Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold59
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: 3999109
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.32
Warning! 268233 characters in sequence are not A, C, G, or T
File 13 of 25
Found at i:1984957 original size:15 final size:14
Alignment explanation
Indices: 1984921--1984968 Score: 62
Period size: 13 Copynumber: 3.4 Consensus size: 14
1984911 TTATATTTTT
1984921 AATTTATTTTTTAA
1 AATTTATTTTTTAA
*
1984935 AA-ATATTTTTTAA
1 AATTTATTTTTTAA
*
1984948 AATTTAATTTTTAA
1 AATTTATTTTTTAA
1984962 TAATTTA
1 -AATTTA
1984969 ATAATTTTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
13 12 0.41
14 11 0.38
15 6 0.21
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATTTATTTTTTAA
Found at i:1985251 original size:18 final size:19
Alignment explanation
Indices: 1985220--1985257 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
1985210 TATTTAAATT
1985220 TTTTTAAACATTAAATAAA
1 TTTTTAAACATTAAATAAA
1985239 TTTTTAAAC-TTAAATAAA
1 TTTTTAAACATTAAATAAA
1985257 T
1 T
1985258 AATCTTCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTTAAACATTAAATAAA
Found at i:1987141 original size:22 final size:21
Alignment explanation
Indices: 1987091--1987143 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
1987081 AACAAATAAA
*
1987091 TAAAAAA-CAAATTCAAATAT
1 TAAAAAATTAAATTCAAATAT
* *
1987111 CATATAAATTAAATTCAAATATT
1 TA-AAAAATTAAATTCAAATA-T
1987134 TAAAAAATTA
1 TAAAAAATTA
1987144 CATTTATAGT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
20 1 0.04
21 4 0.16
22 18 0.72
23 2 0.08
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (21 bp):
TAAAAAATTAAATTCAAATAT
Found at i:1993555 original size:24 final size:23
Alignment explanation
Indices: 1993522--1993581 Score: 70
Period size: 25 Copynumber: 2.6 Consensus size: 23
1993512 TTTATGACGT
*
1993522 AATT-TAATTTAATAAAATTAAA
1 AATTATAATTTAATAAAAATAAA
1993544 AATTTATAATTTATATAAAAATAAA
1 AA-TTATAATTTA-ATAAAAATAAA
*
1993569 TATTA-AATTTAAT
1 AATTATAATTTAAT
1993582 CATCCGTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 4 0.12
23 8 0.24
24 10 0.30
25 11 0.33
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
AATTATAATTTAATAAAAATAAA
Found at i:1994909 original size:15 final size:16
Alignment explanation
Indices: 1994891--1994924 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
1994881 ACTAAATATG
*
1994891 ATAAAATTA-AAAATT
1 ATAAAATTATAAAAAT
1994906 ATAAAATTATAAAAAT
1 ATAAAATTATAAAAAT
1994922 ATA
1 ATA
1994925 TTTAAATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAAATTATAAAAAT
Found at i:1994913 original size:8 final size:8
Alignment explanation
Indices: 1994891--1994924 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
1994881 ACTAAATATG
1994891 ATAAAATT
1 ATAAAATT
1994899 A-AAAATT
1 ATAAAATT
1994906 ATAAAATT
1 ATAAAATT
*
1994914 ATAAAAAT
1 ATAAAATT
1994922 ATA
1 ATA
1994925 TTTAAATTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (8 bp):
ATAAAATT
Found at i:1995128 original size:15 final size:15
Alignment explanation
Indices: 1995110--1995138 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1995100 GTTCACGTTG
1995110 TTAATTAAAAATATT
1 TTAATTAAAAATATT
1995125 TTAATTAAAAATAT
1 TTAATTAAAAATAT
1995139 GTAAAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAATTAAAAATATT
Found at i:1995855 original size:19 final size:18
Alignment explanation
Indices: 1995827--1995875 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
1995817 ATTGTTGTCA
* *
1995827 ATTTTGTATTTTATTTTAT
1 ATTTTTTATTTAATTTT-T
*
1995846 ATTTTTTATTAAATTTTT
1 ATTTTTTATTTAATTTTT
*
1995864 ATTTTTAATTTA
1 ATTTTTTATTTA
1995876 TCCAAAAGTA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (18 bp):
ATTTTTTATTTAATTTTT
Found at i:1997438 original size:18 final size:19
Alignment explanation
Indices: 1997396--1997439 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
1997386 CTTAATTTTA
* *
1997396 AATAAAAAATTTTTAATAT
1 AATAAAAAAATTATAATAT
1997415 AATAAAAAAATTATAA-AT
1 AATAAAAAAATTATAATAT
*
1997433 ATTAAAA
1 AATAAAA
1997440 TTTAAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
AATAAAAAAATTATAATAT
Found at i:1998127 original size:2 final size:2
Alignment explanation
Indices: 1998118--1998181 Score: 57
Period size: 2 Copynumber: 33.5 Consensus size: 2
1998108 TCATATTTTA
* *
1998118 AT AT -T AT AT AT AT TT AT AT GAT -T AA AT -T AT AT CAT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT -AT AT AT AT
1998159 AT AT AT AT AT AT A- AT A- AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1998182 ATTAAAAATG
Statistics
Matches: 51, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
1 5 0.10
2 42 0.82
3 4 0.08
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1998180 original size:26 final size:25
Alignment explanation
Indices: 1998102--1998181 Score: 72
Period size: 28 Copynumber: 3.0 Consensus size: 25
1998092 GAGTTTAAGT
* *
1998102 TATATATCATATTTTAATATTATATA
1 TATATAT-ATATTATAATAATATATA
*
1998128 TATTTATATGATTA-AATTATATCATATA
1 TATATATAT-ATTATAA-TA-AT-ATATA
1998156 TATATATATATATATAATAATATATA
1 TATATATATAT-TATAATAATATATA
1998182 ATTAAAAATG
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
25 4 0.09
26 16 0.36
27 5 0.11
28 17 0.39
29 2 0.05
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (25 bp):
TATATATATATTATAATAATATATA
Found at i:1998565 original size:33 final size:32
Alignment explanation
Indices: 1998522--1998588 Score: 80
Period size: 33 Copynumber: 2.1 Consensus size: 32
1998512 AAAAAGTAAT
*
1998522 ATAAACATAATACAAATATATAAATACATTAAA
1 ATAAACATAATACAAAT-TATAAATACATAAAA
* * * *
1998555 ATAAATATAATATAAATTATTAATATATAAAA
1 ATAAACATAATACAAATTATAAATACATAAAA
1998587 AT
1 AT
1998589 TTATATAAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 14 0.48
33 15 0.52
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (32 bp):
ATAAACATAATACAAATTATAAATACATAAAA
Found at i:1998599 original size:20 final size:21
Alignment explanation
Indices: 1998535--1998644 Score: 78
Period size: 20 Copynumber: 5.6 Consensus size: 21
1998525 AACATAATAC
* *
1998535 AAATATATAAATACATTAAAAT
1 AAATATATAAATA-ATTTATAT
* *
1998557 AAATATA-ATATAAATTAT-T
1 AAATATATAAATAATTTATAT
1998576 -AATATATAAA-AATTTATAT
1 AAATATATAAATAATTTATAT
*
1998595 AAATATA-AAATAATTTAAAT
1 AAATATATAAATAATTTATAT
*
1998615 ATAAT-TAT-GAT-A-TTATA-
1 A-AATATATAAATAATTTATAT
1998632 AAATATATAAATA
1 AAATATATAAATA
1998645 TAATATTAAT
Statistics
Matches: 69, Mismatches: 10, Indels: 21
0.69 0.10 0.21
Matches are distributed among these distances:
16 3 0.04
17 4 0.06
18 18 0.26
19 8 0.12
20 22 0.32
21 7 0.10
22 7 0.10
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (21 bp):
AAATATATAAATAATTTATAT
Found at i:1999274 original size:16 final size:16
Alignment explanation
Indices: 1999248--1999296 Score: 50
Period size: 17 Copynumber: 3.1 Consensus size: 16
1999238 AACATTATTT
1999248 TTTATTTTATTTTTAAA
1 TTTA-TTTATTTTTAAA
1999265 TTTATTTA--TTTAAA
1 TTTATTTATTTTTAAA
1999279 TATTAATTT-TTTTTAAA
1 T-TT-ATTTATTTTTAAA
1999296 T
1 T
1999297 ATTTACTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 7 0.25
15 2 0.07
16 8 0.29
17 11 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTATTTATTTTTAAA
Found at i:1999308 original size:18 final size:17
Alignment explanation
Indices: 1999257--1999309 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
1999247 TTTTATTTTA
1999257 TTTTTAAAT-TT-A-TT
1 TTTTTAAATATTAATTT
*
1999271 TATTTAAATATTAATTT
1 TTTTTAAATATTAATTT
*
1999288 TTTTTAAATATTTACTTT
1 TTTTTAAATA-TTAATTT
1999306 TTTT
1 TTTT
1999310 CGTAAATTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 8 0.25
15 2 0.06
16 1 0.03
17 11 0.34
18 10 0.31
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTTTAAATATTAATTT
Found at i:1999685 original size:19 final size:20
Alignment explanation
Indices: 1999657--1999704 Score: 66
Period size: 18 Copynumber: 2.5 Consensus size: 20
1999647 ATAAAATAAA
1999657 AATA-ATTAAAAATTTAT-T
1 AATATATTAAAAATTTATAT
1999675 AATATATT-AAAATTTATAT
1 AATATATTAAAAATTTATAT
*
1999694 AATATTTTAAA
1 AATATATTAAA
1999705 TATATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
18 13 0.50
19 11 0.42
20 2 0.08
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATATATTAAAAATTTATAT
Found at i:1999705 original size:18 final size:19
Alignment explanation
Indices: 1999665--1999704 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
1999655 AAAATAATTA
1999665 AAAATTTAT-TAATATATT
1 AAAATTTATATAATATATT
*
1999683 AAAATTTATATAATATTTT
1 AAAATTTATATAATATATT
1999702 AAA
1 AAA
1999705 TATATAATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AAAATTTATATAATATATT
Found at i:1999714 original size:19 final size:19
Alignment explanation
Indices: 1999657--1999710 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
1999647 ATAAAATAAA
*
1999657 AATA-ATTAAAA-ATTTATT
1 AATATATTAAAATATATA-T
*
1999675 AATATATTAAAATTTATAT
1 AATATATTAAAATATATAT
*
1999694 AATAT-TTTAAATATATA
1 AATATATTAAAATATATA
1999711 ATAAATGAGG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
18 14 0.47
19 13 0.43
20 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATATATTAAAATATATAT
Found at i:2000151 original size:3 final size:3
Alignment explanation
Indices: 2000143--2000174 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
2000133 TACCCATCTC
2000143 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
2000175 GGGGAAGACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:2001942 original size:31 final size:32
Alignment explanation
Indices: 2001907--2001975 Score: 79
Period size: 34 Copynumber: 2.1 Consensus size: 32
2001897 ATTAAAAAAA
*
2001907 TTTAATTATTTATAA-ATATA-ATTAAATAATT
1 TTTAATT-TTTATAATATATATAATAAATAATT
*
2001938 TTTAATTTTTTTAATTTATATATAATAAATAATT
1 TTTAATTTTTATAA--TATATATAATAAATAATT
2001972 TTTA
1 TTTA
2001976 TCAAATTTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 6 0.19
31 7 0.22
33 5 0.16
34 14 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (32 bp):
TTTAATTTTTATAATATATATAATAAATAATT
Found at i:2003291 original size:44 final size:42
Alignment explanation
Indices: 2003222--2003313 Score: 98
Period size: 44 Copynumber: 2.1 Consensus size: 42
2003212 ATTTAAAAGT
*
2003222 TTAAATTATTAAAAAAATTTATATTAATATAT-ATAAATTTATAA
1 TTAAATTA-TAAAAAAATTTATATTAATAAATAAT-AATTT-TAA
* *
2003266 TTAAATTA-AAAATAAATTTTTTATTATTAAATAATAATTTTAA
1 TTAAATTATAAAA-AAA-TTTATATTAATAAATAATAATTTTAA
2003309 TTAAA
1 TTAAA
2003314 CTAATTTGAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
42 4 0.10
43 11 0.26
44 25 0.60
45 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (42 bp):
TTAAATTATAAAAAAATTTATATTAATAAATAATAATTTTAA
Found at i:2003675 original size:15 final size:15
Alignment explanation
Indices: 2003655--2003692 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
2003645 AATTTAAAAA
2003655 TATTTTTT-TTA-AT
1 TATTTTTTATTACAT
2003668 TAATTTTTTATTACAT
1 T-ATTTTTTATTACAT
2003684 TATTTTTTA
1 TATTTTTTA
2003693 GACAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.05
14 7 0.32
15 11 0.50
16 3 0.14
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTTTTATTACAT
Found at i:2003870 original size:21 final size:21
Alignment explanation
Indices: 2003845--2003942 Score: 62
Period size: 21 Copynumber: 4.8 Consensus size: 21
2003835 ATTTTACAAA
* *
2003845 TAAATAATATATTTATATATT
1 TAAATAATAAATTTATATAAT
* * *
2003866 TAAAT-TTATTATTTATATAAA
1 TAAATAATA-AATTTATATAAT
*
2003887 T-AA-AATAAATTTAAATAAT
1 TAAATAATAAATTTATATAAT
* *
2003906 AAAATTAA-AAATTTATA-ATT
1 TAAA-TAATAAATTTATATAAT
*
2003926 TAAATAATAAATATATA
1 TAAATAATAAATTTATA
2003943 AAAATTTATA
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
19 12 0.20
20 21 0.36
21 24 0.41
22 2 0.03
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TAAATAATAAATTTATATAAT
Found at i:2003908 original size:13 final size:13
Alignment explanation
Indices: 2003890--2003937 Score: 53
Period size: 13 Copynumber: 3.5 Consensus size: 13
2003880 ATATAAATAA
2003890 AATAAATTTAAAT
1 AATAAATTTAAAT
*
2003903 AATAAAATTAAA-
1 AATAAATTTAAAT
2003915 AATTTATAATTTAAAT
1 AA--TA-AATTTAAAT
2003931 AATAAAT
1 AATAAAT
2003938 ATATAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
12 2 0.07
13 14 0.48
14 4 0.14
15 7 0.24
16 2 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
AATAAATTTAAAT
Found at i:2003925 original size:28 final size:30
Alignment explanation
Indices: 2003894--2003952 Score: 104
Period size: 28 Copynumber: 2.0 Consensus size: 30
2003884 AAATAAAATA
2003894 AATTTAAATAATAAA-AT-TAAAAATTTAT
1 AATTTAAATAATAAATATATAAAAATTTAT
2003922 AATTTAAATAATAAATATATAAAAATTTAT
1 AATTTAAATAATAAATATATAAAAATTTAT
2003952 A
1 A
2003953 TTCATACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 15 0.52
29 2 0.07
30 12 0.41
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
AATTTAAATAATAAATATATAAAAATTTAT
Found at i:2009484 original size:29 final size:31
Alignment explanation
Indices: 2009424--2009484 Score: 81
Period size: 29 Copynumber: 2.0 Consensus size: 31
2009414 TTTAATTATT
* * *
2009424 ATTTAATTAATAAAAAATATTTTTTATTTAA
1 ATTTAATTAATAAAAAATATTATTAATATAA
2009455 ATTTAATT-AT-AAAAATATTATTAATATAA
1 ATTTAATTAATAAAAAATATTATTAATATAA
2009484 A
1 A
2009485 AATAATATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 17 0.63
30 2 0.07
31 8 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
ATTTAATTAATAAAAAATATTATTAATATAA
Found at i:2009496 original size:18 final size:19
Alignment explanation
Indices: 2009455--2009496 Score: 61
Period size: 17 Copynumber: 2.3 Consensus size: 19
2009445 TTTTATTTAA
*
2009455 ATTTAATTATAAAAATATT
1 ATTTAATTATAAAAATAAT
2009474 A-TTAA-TATAAAAATAAT
1 ATTTAATTATAAAAATAAT
2009491 ATTTAA
1 ATTTAA
2009497 ACGTCTTTCC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 12 0.57
18 8 0.38
19 1 0.05
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
ATTTAATTATAAAAATAAT
Found at i:2009774 original size:22 final size:22
Alignment explanation
Indices: 2009730--2009777 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
2009720 AATATAATTT
**
2009730 ATATTTTTTAATTTAATTTAAA
1 ATATTTTTTAATAAAATTTAAA
2009752 ATATTTTTTAA-AAAATTTAAA
1 ATATTTTTTAATAAAATTTAAA
2009773 A-ATTT
1 ATATTT
2009778 AAAAATATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 4 0.17
21 9 0.38
22 11 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
ATATTTTTTAATAAAATTTAAA
Found at i:2009787 original size:18 final size:17
Alignment explanation
Indices: 2009758--2009793 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
2009748 TAAAATATTT
2009758 TTTAAAAAATTTAAAAA
1 TTTAAAAAATTTAAAAA
*
2009775 TTTAAAAATATTTATAAA
1 TTTAAAAA-ATTTAAAAA
2009793 T
1 T
2009794 ATTCGTAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
TTTAAAAAATTTAAAAA
Found at i:2010592 original size:2 final size:2
Alignment explanation
Indices: 2010585--2010619 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
2010575 GTTCTTTTCC
2010585 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2010620 AATTATCTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2010889 original size:2 final size:2
Alignment explanation
Indices: 2010882--2010909 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2010872 AGTTCACTTC
2010882 AT 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 AT
2010910 GTAACTCACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2011511 original size:30 final size:27
Alignment explanation
Indices: 2011468--2011524 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
2011458 AATAAATATT
*
2011468 ATAAAAATATATAAAATAATTAATTTTAA
1 ATAAAAACATATAAAAT--TTAATTTTAA
2011497 ATAAAATACATATAAAATTTAATTTTAA
1 ATAAAA-ACATATAAAATTTAATTTTAA
2011525 TATCGAATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.38
29 6 0.23
30 10 0.38
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
ATAAAAACATATAAAATTTAATTTTAA
Found at i:2011971 original size:14 final size:14
Alignment explanation
Indices: 2011948--2012048 Score: 51
Period size: 14 Copynumber: 6.9 Consensus size: 14
2011938 AAGGTAAAAA
2011948 AAATTATAAATATT
1 AAATTATAAATATT
* *
2011962 AAATTTTAAATTTT
1 AAATTATAAATATT
* *
2011976 AAATAAATATATATT
1 AAAT-TATAAATATT
* * *
2011991 TAA-TAAAAAAATT
1 AAATTATAAATATT
* **
2012004 ATAATTTAAAAATAAAA
1 A-AA-TTATAAAT-ATT
2012021 ATAATTATAAATATT
1 A-AATTATAAATATT
*
2012036 AAATTTTAAATAT
1 AAATTATAAATAT
2012049 ATTAAATATT
Statistics
Matches: 63, Mismatches: 19, Indels: 10
0.68 0.21 0.11
Matches are distributed among these distances:
13 6 0.10
14 29 0.46
15 10 0.16
16 13 0.21
17 5 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATTATAAATATT
Found at i:2012002 original size:19 final size:20
Alignment explanation
Indices: 2011975--2012023 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
2011965 TTTTAAATTT
*
2011975 TAAATAAATATAT-ATTTAA
1 TAAAAAAATATATAATTTAA
2011994 TAAAAAAAT-TATAATTTAA
1 TAAAAAAATATATAATTTAA
*
2012013 AAATAAAAATA
1 TAA-AAAAATA
2012024 ATTATAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 3 0.12
19 16 0.64
20 6 0.24
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TAAAAAAATATATAATTTAA
Found at i:2012020 original size:20 final size:20
Alignment explanation
Indices: 2011983--2012022 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2011973 TTTAAATAAA
*
2011983 TATATATTTAATAAAAAAAT
1 TATATATTTAAAAAAAAAAT
2012003 TATA-ATTTAAAAATAAAAAT
1 TATATATTTAAAAA-AAAAAT
2012023 AATTATAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TATATATTTAAAAAAAAAAT
Found at i:2012039 original size:23 final size:21
Alignment explanation
Indices: 2011986--2012039 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 21
2011976 AAATAAATAT
*
2011986 ATATTTAATAAAAAAATTATA
1 ATATTAAATAAAAAAATTATA
2012007 AT-TTAAAAATAAAAATAATTATAA
1 ATATT--AAATAAAAA-AATTAT-A
2012031 ATATTAAAT
1 ATATTAAAT
2012040 TTTAAATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
20 2 0.07
21 2 0.07
22 8 0.30
23 10 0.37
24 3 0.11
25 2 0.07
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
ATATTAAATAAAAAAATTATA
Found at i:2012040 original size:37 final size:37
Alignment explanation
Indices: 2011942--2012046 Score: 101
Period size: 37 Copynumber: 2.8 Consensus size: 37
2011932 AGGCTAAAGG
* * *
2011942 TAAAAAAAATTATAAATATTAAATTTTAAATTTTAAA
1 TAAAAATAATTATAAATATTAAATTATAAATTTAAAA
*
2011979 TAAATATATATTTAATAAA-A--AAATTAT-AATTTAAAAA
1 TAAA-A-ATAATT-ATAAATATTAAATTATAAATTT-AAAA
*
2012016 TAAAAATAATTATAAATATTAAATTTTAAAT
1 TAAAAATAATTATAAATATTAAATTATAAAT
2012047 ATATTAAATA
Statistics
Matches: 54, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
34 5 0.09
35 6 0.11
36 6 0.11
37 23 0.43
38 4 0.07
39 5 0.09
40 5 0.09
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (37 bp):
TAAAAATAATTATAAATATTAAATTATAAATTTAAAA
Found at i:2012081 original size:74 final size:74
Alignment explanation
Indices: 2011942--2012078 Score: 203
Period size: 74 Copynumber: 1.9 Consensus size: 74
2011932 AGGCTAAAGG
2011942 TAAAAAAAATTATAAATATTAAATTTTAAATTTTAAATAAATATATATTTAATAAAAAAATTATA
1 TAAAAAAAATTATAAATATTAAATTTTAAATTTTAAATAAATATATATTTAATAAAAAAATTATA
2012007 ATTTAAAAA
66 ATTTAAAAA
*
2012016 TAAAAATAATTATAAATATTAAATTTTAAATATATTAAAT--AT-TATATTT--TAAAAATAATT
1 TAAAAAAAATTATAAATATTAAATTTTAAAT-T-TTAAATAAATATATATTTAATAAAAA-AATT
2012076 ATA
63 ATA
2012079 TAAACTAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 8
0.87 0.01 0.12
Matches are distributed among these distances:
71 6 0.10
72 7 0.12
73 7 0.12
74 32 0.54
75 1 0.02
76 6 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (74 bp):
TAAAAAAAATTATAAATATTAAATTTTAAATTTTAAATAAATATATATTTAATAAAAAAATTATA
ATTTAAAAA
Found at i:2012801 original size:14 final size:13
Alignment explanation
Indices: 2012768--2012798 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
2012758 ATTATATGTA
2012768 TAAAAA-AATTTT
1 TAAAAATAATTTT
2012780 TAAAAATAATTTT
1 TAAAAATAATTTT
2012793 TAAAAA
1 TAAAAA
2012799 ATATATAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.33
13 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
TAAAAATAATTTT
Found at i:2016698 original size:6 final size:6
Alignment explanation
Indices: 2016687--2016721 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
2016677 GATTATATGT
2016687 CCCTTG CCCTTG CCCTTG CCCTTG CCCTTG CCCTT
1 CCCTTG CCCTTG CCCTTG CCCTTG CCCTTG CCCTT
2016722 ACAAGAGCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.00, C:0.51, G:0.14, T:0.34
Consensus pattern (6 bp):
CCCTTG
Found at i:2023304 original size:28 final size:27
Alignment explanation
Indices: 2023260--2023323 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
2023250 CTAAGTTAAA
*
2023260 TTAATTTTATTTAAAAT-ATTTTTTATT
1 TTAATTTTAATTAAAATAATTTTTTA-T
*
2023287 TTAATATTTAATTCAAATAATTTTTTAT
1 TTAAT-TTTAATTAAAATAATTTTTTAT
2023315 TTAATTTTA
1 TTAATTTTA
2023324 TGTATAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 9 0.27
28 16 0.48
29 8 0.24
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (27 bp):
TTAATTTTAATTAAAATAATTTTTTAT
Found at i:2023332 original size:28 final size:27
Alignment explanation
Indices: 2023260--2023333 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 27
2023250 CTAAGTTAAA
2023260 TTAATTTTATTTAAAAT-ATTTTTTATT
1 TTAATTTTA-TTAAAATAATTTTTTATT
*
2023287 TTAATATTTAATTCAAATAATTTTTTA-T
1 TTAAT-TTT-ATTAAAATAATTTTTTATT
2023315 TTAATTTTATGTATAAATA
1 TTAATTTTAT-TA-AAATA
2023334 TTAATATAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 2 0.05
27 9 0.22
28 20 0.50
29 9 0.22
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.59
Consensus pattern (27 bp):
TTAATTTTATTAAAATAATTTTTTATT
Found at i:2025693 original size:21 final size:22
Alignment explanation
Indices: 2025669--2025717 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
2025659 ATATAATAAG
*
2025669 TAAAAATT-ATTTAAAT-AAAT
1 TAAAAATTAATTTAAATAAAAA
* *
2025689 TTAAAATTAATTTAATTAAAAA
1 TAAAAATTAATTTAAATAAAAA
2025711 TAAAAAT
1 TAAAAAT
2025718 AAAAAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 7 0.30
21 7 0.30
22 9 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
TAAAAATTAATTTAAATAAAAA
Found at i:2026006 original size:17 final size:17
Alignment explanation
Indices: 2025957--2026003 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
2025947 ATATAATTTT
2025957 TATTAATTAATTA-TT-A
1 TATTAA-TAATTATTTAA
*
2025973 TATTAATAGTTATTTAA
1 TATTAATAATTATTTAA
2025990 TATTAA-AATTATTT
1 TATTAATAATTATTT
2026004 TAAAATACTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 5 0.19
16 15 0.56
17 7 0.26
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
TATTAATAATTATTTAA
Found at i:2026645 original size:18 final size:17
Alignment explanation
Indices: 2026622--2026655 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
2026612 ACAAACAGTT
2026622 AAATAAAATATATAAATA
1 AAATAAAATA-ATAAATA
2026640 AAATAAAATAATAAAT
1 AAATAAAATAATAAAT
2026656 TTAAGTTTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAATAAAATAATAAATA
Found at i:2026707 original size:14 final size:15
Alignment explanation
Indices: 2026680--2026712 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
2026670 ATATTAAAAA
*
2026680 ATAATTAAATATAAT
1 ATAATTAAAAATAAT
2026695 ATAA-TAAAAATAAT
1 ATAATTAAAAATAAT
2026709 ATAA
1 ATAA
2026713 ATATCTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
ATAATTAAAAATAAT
Found at i:2027064 original size:31 final size:31
Alignment explanation
Indices: 2027046--2027130 Score: 91
Period size: 30 Copynumber: 2.7 Consensus size: 31
2027036 ATTATTAATT
2027046 ATTTAATTTTTTTATTTAAAAATATTTAAAA
1 ATTTAATTTTTTTATTTAAAAATATTTAAAA
* ** *
2027077 ATTTAA-TTTTTTACTTAAATTTTTTTAAAA
1 ATTTAATTTTTTTATTTAAAAATATTTAAAA
* *
2027107 TTTTAATTATTTTTTATATAAAAA
1 ATTTAA-T-TTTTTTATTTAAAAA
2027131 AATCATCTAC
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
30 25 0.60
31 6 0.14
33 11 0.26
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (31 bp):
ATTTAATTTTTTTATTTAAAAATATTTAAAA
Found at i:2027360 original size:17 final size:19
Alignment explanation
Indices: 2027334--2027378 Score: 58
Period size: 17 Copynumber: 2.4 Consensus size: 19
2027324 AAAAAGTTAC
*
2027334 TTTTTCCTTT-TTTT-TTT
1 TTTTTTCTTTATTTTGTTT
2027351 TTTTTTCTTTATTTTGTTT
1 TTTTTTCTTTATTTTGTTT
2027370 TTTGTTTCT
1 TTT-TTTCT
2027379 GAAAATTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 9 0.38
18 4 0.17
19 6 0.25
20 5 0.21
ACGTcount: A:0.02, C:0.09, G:0.04, T:0.84
Consensus pattern (19 bp):
TTTTTTCTTTATTTTGTTT
Found at i:2028526 original size:2 final size:2
Alignment explanation
Indices: 2028519--2028563 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
2028509 GGTGACTTTG
2028519 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2028560 AT AT
1 AT AT
2028564 TTCAGTACCA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:2031260 original size:17 final size:17
Alignment explanation
Indices: 2031238--2031270 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2031228 TGAATTAATT
2031238 AAAGGCATAA-GCAAAGC
1 AAAGGCA-AAGGCAAAGC
2031255 AAAGGCAAAGGCAAAG
1 AAAGGCAAAGGCAAAG
2031271 GGGAGCAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 2 0.13
17 13 0.87
ACGTcount: A:0.55, C:0.15, G:0.27, T:0.03
Consensus pattern (17 bp):
AAAGGCAAAGGCAAAGC
Found at i:2034921 original size:22 final size:21
Alignment explanation
Indices: 2034876--2034939 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 21
2034866 ACTTATTTAC
** *
2034876 TTTTTTAAAAAATAAATATTA
1 TTTTTTATTAAATAAATATAA
2034897 TTTTTTATTAAATAAATAATAA
1 TTTTTTATTAAATAAAT-ATAA
2034919 TTTAAATTTAATTAAATAAAT
1 TTT---TTT-ATTAAATAAAT
2034940 TTAAATTAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
21 15 0.43
22 6 0.17
25 3 0.09
26 11 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTTTTATTAAATAAATATAA
Found at i:2034938 original size:14 final size:15
Alignment explanation
Indices: 2034921--2034949 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
2034911 AATAATAATT
2034921 TAAATTT-AATTAAA
1 TAAATTTAAATTAAA
2034935 TAAATTTAAATTAAA
1 TAAATTTAAATTAAA
2034950 AATATTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TAAATTTAAATTAAA
Found at i:2035281 original size:21 final size:20
Alignment explanation
Indices: 2035213--2035281 Score: 50
Period size: 21 Copynumber: 3.1 Consensus size: 20
2035203 ATAAATTTTA
*
2035213 AATTTTATTATTTAATTTAAATA
1 AATTTT-TT-TTTAA-TTAAATT
*
2035236 AAGTTTTATTTTAATTACACA-T
1 AA-TTTTTTTTTAATTA-A-ATT
2035258 AATTTTTTTTTAATTAATATT
1 AATTTTTTTTTAATTAA-ATT
2035279 AAT
1 AAT
2035282 AAATTATTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
20 2 0.05
21 20 0.53
22 8 0.21
23 4 0.11
24 4 0.11
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (20 bp):
AATTTTTTTTTAATTAAATT
Found at i:2035343 original size:18 final size:17
Alignment explanation
Indices: 2035319--2035386 Score: 66
Period size: 17 Copynumber: 4.0 Consensus size: 17
2035309 ATCAATCATT
*
2035319 AAATTTAAATTTAAATA
1 AAATTTTAATTTAAATA
*
2035336 AAATTTTAATATAAATTA
1 AAATTTTAATTTAAA-TA
* *
2035354 ATATTTTAATTAAAATA
1 AAATTTTAATTTAAATA
**
2035371 AAAAATT-ATTTAAATA
1 AAATTTTAATTTAAATA
2035387 TAATAAAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
16 8 0.20
17 19 0.46
18 14 0.34
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATTTTAATTTAAATA
Found at i:2035614 original size:16 final size:16
Alignment explanation
Indices: 2035593--2035643 Score: 66
Period size: 16 Copynumber: 3.1 Consensus size: 16
2035583 TTTATGATTA
2035593 ATATAAAATATTTAAT
1 ATATAAAATATTTAAT
2035609 ATATAAAATATTTATAT
1 ATATAAAATATTTA-AT
* *
2035626 TTATTAATATATTTAAT
1 ATA-TAAAATATTTAAT
2035643 A
1 A
2035644 AATTATATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 14 0.47
17 6 0.20
18 10 0.33
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
ATATAAAATATTTAAT
Found at i:2035643 original size:25 final size:27
Alignment explanation
Indices: 2035604--2035657 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 27
2035594 TATAAAATAT
*
2035604 TTAATATATAAAAT-ATTTATATT-TA
1 TTAATATATAAAATAAATTATATTATA
**
2035629 TTAATATATTTAATAAATTATATTATA
1 TTAATATATAAAATAAATTATATTATA
2035656 TT
1 TT
2035658 TATCTTTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 12 0.50
26 8 0.33
27 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
TTAATATATAAAATAAATTATATTATA
Found at i:2035651 original size:16 final size:16
Alignment explanation
Indices: 2035574--2035651 Score: 56
Period size: 16 Copynumber: 4.9 Consensus size: 16
2035564 ATAAATAAAT
2035574 TTTAATATATT-TATGA
1 TTTAATATATTATAT-A
*
2035590 -TTAATATA--AAATA
1 TTTAATATATTATATA
* *
2035603 TTTAATATATAAAATA
1 TTTAATATATTATATA
*
2035619 TTTATATTTATTAATATA
1 TTTA-ATATATT-ATATA
*
2035637 TTTAATAAATTATAT
1 TTTAATATATTATAT
2035652 TATATTTATC
Statistics
Matches: 50, Mismatches: 6, Indels: 12
0.74 0.09 0.18
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 8 0.16
16 13 0.26
17 10 0.20
18 8 0.16
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (16 bp):
TTTAATATATTATATA
Found at i:2035966 original size:29 final size:28
Alignment explanation
Indices: 2035921--2036008 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 28
2035911 ATTATGTAAA
**
2035921 ATAATTAAAATAAATATTTTATAAATAT
1 ATAATTAAAATAAATATAATATAAATAT
**
2035949 ATAATTTAAAATTTATATAATATAAATTATT
1 ATAA-TTAAAATAAATATAATATAAA-TA-T
* *
2035980 AAAATTAATAT-AAT-T-ATATAAATAT
1 ATAATTAAAATAAATATAATATAAATAT
2036005 ATAA
1 ATAA
2036009 ATTATTAATT
Statistics
Matches: 49, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
25 4 0.08
26 2 0.04
27 7 0.14
28 5 0.10
29 19 0.39
30 8 0.16
31 4 0.08
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (28 bp):
ATAATTAAAATAAATATAATATAAATAT
Found at i:2035978 original size:14 final size:13
Alignment explanation
Indices: 2035940--2036008 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 13
2035930 ATAAATATTT
2035940 TATAAATATATAA
1 TATAAATATATAA
*
2035953 TTTAAAATTTATATAA
1 TAT-AAA--TATATAA
2035969 TATAAAT-TATTAA
1 TATAAATATA-TAA
* * *
2035982 AATTAATATAATTA
1 TATAAATAT-ATAA
2035996 TATAAATATATAA
1 TATAAATATATAA
2036009 ATTATTAATT
Statistics
Matches: 42, Mismatches: 8, Indels: 12
0.68 0.13 0.19
Matches are distributed among these distances:
12 2 0.05
13 14 0.33
14 13 0.31
15 4 0.10
16 9 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (13 bp):
TATAAATATATAA
Found at i:2035981 original size:24 final size:23
Alignment explanation
Indices: 2035938--2036000 Score: 76
Period size: 24 Copynumber: 2.7 Consensus size: 23
2035928 AAATAAATAT
2035938 TTTATA-AATATATAATTTAAAA
1 TTTATATAATATATAATTTAAAA
2035960 TTTATATAATATA-AATTATTAAAA
1 TTTATATAATATATAA-T-TTAAAA
*
2035984 TTAATATAATTATATAA
1 TTTATATAA-TATATAA
2036001 ATATATAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
22 8 0.23
23 7 0.20
24 14 0.40
25 4 0.11
26 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (23 bp):
TTTATATAATATATAATTTAAAA
Found at i:2036214 original size:5 final size:5
Alignment explanation
Indices: 2036204--2036228 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
2036194 CACCACCAAG
2036204 ACAAA ACAAA ACAAA ACAAA ACAAA
1 ACAAA ACAAA ACAAA ACAAA ACAAA
2036229 TGCTTAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:2045783 original size:22 final size:22
Alignment explanation
Indices: 2045755--2045798 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
2045745 TGGACTCTTC
*
2045755 ATTTTCCCTAAAGTATTCATGT
1 ATTTTCCCTAAAATATTCATGT
2045777 ATTTTCCCTAAAATATTCATGT
1 ATTTTCCCTAAAATATTCATGT
2045799 CTGACATGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.45
Consensus pattern (22 bp):
ATTTTCCCTAAAATATTCATGT
Found at i:2046856 original size:2 final size:2
Alignment explanation
Indices: 2046849--2046876 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2046839 ACTGGAACTT
2046849 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2046877 GATTGATCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2047239 original size:25 final size:25
Alignment explanation
Indices: 2047211--2047260 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
2047201 GATATTTTTA
*
2047211 TTTAAAATA-TAATATTTAAATAAAT
1 TTTAAAATATTAATAATT-AATAAAT
*
2047236 TTTAATATATTAATAATTAATAAAT
1 TTTAAAATATTAATAATTAATAAAT
2047261 ATAATTTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
TTTAAAATATTAATAATTAATAAAT
Found at i:2048445 original size:14 final size:14
Alignment explanation
Indices: 2048426--2048453 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2048416 ATTGCACCAA
2048426 CTAGAGAAGATTTT
1 CTAGAGAAGATTTT
2048440 CTAGAGAAGATTTT
1 CTAGAGAAGATTTT
2048454 TACTTTTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
CTAGAGAAGATTTT
Found at i:2050904 original size:2 final size:2
Alignment explanation
Indices: 2050897--2050923 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2050887 CAATGGTTTT
2050897 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
2050924 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:2055714 original size:25 final size:26
Alignment explanation
Indices: 2055667--2055743 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 26
2055657 ATTTTATTAT
*
2055667 TAATATTTATCATAATTAAATAA-AA
1 TAATATTTATTATAATTAAATAATAA
* * *
2055692 TAATATTTATTTTATTTATATAATAA
1 TAATATTTATTATAATTAAATAATAA
2055718 TAAATATTATATTATATAATTAAATA
1 T-AATATT-TA-T-TATAATTAAATA
2055744 TATATTTGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
25 19 0.47
26 3 0.08
27 6 0.15
28 2 0.05
29 1 0.03
30 9 0.22
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (26 bp):
TAATATTTATTATAATTAAATAATAA
Found at i:2055725 original size:23 final size:22
Alignment explanation
Indices: 2055703--2055749 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
2055693 AATATTTATT
2055703 TTAT-TTATATAATAATAAATA
1 TTATATTATATAATAATAAATA
2055724 TTATATTATATAAT--TAAATA
1 TTATATTATATAATAATAAATA
2055744 -TATATT
1 TTATATT
2055750 TGAAAACTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.24
20 6 0.24
21 4 0.16
22 9 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATATTATATAATAATAAATA
Found at i:2056141 original size:21 final size:21
Alignment explanation
Indices: 2056117--2056204 Score: 69
Period size: 21 Copynumber: 4.3 Consensus size: 21
2056107 CAACATAAAA
2056117 ATAATAATTAAAATATAATAT
1 ATAATAATTAAAATATAATAT
*
2056138 ATAATAAAATAAAATA-AATAT
1 ATAAT-AATTAAAATATAATAT
* * *
2056159 A-AATATTTTTAAATTTAATAT
1 ATAATA-ATTAAAATATAATAT
*
2056180 A-AA-AACTATAAATATAA-AT
1 ATAATAATTA-AAATATAATAT
2056199 ATAATA
1 ATAATA
2056205 TAAATAAATA
Statistics
Matches: 52, Mismatches: 9, Indels: 12
0.71 0.12 0.16
Matches are distributed among these distances:
19 5 0.10
20 18 0.35
21 20 0.38
22 9 0.17
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATAATTAAAATATAATAT
Found at i:2056145 original size:17 final size:17
Alignment explanation
Indices: 2056116--2056164 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
2056106 ACAACATAAA
2056116 AATA-ATAATTAAAATAT
1 AATATATAA-TAAAATAT
2056133 AATATATAATAAAATA-
1 AATATATAATAAAATAT
2056149 AA-ATA-AATATAAATAT
1 AATATATAATA-AAATAT
2056165 TTTTAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 4 0.14
15 8 0.28
16 2 0.07
17 11 0.38
18 4 0.14
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AATATATAATAAAATAT
Found at i:2056162 original size:6 final size:6
Alignment explanation
Indices: 2056127--2056210 Score: 56
Period size: 6 Copynumber: 14.8 Consensus size: 6
2056117 ATAATAATTA
* * *
2056127 AAATAT -AATAT ATA-AT AAA-AT AAA-AT AAATAT AAATAT --TTTT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
* *
2056169 AAATTT AATATAA AAACTAT AAATAT AAATAT -AATAT AAATA
1 AAATAT AA-ATAT AAA-TAT AAATAT AAATAT AAATAT AAATA
2056211 AATATATTAA
Statistics
Matches: 63, Mismatches: 8, Indels: 14
0.74 0.09 0.16
Matches are distributed among these distances:
4 2 0.03
5 24 0.38
6 28 0.44
7 9 0.14
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (6 bp):
AAATAT
Found at i:2056211 original size:15 final size:15
Alignment explanation
Indices: 2056128--2056216 Score: 62
Period size: 15 Copynumber: 6.1 Consensus size: 15
2056118 TAATAATTAA
*
2056128 AATATAATATATAATAA
1 AATATAA-ATA-AATAT
2056145 AATA-AAATAAATAT
1 AATATAAATAAATAT
*** *
2056159 AAATATTTTTAAATTT
1 -AATATAAATAAATAT
*
2056175 AATATAAA-AACTAT
1 AATATAAATAAATAT
2056189 AA-AT--ATAAATAT
1 AATATAAATAAATAT
2056201 AATATAAATAAATAT
1 AATATAAATAAATAT
2056216 A
1 A
2056217 TTAATTAATG
Statistics
Matches: 55, Mismatches: 11, Indels: 14
0.69 0.14 0.17
Matches are distributed among these distances:
11 1 0.02
12 7 0.13
13 4 0.07
14 10 0.18
15 21 0.38
16 8 0.15
17 4 0.07
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (15 bp):
AATATAAATAAATAT
Found at i:2056211 original size:21 final size:20
Alignment explanation
Indices: 2056127--2056216 Score: 69
Period size: 21 Copynumber: 4.3 Consensus size: 20
2056117 ATAATAATTA
2056127 AAATATAATATATAATAAAAT
1 AAATATAA-ATATAATAAAAT
***
2056148 AAA-ATAAATATAAATATTTTT
1 AAATATAAATAT-AATA-AAAT
*
2056169 AAAT-TTAATATAA-AAACTAT
1 AAATATAAATATAATAAA--AT
2056189 AAATATAAATATAATATAAAT
1 AAATATAAATATAATA-AAAT
2056210 AAATATA
1 AAATATA
2056217 TTAATTAATG
Statistics
Matches: 53, Mismatches: 8, Indels: 16
0.69 0.10 0.21
Matches are distributed among these distances:
19 5 0.09
20 15 0.28
21 30 0.57
22 1 0.02
23 2 0.04
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (20 bp):
AAATATAAATATAATAAAAT
Found at i:2056634 original size:23 final size:22
Alignment explanation
Indices: 2056600--2056676 Score: 60
Period size: 21 Copynumber: 3.7 Consensus size: 22
2056590 AAAATTAAAG
2056600 TATAATAT--ATATTAAAATTTA
1 TATAATATAAATATT-AAATTTA
*
2056621 TATAATATAAATATT-AATATA
1 TATAATATAAATATTAAATTTA
*
2056642 T-TAATAAAAATA-TATAATTTA
1 TATAATATAAATATTA-AATTTA
*
2056663 TTTAA-ATAAA-ATTA
1 TATAATATAAATATTA
2056677 TATGAATAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
19 1 0.02
20 11 0.24
21 26 0.57
22 3 0.07
23 5 0.11
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
TATAATATAAATATTAAATTTA
Found at i:2057362 original size:2 final size:2
Alignment explanation
Indices: 2057319--2057350 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
2057309 GCGTACACGC
*
2057319 AT AT AT AC 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 AT AT AT
2057351 TATGTTTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:2057515 original size:11 final size:11
Alignment explanation
Indices: 2057498--2057588 Score: 71
Period size: 11 Copynumber: 8.1 Consensus size: 11
2057488 TCAATAATCA
2057498 AATATAAATAT
1 AATATAAATAT
*
2057509 GATATAAATA-
1 AATATAAATAT
*
2057519 AATATGAGATA-
1 AATAT-AAATAT
2057530 AATATAATAATATT
1 AATAT-A-AATA-T
2057544 AA-ATATAATAT
1 AATATA-AATAT
* * *
2057555 GATAAAAAAAT
1 AATATAAATAT
2057566 AATATAAATAT
1 AATATAAATAT
2057577 AATATAAATAT
1 AATATAAATAT
2057588 A
1 A
2057589 TAAATATATT
Statistics
Matches: 64, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
10 4 0.06
11 45 0.70
12 11 0.17
13 2 0.03
14 2 0.03
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (11 bp):
AATATAAATAT
Found at i:2057521 original size:15 final size:14
Alignment explanation
Indices: 2057501--2057662 Score: 83
Period size: 15 Copynumber: 11.5 Consensus size: 14
2057491 ATAATCAAAT
2057501 ATAAATATGATATAA
1 ATAAATAT-ATATAA
*
2057516 ATAAATATGAGATAA
1 ATAAATAT-ATATAA
2057531 ATATAATA-ATATTAA
1 ATA-AATATATA-TAA
2057546 ATATAATATGATA-AA
1 ATA-AATAT-ATATAA
2057561 A-AAATA-ATATAA
1 ATAAATATATATAA
* *
2057573 ATATAATATAAATAT
1 ATA-AATATATATAA
2057588 ATAAATATAT-TAA
1 ATAAATATATATAA
** * *
2057601 A-ATTTATATTTAT
1 ATAAATATATATAA
2057614 ATAAAT-TAT-T-A
1 ATAAATATATATAA
2057625 ATAAATA-ATATTAA
1 ATAAATATATA-TAA
*
2057639 GATAAAAAATAATATAA
1 -AT-AAATAT-ATATAA
2057656 ATAAATA
1 ATAAATA
2057663 AATACATAAA
Statistics
Matches: 115, Mismatches: 14, Indels: 36
0.70 0.08 0.22
Matches are distributed among these distances:
11 11 0.10
12 10 0.09
13 15 0.13
14 16 0.14
15 44 0.38
16 10 0.09
17 6 0.05
18 3 0.03
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
ATAAATATATATAA
Found at i:2057591 original size:8 final size:8
Alignment explanation
Indices: 2057578--2057673 Score: 56
Period size: 8 Copynumber: 12.0 Consensus size: 8
2057568 TATAAATATA
2057578 ATATAAAT
1 ATATAAAT
2057586 ATATAAAT
1 ATATAAAT
2057594 ATATTAAAAT
1 ATA-T-AAAT
* **
2057604 TTATATTT
1 ATATAAAT
2057612 ATATAAAT
1 ATATAAAT
*
2057620 -TATTAAT
1 ATATAAAT
*
2057627 AAAT-AAT
1 ATATAAAT
2057634 AT-TAAGAT
1 ATATAA-AT
*
2057642 A-AAAAAT
1 ATATAAAT
2057649 AATATAAAT
1 -ATATAAAT
*
2057658 AAATAAAT
1 ATATAAAT
*
2057666 ACATAAAT
1 ATATAAAT
2057674 TATTAAAATT
Statistics
Matches: 67, Mismatches: 13, Indels: 16
0.70 0.14 0.17
Matches are distributed among these distances:
6 1 0.01
7 13 0.19
8 40 0.60
9 7 0.10
10 6 0.09
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:2057635 original size:26 final size:26
Alignment explanation
Indices: 2057585--2057636 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
2057575 ATAATATAAA
* *
2057585 TATATAAATATATTAAAATTTATATT
1 TATATAAATATATTAAAAATAATATT
2057611 TATATAAAT-TATTAATAAATAATATT
1 TATATAAATATATTAA-AAATAATATT
2057637 AAGATAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (26 bp):
TATATAAATATATTAAAAATAATATT
Found at i:2057643 original size:26 final size:26
Alignment explanation
Indices: 2057588--2057644 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
2057578 ATATAAATAT
* * * *
2057588 ATAAATATATTAAAATTTATATTTAT
1 ATAAATATATTAAAAATAATATTAAG
2057614 ATAAAT-TATTAATAAATAATATTAAG
1 ATAAATATATTAA-AAATAATATTAAG
2057640 ATAAA
1 ATAAA
2057645 AAATAATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
ATAAATATATTAAAAATAATATTAAG
Found at i:2057650 original size:18 final size:17
Alignment explanation
Indices: 2057624--2057666 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
2057614 ATAAATTATT
2057624 AATAAATAATATTAAGATA
1 AATAAATAATA-TAA-ATA
2057643 AA-AAATAATATAAATA
1 AATAAATAATATAAATA
2057659 AATAAATA
1 AATAAATA
2057667 CATAAATTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 5 0.22
17 8 0.35
18 8 0.35
19 2 0.09
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
AATAAATAATATAAATA
Found at i:2058975 original size:27 final size:27
Alignment explanation
Indices: 2058938--2059010 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
2058928 TCGATATAAG
*
2058938 TATATTAAAAAAATATAAATTTAT-TT
1 TATATTTAAAAAATATAAATTTATATT
*
2058964 ATATATTTAAAAAAT-TATATTTTATATT
1 -TATATTTAAAAAATATA-AATTTATATT
*
2058992 TATATTT-AAATATATAAAT
1 TATATTTAAAAAATATAAAT
2059011 ATTTAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
26 9 0.23
27 28 0.72
28 2 0.05
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TATATTTAAAAAATATAAATTTATATT
Found at i:2058978 original size:21 final size:21
Alignment explanation
Indices: 2058954--2058993 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
2058944 AAAAAAATAT
2058954 AAATT-TATTTATATATTTAAA
1 AAATTATATTT-TATATTTAAA
2058975 AAATTATATTTTATATTTA
1 AAATTATATTTTATATTTA
2058994 TATTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
AAATTATATTTTATATTTAAA
Found at i:2058991 original size:29 final size:27
Alignment explanation
Indices: 2058938--2059001 Score: 76
Period size: 28 Copynumber: 2.3 Consensus size: 27
2058928 TCGATATAAG
2058938 TATATTAAAAAAATATAAATTTATTTA
1 TATATTAAAAAAATATAAATTTATTTA
* **
2058965 TATATTTAAAAAATTATATTTTATATTTA
1 TATA-TTAAAAAAATATAAATT-TATTTA
2058994 TAT-TTAAA
1 TATATTAAA
2059002 TATATAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 9 0.28
28 14 0.44
29 9 0.28
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (27 bp):
TATATTAAAAAAATATAAATTTATTTA
Found at i:2060157 original size:32 final size:29
Alignment explanation
Indices: 2060095--2060201 Score: 76
Period size: 32 Copynumber: 3.6 Consensus size: 29
2060085 AAATATATAA
* *
2060095 ATATAATATAAATATATATTTTAAAATTT
1 ATATAAAATAAATATATATATTAAAATTT
*
2060124 ATATAAAATAAATTATTAATATATTAAATTTT
1 ATATAAAATAAA-TA-T-ATATATTAAAATTT
* * * * *
2060156 ATATTATATATATA-ATAT-TTTAAATATA
1 ATATAAAATAAATATATATATTAAAAT-TT
2060184 ATATGAAAA-AAATATATA
1 ATAT-AAAATAAATATATA
2060202 AACAACACGT
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
27 5 0.08
28 13 0.22
29 16 0.27
30 2 0.03
31 3 0.05
32 21 0.35
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (29 bp):
ATATAAAATAAATATATATATTAAAATTT
Found at i:2060166 original size:21 final size:20
Alignment explanation
Indices: 2060137--2060187 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 20
2060127 TAAAATAAAT
2060137 TATTAATATATTAA-ATTTTA
1 TATTAATATA-TAATATTTTA
2060157 TATTATATATATAATATTTTA
1 TATTA-ATATATAATATTTTA
*
2060178 AATATAATAT
1 TAT-TAATAT
2060188 GAAAAAAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 8 0.30
21 17 0.63
22 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTAATATATAATATTTTA
Found at i:2065109 original size:17 final size:18
Alignment explanation
Indices: 2065074--2065114 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
2065064 TATATATAAT
2065074 TTTAATAATAAATAAATA
1 TTTAATAATAAATAAATA
*
2065092 TTTAATAA-AAATATATA
1 TTTAATAATAAATAAATA
2065109 TTTAAT
1 TTTAAT
2065115 TAAGTAGTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 14 0.64
18 8 0.36
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTAATAATAAATAAATA
Found at i:2066420 original size:18 final size:19
Alignment explanation
Indices: 2066369--2066423 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
2066359 TAAAAGATAT
2066369 TTTTAAATATATATTATAAA
1 TTTTAAATA-ATATTATAAA
2066389 TTATT-AAT-ATATTA-AAA
1 TT-TTAAATAATATTATAAA
*
2066406 TTTTAAATAAAATTATAA
1 TTTTAAATAATATTATAA
2066424 TATAAAAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
16 2 0.07
17 8 0.27
18 11 0.37
19 2 0.07
20 5 0.17
21 2 0.07
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
TTTTAAATAATATTATAAA
Found at i:2066708 original size:15 final size:16
Alignment explanation
Indices: 2066688--2066721 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
2066678 AATTTTTATA
*
2066688 AATTTAAGTT-AATTT
1 AATTTAAATTAAATTT
2066703 AATTTAAATTAAATTT
1 AATTTAAATTAAATTT
2066719 AAT
1 AAT
2066722 AATTAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
AATTTAAATTAAATTT
Found at i:2067413 original size:24 final size:23
Alignment explanation
Indices: 2067364--2067409 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
2067354 TTATTTAATT
*
2067364 TATTAATATATATTTATTGTTTA
1 TATTAATATAAATTTATTGTTTA
2067387 TATTAAATATAAATTTATT-TTTA
1 TATT-AATATAAATTTATTGTTTA
2067410 ATATCTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
TATTAATATAAATTTATTGTTTA
Found at i:2071850 original size:1 final size:1
Alignment explanation
Indices: 2071846--2071870 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2071836 CTGCTTCCTC
2071846 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
2071871 AAAGTCATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:2074591 original size:13 final size:13
Alignment explanation
Indices: 2074573--2074601 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
2074563 ATAGATATAT
2074573 ATAATATTTGATA
1 ATAATATTTGATA
2074586 ATAATATTTGATA
1 ATAATATTTGATA
2074599 ATA
1 ATA
2074602 GAGATGGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
ATAATATTTGATA
Found at i:2075045 original size:2 final size:2
Alignment explanation
Indices: 2075038--2075081 Score: 61
Period size: 2 Copynumber: 22.0 Consensus size: 2
2075028 GTTATACTTC
* * *
2075038 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TG TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2075080 TA
1 TA
2075082 CATGCTAACG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2081447 original size:33 final size:35
Alignment explanation
Indices: 2081372--2081461 Score: 91
Period size: 33 Copynumber: 2.7 Consensus size: 35
2081362 ATGACTACAC
*
2081372 AAATAA-AAAAAT-TATAAATTATTAATATATTAA
1 AAATAATATAAATATATAAATTATTAATATATTAA
* *
2081405 AATTTATATAAATATATAAAATT-TTAA-ATA-TAA
1 AAATAATATAAATATAT-AAATTATTAATATATTAA
* *
2081438 AAATAATATAAATAAATGAATTAT
1 AAATAATATAAATATATAAATTAT
2081462 AAATTTTGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
32 4 0.09
33 22 0.48
34 8 0.17
35 7 0.15
36 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (35 bp):
AAATAATATAAATATATAAATTATTAATATATTAA
Found at i:2082426 original size:21 final size:21
Alignment explanation
Indices: 2082401--2082443 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
2082391 AATTTTTATT
2082401 TAAAT-TTAATTATAAAATATA
1 TAAATATTAA-TATAAAATATA
2082422 TAAATATTAATATAAAATATA
1 TAAATATTAATATAAAATATA
2082443 T
1 T
2082444 TTTTAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTAATATAAAATATA
Found at i:2083600 original size:13 final size:12
Alignment explanation
Indices: 2083582--2083666 Score: 50
Period size: 15 Copynumber: 6.7 Consensus size: 12
2083572 TCAGGTACGA
2083582 TTATATAAATATT
1 TTATATAAA-ATT
2083595 TTATAT-AAA-T
1 TTATATAAAATT
* *
2083605 TAAT-TAAAATA
1 TTATATAAAATT
2083616 TTATATAAATATT
1 TTATATAAA-ATT
2083629 TTAATATATAAATT
1 TT-ATATA-AAATT
2083643 ATTAATATAATAATAT
1 -TT-ATATAA-AAT-T
*
2083659 TTAAATAA
1 TTATATAA
2083667 TATAAATATT
Statistics
Matches: 58, Mismatches: 5, Indels: 17
0.73 0.06 0.21
Matches are distributed among these distances:
9 1 0.02
10 7 0.12
11 4 0.07
12 6 0.10
13 10 0.17
14 14 0.24
15 15 0.26
16 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTATATAAAATT
Found at i:2083637 original size:21 final size:21
Alignment explanation
Indices: 2083589--2083651 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
2083579 CGATTATATA
*
2083589 AATATTTTATATAAATTAATT
1 AATATATTATATAAATTAATT
*
2083610 AAAATATTATATAAA-T-ATT
1 AATATATTATATAAATTAATT
*
2083629 --T-TAATATATAAATT-ATT
1 AATATATTATATAAATTAATT
2083646 AATATA
1 AATATA
2083652 ATAATATTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
16 10 0.29
17 4 0.12
19 4 0.12
20 3 0.09
21 13 0.38
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATATATTATATAAATTAATT
Found at i:2083650 original size:34 final size:33
Alignment explanation
Indices: 2083581--2083673 Score: 102
Period size: 34 Copynumber: 2.8 Consensus size: 33
2083571 GTCAGGTACG
* *
2083581 ATTATATAAATATTTTATATAAATTAATTAAAAT
1 ATTATATAAATATTTTA-ATATATAAATTAAAAT
*
2083615 ATTATATAAATATTTTAATATATAAATTATTAAT
1 ATTATATAAATATTTTAATATATAAATTA-AAAT
*
2083649 A-TA-AT-AATATTTAAATAATATAAAT
1 ATTATATAAATATTTTAAT-ATATAAAT
2083674 ATTTTAAATA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
31 10 0.19
32 10 0.19
33 12 0.23
34 21 0.40
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
ATTATATAAATATTTTAATATATAAATTAAAAT
Found at i:2083712 original size:48 final size:48
Alignment explanation
Indices: 2083618--2083713 Score: 108
Period size: 48 Copynumber: 2.0 Consensus size: 48
2083608 TTAAAATATT
* * **
2083618 ATATAAATATTTTAATATATAAATTATTAATATAATAATATTTAAATA
1 ATATAAATATTTTAATATATAAATTATTAAAATAATAAAAAATAAATA
2083666 ATATAAATATTTTAA-ATAT-AATTATCATAAAA-ATATAAAAAATAAATA
1 ATATAAATATTTTAATATATAAATTAT--TAAAATA-ATAAAAAATAAATA
2083714 TAAAATTCCT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
46 6 0.15
47 5 0.12
48 30 0.73
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (48 bp):
ATATAAATATTTTAATATATAAATTATTAAAATAATAAAAAATAAATA
Found at i:2084386 original size:32 final size:32
Alignment explanation
Indices: 2084326--2084386 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
2084316 TTATTAATTT
* * *
2084326 ATATAAATATAAAATTTTTAAATATAATTATA
1 ATATAAAAATAAAATTATGAAATATAATTATA
*
2084358 ATATAAAAATAAAATTATGAAATCTAATT
1 ATATAAAAATAAAATTATGAAATATAATT
2084387 CAATGTTTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (32 bp):
ATATAAAAATAAAATTATGAAATATAATTATA
Found at i:2084744 original size:17 final size:17
Alignment explanation
Indices: 2084722--2084767 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
2084712 TAAAAAATTA
2084722 ATTTAATAAATTTAAAT
1 ATTTAATAAATTTAAAT
** *
2084739 ATTTAATTTATTTGAAT
1 ATTTAATAAATTTAAAT
*
2084756 ATTTAATGAATT
1 ATTTAATAAATT
2084768 CTATTTAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (17 bp):
ATTTAATAAATTTAAAT
Found at i:2086732 original size:13 final size:14
Alignment explanation
Indices: 2086714--2086742 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
2086704 TAATTATATT
2086714 ATTAATTTTA-AAA
1 ATTAATTTTATAAA
2086727 ATTAATTTTATAAA
1 ATTAATTTTATAAA
2086741 AT
1 AT
2086743 ATTAATTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTAATTTTATAAA
Found at i:2086885 original size:2 final size:2
Alignment explanation
Indices: 2086880--2086913 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
2086870 AAACATGTTA
*
2086880 AG AG AG AG AG AG AG AA AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
2086914 CAATTGGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:2087600 original size:17 final size:17
Alignment explanation
Indices: 2087557--2087620 Score: 53
Period size: 17 Copynumber: 3.9 Consensus size: 17
2087547 TGACGTAATG
*
2087557 TTTTAATTTATAAT-TT
1 TTTTAATTAATAATATT
**
2087573 TATTTTTTTAATAATATT
1 T-TTTAATTAATAATATT
*
2087591 TTTTAATTAATTATA-T
1 TTTTAATTAATAATATT
*
2087607 TTATAATT-ATAATA
1 TTTTAATTAATAATA
2087621 AATATGAAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 5
0.75 0.16 0.10
Matches are distributed among these distances:
15 5 0.13
16 9 0.24
17 21 0.55
18 3 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
TTTTAATTAATAATATT
Found at i:2093802 original size:15 final size:16
Alignment explanation
Indices: 2093767--2093806 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
2093757 TTATTTAATT
2093767 AAATAAATTCAAAAAC
1 AAATAAATTCAAAAAC
*
2093783 AAATAAATT-AAAATC
1 AAATAAATTCAAAAAC
*
2093798 GAATAAATT
1 AAATAAATT
2093807 GAATTTGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 13 0.59
16 9 0.41
ACGTcount: A:0.65, C:0.07, G:0.03, T:0.25
Consensus pattern (16 bp):
AAATAAATTCAAAAAC
Found at i:2095751 original size:2 final size:2
Alignment explanation
Indices: 2095744--2095771 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
2095734 CAGAATGAAA
2095744 AT 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 AT
2095772 TGATTTATGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2096160 original size:12 final size:13
Alignment explanation
Indices: 2096121--2096161 Score: 50
Period size: 12 Copynumber: 3.2 Consensus size: 13
2096111 TTCAGGTTAT
2096121 AATAATAATAATAA
1 AATAATAA-AATAA
*
2096135 AAT-CTAAAATAA
1 AATAATAAAATAA
2096147 AATAATAAAA-AA
1 AATAATAAAATAA
2096159 AAT
1 AAT
2096162 GAAAAGATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
12 13 0.54
13 8 0.33
14 3 0.12
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (13 bp):
AATAATAAAATAA
Found at i:2100947 original size:14 final size:16
Alignment explanation
Indices: 2100913--2100949 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
2100903 AGATATTAAA
2100913 ATTAAATCACATATTT
1 ATTAAATCACATATTT
2100929 ATTAAAT-AC-TATTT
1 ATTAAATCACATATTT
*
2100943 TTTAAAT
1 ATTAAAT
2100950 TTTTTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 11 0.55
15 2 0.10
16 7 0.35
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (16 bp):
ATTAAATCACATATTT
Found at i:2103235 original size:2 final size:2
Alignment explanation
Indices: 2103228--2103260 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
2103218 TTCCTTGATT
*
2103228 TC TC TC TC TC TT TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
2103261 AGAAGAGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:2104232 original size:11 final size:11
Alignment explanation
Indices: 2104216--2104254 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
2104206 TTTTTTAAAA
2104216 AAATATTTAAT
1 AAATATTTAAT
2104227 AAATATTTAAT
1 AAATATTTAAT
*
2104238 AAAT-TTTTAT
1 AAATATTTAAT
2104248 AAATATT
1 AAATATT
2104255 GATAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
AAATATTTAAT
Found at i:2104715 original size:12 final size:13
Alignment explanation
Indices: 2104698--2104731 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
2104688 TGTAAGTTTC
*
2104698 AAAAATTAT-ATT
1 AAAAATAATAATT
2104710 AAAAATAATAATT
1 AAAAATAATAATT
2104723 AAAAATAAT
1 AAAAATAAT
2104732 TATTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAATAATAATT
Found at i:2104780 original size:19 final size:19
Alignment explanation
Indices: 2104750--2104819 Score: 61
Period size: 19 Copynumber: 3.6 Consensus size: 19
2104740 AAAAATAAAA
2104750 TTATTAATTATTTATTTATT
1 TTATT-ATTATTTATTTATT
2104770 TTATTATTA-TTATTTAATT
1 TTATTATTATTTATTT-ATT
* * **
2104789 TTAATATATATATATAAATT
1 TTATTAT-TATTTATTTATT
*
2104809 TTATTGTTATT
1 TTATTATTATT
2104820 ATAAATAATG
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
18 6 0.15
19 16 0.40
20 15 0.38
21 3 0.08
ACGTcount: A:0.34, C:0.00, G:0.01, T:0.64
Consensus pattern (19 bp):
TTATTATTATTTATTTATT
Found at i:2104856 original size:16 final size:16
Alignment explanation
Indices: 2104837--2104918 Score: 62
Period size: 16 Copynumber: 5.2 Consensus size: 16
2104827 ATGTCAAATC
*
2104837 AAAATAATTTATTTTT
1 AAAATAATTTAATTTT
*
2104853 AAAATATTTTAAATTTT
1 AAAATAATTT-AATTTT
*
2104870 --AATAATTTAAATTT
1 AAAATAATTTAATTTT
* * *
2104884 AAAATAATATGA-TTA
1 AAAATAATTTAATTTT
*
2104899 AAAATAATTTTAATATT
1 AAAATAA-TTTAATTTT
2104916 AAA
1 AAA
2104919 TTTAAAAAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
14 5 0.10
15 16 0.32
16 20 0.40
17 9 0.18
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.46
Consensus pattern (16 bp):
AAAATAATTTAATTTT
Found at i:2105234 original size:28 final size:31
Alignment explanation
Indices: 2105164--2105238 Score: 86
Period size: 27 Copynumber: 2.5 Consensus size: 31
2105154 TTTGATATAT
2105164 TAATAATATATAAATATATATTAAAATTTTTAA
1 TAATAATATAT-AA-ATATATTAAAATTTTTAA
* *
2105197 AAATAA-ATATAAATA-ATT-CAA-TTTTAA
1 TAATAATATATAAATATATTAAAATTTTTAA
2105224 TAATAATATATAAAT
1 TAATAATATATAAAT
2105239 TTATAAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
27 11 0.29
28 10 0.26
29 3 0.08
30 3 0.08
31 2 0.05
32 4 0.11
33 5 0.13
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (31 bp):
TAATAATATATAAATATATTAAAATTTTTAA
Found at i:2105247 original size:28 final size:29
Alignment explanation
Indices: 2105164--2105253 Score: 87
Period size: 28 Copynumber: 3.0 Consensus size: 29
2105154 TTTGATATAT
2105164 TAATAATATATAAATATATATTAAAATTTTTAA
1 TAATAATATATAAAT-T-TATT-AAA-TTTTAA
* * *
2105197 AAATAA-ATATAAA-TAATTCAATTTTAA
1 TAATAATATATAAATTTATTAAATTTTAA
2105224 TAATAATATATAAATTTA-TAAATTATTAA
1 TAATAATATATAAATTTATTAAATT-TTAA
2105253 T
1 T
2105254 TTATTAAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
27 11 0.23
28 14 0.29
29 10 0.21
30 1 0.02
32 7 0.15
33 5 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (29 bp):
TAATAATATATAAATTTATTAAATTTTAA
Found at i:2109021 original size:19 final size:17
Alignment explanation
Indices: 2108997--2109039 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 17
2108987 ATTTAATATA
*
2108997 TTATATATTTATAAAGTTT
1 TTATATATTAAT-AA-TTT
2109016 TTATATATTAATAATTT
1 TTATATATTAATAATTT
2109033 TTATATA
1 TTATATA
2109040 AATTTTAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.43
18 2 0.09
19 11 0.48
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (17 bp):
TTATATATTAATAATTT
Found at i:2119882 original size:20 final size:21
Alignment explanation
Indices: 2119850--2119888 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
2119840 ATTTAAAAAA
*
2119850 TAAATATAAATAATTTTATTT
1 TAAATATAAATAATATTATTT
2119871 TAAATA-AAATAATATTAT
1 TAAATATAAATAATATTAT
2119889 ATAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TAAATATAAATAATATTATTT
Found at i:2120168 original size:2 final size:2
Alignment explanation
Indices: 2120161--2120186 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
2120151 CATTCATCTT
2120161 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
2120187 AAATGGGAAT
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):
TA
Found at i:2121594 original size:15 final size:15
Alignment explanation
Indices: 2121574--2121602 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
2121564 ATATATTCAA
2121574 GCACTATTAGGTAAG
1 GCACTATTAGGTAAG
2121589 GCACTATTAGGTAA
1 GCACTATTAGGTAA
2121603 CGTTAGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (15 bp):
GCACTATTAGGTAAG
Found at i:2124055 original size:11 final size:12
Alignment explanation
Indices: 2124034--2124065 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
2124024 TATATGATAA
2124034 AAAATATAATAT
1 AAAATATAATAT
2124046 AAAA-ATAATAT
1 AAAATATAATAT
2124057 AAAATATAA
1 AAAATATAA
2124066 ATATTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 11 0.58
12 8 0.42
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
AAAATATAATAT
Done.