Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002210.1 Hibiscus syriacus cultivar Beakdansim tig00004502_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: 328873
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:3130 original size:24 final size:24
Alignment explanation
Indices: 3102--3210 Score: 137
Period size: 24 Copynumber: 4.5 Consensus size: 24
3092 GAATGTTTTA
*
3102 TCTGATTTCCGATTTGAATTCTGT
1 TCTGATTTCTGATTTGAATTCTGT
*
3126 TCTGATTTCTGATCTGAATTCTGT
1 TCTGATTTCTGATTTGAATTCTGT
* * *
3150 TCTGATTTCTGATATGGATTATGT
1 TCTGATTTCTGATTTGAATTCTGT
* * *
3174 TATGATATCTGATTTGAATTCTAT
1 TCTGATTTCTGATTTGAATTCTGT
*
3198 TTTGATTTCTGAT
1 TCTGATTTCTGAT
3211 ATCTCCATTT
Statistics
Matches: 72, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 72 1.00
ACGTcount: A:0.20, C:0.12, G:0.17, T:0.51
Consensus pattern (24 bp):
TCTGATTTCTGATTTGAATTCTGT
Found at i:3141 original size:12 final size:12
Alignment explanation
Indices: 3101--3162 Score: 70
Period size: 12 Copynumber: 5.2 Consensus size: 12
3091 TGAATGTTTT
*
3101 ATCTGATTTCCG
1 ATCTGATTTCTG
* *
3113 ATTTGAATTCTG
1 ATCTGATTTCTG
*
3125 TTCTGATTTCTG
1 ATCTGATTTCTG
*
3137 ATCTGAATTCTG
1 ATCTGATTTCTG
*
3149 TTCTGATTTCTG
1 ATCTGATTTCTG
3161 AT
1 AT
3163 ATGGATTATG
Statistics
Matches: 39, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
12 39 1.00
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (12 bp):
ATCTGATTTCTG
Found at i:3396 original size:13 final size:13
Alignment explanation
Indices: 3378--3413 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
3368 TAGTGTTATG
3378 TTTTTAAAAATAT
1 TTTTTAAAAATAT
3391 TTTTTAAAAATAT
1 TTTTTAAAAATAT
*
3404 ATTTTAAAAA
1 TTTTTAAAAA
3414 GATCTGTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTTAAAAATAT
Found at i:7935 original size:2 final size:2
Alignment explanation
Indices: 7928--8242 Score: 310
Period size: 2 Copynumber: 162.5 Consensus size: 2
7918 TGATTACCAG
*
7928 CT CT CT CT -T CT CT CT CT CC CT CT CT CT -T CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * *
7968 AT CT CT CT TT CT CT CT CT CT CT CT CT CT CC CT CC CT C- CT CC
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * * * *
8009 CT CC CC CC CC CT CT CT CC CT CC CT CC CT -T C- CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * * *
8049 CC CT C- CAT C- CT TT CT CT CT CT CT CT CT CT CT CC CT CC CT CC
1 CT CT CT C-T CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * *
8090 CT CC CT CC CT CT CC CT CT CT CT CT CT CT CT C- CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
* * * *
8131 CT CT CT CC CT CT CT CT CT CC CT CT CT CT CT CT CT CC CT CT CC
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
*
8173 CT CT CC CT CT CT CT CT CT CT CT CT CT CT CT CT CT C- CT C- CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
8213 CT CT CT CT CT CT C- CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
8243 GTTCTTTGTT
Statistics
Matches: 255, Mismatches: 46, Indels: 24
0.78 0.14 0.07
Matches are distributed among these distances:
1 11 0.04
2 243 0.95
3 1 0.00
ACGTcount: A:0.01, C:0.57, G:0.00, T:0.42
Consensus pattern (2 bp):
CT
Found at i:8279 original size:31 final size:31
Alignment explanation
Indices: 8241--8329 Score: 160
Period size: 31 Copynumber: 2.9 Consensus size: 31
8231 TCTCTCTCTC
8241 TCGTTCTTTGTTGAATATATGTGTACAACTA
1 TCGTTCTTTGTTGAATATATGTGTACAACTA
*
8272 TCGTTCTTTGTTGAATATATGTGTACAACTC
1 TCGTTCTTTGTTGAATATATGTGTACAACTA
*
8303 TCGTTCATTGTTGAATATATGTGTACA
1 TCGTTCTTTGTTGAATATATGTGTACA
8330 GTCTTTCTCT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 56 1.00
ACGTcount: A:0.25, C:0.13, G:0.17, T:0.45
Consensus pattern (31 bp):
TCGTTCTTTGTTGAATATATGTGTACAACTA
Found at i:9610 original size:14 final size:14
Alignment explanation
Indices: 9591--9623 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
9581 CGTTTGTGAA
9591 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
9605 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
9619 CGTTC
1 CGTTC
9624 ATTTATGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.06, C:0.18, G:0.27, T:0.48
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:9629 original size:14 final size:14
Alignment explanation
Indices: 9591--9632 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
9581 CGTTTGTGAA
*
9591 CGTTCGGTTATGTT
1 CGTTCAGTTATGTT
*
9605 CGTTCGGTTATGTT
1 CGTTCAGTTATGTT
*
9619 CGTTCATTTATGTT
1 CGTTCAGTTATGTT
9633 TAACTCAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.10, C:0.14, G:0.24, T:0.52
Consensus pattern (14 bp):
CGTTCAGTTATGTT
Found at i:10418 original size:16 final size:16
Alignment explanation
Indices: 10391--10464 Score: 80
Period size: 16 Copynumber: 4.8 Consensus size: 16
10381 CCAACGTTTA
* *
10391 TGTTCGTTTATGTTCT
1 TGTTCATTTATGTTCG
*
10407 TTTTCATTTATGTTCG
1 TGTTCATTTATGTTCG
*
10423 TGTTCGTTTATGTTCG
1 TGTTCATTTATGTTCG
**
10439 TGTTTGTTTATGTTCG
1 TGTTCATTTATGTTCG
10455 T-TT-ATTTATG
1 TGTTCATTTATG
10465 AAATGAACGA
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
14 6 0.12
15 2 0.04
16 43 0.84
ACGTcount: A:0.09, C:0.09, G:0.19, T:0.62
Consensus pattern (16 bp):
TGTTCATTTATGTTCG
Found at i:10432 original size:32 final size:32
Alignment explanation
Indices: 10391--10455 Score: 96
Period size: 32 Copynumber: 2.0 Consensus size: 32
10381 CCAACGTTTA
*
10391 TGTTCGTTTATGTTC-TTTTTCATTTATGTTCG
1 TGTTCGTTTATGTTCGTGTTT-ATTTATGTTCG
*
10423 TGTTCGTTTATGTTCGTGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCGTGTTTATTTATGTTCG
10455 T
1 T
10456 TTATTTATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 26 0.87
33 4 0.13
ACGTcount: A:0.08, C:0.11, G:0.20, T:0.62
Consensus pattern (32 bp):
TGTTCGTTTATGTTCGTGTTTATTTATGTTCG
Found at i:10545 original size:16 final size:16
Alignment explanation
Indices: 10524--10556 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
10514 AAAAAAAATT
10524 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
10540 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
10556 T
1 T
10557 TTATTTATTA
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:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:20404 original size:27 final size:27
Alignment explanation
Indices: 20374--20447 Score: 103
Period size: 27 Copynumber: 2.7 Consensus size: 27
20364 ACACTACCAT
*
20374 TATAAATCTCCACCTCCTCCTTATGTC
1 TATAAATCTCCACCACCTCCTTATGTC
* *
20401 TATAACTCTCAACCACCTCCTTATGTC
1 TATAAATCTCCACCACCTCCTTATGTC
* *
20428 TACAAGTCTCCACCACCTCC
1 TATAAATCTCCACCACCTCC
20448 AGTCCACTCA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.24, C:0.41, G:0.04, T:0.31
Consensus pattern (27 bp):
TATAAATCTCCACCACCTCCTTATGTC
Found at i:20498 original size:48 final size:48
Alignment explanation
Indices: 20428--20828 Score: 487
Period size: 48 Copynumber: 8.4 Consensus size: 48
20418 TCCTTATGTC
* * * * *
20428 TACAAGTCTCCACCACCTCCAGTCCACTCACAACTTCCACCCTACATT
1 TACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCTCCCTACATT
* * * * * *
20476 TACAAGTCTCCTCCTCCACCAGTTCACTCTCCACCTCCTCCATACGTC
1 TACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCTCCCTACATT
* * * * *
20524 TATAAATCACCACCACCACCAGTCCACTCACCTCCTCCTCCCTACATT
1 TACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCTCCCTACATT
* * *
20572 TACAAGTCTCCACCACCTCCAGTCCACTCCCCACCTCCTCCCTACATC
1 TACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCTCCCTACATT
* * * *
20620 TACAAGTCTCCTCCTCCACCAGTCCACTCCCCACCTCCTCCCTACATC
1 TACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCTCCCTACATT
* * * *
20668 TACAAGTCACCACCACCACCAGTCCATTCTCCTCCTCCTCCATACATT
1 TACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCTCCCTACATT
* * *
20716 TACAAGTCTCCACCACCTCCAGTTCACTCTCCACCTCCTCCTTACATT
1 TACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCTCCCTACATT
* * *
20764 TACAAGTCTCCTCCACCACCAGTCCACTCTCCACCTCCCCCCTATATT
1 TACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCTCCCTACATT
* *
20812 TACAACTCTCCTCCACC
1 TACAAGTCTCCACCACC
20829 TCCTCCCTAC
Statistics
Matches: 300, Mismatches: 53, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
48 300 1.00
ACGTcount: A:0.22, C:0.49, G:0.04, T:0.24
Consensus pattern (48 bp):
TACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCTCCCTACATT
Found at i:20678 original size:24 final size:24
Alignment explanation
Indices: 20603--20678 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
20593 GTCCACTCCC
20603 CACCTCCTCCCTACATCTACAAGT
1 CACCTCCTCCCTACATCTACAAGT
* * ****
20627 CTCCTCCT-CC-ACCAGTCCACTCCC
1 CACCTCCTCCCTA-CA-TCTACAAGT
20651 CACCTCCTCCCTACATCTACAAGT
1 CACCTCCTCCCTACATCTACAAGT
20675 CACC
1 CACC
20679 ACCACCACCA
Statistics
Matches: 36, Mismatches: 12, Indels: 8
0.64 0.21 0.14
Matches are distributed among these distances:
22 1 0.03
23 4 0.11
24 26 0.72
25 4 0.11
26 1 0.03
ACGTcount: A:0.21, C:0.53, G:0.04, T:0.22
Consensus pattern (24 bp):
CACCTCCTCCCTACATCTACAAGT
Found at i:20680 original size:27 final size:27
Alignment explanation
Indices: 20602--20681 Score: 64
Period size: 27 Copynumber: 3.2 Consensus size: 27
20592 AGTCCACTCC
*
20602 CCACCTCCTCCCTACATCTACAAGTCT
1 CCACCTCCTCCCTACATCTACAAGTCA
* * * * *
20629 CCTCCTCC-ACC-A-GTC--C-ACTCC
1 CCACCTCCTCCCTACATCTACAAGTCA
20650 CCACCTCCTCCCTACATCTACAAGTCA
1 CCACCTCCTCCCTACATCTACAAGTCA
20677 CCACC
1 CCACC
20682 ACCACCAGTC
Statistics
Matches: 37, Mismatches: 10, Indels: 12
0.63 0.17 0.20
Matches are distributed among these distances:
21 10 0.27
22 3 0.08
23 1 0.03
24 4 0.11
25 1 0.03
26 3 0.08
27 15 0.41
ACGTcount: A:0.21, C:0.54, G:0.04, T:0.21
Consensus pattern (27 bp):
CCACCTCCTCCCTACATCTACAAGTCA
Found at i:20828 original size:30 final size:30
Alignment explanation
Indices: 20792--20861 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
20782 CCAGTCCACT
*
20792 CTCCACCTCCCCCCTATATTTACAACTCTC
1 CTCCACCTCCCCCCTACATTTACAACTCTC
* *
20822 CTCCACCTCCTCCCTACATTTACAAGTCTC
1 CTCCACCTCCCCCCTACATTTACAACTCTC
*
20852 CACCACCTCC
1 CTCCACCTCC
20862 AGTCCACTCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 36 1.00
ACGTcount: A:0.20, C:0.51, G:0.01, T:0.27
Consensus pattern (30 bp):
CTCCACCTCCCCCCTACATTTACAACTCTC
Found at i:20828 original size:144 final size:144
Alignment explanation
Indices: 20428--20816 Score: 589
Period size: 144 Copynumber: 2.7 Consensus size: 144
20418 TCCTTATGTC
* * *
20428 TACAAGTCTCCACCACCTCCAGTCCACTCACAACTTCCACCCTACATTTACAAGTCTCCTCCTCC
1 TACAAGTCTCCACCACCTCCAGTCCACTCACCACCTCCTCCCTACATTTACAAGTCTCCTCCTCC
* * * *
20493 ACCAGTTCACTCTCCACCTCCTCCATACGTCTATAAATCACCACCACCACCAGTCCACTCACCTC
66 ACCAGTCCACTCTCCACCTCCTCCCTACATCTACAAATCACCACCACCACCAGTCCACTCACCTC
*
20558 CTCCTCCCTACATT
131 CTCCTCCATACATT
* *
20572 TACAAGTCTCCACCACCTCCAGTCCACTCCCCACCTCCTCCCTACATCTACAAGTCTCCTCCTCC
1 TACAAGTCTCCACCACCTCCAGTCCACTCACCACCTCCTCCCTACATTTACAAGTCTCCTCCTCC
* * * *
20637 ACCAGTCCACTCCCCACCTCCTCCCTACATCTACAAGTCACCACCACCACCAGTCCATTCTCCTC
66 ACCAGTCCACTCTCCACCTCCTCCCTACATCTACAAATCACCACCACCACCAGTCCACTCACCTC
20702 CTCCTCCATACATT
131 CTCCTCCATACATT
* * * *
20716 TACAAGTCTCCACCACCTCCAGTTCACTCTCCACCTCCTCCTTACATTTACAAGTCTCCTCCACC
1 TACAAGTCTCCACCACCTCCAGTCCACTCACCACCTCCTCCCTACATTTACAAGTCTCCTCCTCC
* * *
20781 ACCAGTCCACTCTCCACCTCCCCCCTATATTTACAA
66 ACCAGTCCACTCTCCACCTCCTCCCTACATCTACAA
20817 CTCTCCTCCA
Statistics
Matches: 222, Mismatches: 23, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 222 1.00
ACGTcount: A:0.23, C:0.49, G:0.04, T:0.24
Consensus pattern (144 bp):
TACAAGTCTCCACCACCTCCAGTCCACTCACCACCTCCTCCCTACATTTACAAGTCTCCTCCTCC
ACCAGTCCACTCTCCACCTCCTCCCTACATCTACAAATCACCACCACCACCAGTCCACTCACCTC
CTCCTCCATACATT
Found at i:20843 original size:78 final size:78
Alignment explanation
Indices: 20744--20903 Score: 257
Period size: 78 Copynumber: 2.1 Consensus size: 78
20734 CCAGTTCACT
* * *
20744 CTCCACCTCCTCCTTACATTTACAAGTCTCCTCCACCACCAGTCCACTCTCCACCTCCCCCCTAT
1 CTCCACCTCCTCCCTACATTTACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCCCCCTAC
20809 ATTTACAACTCTC
66 ATTTACAACTCTC
* * *
20822 CTCCACCTCCTCCCTACATTTACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCTTAC
1 CTCCACCTCCTCCCTACATTTACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCCCCCTAC
*
20887 ATTTACAAGTCTC
66 ATTTACAACTCTC
20900 CTCC
1 CTCC
20904 GCCACCAGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.20, C:0.49, G:0.03, T:0.28
Consensus pattern (78 bp):
CTCCACCTCCTCCCTACATTTACAAGTCTCCACCACCACCAGTCCACTCTCCACCTCCCCCCTAC
ATTTACAACTCTC
Found at i:20866 original size:174 final size:173
Alignment explanation
Indices: 20646--20975 Score: 489
Period size: 174 Copynumber: 1.9 Consensus size: 173
20636 CACCAGTCCA
* *
20646 CTCCCCACCTCCTCCCTACATCTACAAGTCACCACCACCACCAGTCCATTCTCCTCCTCCTCCAT
1 CTCCCCACCTCCTCCCTACATCTACAAGTCACCACCACCACCAGTCCACTCTCCACCTCCTCCAT
* * * * *
20711 ACATTTACAAGTCTCCACCACCTCCAGTTCACTCTCCACCTCCTCCTTACATTTACAAGTCTCCT
66 ACATTTACAAGTCTCCACCACCACCAGTACACTCACCACCTCCTCCCTACATTTACAAGTCTCCA
*
20776 CCACCACCAGTCCACTCTCCACCTCCCCCCTATATTTACAACT
131 CCACCACCAGTCCACTCCCCACCTCCCCCCTATATTTACAACT
* * * *
20819 CTCCTCCACCTCCTCCCTACATTTACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCT
1 CTCC-CCACCTCCTCCCTACATCTACAAGTCACCACCACCACCAGTCCACTCTCCACCTCCTCCA
* * * *
20884 TACATTTACAAGTCTCCTCCGCCACCAGTACACTCACCTCCTCCTCCCTATATTTACAAGTCTCC
65 TACATTTACAAGTCTCCACCACCACCAGTACACTCACCACCTCCTCCCTACATTTACAAGTCTCC
* *
20949 ACCGCCACCAGTCCACTCCCCGCCTCC
130 ACCACCACCAGTCCACTCCCCACCTCC
20976 TTATGCCTAT
Statistics
Matches: 138, Mismatches: 18, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
173 4 0.03
174 134 0.97
ACGTcount: A:0.21, C:0.49, G:0.05, T:0.25
Consensus pattern (173 bp):
CTCCCCACCTCCTCCCTACATCTACAAGTCACCACCACCACCAGTCCACTCTCCACCTCCTCCAT
ACATTTACAAGTCTCCACCACCACCAGTACACTCACCACCTCCTCCCTACATTTACAAGTCTCCA
CCACCACCAGTCCACTCCCCACCTCCCCCCTATATTTACAACT
Found at i:20874 original size:48 final size:48
Alignment explanation
Indices: 20822--20976 Score: 220
Period size: 48 Copynumber: 3.2 Consensus size: 48
20812 TACAACTCTC
* *
20822 CTCCACCTCCTCCCTACATTTACAAGTCTCCACCACCTCCAGTCCACT
1 CTCCACCTCCTCCCTACATTTACAAGTCTCCACCGCCACCAGTCCACT
* * *
20870 CTCCACCTCCTCCTTACATTTACAAGTCTCCTCCGCCACCAGTACACT
1 CTCCACCTCCTCCCTACATTTACAAGTCTCCACCGCCACCAGTCCACT
* * *
20918 CACCTCCTCCTCCCTATATTTACAAGTCTCCACCGCCACCAGTCCACT
1 CTCCACCTCCTCCCTACATTTACAAGTCTCCACCGCCACCAGTCCACT
* *
20966 CCCCGCCTCCT
1 CTCCACCTCCT
20977 TATGCCTATA
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.19, C:0.50, G:0.06, T:0.25
Consensus pattern (48 bp):
CTCCACCTCCTCCCTACATTTACAAGTCTCCACCGCCACCAGTCCACT
Found at i:20911 original size:126 final size:126
Alignment explanation
Indices: 20696--20948 Score: 425
Period size: 126 Copynumber: 2.0 Consensus size: 126
20686 CCAGTCCATT
* *
20696 CTCCTCCTCCTCCATACATTTACAAGTCTCCACCACCTCCAGTTCACTCTCCACCTCCTCCTTAC
1 CTCCACCTCCTCCATACATTTACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCTTAC
* *
20761 ATTTACAAGTCTCCTCCACCACCAGTCCACTCTCCACCTCCCCCCTATATTTACAACTCTC
66 ATTTACAAGTCTCCTCCACCACCAGTACACTCACCACCTCCCCCCTATATTTACAACTCTC
*
20822 CTCCACCTCCTCCCTACATTTACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCTTAC
1 CTCCACCTCCTCCATACATTTACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCTTAC
* * * *
20887 ATTTACAAGTCTCCTCCGCCACCAGTACACTCACCTCCTCCTCCCTATATTTACAAGTCTC
66 ATTTACAAGTCTCCTCCACCACCAGTACACTCACCACCTCCCCCCTATATTTACAACTCTC
20948 C
1 C
20949 ACCGCCACCA
Statistics
Matches: 118, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
126 118 1.00
ACGTcount: A:0.21, C:0.47, G:0.04, T:0.28
Consensus pattern (126 bp):
CTCCACCTCCTCCATACATTTACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCTTAC
ATTTACAAGTCTCCTCCACCACCAGTACACTCACCACCTCCCCCCTATATTTACAACTCTC
Found at i:24075 original size:27 final size:27
Alignment explanation
Indices: 24035--24120 Score: 145
Period size: 27 Copynumber: 3.2 Consensus size: 27
24025 CTCAACATCT
* * *
24035 CCTCCCTATCTCTATAAGTCTCCACCA
1 CCTCCTTATGTCTACAAGTCTCCACCA
24062 CCTCCTTATGTCTACAAGTCTCCACCA
1 CCTCCTTATGTCTACAAGTCTCCACCA
24089 CCTCCTTATGTCTACAAGTCTCCACCA
1 CCTCCTTATGTCTACAAGTCTCCACCA
24116 CCTCC
1 CCTCC
24121 AGTCCACTCT
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.21, C:0.44, G:0.06, T:0.29
Consensus pattern (27 bp):
CCTCCTTATGTCTACAAGTCTCCACCA
Found at i:24156 original size:48 final size:48
Alignment explanation
Indices: 24101--24360 Score: 297
Period size: 48 Copynumber: 5.4 Consensus size: 48
24091 TCCTTATGTC
24101 TACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCC-CCGCTACATT
1 TACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCC-CTACATT
* *
24149 TATAAGTCTCCACCACCTCCAGTCCACTCACCACCTCCTCCCTACATT
1 TACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTACATT
* * * * * * ** *
24197 TACAAGTCTCCTCCTCCACCAGTTCACTCTCCTCCTCCTCCATATGTC
1 TACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTACATT
* * * * * * * *
24245 TATAAATCACCACCAACACCAGTTCACTCACCTCCTCCTCCCTACATT
1 TACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTACATT
* **
24293 TACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCTTACAAC
1 TACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTACATT
*
24341 TACAAGTCTCCTCCACCTCC
1 TACAAGTCTCCACCACCTCC
24361 TCCCTACGTT
Statistics
Matches: 175, Mismatches: 36, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
48 173 0.99
49 2 0.01
ACGTcount: A:0.22, C:0.48, G:0.05, T:0.25
Consensus pattern (48 bp):
TACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCCTACATT
Found at i:24282 original size:144 final size:144
Alignment explanation
Indices: 24080--24354 Score: 390
Period size: 144 Copynumber: 1.9 Consensus size: 144
24070 TGTCTACAAG
* * * * * *
24080 TCTCCACCACCTCCTTATGTCTACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCC-CCGCT
1 TCTCCACCACCTCCATATGTCTACAAATCACCACCAACACCAGTCCACTCACCACCTCCTCC-CT
* **
24144 ACATTTATAAGTCTCCACCACCTCCAGTCCACTCACCACCTCCTCCCTACATTTACAAGTCTCCT
65 ACATTTACAAGTCTCCACCACCTCCAGTCCACTCACCACCTCCTCCCTACAACTACAAGTCTCCT
24209 CCTCCACCAGTTCAC
130 CCTCCACCAGTTCAC
* * * * *
24224 TCTCCTCCTCCTCCATATGTCTATAAATCACCACCAACACCAGTTCACTCACCTCCTCCTCCCTA
1 TCTCCACCACCTCCATATGTCTACAAATCACCACCAACACCAGTCCACTCACCACCTCCTCCCTA
* *
24289 CATTTACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCTTACAACTACAAGTCTCCTC
66 CATTTACAAGTCTCCACCACCTCCAGTCCACTCACCACCTCCTCCCTACAACTACAAGTCTCCTC
24354 C
131 C
24355 ACCTCCTCCC
Statistics
Matches: 114, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
144 112 0.98
145 2 0.02
ACGTcount: A:0.22, C:0.47, G:0.05, T:0.26
Consensus pattern (144 bp):
TCTCCACCACCTCCATATGTCTACAAATCACCACCAACACCAGTCCACTCACCACCTCCTCCCTA
CATTTACAAGTCTCCACCACCTCCAGTCCACTCACCACCTCCTCCCTACAACTACAAGTCTCCTC
CTCCACCAGTTCAC
Found at i:24357 original size:30 final size:30
Alignment explanation
Indices: 24321--24384 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
24311 CCAGTCCACT
*
24321 CTCCACCTCCTCCTTACAACTACAAGTCTC
1 CTCCACCTCCTCCCTACAACTACAAGTCTC
***
24351 CTCCACCTCCTCCCTACGTTTACAAGTCTC
1 CTCCACCTCCTCCCTACAACTACAAGTCTC
24381 CTCC
1 CTCC
24385 TCCACTAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.19, C:0.48, G:0.05, T:0.28
Consensus pattern (30 bp):
CTCCACCTCCTCCCTACAACTACAAGTCTC
Found at i:24383 original size:24 final size:23
Alignment explanation
Indices: 24356--24429 Score: 67
Period size: 24 Copynumber: 3.1 Consensus size: 23
24346 GTCTCCTCCA
24356 CCTCCTCCCTACGTTTACAAGTCT
1 CCTCCTCCCTA-GTTTACAAGTCT
* **** *
24380 CCTCCTCCACTAGTTCACTCCCCA
1 CCTCCTCC-CTAGTTTACAAGTCT
24404 CCTCCTCCCTATGTTTACAAGTCT
1 CCTCCTCCCTA-GTTTACAAGTCT
24428 CC
1 CC
24430 ACCACCTTCA
Statistics
Matches: 36, Mismatches: 12, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
23 3 0.08
24 30 0.83
25 3 0.08
ACGTcount: A:0.16, C:0.46, G:0.07, T:0.31
Consensus pattern (23 bp):
CCTCCTCCCTAGTTTACAAGTCT
Found at i:24423 original size:78 final size:78
Alignment explanation
Indices: 24273--24436 Score: 202
Period size: 78 Copynumber: 2.1 Consensus size: 78
24263 CCAGTTCACT
* * * *
24273 CACCTCCTCCTCCCTACATTTACAAGTCTCCACCACCTCCAGTCCACTCTCCACCTCCTCCTTAC
1 CACCACCTCCTCCCTACATTTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCCTAC
24338 AACTACAAGTCTC
66 AACTACAAGTCTC
* * * * * * *
24351 CTCCACCTCCTCCCTACGTTTACAAGTCTCCTCCTCCACTAGTTCACTCCCCACCTCCTCCCTAT
1 CACCACCTCCTCCCTACATTTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCCTAC
***
24416 GTTTACAAGTCTC
66 AACTACAAGTCTC
24429 CACCACCT
1 CACCACCT
24437 TCAATCCATT
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
78 71 1.00
ACGTcount: A:0.20, C:0.48, G:0.05, T:0.27
Consensus pattern (78 bp):
CACCACCTCCTCCCTACATTTACAAGTCTCCACCACCACCAGTCCACTCCCCACCTCCTCCCTAC
AACTACAAGTCTC
Found at i:24458 original size:174 final size:174
Alignment explanation
Indices: 24177--24534 Score: 430
Period size: 174 Copynumber: 2.1 Consensus size: 174
24167 CCAGTCCACT
* *
24177 CACCACCTCCTCCCTACATTTACAAGTCTCCTCCTCCACCAGTTCACTCTCCTCCTCCTCCATAT
1 CACCACCTCCTCCCTACATTTACAAGTCTCCTCCTCCACCAGTTCACTCCCCACCTCCTCCATAT
* * *
24242 GTCTATAAATCACCACCAACACCAGTTCACTCACCTCCTCCTCCCTACATTTACAAGTCTCCACC
66 GTCTACAAATCACCACCAACACCAATCCACTCACCTCCTCCTCCCTACATTTACAAGTCTCCACC
* * *
24307 ACCTCCAGTCCACTCTCCACCTCCTCCTTACAACTACAAGTCTC
131 ACCACCAGTCCACTCCCCACCTCCTCCCTACAACTACAAGTCTC
* * * *
24351 CTCCACCTCCTCCCTACGTTTACAAGTCTCCTCCTCCACTAGTTCACTCCCCACCTCCTCCCTAT
1 CACCACCTCCTCCCTACATTTACAAGTCTCCTCCTCCACCAGTTCACTCCCCACCTCCTCCATAT
* * * * ** *** **
24416 GTTTACAAGTCTCCACCACCTTCAATCCA-TTTTCTACCTCCTCCCTATGTTTACAAGTCTCCAC
66 GTCTACAAATCACCACCAACACCAATCCACTCACCT-CCTCCTCCCTACATTTACAAGTCTCCAC
* * * ****
24480 CATCACCGGTTCACTCCCCACCTCCTCCCTATGTTTACAAGTCTC
130 CACCACCAGTCCACTCCCCACCTCCTCCCTACAACTACAAGTCTC
24525 CACCACCTCC
1 CACCACCTCC
24535 AATCCATTCT
Statistics
Matches: 152, Mismatches: 31, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
173 3 0.02
174 149 0.98
ACGTcount: A:0.21, C:0.46, G:0.05, T:0.28
Consensus pattern (174 bp):
CACCACCTCCTCCCTACATTTACAAGTCTCCTCCTCCACCAGTTCACTCCCCACCTCCTCCATAT
GTCTACAAATCACCACCAACACCAATCCACTCACCTCCTCCTCCCTACATTTACAAGTCTCCACC
ACCACCAGTCCACTCCCCACCTCCTCCCTACAACTACAAGTCTC
Found at i:24652 original size:78 final size:78
Alignment explanation
Indices: 24589--24756 Score: 212
Period size: 78 Copynumber: 2.2 Consensus size: 78
24579 CTCCAGTCCA
* * *
24589 CTCC-CCACCTCCTCCCTATGTTTACAAGTTTCCACCACCACCAGTCCACTCCCCACCTCCTCCA
1 CTCCTCCACCTCCTCCCTATATTTACAAGTCTCCACCACCACCAGTCAACTCCCCACCTCCTCCA
**
24653 TACATTTACAAGT
66 TACACCTACAAGT
* * * *
24666 CTCCTCCACCTCCTCCCTATATTTACAAGTCTCCACCGCCTCCAGTGAACTCCCCACCTCCTCCT
1 CTCCTCCACCTCCTCCCTATATTTACAAGTCTCCACCACCACCAGTCAACTCCCCACCTCCTCCA
** *
24731 TATGCCTACAAAT
66 TACACCTACAAGT
*
24744 CCCCTCCACCTCC
1 CTCCTCCACCTCC
24757 CTCACATCCC
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
77 4 0.05
78 73 0.95
ACGTcount: A:0.20, C:0.49, G:0.05, T:0.26
Consensus pattern (78 bp):
CTCCTCCACCTCCTCCCTATATTTACAAGTCTCCACCACCACCAGTCAACTCCCCACCTCCTCCA
TACACCTACAAGT
Found at i:24675 original size:30 final size:29
Alignment explanation
Indices: 24637--24708 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 29
24627 CACCAGTCCA
24637 CTCCCCACCTCCTCCATACATTTACAAGT
1 CTCCCCACCTCCTCCATACATTTACAAGT
* *
24666 CTCCTCCACCTCCTCCCTATATTTACAAGT
1 CTCC-CCACCTCCTCCATACATTTACAAGT
*
24696 CTCCACCGCCTCC
1 CTCC-CCACCTCC
24709 AGTGAACTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.19, C:0.49, G:0.04, T:0.28
Consensus pattern (29 bp):
CTCCCCACCTCCTCCATACATTTACAAGT
Found at i:24675 original size:48 final size:48
Alignment explanation
Indices: 24348--24675 Score: 413
Period size: 48 Copynumber: 6.8 Consensus size: 48
24338 AACTACAAGT
* * * * *
24348 CTCCTCCACCTCCTCCCTACGTTTACAAGTCTCCTCCTCCACTAGTTCA
1 CTCC-CCACCTCCTCCCTATGTTTACAAGTCTCCACCACCACCAGTCCA
** *
24397 CTCCCCACCTCCTCCCTATGTTTACAAGTCTCCACCACCTTCAATCCA
1 CTCCCCACCTCCTCCCTATGTTTACAAGTCTCCACCACCACCAGTCCA
* ** * * * *
24445 TTTTCTACCTCCTCCCTATGTTTACAAGTCTCCACCATCACCGGTTCA
1 CTCCCCACCTCCTCCCTATGTTTACAAGTCTCCACCACCACCAGTCCA
* *
24493 CTCCCCACCTCCTCCCTATGTTTACAAGTCTCCACCACCTCCAATCCA
1 CTCCCCACCTCCTCCCTATGTTTACAAGTCTCCACCACCACCAGTCCA
* * * *
24541 TTCTCCACCTCCTCCCTATGTTTACAAGTCTCCATCACCTCCAGTCCA
1 CTCCCCACCTCCTCCCTATGTTTACAAGTCTCCACCACCACCAGTCCA
*
24589 CTCCCCACCTCCTCCCTATGTTTACAAGTTTCCACCACCACCAGTCCA
1 CTCCCCACCTCCTCCCTATGTTTACAAGTCTCCACCACCACCAGTCCA
* ** *
24637 CTCCCCACCTCCTCCATACATTTACAAGTCTCCTCCACC
1 CTCCCCACCTCCTCCCTATGTTTACAAGTCTCCACCACC
24676 TCCTCCCTAT
Statistics
Matches: 238, Mismatches: 41, Indels: 1
0.85 0.15 0.00
Matches are distributed among these distances:
48 234 0.98
49 4 0.02
ACGTcount: A:0.20, C:0.46, G:0.05, T:0.29
Consensus pattern (48 bp):
CTCCCCACCTCCTCCCTATGTTTACAAGTCTCCACCACCACCAGTCCA
Found at i:24676 original size:144 final size:144
Alignment explanation
Indices: 24348--24678 Score: 455
Period size: 144 Copynumber: 2.3 Consensus size: 144
24338 AACTACAAGT
* * * * *
24348 CTCCTCCACCTCCTCCCTACGTTTACAAGTCTCCTCCTCCACTAGTTCACTCCCCACCTCCTCCC
1 CTCC-CCACCTCCTCCCTACGTTTACAAGTCTCCTCCACCTCCAATCCACTCCCCACCTCCTCCC
* * ** *
24413 TATGTTTACAAGTCTCCACCACCTTCAATCCATTTTCTACCTCCTCCCTATGTTTACAAGTCTCC
65 TATGTTTACAAGTCTCCACCACCTCCAATCCACTCCCCACCTCCTCCCTATGTTTACAAGTCTCC
* * *
24478 ACCATCACCGGTTCA
130 ACCACCACCAGTCCA
* * * *
24493 CTCCCCACCTCCTCCCTATGTTTACAAGTCTCCACCACCTCCAATCCATTCTCCACCTCCTCCCT
1 CTCCCCACCTCCTCCCTACGTTTACAAGTCTCCTCCACCTCCAATCCACTCCCCACCTCCTCCCT
* * *
24558 ATGTTTACAAGTCTCCATCACCTCCAGTCCACTCCCCACCTCCTCCCTATGTTTACAAGTTTCCA
66 ATGTTTACAAGTCTCCACCACCTCCAATCCACTCCCCACCTCCTCCCTATGTTTACAAGTCTCCA
24623 CCACCACCAGTCCA
131 CCACCACCAGTCCA
* *
24637 CTCCCCACCTCCTCCATACATTTACAAGTCTCCTCCACCTCC
1 CTCCCCACCTCCTCCCTACGTTTACAAGTCTCCTCCACCTCC
24679 TCCCTATATT
Statistics
Matches: 162, Mismatches: 24, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
144 158 0.98
145 4 0.02
ACGTcount: A:0.19, C:0.47, G:0.05, T:0.29
Consensus pattern (144 bp):
CTCCCCACCTCCTCCCTACGTTTACAAGTCTCCTCCACCTCCAATCCACTCCCCACCTCCTCCCT
ATGTTTACAAGTCTCCACCACCTCCAATCCACTCCCCACCTCCTCCCTATGTTTACAAGTCTCCA
CCACCACCAGTCCA
Found at i:28067 original size:13 final size:13
Alignment explanation
Indices: 28046--28076 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
28036 CATTGGCGTG
*
28046 TGAACCATCAAAT
1 TGAAGCATCAAAT
28059 TGAAGCATCAAAT
1 TGAAGCATCAAAT
28072 TGAAG
1 TGAAG
28077 ATATATGATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (13 bp):
TGAAGCATCAAAT
Found at i:34613 original size:17 final size:17
Alignment explanation
Indices: 34586--34635 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
34576 GGAATGTTTA
34586 TGAAGGAATTGGAATCTG
1 TGAA-GAATTGGAATCTG
34604 TGAAGAATTGGAATCTG
1 TGAAGAATTGGAATCTG
* * *
34621 TCAGGAATTGAAATC
1 TGAAGAATTGGAATC
34636 AAATTCCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 25 0.86
18 4 0.14
ACGTcount: A:0.36, C:0.08, G:0.28, T:0.28
Consensus pattern (17 bp):
TGAAGAATTGGAATCTG
Found at i:36772 original size:30 final size:30
Alignment explanation
Indices: 36646--37353 Score: 533
Period size: 30 Copynumber: 23.6 Consensus size: 30
36636 CTCATACATG
* * * * *
36646 TATGGTGGAGGAGGTGTTGACTTGTAGATA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * * *
36676 TATGGAGCAGGTGGAGGTGAATTGTAAACA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * *
36706 TATAGAGGAGGAGG-GGTGATTTGTACTCA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * *
36735 TATGGAGGTGGAAGAGGAGACTTGTACACA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * * * * *
36765 TACGGAGGTGGTGGTGGTGACTTATACTCA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* *
36795 TATGGAGGGGGAGGAGGTGACTTGTACATA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * *
36825 TATGGAGGTGGAGGAGGAGA-TTCGTACACG
1 TATGGAGGAGGAGGAGGTGACTT-GTACACA
** ** *
36855 TATGGAGGAGGAGCTGGTGACTCATAAACA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * * *
36885 TATGGAGGGGGTGGAGGTGACTTGTAAACG
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * *
36915 TATGGAGGAGGAGGCGGTGACTTGTAAACG
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * * *
36945 TATGGAGGGGGAGGAGGTGATTTGTAAATA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * * *
36975 TAAGGAGGAGGAGGAGGTGATTTGTACTCG
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * * *
37005 TATGGAGGTGGAGGAGGAGACTTGTAGACG
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * *
37035 TATGGAGGTGGTGGTGGTGACTTGTACACA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * * *
37065 TACGGAGGGGGAGGAGGTGATTTGTAAACA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * *
37095 TAGGGAGGAGGTGGAGGTGACTTGTACTCA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * * * *
37125 TAGGGAGGTGGAGGAGGAGACTTGTAGACG
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * * *
37155 TACGGAGGAGGTGGTGGTGACTTGTACTCA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * * *
37185 TATGGAGGGGGAGGGGGTGATTTGTAAACA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* *
37215 TAGGGAGGAGGAGGAGGTGACTTGTACTCA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
* * *
37245 TATGGAGGCGGAGGAGGAGAGC-TATACACA
1 TATGGAGGAGGAGGAGGTGA-CTTGTACACA
* * * * * *
37275 TATGAAGGAGGTGGTGGCGAGTTGTACTCA
1 TATGGAGGAGGAGGAGGTGACTTGTACACA
** * * * *
37305 TA-CAACGGAGGCGGTGGTGATTTGTAAACA
1 TATGGA-GGAGGAGGAGGTGACTTGTACACA
* *
37335 TATTGAGGAGGTGGAGGTG
1 TATGGAGGAGGAGGAGGTG
37354 GCGCATAGTT
Statistics
Matches: 531, Mismatches: 140, Indels: 14
0.78 0.20 0.02
Matches are distributed among these distances:
29 27 0.05
30 501 0.94
31 3 0.01
ACGTcount: A:0.27, C:0.08, G:0.42, T:0.23
Consensus pattern (30 bp):
TATGGAGGAGGAGGAGGTGACTTGTACACA
Found at i:36982 original size:120 final size:120
Alignment explanation
Indices: 36664--37353 Score: 648
Period size: 120 Copynumber: 5.8 Consensus size: 120
36654 AGGAGGTGTT
** * * * * * * *
36664 GACTTGTAGATATATGGAGCAGGTGGAGGTGAATTGTAAACATATAGAGGAGGAGG-GGTGATTT
1 GACTTGTAGACGTATGGAGGAGGAGGTGGTGACTTGTACACATATGGAGGGGGAGGAGGTGATTT
** * * * * * * * *
36728 GTACTCATATGGAGGTGGAAGAGGAGACTTGTACACATACGGAGGTGGTGGTGGT
66 GTAAACATAGGGAGGAGGAGGAGGTGACTTGTACACATATGGAGGTGGAGGAGGA
* ** * * * * * * *
36783 GACTTATACTCATATGGAGGGGGAGGAGGTGACTTGTACATATATGGAGGTGGAGGAGGAGATTC
1 GACTTGTAGACGTATGGAGGAGGAGGTGGTGACTTGTACACATATGGAGGGGGAGGAGGTGATTT
* * * ** ** * * * *
36848 GTACACGTATGGAGGAGGAGCTGGTGACTCATAAACATATGGAGGGGGTGGAGGT
66 GTAAACATAGGGAGGAGGAGGAGGTGACTTGTACACATATGGAGGTGGAGGAGGA
* * * *
36903 GACTTGTAAACGTATGGAGGAGGAGGCGGTGACTTGTAAACGTATGGAGGGGGAGGAGGTGATTT
1 GACTTGTAGACGTATGGAGGAGGAGGTGGTGACTTGTACACATATGGAGGGGGAGGAGGTGATTT
* * * * *
36968 GTAAATATAAGGAGGAGGAGGAGGTGATTTGTACTCGTATGGAGGTGGAGGAGGA
66 GTAAACATAGGGAGGAGGAGGAGGTGACTTGTACACATATGGAGGTGGAGGAGGA
* * *
37023 GACTTGTAGACGTATGGAGGTGGTGGTGGTGACTTGTACACATACGGAGGGGGAGGAGGTGATTT
1 GACTTGTAGACGTATGGAGGAGGAGGTGGTGACTTGTACACATATGGAGGGGGAGGAGGTGATTT
* * *
37088 GTAAACATAGGGAGGAGGTGGAGGTGACTTGTACTCATAGGGAGGTGGAGGAGGA
66 GTAAACATAGGGAGGAGGAGGAGGTGACTTGTACACATATGGAGGTGGAGGAGGA
* * * *
37143 GACTTGTAGACGTACGGAGGAGGTGGTGGTGACTTGTACTCATATGGAGGGGGAGGGGGTGATTT
1 GACTTGTAGACGTATGGAGGAGGAGGTGGTGACTTGTACACATATGGAGGGGGAGGAGGTGATTT
* *
37208 GTAAACATAGGGAGGAGGAGGAGGTGACTTGTACTCATATGGAGGCGGAGGAGGA
66 GTAAACATAGGGAGGAGGAGGAGGTGACTTGTACACATATGGAGGTGGAGGAGGA
* * * * * * * * ** * * *
37263 GAGC-TATACACATATGAAGGAGGTGGTGGCGAGTTGTACTCATA-CAACGGAGGCGGTGGTGAT
1 GA-CTTGTAGACGTATGGAGGAGGAGGTGGTGACTTGTACACATATGGA-GGGGGAGGAGGTGAT
** *
37326 TTGTAAACATATTGAGGAGGTGGAGGTG
64 TTGTAAACATAGGGAGGAGGAGGAGGTG
37354 GCGCATAGTT
Statistics
Matches: 478, Mismatches: 90, Indels: 5
0.83 0.16 0.01
Matches are distributed among these distances:
119 45 0.09
120 432 0.90
121 1 0.00
ACGTcount: A:0.27, C:0.09, G:0.41, T:0.23
Consensus pattern (120 bp):
GACTTGTAGACGTATGGAGGAGGAGGTGGTGACTTGTACACATATGGAGGGGGAGGAGGTGATTT
GTAAACATAGGGAGGAGGAGGAGGTGACTTGTACACATATGGAGGTGGAGGAGGA
Found at i:46842 original size:134 final size:134
Alignment explanation
Indices: 46610--46879 Score: 513
Period size: 134 Copynumber: 2.0 Consensus size: 134
46600 AGTACACAAA
46610 CCTTAATTTCAATGGTGAGTAGTGGTAATTCGTTAGAAATATTCTAATTGCTTGCTTCATCAGGT
1 CCTTAATTTCAATGGTGAGTAGTGGTAATTCGTTAGAAATATTCTAATTGCTTGCTTCATCAGGT
* *
46675 AAAAAGTCTTTTCTACCTTGTATATATCTTTCATTTCATTGACAAAATAAGCTCTTTATAGTGTG
66 AAAAAGTCTTTTCTACCTTGTATATATCATTCATTTCATTGACAAAATAAGCTCTTTATAGTATG
46740 TAGT
131 TAGT
46744 CCTTAATTTCAATGGTGAGTAGTGGTAATTCGTTAGAAATATTCTAATTGCTTGCTTCATCAGGT
1 CCTTAATTTCAATGGTGAGTAGTGGTAATTCGTTAGAAATATTCTAATTGCTTGCTTCATCAGGT
*
46809 AAAACGTCTTTTCTACCTTGTATATATCATTCATTTCATTGACAAAATAAGCTCTTTATAGTATG
66 AAAAAGTCTTTTCTACCTTGTATATATCATTCATTTCATTGACAAAATAAGCTCTTTATAGTATG
46874 TAGT
131 TAGT
46878 CC
1 CC
46880 CCTAAACCCT
Statistics
Matches: 133, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
134 133 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (134 bp):
CCTTAATTTCAATGGTGAGTAGTGGTAATTCGTTAGAAATATTCTAATTGCTTGCTTCATCAGGT
AAAAAGTCTTTTCTACCTTGTATATATCATTCATTTCATTGACAAAATAAGCTCTTTATAGTATG
TAGT
Found at i:47521 original size:34 final size:34
Alignment explanation
Indices: 47478--47545 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
47468 ACACACTCTA
47478 TAGACGCAGCTCCTCGAATCCGAAACCTTTAAGG
1 TAGACGCAGCTCCTCGAATCCGAAACCTTTAAGG
47512 TAGACGCAGCTCCTCGAATCCGAAACCTTTAAGG
1 TAGACGCAGCTCCTCGAATCCGAAACCTTTAAGG
47546 AGAACAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (34 bp):
TAGACGCAGCTCCTCGAATCCGAAACCTTTAAGG
Found at i:49489 original size:13 final size:14
Alignment explanation
Indices: 49464--49503 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
49454 GGATAAAAGC
49464 TTTATTATTTTAAA
1 TTTATTATTTTAAA
49478 TTTATT-TTTTAAA
1 TTTATTATTTTAAA
* *
49491 ATTATAATTTTAA
1 TTTATTATTTTAA
49504 GACTCAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 12 0.52
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATTATTTTAAA
Found at i:50768 original size:14 final size:14
Alignment explanation
Indices: 50751--50820 Score: 54
Period size: 14 Copynumber: 4.7 Consensus size: 14
50741 TATTTTTACT
50751 TTTTATTTTTCTTA
1 TTTTATTTTTCTTA
*
50765 TTTTATTTGTTTTTCTTC
1 TTTTA----TTTTTCTTA
*
50783 TTTTCTTTTTC-T-
1 TTTTATTTTTCTTA
50795 TTTTATTCTTTTCTTA
1 TTTTA-T-TTTTCTTA
50811 TTTTATTTTT
1 TTTTATTTTT
50821 TATAATAGTT
Statistics
Matches: 45, Mismatches: 3, Indels: 16
0.70 0.05 0.25
Matches are distributed among these distances:
12 4 0.09
13 2 0.04
14 20 0.44
15 2 0.04
16 5 0.11
18 12 0.27
ACGTcount: A:0.09, C:0.10, G:0.01, T:0.80
Consensus pattern (14 bp):
TTTTATTTTTCTTA
Found at i:50878 original size:4 final size:4
Alignment explanation
Indices: 50869--50898 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
50859 TTTCCTCTTG
50869 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TT
50899 ATGTATATAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:50947 original size:12 final size:11
Alignment explanation
Indices: 50920--51088 Score: 51
Period size: 11 Copynumber: 14.3 Consensus size: 11
50910 ATTATTAGTA
*
50920 TTTTCTTTTA-
1 TTTTATTTTAT
50930 TTTTATTCTTAT
1 TTTTATT-TTAT
50942 TTTTATTTTAT
1 TTTTATTTTAT
**
50953 TTTGCTTCGTTAT
1 TTTTATT--TTAT
*
50966 CTTTATTTTGAT
1 TTTTATTTT-AT
50978 TATTT-TATTTAT
1 T-TTTAT-TTTAT
*
50990 TTTTCTTAATT-T
1 TTTTATT--TTAT
51002 TTTTATTTCT-T
1 TTTTATTT-TAT
*
51013 TTGTT-TTTATGT
1 TT-TTATTT-TAT
51025 TCTTTATTTTAT
1 T-TTTATTTTAT
*
51037 TTAATTTTTTTAT
1 TT--TTATTTTAT
* *
51050 CTTTATTTAAT
1 TTTTATTTTAT
*
51061 TTTTCATGTTTTT
1 TTTT-AT-TTTAT
*
51074 TCTTTATCTTAT
1 T-TTTATTTTAT
51086 TTT
1 TTT
51089 CCTTTTTTCA
Statistics
Matches: 120, Mismatches: 19, Indels: 39
0.67 0.11 0.22
Matches are distributed among these distances:
10 7 0.06
11 39 0.32
12 36 0.30
13 35 0.29
14 3 0.03
ACGTcount: A:0.15, C:0.07, G:0.04, T:0.74
Consensus pattern (11 bp):
TTTTATTTTAT
Found at i:50970 original size:24 final size:22
Alignment explanation
Indices: 50925--50974 Score: 64
Period size: 24 Copynumber: 2.2 Consensus size: 22
50915 TAGTATTTTC
*
50925 TTTTATTTTATTCTTATTTTTA
1 TTTTATTTTATTCTTATCTTTA
*
50947 TTTTATTTTGCTTCGTTATCTTTA
1 TTTTATTTT-ATTC-TTATCTTTA
50971 TTTT
1 TTTT
50975 GATTATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 9 0.38
23 3 0.12
24 12 0.50
ACGTcount: A:0.14, C:0.08, G:0.04, T:0.74
Consensus pattern (22 bp):
TTTTATTTTATTCTTATCTTTA
Found at i:51001 original size:19 final size:18
Alignment explanation
Indices: 50935--51065 Score: 69
Period size: 19 Copynumber: 7.2 Consensus size: 18
50925 TTTTATTTTA
50935 TTCTTATTTTTATTTTATTT
1 TTCTTA-TTTTA-TTTATTT
* * * *
50955 TGCTTCGTTATCTTTATTT
1 TTCTT-ATTTTATTTATTT
**
50974 TGATTATTTTATTTATTT
1 TTCTTATTTTATTTATTT
50992 TTCTTAATTTT-TTTA--T
1 TTCTT-ATTTTATTTATTT
*
51008 TTCTT-TTGTT-TTTA-TG
1 TTCTTATT-TTATTTATTT
51024 TTCTTTATTTTATTTAATTT
1 TTC-TTATTTTATTT-ATTT
51044 TT-TTATCTTTATTTAATTT
1 TTCTTAT-TTTATTT-ATTT
51063 TTC
1 TTC
51066 ATGTTTTTTC
Statistics
Matches: 88, Mismatches: 12, Indels: 22
0.72 0.10 0.18
Matches are distributed among these distances:
14 2 0.02
15 6 0.07
16 9 0.10
17 4 0.05
18 26 0.30
19 31 0.35
20 10 0.11
ACGTcount: A:0.16, C:0.07, G:0.04, T:0.73
Consensus pattern (18 bp):
TTCTTATTTTATTTATTT
Found at i:51058 original size:10 final size:9
Alignment explanation
Indices: 50967--51142 Score: 59
Period size: 9 Copynumber: 19.6 Consensus size: 9
50957 CTTCGTTATC
50967 TTTATTTTGA
1 TTTATTTT-A
50977 -TTATTTTA
1 TTTATTTTA
50985 TTTATTTT-
1 TTTATTTTA
50993 TCTTAATTTT-
1 T-TT-ATTTTA
*
51003 TTTA-TTTC
1 TTTATTTTA
*
51011 TTT-TGTT-
1 TTTATTTTA
* *
51018 TTTATGTTC
1 TTTATTTTA
51027 TTTATTTTA
1 TTTATTTTA
51036 TTTAATTTT-
1 TTT-ATTTTA
51045 TTTATCTTTA
1 TTTAT-TTTA
*
51055 TTTAATTT-
1 TTTATTTTA
*
51063 TTCATGTTT-
1 TTTAT-TTTA
*
51072 TTT-CTTTA
1 TTTATTTTA
*
51080 TCTTATTTTCC
1 T-TTATTTT-A
*
51091 TTT-TTTCA
1 TTTATTTTA
51099 TTTATTTTTA
1 TTTA-TTTTA
**
51109 TTTCCTTTA
1 TTTATTTTA
*
51118 TTTTATTTTTC
1 -TTTA-TTTTA
*
51129 TTTAATTTA
1 TTTATTTTA
51138 TTTAT
1 TTTAT
51143 CTTCATTGCC
Statistics
Matches: 126, Mismatches: 21, Indels: 39
0.68 0.11 0.21
Matches are distributed among these distances:
7 9 0.07
8 21 0.17
9 58 0.46
10 34 0.27
11 4 0.03
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.74
Consensus pattern (9 bp):
TTTATTTTA
Found at i:51096 original size:24 final size:23
Alignment explanation
Indices: 50981--51096 Score: 69
Period size: 24 Copynumber: 4.9 Consensus size: 23
50971 TTTTGATTAT
**
50981 TTTATTTATTTTTC-TTAATTTT-
1 TTTATTTA-TTTTCATTTTTTTTC
* *
51003 TTTATTTCTTTT-GTTTTTATGTTC
1 TTTATTTATTTTCATTTTT-T-TTC
*
51027 TTTATTT-TATTTAATTTTTTTATC
1 TTTATTTAT-TTTCATTTTTTT-TC
*
51051 TTTATTTAATTTTTCATGTTTTTTC
1 TTTATTT-A-TTTTCATTTTTTTTC
*
51076 TTTATCTTATTTTCCTTTTTT
1 TTTAT-TTATTTTCATTTTTT
51097 CATTTATTTT
Statistics
Matches: 75, Mismatches: 8, Indels: 20
0.73 0.08 0.19
Matches are distributed among these distances:
21 7 0.09
22 8 0.11
23 4 0.05
24 30 0.40
25 13 0.17
26 12 0.16
27 1 0.01
ACGTcount: A:0.15, C:0.08, G:0.03, T:0.75
Consensus pattern (23 bp):
TTTATTTATTTTCATTTTTTTTC
Found at i:51102 original size:23 final size:24
Alignment explanation
Indices: 51069--51130 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
51059 ATTTTTCATG
51069 TTTTTTC-TTTATCTTAT-TTTCC
1 TTTTTTCATTTATCTTATATTTCC
*
51091 TTTTTTCATTTAT-TTTTATTTCC
1 TTTTTTCATTTATCTTATATTTCC
* *
51114 TTTATTTTATTTTTCTT
1 TTT-TTTCATTTATCTT
51131 TAATTTATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 10 0.30
23 13 0.39
24 8 0.24
25 2 0.06
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTCATTTATCTTATATTTCC
Found at i:51131 original size:15 final size:15
Alignment explanation
Indices: 51027--51145 Score: 59
Period size: 15 Copynumber: 7.8 Consensus size: 15
51017 TTTTATGTTC
*
51027 TTTATTTTAT-TTAAT
1 TTTATTTT-TCTTTAT
*
51042 TTT-TTTATCTTTAT
1 TTTATTTTTCTTTAT
*
51056 TTAATTTTTCATGTT-T
1 TTTATTTTTC-T-TTAT
* *
51072 TTTCTTTATC-TTAT
1 TTTATTTTTCTTTAT
*
51086 TTTCCTTTTTTCATTTAT
1 TTT--ATTTTTC-TTTAT
*
51104 TTT-TATTTCCTTTAT
1 TTTAT-TTTTCTTTAT
*
51119 TTTATTTTTCTTTAA
1 TTTATTTTTCTTTAT
*
51134 TTTATTTATCTT
1 TTTATTTTTCTT
51146 CATTGCCTTT
Statistics
Matches: 80, Mismatches: 13, Indels: 22
0.70 0.11 0.19
Matches are distributed among these distances:
13 3 0.04
14 13 0.16
15 36 0.45
16 19 0.24
17 2 0.03
18 7 0.09
ACGTcount: A:0.17, C:0.09, G:0.01, T:0.73
Consensus pattern (15 bp):
TTTATTTTTCTTTAT
Found at i:55738 original size:14 final size:14
Alignment explanation
Indices: 55719--55757 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
55709 ATAGACTTAA
55719 GAACTTGATCCGTT
1 GAACTTGATCCGTT
55733 GAACTTGATCCGTT
1 GAACTTGATCCGTT
**
55747 GTTCTTGATCC
1 GAACTTGATCC
55758 TCCTTTGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.18, C:0.23, G:0.21, T:0.38
Consensus pattern (14 bp):
GAACTTGATCCGTT
Found at i:57289 original size:20 final size:21
Alignment explanation
Indices: 57264--57307 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
57254 TGATGAAGTG
57264 TTATAG-TGTTATA-ATAAGGT
1 TTATAGATG-TATAGATAAGGT
*
57284 TTATAGATGTATAGATAAGTT
1 TTATAGATGTATAGATAAGGT
57305 TTA
1 TTA
57308 AGGCATAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (21 bp):
TTATAGATGTATAGATAAGGT
Found at i:57307 original size:21 final size:20
Alignment explanation
Indices: 57259--57307 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
57249 TGAGATGATG
*
57259 AAGTGTTATAGTGTTATAAT
1 AAGTTTTATAGTGTTATAAT
*
57279 AAGGTTTATAGATG-TATAGAT
1 AAGTTTTATAG-TGTTATA-AT
57300 AAGTTTTA
1 AAGTTTTA
57308 AGGCATAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.37, C:0.00, G:0.20, T:0.43
Consensus pattern (20 bp):
AAGTTTTATAGTGTTATAAT
Found at i:57571 original size:20 final size:22
Alignment explanation
Indices: 57526--57583 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 22
57516 TGCATGGTAG
57526 TGCATCGATGCACCTGTTAAAGAA
1 TGCATCGATGCA-CTGTT-AAGAA
57550 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
57570 TGCA-CTGATGCACT
1 TGCATC-GATGCACT
57584 TCAATGGGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.03
20 16 0.48
22 1 0.03
23 3 0.09
24 12 0.36
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:63580 original size:63 final size:63
Alignment explanation
Indices: 63504--63624 Score: 163
Period size: 63 Copynumber: 1.9 Consensus size: 63
63494 TCCCTTGAAA
*
63504 GGTGCATCGATGCACTA-TCTATGCATCGATACATAAATCCCATTCGATGTTTGTATTTAAGGG
1 GGTGCATCGATGCACTACT-TATGCATCGATACACAAATCCCATTCGATGTTTGTATTTAAGGG
* * * ** *
63567 GGTGCATCGATGCACTACTTGTGCATCGATGCACAGATGGCATTCGATGTTTTTATTT
1 GGTGCATCGATGCACTACTTATGCATCGATACACAAATCCCATTCGATGTTTGTATTT
63625 TAAAGGACTG
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 49 0.98
64 1 0.02
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (63 bp):
GGTGCATCGATGCACTACTTATGCATCGATACACAAATCCCATTCGATGTTTGTATTTAAGGG
Found at i:67206 original size:20 final size:21
Alignment explanation
Indices: 67180--67261 Score: 87
Period size: 20 Copynumber: 3.9 Consensus size: 21
67170 ACCAGAACCC
*
67180 CATGGGGGTATCGATTCCCCT
1 CATGGGGGAATCGATTCCCCT
*
67201 -ATGGGGGAATCGGTTCCCCTT
1 CATGGGGGAATCGATTCCCC-T
* *
67222 CAAAGGGGGAATCGGTT-CCCT
1 C-ATGGGGGAATCGATTCCCCT
*
67243 CATGGGGGTATCGATTCCC
1 CATGGGGGAATCGATTCCC
67262 TCTGCACCAA
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
20 29 0.57
21 5 0.10
22 3 0.06
23 14 0.27
ACGTcount: A:0.17, C:0.26, G:0.32, T:0.26
Consensus pattern (21 bp):
CATGGGGGAATCGATTCCCCT
Found at i:71078 original size:22 final size:21
Alignment explanation
Indices: 71036--71075 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
71026 GAGTTTATTT
*
71036 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
71057 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
71076 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:73657 original size:22 final size:22
Alignment explanation
Indices: 73632--73677 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
73622 ATTCTTTAAC
73632 TCTTGCAATTCTTTCGGAGCCA
1 TCTTGCAATTCTTTCGGAGCCA
73654 TCTTGCAATTCTTTCGGAGCCA
1 TCTTGCAATTCTTTCGGAGCCA
73676 TC
1 TC
73678 CGATAAGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.37
Consensus pattern (22 bp):
TCTTGCAATTCTTTCGGAGCCA
Found at i:76963 original size:19 final size:19
Alignment explanation
Indices: 76939--77004 Score: 123
Period size: 19 Copynumber: 3.5 Consensus size: 19
76929 ACTTGACGGG
76939 TGCATCGATGCACTATCTA
1 TGCATCGATGCACTATCTA
*
76958 TGCATCGATGTACTATCTA
1 TGCATCGATGCACTATCTA
76977 TGCATCGATGCACTATCTA
1 TGCATCGATGCACTATCTA
76996 TGCATCGAT
1 TGCATCGAT
77005 ACATAAATCC
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 45 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (19 bp):
TGCATCGATGCACTATCTA
Found at i:77131 original size:19 final size:19
Alignment explanation
Indices: 77107--77150 Score: 88
Period size: 19 Copynumber: 2.3 Consensus size: 19
77097 AAAGGAGTGT
77107 ATCAATGCACTTCATGTGC
1 ATCAATGCACTTCATGTGC
77126 ATCAATGCACTTCATGTGC
1 ATCAATGCACTTCATGTGC
77145 ATCAAT
1 ATCAAT
77151 ACACCTTGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.32
Consensus pattern (19 bp):
ATCAATGCACTTCATGTGC
Found at i:77134 original size:64 final size:63
Alignment explanation
Indices: 77015--77136 Score: 163
Period size: 64 Copynumber: 1.9 Consensus size: 63
77005 ACATAAATCC
* * * * *
77015 CATTCGATGTTTGTATTTAAGGGGGTGCATCGATGCACTACTTGTGCATCGATGCACTGATGG
1 CATTCGATGTTTGTATTTAAAGGAGTGCATCAATGCACTACATGTGCATCAATGCACTGATGG
* * *
77078 CATTCGATGTTTTTATTTTAAAGGAGTGTATCAATGCACTTCATGTGCATCAATGCACT
1 CATTCGATGTTTGTA-TTTAAAGGAGTGCATCAATGCACTACATGTGCATCAATGCACT
77137 TCATGTGCAT
Statistics
Matches: 50, Mismatches: 8, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
63 14 0.28
64 36 0.72
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (63 bp):
CATTCGATGTTTGTATTTAAAGGAGTGCATCAATGCACTACATGTGCATCAATGCACTGATGG
Found at i:77691 original size:10 final size:10
Alignment explanation
Indices: 77676--77704 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
77666 TCACGGTGGA
77676 GAAGAAGAAT
1 GAAGAAGAAT
77686 GAAGAAGAAT
1 GAAGAAGAAT
77696 GAAGAAGAA
1 GAAGAAGAA
77705 GAGAAATCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.31, T:0.07
Consensus pattern (10 bp):
GAAGAAGAAT
Found at i:85754 original size:15 final size:14
Alignment explanation
Indices: 85734--85765 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
85724 AAACATTATG
85734 ATATAATATATATAT
1 ATATAATATATAT-T
85749 ATATAATATATATT
1 ATATAATATATATT
85763 ATA
1 ATA
85766 ACAAAAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
ATATAATATATATT
Found at i:86577 original size:36 final size:37
Alignment explanation
Indices: 86531--86606 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
86521 GTTTAAAACA
86531 TAGCAAAATTCTATCATA-TTTTTAGGAG-TTGAATCC
1 TAGCAAAATTCTATCATATTTTTTA-GAGTTTGAATCC
* *
86567 TAGCATAATTCTATCCTATTTTTTAGAGTTTGAATCC
1 TAGCAAAATTCTATCATATTTTTTAGAGTTTGAATCC
86604 TAG
1 TAG
86607 TAGGACGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
36 19 0.53
37 17 0.47
ACGTcount: A:0.30, C:0.14, G:0.13, T:0.42
Consensus pattern (37 bp):
TAGCAAAATTCTATCATATTTTTTAGAGTTTGAATCC
Found at i:87441 original size:105 final size:105
Alignment explanation
Indices: 87146--87906 Score: 1061
Period size: 105 Copynumber: 7.2 Consensus size: 105
87136 TTCCAAGTCT
* * * ** * * *
87146 AATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGGAACCGGGAAATTGTTTGTTGACAACCAGTC
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAGCAG-C
* * * *
87211 -GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCC
64 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCC
**
87252 AATATCCTTCGTTGTGAAGTTGAAATTGAATCTG-AA-TGA-AA-TT-TTGTTGACAAGCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGG
87312 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCC
* * *
87352 AATATCCTTCGTTGTGAAATTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGG
* * *
87417 TCCCTTCGTCGTGAAGTTGAACTTGCATTGTATGGAGTCC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCC
* *
87457 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGG
*
87522 TCCCTTCGTCATGAAGTTGAACTTGCGTTGTCT-GAAGTCC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAA-TCC
* *
87562 AATATCCTTTGTTGTGAAGTTGAAATTGGCTCTGAAATTAAGAAGTTGTTGTTGACAAGCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGG
*
87627 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCC
*
87667 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAGGCAGCGG
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGG
*
87732 TCCCTTCGCCGTGAAGTTGAACTTGCGTTGTCTGGAATCC
66 TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCC
* *
87772 AATATTCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTC
1 AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG-TTGTTGACAAGCAG-C
* * * *
87837 -GTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTGCC
64 GGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAAT-CC
* * *
87879 ACGATATCCTCCGTCGTGGAGTTGAAAT
1 A--ATATCCTTCGTTGTGAAGTTGAAAT
87907 CGCAGATGGC
Statistics
Matches: 595, Mismatches: 47, Indels: 23
0.89 0.07 0.03
Matches are distributed among these distances:
99 1 0.00
100 81 0.14
101 1 0.00
102 4 0.01
103 4 0.01
104 5 0.01
105 396 0.67
106 78 0.13
107 4 0.01
109 21 0.04
ACGTcount: A:0.22, C:0.17, G:0.26, T:0.34
Consensus pattern (105 bp):
AATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTGTTGACAAGCAGCGG
TCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAATCC
Found at i:88600 original size:68 final size:65
Alignment explanation
Indices: 88510--88902 Score: 218
Period size: 72 Copynumber: 5.8 Consensus size: 65
88500 AAGATATCTG
* * **
88510 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATT-TGTTTTAAGGGAAATAAATTCAAAGA-
88575 TT
64 TT
* * * *
88577 TGTGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGAT
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGAT
88642 T
65 T
* ** * * * * *
88643 TTGTTTCAAGGGAAACTGTCTCAAGATAGACGAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGAG
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAA-----T--A-A-AT
* *
88707 ACAAA-ACT
57 TCAAAGATT
* * * * * * * * * * *
88715 TAGTTCCAAAAGAAACTGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
* * * * *
88780 TTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGA-T-
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAA-----T-AA-ATTC
* *
88843 AGACGAAAT
59 A-AAG-ATT
* * *
88852 TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAA
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAA
88903 CTGTCTCAAG
Statistics
Matches: 255, Mismatches: 50, Indels: 37
0.75 0.15 0.11
Matches are distributed among these distances:
64 17 0.07
65 72 0.28
66 4 0.02
67 24 0.09
68 31 0.12
69 1 0.00
70 1 0.00
71 4 0.02
72 84 0.33
73 17 0.07
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (65 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTTGTTTTAAGGGAAATAAATTCAAAGATT
Found at i:88643 original size:67 final size:66
Alignment explanation
Indices: 88510--88667 Score: 210
Period size: 68 Copynumber: 2.4 Consensus size: 66
88500 AAGATATCTG
* * **
88510 TTGTTTCATGAGAAACGGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTTGAAGAT
1 TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGA-
88575 TT
65 TT
* * * *
88577 TGTGTTTCAAGAGTAATTGTCTCAAGGGAGACAAAATT-TGTTTTAGGGGAAATAAATTCAAAGA
1 T-TGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGA
88641 TT
65 TT
*
88643 TTGTTTCAAGGGAAACTGTCTCAAG
1 TTGTTTCAAGAGAAACTGTCTCAAG
88668 ATAGACGAAA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
65 21 0.27
66 3 0.04
67 24 0.30
68 31 0.39
ACGTcount: A:0.36, C:0.09, G:0.22, T:0.33
Consensus pattern (66 bp):
TTGTTTCAAGAGAAACTGTCTCAAGGGAAACAAAATTATGTTTTAAGGGAAATAAATTCAAAGAT
T
Found at i:88742 original size:137 final size:137
Alignment explanation
Indices: 88594--88903 Score: 442
Period size: 137 Copynumber: 2.3 Consensus size: 137
88584 CAAGAGTAAT
* * *
88594 TGTCTCAAGGGAGACAAAATTTGTTTTAGGGGAAATAAATTCAAAGATTTTGTTTCAAGGGAAAC
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGAAAC
* * *
88659 TGTCTCAAGATAGACGAAA-TTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAACTTAGTTCCA
66 TGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TTAGTTCCA
88723 AAAGAAAC
130 AAAGAAAC
* * * * *
88731 TGTCTCAAGGGAGACGAAATTTGTTTCAAAGAAAACATATTCAAATATTTTGTTTCAAGGGAAAC
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGAAAC
* * * * *
88796 TGTCTCAAGAGAGACAAAATTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAATTTGTTTCAA
66 TGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTCCAA
*
88861 GAGAAAC
131 AAGAAAC
*
88868 TGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAAC
1 TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAAC
88904 TGTCTCAAGA
Statistics
Matches: 151, Mismatches: 21, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
137 120 0.79
138 31 0.21
ACGTcount: A:0.40, C:0.13, G:0.20, T:0.27
Consensus pattern (137 bp):
TGTCTCAAGGGAGACAAAATTTGTTTCAAGGGAAACAAATTCAAAGATTTTGTTTCAAGGGAAAC
TGTCTCAAGAGAGACAAAATTTATTTCAAGAGAAACTGTCTCAAGAGAGACAAAATTAGTTCCAA
AAGAAAC
Found at i:88830 original size:36 final size:36
Alignment explanation
Indices: 88779--88922 Score: 252
Period size: 36 Copynumber: 4.0 Consensus size: 36
88769 ATTCAAATAT
88779 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
* * *
88815 TTTATTTCAAGGGAAACTGTCTCAAGATAGACGAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
*
88851 TTTGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
88887 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
1 TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
88923 CTCTTCTAGT
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 100 1.00
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.26
Consensus pattern (36 bp):
TTTGTTTCAAGGGAAACTGTCTCAAGAGAGACAAAA
Found at i:89429 original size:18 final size:18
Alignment explanation
Indices: 89402--89437 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
89392 TGTTGAATCC
* *
89402 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
89420 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
89438 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:89879 original size:22 final size:22
Alignment explanation
Indices: 89853--89907 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
89843 TTGTGTTTGG
89853 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
89875 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGGCATTTGATGC
89897 TCAAAGGTTTG
1 TCAAAGGTTTG
89908 ATGGGATAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGGCATTTGATGC
Found at i:90566 original size:23 final size:22
Alignment explanation
Indices: 90540--90648 Score: 71
Period size: 23 Copynumber: 4.7 Consensus size: 22
90530 TTTGTTCCTC
90540 TTTCTTTTTTATTCTTGTTTTTT
1 TTTCTTTTTT-TTCTTGTTTTTT
** *
90563 TTTCTTTTTTCCTT-TTGTTCGTG
1 TTTCTTTTTT--TTCTTGTTTTTT
* *
90586 TTTCTCTTTTTTCTTTGTTTTTC
1 TTTCTTTTTTTTC-TTGTTTTTT
*
90609 TTT-GTTTTTTTCTT-TTTGCTTCT
1 TTTCTTTTTTTTCTTGTTT--TT-T
90632 TTTCTTTTTTCTTCTTG
1 TTTCTTTTTT-TTCTTG
90649 ATTGGATCTT
Statistics
Matches: 65, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
20 3 0.05
21 4 0.06
22 9 0.14
23 37 0.57
24 7 0.11
25 5 0.08
ACGTcount: A:0.01, C:0.15, G:0.07, T:0.77
Consensus pattern (22 bp):
TTTCTTTTTTTTCTTGTTTTTT
Found at i:90604 original size:46 final size:46
Alignment explanation
Indices: 90529--90644 Score: 123
Period size: 46 Copynumber: 2.6 Consensus size: 46
90519 TGCATGTGCT
* *
90529 TTTTGTTCCTCTTTCTTTTTTATTCTTGTTTTTTTTTCTTTTTTCC
1 TTTTGTTCCTCTTTCTCTTTTATTCTTGTTTTTCTTTCTTTTTTCC
* * * *
90575 TTTTGTTCGTGTTTCTCTTTT-TTCTTTGTTTTTCTTTGTTTTTTTC
1 TTTTGTTCCTCTTTCTCTTTTATTC-TTGTTTTTCTTTCTTTTTTCC
* *
90621 TTTT-TGCTTCTTT-TCTTTT-TTCTT
1 TTTTGTTCCTCTTTCTCTTTTATTCTT
90645 CTTGATTGGA
Statistics
Matches: 60, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
43 2 0.03
44 9 0.15
45 9 0.15
46 40 0.67
ACGTcount: A:0.01, C:0.16, G:0.07, T:0.77
Consensus pattern (46 bp):
TTTTGTTCCTCTTTCTCTTTTATTCTTGTTTTTCTTTCTTTTTTCC
Found at i:90608 original size:19 final size:18
Alignment explanation
Indices: 90586--90647 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
90576 TTTGTTCGTG
*
90586 TTTCTCTTTTTTCTTTGTT
1 TTTCT-TTTTTTCTTTCTT
90605 TTTCTTTGTTTT-TTTCTT
1 TTTCTTT-TTTTCTTTCTT
*
90623 TTTGCTTCTTTTCTTT-TT
1 TTT-CTTTTTTTCTTTCTT
90641 TCTTCTT
1 T-TTCTT
90648 GATTGGATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
18 20 0.54
19 17 0.46
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (18 bp):
TTTCTTTTTTTCTTTCTT
Found at i:90620 original size:22 final size:22
Alignment explanation
Indices: 90527--90644 Score: 73
Period size: 22 Copynumber: 5.1 Consensus size: 22
90517 TTTGCATGTG
90527 CTTTTTG-TTCCTCTTTCTTTTTT
1 CTTTTTGCTT-CT-TTTCTTTTTT
* * * *
90550 ATTCTTGTTTTTTTTTCTTTTTT
1 CTTTTTG-CTTCTTTTCTTTTTT
*
90573 CCTTTTG-TTCGTGTTTCTCTTTTTT
1 CTTTTTGCTTC---TTT-TCTTTTTT
*
90598 CTTTGTT-TTTCTTTGT-TTTTTT
1 CTTT-TTGCTTCTTT-TCTTTTTT
90620 CTTTTTGCTTCTTTTCTTTTTT
1 CTTTTTGCTTCTTTTCTTTTTT
90642 CTT
1 CTT
90645 CTTGATTGGA
Statistics
Matches: 75, Mismatches: 10, Indels: 21
0.71 0.09 0.20
Matches are distributed among these distances:
21 5 0.07
22 25 0.33
23 23 0.31
24 4 0.05
25 13 0.17
26 5 0.07
ACGTcount: A:0.01, C:0.16, G:0.07, T:0.76
Consensus pattern (22 bp):
CTTTTTGCTTCTTTTCTTTTTT
Found at i:91677 original size:8 final size:8
Alignment explanation
Indices: 91661--91699 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
91651 AATGTAGATG
91661 AAAATGCA
1 AAAATGCA
*
91669 AAAAGGCA
1 AAAATGCA
91677 AAAATGC-
1 AAAATGCA
91684 AAAATGCA
1 AAAATGCA
*
91692 AGAATGCA
1 AAAATGCA
91700 TGAAATGTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (8 bp):
AAAATGCA
Found at i:91687 original size:15 final size:15
Alignment explanation
Indices: 91661--91699 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
91651 AATGTAGATG
91661 AAAATGCAAAAAGGCA
1 AAAATGC-AAAAGGCA
*
91677 AAAATGCAAAATGCA
1 AAAATGCAAAAGGCA
*
91692 AGAATGCA
1 AAAATGCA
91700 TGAAATGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.59, C:0.13, G:0.18, T:0.10
Consensus pattern (15 bp):
AAAATGCAAAAGGCA
Found at i:94490 original size:18 final size:19
Alignment explanation
Indices: 94455--94502 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
94445 ATATATATAT
94455 AATAATTATAACAAAAAAA
1 AATAATTATAACAAAAAAA
* *
94474 AATAATT-TAATAAAAAAT
1 AATAATTATAACAAAAAAA
94492 AATAATGTATA
1 AATAAT-TATA
94503 TAATATAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 15 0.60
19 8 0.32
20 2 0.08
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
AATAATTATAACAAAAAAA
Found at i:94744 original size:11 final size:11
Alignment explanation
Indices: 94669--94758 Score: 60
Period size: 11 Copynumber: 7.8 Consensus size: 11
94659 TTATATACGT
*
94669 TAATAGTAAAA
1 TAATATTAAAA
* *
94680 TAATAATAAAT
1 TAATATTAAAA
94691 TAATAGTTATAAA
1 TAATA-TTA-AAA
*
94704 TATATATATATAA
1 TA-ATAT-TAAAA
94717 TAACT-TTAAAA
1 TAA-TATTAAAA
94728 -AATATTAAAA
1 TAATATTAAAA
94738 TAATATTAGAAA
1 TAATATTA-AAA
94750 -AATAATTAA
1 TAAT-ATTAA
94759 TATATATATA
Statistics
Matches: 64, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
9 1 0.02
10 8 0.12
11 29 0.45
12 11 0.17
13 10 0.16
14 5 0.08
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (11 bp):
TAATATTAAAA
Found at i:95080 original size:36 final size:37
Alignment explanation
Indices: 95034--95108 Score: 109
Period size: 36 Copynumber: 2.1 Consensus size: 37
95024 GTTTAAAACA
95034 TAGCAAAATTCTATCATA-TTTTTAGGAG-TTGAATCC
1 TAGCAAAATTCTATCATATTTTTTA-GAGTTTGAATCC
* *
95070 TAGCATAATTCTATCCTATTTTTTAGAGTTTGAATCC
1 TAGCAAAATTCTATCATATTTTTTAGAGTTTGAATCC
95107 TA
1 TA
95109 ATAGGACGAA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
36 19 0.54
37 16 0.46
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.43
Consensus pattern (37 bp):
TAGCAAAATTCTATCATATTTTTTAGAGTTTGAATCC
Found at i:96371 original size:12 final size:12
Alignment explanation
Indices: 96350--96392 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
96340 TGTAAAATAC
96350 AACTCGAATAGT
1 AACTCGAATAGT
96362 AACTC-AA-A-T
1 AACTCGAATAGT
96371 AACTCGAATAGT
1 AACTCGAATAGT
*
96383 AACTCAAATA
1 AACTCGAATA
96393 ACTCAAAATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
9 6 0.22
10 3 0.11
11 3 0.11
12 15 0.56
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (12 bp):
AACTCGAATAGT
Found at i:96375 original size:9 final size:9
Alignment explanation
Indices: 96361--96399 Score: 51
Period size: 9 Copynumber: 4.0 Consensus size: 9
96351 ACTCGAATAG
96361 TAACTCAAA
1 TAACTCAAA
96370 TAACTCGAATA
1 TAACTC-AA-A
96381 GTAACTCAAA
1 -TAACTCAAA
96391 TAACTCAAA
1 TAACTCAAA
96400 ATTTCTAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 15 0.56
10 3 0.11
11 3 0.11
12 6 0.22
ACGTcount: A:0.51, C:0.21, G:0.05, T:0.23
Consensus pattern (9 bp):
TAACTCAAA
Found at i:96375 original size:21 final size:21
Alignment explanation
Indices: 96350--96396 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
96340 TGTAAAATAC
96350 AACTCGAATAGTAACTCAAAT
1 AACTCGAATAGTAACTCAAAT
96371 AACTCGAATAGTAACTCAAAT
1 AACTCGAATAGTAACTCAAAT
96392 AACTC
1 AACTC
96397 AAAATTTCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.47, C:0.21, G:0.09, T:0.23
Consensus pattern (21 bp):
AACTCGAATAGTAACTCAAAT
Found at i:97679 original size:2 final size:2
Alignment explanation
Indices: 97672--97697 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
97662 AACATTGATA
97672 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
97698 GATTAATCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:125225 original size:63 final size:64
Alignment explanation
Indices: 125126--125252 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
125116 TTGCTAAAAG
* *
125126 GGGTAAACTTCGTTTTGGCTCCCTCTGTTTT-GAAAAACATTCAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAAACATTCAATTTGGTCCCCAAATCGGTT
* *
125189 GGGTAAACTTCATTTTGGTTCCCTCTGTTTTAAAAAAACATTTAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAAACATTCAATTTGGTCCCCAAATCGGTT
125253 TAATTCCCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 29 0.49
64 30 0.51
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.38
Consensus pattern (64 bp):
GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAAACATTCAATTTGGTCCCCAAATCGGTT
Found at i:125515 original size:18 final size:18
Alignment explanation
Indices: 125481--125514 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
125471 ATTACTCATA
*
125481 TTTGCTTTTTTTATTTTC
1 TTTGCTTTTTATATTTTC
125499 TTTG-TTTTTATATTTT
1 TTTGCTTTTTATATTTT
125515 TTATGGATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTGCTTTTTATATTTTC
Found at i:125739 original size:124 final size:119
Alignment explanation
Indices: 125596--125845 Score: 403
Period size: 124 Copynumber: 2.1 Consensus size: 119
125586 TGTTTTACAA
*
125596 ATTATTATATATGTATATATTATTTTTAATTTAACTATTACTATTATATTCTTTTTACTAAGTTA
1 ATTATTATATACG-ATATATTATTTTTAATTTAACTATTACTATTATATTCTTTTTACTAA--T-
*
125661 TATATATATATATATATTTACGTTATTATTATTATATACGTATACTTTTTTTTCTTCATTG
62 T-TATATATATATATATTTACGTTATTATTATTATATACG--TACTCTTTTTTCTTCATTG
*
125722 ATTATTATATACG-TATATTATTTTTAATTTAACTATTACTATTATCTTCTTTTTACTAATTTAT
1 ATTATTATATACGATATATTATTTTTAATTTAACTATTACTATTATATTCTTTTTACTAATTTAT
125786 ATATATATATATTTACGTTATTATTATTATATACGTACTCTTTTTTCTTCATTG
66 ATATATATATATTTACGTTATTATTATTATATACGTACTCTTTTTTCTTCATTG
125840 ATTATT
1 ATTATT
125846 TTTGCTTAAT
Statistics
Matches: 121, Mismatches: 3, Indels: 8
0.92 0.02 0.06
Matches are distributed among these distances:
118 24 0.20
120 38 0.31
121 1 0.01
122 1 0.01
124 45 0.37
126 12 0.10
ACGTcount: A:0.31, C:0.08, G:0.04, T:0.57
Consensus pattern (119 bp):
ATTATTATATACGATATATTATTTTTAATTTAACTATTACTATTATATTCTTTTTACTAATTTAT
ATATATATATATTTACGTTATTATTATTATATACGTACTCTTTTTTCTTCATTG
Found at i:125874 original size:2 final size:2
Alignment explanation
Indices: 125867--125907 Score: 55
Period size: 2 Copynumber: 20.5 Consensus size: 2
125857 TTATATTTTA
* * *
125867 AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT CT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
125908 CTTGTAATAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.49
Consensus pattern (2 bp):
AT
Found at i:137816 original size:105 final size:105
Alignment explanation
Indices: 137349--137808 Score: 866
Period size: 105 Copynumber: 4.4 Consensus size: 105
137339 AGGTTTTACC
137349 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGTAAGTTCAACTTCACG
137414 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
137454 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGTAAGTTCAACTTCACG
137519 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
137559 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGTAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGTAAGTTCAACTTCACG
*
137624 ACGAAGGGACCGTTGGTTGTCAACGAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
* * *
137664 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGTAAGTTCAACTTCACG
* *
137729 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCCCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
137769 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
137809 GAAACAACAC
Statistics
Matches: 348, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 348 1.00
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGGCAACGTAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACGAACATTTCTCAATTT
Found at i:139163 original size:63 final size:64
Alignment explanation
Indices: 139064--139190 Score: 211
Period size: 64 Copynumber: 2.0 Consensus size: 64
139054 TTGCTAAAAG
* *
139064 GGGTAAACTTCGTTTTGGCTCCCTCTGTTTT-GAAAAACATTCAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAAACATTCAATTTGGTCCCCAAATCGGTT
* *
139127 GGGTAAACTTCATTTTGGTTCCCTCTGTTTTAAAAAAACATTTAATTTGGTCCCCAAATCGGTT
1 GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAAACATTCAATTTGGTCCCCAAATCGGTT
139191 TAATTCCCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
63 29 0.49
64 30 0.51
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.38
Consensus pattern (64 bp):
GGGTAAACTTCATTTTGGCTCCCTCTGTTTTAAAAAAACATTCAATTTGGTCCCCAAATCGGTT
Found at i:139450 original size:18 final size:18
Alignment explanation
Indices: 139416--139449 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
139406 ATTACTCATA
*
139416 TTTGCTTTTTTTATTTTC
1 TTTGCTTTTTATATTTTC
139434 TTTG-TTTTTATATTTT
1 TTTGCTTTTTATATTTT
139450 TTATGGATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.09, C:0.06, G:0.06, T:0.79
Consensus pattern (18 bp):
TTTGCTTTTTATATTTTC
Found at i:139599 original size:2 final size:2
Alignment explanation
Indices: 139592--139628 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
139582 TTTACTAAGT
139592 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
139629 TTACGTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:153256 original size:16 final size:16
Alignment explanation
Indices: 153235--153272 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
153225 GGACATTTGA
153235 TTCTGCAATATATTGT
1 TTCTGCAATATATTGT
153251 TTCTGCAATATATTGT
1 TTCTGCAATATATTGT
153267 TTCTGC
1 TTCTGC
153273 TTTGGTTACA
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:0.21, C:0.16, G:0.13, T:0.50
Consensus pattern (16 bp):
TTCTGCAATATATTGT
Found at i:156204 original size:20 final size:20
Alignment explanation
Indices: 156181--156219 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
156171 AAATATAAAC
*
156181 AAATAAAATTAAAACAATAA
1 AAATAAAACTAAAACAATAA
**
156201 AAATACCACTAAAACAATA
1 AAATAAAACTAAAACAATA
156220 TATTTTAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (20 bp):
AAATAAAACTAAAACAATAA
Found at i:157601 original size:3 final size:3
Alignment explanation
Indices: 157593--157699 Score: 178
Period size: 3 Copynumber: 35.7 Consensus size: 3
157583 AATATATATT
* *
157593 TAA TAA TAA TAA TAA TAA TGA TGA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
157641 TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
157689 TAA TAA TAA TA
1 TAA TAA TAA TA
157700 TGGATAAAAA
Statistics
Matches: 98, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 98 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:170866 original size:27 final size:28
Alignment explanation
Indices: 170803--170866 Score: 64
Period size: 27 Copynumber: 2.4 Consensus size: 28
170793 AATACATTTT
* *
170803 TATAATATTTAAATTATTTGATTAATAA
1 TATAATATATAAATAATTTGATTAATAA
170831 -ATTAA-ATATAAATAA-TTG-TATAATAA
1 TA-TAATATATAAATAATTTGAT-TAATAA
170857 TATAATATAT
1 TATAATATAT
170867 TAATTTGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
25 1 0.03
26 12 0.40
27 14 0.47
28 3 0.10
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (28 bp):
TATAATATATAAATAATTTGATTAATAA
Found at i:178745 original size:28 final size:28
Alignment explanation
Indices: 178690--178745 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
178680 GATCGACTCA
* * * *
178690 ACCGTTTGAATGATATACGATTAGTTTT
1 ACCGTCTGAATAATATACGATCAATTTT
*
178718 ACCGTCTGAATAATATATGATCAATTTT
1 ACCGTCTGAATAATATACGATCAATTTT
178746 GTTACTTGAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (28 bp):
ACCGTCTGAATAATATACGATCAATTTT
Found at i:182816 original size:78 final size:78
Alignment explanation
Indices: 182685--182869 Score: 254
Period size: 78 Copynumber: 2.4 Consensus size: 78
182675 TCGTATTCTA
* * *
182685 TATATTTTTTTAAA-TTAACTTTATATGA---TTTCTAAATTTAGACTGATACATGTGTTCTTCA
1 TATA-TTTTTCAAATTTAATTTTATATGATTTTTTCTAAATTTAGACTGATACATGTGTCCTTCA
182746 CTTTACTTATATTT
65 CTTTACTTATATTT
* * *
182760 TATATTTTTCAAATTTAATTTTATATGATTTTTTTTAAATTTAGAGTGATACATGTGTCCTTCCC
1 TATATTTTTCAAATTTAATTTTATATGATTTTTTCTAAATTTAGACTGATACATGTGTCCTTCAC
*
182825 TTTACTTGTATTT
66 TTTACTTATATTT
*
182838 TATATTTTCCAAATTTAATTTTATAT-ATTTTT
1 TATATTTTTCAAATTTAATTTTATATGATTTTT
182870 AAATTTAGAA
Statistics
Matches: 98, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
74 8 0.08
75 17 0.17
77 6 0.06
78 67 0.68
ACGTcount: A:0.28, C:0.10, G:0.06, T:0.56
Consensus pattern (78 bp):
TATATTTTTCAAATTTAATTTTATATGATTTTTTCTAAATTTAGACTGATACATGTGTCCTTCAC
TTTACTTATATTT
Found at i:185334 original size:18 final size:18
Alignment explanation
Indices: 185308--185342 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
185298 TTAATATCGG
*
185308 ATTATTAATATATTTTCT
1 ATTAATAATATATTTTCT
*
185326 ATTAATAATCTATTTTC
1 ATTAATAATATATTTTC
185343 ATTCTCTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.09, G:0.00, T:0.57
Consensus pattern (18 bp):
ATTAATAATATATTTTCT
Found at i:195519 original size:13 final size:13
Alignment explanation
Indices: 195501--195527 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
195491 GTTTAAATAT
195501 TTTAAGAATTATC
1 TTTAAGAATTATC
195514 TTTAAGAATTATC
1 TTTAAGAATTATC
195527 T
1 T
195528 CTTATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.48
Consensus pattern (13 bp):
TTTAAGAATTATC
Found at i:197163 original size:23 final size:23
Alignment explanation
Indices: 197133--197196 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
197123 AACTCATATA
197133 AATTGCACTGAAGTGCCACGTAG
1 AATTGCACTGAAGTGCCACGTAG
* *
197156 AATTGCACCGAAGTGCCGCGTAG
1 AATTGCACTGAAGTGCCACGTAG
*
197179 AATTGCACTGCAGTGCCA
1 AATTGCACTGAAGTGCCA
197197 TATAAATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
AATTGCACTGAAGTGCCACGTAG
Found at i:198957 original size:20 final size:21
Alignment explanation
Indices: 198918--198959 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
198908 CAGAATGTGC
198918 AGGGGGTATAGATTCTCCCCT
1 AGGGGGTATAGATTCTCCCCT
*
198939 AGGGGGTATCGATTC-CCCCT
1 AGGGGGTATAGATTCTCCCCT
198959 A
1 A
198960 AATGAAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.26
Consensus pattern (21 bp):
AGGGGGTATAGATTCTCCCCT
Found at i:202895 original size:35 final size:35
Alignment explanation
Indices: 202831--202901 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 35
202821 CCTTAGGTTC
* * *
202831 ATAAGGAATTAACAGTTTGATCTGTCTGAACCTAT
1 ATAAGGAATTAACAGTTTGATCCGGCTGAAACTAT
*
202866 ATAAGGAATTATCAGTTTGA-CCGAGCTGAAACTAT
1 ATAAGGAATTAACAGTTTGATCCG-GCTGAAACTAT
202901 A
1 A
202902 AAGACTTTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (35 bp):
ATAAGGAATTAACAGTTTGATCCGGCTGAAACTAT
Found at i:208721 original size:2 final size:2
Alignment explanation
Indices: 208714--208739 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
208704 ATTGTGCTGA
208714 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
208740 TTTATGATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:216621 original size:7 final size:7
Alignment explanation
Indices: 216609--216635 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
216599 ATCGACAACT
216609 CTAAACC
1 CTAAACC
216616 CTAAACC
1 CTAAACC
216623 CTAAACC
1 CTAAACC
216630 CTAAAC
1 CTAAAC
216636 TTTAATCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
CTAAACC
Found at i:220321 original size:81 final size:81
Alignment explanation
Indices: 220223--220380 Score: 280
Period size: 81 Copynumber: 2.0 Consensus size: 81
220213 ACACTTCATT
* *
220223 CGATTACCTTGGTGTTCAACATTAGCATGAAGAAAATACGACGAATACACATAAATAAGAGTATA
1 CGATTACCTTGGTGTTCAACATTAGCATGAAGAAAATACAACGAAAACACATAAATAAGAGTATA
220288 ATATGAAAATATTTAA
66 ATATGAAAATATTTAA
*
220304 CGATTACCTTGGTGTTCAACATTAGCATGAAGAAAATACAACGAAAACACATAAATACGAGTATA
1 CGATTACCTTGGTGTTCAACATTAGCATGAAGAAAATACAACGAAAACACATAAATAAGAGTATA
*
220369 ATATGGAAATAT
66 ATATGAAAATAT
220381 ATAAATATCA
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.46, C:0.13, G:0.15, T:0.26
Consensus pattern (81 bp):
CGATTACCTTGGTGTTCAACATTAGCATGAAGAAAATACAACGAAAACACATAAATAAGAGTATA
ATATGAAAATATTTAA
Found at i:224478 original size:29 final size:30
Alignment explanation
Indices: 224394--224482 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 30
224384 TATGGACATT
* * * *
224394 TTACCTAGGCTCTTTGGGACCTATGGACAG
1 TTACCGAGGCTCTTTGTGACCTCTGGATAG
* * * *
224424 TTGCCGAGGTTTTTTATGACCTCTGGATAG
1 TTACCGAGGCTCTTTGTGACCTCTGGATAG
*
224454 TTACCGAGG-TCTTTGTGACCCCTGGATAG
1 TTACCGAGGCTCTTTGTGACCTCTGGATAG
224483 GTCCTTCGGG
Statistics
Matches: 47, Mismatches: 12, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
29 17 0.36
30 30 0.64
ACGTcount: A:0.18, C:0.21, G:0.27, T:0.34
Consensus pattern (30 bp):
TTACCGAGGCTCTTTGTGACCTCTGGATAG
Found at i:226928 original size:34 final size:32
Alignment explanation
Indices: 226875--226944 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
226865 ACCTTACAAC
*
226875 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
226907 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
226941 TCCC
1 TCCC
226945 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:227250 original size:21 final size:21
Alignment explanation
Indices: 227224--227265 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
227214 CCAGAATGGG
*
227224 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
227245 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
227266 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:227395 original size:19 final size:19
Alignment explanation
Indices: 227371--227432 Score: 88
Period size: 19 Copynumber: 3.3 Consensus size: 19
227361 GAGCCTCGGG
*
227371 TTACTGTTCAAACAGTTAT
1 TTACTGTTCAAACAGTAAT
*
227390 TTACTGTTCAAATAGTAAT
1 TTACTGTTCAAACAGTAAT
* *
227409 TTACTGTTCAAATAGTAAA
1 TTACTGTTCAAACAGTAAT
227428 TTACT
1 TTACT
227433 ATTCGTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (19 bp):
TTACTGTTCAAACAGTAAT
Found at i:227583 original size:31 final size:31
Alignment explanation
Indices: 227500--227591 Score: 161
Period size: 32 Copynumber: 3.0 Consensus size: 31
227490 TAAATTTGAA
227500 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
227529 TAAATTCAATTCAAGTCCAAAAAACCATTTTG
1 TAAATTCAATTCAAGTCC-AAAAACCATTTTG
227561 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
227592 CCTTAAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.18
30 6 0.10
31 18 0.30
32 25 0.42
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:227777 original size:23 final size:23
Alignment explanation
Indices: 227750--227797 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
227740 AAGCTCCCCC
227750 TTTTTCATTAAGAAATTGAATTT
1 TTTTTCATTAAGAAATTGAATTT
*
227773 TTTTTTATTAAGAAATTGAATTT
1 TTTTTCATTAAGAAATTGAATTT
227796 TT
1 TT
227798 CAAACCAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.56
Consensus pattern (23 bp):
TTTTTCATTAAGAAATTGAATTT
Found at i:230464 original size:34 final size:32
Alignment explanation
Indices: 230411--230480 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
230401 ACCTTACAAC
*
230411 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
230443 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
230477 TCCC
1 TCCC
230481 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:230789 original size:21 final size:21
Alignment explanation
Indices: 230763--230804 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
230753 CCAGAATGGG
*
230763 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
230784 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
230805 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:230934 original size:19 final size:19
Alignment explanation
Indices: 230910--230971 Score: 88
Period size: 19 Copynumber: 3.3 Consensus size: 19
230900 GAGCCTCGGG
*
230910 TTACTGTTCAAACAGTTAT
1 TTACTGTTCAAACAGTAAT
*
230929 TTACTGTTCAAATAGTAAT
1 TTACTGTTCAAACAGTAAT
* *
230948 TTACTGTTCAAATAGTAAA
1 TTACTGTTCAAACAGTAAT
230967 TTACT
1 TTACT
230972 ATTCGTAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.42
Consensus pattern (19 bp):
TTACTGTTCAAACAGTAAT
Found at i:231104 original size:32 final size:31
Alignment explanation
Indices: 231041--231132 Score: 161
Period size: 32 Copynumber: 3.0 Consensus size: 31
231031 AAATTTTGAA
231041 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
231070 TAAATTCAATTCAAGTCCAAAAAACCATTTTG
1 TAAATTCAATTCAAGTCC-AAAAACCATTTTG
231102 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
231133 CCTTAAATTG
Statistics
Matches: 60, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.18
30 6 0.10
31 18 0.30
32 25 0.42
ACGTcount: A:0.43, C:0.17, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:233501 original size:29 final size:30
Alignment explanation
Indices: 233417--233505 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
233407 TATGAACATT
* * * *
233417 TTACCTAGGCTCTTTGGGACCTATGGACAG
1 TTACCGAGGCTCTTTGTGACCTCTGGATAG
* * *
233447 TTGCCGAGGTTCTTTATGACCTCTGGATAG
1 TTACCGAGGCTCTTTGTGACCTCTGGATAG
*
233477 TTACCGAGG-TCTTTGTGACCCCTGGATAG
1 TTACCGAGGCTCTTTGTGACCTCTGGATAG
233506 GTCCTTCGGG
Statistics
Matches: 49, Mismatches: 10, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
29 18 0.37
30 31 0.63
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (30 bp):
TTACCGAGGCTCTTTGTGACCTCTGGATAG
Found at i:237533 original size:14 final size:14
Alignment explanation
Indices: 237514--237542 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
237504 TGATGCAATT
237514 GAGCAACTTCAAGG
1 GAGCAACTTCAAGG
237528 GAGCAACTTCAAGG
1 GAGCAACTTCAAGG
237542 G
1 G
237543 TTAAATTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.21, G:0.31, T:0.14
Consensus pattern (14 bp):
GAGCAACTTCAAGG
Found at i:238288 original size:18 final size:18
Alignment explanation
Indices: 238261--238305 Score: 81
Period size: 18 Copynumber: 2.5 Consensus size: 18
238251 CTCCAAATCA
*
238261 TCATCGCCACCCTCTTCC
1 TCATCCCCACCCTCTTCC
238279 TCATCCCCACCCTCTTCC
1 TCATCCCCACCCTCTTCC
238297 TCATCCCCA
1 TCATCCCCA
238306 TCTACACGAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.13, C:0.58, G:0.02, T:0.27
Consensus pattern (18 bp):
TCATCCCCACCCTCTTCC
Found at i:239410 original size:9 final size:9
Alignment explanation
Indices: 239396--239433 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
239386 TAAATGCAAG
239396 AAAAAAATA
1 AAAAAAATA
239405 AAAAAAATA
1 AAAAAAATA
239414 AAAAAAAT-
1 AAAAAAATA
*
239422 AAACAAATA
1 AAAAAAATA
239431 AAA
1 AAA
239434 TGAATATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
8 7 0.26
9 20 0.74
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.11
Consensus pattern (9 bp):
AAAAAAATA
Found at i:239416 original size:17 final size:18
Alignment explanation
Indices: 239396--239433 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
239386 TAAATGCAAG
239396 AAAAAAATAAAAAAAATA
1 AAAAAAATAAAAAAAATA
*
239414 AAAAAAAT-AAACAAATA
1 AAAAAAATAAAAAAAATA
239431 AAA
1 AAA
239434 TGAATATGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.87, C:0.03, G:0.00, T:0.11
Consensus pattern (18 bp):
AAAAAAATAAAAAAAATA
Found at i:239523 original size:15 final size:14
Alignment explanation
Indices: 239487--239527 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 14
239477 TTAAAAAATT
239487 AAAAAAATAAAACA
1 AAAAAAATAAAACA
239501 AAATAAAATAAAACA
1 AAA-AAAATAAAACA
239516 TATAAAAAATAA
1 -A-AAAAAATAA
239528 TAATAATGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 3 0.12
15 11 0.46
16 8 0.33
17 2 0.08
ACGTcount: A:0.80, C:0.05, G:0.00, T:0.15
Consensus pattern (14 bp):
AAAAAAATAAAACA
Found at i:239920 original size:5 final size:5
Alignment explanation
Indices: 239910--239937 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
239900 TATATAATAA
239910 AAATT AAATT AAATT AAATT AAATT AAA
1 AAATT AAATT AAATT AAATT AAATT AAA
239938 ATAATAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (5 bp):
AAATT
Done.