Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 38 of 175
Found at i:10472406 original size:6 final size:6
Alignment explanation
Indices: 10472395--10472419 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10472385 GAGGAATTAA
10472395 GGTTAG GGTTAG GGTTAG GGTTAG G
1 GGTTAG GGTTAG GGTTAG GGTTAG G
10472420 AATGGGGGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTTAG
Found at i:10472600 original size:3 final size:3
Alignment explanation
Indices: 10472594--10472636 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
10472584 GGAGAAGAAA
* * *
10472594 TTG TTG TTG TTG TTG CTG TTG TTG TTG TTG TTG CTG TTT TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
10472637 AAGAGAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.05, G:0.30, T:0.65
Consensus pattern (3 bp):
TTG
Found at i:10472654 original size:3 final size:3
Alignment explanation
Indices: 10472646--10472677 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10472636 TAAGAGAAAT
10472646 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
1 TGC TGC TGC TGC TGC TGC TGC TGC TGC TGC TG
10472678 TTGATGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.31, G:0.34, T:0.34
Consensus pattern (3 bp):
TGC
Found at i:10475817 original size:50 final size:50
Alignment explanation
Indices: 10475702--10475939 Score: 199
Period size: 50 Copynumber: 4.7 Consensus size: 50
10475692 ATACCAAAGT
** * ** * **
10475702 CATGTCCCAGACATGGTCTTACATGGGATGTTTTTTGT-ATTGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATGC
* * * * ** *
10475751 TATATCCCAGATATGGTCTTACATTGGAGTTCTCATATCGGTGCCCATGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATGC
*** * *
10475801 CATGTCCCAGACATGGTCTTATGGGGGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATGC
* * *
10475851 CATGTCCCAGACATGGTCTTACATGAGACCTCTCATAACCTCAATGATGCCGATGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GGTGCCAATGC
*
10475907 CATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCT
10475940 TTACCCAAAT
Statistics
Matches: 147, Mismatches: 35, Indels: 7
0.78 0.19 0.04
Matches are distributed among these distances:
49 28 0.19
50 78 0.53
53 2 0.01
56 39 0.27
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGGTGCCAATGC
Found at i:10485925 original size:16 final size:16
Alignment explanation
Indices: 10485904--10485937 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10485894 TTCACAAAAA
10485904 TTACCAATGAGGTAAT
1 TTACCAATGAGGTAAT
* *
10485920 TTACCAGTGGGGTAAT
1 TTACCAATGAGGTAAT
10485936 TT
1 TT
10485938 TATAATTTCT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.35
Consensus pattern (16 bp):
TTACCAATGAGGTAAT
Found at i:10486011 original size:25 final size:26
Alignment explanation
Indices: 10485973--10486024 Score: 79
Period size: 25 Copynumber: 2.0 Consensus size: 26
10485963 AAGTTGTAAG
10485973 TAAAAAAATATCTTTAGA-AATTTTC
1 TAAAAAAATATCTTTAGAGAATTTTC
* *
10485998 TAAAATAATCTCTTTAGAGAATTTTC
1 TAAAAAAATATCTTTAGAGAATTTTC
10486024 T
1 T
10486025 TTCTACAACT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 16 0.67
26 8 0.33
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (26 bp):
TAAAAAAATATCTTTAGAGAATTTTC
Found at i:10486164 original size:16 final size:16
Alignment explanation
Indices: 10486145--10486182 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
10486135 AAATTAATAT
10486145 AATATTTATCAAGATA
1 AATATTTATCAAGATA
10486161 AATATTTATCAAGATA
1 AATATTTATCAAGATA
10486177 AATATT
1 AATATT
10486183 AGATTAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.39
Consensus pattern (16 bp):
AATATTTATCAAGATA
Found at i:10489028 original size:63 final size:62
Alignment explanation
Indices: 10488954--10489074 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 62
10488944 TACCCCTAGA
*
10488954 GAAGGTGTTGATACAAGGAATGATT-ACGTGTGTTATGGTGCTTGTGTAAAATAAACTGATGCT
1 GAAGGTATTGATACAAGGAATGATTAAC--GTGTTATGGTGCTTGTGTAAAATAAACTGATGCT
** * * *
10489017 GAAGGTATTGATGTAGGGAATGATTGAACGTGTTGTGTTGCTTGTGTAAAATAAACTG
1 GAAGGTATTGATACAAGGAATGATT-AACGTGTTATGGTGCTTGTGTAAAATAAACTG
10489075 GGTTAGTACA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
63 48 0.96
65 2 0.04
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.34
Consensus pattern (62 bp):
GAAGGTATTGATACAAGGAATGATTAACGTGTTATGGTGCTTGTGTAAAATAAACTGATGCT
Found at i:10493217 original size:12 final size:12
Alignment explanation
Indices: 10493195--10493223 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10493185 TAAATGTCTT
10493195 TAAAA-TAGTAA
1 TAAAATTAGTAA
10493206 TAAAATTAGTAA
1 TAAAATTAGTAA
10493218 TAAAAT
1 TAAAAT
10493224 AAAAGTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (12 bp):
TAAAATTAGTAA
Found at i:10495784 original size:75 final size:75
Alignment explanation
Indices: 10495640--10495785 Score: 202
Period size: 75 Copynumber: 1.9 Consensus size: 75
10495630 GACAGCATTG
* * *
10495640 AATGTGAGCCCAGCTTTAGTTGGATAAACCAACAATGTTTGCGCCCAACGCTAGTTGGGTATACC
1 AATGTGAGCCCAGCTTTAGTTGGATAAACCAACAATGTTTGCGCCCAACGCTAGTCGGATAAACC
10495705 GATGATAATA
66 GATGATAATA
* ** * * * *
10495715 AATGTGAGCCCAGCTTTAGTTGGATGAACCAACGGTGTTTGTGCTCAGCGCTAGTCGGATAAACT
1 AATGTGAGCCCAGCTTTAGTTGGATAAACCAACAATGTTTGCGCCCAACGCTAGTCGGATAAACC
10495780 GATGAT
66 GATGAT
10495786 TGTGTGCCCA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
75 61 1.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (75 bp):
AATGTGAGCCCAGCTTTAGTTGGATAAACCAACAATGTTTGCGCCCAACGCTAGTCGGATAAACC
GATGATAATA
Found at i:10498819 original size:31 final size:31
Alignment explanation
Indices: 10498740--10498808 Score: 120
Period size: 31 Copynumber: 2.2 Consensus size: 31
10498730 GTTACAAAAT
10498740 AGTCATTAAACTATTCGAAAGTTTTCATTTA
1 AGTCATTAAACTATTCGAAAGTTTTCATTTA
**
10498771 AGTCATTAAACTATTCGAAAGTTTTTGTTTA
1 AGTCATTAAACTATTCGAAAGTTTTCATTTA
10498802 AGTCATT
1 AGTCATT
10498809 GTATTATTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (31 bp):
AGTCATTAAACTATTCGAAAGTTTTCATTTA
Found at i:10499177 original size:43 final size:43
Alignment explanation
Indices: 10499032--10499371 Score: 309
Period size: 43 Copynumber: 8.0 Consensus size: 43
10499022 TTTCTCACGT
** * * * *
10499032 AAACGCCGCTAAAGAACATGATCTTTAGCAGCAC-TTTACCA-C
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTA-TAGC
* ** *
10499074 AAACGCCGCTAAAGATCATGACCTTTAGCGGCG--TTTAAAG-
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGC
*
10499114 ATAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAAG-
1 A-AA-CGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTAT-AGC
* * * *
10499159 AAACACCGCTAAATGTCATGTTTTTTAGCGACGCTTTTATAAG-
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTAT-AGC
* * * * *
10499202 AAAAGCCGTTAAAAGACATGTTCTTTAGCAGCGCTTTTATAGC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGC
* * *
10499245 AAACGCCGCTAAAGGTCATGTTCTTTAGCGACAC-TTTCTAGC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGC
* * * * *
10499287 AAACGCCGTTAAAGGCCATCTTCTTTAGCGGCGCCTTTATAGA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGC
* *
10499330 AAACGCCACTAAAGGTCATGTTCTTCAGCGGCGCTTTTATAG
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAG
10499372 AAAAGGCCAC
Statistics
Matches: 246, Mismatches: 44, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
40 2 0.01
41 6 0.02
42 93 0.38
43 136 0.55
44 6 0.02
45 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGC
Found at i:10499238 original size:86 final size:85
Alignment explanation
Indices: 10499074--10499376 Score: 317
Period size: 85 Copynumber: 3.6 Consensus size: 85
10499064 ACTTTACCAC
* ** * * * * * *
10499074 AAACGCCGCTAAAGATCATGACCTTTAGCG--GCGTTTAAAGATAAGTGCCGCTAAAGGTCATGT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGACGCTTTTATAGA-AA-AGCCGTTAAAAGACATGT
10499137 TCTTTAGCGGCGCTTTTATA-A
64 TCTTTAGCGGCGCTTTTATAGA
* * *
10499158 GAAACACCGCTAAATGTCATGTTTTTTAGCGACGCTTTTATAAGAAAAGCCGTTAAAAGACATGT
1 -AAACGCCGCTAAAGGTCATGTTCTTTAGCGACGCTTTTAT-AGAAAAGCCGTTAAAAGACATGT
* *
10499223 TCTTTAGCAGCGCTTTTATAGC
64 TCTTTAGCGGCGCTTTTATAGA
* * * * * *
10499245 AAACGCCGCTAAAGGTCATGTTCTTTAGCGACAC-TTTCTAGCAAACGCCGTTAAAGGCCATCTT
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGACGCTTTTATAG-AAAAGCCGTTAAAAGACATGTT
*
10499309 CTTTAGCGGCGCCTTTATAGA
65 CTTTAGCGGCGCTTTTATAGA
* * *
10499330 AAACGCCACTAAAGGTCATGTTCTTCAGCGGCGCTTTTATAGAAAAG
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGACGCTTTTATAGAAAAG
10499377 GCCACTAACT
Statistics
Matches: 180, Mismatches: 32, Indels: 12
0.80 0.14 0.05
Matches are distributed among these distances:
84 2 0.01
85 98 0.54
86 69 0.38
87 8 0.04
88 3 0.02
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.29
Consensus pattern (85 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGACGCTTTTATAGAAAAGCCGTTAAAAGACATGTTC
TTTAGCGGCGCTTTTATAGA
Found at i:10499372 original size:43 final size:43
Alignment explanation
Indices: 10499074--10499384 Score: 317
Period size: 43 Copynumber: 7.3 Consensus size: 43
10499064 ACTTTACCAC
* ** *
10499074 AAACGCCGCTAAAGATCATGACCTTTAGCGGCG--TTTAAAGA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
**
10499115 TAAGTGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATA-A
1 -AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
* * * *
10499158 GAAACACCGCTAAATGTCATGTTTTTTAGCGACGCTTTTATAAGA
1 -AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTAT-AGA
* * * * *
10499203 AAA-GCCGTTAAAAGACATGTTCTTTAGCAGCGCTTTTATAGC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
* * * *
10499245 AAACGCCGCTAAAGGTCATGTTCTTTAGCGACAC-TTTCTAGC
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
* * * *
10499287 AAACGCCGTTAAAGGCCATCTTCTTTAGCGGCGCCTTTATAGA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
* *
10499330 AAACGCCACTAAAGGTCATGTTCTTCAGCGGCGCTTTTATAGA
1 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
* *
10499373 AAAGGCCACTAA
1 AAACGCCGCTAA
10499385 CTTTGGCAGA
Statistics
Matches: 221, Mismatches: 42, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
42 69 0.31
43 142 0.64
44 9 0.04
45 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTTTATAGA
Found at i:10499705 original size:21 final size:21
Alignment explanation
Indices: 10499660--10499705 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
10499650 ACTCTGCTTT
*
10499660 GCTTCCCTCGCTACTGCCTCT
1 GCTTCCCTCGCTACTGCCTCA
**
10499681 GCTTCCCTCGCTGTTGCCTCA
1 GCTTCCCTCGCTACTGCCTCA
10499702 GCTT
1 GCTT
10499706 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.04, C:0.43, G:0.17, T:0.35
Consensus pattern (21 bp):
GCTTCCCTCGCTACTGCCTCA
Found at i:10505173 original size:47 final size:47
Alignment explanation
Indices: 10505119--10505285 Score: 298
Period size: 47 Copynumber: 3.6 Consensus size: 47
10505109 CAAGCTATGG
*
10505119 AAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATT
1 AAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATT
*
10505166 AAGTTATGTGAGTTATGTAAATTATGGTATGATATATATAAGTTATT
1 AAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATT
10505213 AAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATT
1 AAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATT
* *
10505260 AAGTTATGTAAGTTATGTGAGTTATG
1 AAGTTATGTGAGTTATGTAAGTTATG
10505286 TAAATTATGA
Statistics
Matches: 115, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 115 1.00
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (47 bp):
AAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATT
Found at i:10505190 original size:9 final size:9
Alignment explanation
Indices: 10505066--10505346 Score: 152
Period size: 9 Copynumber: 31.0 Consensus size: 9
10505056 TAAGTATAAT
10505066 TAAGTTATG
1 TAAGTTATG
*
10505075 TAACTTATG
1 TAAGTTATG
* * *
10505084 ATATGATATA
1 -TAAGTTATG
*
10505094 T-ATTTATG
1 TAAGTTATG
10505102 T-A-TTATG
1 TAAGTTATG
* *
10505109 CAAGCTATG
1 TAAGTTATG
*
10505118 GAAGTTATG
1 TAAGTTATG
*
10505127 TGAGTTATG
1 TAAGTTATG
10505136 TAAGTTATG
1 TAAGTTATG
* *
10505145 ATATGATATATA
1 -TAAG-T-TATG
10505157 TAAGTTAT-
1 TAAGTTATG
10505165 TAAGTTATG
1 TAAGTTATG
*
10505174 TGAGTTATG
1 TAAGTTATG
*
10505183 TAAATTATGG
1 TAAGTTAT-G
* *
10505193 TATGATATATA
1 TAAG-T-TATG
10505204 TAAGTTAT-
1 TAAGTTATG
10505212 TAAGTTATG
1 TAAGTTATG
*
10505221 TGAGTTATG
1 TAAGTTATG
10505230 TAAGTTATGG
1 TAAGTTAT-G
* *
10505240 TATGATATATA
1 TAAG-T-TATG
10505251 TAAGTTAT-
1 TAAGTTATG
10505259 TAAGTTATG
1 TAAGTTATG
10505268 TAAGTTATG
1 TAAGTTATG
*
10505277 TGAGTTATG
1 TAAGTTATG
*
10505286 TAAATTATG
1 TAAGTTATG
* *
10505295 ATATGATATATA
1 -TAAG-T-TATG
10505307 TAAGTTA-G
1 TAAGTTATG
10505315 TAAG---T-
1 TAAGTTATG
10505320 TAAGTTATG
1 TAAGTTATG
* *
10505329 TGAGTTATT
1 TAAGTTATG
10505338 TAAGTTATG
1 TAAGTTATG
10505347 GTATGAGTGA
Statistics
Matches: 206, Mismatches: 43, Indels: 46
0.70 0.15 0.16
Matches are distributed among these distances:
5 4 0.02
7 5 0.02
8 35 0.17
9 113 0.55
10 21 0.10
11 16 0.08
12 12 0.06
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:10505191 original size:56 final size:56
Alignment explanation
Indices: 10505068--10505352 Score: 256
Period size: 56 Copynumber: 5.4 Consensus size: 56
10505058 AGTATAATTA
* * * *
10505068 AGTTATGTAACTTATGATATGATATATATTTATGTATTATGCAAGCTATG-GAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATA--TAAG--TTAT-TAAGTTATGTG-AGTTATGTG
10505129 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTA--T-
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTATGTG
*
10505182 -G-TA---AA-TTATGGTATGATATATATAAGTTATT-A--------AGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTATGTG
* *
10505223 AGTTATGTAAGTTATGGTATGATATATATAAGTTATTAAGTTATGTAAGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTATGTG
* *
10505279 AGTTATGTAAATTATGATATGATATATATAAGTTAGTAAGTTA----AGTTATGTG
1 AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTATGTG
* *
10505331 AGTTATTTAAGTTATGGTATGA
1 AGTTATGTAAGTTATGATATGA
10505353 GTGAAACAAA
Statistics
Matches: 194, Mismatches: 11, Indels: 47
0.77 0.04 0.19
Matches are distributed among these distances:
38 5 0.03
40 1 0.01
42 1 0.01
43 2 0.01
46 3 0.02
47 51 0.26
48 3 0.02
51 2 0.01
52 29 0.15
54 1 0.01
56 61 0.31
57 5 0.03
59 3 0.02
61 27 0.14
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.44
Consensus pattern (56 bp):
AGTTATGTAAGTTATGATATGATATATATAAGTTATTAAGTTATGTGAGTTATGTG
Found at i:10505229 original size:94 final size:102
Alignment explanation
Indices: 10505119--10505352 Score: 322
Period size: 103 Copynumber: 2.3 Consensus size: 102
10505109 CAAGCTATGG
10505119 AAGTTATGTGAGTTATGTAAGTTATGATATGATAT-A-TA-TAAGTTAT-TAAGTTATGTGAGTT
1 AAGTTATGTGAGTTATGTAAGTTATGATATGATATAAGTATTAAGTTATGTAAGTTATGTGAGTT
*
10505180 ATGTAAATTATGGTATGATATATATAAG-T-T-A-TT
66 ATGTAAATTATGATATGATATATATAAGTTATAAGTT
*
10505213 AAGTTATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTATTAAGTTATGTAAGTTATGT
1 AAGTTATGTGAGTTATGTAAGTTAT-G-AT-AT-GATATAAG-TATTAAGTTATGTAAGTTATGT
10505278 GAGTTATGTAAATTATGATATGATATATATAAGTTAGTAAGTT
61 GAGTTATGTAAATTATGATATGATATATATAAGTTA-TAAGTT
* *
10505321 AAGTTATGTGAGTTATTTAAGTTATGGTATGA
1 AAGTTATGTGAGTTATGTAAGTTATGATATGA
10505353 GTGAAACAAA
Statistics
Matches: 121, Mismatches: 5, Indels: 18
0.84 0.03 0.12
Matches are distributed among these distances:
94 25 0.21
95 1 0.01
96 2 0.02
97 2 0.02
98 4 0.03
99 1 0.01
101 2 0.02
102 8 0.07
103 42 0.35
104 2 0.02
105 2 0.02
106 2 0.02
107 2 0.02
108 26 0.21
ACGTcount: A:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (102 bp):
AAGTTATGTGAGTTATGTAAGTTATGATATGATATAAGTATTAAGTTATGTAAGTTATGTGAGTT
ATGTAAATTATGATATGATATATATAAGTTATAAGTT
Found at i:10505279 original size:103 final size:106
Alignment explanation
Indices: 10505157--10505352 Score: 328
Period size: 103 Copynumber: 1.9 Consensus size: 106
10505147 ATGATATATA
*
10505157 TAAGTTATTAAGTTATGTGAGTTATGTAAATTATGGTATGATATATATAAG-T-T-A-TTAAGTT
1 TAAGTTATTAAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTATAAGTTAAGTT
10505218 ATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTAT
66 ATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTAT
10505259 TAAGTTATGTAAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGTAAGTTAAG
1 TAAGTTAT-TAAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTA-TAAGTTAAG
*
10505324 TTATGTGAGTTATTTAAGTTATGGTATGA
64 TTATGTGAGTTATGTAAGTTATGGTATGA
10505353 GTGAAACAAA
Statistics
Matches: 86, Mismatches: 2, Indels: 6
0.91 0.02 0.06
Matches are distributed among these distances:
102 8 0.09
103 42 0.49
104 1 0.01
106 1 0.01
107 1 0.01
108 33 0.38
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.44
Consensus pattern (106 bp):
TAAGTTATTAAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTATAAGTTAAGTT
ATGTGAGTTATGTAAGTTATGGTATGATATATATAAGTTAT
Found at i:10505318 original size:47 final size:47
Alignment explanation
Indices: 10505119--10505321 Score: 273
Period size: 47 Copynumber: 4.1 Consensus size: 47
10505109 CAAGCTATGG
* *
10505119 AAGTTATGTGAGTTATGTAAGTTATGATATGATATATATAAGTTATT
1 AAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGT
* *
10505166 AAGTTATGTGAGTTATGTAAATTATGGTATGATATATATAAGTTATT
1 AAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGT
10505213 AAGTTATGTGAGTTATGTAAGTTATGGTATGATAT-ATATAAGTTATTAAGTTATGT
1 AAGTTATGTGAGTTATGTAA---AT--TATGATATGATAT-A--TA-TAAGTTA-GT
10505269 AAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGT
1 AAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGT
10505316 AAGTTA
1 AAGTTA
10505322 AGTTATGTGA
Statistics
Matches: 141, Mismatches: 4, Indels: 22
0.84 0.02 0.13
Matches are distributed among these distances:
47 73 0.52
48 7 0.05
49 2 0.01
50 2 0.01
51 13 0.09
52 12 0.09
53 2 0.01
54 2 0.01
55 7 0.05
56 21 0.15
ACGTcount: A:0.36, C:0.00, G:0.20, T:0.44
Consensus pattern (47 bp):
AAGTTATGTGAGTTATGTAAATTATGATATGATATATATAAGTTAGT
Found at i:10507041 original size:29 final size:26
Alignment explanation
Indices: 10506980--10507041 Score: 61
Period size: 29 Copynumber: 2.3 Consensus size: 26
10506970 AATAAAAGCT
10506980 CTTTTTTTTAAATTACCGAAATGGGC
1 CTTTTTTTTAAATTACCGAAATGGGC
** * *
10507006 CCATTTTTTAATTATTTACCGGAATGGTC
1 CTTTTTTTTAA--A-TTACCGAAATGGGC
10507035 CTTTTTT
1 CTTTTTT
10507042 CCGGGAAATC
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
26 9 0.33
28 1 0.04
29 17 0.63
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (26 bp):
CTTTTTTTTAAATTACCGAAATGGGC
Found at i:10515286 original size:28 final size:28
Alignment explanation
Indices: 10515243--10515299 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
10515233 AACTAATGAA
* *
10515243 TGTGGTAAATTGCTCATTTGAGAACAAC
1 TGTGGTAAATTACTCATTCGAGAACAAC
*
10515271 TGTGGTAAATTACTCATTCGAGAATAAC
1 TGTGGTAAATTACTCATTCGAGAACAAC
10515299 T
1 T
10515300 AACCCATGAC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.33
Consensus pattern (28 bp):
TGTGGTAAATTACTCATTCGAGAACAAC
Found at i:10519173 original size:34 final size:32
Alignment explanation
Indices: 10519135--10519206 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
10519125 CCCTGGTAAA
*
10519135 ATTTTGAGAAAATATGATCGAATGATTTATTTTC
1 ATTTTGA-AAAA-ATGATCAAATGATTTATTTTC
** *
10519169 ATTTTGATCAAATGGTCAAATGATTTATTTTC
1 ATTTTGAAAAAATGATCAAATGATTTATTTTC
10519201 ATTTTG
1 ATTTTG
10519207 GGCTTTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 25 0.74
33 2 0.06
34 7 0.21
ACGTcount: A:0.32, C:0.07, G:0.14, T:0.47
Consensus pattern (32 bp):
ATTTTGAAAAAATGATCAAATGATTTATTTTC
Found at i:10519308 original size:19 final size:18
Alignment explanation
Indices: 10519284--10519319 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
10519274 ACAAATGAAT
10519284 CATTTCTCATTTCCATTTC
1 CATTTCT-ATTTCCATTTC
*
10519303 CATTTCTATTTCTATTT
1 CATTTCTATTTCCATTT
10519320 TGAGAAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.17, C:0.25, G:0.00, T:0.58
Consensus pattern (18 bp):
CATTTCTATTTCCATTTC
Found at i:10520590 original size:16 final size:15
Alignment explanation
Indices: 10520549--10520590 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
10520539 CACTTTTTGG
10520549 GTTTTATTTT-AATA
1 GTTTTATTTTAAATA
*
10520563 GTTTAGATTTTAAATTA
1 GTTT-TATTTTAAA-TA
10520580 GTTTTATTTTA
1 GTTTTATTTTA
10520591 TTTACAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 4 0.17
15 5 0.22
16 8 0.35
17 6 0.26
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.62
Consensus pattern (15 bp):
GTTTTATTTTAAATA
Found at i:10523677 original size:43 final size:43
Alignment explanation
Indices: 10523615--10523701 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
10523605 AGAGATTGAC
10523615 TTTTTCAACTATTACGATTTAGTCCTTTTTGCTTAATTAACTA
1 TTTTTCAACTATTACGATTTAGTCCTTTTTGCTTAATTAACTA
*
10523658 TTTTTCAACTATTATGATTTAGTCCTTTTTGCTTAATTAACTA
1 TTTTTCAACTATTACGATTTAGTCCTTTTTGCTTAATTAACTA
10523701 T
1 T
10523702 CTAAACATTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.25, C:0.15, G:0.07, T:0.53
Consensus pattern (43 bp):
TTTTTCAACTATTACGATTTAGTCCTTTTTGCTTAATTAACTA
Found at i:10525556 original size:16 final size:16
Alignment explanation
Indices: 10525535--10525578 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
10525525 AAAGGCTTTT
10525535 TTTTAATTTGTTTTAA
1 TTTTAATTTGTTTTAA
10525551 TTTTAATTT-TCTTTAA
1 TTTTAATTTGT-TTTAA
*
10525567 TTTTCATTTGTT
1 TTTTAATTTGTT
10525579 CATTTTCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (16 bp):
TTTTAATTTGTTTTAA
Found at i:10528600 original size:29 final size:29
Alignment explanation
Indices: 10528556--10528778 Score: 218
Period size: 29 Copynumber: 7.7 Consensus size: 29
10528546 TCAATTTTCA
* * *
10528556 TATAAAAAAGCATTTGTGATGATCTCTGT
1 TATAAAGAAGCCTTTGTGGTGATCTCTGT
*
10528585 TATAAAGAAGCCTTTGTGGCGATCTCTGT
1 TATAAAGAAGCCTTTGTGGTGATCTCTGT
*
10528614 TATAATGAAGCCTTTGTGGTGATCTCTGT
1 TATAAAGAAGCCTTTGTGGTGATCTCTGT
* * *
10528643 TAT-AAGAAAGCCTTTGTAGTGAT-TATTAT
1 TATAAAG-AAGCCTTTGTGGTGATCT-CTGT
* * *
10528672 TATAAAGGAGCCTTTATGGTGATCTCTAT
1 TATAAAGAAGCCTTTGTGGTGATCTCTGT
* * * ** *
10528701 CATAAGGAAGCCTTTCTAATGATCTCTAT
1 TATAAAGAAGCCTTTGTGGTGATCTCTGT
* *
10528730 TAT-AAGAAAGCCTTTATGGCGATCTCTGT
1 TATAAAG-AAGCCTTTGTGGTGATCTCTGT
*
10528759 TATAAGGAAGCCTTTGTGGT
1 TATAAAGAAGCCTTTGTGGT
10528779 TGTTTTTGTT
Statistics
Matches: 158, Mismatches: 30, Indels: 12
0.79 0.15 0.06
Matches are distributed among these distances:
28 5 0.03
29 147 0.93
30 6 0.04
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (29 bp):
TATAAAGAAGCCTTTGTGGTGATCTCTGT
Found at i:10535399 original size:36 final size:36
Alignment explanation
Indices: 10535342--10535415 Score: 96
Period size: 36 Copynumber: 2.1 Consensus size: 36
10535332 GGAGGAGCAC
*
10535342 ATCAGTCAGAATAGATTCGAAAGCCTACTGAACTGA
1 ATCAGTCAAAATAGATTCGAAAGCCTACTGAACTGA
* * *
10535378 ATCAGTCAAAATA-TTTCCGAAAGGCTGCTGAACTGA
1 ATCAGTCAAAATAGATT-CGAAAGCCTACTGAACTGA
10535414 AT
1 AT
10535416 AGAGTTTGAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 2 0.06
36 31 0.94
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (36 bp):
ATCAGTCAAAATAGATTCGAAAGCCTACTGAACTGA
Found at i:10535427 original size:16 final size:16
Alignment explanation
Indices: 10535406--10535438 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10535396 GAAAGGCTGC
10535406 TGAACTGAATAGAGTT
1 TGAACTGAATAGAGTT
10535422 TGAACTGAATAGAGTT
1 TGAACTGAATAGAGTT
10535438 T
1 T
10535439 ACTCTTTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (16 bp):
TGAACTGAATAGAGTT
Found at i:10542070 original size:6 final size:6
Alignment explanation
Indices: 10542005--10542090 Score: 50
Period size: 6 Copynumber: 14.2 Consensus size: 6
10541995 AAACTTCTAA
* * * * * *
10542005 TTAATT TTAAACTT TTATTT TTAGTT TTAGTT TTATTT TTCATT TTTATCT
1 TTAATT TT-AA-TT TTAATT TTAATT TTAATT TTAATT TTAATT TTAAT-T
***
10542056 TTGCCT TTAATT TTAA-T TT-ATT TTAATT TTAATT T
1 TTAATT TTAATT TTAATT TTAATT TTAATT TTAATT T
10542091 GTTTATATTT
Statistics
Matches: 63, Mismatches: 12, Indels: 10
0.74 0.14 0.12
Matches are distributed among these distances:
4 1 0.02
5 6 0.10
6 46 0.73
7 6 0.10
8 4 0.06
ACGTcount: A:0.23, C:0.06, G:0.03, T:0.67
Consensus pattern (6 bp):
TTAATT
Found at i:10561969 original size:5 final size:5
Alignment explanation
Indices: 10561959--10561983 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
10561949 CTAAATTAGG
10561959 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
10561984 AAAATAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:10565167 original size:20 final size:20
Alignment explanation
Indices: 10565142--10565195 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
10565132 AAAAATCAAT
*
10565142 AGTATCGATACCTTTTATAA
1 AGTATCGATACCTTTTACAA
* *
10565162 AGTATCGGTACTTTTTACAA
1 AGTATCGATACCTTTTACAA
*
10565182 AGTATTGATACCTT
1 AGTATCGATACCTT
10565196 ACTCCTGTAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (20 bp):
AGTATCGATACCTTTTACAA
Found at i:10567200 original size:24 final size:24
Alignment explanation
Indices: 10567156--10567201 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
10567146 AGTTCATACA
*
10567156 TTTAAATAGCATTTTAAATTATGT
1 TTTAAATAGCATTATAAATTATGT
*
10567180 TTTAAAT-GCTATTATATATTAT
1 TTTAAATAGC-ATTATAAATTAT
10567202 CAAATTATGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 2 0.11
24 17 0.89
ACGTcount: A:0.37, C:0.04, G:0.07, T:0.52
Consensus pattern (24 bp):
TTTAAATAGCATTATAAATTATGT
Found at i:10567290 original size:30 final size:30
Alignment explanation
Indices: 10567254--10567593 Score: 263
Period size: 30 Copynumber: 11.4 Consensus size: 30
10567244 TCACTGGCCA
*
10567254 ATGAAAAGGGATAGCTTCAGCTATCGAATC
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
*
10567284 ATGAAAAGGGATAGCTT-AGACTATCAAATT
1 ATGAAAAGGGATAGCTTCAG-CTATCGAATT
* * *
10567314 ATGAAAATGGATAGTTTCGGCTATCGAATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
* *
10567344 ATGAAAAGGGATTGCTTCGGCTAT-GAAATT
1 ATGAAAAGGGATAGCTTCAGCTATCG-AATT
* * *
10567374 ATGAAAAGGGAT-G-GTGACGACCATCGAATT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAATT
*
10567404 ATGAAAAGGGATAGCTTCAGCTATCGAAAT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
* * * *
10567434 ATGAAAAGGGAT-G-GTGACGACCATC-AACT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAATT
* * * *
10567463 ATGAAAAGGGAT-G-GTGACGACCATC-AACT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAATT
* * * * **
10567492 ATGAATAGGGAT-G-GTGATGACCATTAAATT
1 ATGAAAAGGGATAGCTTCA-G-CTATCGAATT
**
10567522 ATGAAAAGGGATAGCTTTGGCTATCGAATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
10567552 ATGAAAAGGGATAGCTTCAGCTATCGAATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
10567582 ATGAAAAGGGAT
1 ATGAAAAGGGAT
10567594 GCTGACAACA
Statistics
Matches: 263, Mismatches: 34, Indels: 26
0.81 0.11 0.08
Matches are distributed among these distances:
28 3 0.01
29 61 0.23
30 190 0.72
31 6 0.02
32 3 0.01
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAATT
Found at i:10567348 original size:60 final size:60
Alignment explanation
Indices: 10567254--10567593 Score: 291
Period size: 60 Copynumber: 5.7 Consensus size: 60
10567244 TCACTGGCCA
* * *
10567254 ATGAAAAGGGATAGCTTC-AGCTATCGAATCATGAAAAGGGATAGCTTAGACTATCAAATT
1 ATGAAAAGGGATAGTTTCGA-CCATCGAATTATGAAAAGGGATAGCTTAGACTATCAAATT
* * * * * * *
10567314 ATGAAAATGGATAGTTTCGGCTATCGAATTATGAAAAGGGATTGCTTCGGCTATGAAATT
1 ATGAAAAGGGATAGTTTCGACCATCGAATTATGAAAAGGGATAGCTTAGACTATCAAATT
* **
10567374 ATGAAAAGGGATGGTGACGACCATCGAATTATGAAAAGGGATAGCTTCAG-CTATCGAAA-T
1 ATGAAAAGGGATAGTTTCGACCATCGAATTATGAAAAGGGATAGCTT-AGACTATC-AAATT
* ** * * * * *
10567434 ATGAAAAGGGATGGTGACGACCATC-AACTATGAAAAGGGAT-GGTGACGACCATC-AACT
1 ATGAAAAGGGATAGTTTCGACCATCGAATTATGAAAAGGGATAGCTTA-GACTATCAAATT
* * * ** * * *
10567492 ATGAATAGGGATGGTGAT-GACCATTAAATTATGAAAAGGGATAGCTTTGGCTATCGAATT
1 ATGAAAAGGGATAGT-TTCGACCATCGAATTATGAAAAGGGATAGCTTAGACTATCAAATT
* *
10567552 ATGAAAAGGGATAGCTTC-AGCTATCGAATTATGAAAAGGGAT
1 ATGAAAAGGGATAGTTTCGA-CCATCGAATTATGAAAAGGGAT
10567594 GCTGACAACA
Statistics
Matches: 229, Mismatches: 39, Indels: 24
0.78 0.13 0.08
Matches are distributed among these distances:
57 3 0.01
58 24 0.10
59 41 0.18
60 157 0.69
61 4 0.02
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (60 bp):
ATGAAAAGGGATAGTTTCGACCATCGAATTATGAAAAGGGATAGCTTAGACTATCAAATT
Found at i:10567407 original size:90 final size:89
Alignment explanation
Indices: 10567254--10567563 Score: 315
Period size: 90 Copynumber: 3.5 Consensus size: 89
10567244 TCACTGGCCA
* * * * *
10567254 ATGAAAAGGGATAGCTTCAGCTATCGAATCATGAAAAGGGATAGCTTA-GACTATCAAATTATGA
1 ATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGAT-GGTGACGACCATC-AATTATGA
*
10567318 AAATGGATAGTTTCGGCTATCGAATT
64 AAAGGGATAGTTTCGGCTATCGAATT
*
10567344 ATGAAAAGGGATTGCTTCGGCTAT-GAAATTATGAAAAGGGATGGTGACGACCATCGAATTATGA
1 ATGAAAAGGGATAGCTTCGGCTATCG-AATTATGAAAAGGGATGGTGACGACCATC-AATTATGA
* * *
10567408 AAAGGGATAGCTTCAGCTATCGAAAT
64 AAAGGGATAGTTTCGGCTATCGAATT
* * * * * *
10567434 ATGAAAAGGGAT-GGTGACGACCATC-AACTATGAAAAGGGATGGTGACGACCATCAACTATGAA
1 ATGAAAAGGGATAGCT-TCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCAATTATGAA
* * * * * **
10567497 TAGGGATGGTGAT-GACCATTAAATT
65 AAGGGATAGT-TTCGGCTATCGAATT
*
10567522 ATGAAAAGGGATAGCTTTGGCTATCGAATTATGAAAAGGGAT
1 ATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGAT
10567564 AGCTTCAGCT
Statistics
Matches: 180, Mismatches: 33, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
88 38 0.21
89 52 0.29
90 90 0.50
ACGTcount: A:0.37, C:0.12, G:0.26, T:0.25
Consensus pattern (89 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAATTATGAAAAGGGATGGTGACGACCATCAATTATGAAA
AGGGATAGTTTCGGCTATCGAATT
Found at i:10567474 original size:29 final size:29
Alignment explanation
Indices: 10567373--10567533 Score: 182
Period size: 29 Copynumber: 5.4 Consensus size: 29
10567363 GCTATGAAAT
*
10567373 TATGAAAAGGGATGGTGACGACCATCGAAT
1 TATGAAAAGGGATGGTGACGACCATC-AAC
* * * *
10567403 TATGAAAAGGGATAGCT-TC-AGCTATCGAAA
1 TATGAAAAGGGAT-GGTGACGA-CCATC-AAC
10567433 TATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
10567462 TATGAAAAGGGATGGTGACGACCATCAAC
1 TATGAAAAGGGATGGTGACGACCATCAAC
* * * *
10567491 TATGAATAGGGATGGTGATGACCATTAAAT
1 TATGAAAAGGGATGGTGACGACCA-TCAAC
10567521 TATGAAAAGGGAT
1 TATGAAAAGGGAT
10567534 AGCTTTGGCT
Statistics
Matches: 113, Mismatches: 13, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
29 56 0.50
30 54 0.48
31 3 0.03
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (29 bp):
TATGAAAAGGGATGGTGACGACCATCAAC
Found at i:10575718 original size:18 final size:18
Alignment explanation
Indices: 10575695--10575733 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
10575685 AGCTCCTTAA
10575695 TATTAAAGTTGCCAAATT
1 TATTAAAGTTGCCAAATT
10575713 TATTAAAGTTGCCAAATT
1 TATTAAAGTTGCCAAATT
10575731 TAT
1 TAT
10575734 CTGTCTGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (18 bp):
TATTAAAGTTGCCAAATT
Found at i:10577667 original size:25 final size:25
Alignment explanation
Indices: 10577639--10577688 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
10577629 CAGATACATG
*
10577639 GAGCTTATGCTTCTTACATTTCTAA
1 GAGCTTATGCATCTTACATTTCTAA
10577664 GAGCTTATGCATCTTACATTTCTAA
1 GAGCTTATGCATCTTACATTTCTAA
10577689 TTAACTGTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.20, G:0.12, T:0.42
Consensus pattern (25 bp):
GAGCTTATGCATCTTACATTTCTAA
Found at i:10583716 original size:17 final size:17
Alignment explanation
Indices: 10583694--10583756 Score: 65
Period size: 17 Copynumber: 3.5 Consensus size: 17
10583684 ATTGAATCAC
10583694 TACATAATTAAAAATAT
1 TACATAATTAAAAATAT
*
10583711 TACATAAGCCTT-TAAATCAT
1 TACATAA---TTAAAAAT-AT
*
10583731 TACATAATTAAAAACAT
1 TACATAATTAAAAATAT
10583748 TACATAATT
1 TACATAATT
10583757 CTTGAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
17 20 0.53
18 3 0.08
19 4 0.11
20 11 0.29
ACGTcount: A:0.51, C:0.13, G:0.02, T:0.35
Consensus pattern (17 bp):
TACATAATTAAAAATAT
Found at i:10583965 original size:39 final size:39
Alignment explanation
Indices: 10583883--10583999 Score: 191
Period size: 39 Copynumber: 3.0 Consensus size: 39
10583873 ACTTAAGAGT
* * *
10583883 TAGACTTTAGTTATATTTTTATTGGGTT-GGTAATTAGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
10583921 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
*
10583960 TAGACTTTAGTTTTAGTTTTATTGGGTTGAGTAATTGGG
1 TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
10583999 T
1 T
10584000 TGGGTTGGTA
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
38 26 0.35
39 48 0.65
ACGTcount: A:0.21, C:0.03, G:0.27, T:0.50
Consensus pattern (39 bp):
TAGACTTTAGTTTTAGTTTTATTGGGTTGGGTAATTGGG
Found at i:10584012 original size:17 final size:18
Alignment explanation
Indices: 10583981--10584019 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
10583971 TTTAGTTTTA
10583981 TTGGGTTGAGTAATTGGG
1 TTGGGTTGAGTAATTGGG
10583999 TTGGGTTG-GTAATTGGG
1 TTGGGTTGAGTAATTGGG
10584016 TTGG
1 TTGG
10584020 CTAAGTGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.13, C:0.00, G:0.46, T:0.41
Consensus pattern (18 bp):
TTGGGTTGAGTAATTGGG
Found at i:10584016 original size:12 final size:13
Alignment explanation
Indices: 10583999--10584032 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
10583989 AGTAATTGGG
10583999 TTGGGTTGG-TAA
1 TTGGGTTGGCTAA
10584011 TTGGGTTGGCTAA
1 TTGGGTTGGCTAA
*
10584024 GTGGGTTGG
1 TTGGGTTGG
10584033 GTTGGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.12, C:0.03, G:0.47, T:0.38
Consensus pattern (13 bp):
TTGGGTTGGCTAA
Found at i:10584016 original size:30 final size:31
Alignment explanation
Indices: 10583980--10584043 Score: 96
Period size: 30 Copynumber: 2.1 Consensus size: 31
10583970 TTTTAGTTTT
*
10583980 ATTGGGTTGAG-TAATTGGGTTGGGTTGG-TA
1 ATTGGGTTG-GCTAAGTGGGTTGGGTTGGATA
10584010 ATTGGGTTGGCTAAGTGGGTTGGGTTGGATA
1 ATTGGGTTGGCTAAGTGGGTTGGGTTGGATA
10584041 ATT
1 ATT
10584044 TTATTTATTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
29 1 0.03
30 25 0.81
31 5 0.16
ACGTcount: A:0.17, C:0.02, G:0.42, T:0.39
Consensus pattern (31 bp):
ATTGGGTTGGCTAAGTGGGTTGGGTTGGATA
Found at i:10591858 original size:17 final size:18
Alignment explanation
Indices: 10591838--10591871 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10591828 TATATTATAT
10591838 ATGTATATATA-ATCAAA
1 ATGTATATATATATCAAA
10591855 ATGTATATATATATCAA
1 ATGTATATATATATCAA
10591872 CTAAGCCATG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.38
Consensus pattern (18 bp):
ATGTATATATATATCAAA
Found at i:10593770 original size:67 final size:68
Alignment explanation
Indices: 10593691--10593956 Score: 378
Period size: 67 Copynumber: 4.0 Consensus size: 68
10593681 TTTTTTCATA
* * *
10593691 GGAATTGTGCCA-TTAACTTTTTATTCACAAGCCTCACAAAAGTGTCATTTTCTCATGGGAATTG
1 GGAATTGTGCCATTTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
10593755 TTG
66 TTG
* * *
10593758 GGAATTGTGCCATTTAACTTTTTATTGACAAGCCTCACAATAGTGCCA-TTTTTCATGGGAATTA
1 GGAATTGTGCCATTTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
10593822 TTG
66 TTG
* * *
10593825 AGAATTATGGCA-TTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
1 GGAATTGTGCCATTTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
10593889 TTG
66 TTG
* * * * *
10593892 GAAATTGTGCCATTTAAC-TTTTATTGAAAAGCCTCACAAGAGTGTCATTTTTTTATGGGAATTG
1 GGAATTGTGCCATTTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
10593956 T
66 T
10593957 ACCATTAACT
Statistics
Matches: 177, Mismatches: 19, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
66 33 0.19
67 107 0.60
68 37 0.21
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (68 bp):
GGAATTGTGCCATTTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTG
TTG
Found at i:10593944 original size:134 final size:134
Alignment explanation
Indices: 10593692--10593954 Score: 420
Period size: 134 Copynumber: 2.0 Consensus size: 134
10593682 TTTTTCATAG
* *
10593692 GAATTGTGCCATTAACTTTTTATTCACAAGCCTCACAAAAGTGTCATTTTCTCATGGGAATTGTT
1 GAATTATGCCATTAACTTTTTATTCACAAGCCTCACAAAAGTGCCATTTTCTCATGGGAATTGTT
* * *
10593757 GGGAATTGTGCCATTTAACTTTTTATTGACAAGCCTCACAATAGTGCCATTTTTCATGGGAATTA
66 GGAAATTGTGCCATTTAACTTTTTATTGAAAAGCCTCACAAGAGTGCCATTTTTCATGGGAATTA
10593822 TTGA
131 TTGA
* * *
10593826 GAATTATGGCATTAACTTTTTATTCACAAGCCTCACAAGAGTGCCATTTTTTCATGGGAATTGTT
1 GAATTATGCCATTAACTTTTTATTCACAAGCCTCACAAAAGTGCCATTTTCTCATGGGAATTGTT
* *
10593891 GGAAATTGTGCCATTTAAC-TTTTATTGAAAAGCCTCACAAGAGTGTCATTTTTTTATGGGAATT
66 GGAAATTGTGCCATTTAACTTTTTATTGAAAAGCCTCACAAGAGTGCCA-TTTTTCATGGGAATT
10593955 GTACCATTAA
Statistics
Matches: 118, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
133 26 0.22
134 92 0.78
ACGTcount: A:0.28, C:0.16, G:0.17, T:0.38
Consensus pattern (134 bp):
GAATTATGCCATTAACTTTTTATTCACAAGCCTCACAAAAGTGCCATTTTCTCATGGGAATTGTT
GGAAATTGTGCCATTTAACTTTTTATTGAAAAGCCTCACAAGAGTGCCATTTTTCATGGGAATTA
TTGA
Found at i:10593987 original size:58 final size:58
Alignment explanation
Indices: 10593894--10594015 Score: 167
Period size: 58 Copynumber: 2.1 Consensus size: 58
10593884 AATTGTTGGA
* *
10593894 AATTGTGCCATTTAACTTTTATTGAAAAGCCTCACAAGAGTGTCATTTTTTT-ATGGG
1 AATTGTACCATTTAACTTTTATTCAAAAGCCTCACAAGAGTGTCATTTTTTTAATGGG
* * *
10593951 AATTGTACCA-TTAACTTTTTTATTCACAAGCTTCACAAGATTGTCATTTTTTTAATGGG
1 AATTGTACCATTTAAC--TTTTATTCAAAAGCCTCACAAGAGTGTCATTTTTTTAATGGG
10594010 AATTGT
1 AATTGT
10594016 GAGGCTTGTG
Statistics
Matches: 57, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
56 5 0.09
57 9 0.16
58 32 0.56
59 11 0.19
ACGTcount: A:0.29, C:0.14, G:0.15, T:0.43
Consensus pattern (58 bp):
AATTGTACCATTTAACTTTTATTCAAAAGCCTCACAAGAGTGTCATTTTTTTAATGGG
Found at i:10598715 original size:45 final size:45
Alignment explanation
Indices: 10598665--10598834 Score: 180
Period size: 45 Copynumber: 3.8 Consensus size: 45
10598655 ACTATATGCC
* * * *
10598665 TAAAATGAGTAAGACCATAGCTGAAAGATGCTATGACATTATGGT
1 TAAAATAAGTAAAACCATAGCTAAAAGATGCTATGGCATTATGGT
* * * *
10598710 TAAAATGAGTAAGATCGTAGCTAAAAGATGCTATGGCATTATGGT
1 TAAAATAAGTAAAACCATAGCTAAAAGATGCTATGGCATTATGGT
* * ** * *
10598755 TAAGATAAGTAAAACCATAACTAAAAGAAACTATGGCATCAT-GA
1 TAAAATAAGTAAAACCATAGCTAAAAGATGCTATGGCATTATGGT
* *
10598799 TAGAAATAAGTAAAACCATGGCTGAAAGATGCTATG
1 TA-AAATAAGTAAAACCATAGCTAAAAGATGCTATG
10598835 TCATCATATG
Statistics
Matches: 104, Mismatches: 20, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
44 3 0.03
45 101 0.97
ACGTcount: A:0.44, C:0.11, G:0.21, T:0.25
Consensus pattern (45 bp):
TAAAATAAGTAAAACCATAGCTAAAAGATGCTATGGCATTATGGT
Found at i:10600407 original size:70 final size:67
Alignment explanation
Indices: 10600285--10600417 Score: 185
Period size: 70 Copynumber: 1.9 Consensus size: 67
10600275 ATAAACAATA
* * * * * *
10600285 TAATGATTTTGTCTTTTAACTTAATAGGTAAACATTTATCAAAACGATGTAGTTTTTCCTTTTAA
1 TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTTTAA
10600350 CT
66 CT
10600352 TAATGATTTTGACTTTTAACTTTAAAAAAAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTT
1 TAATGATTTTGACTTTTAAC-TT--AAAAAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTT
10600417 T
63 T
10600418 TTTTATTTGG
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
67 19 0.33
68 2 0.04
70 36 0.63
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (67 bp):
TAATGATTTTGACTTTTAACTTAAAAAGTAAACATTTATCAAAACAACGTAGTTTTGCCTTTTAA
CT
Found at i:10601258 original size:33 final size:33
Alignment explanation
Indices: 10601216--10601304 Score: 128
Period size: 33 Copynumber: 2.7 Consensus size: 33
10601206 AAAATCTAGA
*
10601216 TAGGTGAGACGAAGAGGGTATTTGTCATATGCC
1 TAGGTGAGACGAAGAGGGTATTCGTCATATGCC
*
10601249 TAGGTGAGACTGAA-AGGGTATTCGTCATATGTC
1 TAGGTGAGAC-GAAGAGGGTATTCGTCATATGCC
10601282 TAGGTGAGATCG-AGAGGGTATTC
1 TAGGTGAGA-CGAAGAGGGTATTC
10601305 TTATCTAAGG
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
32 1 0.02
33 46 0.90
34 4 0.08
ACGTcount: A:0.27, C:0.11, G:0.34, T:0.28
Consensus pattern (33 bp):
TAGGTGAGACGAAGAGGGTATTCGTCATATGCC
Found at i:10602728 original size:20 final size:18
Alignment explanation
Indices: 10602703--10602744 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 18
10602693 GCATCATTAC
10602703 TTTTATAAAATTTTTTAATA
1 TTTTAT-AAATTTTTTAA-A
*
10602723 TTTTATATATTTTTTAAA
1 TTTTATAAATTTTTTAAA
10602741 TTTT
1 TTTT
10602745 TATGTATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 5 0.24
19 10 0.48
20 6 0.29
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTATAAATTTTTTAAA
Found at i:10602736 original size:19 final size:19
Alignment explanation
Indices: 10602712--10602756 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
10602702 CTTTTATAAA
10602712 ATTTTTT-AATATTTTATAT
1 ATTTTTTAAAT-TTTTATAT
*
10602731 ATTTTTTAAATTTTTATGT
1 ATTTTTTAAATTTTTATAT
10602750 ATTTTTT
1 ATTTTTT
10602757 TGTTTTAATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 21 0.88
20 3 0.12
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (19 bp):
ATTTTTTAAATTTTTATAT
Found at i:10603235 original size:19 final size:19
Alignment explanation
Indices: 10603211--10603273 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
10603201 AATATTTTTT
10603211 AAAATTATTATTTTTTAAA
1 AAAATTATTATTTTTTAAA
* *
10603230 AAAATTATAAATTTTT-AA
1 AAAATTATTATTTTTTAAA
* **
10603248 AACATTATTATAATTTATAA
1 AAAATTATTATTTTTTA-AA
10603268 AAAATT
1 AAAATT
10603274 TTAAAAAAAT
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
18 13 0.38
19 14 0.41
20 7 0.21
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (19 bp):
AAAATTATTATTTTTTAAA
Found at i:10603236 original size:16 final size:16
Alignment explanation
Indices: 10603198--10603237 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
10603188 TTAAAAAGTT
10603198 AAAAA-TATTTTTTAA
1 AAAAATTATTTTTTAA
**
10603213 AATTATTATTTTTTAA
1 AAAAATTATTTTTTAA
10603229 AAAAATTAT
1 AAAAATTAT
10603238 AAATTTTTAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
AAAAATTATTTTTTAA
Found at i:10603255 original size:37 final size:37
Alignment explanation
Indices: 10603204--10603278 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 37
10603194 AGTTAAAAAT
* **
10603204 ATTTTTTAAAATTATTATTTTTTA-AAAAAATTATAA
1 ATTTTTAAAAATTATTATAATTTATAAAAAATTATAA
*
10603240 ATTTTTAAAACATTATTATAATTTATAAAAAATTTTAA
1 ATTTTTAAAA-ATTATTATAATTTATAAAAAATTATAA
10603278 A
1 A
10603279 AAAATTCCAA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 9 0.27
37 12 0.36
38 12 0.36
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTTTAAAAATTATTATAATTTATAAAAAATTATAA
Found at i:10603270 original size:21 final size:20
Alignment explanation
Indices: 10603211--10603271 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 20
10603201 AATATTTTTT
*
10603211 AAAATTATTAT-TTTTTAAA
1 AAAATTATTATAATTTTAAA
*
10603230 AAAATTA-TA-AATTTTTAA
1 AAAATTATTATAATTTTAAA
*
10603248 AACATTATTATAATTTATAAA
1 AAAATTATTATAATTT-TAAA
10603269 AAA
1 AAA
10603272 TTTTAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 14 0.42
19 9 0.27
20 5 0.15
21 5 0.15
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATTATTATAATTTTAAA
Found at i:10604753 original size:29 final size:28
Alignment explanation
Indices: 10604719--10604792 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 28
10604709 GTTATTTCAA
10604719 TTTTGGTTTAGGGTTTTAAAATGTAAGGG
1 TTTTGGTTTAGGGTTTT-AAATGTAAGGG
* **
10604748 TTTTGGTTTAGGGTTGTTAAATTTGGGGG
1 TTTTGGTTTAGGGTT-TTAAATGTAAGGG
*
10604777 TTTTGGTTTAAGGTTT
1 TTTTGGTTTAGGGTTT
10604793 CAGATTTTGG
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 1 0.03
29 37 0.93
30 2 0.05
ACGTcount: A:0.18, C:0.00, G:0.32, T:0.50
Consensus pattern (28 bp):
TTTTGGTTTAGGGTTTTAAATGTAAGGG
Found at i:10604802 original size:29 final size:28
Alignment explanation
Indices: 10604745--10604799 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
10604735 TAAAATGTAA
* *
10604745 GGGTTTTGGTTTAGGGTTGTTAAATTTGG
1 GGGTTTTGGTTTAAGGTT-TCAAATTTGG
*
10604774 GGGTTTTGGTTTAAGGTTTCAGATTT
1 GGGTTTTGGTTTAAGGTTTCAAATTT
10604800 TGGAGATTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 6 0.26
29 17 0.74
ACGTcount: A:0.15, C:0.02, G:0.35, T:0.49
Consensus pattern (28 bp):
GGGTTTTGGTTTAAGGTTTCAAATTTGG
Found at i:10606520 original size:29 final size:28
Alignment explanation
Indices: 10606487--10606560 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 28
10606477 GTTATTTCAA
10606487 TTTTGGTTTAGGGTTTTAAAATTTAAGGG
1 TTTTGGTTTAGGGTTTT-AAATTTAAGGG
**
10606516 TTTTGGTTTAGGGTTGTTAAATTTGGGGG
1 TTTTGGTTTAGGGTT-TTAAATTTAAGGG
*
10606545 TTTTGGTTTAAGGTTT
1 TTTTGGTTTAGGGTTT
10606561 CAGATTTTGG
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
28 1 0.02
29 38 0.93
30 2 0.05
ACGTcount: A:0.18, C:0.00, G:0.31, T:0.51
Consensus pattern (28 bp):
TTTTGGTTTAGGGTTTTAAATTTAAGGG
Found at i:10608382 original size:21 final size:21
Alignment explanation
Indices: 10608358--10608426 Score: 59
Period size: 21 Copynumber: 3.3 Consensus size: 21
10608348 TTTGAGCTCT
*
10608358 TGTTTAACCTTTACGGGTTTC
1 TGTTTAACCTTTATGGGTTTC
* * *
10608379 TG-TTCAGCTCTTATGAGTTTC
1 TGTTTAACCT-TTATGGGTTTC
** *
10608400 CATTTAACCCTTATGGGTTTC
1 TGTTTAACCTTTATGGGTTTC
10608421 TGTTTA
1 TGTTTA
10608427 GCACTTATGT
Statistics
Matches: 34, Mismatches: 12, Indels: 4
0.68 0.24 0.08
Matches are distributed among these distances:
20 5 0.15
21 25 0.74
22 4 0.12
ACGTcount: A:0.16, C:0.19, G:0.17, T:0.48
Consensus pattern (21 bp):
TGTTTAACCTTTATGGGTTTC
Found at i:10608433 original size:21 final size:21
Alignment explanation
Indices: 10608372--10608445 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 21
10608362 TAACCTTTAC
* *
10608372 GGGTTTCTGTTCAGCTCTTAT
1 GGGTTTCTGTTTAGCACTTAT
* ** * *
10608393 GAGTTTCCATTTAACCCTTAT
1 GGGTTTCTGTTTAGCACTTAT
10608414 GGGTTTCTGTTTAGCACTTAT
1 GGGTTTCTGTTTAGCACTTAT
* *
10608435 GTGCTTCTGTT
1 GGGTTTCTGTT
10608446 CAGCCTTCGG
Statistics
Matches: 40, Mismatches: 13, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.14, C:0.19, G:0.20, T:0.47
Consensus pattern (21 bp):
GGGTTTCTGTTTAGCACTTAT
Found at i:10610856 original size:73 final size:72
Alignment explanation
Indices: 10610720--10610892 Score: 265
Period size: 73 Copynumber: 2.4 Consensus size: 72
10610710 AAAAATAATC
* *
10610720 ATTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACCTAAGCCCAACGACGTCGTTTCCCGAGCTT
1 ATTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGACGACGTTTCCCGAGCTT
10610785 TCGGGGA
66 TCGGGGA
* ***
10610792 ATTAGCGGCGTTTCTGAGAAAGCGCCGCACAAAAACATAAGCCCAACGACGACGTTTTGTGAGCT
1 ATTAGCGGCGTTTTTGAGAAAGCGCCGCA-AAAAACATAAGCCCAACGACGACGTTTCCCGAGCT
10610857 TTCGGGGA
65 TTCGGGGA
* *
10610865 TTTAGCGGCGTTTTTAAGAAAGCGCCGC
1 ATTAGCGGCGTTTTTGAGAAAGCGCCGC
10610893 TAATGCTCAG
Statistics
Matches: 91, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
72 28 0.31
73 63 0.69
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (72 bp):
ATTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAACATAAGCCCAACGACGACGTTTCCCGAGCTT
TCGGGGA
Found at i:10610947 original size:114 final size:113
Alignment explanation
Indices: 10610793--10611214 Score: 607
Period size: 114 Copynumber: 3.7 Consensus size: 113
10610783 TTTCGGGGAA
* * *
10610793 TTAGCGGCGTTTCTGAGAAAGCGCCGCACAAAAACATAAGCCCAACGACGACGTTTTGTGAGCTT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACG-CGTTTTCTGAGCTT
*
10610858 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGCCT
65 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
10610907 TTAGTGGCGCTTTCTCA-AAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCCGTTTTGTGAGCT
1 TTAGCGGCG-TTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACG-CGTTTTCTGAGCT
* * **
10610971 TTCAGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCAAATGCTTTGGGCT
64 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* *
10611021 TTAGCGGCGTTTTTGGGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACG-CGTTTTCTGAGCTT
* *
10611086 TCGGGTATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGTTCAGGGCT
65 TCGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
* * *
10611135 TTAGCGACGTTTTTGAGAAAGCGCCGCAAAAATTA--TAAGCCCAACGACGCAGTTTTCTGAGCT
1 TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAA-AACCTAAGCCCAACGACGC-GTTTTCTGAGCT
10611198 TTCGGGGATTTAGCGGC
64 TTCGGGGATTTAGCGGC
10611215 CAAAAATGCT
Statistics
Matches: 278, Mismatches: 26, Indels: 9
0.89 0.08 0.03
Matches are distributed among these distances:
112 1 0.00
113 46 0.17
114 224 0.81
115 7 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (113 bp):
TTAGCGGCGTTTCTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGCGTTTTCTGAGCTTT
CGGGGATTTAGCGGCGTTTTTAAGAAAGCGCCGCTAATGCTCAGGGCT
Found at i:10611585 original size:15 final size:14
Alignment explanation
Indices: 10611562--10611620 Score: 55
Period size: 16 Copynumber: 3.9 Consensus size: 14
10611552 GATTTAAGGT
*
10611562 TTAGGGGTTAGAGGG
1 TTAGAGGTTAG-GGG
10611577 TTAGAGGTTTAGGGG
1 TTAGAGG-TTAGGGG
10611592 TTAGACGTGTTAGGGG
1 TTAGA-G-GTTAGGGG
* *
10611608 TTAAAAGTTAGGG
1 TTAGAGGTTAGGG
10611621 ATTCAGGGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 7 0.18
15 14 0.37
16 16 0.42
17 1 0.03
ACGTcount: A:0.24, C:0.02, G:0.44, T:0.31
Consensus pattern (14 bp):
TTAGAGGTTAGGGG
Found at i:10611588 original size:16 final size:16
Alignment explanation
Indices: 10611568--10611610 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
10611558 AGGTTTAGGG
*
10611568 GTTAGAGGGTTAGAGGT
1 GTTAG-GGGTTAGACGT
10611585 -TTAGGGGTTAGACGT
1 GTTAGGGGTTAGACGT
10611600 GTTAGGGGTTA
1 GTTAGGGGTTA
10611611 AAAGTTAGGG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.21, C:0.02, G:0.44, T:0.33
Consensus pattern (16 bp):
GTTAGGGGTTAGACGT
Found at i:10611861 original size:21 final size:20
Alignment explanation
Indices: 10611828--10611868 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
10611818 TTATGAATTA
*
10611828 GGGATTATGGTTTAAGGGTT
1 GGGATTAAGGTTTAAGGGTT
*
10611848 GGGATCTAAGGTTTAGGGGTT
1 GGGAT-TAAGGTTTAAGGGTT
10611869 AGGAGTTTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.20, C:0.02, G:0.41, T:0.37
Consensus pattern (20 bp):
GGGATTAAGGTTTAAGGGTT
Found at i:10611894 original size:14 final size:15
Alignment explanation
Indices: 10611858--10611904 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
10611848 GGGATCTAAG
10611858 GTTTAGGGGTTAGGA
1 GTTTAGGGGTTAGGA
10611873 GTTTAGGGGTTA-GA
1 GTTTAGGGGTTAGGA
*
10611887 -TGTTAGGGGTTAAGA
1 GT-TTAGGGGTTAGGA
10611902 GTT
1 GTT
10611905 AAGGATTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.03
14 12 0.41
15 15 0.52
16 1 0.03
ACGTcount: A:0.21, C:0.00, G:0.43, T:0.36
Consensus pattern (15 bp):
GTTTAGGGGTTAGGA
Found at i:10611905 original size:14 final size:14
Alignment explanation
Indices: 10611860--10611905 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
10611850 GATCTAAGGT
*
10611860 TTAGGGGTTAGGAG
1 TTAGGGGTTAAGAG
10611874 TTTAGGGGTT-AGATG
1 -TTAGGGGTTAAGA-G
10611889 TTAGGGGTTAAGAG
1 TTAGGGGTTAAGAG
10611903 TTA
1 TTA
10611906 AGGATTTAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (14 bp):
TTAGGGGTTAAGAG
Found at i:10612207 original size:105 final size:108
Alignment explanation
Indices: 10612035--10612236 Score: 329
Period size: 105 Copynumber: 1.9 Consensus size: 108
10612025 AATATATTGA
* *
10612035 TTTATAAAAAACACCGCAAAAAATAAATCAATTTATAAAAAAATAAAATAAAAAATTTTTAGCAT
1 TTTATAAAAAACACCGCAAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGAAT
10612100 AGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTT
66 AGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTT
* * **
10612143 TTTAT-AAAAACGCTGC-AAAAATAAATCAATTTAT-AAAAAACAAAATAAAATTTTTTTAGAAT
1 TTTATAAAAAACACCGCAAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGAAT
10612205 AGCAAAACGGCGTCATTTTGTTCAAAATGAAA
66 AGCAAAACGGCGTCATTTTGTTCAAAATGAAA
10612237 AAAATTTGCG
Statistics
Matches: 88, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
105 56 0.64
106 18 0.20
107 9 0.10
108 5 0.06
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (108 bp):
TTTATAAAAAACACCGCAAAAAATAAATCAATTTATAAAAAAACAAAATAAAAAATTTTTAGAAT
AGCAAAACGGCGTCATTTTGTTCAAAATGAAATAGCGGCGTTT
Found at i:10612428 original size:148 final size:148
Alignment explanation
Indices: 10612130--10612566 Score: 615
Period size: 148 Copynumber: 3.0 Consensus size: 148
10612120 TTCAAAATGA
* *
10612130 AATAGCGGCGTTTTTTATAAAAACGCTGCAAAAATAAATCAATTTAT--AAAAAACAAAATAAAA
1 AATAGCGGCGTTTTTTATAAAAACGCCGCAAAAATAAATCAATTTATAAAAAAAATAAAATAAAA
** *
10612193 TTTTTTTAGAATAGCAAAACGGCGTCATTTTGTTCAAAATGAAAAAAATTTGCGGCGTTTTTATG
66 AATTTTTAGCATAGCAAAACGGCGTCATTTTGTTC---A-GAAAAAAATTTGCGGCGTTTTTATG
10612258 AAAAACGCCGCTAAAGGTAAGC
127 AAAAACGCCGCTAAAGGTAAGC
*
10612280 AATAGCGGCG-ATTTTATAAAAAACGCCGCAAAAATAAATCAATTTATAAAAAAAATAAAATAAA
1 AATAGCGGCGTTTTTTAT-AAAAACGCCGCAAAAATAAATCAATTTATAAAAAAAATAAAATAAA
*
10612344 AAATTTTTAGCAGAGCAAAACGGCGTCATTTTGTTC-GAAAAAAATTTTGCGGCGTTTTTATGAA
65 AAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAGAAAAAAA-TTTGCGGCGTTTTTATGAA
*
10612408 AAGCGCCGCTAAAGGTAAGC
129 AAACGCCGCTAAAGGTAAGC
*
10612428 AATAGCGGCGTTTTTTATAAAAACGCCGCAAAAAATAAATCAATTTATAAAACAAATAAAATAAA
1 AATAGCGGCGTTTTTTATAAAAACGCCGC-AAAAATAAATCAATTTATAAAAAAAATAAAATAAA
* *
10612493 AAA-TTTTAGCATAGCAAAACGGCGTCATTTTGAT--GAAAATGAAA-TAGCGGCGTTTTTTAT-
65 AAATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAGAAAA--AAATTTGCGGCG-TTTTTATG
10612553 AAAAACGCCG-TAAA
127 AAAAACGCCGCTAAA
10612567 AATAAATTAA
Statistics
Matches: 264, Mismatches: 14, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
146 4 0.02
147 29 0.11
148 95 0.36
149 52 0.20
150 38 0.14
152 46 0.17
ACGTcount: A:0.44, C:0.13, G:0.16, T:0.27
Consensus pattern (148 bp):
AATAGCGGCGTTTTTTATAAAAACGCCGCAAAAATAAATCAATTTATAAAAAAAATAAAATAAAA
AATTTTTAGCATAGCAAAACGGCGTCATTTTGTTCAGAAAAAAATTTGCGGCGTTTTTATGAAAA
ACGCCGCTAAAGGTAAGC
Found at i:10612585 original size:17 final size:17
Alignment explanation
Indices: 10612565--10612603 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
10612555 AAACGCCGTA
* *
10612565 AAAATAAATTAATTTAT
1 AAAATAAATAAAATTAT
*
10612582 AAAACAAATAAAATTAT
1 AAAATAAATAAAATTAT
10612599 AAAAT
1 AAAAT
10612604 TTTTAAATAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAATAAATAAAATTAT
Found at i:10616452 original size:43 final size:42
Alignment explanation
Indices: 10616379--10616563 Score: 237
Period size: 43 Copynumber: 4.3 Consensus size: 42
10616369 AGAACGTACT
* * * *
10616379 TTTAGCGGCGTTTGT-GATAAAAGTGCCGCTAAAGGTCATATTC
1 TTTAGCGGCGTTTGTGGGT-AAAGCG-CGCTAAAGATCATGTTC
* ** *
10616422 TTTAGCGGCATTTGCAGGTAAAGCGTCGCTAAAGTTCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCG-CGCTAAAGATCATGTTC
*
10616465 TTTAGCGACGTTTGTGGGTAAAGCGCTGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCGC-GCTAAAGATCATGTTC
10616508 TTTAGCGGCGTTTGTGGGTAAAGCGCCGCTAAAGATCATGTTC
1 TTTAGCGGCGTTTGTGGGTAAAGCG-CGCTAAAGATCATGTTC
10616551 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
10616564 TTCACATAAA
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
42 1 0.01
43 122 0.97
44 3 0.02
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGGTAAAGCGCGCTAAAGATCATGTTC
Found at i:10616579 original size:43 final size:43
Alignment explanation
Indices: 10616355--10616563 Score: 228
Period size: 43 Copynumber: 4.9 Consensus size: 43
10616345 GCGTTTTTTT
* *
10616355 ATAAA-CGCCGCTAAAGA--ACGTACTTTTAGCGGCGTTTGT-G
1 ATAAAGCGCCGCTAAAGATCATGTTC-TTTAGCGGCGTTTGTAG
* * * * *
10616395 ATAAAAGTGCCGCTAAAGGTCATATTCTTTAGCGGCATTTGCAG
1 AT-AAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAG
* * * * *
10616439 GTAAAGCGTCGCTAAAGTTCATGTTCTTTAGCGACGTTTGTGG
1 ATAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAG
* * *
10616482 GTAAAGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTGG
1 ATAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAG
*
10616525 GTAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
1 ATAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTT
10616564 TTCACATAAA
Statistics
Matches: 143, Mismatches: 21, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
40 2 0.01
41 3 0.02
42 10 0.07
43 123 0.86
44 5 0.03
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
ATAAAGCGCCGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAG
Found at i:10616687 original size:22 final size:22
Alignment explanation
Indices: 10616656--10616698 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
10616646 TAACGGCGCT
* *
10616656 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAGCCTA
10616678 AAAAAACGCCGCTAAAAGCCT
1 AAAAAACGCCGCTAAAAGCCT
10616699 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.44, C:0.28, G:0.19, T:0.09
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAGCCTA
Found at i:10617173 original size:4 final size:4
Alignment explanation
Indices: 10617164--10617200 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
10617154 AAAGACACGC
10617164 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT G
10617201 CTCGATTCGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (4 bp):
GTAT
Found at i:10623935 original size:21 final size:21
Alignment explanation
Indices: 10623911--10623953 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
10623901 AAAAACCTTA
10623911 CACC-ATCAAATCCTAGTCTTT
1 CACCTATCAAATCCTAG-CTTT
*
10623932 CACCTATCACATCCTAGCTTT
1 CACCTATCAAATCCTAGCTTT
10623953 C
1 C
10623954 TTTTCACCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.26, C:0.37, G:0.05, T:0.33
Consensus pattern (21 bp):
CACCTATCAAATCCTAGCTTT
Found at i:10628423 original size:22 final size:22
Alignment explanation
Indices: 10628393--10628441 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
10628383 AGGGTGAAAA
10628393 GAAA-GCTAGGATGTGATAGGT
1 GAAAGGCTAGGATGTGATAGGT
* *
10628414 GAAAGGCTAGGATTTGATGGGT
1 GAAAGGCTAGGATGTGATAGGT
*
10628436 GTAAGG
1 GAAAGG
10628442 GTTTTTGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.31, C:0.04, G:0.41, T:0.24
Consensus pattern (22 bp):
GAAAGGCTAGGATGTGATAGGT
Found at i:10628788 original size:24 final size:22
Alignment explanation
Indices: 10628734--10628790 Score: 60
Period size: 24 Copynumber: 2.4 Consensus size: 22
10628724 TGCAAAATAG
10628734 AAATAAAACAAAAATTAAATAAA
1 AAATAAAA-AAAAATTAAATAAA
* *
10628757 ATAGTAAAAAATAATTATAATAGAA
1 A-AATAAAAAAAAATTA-AATA-AA
10628782 AAATAAAAA
1 AAATAAAAA
10628791 TGTTCTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 8 0.29
24 17 0.61
25 3 0.11
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (22 bp):
AAATAAAAAAAAATTAAATAAA
Found at i:10631403 original size:23 final size:24
Alignment explanation
Indices: 10631385--10631431 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10631375 TCTTAATTAT
*
10631385 CAAATCAAATT-AAAATTAAAAAA
1 CAAATCAAATTAAAAATTAATAAA
*
10631408 CAAATTAAATTAAAAATTAATAAA
1 CAAATCAAATTAAAAATTAATAAA
10631432 AATTTGAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (24 bp):
CAAATCAAATTAAAAATTAATAAA
Found at i:10631419 original size:17 final size:18
Alignment explanation
Indices: 10631390--10631423 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
10631380 ATTATCAAAT
10631390 CAAATTAAAATTAAAAAA
1 CAAATTAAAATTAAAAAA
10631408 CAAATT-AAATTAAAAA
1 CAAATTAAAATTAAAAA
10631424 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (18 bp):
CAAATTAAAATTAAAAAA
Found at i:10631442 original size:24 final size:23
Alignment explanation
Indices: 10631385--10631432 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
10631375 TCTTAATTAT
*
10631385 CAAATCAAATTAAAATTAAAAAA
1 CAAATTAAATTAAAATTAAAAAA
10631408 CAAATTAAATTAAAAATTAATAAAA
1 CAAATTAAATT-AAAATTAA-AAAA
10631433 ATTTGAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.45
24 8 0.36
25 4 0.18
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (23 bp):
CAAATTAAATTAAAATTAAAAAA
Found at i:10634435 original size:23 final size:22
Alignment explanation
Indices: 10634409--10634463 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
10634399 AGAGTAAGCA
10634409 GTTTGGGATGTCAAGACACCAAG
1 GTTTGGG-TGTCAAGACACCAAG
***
10634432 GTTTGGGTGTTGCGACACCAAG
1 GTTTGGGTGTCAAGACACCAAG
*
10634454 GTTTAGGTGT
1 GTTTGGGTGT
10634464 TGTAACACCG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
22 21 0.75
23 7 0.25
ACGTcount: A:0.22, C:0.15, G:0.35, T:0.29
Consensus pattern (22 bp):
GTTTGGGTGTCAAGACACCAAG
Found at i:10634451 original size:22 final size:22
Alignment explanation
Indices: 10634423--10634465 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
10634413 GGGATGTCAA
*
10634423 GACACCAAGGTTTGGGTGTTGC
1 GACACCAAGGTTTAGGTGTTGC
10634445 GACACCAAGGTTTAGGTGTTG
1 GACACCAAGGTTTAGGTGTTG
10634466 TAACACCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.35, T:0.28
Consensus pattern (22 bp):
GACACCAAGGTTTAGGTGTTGC
Found at i:10634471 original size:22 final size:22
Alignment explanation
Indices: 10634424--10634472 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
10634414 GGATGTCAAG
* *
10634424 ACACCAAGGTTTGGGTGTTGCG
1 ACACCAAGGTTTAGGTGTTGCA
*
10634446 ACACCAAGGTTTAGGTGTTGTA
1 ACACCAAGGTTTAGGTGTTGCA
10634468 ACACC
1 ACACC
10634473 GAAGCTGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (22 bp):
ACACCAAGGTTTAGGTGTTGCA
Found at i:10638239 original size:28 final size:28
Alignment explanation
Indices: 10638158--10638261 Score: 113
Period size: 28 Copynumber: 3.7 Consensus size: 28
10638148 GGTGCACTGG
* *
10638158 AGTGCATTATTAGAATAGAACAACACCA-
1 AGTGC-TTATCAGAACAGAACAACACCAT
*
10638186 ATGTGCTTAATCAGAACAGAAAAACACCAT
1 A-GTGCTT-ATCAGAACAGAACAACACCAT
*
10638216 AGTGCTTATCAGAACAGAACAACACCGT
1 AGTGCTTATCAGAACAGAACAACACCAT
* *
10638244 AGTGC-AATCAAAACAGAA
1 AGTGCTTATCAGAACAGAA
10638262 AGTGCACTAA
Statistics
Matches: 66, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
27 11 0.17
28 27 0.41
29 27 0.41
30 1 0.02
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.18
Consensus pattern (28 bp):
AGTGCTTATCAGAACAGAACAACACCAT
Found at i:10641113 original size:14 final size:14
Alignment explanation
Indices: 10641073--10641114 Score: 57
Period size: 16 Copynumber: 2.9 Consensus size: 14
10641063 GGTAAACCGA
*
10641073 AATTTTCCCAGCCC
1 AATTTACCCAGCCC
10641087 AATTTAAACCCAGCCC
1 AATTT--ACCCAGCCC
10641103 AATTTACCCAGC
1 AATTTACCCAGC
10641115 ACCGAATAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 12 0.48
16 13 0.52
ACGTcount: A:0.31, C:0.38, G:0.07, T:0.24
Consensus pattern (14 bp):
AATTTACCCAGCCC
Found at i:10641155 original size:26 final size:27
Alignment explanation
Indices: 10641093--10641155 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
10641083 GCCCAATTTA
*
10641093 AACCCAGCCCAATTTACCCAGCACCGAAT
1 AACCCAGCCCAATTTA--CAACACCGAAT
**
10641122 AAGACAGCCCAATTTA-AACACCGAAT
1 AACCCAGCCCAATTTACAACACCGAAT
10641148 AACCCAGC
1 AACCCAGC
10641156 ACCGAAATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 15 0.52
29 14 0.48
ACGTcount: A:0.40, C:0.37, G:0.11, T:0.13
Consensus pattern (27 bp):
AACCCAGCCCAATTTACAACACCGAAT
Found at i:10645684 original size:17 final size:17
Alignment explanation
Indices: 10645662--10645759 Score: 52
Period size: 17 Copynumber: 5.4 Consensus size: 17
10645652 AATTCAAGAC
10645662 TTATGTAATGTTTTTAA
1 TTATGTAATGTTTTTAA
* * ***
10645679 TTATGTAGTGACTCAAAGA
1 TTATGTAATG-TTTTTA-A
*
10645698 CTTATGTAATATTTTTAA
1 -TTATGTAATGTTTTTAA
* **
10645716 TTATGTAGTGATTTAAAGA
1 TTATGTAATG-TTTTTA-A
*
10645735 TTTATGTAATGCTTTTAA
1 -TTATGTAATGTTTTTAA
10645753 TTATGTA
1 TTATGTA
10645760 GTGATTTAAT
Statistics
Matches: 56, Mismatches: 19, Indels: 12
0.64 0.22 0.14
Matches are distributed among these distances:
17 24 0.43
18 8 0.14
19 7 0.12
20 17 0.30
ACGTcount: A:0.33, C:0.04, G:0.14, T:0.49
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:10645741 original size:20 final size:18
Alignment explanation
Indices: 10645677--10645768 Score: 62
Period size: 17 Copynumber: 5.0 Consensus size: 18
10645667 TAATGTTTTT
* *
10645677 AATTATGTAGTGACTCAA
1 AATTATGTAGTGATTTAA
* **
10645695 AGACTTATGTAAT-ATTTTT
1 A-A-TTATGTAGTGATTTAA
10645714 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
* * *
10645732 AGATTTATGTAATGCTTT-T
1 A-A-TTATGTAGTGATTTAA
10645751 AATTATGTAGTGATTTAA
1 AATTATGTAGTGATTTAA
10645769 TTCGGGTAAT
Statistics
Matches: 54, Mismatches: 14, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
17 20 0.37
18 8 0.15
19 6 0.11
20 20 0.37
ACGTcount: A:0.35, C:0.04, G:0.15, T:0.46
Consensus pattern (18 bp):
AATTATGTAGTGATTTAA
Found at i:10645764 original size:37 final size:37
Alignment explanation
Indices: 10645657--10645768 Score: 179
Period size: 37 Copynumber: 3.0 Consensus size: 37
10645647 GTGTTAATTC
* *
10645657 AAGACTTATGTAATGTTTTTAATTATGTAGTGACTCA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
*
10645694 AAGACTTATGTAATATTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
* *
10645731 AAGATTTATGTAATGCTTTTAATTATGTAGTGATTTA
1 AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
10645768 A
1 A
10645769 TTCGGGTAAT
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.46
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTAGTGATTTA
Found at i:10646356 original size:121 final size:122
Alignment explanation
Indices: 10646206--10646451 Score: 277
Period size: 127 Copynumber: 2.0 Consensus size: 122
10646196 TAGCTATTTG
* * *
10646206 ATTTATATAAAAAAACTTTCAATGGTTC-A-ATTAATATATACAATATTTTAAATTAATATGATA
1 ATTTACATAAAAAAACTTTCAATGATTCAATATTAATATATACAATATTTTAAATTAATATAATA
** *
10646269 -AATATATCAGGTCAGA-TCGAAATTTTACATGTATGATAAGTACAATTATATTGATAA
66 GAAT-TATCAGAAC-GATTCAAAATTTTACATGTATGATAAGTACAATTATATTGATAA
* * *
10646326 ATTTACATATAAAAAACTTTTAACT-ATTCAATAAATATTAATATATTCAATATTTTAAATTGAT
1 ATTTACATA-AAAAAACTTTCAA-TGATTC----AATATTAATATATACAATATTTTAAATTAAT
* * *
10646390 ATAATAGAGTTATCAGAACGATTTAAAATTTTACATGTATGATAAGTAGAATTATATTGATA
60 ATAATAGAATTATCAGAACGATTCAAAATTTTACATGTATGATAAGTACAATTATATTGATA
10646452 GGTTCAATAG
Statistics
Matches: 104, Mismatches: 12, Indels: 13
0.81 0.09 0.10
Matches are distributed among these distances:
120 8 0.08
121 15 0.14
122 1 0.01
126 3 0.03
127 75 0.72
128 2 0.02
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (122 bp):
ATTTACATAAAAAAACTTTCAATGATTCAATATTAATATATACAATATTTTAAATTAATATAATA
GAATTATCAGAACGATTCAAAATTTTACATGTATGATAAGTACAATTATATTGATAA
Found at i:10646931 original size:30 final size:31
Alignment explanation
Indices: 10646897--10646956 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
10646887 AAACTTTTTA
*
10646897 TTTTTCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
*
10646927 TTTTTCCCTAAAACTTTTACTCCCTTCCCA
1 TTTTTCCCCAAAACTTTTACTCCCTTCCCA
10646957 TCCCACCTCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.38, G:0.00, T:0.42
Consensus pattern (31 bp):
TTTTTCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:10650941 original size:46 final size:45
Alignment explanation
Indices: 10650887--10650982 Score: 138
Period size: 46 Copynumber: 2.1 Consensus size: 45
10650877 TCATGAATGA
* * * *
10650887 TATTATGTATTTAATATATTGTTGAAAAATGGAGTGTTGTTAAAT
1 TATTATGTATTTAACATATTGTTGAAAAATGAAATGTAGTTAAAT
*
10650932 TGATTATGTATTTAGCATATTGTTGAAAAATGAAATGTAGTTAAAT
1 T-ATTATGTATTTAACATATTGTTGAAAAATGAAATGTAGTTAAAT
10650978 TATTA
1 TATTA
10650983 ATTGAAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
45 5 0.11
46 40 0.89
ACGTcount: A:0.38, C:0.01, G:0.17, T:0.45
Consensus pattern (45 bp):
TATTATGTATTTAACATATTGTTGAAAAATGAAATGTAGTTAAAT
Found at i:10651935 original size:21 final size:21
Alignment explanation
Indices: 10651896--10651937 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
10651886 TTTTCCTAGG
*
10651896 ATGTGAATTGGATGGAATTGA
1 ATGTGAATTGGATGAAATTGA
* *
10651917 ATGTGAATTGTATTAAATTGA
1 ATGTGAATTGGATGAAATTGA
10651938 TTTAAAGTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.26, T:0.38
Consensus pattern (21 bp):
ATGTGAATTGGATGAAATTGA
Found at i:10652431 original size:64 final size:64
Alignment explanation
Indices: 10652313--10652440 Score: 139
Period size: 64 Copynumber: 2.0 Consensus size: 64
10652303 GCGAGCATCC
* * ** * * * * * * *
10652313 TGATCGGTATTGATCCTGCATGTGTTGCGGATAAATCGCAGCTCTTTGTAAGCGTTCTGTTATA
1 TGATCGGTATAGATCCTGCATATAATGCAGACAAACCGCAACTCTTTATAAGCGTCCTGATATA
* *
10652377 TGATCGGTATAGATCCTGCATATAATGCAGACATACCGCAACTCTTTATGAGCGTCCTGATATA
1 TGATCGGTATAGATCCTGCATATAATGCAGACAAACCGCAACTCTTTATAAGCGTCCTGATATA
10652441 GGCTTTTTTT
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
64 51 1.00
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.34
Consensus pattern (64 bp):
TGATCGGTATAGATCCTGCATATAATGCAGACAAACCGCAACTCTTTATAAGCGTCCTGATATA
Found at i:10654372 original size:42 final size:41
Alignment explanation
Indices: 10654301--10654415 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 41
10654291 TGTTAACTCA
* * *
10654301 TATGAGTTTCCGTTTAACCCTAATAGGTTTCCATTCAGCTCT
1 TATGAGCTT-CGTTTAACCCTTATAGGTTTCCATTCAGCTCC
* * * * *
10654343 TTTGAGCTTCAGTTTAACCCTTATGGGTTTTCGTTTAGCTCC
1 TATGAGCTTC-GTTTAACCCTTATAGGTTTCCATTCAGCTCC
* *
10654385 TATGAGCTTTCGTTCAACCCTTAAAGGTTTC
1 TATGAGC-TTCGTTTAACCCTTATAGGTTTC
10654416 TGTTTAGCAC
Statistics
Matches: 58, Mismatches: 13, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
41 1 0.02
42 54 0.93
43 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.17, T:0.42
Consensus pattern (41 bp):
TATGAGCTTCGTTTAACCCTTATAGGTTTCCATTCAGCTCC
Found at i:10657217 original size:25 final size:25
Alignment explanation
Indices: 10657172--10657251 Score: 90
Period size: 25 Copynumber: 3.1 Consensus size: 25
10657162 TTCTTCTTTC
* * *
10657172 TTTCTTTCTCTCTTTTTTATTTTAT
1 TTTCTTTCTCTCCTTTCTATTTCAT
*
10657197 TTTCTTTCTTTCCTTTCTATTTCAT
1 TTTCTTTCTCTCCTTTCTATTTCAT
10657222 TTTGCTTTCTCT-CTTTCTTTATTTCAT
1 TTT-CTTTCTCTCCTTTC--TATTTCAT
10657249 TTT
1 TTT
10657252 GTTTTATTAT
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
25 29 0.62
26 7 0.15
27 11 0.23
ACGTcount: A:0.07, C:0.20, G:0.01, T:0.71
Consensus pattern (25 bp):
TTTCTTTCTCTCCTTTCTATTTCAT
Found at i:10657302 original size:26 final size:25
Alignment explanation
Indices: 10657255--10657303 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
10657245 TCATTTTGTT
* *
10657255 TTATTATATTTACTTTATTATTATA
1 TTATTATATTTACTTAAATATTATA
10657280 TTATATATATTTACTTAAATATTA
1 TTAT-TATATTTACTTAAATATTA
10657304 AGTAAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (25 bp):
TTATTATATTTACTTAAATATTATA
Found at i:10661566 original size:4 final size:4
Alignment explanation
Indices: 10661543--10661628 Score: 75
Period size: 4 Copynumber: 20.8 Consensus size: 4
10661533 TTATTATTAT
* * **
10661543 TTTA CTTTA TGTTCA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TATG TCCA
1 TTTA -TTTA T-TT-A TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* *
10661594 TTTT TTTA TGT- TTTA GTTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTT
10661629 GTTATTGTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 9
0.77 0.13 0.10
Matches are distributed among these distances:
3 2 0.03
4 50 0.76
5 12 0.18
6 2 0.03
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:10661579 original size:36 final size:37
Alignment explanation
Indices: 10661539--10661616 Score: 90
Period size: 36 Copynumber: 2.2 Consensus size: 37
10661529 ATTATTATTA
* *
10661539 TTATTTTACTT-TATGTTCATTTATTTATTTATTTA-T
1 TTATTTTACTTATATGTCCATTTATTTATGT-TTTAGT
* *
10661575 TTA-TTTATTTATATGTCCATTTTTTTATGTTTTAGT
1 TTATTTTACTTATATGTCCATTTATTTATGTTTTAGT
10661611 TTATTT
1 TTATTT
10661617 ATTTATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
35 10 0.29
36 23 0.66
37 2 0.06
ACGTcount: A:0.21, C:0.05, G:0.05, T:0.69
Consensus pattern (37 bp):
TTATTTTACTTATATGTCCATTTATTTATGTTTTAGT
Found at i:10661934 original size:108 final size:107
Alignment explanation
Indices: 10661746--10662167 Score: 543
Period size: 108 Copynumber: 4.0 Consensus size: 107
10661736 AAGGAAAATT
* * *
10661746 TTTCAAAGTAAGGCAATATTTTACGTTTGGAAATTTGAGAAAACGTGTCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTACGTTTGGAGATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* * * *
10661811 CGATTTTTTTCGTTCGACTAAATAGCTAAATATCCTTTTAAAT
66 CGA-TTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* *
10661854 TTTCAAAGTAAGGTAATATTTTACGTTTGGAGATTTGAGAAAACGTGCCCTAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTACGTTTGGAGATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
10661919 CGATTTTTTTCGTTCGACCAAATAGCTAAATATCCTTTTAAAA
66 CGA-TTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
* * * *
10661962 TTTC--A--AAGGTAATATTTTGCGTTTGGAGATTCGAGGAAACGTGCCATAATGTGCTGGGTTT
1 TTTCAAAGTAAGGCAATATTTTACGTTTGGAGATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
* *
10662023 CGATTTTCTCGCTCGA-CAAATAGCCGAATATCCTTTTAAAAA
66 CGATTTTCTCGTTCGACCAAATAGCCAAATATCCTTTT-AAAA
* * * * * *
10662065 TTTCAAAATAAGGCAATGTTTTGCGTTTGGTA-ATTCGAGGAAACGTGCTCTAATGTACTGGGTT
1 TTTCAAAGTAAGGCAATATTTTACGTTTGG-AGATTCGAGAAAACGTGCCCTAATGTGCTGGGTT
*
10662129 TCGA-TTTCTCGTTGGACCAAATAGCCAAATATCCTTTTA
65 TCGATTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTA
10662168 TATCTTAATC
Statistics
Matches: 286, Mismatches: 21, Indels: 16
0.89 0.07 0.05
Matches are distributed among these distances:
102 19 0.07
103 19 0.07
104 55 0.19
105 1 0.00
106 12 0.04
107 72 0.25
108 108 0.38
ACGTcount: A:0.29, C:0.15, G:0.19, T:0.37
Consensus pattern (107 bp):
TTTCAAAGTAAGGCAATATTTTACGTTTGGAGATTCGAGAAAACGTGCCCTAATGTGCTGGGTTT
CGATTTTCTCGTTCGACCAAATAGCCAAATATCCTTTTAAAA
Found at i:10662666 original size:18 final size:18
Alignment explanation
Indices: 10662643--10662681 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
10662633 AGTGGATCCA
10662643 CAATTATGGAGTTTGTCC
1 CAATTATGGAGTTTGTCC
10662661 CAATTATGGAGTTTGTCC
1 CAATTATGGAGTTTGTCC
10662679 CAA
1 CAA
10662682 ATGCATGAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (18 bp):
CAATTATGGAGTTTGTCC
Found at i:10674461 original size:31 final size:31
Alignment explanation
Indices: 10674425--10674486 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
10674415 AGATAATTTT
10674425 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
10674456 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
10674487 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:10674796 original size:3 final size:3
Alignment explanation
Indices: 10674788--10674819 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
10674778 ATCTATCATT
10674788 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10674820 TAACTAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10680663 original size:31 final size:31
Alignment explanation
Indices: 10680627--10680688 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
10680617 AGATAATTTT
10680627 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
10680658 AAAGAGTTTTATTAGGATTCAATTACTCTTG
1 AAAGAGTTTTATTAGGATTCAATTACTCTTG
10680689 TAATTTGCCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (31 bp):
AAAGAGTTTTATTAGGATTCAATTACTCTTG
Found at i:10682040 original size:11 final size:13
Alignment explanation
Indices: 10682010--10682034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10682000 TACAATAATT
10682010 ATATCATCAAAAC
1 ATATCATCAAAAC
10682023 ATATCATCAAAA
1 ATATCATCAAAA
10682035 TATCATTCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.20, G:0.00, T:0.24
Consensus pattern (13 bp):
ATATCATCAAAAC
Found at i:10683420 original size:5 final size:5
Alignment explanation
Indices: 10683410--10683467 Score: 109
Period size: 5 Copynumber: 11.8 Consensus size: 5
10683400 TTTGTTTTAT
10683410 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
10683460 TAT-A TATA
1 TATAA TATA
10683468 CTTAAATCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.08
5 48 0.92
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
TATAA
Found at i:10692726 original size:21 final size:21
Alignment explanation
Indices: 10692687--10692726 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10692677 TGTCCAAAGA
*
10692687 TTTAAAAAAATATTATTAATT
1 TTTAAAAAAAAATTATTAATT
10692708 TTTAAAATAAAAATT-TTAA
1 TTTAAAA-AAAAATTATTAA
10692727 ATTATAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTAAAAAAAAATTATTAATT
Found at i:10707318 original size:19 final size:20
Alignment explanation
Indices: 10707272--10707318 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
10707262 TTTATATTAT
* *
10707272 TAAAAAA-TATTAATTACCA
1 TAAAAAATTATCAATTACAA
10707291 TAAAAAATTATCAA-TACAA
1 TAAAAAATTATCAATTACAA
10707310 TAAAAAATT
1 TAAAAAATT
10707319 TCTAAATGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (20 bp):
TAAAAAATTATCAATTACAA
Found at i:10714321 original size:13 final size:13
Alignment explanation
Indices: 10714303--10714331 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
10714293 AAAATAAAAA
10714303 ATATATTTATTAT
1 ATATATTTATTAT
10714316 ATATATTTATTAT
1 ATATATTTATTAT
10714329 ATA
1 ATA
10714332 AATACTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATATATTTATTAT
Found at i:10714692 original size:31 final size:30
Alignment explanation
Indices: 10714611--10714702 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 30
10714601 TGGTGGAACG
*
10714611 TGAGGGGTCTAATTAAAATTTTCAAAA-TTT
1 TGAGAGGTCTAATTAAAATTTT-AAAATTTT
*
10714641 TGAGAGGCCTAA-TAAGAATTTTAAAATTTT
1 TGAGAGGTCTAATTAA-AATTTTAAAATTTT
*
10714671 ATGA-AGGATCTAATTATAATTTTTAAAATTTT
1 -TGAGAGG-TCTAATTA-AAATTTTAAAATTTT
10714703 GAAAGAATTG
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
29 7 0.13
30 22 0.42
31 7 0.13
32 15 0.29
33 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.14, T:0.41
Consensus pattern (30 bp):
TGAGAGGTCTAATTAAAATTTTAAAATTTT
Found at i:10714720 original size:61 final size:61
Alignment explanation
Indices: 10714618--10714765 Score: 172
Period size: 61 Copynumber: 2.4 Consensus size: 61
10714608 ACGTGAGGGG
* ** *
10714618 TCTAATTAAAATTTTCAAAATTTTGAGAGGCCTAATAAGAA-TTTTAAAATTTTATGAAGGA
1 TCTAATTAAAATTTTCAAAATTTTGAAAGAACTAATAAGAATTTTTAAAATTTTA-AAAGGA
* * * * *
10714679 TCTAATTATAATTTTTAAAATTTTGAAAGAATTGATGAGAATTTTTAAAATTTTAAAAGGA
1 TCTAATTAAAATTTTCAAAATTTTGAAAGAACTAATAAGAATTTTTAAAATTTTAAAAGGA
* *
10714740 ACTAATTAAAATTTTCAGAACTTTTG
1 TCTAATTAAAATTTTCA-AAATTTTG
10714766 GGGAGCTTAA
Statistics
Matches: 72, Mismatches: 13, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
61 52 0.72
62 20 0.28
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (61 bp):
TCTAATTAAAATTTTCAAAATTTTGAAAGAACTAATAAGAATTTTTAAAATTTTAAAAGGA
Found at i:10717450 original size:18 final size:18
Alignment explanation
Indices: 10717429--10717489 Score: 56
Period size: 18 Copynumber: 3.6 Consensus size: 18
10717419 TTGAAGGCGA
10717429 GTCTATTTTTTTATTTTT
1 GTCTATTTTTTTATTTTT
* *
10717447 GTCTATTCTTTT-TTGTT
1 GTCTATTTTTTTATTTTT
*
10717464 -T-TATTTTTTTATCTTT
1 GTCTATTTTTTTATTTTT
* *
10717480 ATTTATTTTT
1 GTCTATTTTT
10717490 CCTTTAAAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 8 0.23
16 4 0.11
17 5 0.14
18 18 0.51
ACGTcount: A:0.11, C:0.07, G:0.05, T:0.77
Consensus pattern (18 bp):
GTCTATTTTTTTATTTTT
Found at i:10718105 original size:3 final size:3
Alignment explanation
Indices: 10718099--10718134 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
10718089 TTTGACATTG
10718099 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10718135 AATATTCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10718216 original size:50 final size:48
Alignment explanation
Indices: 10718146--10718242 Score: 117
Period size: 50 Copynumber: 2.0 Consensus size: 48
10718136 ATATTCATAT
*
10718146 GCATGGTTCTTATACAATATATATATGT-ATTTTTATATATAGTATACAC
1 GCATGGTTCTTATACAATATATATAGGTAATTTTT-T-TATAGTATACAC
*
10718195 GCATGGTTTCTTTTA-ATATATATATAGGTACATTTTTTTATAGTATAC
1 GCATGG-TTCTTATACA-ATATATATAGGTA-ATTTTTTTATAGTATAC
10718243 GGATATTTTA
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
49 7 0.17
50 28 0.67
51 1 0.02
52 6 0.14
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.47
Consensus pattern (48 bp):
GCATGGTTCTTATACAATATATATAGGTAATTTTTTTATAGTATACAC
Found at i:10718727 original size:13 final size:14
Alignment explanation
Indices: 10718709--10718737 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10718699 ATTTCAAATT
10718709 TACTTGTATAT-TA
1 TACTTGTATATATA
10718722 TACTTGTATATATA
1 TACTTGTATATATA
10718736 TA
1 TA
10718738 TATATTGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (14 bp):
TACTTGTATATATA
Found at i:10718745 original size:17 final size:18
Alignment explanation
Indices: 10718715--10718756 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
10718705 AATTTACTTG
*
10718715 TATAT-TATACTTGTATA
1 TATATATATACTTGTAAA
10718732 TATATATATA-TTGTAAA
1 TATATATATACTTGTAAA
*
10718749 TACATATA
1 TATATATA
10718757 CACATGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (18 bp):
TATATATATACTTGTAAA
Done.