAGTCATTCGGGCCAT-CAGTAAGTCTTTCGAGCATGATGA
1 TAAGTCATTCGGGCCATCCA-TAAGCCTTTAGAGCAAGATGA
* * * **
1198520 TGAAATCCTTCGGGTCATCTGTAAGCCTTTAGAGCAAGATGA
1 T-AAGTCATTCGGGCCATCCATAAGCCTTTAGAGCAAGATGA
*
1198562 TAAGTCATTCAGGCCATCCATAAGACCTTT
1 TAAGTCATTCGGGCCATCCATAAG-CCTTT
1198592 GGGTAGGATG
Statistics
Matches: 55, Mismatches: 14, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
41 18 0.33
42 37 0.67
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.29
Consensus pattern (41 bp):
TAAGTCATTCGGGCCATCCATAAGCCTTTAGAGCAAGATGA
Found at i:1198921 original size:42 final size:42
Alignment explanation
Indices: 1198841--1198922 Score: 119
Period size: 42 Copynumber: 2.0 Consensus size: 42
1198831 ATCAGTAAGT
*
1198841 GCCATCAGTAAGGCTTTCAAGCATGATCATGAAGTCCTTCGG
1 GCCATCAGTAAGGCTTTCAAGCATGATCATGAAATCCTTCGG
* * * *
1198883 GCCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTC
1 GCCATCAGTAAGGCTTTCAAGCATGATCATGAAATCCTTC
1198923 AGGTAATTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (42 bp):
GCCATCAGTAAGGCTTTCAAGCATGATCATGAAATCCTTCGG
Found at i:1198949 original size:135 final size:135
Alignment explanation
Indices: 1198706--1198975 Score: 389
Period size: 135 Copynumber: 2.0 Consensus size: 135
1198696 AGTCGTTCGG
* * *
1198706 GCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTCAGGCCATCAGTAAGTCTTTCGAGCA
1 GCCATCAATAAGGCTTTCAAGCATGATGCTGAAATCCTTCAGGCCATCAGTAAGTCTTTCGAGCA
* ** * * *
1198771 TGATGATTAAATTCTTTGGGTAATTTATAAGCCTTCACGGAAGAGTAGTGAAGCAAACCCATCAG
66 TGATGATTAAATCCTTCAGGTAATTTATAAGCCTTAACCGAAGAGTAGTGAAGCAAACCCATCAA
1198836 TAAGT
131 TAAGT
* * *
1198841 GCCATCAGTAAGGCTTTCAAGCATGAT-CATGAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGC
1 GCCATCAATAAGGCTTTCAAGCATGATGC-TGAAATCCTTCAGGCCATCAGTAAGTCTTTCGAGC
* * *
1198905 ATGATGATTAAATCCTTCAGGTAATTTGTAAGCTTTAACCGAAGAGTAGTGAAGCAAATCCATCA
65 ATGATGATTAAATCCTTCAGGTAATTTATAAGCCTTAACCGAAGAGTAGTGAAGCAAACCCATCA
1198970 ATAAGT
130 ATAAGT
1198976 CTTTCGAGCA
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
134 1 0.01
135 118 0.99
ACGTcount: A:0.31, C:0.19, G:0.20, T:0.29
Consensus pattern (135 bp):
GCCATCAATAAGGCTTTCAAGCATGATGCTGAAATCCTTCAGGCCATCAGTAAGTCTTTCGAGCA
TGATGATTAAATCCTTCAGGTAATTTATAAGCCTTAACCGAAGAGTAGTGAAGCAAACCCATCAA
TAAGT
Found at i:1199033 original size:42 final size:40
Alignment explanation
Indices: 1198971--1199056 Score: 127
Period size: 42 Copynumber: 2.1 Consensus size: 40
1198961 AATCCATCAA
* *
1198971 TAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT
1 TAAGTCTTTCGAGCAAGATGAT-AAATCCTTCGGGCCATTT
*
1199012 GTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATTT
1 -TAAGTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATTT
1199053 TAAG
1 TAAG
1199057 CATTCTCGGA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
40 4 0.10
41 16 0.39
42 21 0.51
ACGTcount: A:0.26, C:0.17, G:0.23, T:0.34
Consensus pattern (40 bp):
TAAGTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATTT
Found at i:1199508 original size:53 final size:53
Alignment explanation
Indices: 1199427--1199739 Score: 373
Period size: 53 Copynumber: 5.9 Consensus size: 53
1199417 AGAATCATAC
1199427 CAGAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* *
1199480 TAGAAGATTGTTCAAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * *
1199533 CAGAAGGTTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGTGAACCCGT-GG
1 CAGAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * *
1199585 ACAGAAGATTGTTCGA-TTTCTACCCCCTGAAGCAA-AAGGAGTGAACCCGTAAG
1 -CAGAAGATTGTTCGAGTTT-TACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * * ***
1199638 CATAAGATTATTCGAGTTCTACTCCCTGAAGCAATAGGGAGCGAACCCGTTTT
1 CAGAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
* * * * *
1199691 TAGAAGATTATTCAAGTTCCTTAATCCCTGAA-CAAGAGGAAGCGAACCC
1 CAGAAGATTGTTCGAGTT--TTACTCCCTGAAGCAAGAGGGAGCGAACCC
1199740 ATCATTTGAA
Statistics
Matches: 225, Mismatches: 28, Indels: 13
0.85 0.11 0.05
Matches are distributed among these distances:
52 45 0.20
53 155 0.69
54 15 0.07
55 10 0.04
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTTTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGG
Found at i:1206278 original size:52 final size:52
Alignment explanation
Indices: 1206186--1206556 Score: 397
Period size: 52 Copynumber: 7.0 Consensus size: 52
1206176 GCATTTAACA
* * *
1206186 TTTCATCTAACTTGCATTATTGGCACCTTTCAT-CCCAATGCATAGTTAGGCC
1 TTTCATCTAACTTGCATTATTGGCACATTTC-TGCCAAATGCACAGTTAGGCC
*
1206238 TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAAATGCACAATTA-GCC
1 TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAAATGCACAGTTAGGCC
* * * *
1206289 TTTCATCTAACTTGCATTATTGGCATC-TTTATGCTAAATGCATAGTTAAGCC
1 TTTCATCTAACTTGCATTATTGGCA-CATTTCTGCCAAATGCACAGTTAGGCC
* * * *
1206341 TTTCGTCTAACTTGCATTATTGGCACATTTCTTCTAAATGCACAATTAGGCC
1 TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAAATGCACAGTTAGGCC
** * * *
1206393 TTTCATCTAACTTGCATTATTAACACCTTTCTGCCAAATGCACAATTAGACC
1 TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAAATGCACAGTTAGGCC
* * * *
1206445 TTTCATCTAACTTGCATTATTGACATATTTATGCCAATATACACAGTTAGGCATTTAAC
1 TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAA-ATGCACAGTTAGGC------C
* * * *
1206504 TGATCATCTAACTTGCATTAATGGCACATTTCTTCCAATATGCACTGTTAGGC
1 T-TTCATCTAACTTGCATTATTGGCACATTTCTGCCAA-ATGCACAGTTAGGC
1206557 ATTTAACTAT
Statistics
Matches: 271, Mismatches: 36, Indels: 16
0.84 0.11 0.05
Matches are distributed among these distances:
51 47 0.17
52 168 0.62
53 11 0.04
59 2 0.01
60 43 0.16
ACGTcount: A:0.27, C:0.23, G:0.12, T:0.37
Consensus pattern (52 bp):
TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAAATGCACAGTTAGGCC
Found at i:1206365 original size:103 final size:104
Alignment explanation
Indices: 1206127--1206496 Score: 431
Period size: 103 Copynumber: 3.5 Consensus size: 104
1206117 ATACACTATT
* * * * *
1206127 TTTCATATAACTAGCATTAGTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACATTTCAT
1 TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAAATGCACAATTAGGC------C-TTTCAT
* *
1206192 CTAACTTGCATTATTGGCACCTTTCAT-CCCAATGCATAGTTAGGCC
59 CTAACTTGCATTATTGGCACCTTT-ATGCCAAATGCATAGTTAAGCC
1206238 TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAAATGCACAATTA-GCCTTTCATCTAACTT
1 TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAAATGCACAATTAGGCCTTTCATCTAACTT
* *
1206302 GCATTATTGGCATCTTTATGCTAAATGCATAGTTAAGCC
66 GCATTATTGGCACCTTTATGCCAAATGCATAGTTAAGCC
* * *
1206341 TTTCGTCTAACTTGCATTATTGGCACATTTCTTCTAAATGCACAATTAGGCCTTTCATCTAACTT
1 TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAAATGCACAATTAGGCCTTTCATCTAACTT
** * * *
1206406 GCATTATTAACACCTTTCTGCCAAATGCACAATT-AGACC
66 GCATTATTGGCACCTTTATGCCAAATGCATAGTTAAG-CC
* * * * *
1206445 TTTCATCTAACTTGCATTATTGACATATTTATGCCAATATACACAGTTAGGC
1 TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAA-ATGCACAATTAGGC
1206497 ATTTAACTGA
Statistics
Matches: 228, Mismatches: 27, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
102 2 0.01
103 92 0.40
104 77 0.34
105 12 0.05
110 2 0.01
111 43 0.19
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (104 bp):
TTTCATCTAACTTGCATTATTGGCACATTTCTGCCAAATGCACAATTAGGCCTTTCATCTAACTT
GCATTATTGGCACCTTTATGCCAAATGCATAGTTAAGCC
Found at i:1206460 original size:26 final size:26
Alignment explanation
Indices: 1206186--1206461 Score: 124
Period size: 26 Copynumber: 10.7 Consensus size: 26
1206176 GCATTTAACA
* *
1206186 TTTCATCTAACTTGCATTATTGGCACC
1 TTTCATCTAACTTGCATAATTAG-ACC
* * *
1206213 TTTCATCCCAA--TGCATAGTTAGGCC
1 TTTCAT-CTAACTTGCATAATTAGACC
* * *
1206238 TTTCATCTAACTTGCATTATTGGCACA
1 TTTCATCTAACTTGCATAATTAG-ACC
* * *
1206265 TTTC-TGCCAA-ATGCACAATTAG-CC
1 TTTCAT-CTAACTTGCATAATTAGACC
* * *
1206289 TTTCATCTAACTTGCATTATTGGCATC
1 TTTCATCTAACTTGCATAATTAG-ACC
* *
1206316 TTT-ATGCTAA-ATGCATAGTTA-AGCC
1 TTTCAT-CTAACTTGCATAATTAGA-CC
* * * *
1206341 TTTCGTCTAACTTGCATTATTGGCACA
1 TTTCATCTAACTTGCATAATTAG-ACC
* * * *
1206368 TTTCTTCTAA-ATGCACAATTAGGCC
1 TTTCATCTAACTTGCATAATTAGACC
* *
1206393 TTTCATCTAACTTGCATTATTAACACC
1 TTTCATCTAACTTGCATAATT-AGACC
* * *
1206420 TTTC-TGCCAA-ATGCACAATTAGACC
1 TTTCAT-CTAACTTGCATAATTAGACC
1206445 TTTCATCTAACTTGCAT
1 TTTCATCTAACTTGCAT
1206462 TATTGACATA
Statistics
Matches: 174, Mismatches: 55, Indels: 41
0.64 0.20 0.15
Matches are distributed among these distances:
24 12 0.07
25 46 0.26
26 70 0.40
27 42 0.24
28 4 0.02
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.38
Consensus pattern (26 bp):
TTTCATCTAACTTGCATAATTAGACC
Found at i:1206542 original size:60 final size:60
Alignment explanation
Indices: 1206447--1206564 Score: 173
Period size: 60 Copynumber: 2.0 Consensus size: 60
1206437 ATTAGACCTT
* *
1206447 TCATCTAACTTGCATTATTGACATATTTATGCCAATATACACAGTTAGGCATTTAACTGA
1 TCATCTAACTTGCATTAATGACACATTTATGCCAATATACACAGTTAGGCATTTAACTGA
* * * * *
1206507 TCATCTAACTTGCATTAATGGCACATTTCTTCCAATATGCACTGTTAGGCATTTAACT
1 TCATCTAACTTGCATTAATGACACATTTATGCCAATATACACAGTTAGGCATTTAACT
1206565 ATTCTTCATT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
60 51 1.00
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (60 bp):
TCATCTAACTTGCATTAATGACACATTTATGCCAATATACACAGTTAGGCATTTAACTGA
Found at i:1217512 original size:23 final size:23
Alignment explanation
Indices: 1217454--1217551 Score: 70
Period size: 23 Copynumber: 4.3 Consensus size: 23
1217444 GAGTCGAGGG
*
1217454 ATTCTACACGGTCCTTCGGGATA
1 ATTCTACACGGTCCTTCGGGACA
* **** *
1217477 ATTATGTGTGGTCCTTTGGGACA
1 ATTCTACACGGTCCTTCGGGACA
* *
1217500 ATTCTACGCGGTCATTCGGGACA
1 ATTCTACACGGTCCTTCGGGACA
* * * * *
1217523 ATTCTATATGGTCGTTTGGGATA
1 ATTCTACACGGTCCTTCGGGACA
1217546 ATTCTA
1 ATTCTA
1217552 TGTGACACTT
Statistics
Matches: 56, Mismatches: 19, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
23 56 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (23 bp):
ATTCTACACGGTCCTTCGGGACA
Found at i:1217535 original size:46 final size:46
Alignment explanation
Indices: 1217454--1217551 Score: 124
Period size: 46 Copynumber: 2.1 Consensus size: 46
1217444 GAGTCGAGGG
* * * *
1217454 ATTCTACACGGTCCTTCGGGATAATTATGTGTGGTCCTTTGGGACA
1 ATTCTACACGGTCATTCGGGACAATTATATATGGTCCTTTGGGACA
* * * *
1217500 ATTCTACGCGGTCATTCGGGACAATTCTATATGGTCGTTTGGGATA
1 ATTCTACACGGTCATTCGGGACAATTATATATGGTCCTTTGGGACA
1217546 ATTCTA
1 ATTCTA
1217552 TGTGACACTT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.21, C:0.18, G:0.24, T:0.36
Consensus pattern (46 bp):
ATTCTACACGGTCATTCGGGACAATTATATATGGTCCTTTGGGACA
Found at i:1217552 original size:23 final size:23
Alignment explanation
Indices: 1217483--1217555 Score: 83
Period size: 23 Copynumber: 3.2 Consensus size: 23
1217473 GATAATTATG
*
1217483 TGTGGTCCTTTGGGACAATTCTA
1 TGTGGTCATTTGGGACAATTCTA
* * *
1217506 CGCGGTCATTCGGGACAATTCTA
1 TGTGGTCATTTGGGACAATTCTA
* * *
1217529 TATGGTCGTTTGGGATAATTCTA
1 TGTGGTCATTTGGGACAATTCTA
1217552 TGTG
1 TGTG
1217556 ACACTTCGGT
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.37
Consensus pattern (23 bp):
TGTGGTCATTTGGGACAATTCTA
Found at i:1223675 original size:30 final size:29
Alignment explanation
Indices: 1223612--1223675 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
1223602 ACAAGCCTTA
*
1223612 GAAAAATTTGGGACCATTTTGTAAATTTT
1 GAAAAATTGGGGACCATTTTGTAAATTTT
*
1223641 -AAAAACTTGGGGACCAATTTTG-CAATTTT
1 GAAAAA-TTGGGGACC-ATTTTGTAAATTTT
1223670 GAAAAA
1 GAAAAA
1223676 GTTTTGAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
28 5 0.17
29 14 0.47
30 11 0.37
ACGTcount: A:0.39, C:0.09, G:0.17, T:0.34
Consensus pattern (29 bp):
GAAAAATTGGGGACCATTTTGTAAATTTT
Found at i:1224263 original size:24 final size:24
Alignment explanation
Indices: 1224231--1224277 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
1224221 CATGAAATTG
1224231 TACATAGATGTTTTATACATCATA
1 TACATAGATGTTTTATACATCATA
1224255 TACATAGATGTTTTATACATCAT
1 TACATAGATGTTTTATACATCAT
1224278 CTGGAAGACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (24 bp):
TACATAGATGTTTTATACATCATA
Found at i:1224636 original size:40 final size:40
Alignment explanation
Indices: 1224577--1224702 Score: 155
Period size: 40 Copynumber: 3.1 Consensus size: 40
1224567 AACACTATAG
*
1224577 TGTGTAAGGAGACTA-AGTGTATATGGTGGGCACAACCTTA
1 TGTGTAATGA-ACTACAGTGTATATGGTGGGCACAACCTTA
* * *
1224617 TGTGTATTGAACTGCAGTGTATATGGTGGGCACAAACTTA
1 TGTGTAATGAACTACAGTGTATATGGTGGGCACAACCTTA
* * * **
1224657 TGTGTAATGCACTACGGTGTATATGGTGGGTATGACCTTA
1 TGTGTAATGAACTACAGTGTATATGGTGGGCACAACCTTA
1224697 TGTGTA
1 TGTGTA
1224703 GCACTACGGT
Statistics
Matches: 73, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 3 0.04
40 70 0.96
ACGTcount: A:0.26, C:0.12, G:0.29, T:0.33
Consensus pattern (40 bp):
TGTGTAATGAACTACAGTGTATATGGTGGGCACAACCTTA
Found at i:1232062 original size:54 final size:54
Alignment explanation
Indices: 1231996--1232388 Score: 615
Period size: 54 Copynumber: 7.3 Consensus size: 54
1231986 GATTACCGAA
*
1231996 TGGCACTATGTGTGCAACCTAAGAAATTCATAATGAGTTTATGAATTTCCGTAT
1 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
* * * *
1232050 TGGCACTGTGTGTGCAACTTAAGAAATTCATAATGAGTTTATGAATTTCCATAT
1 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1232104 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
1 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
*
1232158 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATTAATTTCCGTAT
1 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
*
1232212 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAACTTTATGAATTTCCGTAT
1 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
***
1232266 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTATTTAT
1 TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
* * * * * * *
1232320 TGGCACTGTGTGTACAACCTCACGTAATTCATAATAAGTTTGTGAATTACCATAT
1 TGGCACTATGTGTGCAACCT-AAGAAATTCATAATAAGTTTATGAATTTCCGTAT
*
1232375 TGGCACTACGTGTG
1 TGGCACTATGTGTG
1232389 TAAACTATAT
Statistics
Matches: 312, Mismatches: 26, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
54 274 0.88
55 38 0.12
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (54 bp):
TGGCACTATGTGTGCAACCTAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
Found at i:1232605 original size:82 final size:82
Alignment explanation
Indices: 1232469--1232769 Score: 416
Period size: 81 Copynumber: 3.7 Consensus size: 82
1232459 TTCTAAAATA
* * **
1232469 AAAGACTAAATGCCTAACTGTGCATTT--CTATAAAGGTGTTAATAATGCAAGTTAGATGAAAGG
1 AAAGACTAAATGCCTAAATGTGCATTTGGC-AGAAAGGTGCCAATAATGCAAGTTAGATGAAAGG
1232532 TTAAATGCCTTTGGGATG
65 TTAAATGCCTTTGGGATG
* *
1232550 AAAGACTAAATGTCTAAATGTGCATTTGGCATAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
1 AAAGACTAAATGCCTAAATGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
*
1232615 TAAATGCCTTTAGGATG
66 TAAATGCCTTTGGGATG
* * *
1232632 AAAGACT-AATGCCTAAATGTGAATTTGGAAGAAATGTGCCAATAATGCAAGTTAGATGAAAGGT
1 AAAGACTAAATGCCTAAATGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
1232696 TAAATGCCTTTGGGATG
66 TAAATGCCTTTGGGATG
* * * *
1232713 AAAGACTAAATACCTAACTGTGCTTTTTGGCAGAAAGGTG---TTAATGCAAGTTAGATG
1 AAAGACTAAATGCCTAAATGTGC-ATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATG
1232770 CCTAACGGTC
Statistics
Matches: 198, Mismatches: 18, Indels: 9
0.88 0.08 0.04
Matches are distributed among these distances:
80 16 0.08
81 100 0.51
82 68 0.34
83 14 0.07
ACGTcount: A:0.37, C:0.11, G:0.23, T:0.29
Consensus pattern (82 bp):
AAAGACTAAATGCCTAAATGTGCATTTGGCAGAAAGGTGCCAATAATGCAAGTTAGATGAAAGGT
TAAATGCCTTTGGGATG
Found at i:1232792 original size:46 final size:47
Alignment explanation
Indices: 1232740--1232832 Score: 143
Period size: 49 Copynumber: 2.0 Consensus size: 47
1232730 CTGTGCTTTT
*
1232740 TGGCAGAAAGGTG-TTAATGCAAGTTAGATGCCTAACGGTCCATTTC
1 TGGCAGAAAGGTGCTTAATGCAAGATAGATGCCTAACGGTCCATTTC
*
1232786 TGGCAGAAAGGTGCCATTAATGCAAGATAGATGCCTAATGGTCCATT
1 TGGCAGAAAGGTG-C-TTAATGCAAGATAGATGCCTAACGGTCCATT
1232833 GTTATGGCCT
Statistics
Matches: 42, Mismatches: 2, Indels: 3
0.89 0.04 0.06
Matches are distributed among these distances:
46 13 0.31
49 29 0.69
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (47 bp):
TGGCAGAAAGGTGCTTAATGCAAGATAGATGCCTAACGGTCCATTTC
Found at i:1236556 original size:18 final size:18
Alignment explanation
Indices: 1236533--1236580 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
1236523 TTGAAAAATT
*
1236533 GATATCAATTGTTAGAGA
1 GATATCAATTGCTAGAGA
*
1236551 GATATCATTTGCTAGAGA
1 GATATCAATTGCTAGAGA
*
1236569 GATATCATTTGC
1 GATATCAATTGC
1236581 AATAAATCAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.35
Consensus pattern (18 bp):
GATATCAATTGCTAGAGA
Found at i:1240115 original size:21 final size:21
Alignment explanation
Indices: 1240089--1240128 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
1240079 CCATGACAAG
1240089 GAGTATCGGTACT-CCTTTAAT
1 GAGTATC-GTACTACCTTTAAT
1240110 GAGTATCGTACTACCTTTA
1 GAGTATCGTACTACCTTTA
1240129 TAATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (21 bp):
GAGTATCGTACTACCTTTAAT
Found at i:1242830 original size:25 final size:25
Alignment explanation
Indices: 1242802--1242862 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
1242792 GGTAATTTTT
*
1242802 GACTAATCCAAAATTTGTAAGTCTC
1 GACTAATCCAAAATTTGTAAATCTC
** **
1242827 GACTAATTTAATTTTTGTAAATCTC
1 GACTAATCCAAAATTTGTAAATCTC
*
1242852 GAATAATCCAA
1 GACTAATCCAA
1242863 TAAGAATACT
Statistics
Matches: 28, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.38, C:0.16, G:0.10, T:0.36
Consensus pattern (25 bp):
GACTAATCCAAAATTTGTAAATCTC
Found at i:1245088 original size:112 final size:111
Alignment explanation
Indices: 1244932--1245158 Score: 330
Period size: 112 Copynumber: 2.0 Consensus size: 111
1244922 ATAGGTACAT
** * * * *
1244932 TTCGACATACTTTGTGTATGATAGTATCGATCGATTTTGTTTAATTAATAACGGTGCATTTTCGG
1 TTCGACATACTTCATGTATGAAAGTATCAATCGATTTTGCTTAATGAATAACGGTGCATTTTCGG
1244997 CAAAAAAAGTGCCACCCATGGTATTCATAATGAGGT-AAATTACCAG
66 CAAAAAAAGTGCCACCCATGGTATTCATAATGAGGTGAAA-TACCAG
* *
1245043 TTCGACATGCTTCATGTATGAAAGTTATCAATCGATTTTGCTTAATGCATAACGGTGCATTTTCG
1 TTCGACATACTTCATGTATGAAAG-TATCAATCGATTTTGCTTAATGAATAACGGTGCATTTTCG
* * *
1245108 GCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAAATACCAT
65 GCAAAAAAAGTGCCACCCATGGTATTCATAATGAGGTGAAATACCAG
1245155 TTCG
1 TTCG
1245159 GTATTTCGGT
Statistics
Matches: 103, Mismatches: 11, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
111 20 0.19
112 80 0.78
113 3 0.03
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.33
Consensus pattern (111 bp):
TTCGACATACTTCATGTATGAAAGTATCAATCGATTTTGCTTAATGAATAACGGTGCATTTTCGG
CAAAAAAAGTGCCACCCATGGTATTCATAATGAGGTGAAATACCAG
Found at i:1247130 original size:30 final size:30
Alignment explanation
Indices: 1247096--1247164 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
1247086 CATATTAGGG
*
1247096 ATTTTATTATTTTAAATTAATTAAATATTT
1 ATTTTATTATTTCAAATTAATTAAATATTT
1247126 ATTTTATTATTTCAAATTAATTAAATATTT
1 ATTTTATTATTTCAAATTAATTAAATATTT
*
1247156 ATTTAATTA
1 ATTTTATTA
1247165 ATTAGAATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (30 bp):
ATTTTATTATTTCAAATTAATTAAATATTT
Found at i:1247174 original size:30 final size:30
Alignment explanation
Indices: 1247109--1247175 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 30
1247099 TTATTATTTT
* *
1247109 AAATTAATTAAATATTTATTTTATTATTTC
1 AAATTAATTAAATATTTATTTAATTAATTC
1247139 AAATTAATTAAATATTTATTTAATTAATT-
1 AAATTAATTAAATATTTATTTAATTAATTC
1247168 AGAATTAA
1 A-AATTAA
1247176 ATATTCAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 1 0.03
30 33 0.97
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (30 bp):
AAATTAATTAAATATTTATTTAATTAATTC
Found at i:1253936 original size:15 final size:15
Alignment explanation
Indices: 1253916--1253956 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
1253906 TAAACAACAG
*
1253916 CAACACAAGAGGCAC
1 CAACACAACAGGCAC
*
1253931 CAACACAACAGGCAG
1 CAACACAACAGGCAC
*
1253946 TAACACAACAG
1 CAACACAACAG
1253957 TCATCACCAC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.32, G:0.17, T:0.02
Consensus pattern (15 bp):
CAACACAACAGGCAC
Found at i:1262530 original size:111 final size:113
Alignment explanation
Indices: 1262398--1262627 Score: 392
Period size: 113 Copynumber: 2.1 Consensus size: 113
1262388 GTTATAGGTG
* * * * * *
1262398 CATTTCGACATACTTTGTGTATGATAG-TATCGATCGATTTTGTTTAATGCATAACGATGCA-TT
1 CATTTCAACATACTTCGTGTATGAAAGTTATCGATCGATTTTGCTTAATGCAGAACAATGCATTT
1262461 TTTGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
66 TTTGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
1262509 CATTTCAACATACTTCGTGTATGAAAGTTATCGATCGATTTTGCTTAATGCAGAACAATGCATTT
1 CATTTCAACATACTTCGTGTATGAAAGTTATCGATCGATTTTGCTTAATGCAGAACAATGCATTT
1262574 TTTGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
66 TTTGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
1262622 CATTTC
1 CATTTC
1262628 GGCACTTCGG
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
111 24 0.22
112 31 0.28
113 56 0.50
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.35
Consensus pattern (113 bp):
CATTTCAACATACTTCGTGTATGAAAGTTATCGATCGATTTTGCTTAATGCAGAACAATGCATTT
TTTGGCATAAAAGGTGCCACCCATGGTATTCATAATGAGGTGAATTAC
Found at i:1269766 original size:3 final size:3
Alignment explanation
Indices: 1269758--1269784 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
1269748 GAATAGGGTT
1269758 TTG TTG TTG TTG TTG TTG TTG TTG TTG
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG
1269785 ATGAATACGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.33, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:1281144 original size:17 final size:17
Alignment explanation
Indices: 1281122--1281169 Score: 87
Period size: 17 Copynumber: 2.8 Consensus size: 17
1281112 CAGGTGCGCC
*
1281122 AGGATCTTTACTTGGAT
1 AGGATCTCTACTTGGAT
1281139 AGGATCTCTACTTGGAT
1 AGGATCTCTACTTGGAT
1281156 AGGATCTCTACTTG
1 AGGATCTCTACTTG
1281170 AAGGATAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.38
Consensus pattern (17 bp):
AGGATCTCTACTTGGAT
Found at i:1285229 original size:38 final size:38
Alignment explanation
Indices: 1285178--1285252 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
1285168 TTATCATAAG
1285178 CTGAACCGAGCAAAACCAGATAGTTGTACTTGAAAATA
1 CTGAACCGAGCAAAACCAGATAGTTGTACTTGAAAATA
1285216 CTGAACCGAGCAAAACCAGATAGTTGTACTTGAAAAT
1 CTGAACCGAGCAAAACCAGATAGTTGTACTTGAAAAT
1285253 CAATGATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.19, G:0.19, T:0.21
Consensus pattern (38 bp):
CTGAACCGAGCAAAACCAGATAGTTGTACTTGAAAATA
Found at i:1286678 original size:44 final size:44
Alignment explanation
Indices: 1286615--1286711 Score: 194
Period size: 44 Copynumber: 2.2 Consensus size: 44
1286605 TTCCGACCCT
1286615 AGTTTGTTGACAAATCTGTATGAAGGTGATTACTAGTTATTAAA
1 AGTTTGTTGACAAATCTGTATGAAGGTGATTACTAGTTATTAAA
1286659 AGTTTGTTGACAAATCTGTATGAAGGTGATTACTAGTTATTAAA
1 AGTTTGTTGACAAATCTGTATGAAGGTGATTACTAGTTATTAAA
1286703 AGTTTGTTG
1 AGTTTGTTG
1286712 TTTTGAAAAA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 53 1.00
ACGTcount: A:0.32, C:0.06, G:0.22, T:0.40
Consensus pattern (44 bp):
AGTTTGTTGACAAATCTGTATGAAGGTGATTACTAGTTATTAAA
Found at i:1287524 original size:16 final size:18
Alignment explanation
Indices: 1287500--1287538 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
1287490 AATGCCGTTC
*
1287500 AAAACAATTTT-AAGA-A
1 AAAATAATTTTAAAGACA
1287516 AAAATAATTTTAAAGACA
1 AAAATAATTTTAAAGACA
1287534 AAAAT
1 AAAAT
1287539 TGTAACACCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 10 0.50
17 4 0.20
18 6 0.30
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAATAATTTTAAAGACA
Found at i:1299999 original size:23 final size:23
Alignment explanation
Indices: 1299969--1300016 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
1299959 AATAAATTTG
*
1299969 ATTTAACATTTTACTT-TGACTAA
1 ATTTAACATGTTA-TTATGACTAA
1299992 ATTTAACATGTTATTATGACTAA
1 ATTTAACATGTTATTATGACTAA
1300015 AT
1 AT
1300017 CATTTTGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 21 0.91
ACGTcount: A:0.38, C:0.10, G:0.06, T:0.46
Consensus pattern (23 bp):
ATTTAACATGTTATTATGACTAA
Found at i:1304814 original size:30 final size:30
Alignment explanation
Indices: 1304775--1304836 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
1304765 AACCTATGAC
*
1304775 AGTTGCCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
1304805 AGTTACCGAGGATCTTTATGACCTCTGGAT
1 AGTTACCGAGGATCTTTATGACCTCTGGAT
1304835 AG
1 AG
1304837 GTCCTTCGGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.23, C:0.19, G:0.26, T:0.32
Consensus pattern (30 bp):
AGTTACCGAGGATCTTTATGACCTCTGGAT
Found at i:1305530 original size:19 final size:20
Alignment explanation
Indices: 1305491--1305539 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
1305481 AACCCCTTTC
* *
1305491 AAAATACATAATTTTTGATG
1 AAAATACATGATTTTTAATG
1305511 AAAATACATGA-TTTTAATG
1 AAAATACATGATTTTTAATG
*
1305530 AAGATACATG
1 AAAATACATG
1305540 CTCTTGGCCG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (20 bp):
AAAATACATGATTTTTAATG
Found at i:1309521 original size:18 final size:18
Alignment explanation
Indices: 1309498--1309540 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
1309488 TCACGTCCCT
1309498 AAATTCCTACGACCTTTC
1 AAATTCCTACGACCTTTC
*
1309516 AAATTCCTAGGACCTTTC
1 AAATTCCTACGACCTTTC
*
1309534 GAATTCC
1 AAATTCC
1309541 ACCTTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (18 bp):
AAATTCCTACGACCTTTC
Found at i:1313194 original size:18 final size:19
Alignment explanation
Indices: 1313144--1313194 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
1313134 TATTAAAATT
1313144 TAAAT-AAAAATAATAATA
1 TAAATAAAAAATAATAATA
*
1313162 TCAATAACAATAATAATAATA
1 TAAATAA-AA-AATAATAATA
1313183 -AAATAAAAAATA
1 TAAATAAAAAATA
1313195 TATGATGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 8 0.29
19 3 0.11
20 7 0.25
21 10 0.36
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (19 bp):
TAAATAAAAAATAATAATA
Found at i:1313685 original size:28 final size:28
Alignment explanation
Indices: 1313645--1313772 Score: 238
Period size: 28 Copynumber: 4.6 Consensus size: 28
1313635 GAGATAAAGA
1313645 TTGTTTCAAGGGAAACAACATTTTGTTC
1 TTGTTTCAAGGGAAACAACATTTTGTTC
1313673 TTGTTTCAAGGGAAACAACATTTTGTTC
1 TTGTTTCAAGGGAAACAACATTTTGTTC
*
1313701 TTATTTCAAGGGAAACAACATTTTGTTC
1 TTGTTTCAAGGGAAACAACATTTTGTTC
*
1313729 TTGTTTCAAGGGAAATAACATTTTGTTC
1 TTGTTTCAAGGGAAACAACATTTTGTTC
1313757 TTGTTTCAAGGGAAAC
1 TTGTTTCAAGGGAAAC
1313773 CATGTTGAAT
Statistics
Matches: 96, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 96 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.39
Consensus pattern (28 bp):
TTGTTTCAAGGGAAACAACATTTTGTTC
Found at i:1322549 original size:19 final size:20
Alignment explanation
Indices: 1322506--1322553 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
1322496 ATGCCTGAAA
* * *
1322506 TATCGATACTGACCCTTGGG
1 TATCGATACTCACCCATGAG
1322526 TATCGATACTCA-CCATGAG
1 TATCGATACTCACCCATGAG
1322545 TATCGATAC
1 TATCGATAC
1322554 AAAAAACAAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (20 bp):
TATCGATACTCACCCATGAG
Found at i:1335036 original size:8 final size:8
Alignment explanation
Indices: 1335003--1335040 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
1334993 GGAAGATGAT
1335003 GAAGAAAA
1 GAAGAAAA
*
1335011 GAAGGACAA
1 GAA-GAAAA
1335020 GAA-AAAA
1 GAAGAAAA
1335027 GAAGAAAA
1 GAAGAAAA
1335035 GAAGAA
1 GAAGAA
1335041 GGAGGTAGGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
7 6 0.23
8 13 0.50
9 7 0.27
ACGTcount: A:0.71, C:0.03, G:0.26, T:0.00
Consensus pattern (8 bp):
GAAGAAAA
Found at i:1350863 original size:20 final size:20
Alignment explanation
Indices: 1350838--1350908 Score: 108
Period size: 20 Copynumber: 3.5 Consensus size: 20
1350828 ATTTAAAGAA
* *
1350838 GTATCGATACTAAG-GTGTAG
1 GTATCGATACCAAGAG-GAAG
1350858 GTATCGATACCAAGAGGAAG
1 GTATCGATACCAAGAGGAAG
1350878 GTATCGATACCAAGAGGAAG
1 GTATCGATACCAAGAGGAAG
1350898 GTATCGATACC
1 GTATCGATACC
1350909 GTAATCAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 47 0.98
21 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.28, T:0.21
Consensus pattern (20 bp):
GTATCGATACCAAGAGGAAG
Found at i:1351615 original size:47 final size:47
Alignment explanation
Indices: 1351558--1351684 Score: 191
Period size: 47 Copynumber: 2.7 Consensus size: 47
1351548 TTATTGATTG
*
1351558 ATTTTGTTTAATGCATAAATTGCATTTTCGTATGATGATTATCGATCA
1 ATTTT-TTTAATGCATAAGTTGCATTTTCGTATGATGATTATCGATCA
* *
1351606 ATTTTTTTAATGCATAAGTTGCATTTTCGTATGATGGTTATCGATCG
1 ATTTTTTTAATGCATAAGTTGCATTTTCGTATGATGATTATCGATCA
* * *
1351653 ATTTGTTTAATGCTTATGTTGCATTTTCGTAT
1 ATTTTTTTAATGCATAAGTTGCATTTTCGTAT
1351685 TAGTACTATA
Statistics
Matches: 73, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
47 68 0.93
48 5 0.07
ACGTcount: A:0.24, C:0.10, G:0.17, T:0.49
Consensus pattern (47 bp):
ATTTTTTTAATGCATAAGTTGCATTTTCGTATGATGATTATCGATCA
Found at i:1351822 original size:52 final size:52
Alignment explanation
Indices: 1351721--1351822 Score: 143
Period size: 52 Copynumber: 2.0 Consensus size: 52
1351711 TGTGTACACC
* *
1351721 CATGGTATTCATAATGAGTTTATGAATGACCATTTCGGCACTATTGTGCATT
1 CATGGAATTCATAATGAGTTTATGAATGACCATTTCGGCACTATGGTGCATT
* * *
1351773 CATGGAATTCATAATGAGTTTGTGGATTACCATTTCGGCACT-TAGGTGCA
1 CATGGAATTCATAATGAGTTTATGAATGACCATTTCGGCACTAT-GGTGCA
1351823 ATTTAAGTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
51 1 0.02
52 43 0.98
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.36
Consensus pattern (52 bp):
CATGGAATTCATAATGAGTTTATGAATGACCATTTCGGCACTATGGTGCATT
Found at i:1353469 original size:28 final size:29
Alignment explanation
Indices: 1353438--1353518 Score: 83
Period size: 30 Copynumber: 2.8 Consensus size: 29
1353428 AAAATTTTGG
*
1353438 TTAGTGATCAAAATA-AAATTTTGAAAGT
1 TTAGTGACCAAAATATAAATTTTGAAAGT
** *
1353466 TTAGTGACCAATGTATAAATTTTGAAAATT
1 TTAGTGACCAAAATATAAATTTTG-AAAGT
* * *
1353496 TTAGGGACCAAAATGTAATTTTT
1 TTAGTGACCAAAATATAAATTTT
1353519 AAAAATTATA
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
28 12 0.29
29 8 0.19
30 22 0.52
ACGTcount: A:0.41, C:0.06, G:0.15, T:0.38
Consensus pattern (29 bp):
TTAGTGACCAAAATATAAATTTTGAAAGT
Found at i:1355083 original size:26 final size:27
Alignment explanation
Indices: 1355054--1355115 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 27
1355044 ATATATGATA
1355054 ATATATATA-AAATAATTTCAGAAAAT
1 ATATATATATAAATAATTTCAGAAAAT
* * **
1355080 ATATA-ATATATATAGTTTTTGAAAAT
1 ATATATATATAAATAATTTCAGAAAAT
1355106 ATATA-ATATA
1 ATATATATATA
1355116 GTTTTTGAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
25 3 0.10
26 28 0.90
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (27 bp):
ATATATATATAAATAATTTCAGAAAAT
Found at i:1355107 original size:24 final size:26
Alignment explanation
Indices: 1355074--1355142 Score: 101
Period size: 22 Copynumber: 2.8 Consensus size: 26
1355064 AATAATTTCA
*
1355074 GAAAATATATAATATATATAGTTTTT
1 GAAAACATATAATATATATAGTTTTT
1355100 G-AAA-ATAT-ATA-ATATAGTTTTT
1 GAAAACATATAATATATATAGTTTTT
1355122 GAAAACATATAATATATATAG
1 GAAAACATATAATATATATAG
1355143 GCCTAACCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
22 12 0.31
23 6 0.15
24 8 0.21
25 6 0.15
26 7 0.18
ACGTcount: A:0.49, C:0.01, G:0.09, T:0.41
Consensus pattern (26 bp):
GAAAACATATAATATATATAGTTTTT
Found at i:1384231 original size:22 final size:22
Alignment explanation
Indices: 1384195--1384316 Score: 90
Period size: 22 Copynumber: 5.5 Consensus size: 22
1384185 AAAATATATA
* *
1384195 ATAT-ATATAGGTTTTGAAAAT
1 ATATAATATAGTTTTTGAAAAC
*
1384216 ATATAATATAGTTTTTGTAAAC
1 ATATAATATAGTTTTTGAAAAC
* *
1384238 ATATTATATA-ATTTTGAAAAC
1 ATATAATATAGTTTTTGAAAAC
1384259 ATATAATCTATATATAGTTTTTGAAAAC
1 --AT-A--TA-ATATAGTTTTTGAAAAC
* * *
1384287 ATATTATAT-TTTTTTGGAAA-
1 ATATAATATAGTTTTTGAAAAC
1384307 ATATAATATA
1 ATATAATATA
1384317 TAATATATAG
Statistics
Matches: 80, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
20 8 0.10
21 22 0.28
22 27 0.34
23 3 0.04
24 1 0.01
25 1 0.01
26 3 0.04
27 5 0.06
28 10 0.12
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.45
Consensus pattern (22 bp):
ATATAATATAGTTTTTGAAAAC
Found at i:1384263 original size:69 final size:68
Alignment explanation
Indices: 1384169--1384316 Score: 172
Period size: 69 Copynumber: 2.1 Consensus size: 68
1384159 GATAATATAT
* * *
1384169 ATATAAAATAATTTCAAAAATATATAA-TATATATAGGTTTTGAAAATATATAATATAGTTTTTG
1 ATATAATATAATTTCAAAAACATATAACTATATATAGGTTTTGAAAACATATAATAT-GTTTTTG
*
1384233 TAAA
65 GAAA
* ** * * *
1384237 CATATTATATAATTTTGAAAACATATAATCTATATATAGTTTTTGAAAACATATTATATTTTTTT
1 -ATATAATATAATTTCAAAAACATATAA-CTATATATAGGTTTTGAAAACATATAATATGTTTTT
1384302 GGAAA
64 GGAAA
1384307 ATATAATATA
1 ATATAATATA
1384317 TAATATATAG
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
69 31 0.47
70 9 0.14
71 26 0.39
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.43
Consensus pattern (68 bp):
ATATAATATAATTTCAAAAACATATAACTATATATAGGTTTTGAAAACATATAATATGTTTTTGG
AAA
Found at i:1384279 original size:49 final size:49
Alignment explanation
Indices: 1384213--1384346 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 49
1384203 AGGTTTTGAA
*
1384213 AATATATAATATAGTTTTTGTAAACATATTATATAATTTTGAAAACATAT
1 AATATATAATATAGTTTTTGAAAACATATTATATAATTTTGAAAA-ATAT
* ** *
1384263 AATCTAT-ATATAGTTTTTGAAAACATATTATATTTTTTTGGAAAATAT
1 AATATATAATATAGTTTTTGAAAACATATTATATAATTTTGAAAAATAT
* *
1384311 AATATATAATATATAGTTTTTAAAATATATATTATA
1 AATATAT-A-ATATAGTTTTTGAAA-ACATATTATA
1384347 CATATTATTA
Statistics
Matches: 72, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
48 10 0.14
49 33 0.46
50 6 0.08
51 14 0.19
52 9 0.12
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.46
Consensus pattern (49 bp):
AATATATAATATAGTTTTTGAAAACATATTATATAATTTTGAAAAATAT
Found at i:1384310 original size:20 final size:21
Alignment explanation
Indices: 1384276--1384315 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1384266 CTATATATAG
*
1384276 TTTTTGAAAACATATTATATT
1 TTTTTGAAAACATATAATATT
*
1384297 TTTTTGGAAA-ATATAATAT
1 TTTTTGAAAACATATAATAT
1384316 ATAATATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.40, C:0.03, G:0.07, T:0.50
Consensus pattern (21 bp):
TTTTTGAAAACATATAATATT
Found at i:1390332 original size:196 final size:196
Alignment explanation
Indices: 1389948--1390377 Score: 485
Period size: 196 Copynumber: 2.2 Consensus size: 196
1389938 TACCCAAGTC
* * * * * * *
1389948 TCGATACTTTTGTATAAGGTATCGATACTTTCAAGACGTTTTCATTTTTTCATTTCTTTTCAATT
1 TCGATACATATGTATAAGGTATCGATACTTTCAAGACG-TCTCATTATTGCAATTCTTTTAAATT
* * *
1390013 CCTAAAGTACCGATACTATGATACATATACTTACAATAGTATCAATACCGTTAACATATCCGGTA
65 CCTAAAGTACCGATACTATGATACATATACTTACAAAAGTATCAATACAGTTAACATATCCGATA
** * * * *
1390078 GTGCTTTACCGATTTTGTCATGTTGAAACTGATTTTGTCAAATTTCAACCTTTTATATTGTCATG
130 GTGCTTTACCGATTTTGTCAAATTGAAACCGATTTTGTCAAACTTCAACATGTTATATTGTCATG
1390143 TA
195 TA
*
1390145 TCGATACATATGTCTAAGGTATCGATACTTT-ATAGACG-CT-ATTATTGCAATTCTTTTAAATT
1 TCGATACATATGTATAAGGTATCGATACTTTCA-AGACGTCTCATTATTGCAATTCTTTTAAATT
* * * * *
1390207 CCTAAAGTACCGATACTTTG-TGCATATACTTATAAAAGTATCAATACAAATTTCAACCAT-TTC
65 CCTAAAGTACCGATACTATGATACATATACTTACAAAAGTATCAATAC--AGTT-AA-CATATCC
* * *
1390270 GATA-TCTCTTTACTGGTTTTGTCAAATTGAAACCGATTTTGTCAAACTTCAACATGTTATATTG
126 GATAGT-GCTTTACCGATTTTGTCAAATTGAAACCGATTTTGTCAAACTTCAACATGTTATATTG
*
1390334 TTATGTA
190 TCATGTA
* * * *
1390341 TTGATACATGTGTGTAAGGTATCGATACTTTCGAGAC
1 TCGATACATATGTATAAGGTATCGATACTTTCAAGAC
1390378 ATTTTCCTTT
Statistics
Matches: 196, Mismatches: 30, Indels: 15
0.81 0.12 0.06
Matches are distributed among these distances:
193 24 0.12
194 37 0.19
195 4 0.02
196 95 0.48
197 36 0.18
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.40
Consensus pattern (196 bp):
TCGATACATATGTATAAGGTATCGATACTTTCAAGACGTCTCATTATTGCAATTCTTTTAAATTC
CTAAAGTACCGATACTATGATACATATACTTACAAAAGTATCAATACAGTTAACATATCCGATAG
TGCTTTACCGATTTTGTCAAATTGAAACCGATTTTGTCAAACTTCAACATGTTATATTGTCATGT
A
Found at i:1390452 original size:196 final size:196
Alignment explanation
Indices: 1390081--1390494 Score: 451
Period size: 196 Copynumber: 2.1 Consensus size: 196
1390071 TCCGGTAGTG
* ** * * * *
1390081 CTTTACCGATTTTGTCATGTTGAAACTGATTTTGTCAAATTTCAACCTTTTATATTGTCATGTAT
1 CTTTACCGGTTTTGTCAAATTGAAACCGATTTTGTCAAACTTCAACATGTTATATTGTCATGTAT
* *
1390146 CGATACATATGTCTAAGGTATCGATACTTTATAGACGCTATTATTGCAATTCTTTTAAATTCCTA
66 CGATACATATGTCTAAGGTATCGATACTTTAGAGACCCTATTATTGCAATTCTTTTAAATTCCTA
* * * *
1390211 AAGTACCGATACTTTGTGCATATACTTATAAAAGTATCAATACAAA-TTTCAACCATTTCGATAT
131 AAGTACAGATACTTTGTGCA-ATACATATAAAAGTATCAATACAAATTTTAAACAATTTCGATAT
1390275 CT
195 CT
* *
1390277 CTTTACTGGTTTTGTCAAATTGAAACCGATTTTGTCAAACTTCAACATGTTATATTGTTATGTAT
1 CTTTACCGGTTTTGTCAAATTGAAACCGATTTTGTCAAACTTCAACATGTTATATTGTCATGTAT
* * * * * * ** *
1390342 TGATACATGTGTGTAAGGTATCGATACTTTCGAGACATTTTCCTTTTTTTTTATTTCTTTTAAAT
66 CGATACATATGTCTAAGGTATCGATACTTTAGAGAC-----CCTATTATTGCAATTCTTTTAAAT
* * * ** *
1390407 TCCTACAGTACAGATA-TTT-T-C-GTACATATAAACGTATTGATACAAATTTTAAACAATTTTG
126 TCCTAAAGTACAGATACTTTGTGCAATACATATAAAAGTATCAATACAAATTTTAAACAATTTCG
*
1390468 GTATCT
191 ATATCT
*
1390474 CTTTACCGGTTATGTCAAATT
1 CTTTACCGGTTTTGTCAAATT
1390495 TCAACTGGTT
Statistics
Matches: 179, Mismatches: 33, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
196 107 0.60
197 35 0.20
198 1 0.01
199 1 0.01
200 3 0.02
201 32 0.18
ACGTcount: A:0.30, C:0.15, G:0.12, T:0.43
Consensus pattern (196 bp):
CTTTACCGGTTTTGTCAAATTGAAACCGATTTTGTCAAACTTCAACATGTTATATTGTCATGTAT
CGATACATATGTCTAAGGTATCGATACTTTAGAGACCCTATTATTGCAATTCTTTTAAATTCCTA
AAGTACAGATACTTTGTGCAATACATATAAAAGTATCAATACAAATTTTAAACAATTTCGATATC
T
Found at i:1390892 original size:199 final size:199
Alignment explanation
Indices: 1390546--1391155 Score: 800
Period size: 199 Copynumber: 3.1 Consensus size: 199
1390536 GTTACTTGTA
* * * * * * * *
1390546 TAAAAGCATCGATACCTATA-TAGACATTATTGATACTTG-TATTTATGCCTATTATCAATATAC
1 TAAAAGTATCGATACCTATACAAAAC-GTATTGATACTTGATGTTTACGCCTATTATCATTAAAC
* * ** * * *
1390609 CGATAGACTTTTACCGTTTACATCATAAATTTACCTATAACTTTAAAGAAATAAG-TTTCAATAT
65 CGGTAGACTTTTACTGTTTACATTGTAAATTTACCTATAACTTTAAAGTAATCAGTTTTGAA-AT
* * *
1390673 TTCGCGTATCGACACTTTATACATGTGTATCGATACATTGTGCGTGCAAATTGTTGAGAATCATA
129 TTTGCGTATCGATACTTTATACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAATCATA
1390738 CTGGAC
194 CTGGAC
*
1390744 TAAAAGTATCGATACCTATACAAAACGTATTGATACTTGATGTTTACGCCTATTATTATTAAACC
1 TAAAAGTATCGATACCTATACAAAACGTATTGATACTTGATGTTTACGCCTATTATCATTAAACC
* * *
1390809 GGTAGATTTTTATTGTTTACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTTGAAATTT
66 GGTAGACTTTTACTGTTTACATTGTAAATTTACCTATAACTTTAAAGTAATCAGTTTTGAAATTT
* * * * * *
1390874 TTCATATCAATACTTTATACATGTGTATCGATACTTTGTCCGTGCAAATTGTTAAGAAGCATACT
131 TGCGTATCGATACTTTATACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAATCATACT
1390939 GGAC
196 GGAC
* * *
1390943 TAAAAGTATCGATACCTATACAAAATGTATTGGTACTTGATGTTTACACCTATTATCATTAAACC
1 TAAAAGTATCGATACCTATACAAAACGTATTGATACTTGATGTTTACGCCTATTATCATTAAACC
* *
1391008 GGTAGACTTTTACTGTTTACATTGTAAATTTACCTATAACTTTAAAGTAATCTGTTTTGAAATTC
66 GGTAGACTTTTACTGTTTACATTGTAAATTTACCTATAACTTTAAAGTAATCAGTTTTGAAATTT
* * *
1391073 TGCGTATCGATATTTTATACATGTGTATCGATACTTTTTTGCATGCAAATT-TTGAG-ATGCATA
131 TGCGTATCGATACTTTATACATGTGTATCGATAC-TTTGTGCGTGCAAATTGTTGAGAAT-CATA
* *
1391136 CTGAAA
194 CTGGAC
1391142 TAAAA-TATCGATAC
1 TAAAAGTATCGATAC
1391156 TTTATGTTTA
Statistics
Matches: 360, Mismatches: 47, Indels: 10
0.86 0.11 0.02
Matches are distributed among these distances:
198 41 0.11
199 301 0.84
200 18 0.05
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (199 bp):
TAAAAGTATCGATACCTATACAAAACGTATTGATACTTGATGTTTACGCCTATTATCATTAAACC
GGTAGACTTTTACTGTTTACATTGTAAATTTACCTATAACTTTAAAGTAATCAGTTTTGAAATTT
TGCGTATCGATACTTTATACATGTGTATCGATACTTTGTGCGTGCAAATTGTTGAGAATCATACT
GGAC
Found at i:1391279 original size:177 final size:178
Alignment explanation
Indices: 1390976--1391338 Score: 434
Period size: 177 Copynumber: 2.0 Consensus size: 178
1390966 AATGTATTGG
* *
1390976 TACTTGATGTTTACACCTATTATCATTAAACCGGTAGACTTTTACTGTTTACATTGTAAATTTAC
1 TACTTTATGTTTACACCTATTATCATTAAACCAGTAGACTTTTACTGTTTACATTGTAAATTTAC
* * * * * **
1391041 CTATAACTTTAAAGTAATCTGTTTTGAAATTCTGCGTATCGATATTTTATACATGTGTATCGATA
66 CTATAACTTTAAAGAAATCAGATTTCAAATTATAAGTATCGATATTTTATACA-GTGTATCGATA
* *
1391106 CTTTTTTGCATGCAAA-T-TTTGAGATGCATACTGAAATAAAA-TATCGA
130 C-TTTGTGCATACAAATTGTTTGAGATGCATACTGAAATAAAAGTATCGA
* * * *
1391153 TACTTTATGTTTACGCCTATTATCATTAAACTAGTAGATTTTTA-TCGTTTCCATTGTAAATTTA
1 TACTTTATGTTTACACCTATTATCATTAAACCAGTAGACTTTTACT-GTTTACATTGTAAATTTA
* * *
1391217 TCTATTACTTTAAAGAAAT-AGATTTCAAGATTATAAGTATTGATACTTGTTATACA-TGTATCG
65 CCTATAACTTTAAAGAAATCAGATTTCAA-ATTATAAGTATCGATA-TT-TTATACAGTGTATCG
* * *
1391280 ATACTTTGTGCGTACAAATTGTTTGAGATGCATATTGGAATAAAAGTATCGA
127 ATACTTTGTGCATACAAATTGTTTGAGATGCATACTGAAATAAAAGTATCGA
1391332 TA-TTTAT
1 TACTTTAT
1391339 ATAATAAAAT
Statistics
Matches: 158, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
176 18 0.11
177 96 0.61
178 29 0.18
179 15 0.09
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.42
Consensus pattern (178 bp):
TACTTTATGTTTACACCTATTATCATTAAACCAGTAGACTTTTACTGTTTACATTGTAAATTTAC
CTATAACTTTAAAGAAATCAGATTTCAAATTATAAGTATCGATATTTTATACAGTGTATCGATAC
TTTGTGCATACAAATTGTTTGAGATGCATACTGAAATAAAAGTATCGA
Found at i:1391361 original size:23 final size:23
Alignment explanation
Indices: 1391318--1391361 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
1391308 TGCATATTGG
*
1391318 AATAAAAGTATCGATATTTATAT
1 AATAAAAGTATCGATAGTTATAT
1391341 AATAAAA-TATCGATACGTTAT
1 AATAAAAGTATCGATA-GTTAT
1391362 GTTTACACCT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (23 bp):
AATAAAAGTATCGATAGTTATAT
Found at i:1392729 original size:6 final size:6
Alignment explanation
Indices: 1392712--1392742 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
1392702 ATAGTGGAGC
*
1392712 TCAAAT TGAAAT TCAAAT TCAAAT TCAAAT T
1 TCAAAT TCAAAT TCAAAT TCAAAT TCAAAT T
1392743 GGAAATTGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.35
Consensus pattern (6 bp):
TCAAAT
Found at i:1392729 original size:12 final size:12
Alignment explanation
Indices: 1392712--1392749 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
1392702 ATAGTGGAGC
1392712 TCAAATTGAAAT
1 TCAAATTGAAAT
*
1392724 TCAAATTCAAAT
1 TCAAATTGAAAT
1392736 TCAAATTGGAAAT
1 TCAAATT-GAAAT
1392749 T
1 T
1392750 GCATAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 18 0.78
13 5 0.22
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.34
Consensus pattern (12 bp):
TCAAATTGAAAT
Found at i:1394164 original size:63 final size:64
Alignment explanation
Indices: 1394083--1394217 Score: 263
Period size: 63 Copynumber: 2.1 Consensus size: 64
1394073 AGGAAATATT
1394083 ATAAAGTATGGTTGTAGAAAAGTTTGGTCGAGACAAATTAAATATGCAAAACTATCGAATTAAA
1 ATAAAGTATGGTTGTAGAAAAGTTTGGTCGAGACAAATTAAATATGCAAAACTATCGAATTAAA
1394147 A-AAAGTATGGTTGTAGAAAAGTTTGGTCGAGACAAATTAAATATGCAAAACTATCGAATTAAA
1 ATAAAGTATGGTTGTAGAAAAGTTTGGTCGAGACAAATTAAATATGCAAAACTATCGAATTAAA
1394210 ATAAAGTA
1 ATAAAGTA
1394218 AAGGTAAACG
Statistics
Matches: 70, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
63 63 0.90
64 7 0.10
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (64 bp):
ATAAAGTATGGTTGTAGAAAAGTTTGGTCGAGACAAATTAAATATGCAAAACTATCGAATTAAA
Found at i:1400544 original size:24 final size:25
Alignment explanation
Indices: 1400510--1400560 Score: 95
Period size: 24 Copynumber: 2.1 Consensus size: 25
1400500 CCTTGGCTTT
1400510 ATCGACTTCAATGCCTTGACAAGAA
1 ATCGACTTCAATGCCTTGACAAGAA
1400535 ATCGA-TTCAATGCCTTGACAAGAA
1 ATCGACTTCAATGCCTTGACAAGAA
1400559 AT
1 AT
1400561 TTTGTGACCC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 21 0.81
25 5 0.19
ACGTcount: A:0.37, C:0.22, G:0.16, T:0.25
Consensus pattern (25 bp):
ATCGACTTCAATGCCTTGACAAGAA
Found at i:1406226 original size:21 final size:22
Alignment explanation
Indices: 1406194--1406236 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
1406184 AACAAATTGG
*
1406194 CATGAAATTTTA-GATTAATTT
1 CATGAAATTTTACCATTAATTT
1406215 CATGATAA-TTTACCATTAATTT
1 CATGA-AATTTTACCATTAATTT
1406237 AAGCTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (22 bp):
CATGAAATTTTACCATTAATTT
Found at i:1407485 original size:200 final size:197
Alignment explanation
Indices: 1407128--1408478 Score: 1357
Period size: 199 Copynumber: 6.9 Consensus size: 197
1407118 ATTTAGAGCG
* * *
1407128 AAAGTATCGATACCTATACAAAAAGTATCGATATTTTATGTTTATTCCTATTATCATTAAACTGA
1 AAAGTATCGATACCTATAC-AAAAGTATCGATACTTTATGTTTATACCTATTATCATTAAAC-GG
* *
1407193 TAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAACTA-A
64 TAGA-TTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTATA
* * * *
1407257 CAATATCGATACTTGTGACACGTGTATCGATACCTTCTGCGTGCAAATTGTTTGAGAAGCATATT
128 -AGTATCGATACTTGTGATACATGTATCGATACTTTCTGCGTGCAAATTGTTTGAGAAGCATATT
1407322 GGACTA
192 GGACTA
* * * * * *
1407328 AAAATATCGATACATATACAAAACGTATCGATACTTTGTGTTTATGCCAATTAACATTAAATCGG
1 AAAGTATCGATACCTATACAAAA-GTATCGATACTTTATGTTTATACCTATTATCATTAAA-CGG
* * * * *
1407393 TAGACTTTTACCGTTGACAGTGTAAATTTACATGTAACTTTAAAGTAATCGGTTTCGAAATTATA
64 TAGA-TTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTATA
* * *
1407458 AGTATCAATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTG-TTGAGAAGCATATTG
128 AGTATCGATACTTGTGATACATGTATCGATACTTTCTGCGTGCAAATTGTTTGAGAAGCATATTG
1407522 GACTA
193 GACTA
* *
1407527 AAAGTATCAATACCTATACAAAGAGTATCGATACTTTATGTTTACACCTATTATCATTAAACGAG
1 AAAGTATCGATACCTATACAAA-AGTATCGATACTTTATGTTTATACCTATTATCATTAAACG-G
* * * * *
1407592 TAGATATTTACTGTTTACATTGTAGATTTACCTATTTCTTTAAAGTAATCAGTTTTGAAATTATA
64 TAGAT-TTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTATA
* * * *
1407657 AGTATTGATACTTGTGATA-AGTGTATAGATACTTTCTTCGTGCAAATTGTTTGAGAAGCATAAT
128 AGTATCGATACTTGTGATACA-TGTATCGATACTTTCTGCGTGCAAATTGTTTGAGAAGCATATT
1407721 GGACTA
192 GGACTA
* ** * *
1407727 AAAGTATCGATA-C--T-C-----TAT-G----TTTACGCCTATTACC-A-T-T-A--AATCAGT
1 AAAGTATCGATACCTATACAAAAGTATCGATACTTTATGTTTA-TACCTATTATCATTAAACGGT
* ** * * * * *
1407772 AGACTTTTATCGTTGGCATTGTAAATTTATCTATAACTTTAAAGTAATCGATTTTGCAATTATAA
65 AGA-TTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTATAA
* * * * * * ** *
1407837 GTATCGATACTTGTTATGCATGTATCAATACTTTGTGCATGAAAATTG-TTGAGAAATATACTGG
129 GTATCGATACTTGTGATACATGTATCGATACTTTCTGCGTGCAAATTGTTTGAGAAGCATATTGG
1407901 ACTA
194 ACTA
* * * *
1407905 AAATTATCGATACCTATACAAAGAGTATTGATACTTTATGTTTACACGTATTATCATTAAACCGG
1 AAAGTATCGATACCTATACAAA-AGTATCGATACTTTATGTTTATACCTATTATCATTAAA-CGG
* * * * * **
1407970 TAGATTTTTA-CATTTTCATTATAAAATTACCTATTAATTTAAAGTAATCGGTTTAAAAATTATA
64 TAGA-TTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTATA
* ** * * *
1408034 AGTATCAATACTTGTGATATGTGTATCGATACTTTCTACGTGCAAATTGTTTGAGAAACATACTG
128 AGTATCGATACTTGTGATACATGTATCGATACTTTCTGCGTGCAAATTGTTTGAGAAGCATATTG
1408099 GACTAA
193 GACT-A
* * ** *
1408105 AAAGTATCGATACCTATACAAAAAAATATCGATACTCTATGTTTACGCCTATTATTATTAAACTG
1 AAAGTATCGATACCTATAC--AAAAGTATCGATACTTTATGTTTATACCTATTATCATTAAAC-G
* *
1408170 GTAGACTTTTACCGTTGACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTAT
63 GTAGA-TTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTAT
* * * * * *
1408235 AAGTATCGATAGTTGTTATACATGTATTGATACTTTGTGTGTGCAAATTG-TTGAGAAGCATACT
127 AAGTATCGATACTTGTGATACATGTATCGATACTTTCTGCGTGCAAATTGTTTGAGAAGCATATT
1408299 GGACTAA
192 GGACT-A
* * *
1408306 AAAGTATCGATACC--T---AGAGTATCGATACTTTATGTTTATGCCTATTATTATTAAACCGGT
1 AAAGTATCGATACCTATACAAAAGTATCGATACTTTATGTTTATACCTATTATCATTAAA-CGGT
** * ** * * * *
1408366 AGATTTTTATTGTTTTCATTGTAAAACTATCTATTAATTTAAAGAAATTGGTTTCGAAATTATAA
65 AGA-TTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTATAA
*
1408431 GTATCGATACTTGT-ATACGTGTATCGATACTTTCT--GTGCAAATTGTTT
129 GTATCGATACTTGTGATACATGTATCGATACTTTCTGCGTGCAAATTGTTT
1408479 CAGATGCACA
Statistics
Matches: 953, Mismatches: 157, Indels: 90
0.79 0.13 0.08
Matches are distributed among these distances:
178 28 0.03
179 92 0.10
180 5 0.01
181 1 0.00
182 2 0.00
183 1 0.00
184 1 0.00
185 8 0.01
186 3 0.00
188 3 0.00
189 2 0.00
190 3 0.00
191 10 0.01
192 4 0.00
193 26 0.03
194 106 0.11
195 2 0.00
196 2 0.00
197 1 0.00
198 87 0.09
199 201 0.21
200 198 0.21
201 79 0.08
202 88 0.09
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (197 bp):
AAAGTATCGATACCTATACAAAAGTATCGATACTTTATGTTTATACCTATTATCATTAAACGGTA
GATTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTATAAGT
ATCGATACTTGTGATACATGTATCGATACTTTCTGCGTGCAAATTGTTTGAGAAGCATATTGGAC
TA
Found at i:1407635 original size:199 final size:198
Alignment explanation
Indices: 1407128--1407744 Score: 754
Period size: 200 Copynumber: 3.1 Consensus size: 198
1407118 ATTTAGAGCG
* * ** *
1407128 AAAGTATCGATACCTATACAAAAAGTATCGATATTTTATGTTTATTCCTATTATCATTAAACTGA
1 AAAGTATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACACCTATTATCATTAAAC-GG
* * *
1407193 TAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAACTA-A
65 TAGATTTTTACTGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTATA
* * * * * *
1407257 CAATATCGATACTTGTGACACGTGTATCGATACCTTCTGCGTGCAAATTGTTTGAGAAGCATATT
130 -AGTATCGATACTTGTTATACATGTATCGATACTTTCTGCGTGCAAATTG-TTGAGAAGCATACT
1407322 GGACTA
193 GGACTA
* * * ** * *
1407328 AAAATATCGATACATATACAAA-ACGTATCGATACTTTGTGTTTATGCCAATTAACATTAAATCG
1 AAAGTATCGATACCTATACAAAGA-GTATCGATACTTTATGTTTACACCTATTATCATTAAA-CG
* * * * * * *
1407392 GTAGACTTTTACCGTTGACAGTGTAAATTTACATGTAACTTTAAAGTAATCGGTTTCGAAATTAT
64 GTAGATTTTTACTGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTAT
* * *
1407457 AAGTATCAATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATATTG
129 AAGTATCGATACTTGTTATACATGTATCGATACTTTCTGCGTGCAAATTGTTGAGAAGCATACTG
1407522 GACTA
194 GACTA
*
1407527 AAAGTATCAATACCTATACAAAGAGTATCGATACTTTATGTTTACACCTATTATCATTAAACGAG
1 AAAGTATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACACCTATTATCATTAAACG-G
* * * * *
1407592 TAGATATTTACTGTTTACATTGTAGATTTACCTATTTCTTTAAAGTAATCAGTTTTGAAATTATA
65 TAGATTTTTACTGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTATA
* * * * *
1407657 AGTATTGATACTTGTGATA-AGTGTATAGATACTTTCTTCGTGCAAATTGTTTGAGAAGCATAAT
130 AGTATCGATACTTGTTATACA-TGTATCGATACTTTCTGCGTGCAAATTG-TTGAGAAGCATACT
1407721 GGACTA
193 GGACTA
1407727 AAAGTATCGATACTCTAT
1 AAAGTATCGATAC-CTAT
1407745 GTTTACGCCT
Statistics
Matches: 358, Mismatches: 51, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
198 3 0.01
199 167 0.47
200 182 0.51
201 6 0.02
ACGTcount: A:0.34, C:0.14, G:0.15, T:0.37
Consensus pattern (198 bp):
AAAGTATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACACCTATTATCATTAAACGGT
AGATTTTTACTGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATCGGTTTCGAAATTATAA
GTATCGATACTTGTTATACATGTATCGATACTTTCTGCGTGCAAATTGTTGAGAAGCATACTGGA
CTA
Found at i:1407850 original size:179 final size:178
Alignment explanation
Indices: 1407550--1407921 Score: 443
Period size: 179 Copynumber: 2.1 Consensus size: 178
1407540 CTATACAAAG
* * *
1407550 AGTATCGATACTTTATGTTTACACCTATTATCATTAAACGAGTAGATATTTACTGTTTACATTGT
1 AGTATCGATACTCTATGTTTACACCTATTACCATTAAACGAGTAGATATTTACTGTTGACATTGT
* ** *
1407615 AGATTTACCTATTTCTTTAAAGTAATCAGTTTTGAAATTATAAGTATTGATACTTGTGAT-AAGT
66 AAATTTACCTATAACTTTAAAGTAATCAGTTTTGAAATTATAAGTATCGATACTTGTGATGAA-T
* * * *
1407679 GTAT-AGATACTTTCTTCGTGCAAATTGTTTGAGAAGCATAATGGACTAAA
130 GTATCA-ATACTTTCTGCATGAAAATTG-TTGAGAAACATAATGGACTAAA
* *
1407729 AGTATCGATACTCTATGTTTACGCCTATTACCATTAAATC-AGTAGACT-TTTA-TCGTTGGCAT
1 AGTATCGATACTCTATGTTTACACCTATTACCATTAAA-CGAGTAGA-TATTTACT-GTTGACAT
* * *
1407791 TGTAAATTTATCTATAACTTTAAAGTAATC-GATTTTGCAATTATAAGTATCGATACTTGTTATG
63 TGTAAATTTACCTATAACTTTAAAGTAATCAG-TTTTGAAATTATAAGTATCGATACTTGTGATG
* * * *
1407855 CATGTATCAATACTTTGTGCATGAAAATTGTTGAGAAATATACTGGACTAAA
127 AATGTATCAATACTTTCTGCATGAAAATTGTTGAGAAACATAATGGACTAAA
*
1407907 ATTATCGATAC-CTAT
1 AGTATCGATACTCTAT
1407922 ACAAAGAGTA
Statistics
Matches: 166, Mismatches: 21, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
177 4 0.02
178 31 0.19
179 127 0.77
180 4 0.02
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.40
Consensus pattern (178 bp):
AGTATCGATACTCTATGTTTACACCTATTACCATTAAACGAGTAGATATTTACTGTTGACATTGT
AAATTTACCTATAACTTTAAAGTAATCAGTTTTGAAATTATAAGTATCGATACTTGTGATGAATG
TATCAATACTTTCTGCATGAAAATTGTTGAGAAACATAATGGACTAAA
Found at i:1407904 original size:378 final size:384
Alignment explanation
Indices: 1407128--1408478 Score: 1520
Period size: 378 Copynumber: 3.5 Consensus size: 384
1407118 ATTTAGAGCG
* * ** * *
1407128 AAAGTATCGATACCTATACAAAAAGTATCGATATTTTATGTTTATTCCTATTATCATTAAACTGA
1 AAAGTATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACACCTATTATCATTAAACCGG
* * * * * *
1407193 TAGATTTTTACCGTTTACATTGTAAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAACTA-A
66 TAGATTTTTACTGTTT-CATTGTAAAATTACCTATTAATTTAAAGTAATCGGTTTAGAAATTATA
* * * * * *
1407257 CAATATCGATACTTGTGACACGTGTATCGATACCTTCTGCGTGCAAATTGTTTGAGAAGCATATT
130 -AGTATCGATACTTGTGATAAGTGTATCGATACTTTCTTCGTGCAAATTGTTTGAGAAACATA--
* * * * * *
1407322 GGACTAAAAATATCGATACATATACAAAACGTATCGATACTTTGTGTTTATGCCAATTAACATTA
192 -GACT----A-GT-GA-AC-CATA-AAAA-GTATCGATACTCTATGTTTACGCCTATTAACATTA
* *
1407387 AATCGGTAGACTTTTACCGTTGACAGTGTAAATTTACATGTAACTTTAAAGTAATCGGTTTCGAA
246 AATCGGTAGACTTTTACCGTTGACATTGTAAATTTAC-TATAACTTTAAAGTAATCGGTTTCGAA
*
1407452 ATTATAAGTATCAATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCA
310 ATTATAAGTATCGATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCA
*
1407517 TATTGGACTA
375 TACTGGACTA
*
1407527 AAAGTATCAATACCTATACAAAGAGTATCGATACTTTATGTTTACACCTATTATCATTAAA-CGA
1 AAAGTATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACACCTATTATCATTAAACCG-
* * * ** * *
1407591 GTAGATATTTACTGTTTACATTGTAGATTTACCTATTTCTTTAAAGTAATCAGTTTTGAAATTAT
65 GTAGATTTTTACTGTTT-CATTGTAAAATTACCTATTAATTTAAAGTAATCGGTTTAGAAATTAT
* * *
1407656 AAGTATTGATACTTGTGATAAGTGTATAGATACTTTCTTCGTGCAAATTGTTTGAGAAGCATA-A
129 AAGTATCGATACTTGTGATAAGTGTATCGATACTTTCTTCGTGCAAATTGTTTGAGAAACATAGA
* *
1407720 -T-G-G-A-C-T-AAAAGTATCGATACTCTATGTTTACGCCTATTACCATTAAATCAGTAGACTT
194 CTAGTGAACCATAAAAAGTATCGATACTCTATGTTTACGCCTATTAACATTAAATCGGTAGACTT
* * * * *
1407778 TTATCGTTGGCATTGTAAATTTATCTATAACTTTAAAGTAATCGATTTTGCAATTATAAGTATCG
259 TTACCGTTGACATTGTAAATTTA-CTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCG
* * * * **
1407843 ATACTTGTTATGCATGTATCAATACTTTGTGCATGAAAATTGTTGAGAAATATACTGGACTA
323 ATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTA
* * *
1407905 AAATTATCGATACCTATACAAAGAGTATTGATACTTTATGTTTACACGTATTATCATTAAACCGG
1 AAAGTATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACACCTATTATCATTAAACCGG
* *
1407970 TAGATTTTTACAT-TTTCATTATAAAATTACCTATTAATTTAAAGTAATCGGTTTAAAAATTATA
66 TAGATTTTTAC-TGTTTCATTGTAAAATTACCTATTAATTTAAAGTAATCGGTTTAGAAATTATA
* * *
1408034 AGTATCAATACTTGTGATATGTGTATCGATACTTTCTACGTGCAAATTGTTTGAGAAACATACTG
130 AGTATCGATACTTGTGATAAGTGTATCGATACTTTCTTCGTGCAAATTGTTTGAGAAACATA---
* **
1408099 GACTAAAAAGTATCGATACCTATACAAAAAAATATCGATACTCTATGTTTACGCCTATTATTATT
192 GACT----AG--T-GA-ACC-AT---AAAAAGTATCGATACTCTATGTTTACGCCTATTAACATT
1408164 AAA-CTGGTAGACTTTTACCGTTGACATTGTAAATTTACCTATAACTTTAAAGTAATCGGTTTCG
245 AAATC-GGTAGACTTTTACCGTTGACATTGTAAATTTA-CTATAACTTTAAAGTAATCGGTTTCG
* * *
1408228 AAATTATAAGTATCGATAGTTGTTATACATGTATTGATACTTTGTGTGTGCAAATTGTTGAGAAG
308 AAATTATAAGTATCGATACTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAG
1408293 CATACTGGACTAA
373 CATACTGGACT-A
** *
1408306 AAAGTATCGATACC--T----AGAGTATCGATACTTTATGTTTATGCCTATTATTATTAAACCGG
1 AAAGTATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACACCTATTATCATTAAACCGG
* * * * * *
1408365 TAGATTTTTATTGTTTTCATTGTAAAACTATCTATTAATTTAAAGAAATTGGTTTCGAAATTATA
66 TAGATTTTTACTG-TTTCATTGTAAAATTACCTATTAATTTAAAGTAATCGGTTTAGAAATTATA
*
1408430 AGTATCGATACTTGT-ATACGTGTATCGATACTTTC-T-GTGCAAATTGTTT
130 AGTATCGATACTTGTGATAAGTGTATCGATACTTTCTTCGTGCAAATTGTTT
1408479 CAGATGCACA
Statistics
Matches: 820, Mismatches: 100, Indels: 70
0.83 0.10 0.07
Matches are distributed among these distances:
377 96 0.12
378 223 0.27
379 8 0.01
381 2 0.00
382 1 0.00
384 1 0.00
386 1 0.00
387 1 0.00
391 1 0.00
393 14 0.02
394 3 0.00
395 69 0.08
396 59 0.07
398 1 0.00
399 168 0.20
400 158 0.19
401 14 0.02
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.38
Consensus pattern (384 bp):
AAAGTATCGATACCTATACAAAGAGTATCGATACTTTATGTTTACACCTATTATCATTAAACCGG
TAGATTTTTACTGTTTCATTGTAAAATTACCTATTAATTTAAAGTAATCGGTTTAGAAATTATAA
GTATCGATACTTGTGATAAGTGTATCGATACTTTCTTCGTGCAAATTGTTTGAGAAACATAGACT
AGTGAACCATAAAAAGTATCGATACTCTATGTTTACGCCTATTAACATTAAATCGGTAGACTTTT
ACCGTTGACATTGTAAATTTACTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCGATA
CTTGTTATACATGTATCGATACTTTGTGCGTGCAAATTGTTGAGAAGCATACTGGACTA
Found at i:1408409 original size:194 final size:196
Alignment explanation
Indices: 1407729--1408477 Score: 841
Period size: 194 Copynumber: 3.8 Consensus size: 196
1407719 ATGGACTAAA
* * * *
1407729 AGTATCGATACTCTATGTTTACGCCTATTACCATTAAATCAGTAGACTTTTATCGTTGGCATTGT
1 AGTATCGATACTCTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTATCGTTGTCATTGT
* * * * * *
1407794 AAATTTATCTATAACTTTAAAGTAATCGATTTTGCAATTATAAGTATCGATACTTGTTATGCATG
66 AAAATTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCGATACTTGTTATACATG
* * * * *
1407859 TATCAATACTTTGTGCATGAAAATTGTTGAGAAATATACTGGACT-AAAATTATCGATACCTATA
131 TATCGATACTTTGTGCGTGCAAATTGTTGAGAAACATACTGGACTAAAAAGTATCGATACC-AT-
1407923 CAAAG
194 --AAG
* * * * * * * *
1407928 AGTATTGATACTTTATGTTTACACGTATTATCATTAAACCGGTAGATTTTTA-CATTTTCATTAT
1 AGTATCGATACTCTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTATCGTTGTCATTGT
** * * **
1407992 AAAATTACCTATTAA-TTTAAAGTAATCGGTTTAAAAATTATAAGTATCAATACTTGTGATATGT
66 AAAATTACCTA-TAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCGATACTTGTTATACAT
* *
1408056 GTATCGATACTTTCTACGTGCAAATTGTTTGAGAAACATACTGGACTAAAAAGTATCGATACCTA
130 GTATCGATACTTTGTGCGTGCAAATTG-TTGAGAAACATACTGGACTAAAAAGTATCGATACC-A
*
1408121 TACAAAAA
193 T----AAG
* * * * *
1408129 AATATCGATACTCTATGTTTACGCCTATTATTATTAAACTGGTAGACTTTTACCGTTGACATTGT
1 AGTATCGATACTCTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTATCGTTGTCATTGT
* *
1408194 AAATTTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCGATAGTTGTTATACATG
66 AAAATTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCGATACTTGTTATACATG
* * *
1408259 TATTGATACTTTGTGTGTGCAAATTGTTGAGAAGCATACTGGACTAAAAAGTATCGATACC-T-A
131 TATCGATACTTTGTGCGTGCAAATTGTTGAGAAACATACTGGACTAAAAAGTATCGATACCATAA
1408322 G
196 G
* * * * * *
1408323 AGTATCGATACTTTATGTTTATGCCTATTATTATTAAACCGGTAGATTTTTATTGTTTTCATTGT
1 AGTATCGATACTCTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTATCGTTGTCATTGT
* * * * *
1408388 AAAACTATCTATTAA-TTTAAAGAAATTGGTTTCGAAATTATAAGTATCGATACTTG-TATACGT
66 AAAATTACCTA-TAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCGATACTTGTTATACAT
*
1408451 GTATCGATACTTTCT--GTGCAAATTGTT
130 GTATCGATACTTTGTGCGTGCAAATTGTT
1408478 TCAGATGCAC
Statistics
Matches: 466, Mismatches: 77, Indels: 22
0.82 0.14 0.04
Matches are distributed among these distances:
191 12 0.03
193 19 0.04
194 103 0.22
195 3 0.01
198 79 0.17
199 66 0.14
200 17 0.04
201 84 0.18
202 83 0.18
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (196 bp):
AGTATCGATACTCTATGTTTACGCCTATTATCATTAAACCGGTAGACTTTTATCGTTGTCATTGT
AAAATTACCTATAACTTTAAAGTAATCGGTTTCGAAATTATAAGTATCGATACTTGTTATACATG
TATCGATACTTTGTGCGTGCAAATTGTTGAGAAACATACTGGACTAAAAAGTATCGATACCATAA
G
Found at i:1415395 original size:189 final size:186
Alignment explanation
Indices: 1415081--1415436 Score: 482
Period size: 189 Copynumber: 1.9 Consensus size: 186
1415071 ATTTCTTTTC
*
1415081 AATTCCTAAAATACCGATACTATGATGCATATACTTATAAAAGTATCGATACCGTCATCATATCC
1 AATTCCTAAAATACCGATACTATGATGCATATACTTATAAAAGTATCGATACCGTCACCATATCC
* * * *
1415146 GGTAATACTTTATCGGTTTTGTCATATTGAAACCGGTTTTGTCAAATTTCAACTTGTTATATTGT
66 GGTAATACTTTACCGGTTTTGTCAAACTGAAACCGGTTTTGTCAAATTTCAACCTGTTATATTGT
* * ** *
1415211 CATGTATTGATATATGTGTCTAAGGTATCGATACTTTATAGGTGCTATTTTTGCTA
131 CATGTATCGATACATGTGTCTAAAATATCAATACTTTATAGGTGCTATTTTTGCTA
* * * **
1415267 AATTCCTAAAGTACCGATACTTTGGTGCATATACTTATAAAAGTATCGATACAATTTTCAACCAT
1 AATTCCTAAAATACCGATACTATGATGCATATACTTATAAAAGTATCGATAC---CGTC-ACCAT
* * *
1415332 -TTCGGT-ATCTCTTTACCGGTTTTGTCAAACTGAAACCGGTTTTGTCAAATTTTAACCTGTTAT
62 ATCCGGTAAT-ACTTTACCGGTTTTGTCAAACTGAAACCGGTTTTGTCAAATTTCAACCTGTTAT
*
1415395 ATTGTCATGTATCGATACATGTGTGTAAAATATCAATACTTT
126 ATTGTCATGTATCGATACATGTGTCTAAAATATCAATACTTT
1415437 CAAGACATTT
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
186 49 0.34
188 2 0.01
189 91 0.62
190 4 0.03
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (186 bp):
AATTCCTAAAATACCGATACTATGATGCATATACTTATAAAAGTATCGATACCGTCACCATATCC
GGTAATACTTTACCGGTTTTGTCAAACTGAAACCGGTTTTGTCAAATTTCAACCTGTTATATTGT
CATGTATCGATACATGTGTCTAAAATATCAATACTTTATAGGTGCTATTTTTGCTA
Found at i:1415580 original size:21 final size:21
Alignment explanation
Indices: 1415551--1415593 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
1415541 TCGATTTCTG
1415551 AAATGTCAACCGATTTTGTCA
1 AAATGTCAACCGATTTTGTCA
* *
1415572 AAATTTCAACCGGTTTTGTCA
1 AAATGTCAACCGATTTTGTCA
1415593 A
1 A
1415594 TTTCCAATCG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
AAATGTCAACCGATTTTGTCA
Found at i:1415609 original size:21 final size:19
Alignment explanation
Indices: 1415556--1415613 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
1415546 TTCTGAAATG
*
1415556 TCAACCGATTTTGTCAAAATT
1 TCAACCGGTTTTGTC--AATT
1415577 TCAACCGGTTTTGTCAATT
1 TCAACCGGTTTTGTCAATT
* *
1415596 TCCAATCGGTTTTTTCAA
1 T-CAACCGGTTTTGTCAA
1415614 ATTCGTTACT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 5 0.15
20 14 0.42
21 14 0.42
ACGTcount: A:0.26, C:0.21, G:0.12, T:0.41
Consensus pattern (19 bp):
TCAACCGGTTTTGTCAATT
Found at i:1417053 original size:15 final size:15
Alignment explanation
Indices: 1417033--1417072 Score: 80
Period size: 15 Copynumber: 2.7 Consensus size: 15
1417023 TGAAAAAGCA
1417033 ATCAGATGATACATC
1 ATCAGATGATACATC
1417048 ATCAGATGATACATC
1 ATCAGATGATACATC
1417063 ATCAGATGAT
1 ATCAGATGAT
1417073 TGTATAAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (15 bp):
ATCAGATGATACATC
Found at i:1417549 original size:58 final size:60
Alignment explanation
Indices: 1417459--1417624 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 60
1417449 AATTATATTT
* * * * *
1417459 TCATTTTAAATT-GATCTCTAAACTTTTAAATATTTCAATTTCATCCTTAAACTATGA-C
1 TCATTCTAAATTAGTTCTCTAAACTTTTGAATATTTCAATTTCATCCCTAAACTATAACC
* *
1417517 TCATTCTAAATTAGTTCT-TAAACTTTTGAATATTTGAATTTCATCCCTAAAGTATAACCC
1 TCATTCTAAATTAGTTCTCTAAACTTTTGAATATTTCAATTTCATCCCTAAACTATAA-CC
** * * * * *
1417577 TTTTTCTAAATTAATCCTCAAAACTTTTGGATATTCCAATTTCATCCC
1 TCATTCTAAATTAGTTCTCTAAACTTTTGAATATTTCAATTTCATCCC
1417625 CAAATTCATC
Statistics
Matches: 89, Mismatches: 15, Indels: 5
0.82 0.14 0.05
Matches are distributed among these distances:
58 45 0.51
59 4 0.04
60 15 0.17
61 25 0.28
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.43
Consensus pattern (60 bp):
TCATTCTAAATTAGTTCTCTAAACTTTTGAATATTTCAATTTCATCCCTAAACTATAACC
Found at i:1422155 original size:18 final size:19
Alignment explanation
Indices: 1422115--1422158 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1422105 GAATGCTCAT
*
1422115 AATGCATTGAAGTGCTACAC
1 AATGCATCGAAGTGC-ACAC
1422135 AATGCATCGAAGTGC-CAC
1 AATGCATCGAAGTGCACAC
1422153 AATGCA
1 AATGCA
1422159 CCTAAGCGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.39
20 14 0.61
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.20
Consensus pattern (19 bp):
AATGCATCGAAGTGCACAC
Found at i:1425634 original size:18 final size:18
Alignment explanation
Indices: 1425611--1425648 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
1425601 GAAACTACGT
1425611 CACTGGCTCATCTCAAGC
1 CACTGGCTCATCTCAAGC
1425629 CACTGGCTCATCTCAAGC
1 CACTGGCTCATCTCAAGC
1425647 CA
1 CA
1425649 ATGTTTATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.39, G:0.16, T:0.21
Consensus pattern (18 bp):
CACTGGCTCATCTCAAGC
Found at i:1426111 original size:20 final size:19
Alignment explanation
Indices: 1426067--1426112 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
1426057 CAAAATGGCC
*
1426067 CAATTTCACATTCTAACAT
1 CAATTTCACACTCTAACAT
*
1426086 CGATTTCAACACTCTAACAT
1 CAATTTC-ACACTCTAACAT
*
1426106 TAATTTC
1 CAATTTC
1426113 CAGCATAGTC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.35, C:0.26, G:0.02, T:0.37
Consensus pattern (19 bp):
CAATTTCACACTCTAACAT
Found at i:1428968 original size:14 final size:14
Alignment explanation
Indices: 1428949--1429139 Score: 75
Period size: 14 Copynumber: 13.4 Consensus size: 14
1428939 AAATTAATTA
1428949 ATATACTTTATATT
1 ATATACTTTATATT
1428963 ATATACTTTAGTACTT
1 ATATACTTTA-TA-TT
1428979 ATATAC------TT
1 ATATACTTTATATT
*
1428987 ATATGCTTTATATT
1 ATATACTTTATATT
1429001 -TAATAC-TTATATTT
1 AT-ATACTTTATA-TT
1429015 ATATACTTTAATAATT
1 ATATACTTT-AT-ATT
*** *
1429031 ATAT-CCAAACACTT
1 ATATACTTTATA-TT
1429045 -TATTACTTTATATT
1 ATA-TACTTTATATT
1429059 ATATACTTTAATACTTT
1 ATATACTTT-ATA--TT
*
1429076 ATATTAAATTATATACTT
1 ATA-T-ACTT-TATA-TT
1429094 -TATACTTTATATAT
1 ATATACTTTATAT-T
1429108 ATATAC-TTATACTT
1 ATATACTTTATA-TT
1429122 -TATACTTTATATT
1 ATATACTTTATATT
*
1429135 TTATA
1 ATATA
1429140 TATGTATGTA
Statistics
Matches: 135, Mismatches: 13, Indels: 58
0.66 0.06 0.28
Matches are distributed among these distances:
8 7 0.05
13 17 0.13
14 53 0.39
15 23 0.17
16 17 0.13
17 8 0.06
18 3 0.02
19 6 0.04
20 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (14 bp):
ATATACTTTATATT
Found at i:1428977 original size:22 final size:22
Alignment explanation
Indices: 1428950--1429139 Score: 112
Period size: 22 Copynumber: 8.5 Consensus size: 22
1428940 AATTAATTAA
1428950 TATACTTTATA-TTATATACTT
1 TATACTTTATACTTATATACTT
*
1428971 TAGTACTTATATACTTATATGCTT
1 TA-TACTT-TATACTTATATACTT
1428995 TATA-TTTAATACTTATAT--TT
1 TATACTTT-ATACTTATATACTT
* **
1429015 ATATACTTTAATAATTATAT-CCA
1 -TATACTTT-ATACTTATATACTT
* *
1429038 AACACTTTATTACTT-TATA-TT
1 TATACTTTA-TACTTATATACTT
*
1429059 ATATACTTTAATACTTTATATTAAATT
1 -TATACTTT-ATAC-TTATA-T-ACTT
*
1429086 ATATACTTTATACTTTATATA-TA
1 -TATACTTTATAC-TTATATACTT
1429109 TATAC-TTATACTT-TATACTT
1 TATACTTTATACTTATATACTT
*
1429129 TATATTTTATA
1 TATACTTTATA
1429140 TATGTATGTA
Statistics
Matches: 137, Mismatches: 14, Indels: 36
0.73 0.07 0.19
Matches are distributed among these distances:
19 4 0.03
20 9 0.07
21 22 0.16
22 54 0.39
23 10 0.07
24 14 0.10
25 2 0.01
26 11 0.08
27 11 0.08
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (22 bp):
TATACTTTATACTTATATACTT
Found at i:1428985 original size:30 final size:29
Alignment explanation
Indices: 1428949--1429012 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
1428939 AAATTAATTA
*
1428949 ATATACTTTATAT-TATATACTTTAGTACTT
1 ATATAC-TTATATCTATATA-TTTAATACTT
*
1428979 ATATACTTATATGCTTTATATTTAATACTT
1 ATATACTTATAT-CTATATATTTAATACTT
1429009 ATAT
1 ATAT
1429013 TTATATACTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 6 0.20
30 19 0.63
31 5 0.17
ACGTcount: A:0.34, C:0.09, G:0.03, T:0.53
Consensus pattern (29 bp):
ATATACTTATATCTATATATTTAATACTT
Found at i:1428997 original size:38 final size:36
Alignment explanation
Indices: 1428949--1429140 Score: 136
Period size: 35 Copynumber: 5.4 Consensus size: 36
1428939 AAATTAATTA
1428949 ATATACTTTATA-TTATATACTTTAGTACTTATATACTT
1 ATATACTTTATATTTA-ATAC-TTA-TACTTATATACTT
* *
1428987 ATATGCTTTATATTTAATACTTATATTTATATACTT
1 ATATACTTTATATTTAATACTTATACTTATATACTT
* ** *
1429023 -TAATA-ATTATATCCAAACACTTTATTACTT-TATA-TT
1 AT-ATACTTTATAT-TTAATAC-TTA-TACTTATATACTT
*
1429059 ATATACTTTAATACTTT-ATA-TTA-AATTATATACTT
1 ATATACTTT-ATA-TTTAATACTTATACTTATATACTT
*
1429094 -TATACTTTATATATATATACTTATACTT-TATACTT
1 ATATACTTTATATTTA-ATACTTATACTTATATACTT
*
1429129 -TATATTTTATAT
1 ATATACTTTATAT
1429141 ATGTATGTAA
Statistics
Matches: 123, Mismatches: 16, Indels: 33
0.72 0.09 0.19
Matches are distributed among these distances:
32 2 0.02
33 6 0.05
34 15 0.12
35 33 0.27
36 26 0.21
37 15 0.12
38 22 0.18
39 4 0.03
ACGTcount: A:0.36, C:0.10, G:0.01, T:0.53
Consensus pattern (36 bp):
ATATACTTTATATTTAATACTTATACTTATATACTT
Found at i:1429118 original size:28 final size:26
Alignment explanation
Indices: 1429058--1429134 Score: 102
Period size: 28 Copynumber: 2.8 Consensus size: 26
1429048 TACTTTATAT
*
1429058 TATATACTTTAATACTTTATATTAAAT
1 TATATACTTT-ATACTTTATATTAAAC
1429085 TATATACTTTATACTTTATATATATATAC
1 TATATACTTTATACTTTATAT-TA-A-AC
1429114 T-TATACTTTATACTTTATATT
1 TATATACTTTATACTTTATATT
1429135 TTATATATGT
Statistics
Matches: 46, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
26 11 0.24
27 13 0.28
28 20 0.43
29 2 0.04
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (26 bp):
TATATACTTTATACTTTATATTAAAC
Found at i:1429563 original size:2 final size:2
Alignment explanation
Indices: 1429552--1429594 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
1429542 TTAAAACAAT
1429552 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1429593 TA
1 TA
1429595 ATAAATGTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1429872 original size:33 final size:33
Alignment explanation
Indices: 1429835--1430338 Score: 154
Period size: 33 Copynumber: 15.2 Consensus size: 33
1429825 AAAAAAGAAT
*
1429835 AAGTATAAGTATATATATAAAGTGTA-AACTATA
1 AAGTATAAGTATATATATAAA-TATATAACTATA
*
1429868 AAGTATATA-TATATATATATATATATAACTATA
1 AAGTATA-AGTATATATATAAATATATAACTATA
** *
1429901 AAGTATAAG--TATAGGT--ATATAT-ACTTTA
1 AAGTATAAGTATATATATAAATATATAACTATA
*
1429929 AAGTATGAAG--TGTATAT--ATATATAACTATA
1 AAGTAT-AAGTATATATATAAATATATAACTATA
* * *
1429959 AATTATAAGTATAT-TATAAGTATATATACTTTA
1 AAGTATAAGTATATATATAAATATATA-ACTATA
* * **
1429992 TATTAATACTTTATATATATATAAGTATATAAACTA-A
1 AAGT-ATA-AGTATATATATA-AA-TATAT-AACTATA
* *
1430029 ATAGTATATA-TATATATATATATATATATAAAGT-TT
1 A-AGTATA-AGTATATATATA-A-ATATAT-AACTATA
* * *
1430065 TAGTATAAAGTGTATATAGGTATATA-ATAA-TATA
1 AAGTAT-AAGTATATATA--TAAATATATAACTATA
*
1430099 AAGTATATAAGTATATAATATAAAGTATAT-AGTATTA
1 AAG--TATAAGTATAT-ATATAAA-TATATAACTA-TA
* * *
1430136 AA-TATAAAGTGTATATGTATATATATAAACTATA
1 AAGTAT-AAGTATATATATAAATATAT-AACTATA
* * *
1430170 AAGTGTATA-TATATATATAAAGT-T-TTAGTATA
1 AAGTATA-AGTATATATATAAA-TATATAACTATA
* * *
1430202 AAGTATATA-TACATATATAATAATATAAAAGTAT-
1 AAGTATA-AGTATATATAT-A-AATATATAACTATA
* *
1430236 AAGTACAAGTATA-AGTATATAT-TATATA-TATA
1 AAGTATAAGTATATA-TATAAATATATA-ACTATA
* * * *
1430268 AAGTATAATTATAAAGACTAAAGTGTATAACTATA
1 AAGTATAAGTATATATA-TAAA-TATATAACTATA
* *
1430303 TAAG-ATAA--A-GTATATAAATAT-TAAATATA
1 -AAGTATAAGTATATATATAAATATATAACTATA
1430332 AAGTATA
1 AAGTATA
1430339 TATGTATAAA
Statistics
Matches: 361, Mismatches: 58, Indels: 108
0.69 0.11 0.20
Matches are distributed among these distances:
28 14 0.04
29 32 0.09
30 15 0.04
31 17 0.05
32 48 0.13
33 57 0.16
34 52 0.14
35 54 0.15
36 49 0.14
37 10 0.03
38 12 0.03
39 1 0.00
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (33 bp):
AAGTATAAGTATATATATAAATATATAACTATA
Found at i:1429878 original size:2 final size:2
Alignment explanation
Indices: 1429871--1430058 Score: 65
Period size: 2 Copynumber: 92.0 Consensus size: 2
1429861 AACTATAAAG
*
1429871 TA TA TA TA TA TA TA TA TA TA TA TA -A CTA TA AA GTA TA -A GTA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA -TA
** * * *
1429912 TA GG TA TA TA TA CTT TA AA GTA TGA -A GTG TA TA TA TA TA TA -A
1 TA TA TA TA TA TA -TA TA TA -TA T-A TA -TA TA TA TA TA TA TA TA
* *
1429954 CTA TA AA T- TA TA -A GTA TA T- TA TA -A GTA TA TA TA CTT TA TA
1 -TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA TA -TA TA TA
* * *
1429994 T- TA -A TA CTT TA TA TA TA TA TA -A GTA TA TA AA CTA AA TA GTA
1 TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA -TA
1430035 TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
1430059 AAGTTTTAGT
Statistics
Matches: 138, Mismatches: 22, Indels: 52
0.65 0.10 0.25
Matches are distributed among these distances:
1 11 0.08
2 112 0.81
3 15 0.11
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.43
Consensus pattern (2 bp):
TA
Found at i:1430045 original size:38 final size:38
Alignment explanation
Indices: 1429968--1430274 Score: 133
Period size: 38 Copynumber: 8.4 Consensus size: 38
1429958 AAATTATAAG
* * * *
1429968 TATAT-TATAAGTATATATACTTTATATTA-ATACTTTA
1 TATATATATAAGTATATAAACTATATAGTATATA-TATA
*
1430005 TATATATATAAGTATATAAACTAAATAGTATATATATA
1 TATATATATAAGTATATAAACTATATAGTATATATATA
* * * *
1430043 TATATATAT-A-TATATAAAGT-TTTAGTATAAAGTGTA
1 TATATATATAAGTATATAAACTATATAGTATATA-TATA
*
1430079 TATAGGTATATAA-TAATATAAAGTATATAAGTATATA-ATA
1 TATA--TATATAAGT-ATATAAACTATAT-AGTATATATATA
* * * *
1430119 TAAAGTATAT-AGTAT-TAAA-TATAAAGTGTATATGTA
1 TATA-TATATAAGTATATAAACTATATAGTATATATATA
* * *
1430155 TATATATA-AA--CTATAAAGTGTATA-TATATATATA
1 TATATATATAAGTATATAAACTATATAGTATATATATA
* * *
1430189 -A-AGT-T-TTAG--TATAAAGTATATA-TACATATATA
1 TATA-TATATAAGTATATAAACTATATAGTATATATATA
* *
1430221 -ATAATATAAAAGTATAAGTACAAGTATA-AGTATATAT-TA
1 TAT-ATATATAAGTAT-A-TA-AACTATATAGTATATATATA
1430260 TATATATA-AAGTATA
1 TATATATATAAGTATA
1430275 ATTATAAAGA
Statistics
Matches: 213, Mismatches: 29, Indels: 56
0.71 0.10 0.19
Matches are distributed among these distances:
32 25 0.12
33 4 0.02
34 14 0.07
35 26 0.12
36 25 0.12
37 12 0.06
38 47 0.22
39 22 0.10
40 29 0.14
41 2 0.01
42 7 0.03
ACGTcount: A:0.49, C:0.02, G:0.08, T:0.41
Consensus pattern (38 bp):
TATATATATAAGTATATAAACTATATAGTATATATATA
Found at i:1430081 original size:32 final size:32
Alignment explanation
Indices: 1430045--1430221 Score: 137
Period size: 32 Copynumber: 5.5 Consensus size: 32
1430035 TATATATATA
*
1430045 TATATATATATATAAAGTTTTAGTATAAAGTG
1 TATATATATATATAAAGTTTAAGTATAAAGTG
** * * *
1430077 TATATAGGTATATAATAATATAAAGTATATAAGTA
1 TATATATATATATAA-AGT-TTAAGTATA-AAGTG
* * *
1430112 TATAATATAAAGTATATAGTATTAAATATAAAGTG
1 TAT-ATATATA-TATAAAGT-TTAAGTATAAAGTG
* * *
1430147 TATATGTATATAT--A--TAAACTATAAAGTG
1 TATATATATATATAAAGTTTAAGTATAAAGTG
* *
1430175 TATATATATATATAAAGTTTTAGTATAAAGTA
1 TATATATATATATAAAGTTTAAGTATAAAGTG
*
1430207 TATATACATATATAA
1 TATATATATATATAA
1430222 TAATATAAAA
Statistics
Matches: 112, Mismatches: 24, Indels: 18
0.73 0.16 0.12
Matches are distributed among these distances:
28 24 0.21
30 1 0.01
31 1 0.01
32 37 0.33
33 5 0.04
34 12 0.11
35 14 0.12
36 14 0.12
37 4 0.04
ACGTcount: A:0.49, C:0.01, G:0.10, T:0.40
Consensus pattern (32 bp):
TATATATATATATAAAGTTTAAGTATAAAGTG
Found at i:1430173 original size:28 final size:28
Alignment explanation
Indices: 1430123--1430188 Score: 98
Period size: 28 Copynumber: 2.3 Consensus size: 28
1430113 ATAATATAAA
1430123 GTATATAGTATTAAATATAAAGTGTATAT
1 GTATATA-TATTAAATATAAAGTGTATAT
1430152 GTATATATA-TAAACTATAAAGTGTATAT
1 GTATATATATTAAA-TATAAAGTGTATAT
*
1430180 ATATATATA
1 GTATATATA
1430189 AAGTTTTAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
27 4 0.11
28 24 0.69
29 7 0.20
ACGTcount: A:0.47, C:0.02, G:0.11, T:0.41
Consensus pattern (28 bp):
GTATATATATTAAATATAAAGTGTATAT
Found at i:1430176 original size:22 final size:22
Alignment explanation
Indices: 1430110--1430467 Score: 120
Period size: 22 Copynumber: 17.3 Consensus size: 22
1430100 AGTATATAAG
*
1430110 TATATAATATAAAGTATATAGTA
1 TATAT-ATATAAAGTATAAAGTA
* * * *
1430133 T-TAAATATAAAGTGTATA-TG
1 TATATATATAAAGTATAAAGTA
* *
1430153 TATATATATAAACTATAAAGTG
1 TATATATATAAAGTATAAAGTA
1430175 TATATATAT--A-TATAAAGT-
1 TATATATATAAAGTATAAAGTA
1430193 T-T-TAGTATAAAGTAT--A-TA
1 TATATA-TATAAAGTATAAAGTA
* *
1430211 TACATATATAATAATATAAAAGTA
1 TATATATATAA-AGTAT-AAAGTA
* *
1430235 TA-A-GTA-CAAGTAT-AAGTA
1 TATATATATAAAGTATAAAGTA
*
1430253 TATAT-TATATA-TATAAAGTA
1 TATATATATAAAGTATAAAGTA
*
1430273 TA-AT-TATAAAG-ACTAAAGTG
1 TATATATATAAAGTA-TAAAGTA
1430293 TATA-ACTATATAAG-ATAAAGTA
1 TATATA-TATA-AAGTATAAAGTA
*
1430315 TATAAATATTAAA-TATAAAGTA
1 TATATATA-TAAAGTATAAAGTA
* **
1430337 TATATGTATAAAGT-TTTAGTA
1 TATATATATAAAGTATAAAGTA
* * * *
1430358 TAAAGTATATATA-CATATA-TA
1 TATA-TATATAAAGTATAAAGTA
1430379 -ATA-ATATAAAGTAT-AAGTA
1 TATATATATAAAGTATAAAGTA
1430398 TAT-TATATAGAGAGTAT-AA-T-
1 TATATATATA-A-AGTATAAAGTA
* * *
1430418 TATAAAGACTAGAGTATATAAGTA
1 TATATATA-TAAAGTATA-AAGTA
* *
1430442 TATA-ATATAAAGTGTATA-TA
1 TATATATATAAAGTATAAAGTA
1430462 TATATA
1 TATATA
1430468 CTTTATTTTA
Statistics
Matches: 255, Mismatches: 37, Indels: 88
0.67 0.10 0.23
Matches are distributed among these distances:
16 2 0.01
17 5 0.02
18 17 0.07
19 32 0.13
20 55 0.22
21 48 0.19
22 75 0.29
23 13 0.05
24 8 0.03
ACGTcount: A:0.51, C:0.02, G:0.10, T:0.37
Consensus pattern (22 bp):
TATATATATAAAGTATAAAGTA
Found at i:1430275 original size:38 final size:39
Alignment explanation
Indices: 1430159--1430399 Score: 119
Period size: 40 Copynumber: 6.1 Consensus size: 39
1430149 TATGTATATA
* * * *
1430159 TATAAACTATAAAGTGTATA-TATATATATAAAGTTTTAG
1 TATAAAGTAT-AAGTATATATTATATATATAAAGTATAAG
*
1430198 TATAAAGTAT-A-TATACATATATAATAATATAAAAGTATAAG
1 TATAAAGTATAAGTATATAT-TAT-AT-ATAT-AAAGTATAAG
* *
1430239 TA-CAAGTATAAGTATATATTATATATATAAAGTATAAT
1 TATAAAGTATAAGTATATATTATATATATAAAGTATAAG
* *
1430277 TATAAAG-ACTAAAGTGTATA--A-CTATAT-AAG-ATAAAG
1 TATAAAGTA-T-AAGTATATATTATATATATAAAGTAT-AAG
* * * * * *
1430313 TATATAAATATTAAATATAAAGTATATATGTATAAAGTTTTAG
1 TATA-AAGTA-TAAGTATATA-T-TATATATATAAAGTATAAG
*
1430356 TATAAAGTAT-A-TATACATATATAATAATATAAAGTATAAG
1 TATAAAGTATAAGTATATAT-TAT-AT-ATATAAAGTATAAG
1430396 TATA
1 TATA
1430400 TTATATAGAG
Statistics
Matches: 154, Mismatches: 26, Indels: 43
0.69 0.12 0.19
Matches are distributed among these distances:
35 2 0.01
36 13 0.08
37 14 0.09
38 23 0.15
39 26 0.17
40 36 0.23
41 16 0.10
42 14 0.09
43 9 0.06
44 1 0.01
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.37
Consensus pattern (39 bp):
TATAAAGTATAAGTATATATTATATATATAAAGTATAAG
Found at i:1430347 original size:28 final size:27
Alignment explanation
Indices: 1430313--1430465 Score: 92
Period size: 28 Copynumber: 5.2 Consensus size: 27
1430303 TAAGATAAAG
1430313 TATATAAATATTAAATATAAAGTATATA
1 TATATAAATATT-AATATAAAGTATATA
* * *
1430341 TGTATAAAGTTTTAGTATAAAGTATATA
1 TATATAAA-TATTAATATAAAGTATATA
* * *
1430369 TACATATATAATAATATAAAGTATAAGTA
1 TATATAAATATTAATATAAAGTAT-A-TA
* *
1430398 TATTATATAGAGAGTATAATTATAAAG-ACTAGA
1 TA-TATA-A-ATA-T-TAA-TATAAAGTA-TATA
* *
1430431 GTATATAAGTATATAATATAAAGTGTATA
1 -TATATAAATAT-TAATATAAAGTATATA
1430460 TATATA
1 TATATA
1430466 TACTTTATTT
Statistics
Matches: 95, Mismatches: 18, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
27 13 0.14
28 33 0.35
29 17 0.18
30 8 0.08
31 1 0.01
32 3 0.03
33 5 0.05
34 7 0.07
35 8 0.08
ACGTcount: A:0.50, C:0.01, G:0.10, T:0.38
Consensus pattern (27 bp):
TATATAAATATTAATATAAAGTATATA
Found at i:1430481 original size:22 final size:22
Alignment explanation
Indices: 1430456--1430836 Score: 139
Period size: 22 Copynumber: 17.2 Consensus size: 22
1430446 ATATAAAGTG
1430456 TATATATATATACTTTATTTTA
1 TATATATATATACTTTATTTTA
*
1430478 TATACATATATACTTTATGGTTTCTA
1 TATATATATATACTTTA---TTT-TA
1430504 TATATACTTATATACTTTATATTTA
1 TATATA--TATATACTTTAT-TTTA
* *
1430529 -ATACT-TATATACTTTATATTG
1 TATA-TATATATACTTTATTTTA
* *
1430550 TATACT-TGTATACTTTATATTA
1 TATA-TATATATACTTTATTTTA
*
1430572 TATACT-TATATACTTTATATTA
1 TATA-TATATATACTTTATTTTA
* * * ** ****
1430594 T-TATACACACAC-ACACACACA
1 TATATATATATACTTTA-TTTTA
* * * * * *
1430615 CACACACATATA-TATATATTA
1 TATATATATATACTTTATTTTA
*
1430636 TATATATATATA--TTATTATA
1 TATATATATATACTTTATTTTA
* *
1430656 TATGTATATATA--TTATTATA
1 TATATATATATACTTTATTTTA
* * *
1430676 TATGTATTTATACTTTATATTA
1 TATATATATATACTTTATTTTA
* * * *
1430698 TATATTTATATACTTTAGTCTG
1 TATATATATATACTTTATTTTA
1430720 TATA-AT-TATACTTTATATTTA
1 TATATATATATACTTTAT-TTTA
* *
1430741 -ATACT-TATATACCTTATATTA
1 TATA-TATATATACTTTATTTTA
*
1430762 TATATTTATATACTTTATATTATTA
1 TATATATATATAC-TT-TATT-TTA
1430787 TATATGTATATATACTTTATATTTA
1 TATA--TATATATACTTTAT-TTTA
* *
1430812 -ATACT-TATATATTTTATATTA
1 TATA-TATATATACTTTATTTTA
1430833 TATA
1 TATA
1430837 ATTTATATTA
Statistics
Matches: 275, Mismatches: 56, Indels: 56
0.71 0.14 0.14
Matches are distributed among these distances:
20 49 0.18
21 29 0.11
22 135 0.49
23 2 0.01
24 9 0.03
25 20 0.07
26 12 0.04
27 8 0.03
28 11 0.04
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (22 bp):
TATATATATATACTTTATTTTA
Found at i:1430517 original size:8 final size:8
Alignment explanation
Indices: 1430504--1430599 Score: 100
Period size: 8 Copynumber: 12.9 Consensus size: 8
1430494 ATGGTTTCTA
1430504 TATATACT
1 TATATACT
1430512 TATATACT
1 TATATACT
*
1430520 T-TATATT
1 TATATACT
1430527 TA-ATACT
1 TATATACT
1430534 TATATACT
1 TATATACT
1430542 T-TATA-T
1 TATATACT
*
1430548 TGTATACT
1 TATATACT
*
1430556 TGTATACT
1 TATATACT
1430564 T-TATA-T
1 TATATACT
1430570 TATATACT
1 TATATACT
1430578 TATATACT
1 TATATACT
1430586 T-TATA-T
1 TATATACT
1430592 TATTATAC
1 TA-TATAC
1430600 ACACACACAC
Statistics
Matches: 77, Mismatches: 2, Indels: 17
0.80 0.02 0.18
Matches are distributed among these distances:
6 6 0.08
7 32 0.42
8 39 0.51
ACGTcount: A:0.34, C:0.09, G:0.02, T:0.54
Consensus pattern (8 bp):
TATATACT
Found at i:1430605 original size:2 final size:2
Alignment explanation
Indices: 1430598--1430622 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1430588 ATATTATTAT
1430598 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
1430623 TATATATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1430627 original size:2 final size:2
Alignment explanation
Indices: 1430622--1430709 Score: 80
Period size: 2 Copynumber: 46.5 Consensus size: 2
1430612 ACACACACAC
*
1430622 AT AT AT AT AT AT -T AT AT AT AT AT AT AT -T AT -T AT AT AT GT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
1430661 AT AT AT AT -T AT -T AT AT AT GT AT TT AT ACT TT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT AT
*
1430701 AT TT AT AT A
1 AT AT AT AT A
1430710 CTTTAGTCTG
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
1 6 0.09
2 62 0.90
3 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.56
Consensus pattern (2 bp):
AT
Found at i:1430663 original size:20 final size:20
Alignment explanation
Indices: 1430622--1430687 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
1430612 ACACACACAC
1430622 ATATATATATATTATATA--T
1 ATATATAT-TATTATATATGT
1430641 ATATATATTATTATATATGT
1 ATATATATTATTATATATGT
1430661 ATATATATTATTATATATGT
1 ATATATATTATTATATATGT
*
1430681 ATTTATA
1 ATATATA
1430688 CTTTATATTA
Statistics
Matches: 44, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
18 9 0.20
19 8 0.18
20 27 0.61
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (20 bp):
ATATATATTATTATATATGT
Found at i:1430695 original size:64 final size:61
Alignment explanation
Indices: 1430627--1430830 Score: 168
Period size: 56 Copynumber: 3.5 Consensus size: 61
1430617 CACACATATA
1430627 TATATATTATATATATATATATTATTATATATGTATATATATTATTATATATGTATTTATACT
1 TATATATTATATAT-TATATATT-TTATATATGTATATATATTATTATATATGTATTTATACT
* * * *
1430690 T-TATATTATATATTTATATACTTTA-GTCTGTATA-AT-TATACTT-TATA--T-TTAATACT
1 TATATATTATATA-TTATATATTTTATATATGTATATATAT-TA-TTATATATGTATTTATACT
* * *
1430746 TATATACCT-TATATTATATA-TTTATATA-CT-T-TATATTATTATATATGTATATATACT
1 TATATA-TTATATATTATATATTTTATATATGTATATATATTATTATATATGTATTTATACT
1430803 T-TATATT-TAATACTTATATATTTTATAT
1 TATATATTAT-ATA-TTATATATTTTATAT
1430831 TATATAATTT
Statistics
Matches: 115, Mismatches: 11, Indels: 35
0.71 0.07 0.22
Matches are distributed among these distances:
53 2 0.02
54 9 0.08
55 8 0.07
56 24 0.21
57 23 0.20
58 9 0.08
59 8 0.07
60 9 0.08
61 3 0.03
62 18 0.16
63 2 0.02
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (61 bp):
TATATATTATATATTATATATTTTATATATGTATATATATTATTATATATGTATTTATACT
Found at i:1430703 original size:20 final size:21
Alignment explanation
Indices: 1430629--1430866 Score: 151
Period size: 22 Copynumber: 11.2 Consensus size: 21
1430619 CACATATATA
*
1430629 TATATTATATA-TATATA-TA
1 TATATTATATATTATATACTT
*
1430648 T-TATTATATATGTATATA-TA
1 TATATTATATAT-TATATACTT
1430668 T-TATTATATATGTATTTATACTT
1 TATATTATATAT-TA--TATACTT
1430691 TATATTATATATTTATATACTT
1 TATATTATATA-TTATATACTT
*
1430713 TAGTCTGTATA-A-T-TATACTT
1 TA-TAT-TATATATTATATACTT
*
1430733 TATATT-TAATACTTATATACCT
1 TATATTAT-ATA-TTATATACTT
1430755 TATATTATATATTTATATACTT
1 TATATTATATA-TTATATACTT
* *
1430777 TATATTAT-TATATATGTA-TA
1 TATATTATATAT-TATATACTT
1430797 TATACTT-TATATTTA-ATACTT
1 TATA-TTATATA-TTATATACTT
* *
1430818 ATATATTTTATATTATATAATT
1 -TATATTATATATTATATACTT
* * *
1430840 TATATTAATAAACTATATAGTT
1 TATATT-ATATATTATATACTT
1430862 TATAT
1 TATAT
1430867 ATAGTTCAAT
Statistics
Matches: 180, Mismatches: 15, Indels: 45
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.01
18 11 0.06
19 4 0.02
20 40 0.22
21 27 0.15
22 75 0.42
23 6 0.03
24 15 0.08
25 1 0.01
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (21 bp):
TATATTATATATTATATACTT
Found at i:1430835 original size:36 final size:37
Alignment explanation
Indices: 1430625--1430869 Score: 108
Period size: 36 Copynumber: 6.5 Consensus size: 37
1430615 CACACACATA
* *
1430625 TATATATATTATATATATAT-ATAT-TA-TTATATA-T
1 TATATATTTTATATATATATAATTTATATTTA-ATACT
* *
1430659 GTATATATATTAT-TATATATGTATTTATACTTT-ATA-T
1 -TATATATTTTATATATATAT-AATTTATA-TTTAATACT
* *
1430696 TATATA-TTTATATACT-T-TAGTCTGTATAATT-ATACT
1 TATATATTTTATATA-TATATAAT-T-TATATTTAATACT
*
1430732 T-TATATTTAATACTTATATACCTTATATTATATATTTATATACT
1 TATATATTTTATA--TATATA---TA-ATT-TATATTTA-ATACT
1430776 T-TATATTATTATATATGTATATATACTTTATATTTAATACT
1 TATATATT-TTATATA--TATATA-A-TTTATATTTAATACT
1430817 TATATATTTTATAT-TATATAATTTATA-TTAATAAAC-
1 TATATATTTTATATATATATAATTTATATTTAAT--ACT
*
1430853 TATATAGTTTATATATA
1 TATATATTTTATATATA
1430870 GTTCAATAGT
Statistics
Matches: 170, Mismatches: 11, Indels: 56
0.72 0.05 0.24
Matches are distributed among these distances:
34 8 0.05
35 32 0.19
36 42 0.25
37 13 0.08
38 9 0.05
39 2 0.01
41 12 0.07
42 27 0.16
43 5 0.03
44 12 0.07
45 8 0.05
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (37 bp):
TATATATTTTATATATATATAATTTATATTTAATACT
Found at i:1430868 original size:71 final size:70
Alignment explanation
Indices: 1430622--1430869 Score: 185
Period size: 71 Copynumber: 3.6 Consensus size: 70
1430612 ACACACACAC
* * * * * * *
1430622 ATATATATATATTATATATATATATATTATTATATATGTATATATATTATTATATAT-GTA-TT-
1 ATAT-TATATATT-TATATACATAAACTATTATATATATATATATACT-TTATATTTAATACTTA
*
1430684 TATACTTT
63 TATACCTT
* * * *
1430692 ATATTATATATTTATATAC-T---TTAGTCTGTATA-AT-TATACTTTATATTTAATACTTATAT
1 ATATTATATATTTATATACATAAACTATTATATATATATATATACTTTATATTTAATACTTATAT
1430751 ACCTT
66 ACCTT
* * * *
1430756 ATATTATATATTTATATACTTTATATTATTATATATGTATATATACTTTATATTTAATACTTATA
1 ATATTATATATTTATATAC-ATAAACTATTATATATATATATATACTTTATATTTAATACTTATA
**
1430821 TATTTT
65 TACCTT
*
1430827 ATATTATATAATTTATATTA-ATAAACTA-TATAGTTTATATATA
1 ATATTATAT-ATTTATA-TACATAAACTATTATA-TATATATATA
1430870 GTTCAATAGT
Statistics
Matches: 145, Mismatches: 20, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
61 7 0.05
62 7 0.05
63 4 0.03
64 34 0.23
66 1 0.01
67 1 0.01
68 6 0.04
69 16 0.11
70 10 0.07
71 50 0.34
72 7 0.05
73 2 0.01
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.54
Consensus pattern (70 bp):
ATATTATATATTTATATACATAAACTATTATATATATATATATACTTTATATTTAATACTTATAT
ACCTT
Found at i:1438239 original size:23 final size:23
Alignment explanation
Indices: 1438168--1438249 Score: 89
Period size: 23 Copynumber: 3.6 Consensus size: 23
1438158 TCACTTATCA
1438168 GTGCATCGATGCA-TCCCTTTGAAT
1 GTGCATCGATGCACT-CC-TTGAAT
* * *
1438192 GTGCATCGAT--ACACCATGAAG
1 GTGCATCGATGCACTCCTTGAAT
*
1438213 GTGCACCGATGCACTCCTTGAAT
1 GTGCATCGATGCACTCCTTGAAT
1438236 GTGCATCGATGCAC
1 GTGCATCGATGCAC
1438250 AAGGCCATGC
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
21 13 0.28
22 3 0.06
23 21 0.45
24 10 0.21
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.26
Consensus pattern (23 bp):
GTGCATCGATGCACTCCTTGAAT
Found at i:1440163 original size:44 final size:46
Alignment explanation
Indices: 1440109--1440212 Score: 133
Period size: 46 Copynumber: 2.3 Consensus size: 46
1440099 GCACCAATCC
* *
1440109 ATGCATCGATG-AC-CAATGAATAAAT-TAAACATCGAATGCATTTT
1 ATGCATCGATGCACTC-AGGAATAAATAAAAACATCGAATGCATTTT
** *
1440153 ATGCATCGATGCACTCAGGTTTTAATAAAAACATCGAATGCATTTT
1 ATGCATCGATGCACTCAGGAATAAATAAAAACATCGAATGCATTTT
1440199 ATGCATCGATGCAC
1 ATGCATCGATGCAC
1440213 ACACCATGCA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
44 11 0.21
45 8 0.15
46 33 0.63
ACGTcount: A:0.37, C:0.18, G:0.15, T:0.30
Consensus pattern (46 bp):
ATGCATCGATGCACTCAGGAATAAATAAAAACATCGAATGCATTTT
Found at i:1457366 original size:17 final size:17
Alignment explanation
Indices: 1457344--1457384 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
1457334 AGTGTTGTTG
* * *
1457344 CTCAAACGAGAGTTTTT
1 CTCAAAAGAGAATTTCT
1457361 CTCAAAAGAGAATTTCT
1 CTCAAAAGAGAATTTCT
1457378 CTCAAAA
1 CTCAAAA
1457385 AAAGGGAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (17 bp):
CTCAAAAGAGAATTTCT
Found at i:1466525 original size:18 final size:18
Alignment explanation
Indices: 1466486--1466553 Score: 73
Period size: 18 Copynumber: 3.8 Consensus size: 18
1466476 GTTTCTGGGG
* * *
1466486 GAATTGAAATCTGTGAAG
1 GAATTGGAATCTGTTAAA
*
1466504 GAATTGGAATCTGTTAAC
1 GAATTGGAATCTGTTAAA
* *
1466522 GAATTTGAATCTATTAAA
1 GAATTGGAATCTGTTAAA
*
1466540 GAATTAGAATCTGT
1 GAATTGGAATCTGT
1466554 CAGGAATTGG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 42 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (18 bp):
GAATTGGAATCTGTTAAA
Found at i:1467900 original size:2 final size:2
Alignment explanation
Indices: 1467893--1467917 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1467883 CGACTAGGGT
1467893 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 T
1467918 TTTAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1471827 original size:23 final size:23
Alignment explanation
Indices: 1471777--1471827 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
1471767 GATTCCCTCC
*
1471777 AGGGGGAATCGGTTCCTATTCAA
1 AGGGGGAATCGGTTCCCATTCAA
*
1471800 AGGGGGAATCGGTTCCCCTT-AA
1 AGGGGGAATCGGTTCCCATTCAA
1471822 AGGGGG
1 AGGGGG
1471828 TGTCGATTCC
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.24, C:0.18, G:0.37, T:0.22
Consensus pattern (23 bp):
AGGGGGAATCGGTTCCCATTCAA
Found at i:1477656 original size:23 final size:25
Alignment explanation
Indices: 1477616--1477661 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
1477606 AAACCATTAA
1477616 GGGGGAATCGGTACCCCT-TGGGGG
1 GGGGGAATCGGTACCCCTCTGGGGG
*
1477640 GGGGGAATCGGT-TCCCTCTGGG
1 GGGGGAATCGGTACCCCTCTGGG
1477662 CAATCTGCCC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.11, C:0.22, G:0.48, T:0.20
Consensus pattern (25 bp):
GGGGGAATCGGTACCCCTCTGGGGG
Found at i:1492387 original size:24 final size:24
Alignment explanation
Indices: 1492355--1492403 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
1492345 GTATTAAATC
1492355 TTCAAGTAACCATCAATAGACTTA
1 TTCAAGTAACCATCAATAGACTTA
* *
1492379 TTCAAGTAACCGTGAATAGACTTA
1 TTCAAGTAACCATCAATAGACTTA
1492403 T
1 T
1492404 AGGTCAGAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.39, C:0.18, G:0.12, T:0.31
Consensus pattern (24 bp):
TTCAAGTAACCATCAATAGACTTA
Found at i:1506392 original size:29 final size:28
Alignment explanation
Indices: 1506360--1506449 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 28
1506350 CAAATTTTGG
*
1506360 TTAGTGACTAAAATATAAGATTTAAAAGT
1 TTAGTGACAAAAATATAA-ATTTAAAAGT
* * *
1506389 TTAGTGGCCAAAGTATAAATTTATAATAGT
1 TTAGTGACAAAAATATAAATTTA-AA-AGT
* * *
1506419 TTAGGGATCAAAAATGTAATTTTTAAAAGT
1 TTAGTGA-CAAAAATATAA-ATTTAAAAGT
1506449 T
1 T
1506450 ATATATTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
28 5 0.10
29 17 0.35
30 12 0.25
31 10 0.21
32 4 0.08
ACGTcount: A:0.43, C:0.04, G:0.16, T:0.37
Consensus pattern (28 bp):
TTAGTGACAAAAATATAAATTTAAAAGT
Found at i:1511359 original size:44 final size:44
Alignment explanation
Indices: 1511263--1511367 Score: 131
Period size: 44 Copynumber: 2.4 Consensus size: 44
1511253 TGTTGGAGCA
* * * *
1511263 TTCCAACTTATTCCCTAAGACTATGTTGGAGCTATTACCAGTGT
1 TTCCAACTTATTCACTAAGACTATGTTGGAGCAAATACCAATGT
* *
1511307 TTCCAACTTATTTACTAAGACTATGTTGGAGCAAATA-CAATCTT
1 TTCCAACTTATTCACTAAGACTATGTTGGAGCAAATACCAAT-GT
*
1511351 TTCTAACTTATTCACTA
1 TTCCAACTTATTCACTA
1511368 CTTTTTTCTC
Statistics
Matches: 52, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
43 3 0.06
44 49 0.94
ACGTcount: A:0.30, C:0.21, G:0.11, T:0.38
Consensus pattern (44 bp):
TTCCAACTTATTCACTAAGACTATGTTGGAGCAAATACCAATGT
Found at i:1512068 original size:6 final size:5
Alignment explanation
Indices: 1512038--1512067 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
1512028 ATAAAATCTA
1512038 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA
1512068 AGTTATATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:1519299 original size:21 final size:23
Alignment explanation
Indices: 1519253--1519296 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1519243 CCGAACGTGA
*
1519253 GAGAAAGTTTCTTTTCAATTTTT
1 GAGAAAGTTTCCTTTCAATTTTT
*
1519276 GAGAAA-TTTCCTTTGAATTTT
1 GAGAAAGTTTCCTTTCAATTTT
1519297 GAGTTATACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 13 0.68
23 6 0.32
ACGTcount: A:0.27, C:0.09, G:0.14, T:0.50
Consensus pattern (23 bp):
GAGAAAGTTTCCTTTCAATTTTT
Found at i:1520990 original size:19 final size:19
Alignment explanation
Indices: 1520951--1521029 Score: 99
Period size: 18 Copynumber: 4.3 Consensus size: 19
1520941 TTGACCGGTC
* *
1520951 TGACCAGTCCGAA-TCGTT
1 TGACCGGTCCGAACTGGTT
1520969 TGACCGGTCCGAACTGGTT
1 TGACCGGTCCGAACTGGTT
1520988 TGACC-GTCCGAACTGGTT
1 TGACCGGTCCGAACTGGTT
* * *
1521006 TGACCGGTCCAAACCGGGT
1 TGACCGGTCCGAACTGGTT
1521025 TGACC
1 TGACC
1521030 AATCTGACCC
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
18 30 0.56
19 24 0.44
ACGTcount: A:0.19, C:0.29, G:0.28, T:0.24
Consensus pattern (19 bp):
TGACCGGTCCGAACTGGTT
Found at i:1521007 original size:37 final size:37
Alignment explanation
Indices: 1520951--1521030 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
1520941 TTGACCGGTC
* * *
1520951 TGACCAGTCCGAATCGTTTGACCGGTCCGAACTGGTT
1 TGACCAGTCCGAATCGTTTGACCGGTCCAAACCGGGT
*
1520988 TGACC-GTCCGAACTGGTTTGACCGGTCCAAACCGGGT
1 TGACCAGTCCGAA-TCGTTTGACCGGTCCAAACCGGGT
1521025 TGACCA
1 TGACCA
1521031 ATCTGACCCG
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 7 0.19
37 30 0.81
ACGTcount: A:0.20, C:0.29, G:0.28, T:0.24
Consensus pattern (37 bp):
TGACCAGTCCGAATCGTTTGACCGGTCCAAACCGGGT
Found at i:1521089 original size:29 final size:29
Alignment explanation
Indices: 1521055--1521222 Score: 227
Period size: 29 Copynumber: 5.9 Consensus size: 29
1521045 GACCCGACCT
*
1521055 GGTGACATTCTGAGAAATATTTTAAAAAA
1 GGTGACATTCTGAGAAATATTTTGAAAAA
* *
1521084 TGTGACATTCTGGGAAATATTTTGAAAAA
1 GGTGACATTCTGAGAAATATTTTGAAAAA
1521113 -GTGACATTCT-AGGAAATATTTTGAAAAA
1 GGTGACATTCTGA-GAAATATTTTGAAAAA
* *
1521141 GGTGACATTCTGTGAAATATTTTGAAATA
1 GGTGACATTCTGAGAAATATTTTGAAAAA
* *
1521170 GGTGACATTCTGGGAATTATTTTGAAAAA
1 GGTGACATTCTGAGAAATATTTTGAAAAA
*
1521199 GGTGACATTTTG-GAAAT-TTTTGAA
1 GGTGACATTCTGAGAAATATTTTGAA
1521223 TGTGGATTGA
Statistics
Matches: 125, Mismatches: 11, Indels: 8
0.87 0.08 0.06
Matches are distributed among these distances:
27 7 0.06
28 30 0.24
29 88 0.70
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.35
Consensus pattern (29 bp):
GGTGACATTCTGAGAAATATTTTGAAAAA
Found at i:1521146 original size:57 final size:57
Alignment explanation
Indices: 1521056--1521222 Score: 232
Period size: 57 Copynumber: 2.9 Consensus size: 57
1521046 ACCCGACCTG
* *
1521056 GTGACATTCTGAGAAATATTTTAAAAAATGTGACATTCTGGGAAATATTTTGAAA-AA
1 GTGACATTCTG-GAAATATTTTGAAAAAGGTGACATTCTGGGAAATATTTTGAAATAA
* *
1521113 GTGACATTCTAGGAAATATTTTGAAAAAGGTGACATTCTGTGAAATATTTTGAAATAG
1 GTGACATTCT-GGAAATATTTTGAAAAAGGTGACATTCTGGGAAATATTTTGAAATAA
* *
1521171 GTGACATTCTGGGAATTATTTTGAAAAAGGTGACATT-TTGGAAAT-TTTTGAA
1 GTGACATTCT-GGAAATATTTTGAAAAAGGTGACATTCTGGGAAATATTTTGAA
1521223 TGTGGATTGA
Statistics
Matches: 100, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
56 7 0.07
57 56 0.56
58 37 0.37
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (57 bp):
GTGACATTCTGGAAATATTTTGAAAAAGGTGACATTCTGGGAAATATTTTGAAATAA
Found at i:1521214 original size:86 final size:85
Alignment explanation
Indices: 1521055--1521222 Score: 257
Period size: 86 Copynumber: 2.0 Consensus size: 85
1521045 GACCCGACCT
*
1521055 GGTGACATTCTGAGAAATATTTTAAAAAATGTGACATTCTGGGAAATATTTTGAAAAAGTGACAT
1 GGTGACATTCTGAGAAATATTTTAAAAAAGGTGACATTCTGGGAAATATTTTGAAAAAGTGACAT
1521120 TCTAGGAAATATTTTGAAAAA
66 TCTAGGAAAT-TTTTGAAAAA
* * * *
1521141 GGTGACATTCTGTGAAATATTTTGAAATAGGTGACATTCTGGGAATTATTTTGAAAAAGGTGACA
1 GGTGACATTCTGAGAAATATTTTAAAAAAGGTGACATTCTGGGAAATATTTTGAAAAA-GTGACA
*
1521206 TT-TTGGAAATTTTTGAA
65 TTCTAGGAAATTTTTGAA
1521223 TGTGGATTGA
Statistics
Matches: 75, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
85 7 0.09
86 60 0.80
87 8 0.11
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.35
Consensus pattern (85 bp):
GGTGACATTCTGAGAAATATTTTAAAAAAGGTGACATTCTGGGAAATATTTTGAAAAAGTGACAT
TCTAGGAAATTTTTGAAAAA
Found at i:1535777 original size:23 final size:21
Alignment explanation
Indices: 1535751--1535809 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
1535741 TTCCCCTGTG
1535751 GGGGGGATCGGTTCCCCTTCAAA
1 GGGGGGATCGGTTCCCC-TC-AA
* * *
1535774 GGGGGAATCAGTT-CCCTCAT
1 GGGGGGATCGGTTCCCCTCAA
*
1535794 GGGGGGATCGATTCCC
1 GGGGGGATCGGTTCCC
1535810 TCTGCACCAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
20 11 0.38
21 4 0.14
22 3 0.10
23 11 0.38
ACGTcount: A:0.17, C:0.25, G:0.36, T:0.22
Consensus pattern (21 bp):
GGGGGGATCGGTTCCCCTCAA
Found at i:1536956 original size:24 final size:24
Alignment explanation
Indices: 1536924--1536974 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
1536914 GCTCCCCCAT
1536924 CATGCTCATCTCAAACTCACTTTG
1 CATGCTCATCTCAAACTCACTTTG
1536948 CATGCTCATCTCAAACTCACTTTG
1 CATGCTCATCTCAAACTCACTTTG
1536972 CAT
1 CAT
1536975 TAGCTTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.25, C:0.33, G:0.08, T:0.33
Consensus pattern (24 bp):
CATGCTCATCTCAAACTCACTTTG
Found at i:1544516 original size:29 final size:28
Alignment explanation
Indices: 1544471--1544632 Score: 200
Period size: 29 Copynumber: 5.6 Consensus size: 28
1544461 CGACCTTACC
1544471 GGTGACATTCTGGGAAATATTTTGAAAAA
1 GGTGACATTCT-GGAAATATTTTGAAAAA
*
1544500 GGTGACATTCTGAGAAATATTTTGGAAAA
1 GGTGACATTCTG-GAAATATTTTGAAAAA
*
1544529 CGTGACATTCTAGGAAATATTTTG-AAAA
1 GGTGACATTCT-GGAAATATTTTGAAAAA
*
1544557 GGTGACATCCTGGGAAATATTTTGAAAAA
1 GGTGACATTCT-GGAAATATTTTGAAAAA
* * *
1544586 TGTGACATTATGGAAATTATTTTAAAAAAA
1 GGTGACATTCTGGAAA-TATTTT-GAAAAA
*
1544616 GGTGACATTTTGGAAAT
1 GGTGACATTCTGGAAAT
1544633 TTTCGAATGT
Statistics
Matches: 117, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
28 31 0.26
29 66 0.56
30 20 0.17
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (28 bp):
GGTGACATTCTGGAAATATTTTGAAAAA
Found at i:1544591 original size:57 final size:56
Alignment explanation
Indices: 1544472--1544623 Score: 196
Period size: 57 Copynumber: 2.6 Consensus size: 56
1544462 GACCTTACCG
* *
1544472 GTGACATTCTGGGAAATATTTTGAAAAAGGTGACATTCTGAGAAATATTTTGGAAAAC
1 GTGACATTCT-GGAAATATTTTG-AAAAGGTGACATCCTGAGAAATATTTTGAAAAAC
* *
1544530 GTGACATTCTAGGAAATATTTTGAAAAGGTGACATCCTGGGAAATATTTTGAAAAAT
1 GTGACATTCT-GGAAATATTTTGAAAAGGTGACATCCTGAGAAATATTTTGAAAAAC
* *
1544587 GTGACATTATGGAAATTATTTTAAAAAAAGGTGACAT
1 GTGACATTCTGGAAA-TATTTT--GAAAAGGTGACAT
1544624 TTTGGAAATT
Statistics
Matches: 84, Mismatches: 7, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
56 5 0.06
57 45 0.54
58 22 0.26
59 12 0.14
ACGTcount: A:0.39, C:0.08, G:0.21, T:0.32
Consensus pattern (56 bp):
GTGACATTCTGGAAATATTTTGAAAAGGTGACATCCTGAGAAATATTTTGAAAAAC
Found at i:1544631 original size:86 final size:86
Alignment explanation
Indices: 1544471--1544632 Score: 229
Period size: 86 Copynumber: 1.9 Consensus size: 86
1544461 CGACCTTACC
* * **
1544471 GGTGACATTCTGGGAAATATTTTGAAAAAGGTGACATTCTGAGAAATATTTTGGAAAACGTGACA
1 GGTGACATCCTGGGAAATATTTTGAAAAAGGTGACATTATGAGAAATATTTTAAAAAACGTGACA
1544536 TTCTAGGAAATATTTTGAAAA
66 TTCTAGGAAATATTTTGAAAA
* *
1544557 GGTGACATCCTGGGAAATATTTTGAAAAATGTGACATTATG-GAAATTATTTTAAAAAAAGGTGA
1 GGTGACATCCTGGGAAATATTTTGAAAAAGGTGACATTATGAGAAA-TATTTT-AAAAAACGTGA
*
1544621 CATT-TTGGAAAT
64 CATTCTAGGAAAT
1544633 TTTCGAATGT
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
85 4 0.06
86 51 0.76
87 12 0.18
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (86 bp):
GGTGACATCCTGGGAAATATTTTGAAAAAGGTGACATTATGAGAAATATTTTAAAAAACGTGACA
TTCTAGGAAATATTTTGAAAA
Found at i:1556200 original size:14 final size:14
Alignment explanation
Indices: 1556181--1556215 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1556171 ATTGAAATTA
1556181 ATGGTTTATAAACT
1 ATGGTTTATAAACT
*
1556195 ATGGTTTATGAACT
1 ATGGTTTATAAACT
*
1556209 ATTGTTT
1 ATGGTTT
1556216 CCTGTTTTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.06, G:0.17, T:0.49
Consensus pattern (14 bp):
ATGGTTTATAAACT
Found at i:1569116 original size:29 final size:30
Alignment explanation
Indices: 1569071--1569128 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
1569061 TTATACCCCT
* *
1569071 AAACTTTTACAAATTTATATTTTGGTCACC
1 AAACTTTCACAAATTTATATTTTAGTCACC
1569101 AAACTTTCA-AAATTTATATTTTAGTCAC
1 AAACTTTCACAAATTTATATTTTAGTCAC
1569129 TTGCTAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.69
30 8 0.31
ACGTcount: A:0.36, C:0.16, G:0.05, T:0.43
Consensus pattern (30 bp):
AAACTTTCACAAATTTATATTTTAGTCACC
Done.