Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 24 of 373
Found at i:6712325 original size:21 final size:21
Alignment explanation
Indices: 6712301--6712359 Score: 57
Period size: 21 Copynumber: 2.8 Consensus size: 21
6712291 ACCGCCATGT
*
6712301 CCTCCACTGCCGCCACCACTA
1 CCTCCACTGCCACCACCACTA
* *
6712322 CCTCC-GTGTCCTCCACCACTA
1 CCTCCACTG-CCACCACCACTA
* *
6712343 CCACCACTACCACCACC
1 CCTCCACTGCCACCACC
6712360 CTGTCTTCCA
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.20, C:0.58, G:0.07, T:0.15
Consensus pattern (21 bp):
CCTCCACTGCCACCACCACTA
Found at i:6712346 original size:9 final size:9
Alignment explanation
Indices: 6712334--6712358 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
6712324 TCCGTGTCCT
6712334 CCACCACTA
1 CCACCACTA
6712343 CCACCACTA
1 CCACCACTA
6712352 CCACCAC
1 CCACCAC
6712359 CCTGTCTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.32, C:0.60, G:0.00, T:0.08
Consensus pattern (9 bp):
CCACCACTA
Found at i:6712350 original size:63 final size:63
Alignment explanation
Indices: 6712220--6712372 Score: 164
Period size: 63 Copynumber: 2.4 Consensus size: 63
6712210 ACCTCCTTGT
* * * * * *
6712220 CCACCACTACCGCCATGTCCTCCGCCACCACCACCACTACCACCTTTTCCTCCACCATGCCCG
1 CCACTACTACCGCCATGTCCTCCACCACCACCACCACTACCACCGTGTCCTCCACCATGACCA
** * *
6712283 CCACTACTACCGCCATGTCCTCCACTGCCGCCACCACTACCTCCGTGTCCTCCACCACT-ACCA
1 CCACTACTACCGCCATGTCCTCCACCACCACCACCACTACCACCGTGTCCTCCACCA-TGACCA
* * * *
6712346 CCACTACCACCACCCTGTCTTCCACCA
1 CCACTACTACCGCCATGTCCTCCACCA
6712373 TATCCACCAC
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
63 72 0.99
64 1 0.01
ACGTcount: A:0.20, C:0.54, G:0.08, T:0.18
Consensus pattern (63 bp):
CCACTACTACCGCCATGTCCTCCACCACCACCACCACTACCACCGTGTCCTCCACCATGACCA
Found at i:6712436 original size:21 final size:20
Alignment explanation
Indices: 6712412--6712475 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
6712402 TCCCTCGCCG
6712412 CCACCAGTACCTCCCTGTCCT
1 CCACCA-TACCTCCCTGTCCT
* *
6712433 CCACCATGCCCACCACTG-CCT
1 CCACCAT-ACCTCC-CTGTCCT
*
6712454 CCACCACTGCCTCCCTGTCCT
1 CCACCA-TACCTCCCTGTCCT
6712475 C
1 C
6712476 TGCCACCACC
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 4 0.11
21 27 0.77
22 4 0.11
ACGTcount: A:0.14, C:0.56, G:0.09, T:0.20
Consensus pattern (20 bp):
CCACCATACCTCCCTGTCCT
Found at i:6712457 original size:12 final size:12
Alignment explanation
Indices: 6712430--6712467 Score: 55
Period size: 12 Copynumber: 3.4 Consensus size: 12
6712420 ACCTCCCTGT
6712430 CCTCCACCA-TG
1 CCTCCACCACTG
6712441 -C-CCACCACTG
1 CCTCCACCACTG
6712451 CCTCCACCACTG
1 CCTCCACCACTG
6712463 CCTCC
1 CCTCC
6712468 CTGTCCTCTG
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.25
10 3 0.12
11 1 0.04
12 14 0.58
ACGTcount: A:0.16, C:0.61, G:0.08, T:0.16
Consensus pattern (12 bp):
CCTCCACCACTG
Found at i:6712488 original size:99 final size:99
Alignment explanation
Indices: 6712220--6712438 Score: 263
Period size: 99 Copynumber: 2.3 Consensus size: 99
6712210 ACCTCCTTGT
* * * * * * *
6712220 CCACCACTACCGCCATGTCCTCCGCCACCACCACCACT---ACCACCTTTTCCTCCACC--ATGC
1 CCACCACTACCTCCCTGTCCTCCACCACTACCACCACTACCACCACCCTGTCCTCCACCATATCC
* *
6712280 -CCGCCACTACTACCGCCATGTCCTCCACTGCCG
66 ACCACCACCACTACCGCCATGTCCTCCACTGCCG
* *
6712313 CCACCACTACCTCCGTGTCCTCCACCACTACCACCACTACCACCACCCTGTCTTCCACCATATCC
1 CCACCACTACCTCCCTGTCCTCCACCACTACCACCACTACCACCACCCTGTCCTCCACCATATCC
*
6712378 ACCACCACCACTGCCGCCATGTCCTCC-CTCGCCG
66 ACCACCACCACTACCGCCATGTCCTCCACT-GCCG
*
6712412 CCACCAGTACCTCCCTGTCCTCCACCA
1 CCACCACTACCTCCCTGTCCTCCACCA
6712439 TGCCCACCAC
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
93 34 0.32
96 15 0.14
98 5 0.05
99 52 0.49
ACGTcount: A:0.19, C:0.54, G:0.09, T:0.18
Consensus pattern (99 bp):
CCACCACTACCTCCCTGTCCTCCACCACTACCACCACTACCACCACCCTGTCCTCCACCATATCC
ACCACCACCACTACCGCCATGTCCTCCACTGCCG
Found at i:6712592 original size:144 final size:143
Alignment explanation
Indices: 6712382--6712676 Score: 353
Period size: 144 Copynumber: 2.0 Consensus size: 143
6712372 ATATCCACCA
* * * * *
6712382 CCACCACTGCCGCCATGTCCTCCCTCGCCGCCACCAGTACCTCCCTGTCCTCCACCATGCCCACC
1 CCACCACTACCGCCATGTCCTCCCTCACCACCACCACTACCTCCCTGCCCTCCACCATGCCCACC
* * * * * *
6712447 ACTGCCTCCACCACTGCCTCCCTGTCCT-C-TGCCACCACCACTACTGCTTCCTTGTCCTCCACC
66 ACTACCGCCACCACTACCACCATGACCTCCGTGCCACCACCACTAC--C-TCCTTGTCCTCCACC
*
6712510 ATGCCCACCACTACCT
128 ATGCCCACCACTACCG
* * * * *
6712526 CCACCACTACCGCCATGTCCTCCGC-CACCACCAGCACTGCCTCCCTGCCCTCCACTATGTCTAC
1 CCACCACTACCGCCATGTCCTCC-CTCACCACCACCACTACCTCCCTGCCCTCCACCATGCCCAC
*
6712590 CACTACCGCCACCGCTACCACCATGACCTCCGTTGCCACCACCACTACCTCCTTGTCCTCCACCA
65 CACTACCGCCACCACTACCACCATGACCTCCG-TGCCACCACCACTACCTCCTTGTCCTCCACCA
*
6712655 TGCCCGCCACTACCG
129 TGCCCACCACTACCG
6712670 CCACCAC
1 CCACCAC
6712677 CACTACCACC
Statistics
Matches: 128, Mismatches: 19, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
144 110 0.86
145 3 0.02
147 15 0.12
ACGTcount: A:0.17, C:0.54, G:0.11, T:0.19
Consensus pattern (143 bp):
CCACCACTACCGCCATGTCCTCCCTCACCACCACCACTACCTCCCTGCCCTCCACCATGCCCACC
ACTACCGCCACCACTACCACCATGACCTCCGTGCCACCACCACTACCTCCTTGTCCTCCACCATG
CCCACCACTACCG
Found at i:6712630 original size:21 final size:21
Alignment explanation
Indices: 6712606--6712656 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 21
6712596 CGCCACCGCT
6712606 ACCACCATGACCTCCGTTG-CC
1 ACCACCATGACCTCC-TTGTCC
6712627 ACCACCACT-ACCTCCTTGTCC
1 ACCACCA-TGACCTCCTTGTCC
*
6712648 TCCACCATG
1 ACCACCATG
6712657 CCCGCCACTA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 4 0.15
21 21 0.81
22 1 0.04
ACGTcount: A:0.20, C:0.49, G:0.10, T:0.22
Consensus pattern (21 bp):
ACCACCATGACCTCCTTGTCC
Found at i:6712674 original size:42 final size:42
Alignment explanation
Indices: 6712625--6712872 Score: 194
Period size: 42 Copynumber: 5.6 Consensus size: 42
6712615 ACCTCCGTTG
* * *
6712625 CCACCACCACTACCTCCTTGTCCTCCACCATGCCCGCCACTA
1 CCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACTA
* * * * *
6712667 CCGCCACCACCACTACCACCACCATGTCCTCCACTGCCACCATGTCCTCCGCCA
1 ---CCACCACCACT---ACCGCC-T-T-GT-C-CT-CCACCATGTCCACCACTA
*
6712721 CCACCACCACTACCGCCTTGTCTTCCACCATGTCCACCACTA
1 CCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACTA
* * **
6712763 CCACCACCACTACCGCCGTGTCCTCCGCC-TCCACCACCACTA
1 CCACCACCACTACCGCCTTGTCCTCCACCAT-GTCCACCACTA
* * *
6712805 CCACCACCACTACCGCCGTGTCCTCCTCTATGTCCACCACTA
1 CCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACTA
* *
6712847 CCACCGCCACTACTGCCGTT-TCCTCC
1 CCACCACCACTACCGCC-TTGTCCTCC
6712873 GCTTCCACCA
Statistics
Matches: 167, Mismatches: 24, Indels: 27
0.77 0.11 0.12
Matches are distributed among these distances:
41 1 0.01
42 107 0.64
43 3 0.02
44 1 0.01
45 12 0.07
46 1 0.01
47 1 0.01
48 10 0.06
49 1 0.01
50 1 0.01
51 12 0.07
52 1 0.01
53 2 0.01
54 14 0.08
ACGTcount: A:0.19, C:0.54, G:0.09, T:0.19
Consensus pattern (42 bp):
CCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACTA
Found at i:6712677 original size:48 final size:47
Alignment explanation
Indices: 6712625--6712772 Score: 149
Period size: 48 Copynumber: 3.1 Consensus size: 47
6712615 ACCTCCGTTG
* *
6712625 CCACCACCACTACCTCCTTGTCCTCCACCATGCCCGCCACTACCGCCA
1 CCACCACCACTACCACCTTGTCCTCCACCATG-CCACCACTACCGCCA
* * *
6712673 CCACCACTACCACCACCATGTCCTCCA-C-TGCCACCATGTCCT-CCGCCA
1 CCACCACCACTACCACCTTGTCCTCCACCATGCCACCA----CTACCGCCA
* * *
6712721 CCACCACCACTACCGCCTTGTCTTCCACCATGTCCACCACTACCACCA
1 CCACCACCACTACCACCTTGTCCTCCACCATG-CCACCACTACCGCCA
6712769 CCAC
1 CCAC
6712773 TACCGCCGTG
Statistics
Matches: 81, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
45 5 0.06
46 2 0.02
47 3 0.04
48 60 0.74
49 3 0.04
50 2 0.02
51 6 0.07
ACGTcount: A:0.21, C:0.55, G:0.07, T:0.17
Consensus pattern (47 bp):
CCACCACCACTACCACCTTGTCCTCCACCATGCCACCACTACCGCCA
Found at i:6712681 original size:15 final size:15
Alignment explanation
Indices: 6712661--6712690 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
6712651 ACCATGCCCG
*
6712661 CCACTACCGCCACCA
1 CCACTACCACCACCA
6712676 CCACTACCACCACCA
1 CCACTACCACCACCA
6712691 TGTCCTCCAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.30, C:0.60, G:0.03, T:0.07
Consensus pattern (15 bp):
CCACTACCACCACCA
Found at i:6712700 original size:21 final size:21
Alignment explanation
Indices: 6712676--6712729 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 21
6712666 ACCGCCACCA
6712676 CCACTACCACCACCATGTCCT
1 CCACTACCACCACCATGTCCT
*
6712697 CCACT---GCCACCATGTCCT
1 CCACTACCACCACCATGTCCT
* *
6712715 CCGCCACCACCACCA
1 CCACTACCACCACCA
6712730 CTACCGCCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
18 15 0.58
21 11 0.42
ACGTcount: A:0.22, C:0.56, G:0.07, T:0.15
Consensus pattern (21 bp):
CCACTACCACCACCATGTCCT
Found at i:6712724 original size:18 final size:18
Alignment explanation
Indices: 6712681--6712726 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 18
6712671 CACCACCACT
6712681 ACCACCACCATGTCCTCC
1 ACCACCACCATGTCCTCC
**
6712699 ACTGCCACCATGTCCTCC
1 ACCACCACCATGTCCTCC
*
6712717 GCCACCACCA
1 ACCACCACCA
6712727 CCACTACCGC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.22, C:0.54, G:0.09, T:0.15
Consensus pattern (18 bp):
ACCACCACCATGTCCTCC
Found at i:6712785 original size:72 final size:72
Alignment explanation
Indices: 6712709--6712920 Score: 217
Period size: 84 Copynumber: 2.8 Consensus size: 72
6712699 ACTGCCACCA
*
6712709 TGTCCTCCGCCACCACCACCACTACCGCCTTGTCTTCCACCATGTCCACCACTACCACCACCACT
1 TGTCCTCCGCCACCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACTACCACCACCACT
6712774 ACCGCCG
66 ACCGCCG
* * *
6712781 TGTCCTCCGCCTCCACCACCACTACCACCACCACTACCGCCGTGTCCTCCTCTATGTCCACCACT
1 TGTCCTCCG----------C-C-ACCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACT
* *
6712846 ACCACCGCCACTACTGCCG
54 ACCACCACCACTACCGCCG
* ** * *
6712865 TTTCCTCCGCTTCCACCACCACTATCACCTTGTCCTCCACCATGTCCACCACTACC
1 TGTCCTCCGCCACCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACTACC
6712921 GCCTTGTCCT
Statistics
Matches: 114, Mismatches: 14, Indels: 24
0.75 0.09 0.16
Matches are distributed among these distances:
72 48 0.42
74 1 0.01
82 1 0.01
83 1 0.01
84 63 0.55
ACGTcount: A:0.18, C:0.52, G:0.09, T:0.21
Consensus pattern (72 bp):
TGTCCTCCGCCACCACCACCACTACCGCCTTGTCCTCCACCATGTCCACCACTACCACCACCACT
ACCGCCG
Found at i:6712808 original size:12 final size:12
Alignment explanation
Indices: 6712793--6712818 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
6712783 TCCTCCGCCT
6712793 CCACCACCACTA
1 CCACCACCACTA
6712805 CCACCACCACTA
1 CCACCACCACTA
6712817 CC
1 CC
6712819 GCCGTGTCCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.62, G:0.00, T:0.08
Consensus pattern (12 bp):
CCACCACCACTA
Found at i:6712817 original size:84 final size:84
Alignment explanation
Indices: 6712720--6712893 Score: 267
Period size: 84 Copynumber: 2.1 Consensus size: 84
6712710 GTCCTCCGCC
* *
6712720 ACCACCACCACTACCGCCTTGTCTTCCACCATGTCCACCACTACCACCACCACTACCGCCGTGTC
1 ACCACCACCACTACCGCCGTGTCCTCCACCATGTCCACCACTACCACCACCACTACCGCCGTGTC
6712785 CTCCGCCTCCACCACCACT
66 CTCCGCCTCCACCACCACT
* * * * *
6712804 ACCACCACCACTACCGCCGTGTCCTCCTCTATGTCCACCACTACCACCGCCACTACTGCCGTTTC
1 ACCACCACCACTACCGCCGTGTCCTCCACCATGTCCACCACTACCACCACCACTACCGCCGTGTC
*
6712869 CTCCGCTTCCACCACCACT
66 CTCCGCCTCCACCACCACT
*
6712888 ATCACC
1 ACCACC
6712894 TTGTCCTCCA
Statistics
Matches: 81, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.20, C:0.52, G:0.09, T:0.20
Consensus pattern (84 bp):
ACCACCACCACTACCGCCGTGTCCTCCACCATGTCCACCACTACCACCACCACTACCGCCGTGTC
CTCCGCCTCCACCACCACT
Found at i:6712884 original size:42 final size:42
Alignment explanation
Indices: 6712754--6712893 Score: 192
Period size: 42 Copynumber: 3.3 Consensus size: 42
6712744 TCCACCATGT
*
6712754 CCACCACTACCACCACCACTACCGCCGTGTCCTCCGCCTCCA
1 CCACCACTACCACCACCACTACCGCCGTGTCCTCCGCTTCCA
* **
6712796 CCACCACTACCACCACCACTACCGCCGTGTCCTCCTCTAT-GT
1 CCACCACTACCACCACCACTACCGCCGTGTCCTCCGCT-TCCA
* * *
6712838 CCACCACTACCACCGCCACTACTGCCGTTTCCTCCGCTTCCA
1 CCACCACTACCACCACCACTACCGCCGTGTCCTCCGCTTCCA
*
6712880 CCACCACTATCACC
1 CCACCACTACCACC
6712894 TTGTCCTCCA
Statistics
Matches: 85, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
41 1 0.01
42 83 0.98
43 1 0.01
ACGTcount: A:0.19, C:0.54, G:0.09, T:0.19
Consensus pattern (42 bp):
CCACCACTACCACCACCACTACCGCCGTGTCCTCCGCTTCCA
Found at i:6712914 original size:30 final size:30
Alignment explanation
Indices: 6712880--6712941 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
6712870 TCCGCTTCCA
*
6712880 CCACCACTATCACCTTGTCCTCCACCATGT
1 CCACCACTACCACCTTGTCCTCCACCATGT
*
6712910 CCACCACTACCGCCTTGTCCTCCACCATGT
1 CCACCACTACCACCTTGTCCTCCACCATGT
6712940 CC
1 CC
6712942 TTCATTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.18, C:0.50, G:0.08, T:0.24
Consensus pattern (30 bp):
CCACCACTACCACCTTGTCCTCCACCATGT
Found at i:6715731 original size:37 final size:37
Alignment explanation
Indices: 6715683--6715758 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
6715673 TAGTCCAATT
6715683 ATTAAAACATTGAATATGACACTATGAGATTTTGGCA
1 ATTAAAACATTGAATATGACACTATGAGATTTTGGCA
6715720 ATTAAAACATTGAATATGACACTATGAGATTTTGGCA
1 ATTAAAACATTGAATATGACACTATGAGATTTTGGCA
6715757 AT
1 AT
6715759 CTCGAAGTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (37 bp):
ATTAAAACATTGAATATGACACTATGAGATTTTGGCA
Found at i:6716286 original size:20 final size:19
Alignment explanation
Indices: 6716261--6716299 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
6716251 TCTTTTTATT
6716261 ATCTTTAAATTTAAGATTTA
1 ATCTTTAAATTTAA-ATTTA
*
6716281 ATCTTTATATTTAAATTTA
1 ATCTTTAAATTTAAATTTA
6716300 TAATATAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (19 bp):
ATCTTTAAATTTAAATTTA
Found at i:6716308 original size:26 final size:26
Alignment explanation
Indices: 6716259--6716308 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
6716249 GGTCTTTTTA
* *
6716259 TTATCTTTAAATTTAAGATTTAATCT
1 TTATATTTAAATTTAAGATATAATCT
6716285 TTATATTTAAATTTATA-ATATAAT
1 TTATATTTAAATTTA-AGATATAAT
6716309 TAGATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 20 0.95
27 1 0.05
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (26 bp):
TTATATTTAAATTTAAGATATAATCT
Found at i:6720182 original size:18 final size:18
Alignment explanation
Indices: 6720156--6720198 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
6720146 AAAAGCTATT
*
6720156 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
*
6720174 TTTATATATATTAATATA
1 TTTATATATATTAATAAA
6720192 TTTATAT
1 TTTATAT
6720199 TTTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:6724213 original size:30 final size:30
Alignment explanation
Indices: 6724177--6724233 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
6724167 AGTTTTCAGG
* *
6724177 ATCCACACTGGCAGGCCACACGCCCATGTA
1 ATCCACACGGGCAGGCCACAAGCCCATGTA
6724207 ATCCACACGGGCAGGCCACAAGCCCAT
1 ATCCACACGGGCAGGCCACAAGCCCAT
6724234 ATTGCAGCCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.40, G:0.21, T:0.11
Consensus pattern (30 bp):
ATCCACACGGGCAGGCCACAAGCCCATGTA
Found at i:6728584 original size:22 final size:22
Alignment explanation
Indices: 6728558--6728603 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
6728548 CCCAATTTTA
*
6728558 TTTTATTTTATTTATTTTTAAT
1 TTTTATATTATTTATTTTTAAT
6728580 TTTTATATTATTTATTTTTAAT
1 TTTTATATTATTTATTTTTAAT
6728602 TT
1 TT
6728604 ACTAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (22 bp):
TTTTATATTATTTATTTTTAAT
Found at i:6728659 original size:17 final size:17
Alignment explanation
Indices: 6728637--6728693 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 17
6728627 ATTCTTATAC
6728637 TTATATTTTTAATTTTT
1 TTATATTTTTAATTTTT
6728654 TTATA-TTTTAATTTTT
1 TTATATTTTTAATTTTT
*
6728670 TATATACTTTTATTATTTTT
1 T-TATA-TTTT-TAATTTTT
6728690 TTAT
1 TTAT
6728694 TTTGCTATTC
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
16 12 0.34
17 9 0.26
19 6 0.17
20 8 0.23
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (17 bp):
TTATATTTTTAATTTTT
Found at i:6728662 original size:8 final size:8
Alignment explanation
Indices: 6728637--6728696 Score: 50
Period size: 8 Copynumber: 7.1 Consensus size: 8
6728627 ATTCTTATAC
6728637 TTATATTT
1 TTATATTT
*
6728645 TTAATTTTT
1 TT-ATATTT
6728654 TTATATTT
1 TTATATTT
*
6728662 TAAT-TTT
1 TTATATTT
6728669 TTATATACTT
1 TTATAT--TT
6728679 TTATTATTT
1 TTA-TATTT
*
6728688 TTTTATTT
1 TTATATTT
6728696 T
1 T
6728697 GCTATTCCTA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
7 6 0.14
8 17 0.40
9 11 0.26
10 5 0.12
11 3 0.07
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (8 bp):
TTATATTT
Found at i:6728784 original size:18 final size:18
Alignment explanation
Indices: 6728761--6728795 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
6728751 TTACCTTTTA
6728761 AGTTTATTGA-TATTATTG
1 AGTTTATT-ATTATTATTG
6728779 AGTTTATTATTATTATT
1 AGTTTATTATTATTATT
6728796 ATTATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.60
Consensus pattern (18 bp):
AGTTTATTATTATTATTG
Found at i:6734074 original size:15 final size:15
Alignment explanation
Indices: 6734054--6734093 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
6734044 TATCACATAT
6734054 ATGACTAAAGTTACC
1 ATGACTAAAGTTACC
*
6734069 ATGACTAAAGTTATC
1 ATGACTAAAGTTACC
6734084 ATGACTAAAG
1 ATGACTAAAG
6734094 GGAATGGAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (15 bp):
ATGACTAAAGTTACC
Found at i:6735941 original size:16 final size:16
Alignment explanation
Indices: 6735920--6735950 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6735910 TTTCAAGCAC
6735920 TGTGTATATATATATG
1 TGTGTATATATATATG
*
6735936 TGTGTATGTATATAT
1 TGTGTATATATATAT
6735951 TTTTTTCTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.00, G:0.19, T:0.52
Consensus pattern (16 bp):
TGTGTATATATATATG
Found at i:6737246 original size:19 final size:18
Alignment explanation
Indices: 6737208--6737256 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
6737198 AAATACTTTA
6737208 AAAATAAGTATT-AAATTT
1 AAAATAA-TATTAAAATTT
**
6737226 AATTTAATATTAAAATATT
1 AAAATAATATTAAAAT-TT
6737245 AAAATAATATTA
1 AAAATAATATTA
6737257 TTTTTGAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 4 0.16
18 9 0.36
19 12 0.48
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (18 bp):
AAAATAATATTAAAATTT
Found at i:6739814 original size:22 final size:21
Alignment explanation
Indices: 6739784--6739830 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
6739774 TACAAATTAA
6739784 ATCTCCAAGATTACAAGATCAT
1 ATCTCCAAGATTAC-AGATCAT
* * *
6739806 ATCTTCAAGATTGCATATCAT
1 ATCTCCAAGATTACAGATCAT
6739827 ATCT
1 ATCT
6739831 AAGATTGCAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.36, C:0.21, G:0.09, T:0.34
Consensus pattern (21 bp):
ATCTCCAAGATTACAGATCAT
Found at i:6739824 original size:16 final size:16
Alignment explanation
Indices: 6739803--6739853 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 16
6739793 ATTACAAGAT
6739803 CATATCTTCAAGATTG
1 CATATCTTCAAGATTG
6739819 CATATCATATCTAAGATTG
1 CATATC-T-TC-AAGATTG
*
6739838 CATATCCTTAAAGATT
1 CATAT-CTTCAAGATT
6739854 ATATTTCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 13 0.43
20 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (16 bp):
CATATCTTCAAGATTG
Found at i:6739836 original size:19 final size:21
Alignment explanation
Indices: 6739801--6739843 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
6739791 AGATTACAAG
6739801 ATCATATCTTCAAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
6739822 ATCATATC-T-AAGATTGCAT
1 ATCATATCTTCAAGATTGCAT
6739841 ATC
1 ATC
6739844 CTTAAAGATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
20 1 0.05
21 8 0.36
ACGTcount: A:0.35, C:0.19, G:0.09, T:0.37
Consensus pattern (21 bp):
ATCATATCTTCAAGATTGCAT
Found at i:6741014 original size:16 final size:18
Alignment explanation
Indices: 6740967--6741030 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 18
6740957 TTTAGAATTT
6740967 TTTTGAAATTTT-TATAA
1 TTTTGAAATTTTATATAA
* * *
6740984 TTTTAAAAATATATAT-A
1 TTTTGAAATTTTATATAA
*
6741001 -TTTGAAATTTTATAAATA
1 TTTTGAAATTTTATATA-A
6741019 TTTTG-AATTTTA
1 TTTTGAAATTTTA
6741031 AAAATTATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
16 11 0.31
17 10 0.28
18 11 0.31
19 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.55
Consensus pattern (18 bp):
TTTTGAAATTTTATATAA
Found at i:6741014 original size:18 final size:18
Alignment explanation
Indices: 6740968--6741030 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 18
6740958 TTAGAATTTT
6740968 TTTGAAATTTT-TATA-A
1 TTTGAAATTTTATATATA
* **
6740984 TTTTAAA-AATATATATA
1 TTTGAAATTTTATATATA
*
6741001 TTTGAAATTTTATAAATA
1 TTTGAAATTTTATATATA
6741019 TTTTG-AATTTTA
1 -TTTGAAATTTTA
6741031 AAAATTATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
15 1 0.03
16 10 0.28
17 7 0.19
18 14 0.39
19 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (18 bp):
TTTGAAATTTTATATATA
Found at i:6741025 original size:19 final size:19
Alignment explanation
Indices: 6740996--6741043 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
6740986 TTAAAAATAT
*
6740996 ATATATTTGAAATTTTATAA
1 ATAT-TTTGAAATTTTAAAA
6741016 ATATTTTG-AATTTTAAAA
1 ATATTTTGAAATTTTAAAA
6741034 ATTATTTTGA
1 A-TATTTTGA
6741044 TTTTTTTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 10 0.40
19 11 0.44
20 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (19 bp):
ATATTTTGAAATTTTAAAA
Found at i:6741048 original size:19 final size:18
Alignment explanation
Indices: 6740996--6741047 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 18
6740986 TTAAAAATAT
*
6740996 ATATATTTGAAATTTTATAA
1 ATAT-TTTG-AATTTTAAAA
6741016 ATATTTTGAATTTTAAAA
1 ATATTTTGAATTTTAAAA
6741034 ATTATTTTG-ATTTT
1 A-TATTTTGAATTTT
6741048 TTTTTGTAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
18 15 0.50
19 11 0.37
20 4 0.13
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
ATATTTTGAATTTTAAAA
Found at i:6744708 original size:21 final size:21
Alignment explanation
Indices: 6744684--6744731 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
6744674 TCCTGTTCTG
*
6744684 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCGCTACTGC
6744705 CTCCGCCTCCCTCGCTACTGC
1 CTCCGCCTCCCTCGCTACTGC
6744726 CTCCGC
1 CTCCGC
6744732 TCTAAGTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.58, G:0.17, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCTCGCTACTGC
Found at i:6745319 original size:18 final size:18
Alignment explanation
Indices: 6745287--6745324 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
6745277 TACAATATAG
6745287 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
6745306 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
6745323 TA
1 TA
6745325 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:6748842 original size:15 final size:15
Alignment explanation
Indices: 6748822--6748853 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
6748812 AAATAATAAT
*
6748822 TTATATATATTTATC
1 TTATATACATTTATC
6748837 TTATATACATTTATC
1 TTATATACATTTATC
6748852 TT
1 TT
6748854 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:6762022 original size:18 final size:18
Alignment explanation
Indices: 6761988--6762029 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
6761978 GTATTTTTTT
*
6761988 ATTATTATATATTTTGTA
1 ATTATTATATATGTTGTA
6762006 ATTATTA-ATATAGTTGTA
1 ATTATTATATAT-GTTGTA
6762024 ACTTAT
1 A-TTAT
6762030 AGTATCCTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.36, C:0.02, G:0.07, T:0.55
Consensus pattern (18 bp):
ATTATTATATATGTTGTA
Found at i:6763417 original size:13 final size:13
Alignment explanation
Indices: 6763399--6763424 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6763389 CTGGAACACC
6763399 TTTTTTTTCCTTT
1 TTTTTTTTCCTTT
6763412 TTTTTTTTCCTTT
1 TTTTTTTTCCTTT
6763425 CCACAAAGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
TTTTTTTTCCTTT
Found at i:6765646 original size:50 final size:51
Alignment explanation
Indices: 6765564--6765663 Score: 139
Period size: 50 Copynumber: 1.9 Consensus size: 51
6765554 AAAGAAAAAT
* * * *
6765564 AAAACTCATGTTTAATTCTTGTTTATTTATGACATAGTTAGTAAATAAATAAA
1 AAAACTCATGTTTAATTC-T-TTCACTTATGACATAATTAATAAATAAATAAA
6765617 AAAACTCATGTTTAATTC-TTCACTTATGACATAATTAATAAATAAAT
1 AAAACTCATGTTTAATTCTTTCACTTATGACATAATTAATAAATAAAT
6765664 CCCCTAATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
50 25 0.58
53 18 0.42
ACGTcount: A:0.43, C:0.10, G:0.07, T:0.40
Consensus pattern (51 bp):
AAAACTCATGTTTAATTCTTTCACTTATGACATAATTAATAAATAAATAAA
Found at i:6769595 original size:26 final size:26
Alignment explanation
Indices: 6769566--6769628 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
6769556 TGTTTTTTCA
6769566 ATTTTTAAAAAATAAAAAT-GAAAATT
1 ATTTTTAAAAAATAAAAATAGAAAA-T
* *
6769592 ATTTTCT-TAAAATGAAAATAGAAAAT
1 ATTTT-TAAAAAATAAAAATAGAAAAT
*
6769618 ATTTTCAAAAA
1 ATTTTTAAAAA
6769629 TCAAACCTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
26 24 0.80
27 6 0.20
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (26 bp):
ATTTTTAAAAAATAAAAATAGAAAAT
Found at i:6769615 original size:27 final size:25
Alignment explanation
Indices: 6769574--6769623 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 25
6769564 CAATTTTTAA
6769574 AAAATAAAAATGAAAATTATTTTCTT
1 AAAATAAAAATGAAAA-TATTTTCTT
*
6769600 AAAATGAAAATAGAAAATATTTTC
1 AAAATAAAAAT-GAAAATATTTTC
6769624 AAAAATCAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (25 bp):
AAAATAAAAATGAAAATATTTTCTT
Found at i:6772352 original size:11 final size:11
Alignment explanation
Indices: 6772336--6772382 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
6772326 TTATTTACAA
6772336 AATCATATATT
1 AATCATATATT
6772347 AATCATATATT
1 AATCATATATT
** *
6772358 -ATTTTAAATTT
1 AATCATATA-TT
6772369 AATCATATATT
1 AATCATATATT
6772380 AAT
1 AAT
6772383 TTAGAAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
10 5 0.18
11 18 0.64
12 5 0.18
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (11 bp):
AATCATATATT
Found at i:6772411 original size:21 final size:22
Alignment explanation
Indices: 6772375--6772415 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
6772365 ATTTAATCAT
*
6772375 ATATTAATTTAGAAATAAATTA
1 ATATTAATTTAAAAATAAATTA
6772397 ATATT-ATTTAAAAATAAAT
1 ATATTAATTTAAAAATAAAT
6772416 AGACTGAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATATTAATTTAAAAATAAATTA
Found at i:6779455 original size:14 final size:15
Alignment explanation
Indices: 6779438--6779467 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
6779428 TAAATCATTC
6779438 TCCAAAAA-TATTTT
1 TCCAAAAACTATTTT
6779452 TCCAAAAACTATTTT
1 TCCAAAAACTATTTT
6779467 T
1 T
6779468 AATGAAACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
TCCAAAAACTATTTT
Found at i:6781954 original size:15 final size:16
Alignment explanation
Indices: 6781934--6781963 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6781924 TATTTAATAA
6781934 ATTTA-TAAAATTTTT
1 ATTTATTAAAATTTTT
6781949 ATTTATTAAAATTTT
1 ATTTATTAAAATTTT
6781964 ATATACAGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTATTAAAATTTTT
Found at i:6784063 original size:28 final size:27
Alignment explanation
Indices: 6784031--6784083 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
6784021 AAATTGCTCT
6784031 ATCTTTAGGGATGATTTACTCAATATTC
1 ATCTTTAGGGATGA-TTACTCAATATTC
*
6784059 ATCTTTAGGGCTGATTACTCAATAT
1 ATCTTTAGGGATGATTACTCAATAT
6784084 CAAATTTAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 11 0.46
28 13 0.54
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.42
Consensus pattern (27 bp):
ATCTTTAGGGATGATTACTCAATATTC
Found at i:6788920 original size:66 final size:67
Alignment explanation
Indices: 6788791--6788924 Score: 252
Period size: 67 Copynumber: 2.0 Consensus size: 67
6788781 TTGAATTCTC
6788791 ACCGGTTTAATTTCTGATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGT
1 ACCGGTTTAATTTCTGATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGT
6788856 GA
66 GA
*
6788858 ACCGGTTTGATTTCTGATTTGGTTTTTTTACAAATTGCAATGGTT-CAATGACATCCTTCAAAGT
1 ACCGGTTTAATTTCTGATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGT
6788922 GA
66 GA
6788924 A
1 A
6788925 GTGTATAGAA
Statistics
Matches: 66, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
66 22 0.33
67 44 0.67
ACGTcount: A:0.27, C:0.15, G:0.18, T:0.40
Consensus pattern (67 bp):
ACCGGTTTAATTTCTGATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGT
GA
Found at i:6788944 original size:66 final size:66
Alignment explanation
Indices: 6788807--6788944 Score: 190
Period size: 66 Copynumber: 2.1 Consensus size: 66
6788797 TTAATTTCTG
* *
6788807 ATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGTGAACCGGTTTGATTTC
1 ATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGTGAA-CGGTTAGAATTC
**
6788872 TG
65 AA
6788874 ATTTGGTTTTTTTACAAATTGCAATGGTT-CAATGACATCCTTCAAAGTGAA-GTGTATAGAATT
1 ATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGTGAACG-GT-TAGAATT
*
6788937 GAA
64 CAA
6788940 ATTTG
1 ATTTG
6788945 TGCAGGGTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
64 1 0.02
65 2 0.03
66 32 0.50
67 29 0.45
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (66 bp):
ATTTGGTTTTTTTACAAATTGCAATGGTTGCAATGACATCCTTCAAAGTGAACGGTTAGAATTCA
A
Found at i:6798740 original size:22 final size:22
Alignment explanation
Indices: 6798708--6798753 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
6798698 TTTCTAGTTT
*
6798708 ATCATCGACTTTTTGGAAGAAA
1 ATCATCAACTTTTTGGAAGAAA
6798730 ATCATCAACTTTTTGGAAGAAA
1 ATCATCAACTTTTTGGAAGAAA
6798752 AT
1 AT
6798754 TTGCCTCAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (22 bp):
ATCATCAACTTTTTGGAAGAAA
Found at i:6809810 original size:17 final size:17
Alignment explanation
Indices: 6809787--6809825 Score: 57
Period size: 17 Copynumber: 2.5 Consensus size: 17
6809777 TAATCTTTTA
6809787 AAAATTA-TAAAAT-AT
1 AAAATTATTAAAATAAT
6809802 -AAATTATTAAAATAAT
1 AAAATTATTAAAATAAT
6809818 AAAATTAT
1 AAAATTAT
6809826 ATTTTTACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.29
15 6 0.29
16 2 0.10
17 7 0.33
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
AAAATTATTAAAATAAT
Found at i:6819450 original size:45 final size:45
Alignment explanation
Indices: 6819386--6819513 Score: 184
Period size: 45 Copynumber: 2.8 Consensus size: 45
6819376 CATGTTTTCA
* *
6819386 CATGATGTCATAACGTCTTTCAACTATAATCTTACTCATTTCTAT
1 CATGATGCCATAACATCTTTCAACTATAATCTTACTCATTTCTAT
* * * * *
6819431 CGTGATGCCATAGCATCTTTAAACTATGATCTTACTCATTTTTAT
1 CATGATGCCATAACATCTTTCAACTATAATCTTACTCATTTCTAT
*
6819476 CATGATGCCATAACATCTTTCAGCTATAATCTTACTCA
1 CATGATGCCATAACATCTTTCAACTATAATCTTACTCA
6819514 ATTTTAGGTG
Statistics
Matches: 71, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 71 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (45 bp):
CATGATGCCATAACATCTTTCAACTATAATCTTACTCATTTCTAT
Found at i:6824591 original size:19 final size:18
Alignment explanation
Indices: 6824569--6824638 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 18
6824559 AAATATTATA
6824569 AAAACTTAAAAAAATACAT
1 AAAA-TTAAAAAAATACAT
6824588 AAAAGTTAAAAAAAT--AT
1 AAAA-TTAAAAAAATACAT
*
6824605 AAATATTAAAATAATACAT
1 AAA-ATTAAAAAAATACAT
6824624 GAAAATTATAAAAAA
1 -AAAATTA-AAAAAA
6824639 AAAATTTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
17 14 0.33
18 1 0.02
19 20 0.47
20 8 0.19
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (18 bp):
AAAATTAAAAAAATACAT
Found at i:6824606 original size:17 final size:16
Alignment explanation
Indices: 6824569--6824620 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 16
6824559 AAATATTATA
6824569 AAAACTTAAAAAAATACAT
1 AAAA-TTAAAAAAAT--AT
6824588 AAAAGTTAAAAAAATAT
1 AAAA-TTAAAAAAATAT
*
6824605 AAATATTAAAATAATA
1 AAA-ATTAAAAAAATA
6824621 CATGAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 15 0.50
18 1 0.03
19 14 0.47
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (16 bp):
AAAATTAAAAAAATAT
Found at i:6824621 original size:36 final size:37
Alignment explanation
Indices: 6824565--6824650 Score: 101
Period size: 36 Copynumber: 2.4 Consensus size: 37
6824555 CTCAAAATAT
* *
6824565 TATAAAAACTTAAAAAAATACAT-AAAAGTTA-AAAAAA
1 TATAAATA-TTAAAATAATACATGAAAA-TTATAAAAAA
6824602 TATAAATATTAAAATAATACATGAAAATTATAAAAAA
1 TATAAATATTAAAATAATACATGAAAATTATAAAAAA
6824639 -A-AAAT-TTAAAAT
1 TATAAATATTAAAAT
6824651 GTTGTTGTGA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
34 7 0.16
35 4 0.09
36 17 0.38
37 17 0.38
ACGTcount: A:0.67, C:0.03, G:0.02, T:0.27
Consensus pattern (37 bp):
TATAAATATTAAAATAATACATGAAAATTATAAAAAA
Found at i:6826326 original size:22 final size:22
Alignment explanation
Indices: 6826298--6826342 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
6826288 TTTTGCGTAG
6826298 GTTAGTTTATTTAAAATATCAA
1 GTTAGTTTATTTAAAATATCAA
6826320 GTTAGTTTATTTAAAATATCAA
1 GTTAGTTTATTTAAAATATCAA
6826342 G
1 G
6826343 ATGATTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.40, C:0.04, G:0.11, T:0.44
Consensus pattern (22 bp):
GTTAGTTTATTTAAAATATCAA
Found at i:6832307 original size:47 final size:47
Alignment explanation
Indices: 6832224--6832316 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 47
6832214 ACCTTGTATG
* ** *
6832224 TCGTACTGTTACTGTTACTTTGGTTTAATCCAATGAGGTACTAAGTA
1 TCGTACTGTTACTGTTACTTCGGTCAAAGCCAATGAGGTACTAAGTA
*
6832271 TCGTACTGTTACTGTTTACTTCGG-CAAAGCCGATGAGGTACTAAGT
1 TCGTACTGTTACTG-TTACTTCGGTCAAAGCCAATGAGGTACTAAGT
6832317 GCTGTACTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
47 32 0.80
48 8 0.20
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.37
Consensus pattern (47 bp):
TCGTACTGTTACTGTTACTTCGGTCAAAGCCAATGAGGTACTAAGTA
Found at i:6832412 original size:18 final size:18
Alignment explanation
Indices: 6832389--6832453 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
6832379 TAAACTACTG
6832389 TACTGAATAATTGATAGT
1 TACTGAATAATTGATAGT
** *
6832407 TACTGAATAACTAAATTATT
1 TACTGAATAA-TTGA-TAGT
*
6832427 GTATTGAATAATTGATAGT
1 -TACTGAATAATTGATAGT
*
6832446 TATTGAAT
1 TACTGAAT
6832454 TACTAAACTA
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
18 18 0.49
19 5 0.14
20 5 0.14
21 9 0.24
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (18 bp):
TACTGAATAATTGATAGT
Found at i:6832435 original size:39 final size:39
Alignment explanation
Indices: 6832379--6832526 Score: 170
Period size: 39 Copynumber: 3.8 Consensus size: 39
6832369 TTAGTAGGGG
*
6832379 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAAC
1 TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * * *
6832418 TAAATTATTGTATTGAATAATTGATAGTTATTGAATTAC
1 TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * * ** *
6832457 TAAACTACTGCACTGAATATTTGATAAATACTGAATGAC
1 TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
* * *
6832496 TAAATTACTATACTGAATAACTGATTGTTAC
1 TAAATTACTGTACTGAATAATTGATAGTTAC
6832527 CGATCGCGAT
Statistics
Matches: 87, Mismatches: 22, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 87 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (39 bp):
TAAATTACTGTACTGAATAATTGATAGTTACTGAATAAC
Found at i:6832513 original size:78 final size:78
Alignment explanation
Indices: 6832379--6832525 Score: 204
Period size: 78 Copynumber: 1.9 Consensus size: 78
6832369 TTAGTAGGGG
* ** * * * *
6832379 TAAACTACTGTACTGAATAATTGATAGTTACTGAATAACTAAATTATTGTATTGAATAATTGATA
1 TAAACTACTGCACTGAATAATTGATAAATACTGAATAACTAAATTACTATACTGAATAACTGATA
6832444 GTTATTGAATTAC
66 GTTATTGAATTAC
* * *
6832457 TAAACTACTGCACTGAATATTTGATAAATACTGAATGACTAAATTACTATACTGAATAACTGATT
1 TAAACTACTGCACTGAATAATTGATAAATACTGAATAACTAAATTACTATACTGAATAACTGATA
6832522 GTTA
66 GTTA
6832526 CCGATCGCGA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
78 59 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.37
Consensus pattern (78 bp):
TAAACTACTGCACTGAATAATTGATAAATACTGAATAACTAAATTACTATACTGAATAACTGATA
GTTATTGAATTAC
Found at i:6835955 original size:15 final size:15
Alignment explanation
Indices: 6835937--6835966 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
6835927 TAAAATTTTT
6835937 AAAATATATATTTAA
1 AAAATATATATTTAA
6835952 AAAATATATATTTAA
1 AAAATATATATTTAA
6835967 CAAGTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATATATATTTAA
Found at i:6853914 original size:11 final size:11
Alignment explanation
Indices: 6853881--6853914 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
6853871 TATACATACG
*
6853881 TATATTAAAAA
1 TATATAAAAAA
6853892 TATATCAAAAAA
1 TATAT-AAAAAA
6853904 TATATAAAAAA
1 TATATAAAAAA
6853915 AACTTTTTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (11 bp):
TATATAAAAAA
Found at i:6854628 original size:9 final size:8
Alignment explanation
Indices: 6854589--6854639 Score: 50
Period size: 9 Copynumber: 6.1 Consensus size: 8
6854579 ATTTATTTGT
6854589 TATTATTA
1 TATTATTA
*
6854597 TATT-TTG
1 TATTATTA
6854604 TATTATTA
1 TATTATTA
*
6854612 TCACTATTA
1 T-ATTATTA
6854621 CTATTATTA
1 -TATTATTA
6854630 TATTTATTA
1 TA-TTATTA
6854639 T
1 T
6854640 TATTGTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
7 6 0.17
8 9 0.26
9 19 0.54
10 1 0.03
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.61
Consensus pattern (8 bp):
TATTATTA
Found at i:6857290 original size:20 final size:20
Alignment explanation
Indices: 6857244--6857295 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
6857234 CAAAAATTAC
6857244 AAAAACATTCAAAATAATTTT
1 AAAAA-ATTCAAAATAATTTT
**
6857265 CGAAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
6857285 AAAAAATTCAA
1 AAAAAATTCAA
6857296 TTTTTATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 4 0.15
20 19 0.73
21 3 0.12
ACGTcount: A:0.58, C:0.10, G:0.02, T:0.31
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:6859090 original size:24 final size:24
Alignment explanation
Indices: 6859043--6859090 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6859033 TGGTTGTATA
6859043 CAAGATTTTATTGCCTTTTGTGAG
1 CAAGATTTTATTGCCTTTTGTGAG
6859067 CAAGATTTTATTGCCTTTTGTGAG
1 CAAGATTTTATTGCCTTTTGTGAG
6859091 ACATACAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.21, C:0.12, G:0.21, T:0.46
Consensus pattern (24 bp):
CAAGATTTTATTGCCTTTTGTGAG
Found at i:6860969 original size:29 final size:29
Alignment explanation
Indices: 6860936--6860993 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
6860926 TTGAAAAAAG
6860936 TACAAAGAATGAGCAAAACAACAAACTAA
1 TACAAAGAATGAGCAAAACAACAAACTAA
*
6860965 TACAAAGAATGAGCAAAAGAACAAACTAA
1 TACAAAGAATGAGCAAAACAACAAACTAA
6860994 CTTCCGAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.62, C:0.16, G:0.12, T:0.10
Consensus pattern (29 bp):
TACAAAGAATGAGCAAAACAACAAACTAA
Found at i:6862294 original size:10 final size:10
Alignment explanation
Indices: 6862266--6862332 Score: 59
Period size: 10 Copynumber: 6.8 Consensus size: 10
6862256 AATTTTATAT
6862266 TTTTAAAAAA
1 TTTTAAAAAA
6862276 -TTTATAAAAA
1 TTTTA-AAAAA
6862286 TTTTAAAAAA
1 TTTTAAAAAA
*
6862296 TTCTAAAAAA
1 TTTTAAAAAA
* *
6862306 TATATAAAGAA
1 T-TTTAAAAAA
*
6862317 TATT--AAAA
1 TTTTAAAAAA
6862325 TTTTAAAA
1 TTTTAAAA
6862333 GTTTTCTTGA
Statistics
Matches: 45, Mismatches: 7, Indels: 10
0.73 0.11 0.16
Matches are distributed among these distances:
8 6 0.13
9 4 0.09
10 23 0.51
11 12 0.27
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (10 bp):
TTTTAAAAAA
Found at i:6866617 original size:44 final size:45
Alignment explanation
Indices: 6866552--6866642 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
6866542 ACCTCTATTC
* * *
6866552 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
6866596 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
6866641 CA
1 CA
6866643 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:6866644 original size:16 final size:16
Alignment explanation
Indices: 6866623--6866691 Score: 129
Period size: 16 Copynumber: 4.2 Consensus size: 16
6866613 GATTAGCTAT
6866623 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6866639 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
6866656 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6866672 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
6866688 TACA
1 TACA
6866692 GCGAACCAAA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
16 36 0.69
17 16 0.31
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:6866665 original size:33 final size:32
Alignment explanation
Indices: 6866623--6866691 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 32
6866613 GATTAGCTAT
6866623 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
6866656 TACACCTCTAATCCAATACACCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
6866688 TACA
1 TACA
6866692 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 8 0.22
33 28 0.78
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:6870103 original size:46 final size:45
Alignment explanation
Indices: 6870055--6870219 Score: 145
Period size: 46 Copynumber: 3.6 Consensus size: 45
6870045 GTTGAGCATT
*
6870055 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
* * *** * *
6870101 CGAATTCGTTGAGTTGAGTTCGAGTTCGAGAGATGTAACTAG-GCA-TC
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAGTC
* * *
6870148 CGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGCC
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTC
* *
6870194 CGAGCTCGTTGAGTTGAGTTCGAGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTT
6870220 TGCTAATGGG
Statistics
Matches: 92, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 54 0.59
47 28 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (45 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTC
Found at i:6870218 original size:93 final size:93
Alignment explanation
Indices: 6870050--6870219 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 93
6870040 GGATGGTTGA
* * ** *
6870050 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAATTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6870115 TGAGTTCGAGTTCGAGAGATGTAACTAG
66 TGAGTTCGAGTTCGAGAGATGTAACTAG
* * *
6870143 GCATCCGAGCTCGTTGAGTTGATTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
6870208 TGAGTTCGAGTT
66 TGAGTTCGAGTT
6870220 TGCTAATGGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.21, C:0.18, G:0.29, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTTCGAGTTCGAGAGATGTAACTAG
Found at i:6875266 original size:33 final size:35
Alignment explanation
Indices: 6875228--6875297 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 35
6875218 ATTTATTATT
*
6875228 ATAAATTATTAAAAAACA-TAT-TTAAATTA-AATA
1 ATAAA-TAATAAAAAACATTATGTTAAATTATAATA
*
6875261 ATAAATAATAAATAACATTTATGTTAAATTATAATA
1 ATAAATAATAAAAAACA-TTATGTTAAATTATAATA
6875297 A
1 A
6875298 AACATATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
32 10 0.32
33 5 0.16
34 3 0.10
35 8 0.26
36 5 0.16
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (35 bp):
ATAAATAATAAAAAACATTATGTTAAATTATAATA
Found at i:6879174 original size:17 final size:18
Alignment explanation
Indices: 6879152--6879190 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
6879142 AAATTAATAA
6879152 AATAAAAATAAAT-AAAT
1 AATAAAAATAAATAAAAT
*
6879169 AATAAAACTAAATAAAAT
1 AATAAAAATAAATAAAAT
6879187 AATA
1 AATA
6879191 TCTTCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
AATAAAAATAAATAAAAT
Found at i:6879174 original size:22 final size:23
Alignment explanation
Indices: 6879141--6879188 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
6879131 TAGCCTATTC
6879141 TAAATTAATAAAA-TAAAAATAAA
1 TAAATTAATAAAACTAAAAA-AAA
*
6879164 TAAA-TAATAAAACTAAATAAAA
1 TAAATTAATAAAACTAAAAAAAA
6879186 TAA
1 TAA
6879189 TATCTTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (23 bp):
TAAATTAATAAAACTAAAAAAAA
Found at i:6882665 original size:17 final size:18
Alignment explanation
Indices: 6882643--6882676 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
6882633 GAGGGGTAAT
6882643 TGGGTATTGGGT-TTGTG
1 TGGGTATTGGGTGTTGTG
6882660 TGGGTATTGGGTGTTGT
1 TGGGTATTGGGTGTTGT
6882677 TGGTTTATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.06, C:0.00, G:0.47, T:0.47
Consensus pattern (18 bp):
TGGGTATTGGGTGTTGTG
Found at i:6889772 original size:8 final size:8
Alignment explanation
Indices: 6889738--6889793 Score: 57
Period size: 8 Copynumber: 7.2 Consensus size: 8
6889728 TAGCATATTC
*
6889738 TAAATTAA
1 TAAAATAA
6889746 TAAAAT-A
1 TAAAATAA
6889753 -AAAAT-A
1 TAAAATAA
6889759 -AAAATAA
1 TAAAATAA
6889766 TAAAATAA
1 TAAAATAA
6889774 TAAAACTAAA
1 TAAAA-T-AA
6889784 TAAAATAA
1 TAAAATAA
6889792 TA
1 TA
6889794 TCTTCTATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
6 11 0.26
7 2 0.05
8 21 0.49
9 2 0.05
10 7 0.16
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (8 bp):
TAAAATAA
Found at i:6889787 original size:18 final size:17
Alignment explanation
Indices: 6889755--6889793 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
6889745 ATAAAATAAA
6889755 AATAAAAATAATAAAAT
1 AATAAAAATAATAAAAT
*
6889772 AATAAAACTAAATAAAAT
1 AATAAAAAT-AATAAAAT
6889790 AATA
1 AATA
6889794 TCTTCTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (17 bp):
AATAAAAATAATAAAAT
Found at i:6892062 original size:79 final size:79
Alignment explanation
Indices: 6891909--6892070 Score: 225
Period size: 79 Copynumber: 2.1 Consensus size: 79
6891899 TAAAAACTAG
* * * *
6891909 CTTATGTTTTGTAATATTGTTGCTGGTATATTGTTGCTTATGTTGTTATACATGGCTACCGGTAT
1 CTTACGTTTTGTAATATTGTTACTGGTATATTGTTGCTTATGTTCTTATACATGGCTACCAGTAT
* *
6891974 GCATGGCTAACCAA
66 ACATAGCTAACCAA
* * *
6891988 CTTACGTTTTGTAATATTGTTACTGGTGTATTGTTGCTTATGTTCTTATACATGGCTGCTAGTAT
1 CTTACGTTTTGTAATATTGTTACTGGTATATTGTTGCTTATGTTCTTATACATGGCTACCAGTAT
* *
6892053 ACCTAGCTAACCAG
66 ACATAGCTAACCAA
6892067 CTTA
1 CTTA
6892071 TGTTGTTGCT
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
79 72 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.43
Consensus pattern (79 bp):
CTTACGTTTTGTAATATTGTTACTGGTATATTGTTGCTTATGTTCTTATACATGGCTACCAGTAT
ACATAGCTAACCAA
Found at i:6892933 original size:77 final size:78
Alignment explanation
Indices: 6892748--6892980 Score: 270
Period size: 77 Copynumber: 2.9 Consensus size: 78
6892738 TTCTTTTGGG
* * * *** *
6892748 ACAACATATGACCATCCCCACCGACAATCATACACACACACCCCTAAAAAGCAGTTACTACATGC
1 ACAACATATGACCAACCCCACCAACAATCATACACAGACA-AATTAAAAA--A-ATACTACATGC
* *
6892813 ATATTAAAAAATAGTCA
62 ATATTAAAAAACAATCA
* *
6892830 ACAACATATGACCATCCCCACCAACAATCATACACAGACAAATT-AAAAAATACTGCATGCATAT
1 ACAACATATGACCAACCCCACCAACAATCATACACAGACAAATTAAAAAAATACTACATGCATAT
6892894 TAAAAAACAATCA
66 TAAAAAACAATCA
* * * * * *
6892907 ACAGCATGTTAGCAACCCCACCAACAATTATACACAGACAAATTAAAAAAATGCTACATGCATAT
1 ACAACATATGACCAACCCCACCAACAATCATACACAGACAAATTAAAAAAATACTACATGCATAT
6892972 TAAAAAACA
66 TAAAAAACA
6892981 CTCACTAAAA
Statistics
Matches: 133, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
77 62 0.47
78 28 0.21
80 4 0.03
81 1 0.01
82 38 0.29
ACGTcount: A:0.48, C:0.27, G:0.07, T:0.18
Consensus pattern (78 bp):
ACAACATATGACCAACCCCACCAACAATCATACACAGACAAATTAAAAAAATACTACATGCATAT
TAAAAAACAATCA
Found at i:6894676 original size:15 final size:15
Alignment explanation
Indices: 6894652--6894701 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
6894642 TTATCCTATT
6894652 AGACACATCACTTTC
1 AGACACATCACTTTC
* **
6894667 AGATACATCACTACC
1 AGACACATCACTTTC
*
6894682 AGACACATCAGTTTC
1 AGACACATCACTTTC
6894697 AGACA
1 AGACA
6894702 TTTCTTCTTC
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 28 1.00
ACGTcount: A:0.38, C:0.30, G:0.10, T:0.22
Consensus pattern (15 bp):
AGACACATCACTTTC
Found at i:6900642 original size:32 final size:33
Alignment explanation
Indices: 6900574--6900646 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 33
6900564 TAGAAAAGTT
* *
6900574 AATATTTTCTGGTGTTTGGATGAATTTATATAA
1 AATATTTTCTGGTGTTCGGATAAATTTATATAA
* *
6900607 AATATTTTCTGTTGTTCGG-TAAATTTCT-TACA
1 AATATTTTCTGGTGTTCGGATAAATTTATATA-A
6900639 AATATTTT
1 AATATTTT
6900647 ATAAAAGTTG
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
31 2 0.06
32 16 0.46
33 17 0.49
ACGTcount: A:0.29, C:0.07, G:0.14, T:0.51
Consensus pattern (33 bp):
AATATTTTCTGGTGTTCGGATAAATTTATATAA
Found at i:6901031 original size:15 final size:15
Alignment explanation
Indices: 6901011--6901064 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
6901001 ATACTACAAA
6901011 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
6901026 ATATTTATAATTGTAAT
1 ATATTTATTA-T-TAAT
*
6901043 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
6901060 ATATT
1 ATATT
6901065 AATATTGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
15 14 0.44
16 1 0.03
17 7 0.22
18 1 0.03
19 9 0.28
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:6901115 original size:13 final size:13
Alignment explanation
Indices: 6901097--6901136 Score: 55
Period size: 13 Copynumber: 3.0 Consensus size: 13
6901087 ATGTGAATAA
6901097 TATTATTTAAAAT
1 TATTATTTAAAAT
6901110 TATTATTTTAAAATT
1 TATTA-TTTAAAA-T
6901125 TATTA-TTAAAAT
1 TATTATTTAAAAT
6901137 AAAATTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 1 0.04
13 11 0.44
14 7 0.28
15 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
TATTATTTAAAAT
Found at i:6901129 original size:15 final size:14
Alignment explanation
Indices: 6901097--6901131 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
6901087 ATGTGAATAA
6901097 TATTA-TTTAAAAT
1 TATTATTTTAAAAT
6901110 TATTATTTTAAAATT
1 TATTATTTTAAAA-T
6901125 TATTATT
1 TATTATT
6901132 AAAATAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 5 0.25
14 7 0.35
15 8 0.40
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (14 bp):
TATTATTTTAAAAT
Found at i:6901184 original size:22 final size:22
Alignment explanation
Indices: 6901140--6901199 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
6901130 TTAAAATAAA
*
6901140 ATTAAAATATTAAA-TA-ATTT
1 ATTAAAATAATAAATTATATTT
6901160 ATTAAAATAATAAATTATATTT
1 ATTAAAATAATAAATTATATTT
* * *
6901182 ATTATATTAATAATTTAT
1 ATTAAAATAATAAATTAT
6901200 TATATGACTA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.38
21 2 0.06
22 19 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATTAAAATAATAAATTATATTT
Found at i:6901437 original size:22 final size:22
Alignment explanation
Indices: 6901407--6901449 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
6901397 TACAGCAAAA
* *
6901407 ATAACTTATTTTACTTTAACCT
1 ATAAATTATTTTACATTAACCT
*
6901429 ATAAATTATTTTCCATTAACC
1 ATAAATTATTTTACATTAACC
6901450 AAACTATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.35, C:0.19, G:0.00, T:0.47
Consensus pattern (22 bp):
ATAAATTATTTTACATTAACCT
Found at i:6912502 original size:54 final size:53
Alignment explanation
Indices: 6912421--6912582 Score: 236
Period size: 54 Copynumber: 3.0 Consensus size: 53
6912411 CCATGGCAAC
6912421 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
1 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * *
6912474 ATGTGATCATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATTGGAGAG
1 ATGTGAT-ATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
* * * *
6912528 ATGTGATTATGTG-CTTCCGTATAAGACCATATCTGGGATATGACATCGGTGTG
1 ATGTGA-TATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
6912581 AT
1 AT
6912583 ATGTGCTACT
Statistics
Matches: 97, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 42 0.43
54 54 0.56
55 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (53 bp):
ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTG
Found at i:6912599 original size:47 final size:47
Alignment explanation
Indices: 6912529--6912634 Score: 149
Period size: 47 Copynumber: 2.2 Consensus size: 47
6912519 ATTGGAGAGA
* *
6912529 TGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATATGACATCGG
1 TGTGA-TATGTGCTACCGTATAAGACCATATCTGGGATATGACATCAG
* * * *
6912577 TGTGATATGTGCTACTGTATAAGTCCATATCTGGGATATGGCATTAG
1 TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGACATCAG
6912624 TGTGATATGTG
1 TGTGATATGTG
6912635 ATCCATGTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
47 47 0.90
48 5 0.10
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (47 bp):
TGTGATATGTGCTACCGTATAAGACCATATCTGGGATATGACATCAG
Found at i:6912687 original size:93 final size:94
Alignment explanation
Indices: 6912421--6912701 Score: 244
Period size: 93 Copynumber: 2.8 Consensus size: 94
6912411 CCATGGCAAC
6912421 ATGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGATGTGATCATGT
1 ATGTGATATGTGA--TCCGTATAAGACCATAGCTGGGCTATGGCATC-G-GTG-TGT-AT-ATGT
* *
6912486 GATTTCCGTATAAGACCATAGCTGGGCTATGGCATTGGAGAG
59 GA---CTGTATAAGACCATAGCTGGGATATGGCATT---GAG
* * * *
6912528 ATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATATGACATCGGTGTG-ATATGTGCTAC
1 ATGTGA-TATGTG-ATCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGTATATGTG--AC
* *
6912592 TGTATAAGTCCATATCTGGGATATGGCATT-AG
62 TGTATAAGACCATAGCTGGGATATGGCATTGAG
* * * *
6912624 -TGTGATATGTGATCCATGTAAGACCATGGCTGGGCTATGGCTTCGGTGTGTAATATGTGACTGT
1 ATGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGT-ATATGTGACTGT
*
6912688 GTGCAAGACCATAG
65 AT--AAGACCATAG
6912702 TTTTACTATG
Statistics
Matches: 147, Mismatches: 19, Indels: 28
0.76 0.10 0.14
Matches are distributed among these distances:
93 37 0.25
94 6 0.04
95 20 0.14
96 2 0.01
100 27 0.18
101 5 0.03
102 2 0.01
103 1 0.01
104 2 0.01
105 3 0.02
106 1 0.01
107 35 0.24
108 6 0.04
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (94 bp):
ATGTGATATGTGATCCGTATAAGACCATAGCTGGGCTATGGCATCGGTGTGTATATGTGACTGTA
TAAGACCATAGCTGGGATATGGCATTGAG
Found at i:6914585 original size:40 final size:40
Alignment explanation
Indices: 6914530--6914633 Score: 129
Period size: 40 Copynumber: 2.6 Consensus size: 40
6914520 AAAATTGAAT
* * * *
6914530 AGATCGAGTATTAGCGGTGTTTTTATGAAATCGCCGCTAA
1 AGATCGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
*
6914570 AGATCGAGCATTAGCGGCGTTTTTAAGGAAGCGCCGCTAA
1 AGATCGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
* *
6914610 AGATTGA-CCTATAGCGGCGTTTTT
1 AGATCGAGCAT-TAGCGGCGTTTTT
6914634 TTAGATTAAA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
39 2 0.04
40 54 0.96
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (40 bp):
AGATCGAGCATTAGCGGCGTTTTTAAGAAAGCGCCGCTAA
Found at i:6915661 original size:17 final size:17
Alignment explanation
Indices: 6915641--6915739 Score: 135
Period size: 17 Copynumber: 5.6 Consensus size: 17
6915631 CAATGATATG
6915641 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
* *
6915658 CAATCTTAAATATGATTG
1 CAATCTTAGATATGA-TA
6915676 CAATCTTAGATATGATA
1 CAATCTTAGATATGATA
*
6915693 CAATCTTAGATATGATTG
1 CAATCTTAGATATGA-TA
6915711 CAATCTTAGATATGATATA
1 CAATCTTAGATATG--ATA
6915730 CAATCTTAGA
1 CAATCTTAGA
6915740 AGATATGATT
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
17 30 0.42
18 30 0.42
19 11 0.15
20 1 0.01
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
CAATCTTAGATATGATA
Found at i:6915679 original size:35 final size:35
Alignment explanation
Indices: 6915633--6915737 Score: 174
Period size: 35 Copynumber: 2.9 Consensus size: 35
6915623 ATAATCTTCA
6915633 ATGATATGCAATCTTAGATATGATACAATCTTAAAT
1 ATGAT-TGCAATCTTAGATATGATACAATCTTAAAT
*
6915669 ATGATTGCAATCTTAGATATGATACAATCTTAGAT
1 ATGATTGCAATCTTAGATATGATACAATCTTAAAT
6915704 ATGATTGCAATCTTAGATATGATATACAATCTTA
1 ATGATTGCAATCTTAGATATG--ATACAATCTTA
6915738 GAAGATATGA
Statistics
Matches: 66, Mismatches: 1, Indels: 3
0.94 0.01 0.04
Matches are distributed among these distances:
35 50 0.76
36 5 0.08
37 11 0.17
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.37
Consensus pattern (35 bp):
ATGATTGCAATCTTAGATATGATACAATCTTAAAT
Found at i:6915681 original size:18 final size:18
Alignment explanation
Indices: 6915641--6915739 Score: 148
Period size: 18 Copynumber: 5.6 Consensus size: 18
6915631 CAATGATATG
6915641 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
* *
6915658 CAATCTTAAATATGATTG
1 CAATCTTAGATATGATTA
6915676 CAATCTTAGATATGA-TA
1 CAATCTTAGATATGATTA
*
6915693 CAATCTTAGATATGATTG
1 CAATCTTAGATATGATTA
6915711 CAATCTTAGATATGATATA
1 CAATCTTAGATATGAT-TA
6915730 CAATCTTAGA
1 CAATCTTAGA
6915740 AGATATGATT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
17 30 0.41
18 32 0.44
19 11 0.15
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (18 bp):
CAATCTTAGATATGATTA
Found at i:6916063 original size:12 final size:11
Alignment explanation
Indices: 6916048--6916081 Score: 50
Period size: 12 Copynumber: 2.9 Consensus size: 11
6916038 TATTTTTAAT
6916048 TTATTATATATA
1 TTATT-TATATA
6916060 TTATTTATTATA
1 TTATTTA-TATA
6916072 TTATTTATAT
1 TTATTTATAT
6916082 TTTCAAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TTATTTATATA
Found at i:6916073 original size:21 final size:21
Alignment explanation
Indices: 6916049--6916157 Score: 61
Period size: 21 Copynumber: 5.3 Consensus size: 21
6916039 ATTTTTAATT
6916049 TATTATATATATTATTTATTA
1 TATTATATATATTATTTATTA
* *
6916070 TATTATTTATATT-TTCA--A
1 TATTATATATATTATTTATTA
* * *
6916088 AATT-TGTAAATTA-TTATTA
1 TATTATATATATTATTTATTA
* *
6916107 TA-TATTATATTTTAACTTATATA
1 TATTA-TATATATT-ATTTAT-TA
*
6916130 TCTTATATAT-TTATTTATTTA
1 TATTATATATATTATTTA-TTA
6916151 TATTATA
1 TATTATA
6916158 CATTATTTTA
Statistics
Matches: 65, Mismatches: 13, Indels: 20
0.66 0.13 0.20
Matches are distributed among these distances:
17 8 0.12
18 5 0.08
19 2 0.03
20 8 0.12
21 25 0.38
22 7 0.11
23 8 0.12
24 2 0.03
ACGTcount: A:0.37, C:0.03, G:0.01, T:0.60
Consensus pattern (21 bp):
TATTATATATATTATTTATTA
Found at i:6916079 original size:16 final size:16
Alignment explanation
Indices: 6916046--6916076 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6916036 CTTATTTTTA
6916046 ATTTATTATATATATT
1 ATTTATTATATATATT
6916062 ATTTATTATAT-TATT
1 ATTTATTATATATATT
6916077 TATATTTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
ATTTATTATATATATT
Found at i:6916290 original size:25 final size:24
Alignment explanation
Indices: 6916258--6916328 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 24
6916248 TAAAATTCAC
6916258 TATTAAATATTATATTTTTATG-TA
1 TATTAAATATTATATTTTT-TGATA
* *
6916282 TTATTAAATGTTTATATTATTTGATA
1 -TATTAAAT-ATTATATTTTTTGATA
*
6916308 TAATACAATATTATATTTTTT
1 TATTA-AATATTATATTTTTT
6916329 ATTATTTTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
25 24 0.63
26 14 0.37
ACGTcount: A:0.37, C:0.01, G:0.04, T:0.58
Consensus pattern (24 bp):
TATTAAATATTATATTTTTTGATA
Found at i:6916545 original size:3 final size:3
Alignment explanation
Indices: 6916537--6916580 Score: 79
Period size: 3 Copynumber: 14.3 Consensus size: 3
6916527 TATGTTACTA
6916537 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT ATAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT T
6916581 GTATTTGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6917631 original size:22 final size:22
Alignment explanation
Indices: 6917606--6917704 Score: 82
Period size: 21 Copynumber: 4.5 Consensus size: 22
6917596 CCTTAAATTA
*
6917606 TAAAACTTAAAACTATAAACCC
1 TAAAACTTAAAACCATAAACCC
*
6917628 TAAATCTT-AAACCATAAACCC
1 TAAAACTTAAAACCATAAACCC
*
6917649 T-AAA-TTCAAAACCATAAAACC
1 TAAAACTT-AAAACCATAAACCC
*
6917670 TTAAAC-TATAAA-CAGTAAACCC
1 TAAAACTTA-AAACCA-TAAACCC
6917692 TTAAATACTTAAA
1 -TAAA-ACTTAAA
6917705 TACTAAGTCC
Statistics
Matches: 62, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
19 2 0.03
20 2 0.03
21 29 0.47
22 20 0.32
23 3 0.05
24 4 0.06
25 2 0.03
ACGTcount: A:0.53, C:0.22, G:0.01, T:0.24
Consensus pattern (22 bp):
TAAAACTTAAAACCATAAACCC
Found at i:6917637 original size:36 final size:36
Alignment explanation
Indices: 6917563--6917645 Score: 89
Period size: 36 Copynumber: 2.3 Consensus size: 36
6917553 TATAGATTCC
*
6917563 TAAATCATAAAACTGTAAACTTAAATCACTAGACCT
1 TAAATCATAAAACTGTAAACTTAAATCACTAAACCT
* * *
6917599 TAAATTATAAAACT-TAAAACTATAAA-CCCTAAATCT
1 TAAATCATAAAACTGT-AAACT-TAAATCACTAAACCT
*
6917635 TAAACCATAAA
1 TAAATCATAAA
6917646 CCCTAAATTC
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
35 1 0.03
36 34 0.87
37 4 0.10
ACGTcount: A:0.52, C:0.18, G:0.02, T:0.28
Consensus pattern (36 bp):
TAAATCATAAAACTGTAAACTTAAATCACTAAACCT
Found at i:6921312 original size:15 final size:15
Alignment explanation
Indices: 6921294--6921348 Score: 62
Period size: 15 Copynumber: 3.7 Consensus size: 15
6921284 ATTTGGATTA
*
6921294 ATTTATTTAAATATT
1 ATTTAATTAAATATT
6921309 ATTTAATTAATATAATT
1 ATTTAATTAA-AT-ATT
6921326 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
6921338 ATTTAATTAAA
1 ATTTAATTAAA
6921349 ATAATTTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
12 3 0.09
13 5 0.15
14 4 0.12
15 14 0.41
16 5 0.15
17 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:6921324 original size:29 final size:29
Alignment explanation
Indices: 6921292--6921357 Score: 107
Period size: 29 Copynumber: 2.3 Consensus size: 29
6921282 TAATTTGGAT
*
6921292 TAATTTATT-TAAATATTATTTAATTAATA
1 TAATTT-TTATAAATATTATTTAATTAAAA
6921321 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTTATAAATATTATTTAATTAAAA
6921350 TAATTTTT
1 TAATTTTT
6921358 TTTTCATGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 2 0.06
29 33 0.94
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTTAATTAAAA
Found at i:6921330 original size:20 final size:20
Alignment explanation
Indices: 6921271--6921330 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
6921261 TCAATGTTAT
**
6921271 TTTAATTAATATAATTTGGA
1 TTTAATTAATATAATTTTTA
* * * *
6921291 -TTAATTTATTTAAATATTA
1 TTTAATTAATATAATTTTTA
6921310 TTTAATTAATATAATTTTTA
1 TTTAATTAATATAATTTTTA
6921330 T
1 T
6921331 AAATATTATT
Statistics
Matches: 29, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTAATTAATATAATTTTTA
Found at i:6921636 original size:9 final size:9
Alignment explanation
Indices: 6921624--6921815 Score: 207
Period size: 9 Copynumber: 21.9 Consensus size: 9
6921614 TTGAACTCAT
6921624 ATAACTTAC
1 ATAACTTAC
6921633 ATAACTTAC
1 ATAACTTAC
*
6921642 ATAACTCAC
1 ATAACTTAC
6921651 ATAACTTAC
1 ATAACTTAC
*
6921660 ATAACTTAT
1 ATAACTTAC
6921669 ATAACTTAC
1 ATAACTTAC
*
6921678 ATAACTCAC
1 ATAACTTAC
*
6921687 ATAACTCAC
1 ATAACTTAC
6921696 ATAACTT--
1 ATAACTTAC
*
6921703 AT-ATTTAC
1 ATAACTTAC
*
6921711 ATAACTCAC
1 ATAACTTAC
*
6921720 ATAACTCAC
1 ATAACTTAC
6921729 ATAACTTAC
1 ATAACTTAC
*
6921738 AGAACTTAC
1 ATAACTTAC
*
6921747 AGAACTTAC
1 ATAACTTAC
*
6921756 ATAATTTAC
1 ATAACTTAC
6921765 ATAACTTAC
1 ATAACTTAC
6921774 ATAA--TAC
1 ATAACTTAC
* *
6921781 ATAA-ATAT
1 ATAACTTAC
* *
6921789 ATATCATATC
1 ATAACTTA-C
6921799 ATAACTTAC
1 ATAACTTAC
6921808 ATAACTTA
1 ATAACTTA
6921816 ATTAGAGTTA
Statistics
Matches: 158, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
6 3 0.02
7 9 0.06
8 7 0.04
9 133 0.84
10 6 0.04
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:6921731 original size:69 final size:69
Alignment explanation
Indices: 6921638--6921772 Score: 207
Period size: 69 Copynumber: 2.0 Consensus size: 69
6921628 CTTACATAAC
* * * *
6921638 TTACATAACTCACATAACTTACATAACTTATATAACTTACATAACTCACATAACTCACATAACTT
1 TTACATAACTCACATAACTCACATAACTTACAGAACTTACAGAACTCACATAACTCACATAACTT
6921703 ATAT
66 ATAT
* * *
6921707 TTACATAACTCACATAACTCACATAACTTACAGAACTTACAGAACTTACATAATTTACATAACTT
1 TTACATAACTCACATAACTCACATAACTTACAGAACTTACAGAACTCACATAACTCACATAACTT
6921772 A
66 A
6921773 CATAATACAT
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
69 59 1.00
ACGTcount: A:0.44, C:0.23, G:0.01, T:0.32
Consensus pattern (69 bp):
TTACATAACTCACATAACTCACATAACTTACAGAACTTACAGAACTCACATAACTCACATAACTT
ATAT
Found at i:6925244 original size:12 final size:12
Alignment explanation
Indices: 6925227--6925253 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
6925217 GAAGATCGAG
6925227 TGATGAATCTGA
1 TGATGAATCTGA
6925239 TGATGAATCTGA
1 TGATGAATCTGA
6925251 TGA
1 TGA
6925254 AGAGGATGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.26, T:0.33
Consensus pattern (12 bp):
TGATGAATCTGA
Found at i:6929032 original size:21 final size:21
Alignment explanation
Indices: 6929003--6929064 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
6928993 TTAGAGCGGA
*
6929003 GGCAACAGCGAGGGAGGCAGC
1 GGCAGCAGCGAGGGAGGCAGC
6929024 GGCAGCAGCGAGGGAGGCAGC
1 GGCAGCAGCGAGGGAGGCAGC
* *
6929045 GGCAGTAGTGAGGGAGGCAG
1 GGCAGCAGCGAGGGAGGCAG
6929065 AGCAGAACAG
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.26, C:0.19, G:0.52, T:0.03
Consensus pattern (21 bp):
GGCAGCAGCGAGGGAGGCAGC
Found at i:6929332 original size:31 final size:31
Alignment explanation
Indices: 6929296--6929361 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
6929286 TATATTTTTT
* *
6929296 ATGCTATATTTGCTGTTTTTGGTTGGATTTC
1 ATGCTATATTTGCTGTTTTTGGTTAGATTTA
6929327 ATGCTATATTTGCTGTTTTTGGTTAGATTTA
1 ATGCTATATTTGCTGTTTTTGGTTAGATTTA
6929358 ATGC
1 ATGC
6929362 AGGAAGGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.17, C:0.09, G:0.21, T:0.53
Consensus pattern (31 bp):
ATGCTATATTTGCTGTTTTTGGTTAGATTTA
Found at i:6929488 original size:43 final size:43
Alignment explanation
Indices: 6929428--6929628 Score: 303
Period size: 43 Copynumber: 4.7 Consensus size: 43
6929418 GTTTGTGAAA
* ** *
6929428 ACAAGCGCCGCTAAAAGCCATGACTTTTAGCGGTGCTTCCCCA
1 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
* *
6929471 ACAAATGTCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
1 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
* *
6929514 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCTCCT
1 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
*
6929557 ACAAACGTCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
1 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
*
6929600 ACAAACGCCGTTAAAAGCCATGATCTTTT
1 ACAAACGCCGCTAAAAGCCATGA-CTTTT
6929629 GTGGCGTTTT
Statistics
Matches: 142, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 137 0.96
44 5 0.04
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (43 bp):
ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCACTTCCCCT
Found at i:6929578 original size:86 final size:86
Alignment explanation
Indices: 6929428--6929628 Score: 339
Period size: 86 Copynumber: 2.3 Consensus size: 86
6929418 GTTTGTGAAA
* * *
6929428 ACAAGCGCCGCTAAAAGCCATGACTTTTAGCGGTGCTTCCCCAACAAATGTCGCTAAAAGCCATG
1 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAACGTCGCTAAAAGCCATG
6929493 ACTTTTAGCGGCACTTCCCCT
66 ACTTTTAGCGGCACTTCCCCT
* *
6929514 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCTCCTACAAACGTCGCTAAAAGCCATG
1 ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAACGTCGCTAAAAGCCATG
6929579 ACTTTTAGCGGCACTTCCCCT
66 ACTTTTAGCGGCACTTCCCCT
*
6929600 ACAAACGCCGTTAAAAGCCATGATCTTTT
1 ACAAACGCCGCTAAAAGCCATGA-CTTTT
6929629 GTGGCGTTTT
Statistics
Matches: 108, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
86 103 0.95
87 5 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (86 bp):
ACAAACGCCGCTAAAAGCCATGACTTTTAGCGGCGCTTCCCCAACAAACGTCGCTAAAAGCCATG
ACTTTTAGCGGCACTTCCCCT
Found at i:6938106 original size:21 final size:21
Alignment explanation
Indices: 6938082--6938121 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
6938072 GAATCGAAAC
6938082 TAAAGAAAA-AAAAAAGAAAGT
1 TAAA-AAAACAAAAAAGAAAGT
*
6938103 TAAAAAAACATAAAAGAAA
1 TAAAAAAACAAAAAAGAAA
6938122 AAAATTTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.78, C:0.03, G:0.10, T:0.10
Consensus pattern (21 bp):
TAAAAAAACAAAAAAGAAAGT
Found at i:6943696 original size:7 final size:7
Alignment explanation
Indices: 6943686--6943711 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6943676 TAAAAATTCA
6943686 AAATTTT
1 AAATTTT
6943693 AAATTTT
1 AAATTTT
6943700 AAATTTT
1 AAATTTT
6943707 AAATT
1 AAATT
6943712 CATGTTGTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
AAATTTT
Found at i:6943696 original size:14 final size:14
Alignment explanation
Indices: 6943679--6943713 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
6943669 ATAAAAATAA
6943679 AAATTCAAAATTTT
1 AAATTCAAAATTTT
**
6943693 AAATTTTAAATTTT
1 AAATTCAAAATTTT
6943707 AAATTCA
1 AAATTCA
6943714 TGTTGTCAAA
Statistics
Matches: 17, Mismatches: 4, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATTCAAAATTTT
Found at i:6969400 original size:34 final size:34
Alignment explanation
Indices: 6969362--6969461 Score: 121
Period size: 34 Copynumber: 2.9 Consensus size: 34
6969352 TTATAGTACT
*
6969362 ATTTGGTGT-CTTGGATGGTTTAGCTCATACGAGC
1 ATTTGGTGTGC-TGGATGGATTAGCTCATACGAGC
* * *
6969396 ATTTGGTATGCTAGATGGATTAGCTCATACAAGC
1 ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
* * *
6969430 ATCTAGTGTGCTGGATGGATTAGCTTATACGA
1 ATTTGGTGTGCTGGATGGATTAGCTCATACGA
6969462 TCATCCAGTG
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
34 54 0.98
35 1 0.02
ACGTcount: A:0.24, C:0.14, G:0.27, T:0.35
Consensus pattern (34 bp):
ATTTGGTGTGCTGGATGGATTAGCTCATACGAGC
Found at i:6969472 original size:34 final size:34
Alignment explanation
Indices: 6969373--6969479 Score: 106
Period size: 34 Copynumber: 3.1 Consensus size: 34
6969363 TTTGGTGTCT
* * *** *
6969373 TGGATGGTTTAGCTCATACGAGCATTTGGTATGC
1 TGGATGGATTAGCTCATACAAGCATCCAGTGTGC
* *
6969407 TAGATGGATTAGCTCATACAAGCATCTAGTGTGC
1 TGGATGGATTAGCTCATACAAGCATCCAGTGTGC
* * * *
6969441 TGGATGGATTAGCTTATACGATCATCCAGTGTGT
1 TGGATGGATTAGCTCATACAAGCATCCAGTGTGC
6969475 TGGAT
1 TGGAT
6969480 AGTTAACGTG
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 61 1.00
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (34 bp):
TGGATGGATTAGCTCATACAAGCATCCAGTGTGC
Found at i:6973868 original size:183 final size:180
Alignment explanation
Indices: 6973572--6973947 Score: 684
Period size: 183 Copynumber: 2.1 Consensus size: 180
6973562 TGGTAAATTT
6973572 TTTTAAAATTTTATGAAAAATAATAATGTAACATTTTTTATTTTAGTAATATTTGTAAATATATA
1 TTTTAAAATTTTATGAAAAATAATAATGTAACATTTTTTATTTTAGTAATATTTGTAAATATATA
6973637 TAAATTACTATTTTTGAATTTATAATAGTTTTTATATCATTTTAATTAATACATAAA-TTTTTTT
66 TAAATTACTATTTTTGAATTTATAATAGTTTTTATATCATTTTAATTAATACATAAATTTTTTTT
6973701 CTATAATATTAGAAAATGTTTTGAATTTTAAATTTTTTTTATAATTTTTCTAAAA
131 CTATAATATTAGAAAATG-TTT---TTTTAAA-TTTTTTTATAATTTTTCTAAAA
6973756 TTTT-AAATTTTATGAAAAATAATAATGTAACATTTTTTATTTTAGTAATATTTGTAAATATATA
1 TTTTAAAATTTTATGAAAAATAATAATGTAACATTTTTTATTTTAGTAATATTTGTAAATATATA
6973820 TAAATTACTATTTTTGAATTTATAATAGTTTTTATATCATTTTAATTAATACATAAATTTTTTTT
66 TAAATTACTATTTTTGAATTTATAATAGTTTTTATATCATTTTAATTAATACATAAATTTTTTTT
6973885 CTATAATATTAGAAAATGTTTTTTTAAATTTTTTTATAATTTTTCTAAAA
131 CTATAATATTAGAAAATGTTTTTTTAAATTTTTTTATAATTTTTCTAAAA
6973935 TTTCTAAAATTTT
1 TTT-TAAAATTTT
6973948 TATTATGTAT
Statistics
Matches: 189, Mismatches: 0, Indels: 9
0.95 0.00 0.05
Matches are distributed among these distances:
179 25 0.13
180 8 0.04
181 7 0.04
183 120 0.63
184 29 0.15
ACGTcount: A:0.39, C:0.03, G:0.05, T:0.53
Consensus pattern (180 bp):
TTTTAAAATTTTATGAAAAATAATAATGTAACATTTTTTATTTTAGTAATATTTGTAAATATATA
TAAATTACTATTTTTGAATTTATAATAGTTTTTATATCATTTTAATTAATACATAAATTTTTTTT
CTATAATATTAGAAAATGTTTTTTTAAATTTTTTTATAATTTTTCTAAAA
Done.