Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 8 of 147
Found at i:1551033 original size:18 final size:19
Alignment explanation
Indices: 1550999--1551036 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
1550989 CTTGAATTAT
1550999 AAATTTATTAATTAATATG
1 AAATTTATTAATTAATATG
*
1551018 AAATTTATT-TTTAATATG
1 AAATTTATTAATTAATATG
1551036 A
1 A
1551037 TTAGTTTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (19 bp):
AAATTTATTAATTAATATG
Found at i:1555080 original size:25 final size:25
Alignment explanation
Indices: 1555052--1555102 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
1555042 TTTTAAAAAT
1555052 AAAT-TTTATATATTAAAATATTAAA
1 AAATATTT-TATATTAAAATATTAAA
* * *
1555077 AAATATTTTTTATTAATATTTTAAA
1 AAATATTTTATATTAAAATATTAAA
1555102 A
1 A
1555103 TAAAAATTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 19 0.86
26 3 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AAATATTTTATATTAAAATATTAAA
Found at i:1556650 original size:26 final size:25
Alignment explanation
Indices: 1556620--1556691 Score: 110
Period size: 26 Copynumber: 2.8 Consensus size: 25
1556610 GATCGAGTTC
1556620 GAGTCAAGTTTTGAACATCGAATTTG
1 GAGTCAAG-TTTGAACATCGAATTTG
1556646 GAGTCAAGCTTTGAACATCGAATTTG
1 GAGTCAAG-TTTGAACATCGAATTTG
*
1556672 GAGTCAAGCTTGAAC-TCGAA
1 GAGTCAAGTTTGAACATCGAA
1556692 CTTAAAACTG
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
24 5 0.11
25 6 0.14
26 33 0.75
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (25 bp):
GAGTCAAGTTTGAACATCGAATTTG
Found at i:1558945 original size:2 final size:2
Alignment explanation
Indices: 1558938--1558962 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1558928 GCGAAAATTG
1558938 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 A
1558963 CACATACATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1558971 original size:4 final size:4
Alignment explanation
Indices: 1558964--1558990 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
1558954 ATATATATAC
1558964 ACAT ACAT ACAT ACAT ACAT ACAT ACA
1 ACAT ACAT ACAT ACAT ACAT ACAT ACA
1558991 CACACACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.52, C:0.26, G:0.00, T:0.22
Consensus pattern (4 bp):
ACAT
Found at i:1561365 original size:3 final size:3
Alignment explanation
Indices: 1561357--1561415 Score: 118
Period size: 3 Copynumber: 19.7 Consensus size: 3
1561347 CATATAACCC
1561357 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1561405 ATA ATA ATA AT
1 ATA ATA ATA AT
1561416 CCTCTAAGAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 56 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:1569259 original size:12 final size:12
Alignment explanation
Indices: 1569238--1569309 Score: 51
Period size: 12 Copynumber: 6.0 Consensus size: 12
1569228 ATCAAATTTG
*
1569238 ATAATTTAAAAT
1 ATAATATAAAAT
*
1569250 ATAATATAAAAA
1 ATAATATAAAAT
*
1569262 ATAATTTAAAAAT
1 ATAATAT-AAAAT
*
1569275 GATACATTTAAAAT
1 -ATA-ATATAAAAT
*
1569289 TTAATA-AAAAT
1 ATAATATAAAAT
1569300 A-AATA-AAAAT
1 ATAATATAAAAT
1569310 TTTATAATTT
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
10 9 0.18
11 5 0.10
12 18 0.36
13 6 0.12
14 8 0.16
15 4 0.08
ACGTcount: A:0.64, C:0.01, G:0.01, T:0.33
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:1569935 original size:48 final size:48
Alignment explanation
Indices: 1569867--1569994 Score: 220
Period size: 48 Copynumber: 2.7 Consensus size: 48
1569857 TTCACCTCCT
* *
1569867 CCACCTTATGAGTACAAGTCACCTCCACCACCGTCTCCTTCTCCACCA
1 CCACCTTATGAGTACAAGTCACCTCCACCACCCTCGCCTTCTCCACCA
1569915 CCACCTTATGAGTACAAGTCACCTCCACCACCCTCGCCTTCTCCACCA
1 CCACCTTATGAGTACAAGTCACCTCCACCACCCTCGCCTTCTCCACCA
* *
1569963 CCACCTTATGAGTACAAGTCCCCACCACCACC
1 CCACCTTATGAGTACAAGTCACCTCCACCACC
1569995 ACCAAAACAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 76 1.00
ACGTcount: A:0.24, C:0.47, G:0.09, T:0.20
Consensus pattern (48 bp):
CCACCTTATGAGTACAAGTCACCTCCACCACCCTCGCCTTCTCCACCA
Found at i:1570066 original size:48 final size:48
Alignment explanation
Indices: 1570014--1570574 Score: 681
Period size: 48 Copynumber: 11.7 Consensus size: 48
1570004 AGAAGAGAGC
* *
1570014 CCTCCATACTACTATAAATCTCCACCACCTCCATCTCCATCACCACCT
1 CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
* * * * *
1570062 CCTCCATACTATTACAAGTCTCCACCACCTCCTTCACCATCACCCCCA
1 CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
* * *
1570110 CCTCCATACTACTACAAGTCTCCACCACCTCCATCCCCATCTCCACCT
1 CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
* * * * *
1570158 CCTCCGTATTACTACAAGTCTCCACCACCTCCATCTCCATCCCCACCT
1 CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
* * *
1570206 CCTCCATACTACTACAAGTCTCCTCCACCTCCATCTCCATCACCACCT
1 CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
* * * * * *
1570254 CCTCCTTACTACTATAAATCCCCACCACCTCCTTCACCATCGCCACCA
1 CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
* * * *
1570302 CATCCATACTACTACAAGTCCCCACCACCTCCATCTCCATCACCACCT
1 CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
* * *
1570350 CATCCATACTATTACAAATCTCCACCACCTCCATCACCCTCACCACCT
1 CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
* * * * * *
1570398 CCTCCTTACTACTATAAATCCCCACCACCTCCTTCACCATCGCCACCA
1 CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
* * * *
1570446 CATCCATACTACTACAAGTCCCCACCACCTCCATCTCCATCACCACCT
1 CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
* * * *
1570494 CATCCATACTATTACAAATCTCCACCACCTCCATCACCCTCACCACCG
1 CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
* * * *
1570542 CCACCTTATTACTACAAATCCCCACCACCTCCA
1 CCTCCATACTACTACAAATCTCCACCACCTCCA
1570575 GTAAAGTCTC
Statistics
Matches: 441, Mismatches: 72, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 441 1.00
ACGTcount: A:0.26, C:0.50, G:0.02, T:0.23
Consensus pattern (48 bp):
CCTCCATACTACTACAAATCTCCACCACCTCCATCACCATCACCACCT
Found at i:1570153 original size:21 final size:21
Alignment explanation
Indices: 1570031--1570258 Score: 87
Period size: 21 Copynumber: 9.7 Consensus size: 21
1570021 ACTACTATAA
*
1570031 ATCTCCACCACCTCCATCTCC
1 ATCTCCACCACCTCCATCACC
* * *
1570052 ATCACCACCTCCTCCATACTATTACA
1 ATCTCCACCACCTCCAT-C----ACC
*
1570078 AGTCTCCACCACCTCCTTCACC
1 A-TCTCCACCACCTCCATCACC
* *
1570100 ATCACCCCCACCTCCATACTACTAC
1 ATCTCCACCACCTCCAT-C-AC--C
*
1570125 AAGTCTCCACCACCTCCATCCCC
1 -A-TCTCCACCACCTCCATCACC
* *
1570148 ATCTCCACCTCCTCCGTATTACTACA
1 ATCTCCACCACCTCC--A-T-C-ACC
*
1570174 AGTCTCCACCACCTCCATCTCC
1 A-TCTCCACCACCTCCATCACC
* *
1570196 ATCCCCACCTCCTCCATACTACTAC
1 ATCTCCACCACCTCCAT-C-AC--C
* *
1570221 AAGTCTCCTCCACCTCCATCTCC
1 -A-TCTCCACCACCTCCATCACC
* *
1570244 ATCACCACCTCCTCC
1 ATCTCCACCACCTCC
1570259 TTACTACTAT
Statistics
Matches: 153, Mismatches: 30, Indels: 48
0.66 0.13 0.21
Matches are distributed among these distances:
21 66 0.43
22 10 0.07
23 7 0.05
24 2 0.01
25 6 0.04
26 9 0.06
27 53 0.35
ACGTcount: A:0.22, C:0.52, G:0.02, T:0.24
Consensus pattern (21 bp):
ATCTCCACCACCTCCATCACC
Found at i:1570171 original size:144 final size:144
Alignment explanation
Indices: 1570014--1570720 Score: 823
Period size: 144 Copynumber: 4.9 Consensus size: 144
1570004 AGAAGAGAGC
* * *
1570014 CCTCCATACTACTATAAATCTCCACCACCTCCATCTCCATCACCACCTCCTCCATACTATTACAA
1 CCTCCATACTACTACAAGTCTCCACCACCTCCATCTCCATCACCACCTCATCCATACTATTACAA
* * * * *
1570079 GTCTCCACCACCTCCTTCACCATCACCCCCACCTCCATACTACTACAAGTCTCCACCACCTCCAT
66 GTCTCCACCACCTCCATCACCATCACCACCACCTCCTTACTACTACAAATCCCCACCACCTCCAT
* * *
1570144 CCCCATCTCCACCT
131 CACCATCGCCACCA
* * * * *
1570158 CCTCCGTATTACTACAAGTCTCCACCACCTCCATCTCCATCCCCACCTCCTCCATACTACTACAA
1 CCTCCATACTACTACAAGTCTCCACCACCTCCATCTCCATCACCACCTCATCCATACTATTACAA
* * * * *
1570223 GTCTCCTCCACCTCCATCTCCATCACCACCTCCTCCTTACTACTATAAATCCCCACCACCTCCTT
66 GTCTCCACCACCTCCATCACCATCACCACCACCTCCTTACTACTACAAATCCCCACCACCTCCAT
1570288 CACCATCGCCACCA
131 CACCATCGCCACCA
* *
1570302 CATCCATACTACTACAAGTCCCCACCACCTCCATCTCCATCACCACCTCATCCATACTATTACAA
1 CCTCCATACTACTACAAGTCTCCACCACCTCCATCTCCATCACCACCTCATCCATACTATTACAA
* * * * *
1570367 ATCTCCACCACCTCCATCACCCTCACCACCTCCTCCTTACTACTATAAATCCCCACCACCTCCTT
66 GTCTCCACCACCTCCATCACCATCACCACCACCTCCTTACTACTACAAATCCCCACCACCTCCAT
1570432 CACCATCGCCACCA
131 CACCATCGCCACCA
* *
1570446 CATCCATACTACTACAAGTCCCCACCACCTCCATCTCCATCACCACCTCATCCATACTATTACAA
1 CCTCCATACTACTACAAGTCTCCACCACCTCCATCTCCATCACCACCTCATCCATACTATTACAA
* * * * *
1570511 ATCTCCACCACCTCCATCACCCTCACCACCGCCACCTTATTACTACAAATCCCCACCACCTCCAG
66 GTCTCCACCACCTCCATCACCATCACCACCACCTCCTTACTACTACAAATCCCCACCACCTCCA-
* * *
1570576 T-A-AAGTCTCCTCCA
130 TCACCA-TCGCCACCA
* * * * * * * * * * * *
1570590 CCACCATATTATTATAAGTCTCCCCCACCACCTTCACCATCTCCTCCACGA-CCTTACTATTACA
1 CCTCCATACTACTACAAGTCTCCACCACCTCCATCTCCATCACCACCTC-ATCCATACTATTACA
* * * * *
1570654 AGTCTCCACCACCTCC-TC-CACATCA-CATTTCACCACCATACTACTACAAATCGCCACCACCA
65 AGTCTCCACCACCTCCATCAC-CATCACCA--CCACCTCCTTACTACTACAAATCCCCACCACCT
1570716 CCATC
127 CCATC
1570721 TAAATCTCCT
Statistics
Matches: 496, Mismatches: 60, Indels: 14
0.87 0.11 0.02
Matches are distributed among these distances:
142 3 0.01
143 8 0.02
144 483 0.97
145 2 0.00
ACGTcount: A:0.26, C:0.48, G:0.02, T:0.23
Consensus pattern (144 bp):
CCTCCATACTACTACAAGTCTCCACCACCTCCATCTCCATCACCACCTCATCCATACTATTACAA
GTCTCCACCACCTCCATCACCATCACCACCACCTCCTTACTACTACAAATCCCCACCACCTCCAT
CACCATCGCCACCA
Found at i:1570597 original size:96 final size:96
Alignment explanation
Indices: 1570017--1570720 Score: 586
Period size: 96 Copynumber: 7.3 Consensus size: 96
1570007 AGAGAGCCCT
* * * * *
1570017 CCATACTACTATAAATCTCCACCACCTCCATCTCCATCACCACCTCCTCCATACTATTACAAGTC
1 CCATACTACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCACCATACTACTACAAGTC
* * *
1570082 TCCACCACCTCC-TTCACCATCACCCCCACCT
66 TCCACCACCTCCACTCA-CATCACCACCACCA
* * * * *
1570113 CCATACTACTACAAGTCTCCACCACCTCCATCCCCATCTCCACCTCCTCCGTATTACTACAAGTC
1 CCATACTACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCACCATACTACTACAAGTC
* * *
1570178 TCCACCACCTCCATCTC-CATCCCCACCTCCT
66 TCCACCACCTCCA-CTCACATCACCACCACCA
* * * * * *
1570209 CCATACTACTACAAGTCTCCTCCACCTCCATCTCCATCACCACCTCCTCCTTACTACTATAAATC
1 CCATACTACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCACCATACTACTACAAGTC
* * *
1570274 CCCACCACCTCC-TTCACCATCGCCACCA-CA
66 TCCACCACCTCCACTCA-CATCACCACCACCA
* * * *
1570304 TCCATACTACTACAAGTCCCCACCACCTCCATCTCCATCACCACCT-CATCCATACTATTACAAA
1 -CCATACTACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCA-CCATACTACTACAAG
* * *
1570368 TCTCCACCACCTCCA-TCACCCTCACCACCTCCT
64 TCTCCACCACCTCCACTCA-CATCACCACCACCA
* * * * * * *
1570401 CCTTACTACTATAAATCCCCACCACCTCCTTCACCATCGCCACC-ACATCCATACTACTACAAGT
1 CCATACTACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCA-CCATACTACTACAAGT
* *
1570465 CCCCACCACCTCCATCTC-CATCACCACC-TCA
65 CTCCACCACCTCCA-CTCACATCACCACCACCA
* * * * * * *
1570496 TCCATACTATTACAAATCTCCACCACCTCCATCACCCTCACCACCGCCACCTTATTACTACAAAT
1 -CCATACTACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCACCATACTACTACAAGT
* * * * *
1570561 CCCCACCACCTCCAGT-AAAGTCTCCTCCACCA
65 CTCCACCACCTCCACTCACA-TCACCACCACCA
* * * * * * * * * * * *
1570593 CCATATTATTATAAGTCTCCCCCACCACCTTCACCATCTCCTCCACGACCTTACTATTACAAGTC
1 CCATACTACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCACCATACTACTACAAGTC
* *
1570658 TCCACCACCTCCTC-CACATCA-CATTTCACCA
66 TCCACCACCTCCACTCACATCACCA--CCACCA
* * *
1570689 CCATACTACTACAAATCGCCACCACCACCATC
1 CCATACTACTACAAGTCTCCACCACCTCCATC
1570721 TAAATCTCCT
Statistics
Matches: 499, Mismatches: 90, Indels: 38
0.80 0.14 0.06
Matches are distributed among these distances:
94 3 0.01
95 7 0.01
96 480 0.96
97 5 0.01
98 4 0.01
ACGTcount: A:0.26, C:0.48, G:0.02, T:0.23
Consensus pattern (96 bp):
CCATACTACTACAAGTCTCCACCACCTCCATCACCATCACCACCTCCACCATACTACTACAAGTC
TCCACCACCTCCACTCACATCACCACCACCA
Found at i:1570696 original size:48 final size:48
Alignment explanation
Indices: 1570017--1570717 Score: 291
Period size: 48 Copynumber: 14.6 Consensus size: 48
1570007 AGAGAGCCCT
* * * * * * * *
1570017 CCATACTACTATAAATCTCCACCACCTCCAT-CTCCATCACCACCTCCT
1 CCATACTATTACAAGTCTCCACCACCACC-TCCACCATCACCTCCACCA
* * * *
1570065 CCATACTATTACAAGTCTCCACCACCTCCTTCACCATCACCCCCACCT
1 CCATACTATTACAAGTCTCCACCACCACCTCCACCATCACCTCCACCA
* * * * * *
1570113 CCATACTACTACAAGTCTCCACCACCTCCATCC-CCATCTCCACCTCCT
1 CCATACTATTACAAGTCTCCACCACCACC-TCCACCATCACCTCCACCA
* * * * * * * * *
1570161 CCGTATTACTACAAGTCTCCACCACCTCCAT-CTCCATCCCCACCTCCT
1 CCATACTATTACAAGTCTCCACCACCACC-TCCACCATCACCTCCACCA
* * * * * * *
1570209 CCATACTACTACAAGTCTCCTCCACCTCCAT-CTCCATCACCACCTCCT
1 CCATACTATTACAAGTCTCCACCACCACC-TCCACCATCACCTCCACCA
* * * * * * * * *
1570257 CCTTACTACTATAAATCCCCACCACCTCCTTCACCATCGCCACCA-CA
1 CCATACTATTACAAGTCTCCACCACCACCTCCACCATCACCTCCACCA
* * * * * *
1570304 TCCATACTACTACAAGTCCCCACCACCTCCAT-CTCCATCACCACC-TCA
1 -CCATACTATTACAAGTCTCCACCACCACC-TCCACCATCACCTCCACCA
* * * * * *
1570352 TCCATACTATTACAAATCTCCACCACCTCCAT-CACCCTCACCACCTCCT
1 -CCATACTATTACAAGTCTCCACCACCACC-TCCACCATCACCTCCACCA
* * * * * * * * *
1570401 CCTTACTACTATAAATCCCCACCACCTCCTTCACCATCGCCACCA-CA
1 CCATACTATTACAAGTCTCCACCACCACCTCCACCATCACCTCCACCA
* * * * * *
1570448 TCCATACTACTACAAGTCCCCACCACCTCCAT-CTCCATCACCACC-TCA
1 -CCATACTATTACAAGTCTCCACCACCACC-TCCACCATCACCTCCACCA
* * * * *
1570496 TCCATACTATTACAAATCTCCACCACCTCCAT-CACCCTCACCACCGCCA
1 -CCATACTATTACAAGTCTCCACCACCACC-TCCACCATCACCTCCACCA
* * * * ** *
1570545 CCTTATTACTACAA--ATCC-CCACCACCTCCAGTAAAGTCTCCTCCACCA
1 CCATACTATTACAAGTCTCCACCACCACCTCCA--CCA-TCACCTCCACCA
* * * * * *
1570593 CCATATTATTATAAGTCTCCCCCACCACCTTCACCATCTCCTCCACGA
1 CCATACTATTACAAGTCTCCACCACCACCTCCACCATCACCTCCACCA
* * * *
1570641 CCTTACTATTACAAGTCTCCACCACCTCCTCCA-CATCACATTTCACCA
1 CCATACTATTACAAGTCTCCACCACCACCTCCACCATCAC-CTCCACCA
* * *
1570689 CCATACTACTACAAATCGCCACCACCACC
1 CCATACTATTACAAGTCTCCACCACCACC
1570718 ATCTAAATCT
Statistics
Matches: 540, Mismatches: 92, Indels: 42
0.80 0.14 0.06
Matches are distributed among these distances:
44 1 0.00
45 9 0.02
46 3 0.01
47 11 0.02
48 494 0.91
49 8 0.01
50 3 0.01
51 11 0.02
ACGTcount: A:0.26, C:0.48, G:0.02, T:0.23
Consensus pattern (48 bp):
CCATACTATTACAAGTCTCCACCACCACCTCCACCATCACCTCCACCA
Found at i:1571686 original size:36 final size:36
Alignment explanation
Indices: 1571609--1571704 Score: 104
Period size: 36 Copynumber: 2.7 Consensus size: 36
1571599 CACCATACTA
* * *
1571609 CTACAAGTCCCCACCACCACCACCTCCGACTTACAT
1 CTACAAGTCACCACCACCACCACCTCCCACCTACAT
* *
1571645 CTACAAATCACCACCACCACCAACC-CCCACCTATAT
1 CTACAAGTCACCACCACCACC-ACCTCCCACCTACAT
* * *
1571681 TTACAAGTCACCACCGCCTCCACC
1 CTACAAGTCACCACCACCACCACC
1571705 ATACTACTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
35 3 0.06
36 44 0.88
37 3 0.06
ACGTcount: A:0.30, C:0.50, G:0.04, T:0.16
Consensus pattern (36 bp):
CTACAAGTCACCACCACCACCACCTCCCACCTACAT
Found at i:1571732 original size:27 final size:27
Alignment explanation
Indices: 1571700--1571999 Score: 124
Period size: 27 Copynumber: 12.2 Consensus size: 27
1571690 ACCACCGCCT
*
1571700 CCACCATACTACTATAAATCCCCACCA
1 CCACCATACTACTACAAATCCCCACCA
* * *
1571727 CCACC--AGT-C--C-ATTCTCCACCA
1 CCACCATACTACTACAAATCCCCACCA
* *
1571748 CTACCATACTATTACAAATCCCCACCA
1 CCACCATACTACTACAAATCCCCACCA
*
1571775 CCACCATACTACTACAAATCGCCACCA
1 CCACCATACTACTACAAATCCCCACCA
* * *
1571802 CCTCC-T--T-C-AC-CATCTCCACCA
1 CCACCATACTACTACAAATCCCCACCA
* *
1571823 CCACCATATTACTACAAGTCCCCACCA
1 CCACCATACTACTACAAATCCCCACCA
* *
1571850 CCACCAGT-C--C-AC---TCTCCACCC
1 CCACCA-TACTACTACAAATCCCCACCA
* * * *
1571871 CCACCATACTATTACAAGTCTCCACCG
1 CCACCATACTACTACAAATCCCCACCA
*
1571898 CCACCAGT-CTA-T-----TCCCCTCCA
1 CCACCA-TACTACTACAAATCCCCACCA
1571919 CCACCATACTACTACAAAT---CACCA
1 CCACCATACTACTACAAATCCCCACCA
* * * *
1571943 CCACC-TCCTTC-AC-CATCTCCACCA
1 CCACCATACTACTACAAATCCCCACCA
* * *
1571967 CCACCATATTATTACAAGTCCCCACCA
1 CCACCATACTACTACAAATCCCCACCA
1571994 CCACCA
1 CCACCA
1572000 GTCCATTCCC
Statistics
Matches: 201, Mismatches: 38, Indels: 68
0.65 0.12 0.22
Matches are distributed among these distances:
20 2 0.01
21 57 0.28
22 6 0.03
23 7 0.03
24 26 0.13
25 6 0.03
26 7 0.03
27 88 0.44
28 2 0.01
ACGTcount: A:0.30, C:0.48, G:0.03, T:0.19
Consensus pattern (27 bp):
CCACCATACTACTACAAATCCCCACCA
Found at i:1571788 original size:75 final size:74
Alignment explanation
Indices: 1571700--1571999 Score: 228
Period size: 75 Copynumber: 4.1 Consensus size: 74
1571690 ACCACCGCCT
* * *
1571700 CCACCATACTACTATAAATCCCCACCACCACCAGT-CCATTCTCCACCACTACCATACTATTACA
1 CCACCATACTACTACAAATCCCCACCACCACC-GTACCA-TCTCCACCACCACCATACTACTACA
1571764 AATCCCCACCA
64 AATCCCCACCA
* * * *
1571775 CCACCATACTACTACAAATCGCCACCACCTCCTTCACCATCTCCACCACCACCATATTACTACAA
1 CCACCATACTACTACAAATCCCCACCACCACCGT-ACCATCTCCACCACCACCATACTACTACAA
*
1571840 GTCCCCACCA
65 ATCCCCACCA
* * * ** * *
1571850 CCACCAGTCCACT-CT-C-CACCCCCACCA-TACTATTACAAGTCTCCACCGCCACCAGT-CTA-
1 CCACCA-T--ACTACTACAAATCCCCACCACCAC-CGTACCA-TCTCCACCACCACCA-TACTAC
*
1571909 T-----TCCCCTCCA
60 TACAAATCCCCACCA
* * * * *
1571919 CCACCATACTACTACAAATCACCACCACCTCCTTCACCATCTCCACCACCACCATATTATTACAA
1 CCACCATACTACTACAAATCCCCACCACCACCGT-ACCATCTCCACCACCACCATACTACTACAA
*
1571984 GTCCCCACCA
65 ATCCCCACCA
1571994 CCACCA
1 CCACCA
1572000 GTCCATTCCC
Statistics
Matches: 177, Mismatches: 28, Indels: 40
0.72 0.11 0.16
Matches are distributed among these distances:
66 3 0.02
67 2 0.01
68 3 0.02
69 40 0.23
70 5 0.03
74 6 0.03
75 107 0.60
76 6 0.03
77 2 0.01
78 3 0.02
ACGTcount: A:0.30, C:0.48, G:0.03, T:0.19
Consensus pattern (74 bp):
CCACCATACTACTACAAATCCCCACCACCACCGTACCATCTCCACCACCACCATACTACTACAAA
TCCCCACCA
Found at i:1571799 original size:24 final size:25
Alignment explanation
Indices: 1571741--1571852 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 25
1571731 CAGTCCATTC
* *
1571741 TCCACCACTACCATACTATTACAAA
1 TCCACCACCACCATACTACTACAAA
1571766 TCCCCACCACCACCATACTACTACAAA
1 T--CCACCACCACCATACTACTACAAA
* * * **
1571793 T-CGCCACCACC-TCCTTC-ACCATC
1 TCCACCACCACCATACTACTA-CAAA
* *
1571816 TCCACCACCACCATATTACTACAAG
1 TCCACCACCACCATACTACTACAAA
1571841 TCC-CCACCACCA
1 TCCACCACCACCA
1571853 CCAGTCCACT
Statistics
Matches: 68, Mismatches: 13, Indels: 13
0.72 0.14 0.14
Matches are distributed among these distances:
22 1 0.01
23 7 0.10
24 27 0.40
25 9 0.13
26 1 0.01
27 23 0.34
ACGTcount: A:0.32, C:0.47, G:0.02, T:0.19
Consensus pattern (25 bp):
TCCACCACCACCATACTACTACAAA
Found at i:1571821 original size:48 final size:48
Alignment explanation
Indices: 1571769--1572238 Score: 308
Period size: 48 Copynumber: 9.8 Consensus size: 48
1571759 TTACAAATCC
* *
1571769 CCACCACCACCATACTACTACAAATCGCCACCACCTCCTTCACCATCT
1 CCACCACCACCATACTACTACAAATCTCCACCACCTCCGTCACCATCT
* * * *
1571817 CCACCACCACCATATTACTACAAGTCCCCACCACCACCAGT--CCACTCT
1 CCACCACCACCATACTACTACAAATCTCCACCACCTCC-GTCACCA-TCT
* * * * * * *
1571865 CCACCCCCACCATACTATTACAAGTCTCCACCGCCACCAGTCTA--TTCC
1 CCACCACCACCATACTACTACAAATCTCCACCACCTCC-GTC-ACCATCT
* * *
1571913 CCTCCACCACCATACTACTACAAATCACCACCACCTCCTTCACCATCT
1 CCACCACCACCATACTACTACAAATCTCCACCACCTCCGTCACCATCT
* * * * * *
1571961 CCACCACCACCATATTATTACAAGTCCCCACCACCACCAGT--CCATTCC
1 CCACCACCACCATACTACTACAAATCTCCACCACCTCC-GTCACCA-TCT
* * * * ** *
1572009 CCTCCACCACCATATTATTACAAATCACCACCACCTCCAGT-AGAAGCT
1 CCACCACCACCATACTACTACAAATCTCCACCACCTCC-GTCACCATCT
* * * * * * * *
1572057 CCAGCACCAACC-TACCACTACAACTCTCCTCCACCACCATCACCGTCC
1 CCACCACC-ACCATACTACTACAAATCTCCACCACCTCCGTCACCATCT
* * * * * * * *
1572105 CCTCCTCCTCCCTACTACTACCAATCTCCACCACCTCCATCTCCATCA
1 CCACCACCACCATACTACTACAAATCTCCACCACCTCCGTCACCATCT
* * * * *
1572153 CCACCACCACCATACTACTACAAATCTCCCCCTCCCCCATCACCTTCT
1 CCACCACCACCATACTACTACAAATCTCCACCACCTCCGTCACCATCT
* * * * * *
1572201 CCCCCACCACCGTATTACTACAAGTCCCCACCTCCTCC
1 CCACCACCACCATACTACTACAAATCTCCACCACCTCC
1572239 ATCCCCCTCA
Statistics
Matches: 326, Mismatches: 83, Indels: 26
0.75 0.19 0.06
Matches are distributed among these distances:
46 1 0.00
47 11 0.03
48 308 0.94
49 6 0.02
ACGTcount: A:0.27, C:0.50, G:0.03, T:0.20
Consensus pattern (48 bp):
CCACCACCACCATACTACTACAAATCTCCACCACCTCCGTCACCATCT
Found at i:1571930 original size:144 final size:144
Alignment explanation
Indices: 1571766--1572049 Score: 460
Period size: 144 Copynumber: 2.0 Consensus size: 144
1571756 CTATTACAAA
*
1571766 TCCCCACCACCACCATACTACTACAAATCGCCACCACCTCCTTCACCATCTCCACCACCACCATA
1 TCCCCACCACCACCATACTACTACAAATCACCACCACCTCCTTCACCATCTCCACCACCACCATA
* * * *
1571831 TTACTACAAGTCCCCACCACCACCAGTCCACTCTCCACCCCCACCATACTATTACAAGTCTCCAC
66 TTACTACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCACCATACTATTACAAATCACCAC
*
1571896 CGCCACCAGTCTAT
131 CACCACCAGTCTAT
*
1571910 TCCCCTCCACCACCATACTACTACAAATCACCACCACCTCCTTCACCATCTCCACCACCACCATA
1 TCCCCACCACCACCATACTACTACAAATCACCACCACCTCCTTCACCATCTCCACCACCACCATA
* * * *
1571975 TTATTACAAGTCCCCACCACCACCAGTCCATTCCCCTCCACCACCATATTATTACAAATCACCAC
66 TTACTACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCACCATACTATTACAAATCACCAC
*
1572040 CACCTCCAGT
131 CACCACCAGT
1572050 AGAAGCTCCA
Statistics
Matches: 128, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
144 128 1.00
ACGTcount: A:0.29, C:0.49, G:0.03, T:0.20
Consensus pattern (144 bp):
TCCCCACCACCACCATACTACTACAAATCACCACCACCTCCTTCACCATCTCCACCACCACCATA
TTACTACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCACCATACTATTACAAATCACCAC
CACCACCAGTCTAT
Found at i:1571944 original size:123 final size:122
Alignment explanation
Indices: 1571700--1571947 Score: 277
Period size: 123 Copynumber: 2.0 Consensus size: 122
1571690 ACCACCGCCT
* * *
1571700 CCACCATACTACTATAAATCCCCACCACCACCAGTCCATTCTCCACCACTACCATACTATTACAA
1 CCACCATACTACTACAAATCCCCACCACCACCAGTCCACTCTCCACCACCACCATACTATTACAA
* * * * *
1571765 ATCCCCACCACCACCATACTACTACAAATCGCCACCACCTCCTTCACCATCTCCACCA
66 ATCCCCACCACCACCATACTACTAC-AACCGCCACCACCTACTACACAATCACCACCA
* * *
1571823 CCACCATATTACTACAAGTCCCCACCACCACCAGTCCACTCTCCACCCCCACCATACTATTACAA
1 CCACCATACTACTACAAATCCCCACCACCACCAGTCCACTCTCCACCACCACCATACTATTACAA
* * * * * *
1571888 GTCTCCACCGCCACCAGT-CTA-TTC-CCCTCCACCACCATACTACTACAAATCACCACCA
66 ATCCCCACCACCACCA-TACTACTACAACCGCCACCACC-TACTAC-AC-AATCACCACCA
1571946 CC
1 CC
1571948 TCCTTCACCA
Statistics
Matches: 104, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
120 9 0.09
121 4 0.04
122 4 0.04
123 86 0.83
124 1 0.01
ACGTcount: A:0.30, C:0.48, G:0.03, T:0.19
Consensus pattern (122 bp):
CCACCATACTACTACAAATCCCCACCACCACCAGTCCACTCTCCACCACCACCATACTATTACAA
ATCCCCACCACCACCATACTACTACAACCGCCACCACCTACTACACAATCACCACCA
Found at i:1572065 original size:144 final size:144
Alignment explanation
Indices: 1571767--1572178 Score: 452
Period size: 144 Copynumber: 2.9 Consensus size: 144
1571757 TATTACAAAT
*
1571767 CCCCACCACCACCATACTACTACAAATCGCCACCACCTCCTTCACCATCTCCACCACCACCATAT
1 CCCCACCACCACCATACTACTACAAATCACCACCACCTCCTTCACCATCTCCACCACCACCATAT
* * * *
1571832 TACTACAAGTCCCCACCACCACCAGTCCACTCTCCACCCCCACCATACTATTACAAGTCTCCACC
66 TACTACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCACCATACTATTACAAATCACCACC
* ** **
1571897 GCCACCAGTCTATT
131 ACCACCAGTAGAAG
*
1571911 CCCCTCCACCACCATACTACTACAAATCACCACCACCTCCTTCACCATCTCCACCACCACCATAT
1 CCCCACCACCACCATACTACTACAAATCACCACCACCTCCTTCACCATCTCCACCACCACCATAT
* * * *
1571976 TATTACAAGTCCCCACCACCACCAGTCCATTCCCCTCCACCACCATATTATTACAAATCACCACC
66 TACTACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCACCATACTATTACAAATCACCACC
*
1572041 ACCTCCAGTAGAAG
131 ACCACCAGTAGAAG
* * * * * * * * * * * * * *
1572055 CTCCAGCACCAACC-TACCACTACAACTCTCCTCCACCACCATCACCGTCCCCTCCTCCTCCCTA
1 CCCCACCACC-ACCATACTACTACAAATCACCACCACCTCCTTCACCATCTCCACCACCACCATA
* * * * * *
1572119 CTACTACCAA-TCTCCACCACCTCCATCTCCA-TCACCACCACCACCATACTACTACAAATC
65 TTACTA-CAAGTCCCCACCACCACCA-GTCCACTCCCCACCACCACCATACTATTACAAATC
1572179 TCCCCCTCCC
Statistics
Matches: 225, Mismatches: 40, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
144 215 0.96
145 10 0.04
ACGTcount: A:0.28, C:0.49, G:0.03, T:0.19
Consensus pattern (144 bp):
CCCCACCACCACCATACTACTACAAATCACCACCACCTCCTTCACCATCTCCACCACCACCATAT
TACTACAAGTCCCCACCACCACCAGTCCACTCCCCACCACCACCATACTATTACAAATCACCACC
ACCACCAGTAGAAG
Found at i:1572240 original size:96 final size:96
Alignment explanation
Indices: 1571769--1572241 Score: 422
Period size: 96 Copynumber: 4.9 Consensus size: 96
1571759 TTACAAATCC
* * * * * *
1571769 CCACCACCACCATACTACTACAAATCGCCACCACCTCCTTCACCATCTCCACCACCACCATATTA
1 CCACCACCACCATACTACTACAAATCTCCACCACCACCATCACCTTCCCCTCCACCACCATATTA
* * *
1571834 CTACAAGTCCCCACCACCACCAGT--CCACTCT
66 CTACAAATCACCACCACCTCCA-TCACCA-TCT
* * * * *
1571865 CCACCCCCACCATACTATTACAAGTCTCCACCGCCACCAGTCTA--TTCCCCTCCACCACCATAC
1 CCACCACCACCATACTACTACAAATCTCCACCACCACCA-TC-ACCTTCCCCTCCACCACCATAT
*
1571928 TACTACAAATCACCACCACCTCCTTCACCATCT
64 TACTACAAATCACCACCACCTCCATCACCATCT
* * * * *
1571961 CCACCACCACCATATTATTACAAGTCCCCACCACCACCAGTC-CATTCCCCTCCACCACCATATT
1 CCACCACCACCATACTACTACAAATCTCCACCACCACCA-TCACCTTCCCCTCCACCACCATATT
* ** *
1572025 ATTACAAATCACCACCACCTCCAGT-AGAAGCT
65 ACTACAAATCACCACCACCTCCA-TCACCATCT
* * * * * * * * *
1572057 CCAGCACCAACC-TACCACTACAACTCTCCTCCACCACCATCACCGTCCCCTCCTCCTCCCTACT
1 CCACCACC-ACCATACTACTACAAATCTCCACCACCACCATCACCTTCCCCTCCACCACCATATT
* * * *
1572121 ACTACCAATCTCCACCACCTCCATCTCCATCA
65 ACTACAAATCACCACCACCTCCATCACCATCT
* * * *
1572153 CCACCACCACCATACTACTACAAATCTCCCCCTCCCCCATCACCTTCTCCC-CCACCACCGTATT
1 CCACCACCACCATACTACTACAAATCTCCACCACCACCATCACCTTC-CCCTCCACCACCATATT
* * *
1572217 ACTACAAGTCCCCACCTCCTCCATC
65 ACTACAAATCACCACCACCTCCATC
1572242 CCCCTCACCC
Statistics
Matches: 304, Mismatches: 61, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
95 7 0.02
96 284 0.93
97 12 0.04
98 1 0.00
ACGTcount: A:0.27, C:0.50, G:0.03, T:0.20
Consensus pattern (96 bp):
CCACCACCACCATACTACTACAAATCTCCACCACCACCATCACCTTCCCCTCCACCACCATATTA
CTACAAATCACCACCACCTCCATCACCATCT
Found at i:1574195 original size:13 final size:12
Alignment explanation
Indices: 1574166--1574207 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 12
1574156 TGTTATTTAT
*
1574166 TATTATA-TTCG
1 TATTATATTTCA
1574177 TATTATATTATCA
1 TATTATATT-TCA
*
1574190 TATTATATTTTA
1 TATTATATTTCA
1574202 TATTAT
1 TATTAT
1574208 CAGATTTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 7 0.26
12 9 0.33
13 11 0.41
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (12 bp):
TATTATATTTCA
Found at i:1577322 original size:8 final size:8
Alignment explanation
Indices: 1577309--1577336 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1577299 TTCATATAGG
1577309 TATGTGCA
1 TATGTGCA
1577317 TATGTGCA
1 TATGTGCA
1577325 TATGTGCA
1 TATGTGCA
1577333 TATG
1 TATG
1577337 GGTTGTGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (8 bp):
TATGTGCA
Found at i:1578023 original size:51 final size:51
Alignment explanation
Indices: 1577962--1578097 Score: 200
Period size: 52 Copynumber: 2.6 Consensus size: 51
1577952 TGGATAAGAA
* *
1577962 GACTTGCAAAAGAAGAATTCTAAGAGAAAAAAATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAAAAATTCTTAATAAGTAAATTT
* ***
1578013 GACTTACAAAAGAAGAATTCTAAGAGAGAAGGGATTCTTAATAAGTAAATTT
1 GACTTGCAAAAGAAGAATTCTAAGAGA-AAAAAATTCTTAATAAGTAAATTT
*
1578065 AACTTGCAAAAGAAGAATTCTAAGAGAAAAAAA
1 GACTTGCAAAAGAAGAATTCTAAGAGAAAAAAA
1578098 AATTTTAATA
Statistics
Matches: 73, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
51 29 0.40
52 44 0.60
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (51 bp):
GACTTGCAAAAGAAGAATTCTAAGAGAAAAAAATTCTTAATAAGTAAATTT
Found at i:1578106 original size:52 final size:52
Alignment explanation
Indices: 1577963--1578117 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
1577953 GGATAAGAAG
* * *
1577963 ACTTGCAAAAGAAGAATTCTAAGAG-AAAAAAATTCTTAATAGGTAAGTTTG
1 ACTTGCAAAAGAAGAATTCTAAGAGAAAAAAAATTCTTAATAAGTAAATTTA
* * ***
1578014 ACTTACAAAAGAAGAATTCTAAGAGAGAAGGGATTCTTAATAAGTAAATTTA
1 ACTTGCAAAAGAAGAATTCTAAGAGAAAAAAAATTCTTAATAAGTAAATTTA
1578066 ACTTGCAAAAGAAGAATTCTAAGAGAAAAAAAAATT-TTAAT-AGATAAATTTA
1 ACTTGCAAAAGAAGAATTCTAAGAG-AAAAAAAATTCTTAATAAG-TAAATTTA
1578118 TATGGTTATA
Statistics
Matches: 88, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
51 26 0.30
52 56 0.64
53 6 0.07
ACGTcount: A:0.50, C:0.07, G:0.15, T:0.27
Consensus pattern (52 bp):
ACTTGCAAAAGAAGAATTCTAAGAGAAAAAAAATTCTTAATAAGTAAATTTA
Found at i:1580363 original size:9 final size:9
Alignment explanation
Indices: 1580342--1580390 Score: 55
Period size: 9 Copynumber: 5.2 Consensus size: 9
1580332 TTCTTTAGTA
1580342 ATTTT-TTT
1 ATTTTATTT
1580350 CATTTTATTT
1 -ATTTTATTT
1580360 ATTTTATTT
1 ATTTTATTT
*
1580369 ATTTGATTT
1 ATTTTATTT
1580378 AAATTTTATTT
1 --ATTTTATTT
1580389 AT
1 AT
1580391 CTTAATTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 24 0.69
10 3 0.09
11 8 0.23
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (9 bp):
ATTTTATTT
Found at i:1580790 original size:97 final size:98
Alignment explanation
Indices: 1580550--1580814 Score: 265
Period size: 97 Copynumber: 2.7 Consensus size: 98
1580540 ATATTATGAA
* * * *
1580550 TCAATCTTACCAAACTATT-GGA-ATATTTAAATCTCTA-AATTAAATCTTACCAAACTATTGAA
1 TCAATCTTACCAAAATATTAGAAGATATTTAAATCTC-AGAATTAAATTTTACCAAACTATTG-G
* *
1580612 AAAATTTAATGATTTTTATAACAAAAATAAAAATT
64 AAGATTTAATGAGTTTTATAACAAAAATAAAAATT
** * * *
1580647 TCAATCTTA-CAAAAGTATTA-AAG-GGTTTAAATATCTGAATTAAATTTTACCAAATTATTGGA
1 TCAATCTTACCAAAA-TATTAGAAGATATTTAAATCTCAGAATTAAATTTTACCAAACTATTGGA
* * **
1580709 AGACTTAATGAGTTTTATGA-AAAAATAAAGTTT
65 AGATTTAATGAGTTTTATAACAAAAATAAAAATT
* * * * * *
1580742 TTAATCTTACCAAAATATTAGAAGATTTTTAAATCTCAGAGTTTAATTTTACTAAACTATTAGAA
1 TCAATCTTACCAAAATATTAGAAGATATTTAAATCTCAGAATTAAATTTTACCAAACTATTGGAA
1580807 GATTTAAT
66 GATTTAAT
1580815 AATATTTTTA
Statistics
Matches: 135, Mismatches: 26, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
95 24 0.18
96 29 0.21
97 82 0.61
ACGTcount: A:0.44, C:0.10, G:0.08, T:0.38
Consensus pattern (98 bp):
TCAATCTTACCAAAATATTAGAAGATATTTAAATCTCAGAATTAAATTTTACCAAACTATTGGAA
GATTTAATGAGTTTTATAACAAAAATAAAAATT
Found at i:1584263 original size:12 final size:12
Alignment explanation
Indices: 1584246--1584279 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1584236 TTTCATTTTG
1584246 ATGTATGTGTGT
1 ATGTATGTGTGT
*
1584258 ATGTATGTATGT
1 ATGTATGTGTGT
*
1584270 ATGCATGTGT
1 ATGTATGTGT
1584280 TTGTGTATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.03, G:0.29, T:0.47
Consensus pattern (12 bp):
ATGTATGTGTGT
Found at i:1585654 original size:33 final size:33
Alignment explanation
Indices: 1585605--1585688 Score: 91
Period size: 32 Copynumber: 2.6 Consensus size: 33
1585595 GATTCAATCT
* * *
1585605 AATTTTATATTAATTTATTTG-TTTAATTGATTT
1 AATTTTTTATGAATTTATTTGATTT-ATTGATTA
* * *
1585638 ATTTTTTTATGAATTTA-TTGATTTGTTTATTA
1 AATTTTTTATGAATTTATTTGATTTATTGATTA
1585670 AATTTTTTATGAATTTATT
1 AATTTTTTATGAATTTATT
1585689 ATTTGGTAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
32 24 0.57
33 18 0.43
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (33 bp):
AATTTTTTATGAATTTATTTGATTTATTGATTA
Found at i:1587194 original size:27 final size:28
Alignment explanation
Indices: 1587159--1587222 Score: 76
Period size: 29 Copynumber: 2.3 Consensus size: 28
1587149 TAGTTAGTTA
* *
1587159 TTATTTTAGTC-GTATTTTTATATATAT
1 TTATGTTAGTCAGTATATTTATATATAT
*
1587186 TTATGTTAGTCATGTCTATTTATATATAT
1 TTATGTTAGTCA-GTATATTTATATATAT
*
1587215 TCATGTTA
1 TTATGTTA
1587223 ATTATGTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 10 0.32
29 21 0.68
ACGTcount: A:0.27, C:0.06, G:0.09, T:0.58
Consensus pattern (28 bp):
TTATGTTAGTCAGTATATTTATATATAT
Found at i:1587227 original size:19 final size:20
Alignment explanation
Indices: 1587195--1587233 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1587185 TTTATGTTAG
*
1587195 TCATGTCTATTTATATATAT
1 TCATGTCTAATTATATATAT
*
1587215 TCATGT-TAATTATGTATAT
1 TCATGTCTAATTATATATAT
1587234 CCGTGTTAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.54
Consensus pattern (20 bp):
TCATGTCTAATTATATATAT
Found at i:1587555 original size:2 final size:2
Alignment explanation
Indices: 1587518--1587543 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1587508 ACCAACTTTG
1587518 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
1587544 AGAATAATAT
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:1591748 original size:6 final size:6
Alignment explanation
Indices: 1591737--1591765 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
1591727 GGCTAGTATC
1591737 TCTTTT TCTTTT TCTTTT T-TTTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
1591766 CTGTTACTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (6 bp):
TCTTTT
Found at i:1591759 original size:11 final size:12
Alignment explanation
Indices: 1591737--1591765 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
1591727 GGCTAGTATC
1591737 TCTTTTTCTTTT
1 TCTTTTTCTTTT
1591749 TCTTTTT-TTTT
1 TCTTTTTCTTTT
1591760 TCTTTT
1 TCTTTT
1591766 CTGTTACTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (12 bp):
TCTTTTTCTTTT
Found at i:1592435 original size:30 final size:30
Alignment explanation
Indices: 1592408--1592473 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
1592398 TTAATTTATG
* *
1592408 TACAAATTATATATTAAAAACTTATTTAAA
1 TACAAATTAAAAATTAAAAACTTATTTAAA
* *
1592438 TACAAATTAAAAATTAAAAATTTATTTGAA
1 TACAAATTAAAAATTAAAAACTTATTTAAA
*
1592468 TGCAAA
1 TACAAA
1592474 CTACATGTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.55, C:0.06, G:0.03, T:0.36
Consensus pattern (30 bp):
TACAAATTAAAAATTAAAAACTTATTTAAA
Found at i:1592726 original size:29 final size:30
Alignment explanation
Indices: 1592679--1592759 Score: 78
Period size: 29 Copynumber: 2.7 Consensus size: 30
1592669 TAACATAACA
* *
1592679 AATAATAGTACAAGTATTACATTGGATATTTTT-
1 AATAATA-TA-AA-TATTACATT-AAAATTTTTG
*
1592712 AA-AATATAAATATTATATTAAAATTTTTG
1 AATAATATAAATATTACATTAAAATTTTTG
1592741 AATAATATAAATA-TACATT
1 AATAATATAAATATTACATT
1592760 TTTAAAAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
28 7 0.17
29 15 0.36
30 12 0.29
31 2 0.05
32 4 0.10
33 2 0.05
ACGTcount: A:0.48, C:0.04, G:0.06, T:0.42
Consensus pattern (30 bp):
AATAATATAAATATTACATTAAAATTTTTG
Found at i:1604390 original size:33 final size:33
Alignment explanation
Indices: 1604353--1604657 Score: 261
Period size: 33 Copynumber: 9.2 Consensus size: 33
1604343 AATATGTACA
*
1604353 GCCAACCCACACAGCCAAGTGCTAATCCATATG
1 GCCAACCCGCACAGCCAAGTGCTAATCCATATG
* *
1604386 GCCAACCTGCACAGCCAAGTACTAATCCATATG
1 GCCAACCCGCACAGCCAAGTGCTAATCCATATG
** * * *
1604419 GCCAACCCGGGCTGCCAAGTTCTAATGCATATG
1 GCCAACCCGCACAGCCAAGTGCTAATCCATATG
* * * *
1604452 GCCAATCCGCACAGCCAAGTGTTAATCCTTACG
1 GCCAACCCGCACAGCCAAGTGCTAATCCATATG
* *
1604485 GCC-CCCCGGCACAGCTAAGTGCTAATCCATATG
1 GCCAACCC-GCACAGCCAAGTGCTAATCCATATG
* * * **
1604518 GCCAGCCTGCACAGGCACCTGCTAATCCATATG
1 GCCAACCCGCACAGCCAAGTGCTAATCCATATG
* * * **
1604551 ACCAACCTGCACAGCCAAATGCTAATCCATACA
1 GCCAACCCGCACAGCCAAGTGCTAATCCATATG
*** * * * *
1604584 GCCAACCCATGCAGCAAAATGCTAGTCCTTATG
1 GCCAACCCGCACAGCCAAGTGCTAATCCATATG
** ** *
1604617 GCCAACATGTGCAGCCAAATGCTAATCCATATG
1 GCCAACCCGCACAGCCAAGTGCTAATCCATATG
*
1604650 CCCAACCC
1 GCCAACCC
1604658 ACGCAACCAA
Statistics
Matches: 214, Mismatches: 56, Indels: 4
0.78 0.20 0.01
Matches are distributed among these distances:
32 2 0.01
33 210 0.98
34 2 0.01
ACGTcount: A:0.30, C:0.34, G:0.17, T:0.18
Consensus pattern (33 bp):
GCCAACCCGCACAGCCAAGTGCTAATCCATATG
Found at i:1606631 original size:15 final size:13
Alignment explanation
Indices: 1606606--1606649 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
1606596 AAATATTAAT
1606606 TTTAATAAAATTTA
1 TTTAATAAAA-TTA
1606620 TTTAATATAAATTA
1 TTTAATA-AAATTA
* *
1606634 TTTATTAAAAATA
1 TTTAATAAAATTA
1606647 TTT
1 TTT
1606650 TAATCATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
13 8 0.30
14 16 0.59
15 3 0.11
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAATAAAATTA
Found at i:1606686 original size:25 final size:25
Alignment explanation
Indices: 1606641--1606692 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
1606631 TTATTTATTA
* *
1606641 AAAATATTTTAATCATGATTATAAT
1 AAAATATTTTAATCATAATTACAAT
*
1606666 AAAAT-TTTTCAATTATAATTACAAT
1 AAAATATTTT-AATCATAATTACAAT
1606691 AA
1 AA
1606693 TTTTTATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 4 0.17
25 19 0.83
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (25 bp):
AAAATATTTTAATCATAATTACAAT
Found at i:1615763 original size:14 final size:15
Alignment explanation
Indices: 1615744--1615796 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 15
1615734 TAAATATTAA
1615744 ATTTAATA-AAATTT
1 ATTTAATATAAATTT
1615758 ATTTAATATAAATTT
1 ATTTAATATAAATTT
1615773 A-TT-AT-TAAATTT
1 ATTTAATATAAATTT
*
1615785 TTTTAATTATAA
1 ATTTAA-TATAA
1615797 TTATAATTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 7 0.21
13 4 0.12
14 11 0.33
15 8 0.24
16 3 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTTAATATAAATTT
Found at i:1615782 original size:27 final size:27
Alignment explanation
Indices: 1615720--1615796 Score: 74
Period size: 27 Copynumber: 2.9 Consensus size: 27
1615710 ATTTATTATA
1615720 TTATTATTTAAATTTA---AATATTAAAT
1 TTATTA-TTAAATTTATTTAATA-TAAAT
*
1615746 TTA--ATAAAATTTATTTAATATAAAT
1 TTATTATTAAATTTATTTAATATAAAT
*
1615771 TTATTATTAAATTTTTTTAATTATAA
1 TTATTATTAAATTTATTTAA-TATAA
1615797 TTATAATTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
23 8 0.19
24 1 0.02
25 8 0.19
26 7 0.17
27 13 0.31
28 5 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TTATTATTAAATTTATTTAATATAAAT
Found at i:1615798 original size:27 final size:26
Alignment explanation
Indices: 1615731--1615806 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 26
1615721 TATTATTTAA
*
1615731 ATTTAAATATTAAATT-TAATAAAATTT
1 ATTT-AATA-TAAATTATAATTAAATTT
*
1615758 ATTTAATATAAATTTATTATTAAATTT
1 ATTTAATATAAA-TTATAATTAAATTT
*
1615785 TTTTAAT-TATAATTATAATTAA
1 ATTTAATATA-AATTATAATTAA
1615807 TAATTAGGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 4 0.10
26 17 0.40
27 21 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
ATTTAATATAAATTATAATTAAATTT
Found at i:1620463 original size:184 final size:184
Alignment explanation
Indices: 1620144--1620521 Score: 720
Period size: 184 Copynumber: 2.1 Consensus size: 184
1620134 GTATTTATGT
*
1620144 TTGTGAATATATCTTATATCCAATCTTGTGAGTATTTTTTGAACTTTTGACTGTGAACTTTGAGG
1 TTGTTAATATATCTTATATCCAATCTTGTGAGTATTTTTTGAACTTTTGACTGTGAACTTTGAGG
*
1620209 ATACTGGAATTGGTGCAATGGTATGGGGTGATCTTTTAATAGATTTTTTCGTTGGCCTTTTCTCG
66 ATACTGGAATTGGTCCAATGGTATGGGGTGATCTTTTAATAGATTTTTTCGTTGGCCTTTTCTCG
1620274 TTCATATGAAAGGTGTTCATCCACTGATATCAAGGTAGTCGAAGGGTAAACAAA
131 TTCATATGAAAGGTGTTCATCCACTGATATCAAGGTAGTCGAAGGGTAAACAAA
1620328 TTGTTAATATATCTTATATCCAATCTTGTGAGTATTTTTTGAACTTTTGACTGTGAACTTTGAGG
1 TTGTTAATATATCTTATATCCAATCTTGTGAGTATTTTTTGAACTTTTGACTGTGAACTTTGAGG
* *
1620393 ATAGTGGAATTGGTCCAATGGTATGGGGTGATCTTTTAATAGATTTTTTCGTTGGCCTTTTCTTG
66 ATACTGGAATTGGTCCAATGGTATGGGGTGATCTTTTAATAGATTTTTTCGTTGGCCTTTTCTCG
1620458 TTCATATGAAAGGTGTTCATCCACTGATATCAAGGTAGTCGAAGGGTAAACAAA
131 TTCATATGAAAGGTGTTCATCCACTGATATCAAGGTAGTCGAAGGGTAAACAAA
1620512 TTGTTAATAT
1 TTGTTAATAT
1620522 CCCTTGAGTT
Statistics
Matches: 190, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
184 190 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (184 bp):
TTGTTAATATATCTTATATCCAATCTTGTGAGTATTTTTTGAACTTTTGACTGTGAACTTTGAGG
ATACTGGAATTGGTCCAATGGTATGGGGTGATCTTTTAATAGATTTTTTCGTTGGCCTTTTCTCG
TTCATATGAAAGGTGTTCATCCACTGATATCAAGGTAGTCGAAGGGTAAACAAA
Found at i:1621980 original size:2 final size:2
Alignment explanation
Indices: 1621973--1621999 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1621963 CATCAAAACC
1621973 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1622000 TTTTTTTTTT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1628788 original size:21 final size:21
Alignment explanation
Indices: 1628764--1628811 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
1628754 ATTTAAAATT
*
1628764 TATAAAATATTATTTTTTTAA
1 TATAAAATATTATTTTTGTAA
1628785 TATAAAATATTATTTTTGTAA
1 TATAAAATATTATTTTTGTAA
*
1628806 CATAAA
1 TATAAA
1628812 TATAAAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TATAAAATATTATTTTTGTAA
Found at i:1628825 original size:12 final size:12
Alignment explanation
Indices: 1628808--1628849 Score: 59
Period size: 12 Copynumber: 3.5 Consensus size: 12
1628798 TTTTGTAACA
1628808 TAAATATAAAAT
1 TAAATATAAAAT
*
1628820 TAAATA-AATAT
1 TAAATATAAAAT
1628831 ATAAATATAAAAT
1 -TAAATATAAAAT
1628844 TAAATA
1 TAAATA
1628850 AATAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 4 0.15
12 18 0.69
13 4 0.15
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:1628839 original size:24 final size:23
Alignment explanation
Indices: 1628807--1628858 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 23
1628797 TTTTTGTAAC
1628807 ATAAATATAAAATTAAATAAATA
1 ATAAATATAAAATTAAATAAATA
1628830 TATAAATATAAAATTAAATAAATA
1 -ATAAATATAAAATTAAATAAATA
1628854 ATAAA
1 ATAAA
1628859 AAAATAATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
ATAAATATAAAATTAAATAAATA
Found at i:1628853 original size:16 final size:18
Alignment explanation
Indices: 1628807--1628841 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
1628797 TTTTTGTAAC
1628807 ATAAATATA-AAAT-TAA
1 ATAAATATATAAATATAA
1628823 ATAAATATATAAATATAA
1 ATAAATATATAAATATAA
1628841 A
1 A
1628842 ATTAAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 4 0.24
18 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (18 bp):
ATAAATATATAAATATAA
Found at i:1629939 original size:14 final size:15
Alignment explanation
Indices: 1629906--1629939 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
1629896 TATAAACAAT
*
1629906 AAATAAATTATAATC
1 AAATAAATTATAAAC
1629921 AAATAAATT-TAAAC
1 AAATAAATTATAAAC
1629935 AAATA
1 AAATA
1629940 TAAACGAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (15 bp):
AAATAAATTATAAAC
Found at i:1630963 original size:18 final size:17
Alignment explanation
Indices: 1630932--1630977 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
1630922 ATGTTTAAAT
*
1630932 ATAA-AAAT-AATTATG
1 ATAAGAAATAAATTATA
1630947 ATAATGAAATAAATTATA
1 ATAA-GAAATAAATTATA
*
1630965 ATAAGAAAAAAAT
1 ATAAGAAATAAAT
1630978 GATTATCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 4 0.15
17 12 0.46
18 10 0.38
ACGTcount: A:0.65, C:0.00, G:0.07, T:0.28
Consensus pattern (17 bp):
ATAAGAAATAAATTATA
Found at i:1631791 original size:13 final size:13
Alignment explanation
Indices: 1631775--1631799 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1631765 AAATGGTAAA
1631775 TTTAAATTTTATC
1 TTTAAATTTTATC
1631788 TTTAAATTTTAT
1 TTTAAATTTTAT
1631800 GTTAATCTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTAAATTTTATC
Found at i:1637244 original size:19 final size:19
Alignment explanation
Indices: 1637203--1637238 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1637193 ATTTTTGATA
*
1637203 AAAATTAAAAATATTAAAC
1 AAAATTAAAAATATAAAAC
1637222 AAAATTAAAAAT-TAAAA
1 AAAATTAAAAATATAAAA
1637239 ATAAAAAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAATTAAAAATATAAAAC
Found at i:1639528 original size:170 final size:172
Alignment explanation
Indices: 1639314--1639780 Score: 731
Period size: 172 Copynumber: 2.7 Consensus size: 172
1639304 GAGTCTTACT
* * * * * * *
1639314 GTCTTATTGCTGTTATTTGTGATCATGGTTTACTTCTATTATGATCTGAGGTACTTCTGATGGTT
1 GTCTTATTGCTGTTATTTGGGATTATGGTTCACTGCTGTTATGATCTGATGTACTTCTGATGGTG
* * *
1639379 ATAGAACTTCATC-ATCTTTTAAATTTGTGTTGTTTGACAAATAGTGGCGAGCCTTGTATTGTTT
66 ATAGAACTTCATCAATCTTTTAAATTTGTATTGTTTGATAAATAGTGGTGAGCCTTGTATTGTTT
* *
1639443 AATAAATAG-TCAAAGCTTTAGTTTAGTATATCACATGTAGA
131 AATAAATAGCCCAAAGCTTTAGTTTAGTACATCACATGTAGA
* *
1639484 GTCTTATTGCTGTTATTTGGGATTACGGTTCAGTGCTGTTATGATCTGATGTACTTCTGATGGTG
1 GTCTTATTGCTGTTATTTGGGATTATGGTTCACTGCTGTTATGATCTGATGTACTTCTGATGGTG
1639549 ATAGAACTTCATCAATCTTTTAAATTTGTATTGTTTGATAAATAGTGGTGAGCCTTGTATTGTTT
66 ATAGAACTTCATCAATCTTTTAAATTTGTATTGTTTGATAAATAGTGGTGAGCCTTGTATTGTTT
* * *
1639614 GATAAATAGCCCAAAGCTTTAGTTTAGTACATCGCATGTAGG
131 AATAAATAGCCCAAAGCTTTAGTTTAGTACATCACATGTAGA
* * *
1639656 GTCTTATTGCTGTCATTTGGGATTATGGTTCACTGCTGTTGTGATCTGATGTACTTCTGATTGTG
1 GTCTTATTGCTGTTATTTGGGATTATGGTTCACTGCTGTTATGATCTGATGTACTTCTGATGGTG
*
1639721 ATAGAACTTCATCAATCTTTTAAATTTGTATTGTTTGATATATAGTGGTGAGCCTTGTAT
66 ATAGAACTTCATCAATCTTTTAAATTTGTATTGTTTGATAAATAGTGGTGAGCCTTGTAT
1639781 GGTGCCCTGT
Statistics
Matches: 272, Mismatches: 23, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
170 69 0.25
171 56 0.21
172 147 0.54
ACGTcount: A:0.24, C:0.12, G:0.21, T:0.43
Consensus pattern (172 bp):
GTCTTATTGCTGTTATTTGGGATTATGGTTCACTGCTGTTATGATCTGATGTACTTCTGATGGTG
ATAGAACTTCATCAATCTTTTAAATTTGTATTGTTTGATAAATAGTGGTGAGCCTTGTATTGTTT
AATAAATAGCCCAAAGCTTTAGTTTAGTACATCACATGTAGA
Found at i:1644341 original size:28 final size:31
Alignment explanation
Indices: 1644285--1644366 Score: 89
Period size: 32 Copynumber: 2.6 Consensus size: 31
1644275 AATGTGATTA
* *
1644285 ATTTTAAATTATAATATGTAATGTGAT-AATTT
1 ATTTTAAA-TATTATAT-TAATGTAATAAATTT
1644317 -TTTTAAATATTATATTAAT-TAATAAATTT
1 ATTTTAAATATTATATTAATGTAATAAATTT
1644346 ATAATTTAAATATTATATTAA
1 AT--TTTAAATATTATATTAA
1644367 AAAATTTTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
28 3 0.07
29 9 0.20
30 8 0.18
31 7 0.16
32 17 0.39
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (31 bp):
ATTTTAAATATTATATTAATGTAATAAATTT
Found at i:1644385 original size:29 final size:31
Alignment explanation
Indices: 1644318--1644398 Score: 103
Period size: 29 Copynumber: 2.6 Consensus size: 31
1644308 TGATAATTTT
*
1644318 TTTAAATATTATATTAATTAATAAATTTATAA
1 TTTAAATATTATATTAA-TAATAAATTTAAAA
*
1644350 TTTAAATATTATATTAA-AA-AATTTTAAAA
1 TTTAAATATTATATTAATAATAAATTTAAAA
*
1644379 TTTAAATATCATATTCAATA
1 TTTAAATATTATATT-AATA
1644399 TTTTATTATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
29 22 0.50
30 4 0.09
31 1 0.02
32 17 0.39
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
TTTAAATATTATATTAATAATAAATTTAAAA
Found at i:1660516 original size:15 final size:15
Alignment explanation
Indices: 1660476--1660517 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
1660466 AAGCTTTCTC
*
1660476 TTTTT-TTTTCTTGG
1 TTTTTGTTTTCTGGG
**
1660490 TTTTTGGCTTCTGGG
1 TTTTTGTTTTCTGGG
1660505 TTTTTGTTTTCTG
1 TTTTTGTTTTCTG
1660518 ATATAATTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.00, C:0.10, G:0.21, T:0.69
Consensus pattern (15 bp):
TTTTTGTTTTCTGGG
Found at i:1675894 original size:2 final size:2
Alignment explanation
Indices: 1675889--1675913 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1675879 TAAAAAATTA
1675889 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 A
1675914 GTGATAAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1676847 original size:32 final size:32
Alignment explanation
Indices: 1676793--1676855 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
1676783 ACGATTAGGT
1676793 AAATTTAATAATTCATATATTTATATTATATA
1 AAATTTAATAATTCATATATTTATATTATATA
*
1676825 AAATATTAA-AATTTATATATTTATATTATAT
1 AAAT-TTAATAATTCATATATTTATATTATAT
1676856 TTTATATAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 25 0.86
33 4 0.14
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.51
Consensus pattern (32 bp):
AAATTTAATAATTCATATATTTATATTATATA
Found at i:1686047 original size:7 final size:7
Alignment explanation
Indices: 1686032--1686061 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
1686022 TGGCTATCTC
*
1686032 AAACACA
1 AAACGCA
1686039 AAACGCA
1 AAACGCA
1686046 AAACGCA
1 AAACGCA
1686053 AAACGCA
1 AAACGCA
1686060 AA
1 AA
1686062 TGCAAAAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.63, C:0.27, G:0.10, T:0.00
Consensus pattern (7 bp):
AAACGCA
Found at i:1686425 original size:11 final size:11
Alignment explanation
Indices: 1686377--1686426 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
1686367 TATGTTTAAT
1686377 TTATAA-ATAAA
1 TTATAATAT-AA
1686388 TTAT-ATATAA
1 TTATAATATAA
* *
1686398 TTATAATTTGA
1 TTATAATATAA
1686409 TTATAATATAA
1 TTATAATATAA
*
1686420 TAATAAT
1 TTATAAT
1686427 TTATTTATTT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
10 7 0.22
11 25 0.78
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (11 bp):
TTATAATATAA
Found at i:1686434 original size:22 final size:21
Alignment explanation
Indices: 1686387--1686428 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1686377 TTATAAATAA
*
1686387 ATTATATATAATTATAATTTG
1 ATTATATATAATAATAATTTG
1686408 ATTATAATATAATAATAATTT
1 ATTAT-ATATAATAATAATTT
1686429 ATTTATTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (21 bp):
ATTATATATAATAATAATTTG
Found at i:1686955 original size:12 final size:11
Alignment explanation
Indices: 1686934--1686980 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
1686924 CCAACTTTAC
1686934 TTTTTCTTTTT
1 TTTTTCTTTTT
1686945 TTTTTCTTTTT
1 TTTTTCTTTTT
**
1686956 TTTTTCGGTTT
1 TTTTTCTTTTT
*
1686967 ATTTTCTTTCTT
1 TTTTTCTTT-TT
1686979 TT
1 TT
1686981 CTCTATTTGC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
11 26 0.90
12 3 0.10
ACGTcount: A:0.02, C:0.11, G:0.04, T:0.83
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:1689808 original size:22 final size:21
Alignment explanation
Indices: 1689757--1689808 Score: 50
Period size: 22 Copynumber: 2.4 Consensus size: 21
1689747 GTTATGAATC
* *
1689757 AATGATAATTTAATAGTAAGT
1 AATGATAACTCAATAGTAAGT
* *
1689778 AATTTATAACTCAATAGTAAATT
1 AA-TGATAACTCAATAGT-AAGT
1689801 AATGATAA
1 AATGATAA
1689809 GTATTAACTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
21 2 0.08
22 17 0.71
23 5 0.21
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.37
Consensus pattern (21 bp):
AATGATAACTCAATAGTAAGT
Found at i:1689920 original size:22 final size:22
Alignment explanation
Indices: 1689878--1689951 Score: 76
Period size: 22 Copynumber: 3.3 Consensus size: 22
1689868 GTACTAAATC
* *
1689878 AATTATAATAGTAAATCAATAAT
1 AATT-TAATAGCAAATTAATAAT
*
1689901 AATTTAGTAGCAAATTAATAAT
1 AATTTAATAGCAAATTAATAAT
* * *
1689923 AACTTAATAGTAAATTAATGAT
1 AATTTAATAGCAAATTAATAAT
1689945 AACTTTA
1 AA-TTTA
1689952 TTGAGTAAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
22 35 0.83
23 7 0.17
ACGTcount: A:0.51, C:0.05, G:0.07, T:0.36
Consensus pattern (22 bp):
AATTTAATAGCAAATTAATAAT
Found at i:1690011 original size:22 final size:22
Alignment explanation
Indices: 1689986--1690038 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
1689976 TAAATTATTG
* *
1689986 ATAATTTAATAGTAAATCATTC
1 ATAATTTAATAGTAAATCAATA
* *
1690008 ATAACTTAATAGTAAATCAATGT
1 ATAATTTAATAGTAAATCAAT-A
1690031 ATAATTTA
1 ATAATTTA
1690039 GTAATAAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.40
Consensus pattern (22 bp):
ATAATTTAATAGTAAATCAATA
Found at i:1690016 original size:41 final size:43
Alignment explanation
Indices: 1689933--1690018 Score: 115
Period size: 41 Copynumber: 2.0 Consensus size: 43
1689923 AACTTAATAG
* *
1689933 TAAATTAATGATAACTTTATTGAGTAAATATTCGATAGCTTAA
1 TAAATTAATGATAACTTTAATGAGTAAATATTCGATAACTTAA
*
1689976 TAAATTATTGATAA-TTTAAT-AGTAAATCATTC-ATAACTTAA
1 TAAATTAATGATAACTTTAATGAGTAAAT-ATTCGATAACTTAA
1690017 TA
1 TA
1690019 GTAAATCAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
41 17 0.44
42 9 0.23
43 13 0.33
ACGTcount: A:0.44, C:0.07, G:0.08, T:0.41
Consensus pattern (43 bp):
TAAATTAATGATAACTTTAATGAGTAAATATTCGATAACTTAA
Found at i:1690294 original size:3 final size:3
Alignment explanation
Indices: 1690288--1690339 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
1690278 GATGATGATG
1690288 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1690336 ATA A
1 ATA A
1690340 GTCAGGGATG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1692021 original size:21 final size:21
Alignment explanation
Indices: 1691977--1692021 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1691967 ATAATTTTAA
* *
1691977 TATTAATTTATTTATTATATT
1 TATTAATTTATTTATAATACT
1691998 TATTAATTTGATTT-TAATACT
1 TATTAATTT-ATTTATAATACT
1692019 TAT
1 TAT
1692022 ATTTCATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (21 bp):
TATTAATTTATTTATAATACT
Found at i:1693991 original size:24 final size:24
Alignment explanation
Indices: 1693962--1694014 Score: 79
Period size: 24 Copynumber: 2.2 Consensus size: 24
1693952 ATTTAGCAAG
*
1693962 AAAATGCTTTGAATAATCCTAAAA
1 AAAATGCCTTGAATAATCCTAAAA
* *
1693986 AAAATGCCTTGAATAATCCTTAAG
1 AAAATGCCTTGAATAATCCTAAAA
1694010 AAAAT
1 AAAAT
1694015 ATTATTGAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.28
Consensus pattern (24 bp):
AAAATGCCTTGAATAATCCTAAAA
Found at i:1697919 original size:145 final size:140
Alignment explanation
Indices: 1697672--1698099 Score: 398
Period size: 145 Copynumber: 3.0 Consensus size: 140
1697662 TCATAATCTA
* * * * *
1697672 GAGCTTTTAGCGAAAAATCGACTTTGATAAGATCAAATTATGAAAATACCCGTAAAAGATATTTT
1 GAGCTTTTTGCAAAAAATCAAC-TTGAAAAGATCAAATTATGAAAATACCCTTAAAAGATATTTT
* * * * * *
1697737 AGTAACTTTACT-CTTTTTAG-AGTGCGATGAGGTTTTTTAATGTATAAAAAATCTTGAAATAAT
65 GGTAA-TTT-CTAC-ATTTAGAAGTGCGATAAAG-TTTTTAATATAT-AAAAATCATGAAATAAT
1697800 ATCAAAATATGATTCG
125 ATCAAAATATGATTCG
* *
1697816 GAGCTTTTTGCAAAAAATCAACTTCGAAAAAGATCAAATTATAAAAATACCCTTAAAATATATTT
1 GAGCTTTTTGCAAAAAATCAACTT-G-AAAAGATCAAATTATGAAAATACCCTTAAAAGATATTT
* *
1697881 TGGTAATTTCGTACATTTAGAAGTGCAATCAAAGTTTTTAATATATCAAAAGTCATGAAATAATA
64 TGGTAATTTC-TACATTTAGAAGTGCGAT-AAAGTTTTTAATATAT-AAAAATCATGAAATAATA
* *
1697946 TCAAAACATGATTTG
126 TCAAAATATGATTCG
* ** * * * * * *
1697961 AAG-TTTTTTTATGAAATACCAACCTTGAAAAG-TCAAATTATGAAAATACCTTTAGAGGACATT
1 GAGCTTTTTGCA--AAAAATCAA-CTTGAAAAGATCAAATTATGAAAATACCCTTAAAAGATATT
* ** * *
1698024 TTGGTAGTTTC-ACACTTTTTAAGGTGCGATAAAGGTTTTAATATATAAAAATCATGAAATTATA
63 TTGGTAATTTCTACA-TTTAGAA-GTGCGATAAAGTTTTTAATATATAAAAATCATGAAATAATA
1698088 TCAAAATATGAT
126 TCAAAATATGAT
1698100 CTAAAACTTT
Statistics
Matches: 236, Mismatches: 37, Indels: 24
0.79 0.12 0.08
Matches are distributed among these distances:
142 30 0.13
143 23 0.10
144 76 0.32
145 94 0.40
146 10 0.04
147 3 0.01
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (140 bp):
GAGCTTTTTGCAAAAAATCAACTTGAAAAGATCAAATTATGAAAATACCCTTAAAAGATATTTTG
GTAATTTCTACATTTAGAAGTGCGATAAAGTTTTTAATATATAAAAATCATGAAATAATATCAAA
ATATGATTCG
Found at i:1704098 original size:142 final size:145
Alignment explanation
Indices: 1703789--1704098 Score: 376
Period size: 142 Copynumber: 2.2 Consensus size: 145
1703779 TGCAACACCC
* * * * * *
1703789 TGAAATAATATCAAATTTTGATTTGAAGCATTTTTGCAAAAAATCAACTTCGAAAAAAATTAAAT
1 TGAAATAATATCAAAATATGATTTGAAGCATTTTTACAAAAAACCAACCTCG-AAAAAATCAAAT
* *
1703854 TATAAAAATACGCTTAAAAGATATTTTGATAATTTTACACCTTTAAAAGTGCAATCAAGGTTTTT
65 TATAAAAATACGCTTAAAAGATATTTTGATAATTTCACACCTTTAAAAGTGCAATCAAGGGTTTT
1703919 AATATATCAAAAATCA
130 AATATATCAAAAATCA
* * * *
1703935 TGAAATAATATCAAAACATGATTTGAAG-TTTTTTACGAAATACCAACCTCG-AAAAATCAAATT
1 TGAAATAATATCAAAATATGATTTGAAGCATTTTTACAAAAAACCAACCTCGAAAAAATCAAATT
* ** * * * * ** *
1703998 ATGAAAATACTTTTAAAGGTTATTTTGGTAGTTTCACA-CTTTTTAAGATGCGAT-AAGGGTTTT
66 ATAAAAATACGCTTAAAAGATATTTTGATAATTTCACACCTTTAAAAG-TGCAATCAAGGGTTTT
1704061 AATATATCAAAAATCA
130 AATATATCAAAAATCA
1704077 TGAAATAATATCAAAATATGAT
1 TGAAATAATATCAAAATATGAT
1704099 CTAAAACTTT
Statistics
Matches: 140, Mismatches: 23, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
142 52 0.37
143 46 0.33
145 17 0.12
146 25 0.18
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (145 bp):
TGAAATAATATCAAAATATGATTTGAAGCATTTTTACAAAAAACCAACCTCGAAAAAATCAAATT
ATAAAAATACGCTTAAAAGATATTTTGATAATTTCACACCTTTAAAAGTGCAATCAAGGGTTTTA
ATATATCAAAAATCA
Found at i:1704119 original size:143 final size:143
Alignment explanation
Indices: 1703843--1704120 Score: 346
Period size: 143 Copynumber: 1.9 Consensus size: 143
1703833 CAACTTCGAA
* *
1703843 AAAAATTAAATTATAAAAATACGCTTAAAAGATATTTTGATAATTTTACACCTTTAAAAGTGCAA
1 AAAAATCAAATTATAAAAATACGCTTAAAAGATATTTTGATAATTTCACACCTTTAAAAGTGCAA
* ** * *
1703908 TCAAGGTTTTTAATATATCAAAAATCATGAAATAATATCAAAACATGATTTGAAGTTTTTTACGA
66 TCAAGGGTTTTAATATATCAAAAATCATGAAATAATATCAAAACATGATTAAAACTTTTTTACAA
1703973 AATACCAACCTCG
131 AATACCAACCTCG
* ** * * * * ** *
1703986 AAAAATCAAATTATGAAAATACTTTTAAAGGTTATTTTGGTAGTTTCACA-CTTTTTAAGATGCG
1 AAAAATCAAATTATAAAAATACGCTTAAAAGATATTTTGATAATTTCACACCTTTAAAAG-TGCA
*
1704050 AT-AAGGGTTTTAATATATCAAAAATCATGAAATAATATCAAAATATGATCTAAAACTTTTTATA
65 ATCAAGGGTTTTAATATATCAAAAATCATGAAATAATATCAAAACATGAT-TAAAACTTTTT-TA
1704114 -AAAATAC
128 CAAAATAC
1704121 TCTTAAAGGA
Statistics
Matches: 114, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
142 52 0.46
143 60 0.53
144 2 0.02
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (143 bp):
AAAAATCAAATTATAAAAATACGCTTAAAAGATATTTTGATAATTTCACACCTTTAAAAGTGCAA
TCAAGGGTTTTAATATATCAAAAATCATGAAATAATATCAAAACATGATTAAAACTTTTTTACAA
AATACCAACCTCG
Found at i:1704915 original size:9 final size:9
Alignment explanation
Indices: 1704897--1704939 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
1704887 GACAATAAAT
*
1704897 TAAAACAAA
1 TAAAAAAAA
1704906 TAAAAAAAA
1 TAAAAAAAA
* *
1704915 TTAAAAATA
1 TAAAAAAAA
1704924 -AAAAAAAA
1 TAAAAAAAA
1704932 TAAAAAAA
1 TAAAAAAA
1704940 TGCCAAAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
8 6 0.21
9 22 0.79
ACGTcount: A:0.84, C:0.02, G:0.00, T:0.14
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:1704924 original size:16 final size:16
Alignment explanation
Indices: 1704903--1704937 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
1704893 AAATTAAAAC
*
1704903 AAATAAAAAAAATTAA
1 AAATAAAAAAAAATAA
1704919 AAATAAAAAAAAATAA
1 AAATAAAAAAAAATAA
1704935 AAA
1 AAA
1704938 AATGCCAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (16 bp):
AAATAAAAAAAAATAA
Found at i:1705934 original size:52 final size:52
Alignment explanation
Indices: 1705877--1705984 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
1705867 AGAGAAAGGG
* * *
1705877 TTTGACTTGCAAGATAAAAATTCTAA-AAGGAAAGGGATTTTTAATAGGCAAA
1 TTTGACTTACAAGAGAAAAATTCTAAGAA-GAAAGGGATTCTTAATAGGCAAA
* * * *
1705929 TTTGACTTACAGGAGAAAAATTCTAAGAAGAGAGGGATTCTTAATGGGCAAG
1 TTTGACTTACAAGAGAAAAATTCTAAGAAGAAAGGGATTCTTAATAGGCAAA
1705981 TTTG
1 TTTG
1705985 TATGGTTATA
Statistics
Matches: 48, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
52 46 0.96
53 2 0.04
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (52 bp):
TTTGACTTACAAGAGAAAAATTCTAAGAAGAAAGGGATTCTTAATAGGCAAA
Found at i:1713374 original size:15 final size:15
Alignment explanation
Indices: 1713354--1713383 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1713344 CAGTGTAAAC
1713354 TATCAATAACTCAAT
1 TATCAATAACTCAAT
1713369 TATCAATAACTCAAT
1 TATCAATAACTCAAT
1713384 ACTAAATCAG
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:0.47, C:0.20, G:0.00, T:0.33
Consensus pattern (15 bp):
TATCAATAACTCAAT
Found at i:1713481 original size:22 final size:22
Alignment explanation
Indices: 1713423--1713481 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
1713413 CAATGATAAT
** *
1713423 ATAAATTAATGATAGTTTAATA
1 ATAAATTAATGATAACTCAATA
* *
1713445 GTAAA-TAATTTATAACTCAATA
1 ATAAATTAA-TGATAACTCAATA
1713467 ATAAATTAATGATAA
1 ATAAATTAATGATAA
1713482 GTATTAACTT
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
21 3 0.11
22 22 0.79
23 3 0.11
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (22 bp):
ATAAATTAATGATAACTCAATA
Found at i:1713589 original size:22 final size:22
Alignment explanation
Indices: 1713551--1713624 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
1713541 GTACTAAATC
*
1713551 AATTATAATAGTAAATTAATAAT
1 AATT-TAATAGCAAATTAATAAT
*
1713574 AATTTAGTAGCAAATTAATAAT
1 AATTTAATAGCAAATTAATAAT
* * *
1713596 AACTTAATAGTAAATTAATGAT
1 AATTTAATAGCAAATTAATAAT
1713618 AACTTTA
1 AA-TTTA
1713625 TTGAGTAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 36 0.84
23 7 0.16
ACGTcount: A:0.51, C:0.04, G:0.07, T:0.38
Consensus pattern (22 bp):
AATTTAATAGCAAATTAATAAT
Found at i:1713604 original size:11 final size:11
Alignment explanation
Indices: 1713556--1713619 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 11
1713546 AAATCAATTA
*
1713556 TAATAGTAAAT
1 TAATAATAAAT
*
1713567 TAATAATAATT
1 TAATAATAAAT
* **
1713578 TAGTAGCAAAT
1 TAATAATAAAT
*
1713589 TAATAATAACT
1 TAATAATAAAT
*
1713600 TAATAGTAAAT
1 TAATAATAAAT
*
1713611 TAATGATAA
1 TAATAATAA
1713620 CTTTATTGAG
Statistics
Matches: 39, Mismatches: 14, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 39 1.00
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (11 bp):
TAATAATAAAT
Found at i:1713674 original size:22 final size:22
Alignment explanation
Indices: 1713646--1713699 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
1713636 TACGATAGCT
*
1713646 TAATAAATTA-TCGACAACTTAA
1 TAATAAATCATTC-ACAACTTAA
*
1713668 TAATAAATCATTCATAACTTAA
1 TAATAAATCATTCACAACTTAA
*
1713690 TAGTAAATCA
1 TAATAAATCA
1713700 ATGTATAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
22 26 0.93
23 2 0.07
ACGTcount: A:0.50, C:0.13, G:0.04, T:0.33
Consensus pattern (22 bp):
TAATAAATCATTCACAACTTAA
Found at i:1713978 original size:3 final size:3
Alignment explanation
Indices: 1713966--1714021 Score: 94
Period size: 3 Copynumber: 18.7 Consensus size: 3
1713956 TAATAATAAT
* *
1713966 AAC AAT AAC AAC AAC AAC AAC AGC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1714014 AAC AAC AA
1 AAC AAC AA
1714022 TAATAATAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.66, C:0.30, G:0.02, T:0.02
Consensus pattern (3 bp):
AAC
Found at i:1714918 original size:2 final size:2
Alignment explanation
Indices: 1714911--1714935 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1714901 AATAATAATA
1714911 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 A
1714936 CTTATATTCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1715671 original size:30 final size:30
Alignment explanation
Indices: 1715637--1715695 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
1715627 TTTTCAAAAC
*
1715637 TTCTTATAACATGCATAAATTACTTATGTT
1 TTCTTATAAAATGCATAAATTACTTATGTT
* *
1715667 TTCTTATAAAATTCATAAATTATTTATGT
1 TTCTTATAAAATGCATAAATTACTTATGT
1715696 AGCAAAGAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (30 bp):
TTCTTATAAAATGCATAAATTACTTATGTT
Found at i:1728394 original size:26 final size:26
Alignment explanation
Indices: 1728340--1728405 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
1728330 TCCCATCTGG
1728340 AAAA-AAAAAAAAAAGCAACAATAAT
1 AAAACAAAAAAAAAAGCAACAATAAT
* *
1728365 AAAAGAATAAAAAAAAGCAA-AA-AGT
1 AAAACAA-AAAAAAAAGCAACAATAAT
1728390 CAAAACAAAAAAAAAA
1 -AAAACAAAAAAAAAA
1728406 TCATGACTTC
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
25 14 0.39
26 10 0.28
27 12 0.33
ACGTcount: A:0.80, C:0.08, G:0.06, T:0.06
Consensus pattern (26 bp):
AAAACAAAAAAAAAAGCAACAATAAT
Found at i:1730999 original size:143 final size:142
Alignment explanation
Indices: 1730749--1731144 Score: 406
Period size: 145 Copynumber: 2.8 Consensus size: 142
1730739 AAAGTTTTAG
* *
1730749 ATCATATTTTGATATTATTTCATGATTTTTGATATATTAAAACCTTTATCGCACCTT-AAAAAGT
1 ATCATATTTTGATATTATTTCATGATTTTTGATATATTAAAAACTTTATCGCA-CTTCTAAAAGT
** * * * * *
1730813 GTGGAACTACCAAAATGTCATCTAAAGGTATTTTCATAATTTGAC-TTTTC-AAGGTTGGTAT-T
65 GTAAAATTACCAAAATAT-ATTTTAAGGTATTTTCATAATTTGACTTTTTCGAA-GTTGAT-TCT
* *
1730875 TCGTAAAAAACTTCAA
127 TCGCAAAAAACTCCAA
* * * * *
1730891 ATCATGTTTCGATATTATTTCATGACTTTTGATATATTAAAAACTTTGATTGCACTTCTAAATGT
1 ATCATATTTTGATATTATTTCATGATTTTTGATATATTAAAAACTTT-ATCGCACTTCTAAAAGT
*
1730956 GTAAAATTACCAAAATATATTTTAAGAGTATTTTTATAATTTGACTTTTTTCGAAGTTGATTCTT
65 GTAAAATTACCAAAATATATTTTAAG-GTATTTTCATAATTTGAC-TTTTTCGAAGTTGATTCTT
* *
1731021 CGCAAAAAGCTCCGA
128 CGCAAAAAACTCCAA
* * * * * *
1731036 ATCATATTTTGGTATTATTTCAAGATTTTTTATACATTAAAAAACCTCATCGCAC-TCTAAAAAG
1 ATCATATTTTGATATTATTTCATGATTTTTGATATATT-AAAAACTTTATCGCACTTCT-AAAAG
* * * *
1731100 AGTAAAATTACTAAAATATCTTTTACGGGTATTTTCATAATTTGA
64 TGTAAAATTACCAAAATATATTTTA-AGGTATTTTCATAATTTGA
1731145 TCTTACCAAA
Statistics
Matches: 209, Mismatches: 35, Indels: 17
0.80 0.13 0.07
Matches are distributed among these distances:
142 52 0.25
143 41 0.20
144 4 0.02
145 102 0.49
146 10 0.05
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (142 bp):
ATCATATTTTGATATTATTTCATGATTTTTGATATATTAAAAACTTTATCGCACTTCTAAAAGTG
TAAAATTACCAAAATATATTTTAAGGTATTTTCATAATTTGACTTTTTCGAAGTTGATTCTTCGC
AAAAAACTCCAA
Found at i:1734875 original size:23 final size:24
Alignment explanation
Indices: 1734836--1734891 Score: 87
Period size: 23 Copynumber: 2.4 Consensus size: 24
1734826 TTTCAATAAT
*
1734836 ATTTTCTTAAAGATTATTCAAGGC
1 ATTTTCTTAAAGATTATTCAAAGC
*
1734860 ATTTT-TTTAAGATTATTCAAAGC
1 ATTTTCTTAAAGATTATTCAAAGC
1734883 ATTTTCTTA
1 ATTTTCTTA
1734892 CTAAATATAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
23 21 0.75
24 7 0.25
ACGTcount: A:0.32, C:0.11, G:0.09, T:0.48
Consensus pattern (24 bp):
ATTTTCTTAAAGATTATTCAAAGC
Found at i:1736886 original size:23 final size:21
Alignment explanation
Indices: 1736836--1736891 Score: 60
Period size: 23 Copynumber: 2.6 Consensus size: 21
1736826 AAATATAAGT
*
1736836 ATTA-AAACTAAATTAATAAAT
1 ATTATAAAC-AAATTAATAAAA
*
1736857 ATAATAAACAAATTAATATTAAA
1 ATTATAAACAAATTAATA--AAA
1736880 ATTATAAACAAA
1 ATTATAAACAAA
1736892 ATCATACTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 12 0.41
22 4 0.14
23 13 0.45
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.30
Consensus pattern (21 bp):
ATTATAAACAAATTAATAAAA
Found at i:1738573 original size:13 final size:14
Alignment explanation
Indices: 1738541--1738576 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
1738531 ACTTAAAAAT
1738541 ATCATTCAGTAAAC
1 ATCATTCAGTAAAC
1738555 --CATTCAG-AAAC
1 ATCATTCAGTAAAC
1738566 ATCATTCAGTA
1 ATCATTCAGTA
1738577 TATGATTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 6
0.76 0.00 0.24
Matches are distributed among these distances:
11 4 0.21
12 7 0.37
13 7 0.37
14 1 0.05
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (14 bp):
ATCATTCAGTAAAC
Found at i:1738575 original size:25 final size:25
Alignment explanation
Indices: 1738514--1738576 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
1738504 GTGCTCAAAC
* *
1738514 ACATCCTTCAGCAAACCACTTAAAA
1 ACATCATTCAGTAAACCACTTAAAA
* *
1738539 ATATCATTCAGTAAACCA-TTCAGAA
1 ACATCATTCAGTAAACCACTT-AAAA
1738564 ACATCATTCAGTA
1 ACATCATTCAGTA
1738577 TATGATTCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
24 2 0.06
25 30 0.94
ACGTcount: A:0.43, C:0.25, G:0.06, T:0.25
Consensus pattern (25 bp):
ACATCATTCAGTAAACCACTTAAAA
Found at i:1739810 original size:186 final size:186
Alignment explanation
Indices: 1739215--1740358 Score: 1176
Period size: 187 Copynumber: 6.1 Consensus size: 186
1739205 TTTTTAGTAG
* *
1739215 AAAATCGCCTTCAATAATTATGTACA-AAAGTTTA-AAAGAATTAGT-AAATACATTTTTCTAGA
1 AAAAT-GCTTTCAATAATTATGTACATAAA--TTAGAAAGAATTAGTGAAA-GCATTTTTCTAGA
* * * * * * * *
1739277 ATAAATGTCTTCATTAATCGTTTTAAAATTTGAGTAGTGGAATATTGAAGGCATTTTTCACTGGA
62 ATAAATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGAA
* * * *
1739342 AGACACATTTAATAATCCCAAAAAATTTAAGAGAAAATTATTGAAGGC-ATTTGTTTTCAAA
127 AGACGCCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGGCGA-TTGTTTTC-AA
* * ** * * * * *
1739403 AAAATACCTTCAATAATTATGTGTATAAATTAAAAAAAAATAGTGAATGTATTTTTCTAGAATAA
1 AAAATGCTTTCAATAATTATGTACATAAATTAGAAAGAATTAGTGAAAGCATTTTTCTAGAATAA
* ** * * * *
1739468 ACGCCTTTGCTAAATGTTTTAAAATTTAAGTTGTGAAAAATTGAAGGCAATTTTCACTGAAAGAT
66 ATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGAAAGA-
* * * * *
1739533 GCCTTTGCCTTTAATAATCTTAAAATTTTTAAGAGAAAATTATTGAAGGCGTTTGTTCTAAA
130 --C---GCCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGGCGATTGTTTTCAA
* * * * * *
1739595 AAAATACCTTCAATAATTATGTGCATAAATTAGAAGGAATTAGTGAAAGCGTTTTTCTAAAATAA
1 AAAATGCTTTCAATAATTATGTACATAAATTAGAAAGAATTAGTGAAAGCATTTTTCTAGAATAA
* * * * *
1739660 ATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTAAAAAATTAAATGCATTTTTCATTGGAAGAC
66 ATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGAAAGAC
*
1739725 GCCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTAAAGGCGATTGTTTTCAA
131 GCCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGGCGATTGTTTTCAA
* * *
1739781 AAAATGCTTTCAATAATTATGTACATAAATTAGAAAGAACTAGTGAAGGCATTTTTCTAAAATAA
1 AAAATGCTTTCAATAATTATGTACATAAATTAGAAAGAATTAGTGAAAGCATTTTTCTAGAATAA
* * * * **
1739846 A-ACACATTTACTAAATGTCTTAAAATTTGGGTTGTGAAAAATTGAAGGTGTTTTTCACTGAAAG
66 ATGC-C-TTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGAAAG
* * *
1739910 ATGCCTTTAATAAT-CTCAAAAATTTTAATAAAAAATTATTGCAA-GCGATTGTTTTCAAA
129 ACGCCTTTAATAATCCT-AAAAATTTTAAGAGAAAATTATTG-AAGGCGATTGTTTTC-AA
** **
1739969 AAAATGCCTTT-AATAATTATGTATGTAAATTAGAAAGAATTA-CCAAATGCATTTTTCTAGAAT
1 AAAATG-CTTTCAATAATTATGTACATAAATTAGAAAGAATTAGTGAAA-GCATTTTTCTAGAAT
* *
1740032 AAATGCTTTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGGAAG
64 AAATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGAAAG
* * * *
1740097 ACGCATTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGAAGGCGATTATTTTCCA
129 ACGCCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGGCGATTGTTTTCAA
* * * * **
1740155 AAAACG-TATTCAATAATTATGTACGTAAATTAGAATGAATTAGTGAAGGTGTTTTTCTAGAATA
1 AAAATGCT-TTCAATAATTATGTACATAAATTAGAAAGAATTAGTGAAAGCATTTTTCTAGAATA
* * * * ** * *
1740219 AACGCCTTCACT-AACATTCTTAAAATTTGAGTTGTGAAATATTGAATGTGTTTTTCACTAAAAT
65 AATGCCTTCACTAAAC-GTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGAAAG
* * * * *** * *
1740283 ATGCTTTTAATAATCTTAAAAATTTTAAAAGAAAATTATTGAACATGTTTGTTCTCAA
129 ACGCCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGGCGATTGTTTTCAA
* *
1740341 AAAACGCTTTCACTAATT
1 AAAATGCTTTCAATAATT
1740359 GTCTTAAAGT
Statistics
Matches: 799, Mismatches: 132, Indels: 52
0.81 0.13 0.05
Matches are distributed among these distances:
184 1 0.00
185 6 0.01
186 277 0.35
187 288 0.36
188 66 0.08
189 6 0.01
190 1 0.00
192 110 0.14
193 44 0.06
ACGTcount: A:0.40, C:0.11, G:0.13, T:0.36
Consensus pattern (186 bp):
AAAATGCTTTCAATAATTATGTACATAAATTAGAAAGAATTAGTGAAAGCATTTTTCTAGAATAA
ATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGAAAGAC
GCCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTGAAGGCGATTGTTTTCAA
Found at i:1740097 original size:374 final size:370
Alignment explanation
Indices: 1739215--1740325 Score: 1365
Period size: 374 Copynumber: 3.0 Consensus size: 370
1739205 TTTTTAGTAG
** *
1739215 AAAATCGCCTTCAATAATTATGTACA-AAAGTTTA-AAAGAATTAGTAAATACATTTTTCTAGAA
1 AAAAT-GCCTTCAATAATTATGTA-ATAAA--TTAGAAAGAATTACCAAATGCATTTTTCTAGAA
* * * * * *
1739278 TAAATG-TCTTCATTAATCGTTTTAAAATTTGAGTAGTGGAATATTGAAGGCATTTTTCACTGGA
62 TAAATGCT-TTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGGA
* *
1739342 AGACACATTTAATAATCCCAAAAAATTTAAGAGAAAATTATTGAAGGC-ATTTGTTTTCAAAAAA
126 AGACGCATTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGAAGGCGA-TTGTTTTC-AAAAA
* * ** * * *
1739406 ATACCTTCAATAATTATGTGTATAAATTAAAAAAAAATAGTGAATGTATTTTTCTAGAATAAACG
189 ATGCTTTCAATAATTATGTACATAAATTAGAAAGAAATAGTGAAGGTATTTTTCTAGAATAAACG
* * * ***
1739471 CCTTTGCTAAATGTTTTAAAATTTAAGTTGTGAAAAATTGAAGGCAATTTTCACTGAAAGATGCC
254 CCTTTACTAAATGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTTCACTGAAAGA----
* * *
1739536 TTTGCCTTTAATAATCTTAAAATTTTTAAGAGAAAATTATTGAAGGCGTTTGTTCTAAA
315 --TGCCTTTAATAATCTTAAAAATTTTAA-AAAAAATTATTGAAGGCGATTGTTCTAAA
* * * ** * *
1739595 AAAATACCTTCAATAATTATGTGCATAAATTAGAAGGAATTAGTGAAA-GCGTTTTTCTAAAATA
1 AAAATGCCTTCAATAATTATGT-AATAAATTAGAAAGAATTA-CCAAATGCATTTTTCTAGAATA
* * * * *
1739659 AATGCCTTCACTAAACGTCTTAAAATTTGAGTTGTAAAAAATTAAATGCATTTTTCATTGGAAGA
64 AATGCTTTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGGAAGA
* * *
1739724 CGCCTTTAATAATCCTAAAAATTTTAAGAGAAAATTATTAAAGGCGATTGTTTTCAAAAAATGCT
129 CGCATTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGAAGGCGATTGTTTTCAAAAAATGCT
* * * * *
1739789 TTCAATAATTATGTACATAAATTAGAAAGAACTAGTGAAGGCATTTTTCTAAAATAAAACACATT
194 TTCAATAATTATGTACATAAATTAGAAAGAAATAGTGAAGGTATTTTTCTAGAAT-AAACGCCTT
*
1739854 TACTAAATGTCTTAAAATTTGGGTTGTGAAAAATTGAAGGTGTTTTTCACTGAAAGATGCCTTTA
258 TACTAAATGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTTCACTGAAAGATGCCTTTA
* *
1739919 ATAATCTCAAAAATTTTAATAAAAAATTATTGCAA-GCGATTGTTTTCAAA
323 ATAATCTTAAAAATTTTAA-AAAAAATTATTG-AAGGCGATTGTTCT-AAA
* *
1739969 AAAATGCCTTTAATAATTATGTATGTAAATTAGAAAGAATTACCAAATGCATTTTTCTAGAATAA
1 AAAATGCCTTCAATAATTATGTA-ATAAATTAGAAAGAATTACCAAATGCATTTTTCTAGAATAA
1740034 ATGCTTTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGGAAGAC
65 ATGCTTTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGGAAGAC
* * *
1740099 GCATTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGAAGGCGATTATTTTCCAAAAACG-TA
130 GCATTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGAAGGCGATTGTTTTCAAAAAATGCT-
* * * * *
1740163 TTCAATAATTATGTACGTAAATTAGAATGAATTAGTGAAGGTGTTTTTCTAGAATAAACGCCTTC
194 TTCAATAATTATGTACATAAATTAGAAAGAAATAGTGAAGGTATTTTTCTAGAATAAACGCCTTT
* * * * *
1740228 ACTAACAT-TCTTAAAATTTGAGTTGTGAAATATTGAATGTGTTTTTCACTAAAATATGCTTTTA
259 ACTAA-ATGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTTCACTGAAAGATGCCTTTA
1740292 ATAATCTTAAAAATTTTAAAAGAAAATTATTGAA
323 ATAATCTTAAAAATTTTAAAA-AAAATTATTGAA
1740326 CATGTTTGTT
Statistics
Matches: 632, Mismatches: 85, Indels: 36
0.84 0.11 0.05
Matches are distributed among these distances:
372 4 0.01
373 139 0.22
374 223 0.35
378 58 0.09
379 196 0.31
380 12 0.02
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.36
Consensus pattern (370 bp):
AAAATGCCTTCAATAATTATGTAATAAATTAGAAAGAATTACCAAATGCATTTTTCTAGAATAAA
TGCTTTCACTAAACGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGCATTTTTCACTGGAAGACG
CATTTAATAATCCCAAAAATTTTAAGAGAAAATTATTGAAGGCGATTGTTTTCAAAAAATGCTTT
CAATAATTATGTACATAAATTAGAAAGAAATAGTGAAGGTATTTTTCTAGAATAAACGCCTTTAC
TAAATGTCTTAAAATTTGAGTTGTGAAAAATTGAAGGTGTTTTTCACTGAAAGATGCCTTTAATA
ATCTTAAAAATTTTAAAAAAAATTATTGAAGGCGATTGTTCTAAA
Found at i:1746048 original size:26 final size:25
Alignment explanation
Indices: 1745987--1746048 Score: 72
Period size: 26 Copynumber: 2.4 Consensus size: 25
1745977 TATTAATATA
1745987 ATTATTAAAATATTAAAAATTACTT
1 ATTATTAAAATATTAAAAATTACTT
* * *
1746012 ACTATTCAAATATATT-GAAATTATTT
1 ATTATT-AAA-ATATTAAAAATTACTT
1746038 ATTATTAAAAT
1 ATTATTAAAAT
1746049 TCTTACTATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
24 2 0.06
25 8 0.26
26 16 0.52
27 5 0.16
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (25 bp):
ATTATTAAAATATTAAAAATTACTT
Found at i:1746180 original size:19 final size:19
Alignment explanation
Indices: 1746158--1746200 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
1746148 TAATATTATT
*
1746158 TATTAA-TATATTATTATAA
1 TATTAACTA-ATTAATATAA
1746177 TATTAACTAATTAATATAA
1 TATTAACTAATTAATATAA
1746196 TATTA
1 TATTA
1746201 TTTGTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 20 0.91
20 2 0.09
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTAACTAATTAATATAA
Found at i:1746180 original size:23 final size:23
Alignment explanation
Indices: 1746148--1746353 Score: 143
Period size: 23 Copynumber: 8.9 Consensus size: 23
1746138 TTATTATTCT
1746148 TAATATTATTTATTAATATATTA
1 TAATATTATTTATTAATATATTA
* * * * *
1746171 TTATAATATTAACTAAT-TAATA
1 TAATATTATTTATTAATATATTA
* *
1746193 TAATATTATTTGTTAATAGATTA
1 TAATATTATTTATTAATATATTA
1746216 TAATATTATTTATTAATATATTA
1 TAATATTATTTATTAATATATTA
** * *
1746239 TGTTATTAGTATATT-ATTTATTA
1 TAATATTA-TTTATTAATATATTA
* *
1746262 TAATATTATAATACTATTTAT-TAATA
1 TAATATTAT--T--TATTAATATATTA
* * *
1746288 TCATATTATTTACTTATTAATATAA
1 TAATATTATTTA-TTAAT-ATATTA
* *
1746313 T-ATATTATTTGTTAATATAATA
1 TAATATTATTTATTAATATATTA
*
1746335 TCAT-TTATTTATTAATATA
1 TAATATTATTTATTAATATA
1746354 ATATTATTTA
Statistics
Matches: 140, Mismatches: 32, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
22 38 0.27
23 65 0.46
24 15 0.11
25 4 0.03
26 16 0.11
27 2 0.01
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
TAATATTATTTATTAATATATTA
Found at i:1746308 original size:99 final size:96
Alignment explanation
Indices: 1746150--1746331 Score: 215
Period size: 99 Copynumber: 1.9 Consensus size: 96
1746140 ATTATTCTTA
* * * *
1746150 ATATTATTTATTAATATATTATTATAATATTAACTAATTAATATAATATTATTTGTTAATAGATT
1 ATATTATTTATTAATATATTATAATAATATTAACTAATTAATATAATATTACTTATTAAT--ATA
1746215 ATAATATTATTTATTAATATATTATGTTATTAGT
64 AT-ATATTATTTATTAATATATTATGTTATTAGT
* * * * *
1746249 ATATTATTTATT-ATAATATTATAATACTATTTATTAATATCATATTAT-TTACTTATTAATATA
1 ATATTATTTATTAAT-ATATTATAATAATATTAACTAAT-TAATATAATATTACTTATTAATATA
*
1746312 ATATATTATTTGTTAATATA
64 ATATATTATTTATTAATATA
1746332 ATATCATTTA
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
96 17 0.24
97 4 0.06
98 2 0.03
99 41 0.58
100 7 0.10
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (96 bp):
ATATTATTTATTAATATATTATAATAATATTAACTAATTAATATAATATTACTTATTAATATAAT
ATATTATTTATTAATATATTATGTTATTAGT
Found at i:1746328 original size:42 final size:40
Alignment explanation
Indices: 1746186--1746357 Score: 153
Period size: 42 Copynumber: 4.3 Consensus size: 40
1746176 ATATTAACTA
* *
1746186 ATTAATAT-A-ATATTATTTGTT-A-ATAGATTATAATATT
1 ATTAATATAATATATTATTTGTTAATATATATTAT-TTATT
* *
1746223 ATTTAT-TAATATATTA--TGTTATTAGTATATTATTTATT
1 ATTAATATAATATATTATTTGTTAATA-TATATTATTTATT
* * *
1746261 A-TAATATTATAATACTATTTATTAATATCATATTATTTACTT
1 ATTAATATAAT-ATATTATTTGTTAATAT-ATATTATTTA-TT
*
1746303 ATTAATATAATATATTATTTGTTAATATAATATCATTTATTT
1 ATTAATATAATATATTATTTGTTAATAT-ATATTATTTA-TT
1746345 ATTAATATAATAT
1 ATTAATATAATAT
1746358 TATTTATAAG
Statistics
Matches: 108, Mismatches: 15, Indels: 19
0.76 0.11 0.13
Matches are distributed among these distances:
36 5 0.05
37 9 0.08
38 15 0.14
39 12 0.11
40 1 0.01
41 16 0.15
42 42 0.39
43 8 0.07
ACGTcount: A:0.41, C:0.02, G:0.03, T:0.54
Consensus pattern (40 bp):
ATTAATATAATATATTATTTGTTAATATATATTATTTATT
Found at i:1746363 original size:22 final size:22
Alignment explanation
Indices: 1746249--1746364 Score: 134
Period size: 22 Copynumber: 5.5 Consensus size: 22
1746239 TGTTATTAGT
*
1746249 ATATTATTTA-TTA-TAATATT
1 ATATTATTTATTTATTAATATA
* * *
1746269 ATAATA-CTATTTATTAATATC
1 ATATTATTTATTTATTAATATA
*
1746290 ATATTATTTACTTATTAATATA
1 ATATTATTTATTTATTAATATA
*
1746312 ATA-TA-TTATTTGTTAATATA
1 ATATTATTTATTTATTAATATA
*
1746332 ATATCATTTATTTATTAATATA
1 ATATTATTTATTTATTAATATA
1746354 ATATTATTTAT
1 ATATTATTTAT
1746365 AAGTAATATT
Statistics
Matches: 79, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
19 2 0.03
20 24 0.30
21 14 0.18
22 39 0.49
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (22 bp):
ATATTATTTATTTATTAATATA
Found at i:1746505 original size:22 final size:22
Alignment explanation
Indices: 1746480--1746529 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1746470 GAAAATAATC
*
1746480 TTATTTTTTGTTAATCAATAAA
1 TTATTTTCTGTTAATCAATAAA
*
1746502 TTATTTTCTGTTAATCAATTAA
1 TTATTTTCTGTTAATCAATAAA
1746524 TT-TTTT
1 TTATTTT
1746530 ATCAAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 4 0.15
22 22 0.85
ACGTcount: A:0.30, C:0.06, G:0.04, T:0.60
Consensus pattern (22 bp):
TTATTTTCTGTTAATCAATAAA
Found at i:1754024 original size:164 final size:164
Alignment explanation
Indices: 1753825--1754156 Score: 558
Period size: 164 Copynumber: 2.0 Consensus size: 164
1753815 TAGAAGTCTT
* * *
1753825 AAAAGGAGACTATAAAAGTATGACTATATTTGAAATCTATTTATTGATTTAAACTCTTATATTGA
1 AAAAAGAGACTATAAAAGCATGACTATATTTGAAATCTATTTATTGATGTAAACTCTTATATTGA
* *
1753890 GTTAAAATATAAAAGTTTTGAAACTTTTATTGAAATATTAAAATATCAGCTAATTATCTTTTACT
66 GTTAAAATATAAAAGTTTTGAAACTTCTATTGAAATATTAAAATATCAGCTAATTATCTTTCACT
1753955 AAGGGTGAATTTGGAGGCCTCATT-CTTAAAAAAA
131 AAGGGTGAATTTGGAGGCCTC-TTACTTAAAAAAA
* * * *
1753989 AAAAAGAGACTATAGAAGCATTATTATATTTGAAATCTATTTATTGATGTAAATTCTTATATTGA
1 AAAAAGAGACTATAAAAGCATGACTATATTTGAAATCTATTTATTGATGTAAACTCTTATATTGA
*
1754054 GTTAAAATATAAAAGTTTTGAAACTTCTATTGAAATATTAAGATATCAGCTAATTATCTTTCACT
66 GTTAAAATATAAAAGTTTTGAAACTTCTATTGAAATATTAAAATATCAGCTAATTATCTTTCACT
1754119 AAGGGTGAATTTGGAGGCCTCTTACTTAAAAAAA
131 AAGGGTGAATTTGGAGGCCTCTTACTTAAAAAAA
1754153 AAAA
1 AAAA
1754157 TCAAATAGTG
Statistics
Matches: 157, Mismatches: 10, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
163 2 0.01
164 155 0.99
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.37
Consensus pattern (164 bp):
AAAAAGAGACTATAAAAGCATGACTATATTTGAAATCTATTTATTGATGTAAACTCTTATATTGA
GTTAAAATATAAAAGTTTTGAAACTTCTATTGAAATATTAAAATATCAGCTAATTATCTTTCACT
AAGGGTGAATTTGGAGGCCTCTTACTTAAAAAAA
Found at i:1759646 original size:35 final size:31
Alignment explanation
Indices: 1759614--1759718 Score: 121
Period size: 28 Copynumber: 3.5 Consensus size: 31
1759604 ACAATAATTC
1759614 TTTAAATATTATATTAAATAATAAATTTATAA
1 TTTAAATATTATATTAAATAA-AAATTTATAA
*
1759646 TTTAAATATTATATT-AA-AAAATTTTA-AA
1 TTTAAATATTATATTAAATAAAAATTTATAA
**
1759674 TTTAAATATTATATTAAATATATCA-TTATAA
1 TTTAAATATTATATTAAATA-AAAATTTATAA
1759705 TTTAAGA-ATTATAT
1 TTTAA-ATATTATAT
1759719 ATTATATTAA
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
28 17 0.27
29 8 0.12
30 6 0.09
31 17 0.27
32 16 0.25
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
TTTAAATATTATATTAAATAAAAATTTATAA
Found at i:1759701 original size:12 final size:12
Alignment explanation
Indices: 1759615--1759694 Score: 51
Period size: 12 Copynumber: 6.7 Consensus size: 12
1759605 CAATAATTCT
1759615 TTAAATATTATA
1 TTAAATATTATA
* *
1759627 TTAAATAATAAA
1 TTAAATATTATA
*
1759639 TT---TATAAT-
1 TTAAATATTATA
1759647 TTAAATATTATA
1 TTAAATATTATA
* *
1759659 TTAAAAAATTTTAAA
1 TT---AAATATTATA
1759674 TTTAAATATTATA
1 -TTAAATATTATA
1759687 TTAAATAT
1 TTAAATAT
1759695 ATCATTATAA
Statistics
Matches: 50, Mismatches: 10, Indels: 16
0.66 0.13 0.21
Matches are distributed among these distances:
8 2 0.04
9 3 0.06
11 5 0.10
12 22 0.44
13 8 0.16
15 8 0.16
16 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TTAAATATTATA
Found at i:1760258 original size:18 final size:17
Alignment explanation
Indices: 1760195--1760259 Score: 51
Period size: 18 Copynumber: 3.6 Consensus size: 17
1760185 ATTAAATTTA
*
1760195 ATAATTTAAAACAT-AAT
1 ATAATATAAAA-ATAAAT
*
1760212 ATAATGATATGAAATAAAT
1 ATAAT-ATA-AAAATAAAT
*
1760231 ATGATATAAAAATAAGAT
1 ATAATATAAAAATAA-AT
*
1760249 ATAATTTAAAA
1 ATAATATAAAA
1760260 TTTTAACAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 7
0.75 0.12 0.14
Matches are distributed among these distances:
17 11 0.29
18 18 0.47
19 9 0.24
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (17 bp):
ATAATATAAAAATAAAT
Found at i:1762028 original size:21 final size:21
Alignment explanation
Indices: 1762002--1762043 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1761992 GCTATAGCAC
1762002 TCTCCACTTGTACAAAGGAAT
1 TCTCCACTTGTACAAAGGAAT
1762023 TCTCCACTTGTACAAAGGAAT
1 TCTCCACTTGTACAAAGGAAT
1762044 AAAAGAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.29
Consensus pattern (21 bp):
TCTCCACTTGTACAAAGGAAT
Found at i:1766945 original size:43 final size:43
Alignment explanation
Indices: 1766881--1766967 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
1766871 AGGTGCCCCT
* *
1766881 AGTCAAAAGAATTGAATAAACAAGTCTATCCACATGTAACATA
1 AGTCAAAAGAATTGAACAAACAAGTCTATCCACACGTAACATA
*
1766924 AGTCAAAAGAGTTGAACAAACAAGTCTATCCACACGTAACATA
1 AGTCAAAAGAATTGAACAAACAAGTCTATCCACACGTAACATA
1766967 A
1 A
1766968 AGGTTGCTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.48, C:0.18, G:0.13, T:0.21
Consensus pattern (43 bp):
AGTCAAAAGAATTGAACAAACAAGTCTATCCACACGTAACATA
Found at i:1771803 original size:304 final size:302
Alignment explanation
Indices: 1771246--1772125 Score: 1139
Period size: 304 Copynumber: 2.9 Consensus size: 302
1771236 GAATTATTAA
* * * * *
1771246 AGATTATTGAAGGCGGTTATATCCATAAACACCTTCAATAA-ATTTTTGTTAGGGATTATTCAAG
1 AGATTATTGAAAGTGGTTATATCTAGAAACGCCTTCAATAACA-TTTTGTTAGGGATTATTCAAG
* * * * *
1771310 GCGTTATCCATTGGAAAACGCCTTTATAATCCATTCGATTAATTTTTAGTTGGTATTATTGAATG
65 GCGTTATCCA-TGTAAAATGCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTAAACG
* * *
1771375 TGTTTTTTTAAAATGCCTTCAATAATTTATATAAAAAAGACTTGACGGATTCTTGAAGGCATTTT
129 TATTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGAC-TGACGGATTCTTGAAGGCATTTT
* * * * *
1771440 TTGTCAAAAATGCCTTTAATATTCCACACAATAAATTTTTAGTGGGATTAATAAATGTGGTTTTG
193 TTGCCCAAAATGCCTTTAATATTCCACACAATAAATTTTTGGTGGGATTATTGAATGTGGTTTTG
*
1771505 GTTAAAAATGCT-ATTAATA-TTCTAGATGATAAATTTTAATGGT-
258 GTTAAAAATGCTCATTAATATTTC-AAATGATAAATTTTAATGGTC
*
1771548 AGGATTATTGAAAGTGGTTATATCTAGAAACGCCTTCAATAACATTTTGTTATGGATTATTCAAG
1 A-GATTATTGAAAGTGGTTATATCTAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTCAAG
* * * *
1771613 GTGTTATCCATAGTAAAATGCCATTCATAATCAATTTGATTAATTTTTAGTTGGTATTATTAAAG
65 GCGTTATCCAT-GTAAAATGCC-TTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTAAAC
* *
1771678 GTATTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTCGATGGACTCTTGAAGGCATTT
128 GTATTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACT-GACGGATTCTTGAAGGCATTT
* *
1771743 TTTGCCCAAAATGCCTTTAATATTTCACATAATAAATTTTTGGTGGGATTATTGAATGTGGTTTT
192 TTTGCCCAAAATGCCTTTAATATTCCACACAATAAATTTTTGGTGGGATTATTGAATGTGGTTTT
* *
1771808 GGTAAAAAAATG-TCATTAATATTTCAAATGATAAATTTTGATGGTC
257 GGT-TAAAAATGCTCATTAATATTTCAAATGATAAATTTTAATGGTC
1771854 AGATTATT-AAAGGTGGTTATATCTAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTCAAG
1 AGATTATTGAAA-GTGGTTATATCTAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTCAAG
* * * *
1771918 GCGTTACCCGT-TAAAAATGCCCTTCATAATCCATTCAATTAATTTTTAGTTAGTATTATTTAAG
65 GCGTTATCCATGT-AAAATG-CCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTA-TTAA-
* * * * *
1771982 ACGTTTTTTTTTTAAACTCCTTCAATAATTCATACAAAAAAAACGTGACGGATTCTTGAAGGCAT
126 ACGTATTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGAC-TGACGGATTCTTGAAGGCAT
* * * * * *
1772047 TTTTTTCCCAAAACGCCTTTAATATTCCATACAATTAATTTTTGAG-GTGATTATTGAA-GTCGA
190 TTTTTGCCCAAAATGCCTTTAATATTCCACACAATAAATTTTTG-GTGGGATTATTGAATGT-GG
1772110 TTTTGGTTAAAAATGC
253 TTTTGGTTAAAAATGC
1772126 CTTCAAAATT
Statistics
Matches: 506, Mismatches: 54, Indels: 32
0.85 0.09 0.05
Matches are distributed among these distances:
302 2 0.00
303 74 0.15
304 199 0.39
305 113 0.22
306 116 0.23
307 2 0.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (302 bp):
AGATTATTGAAAGTGGTTATATCTAGAAACGCCTTCAATAACATTTTGTTAGGGATTATTCAAGG
CGTTATCCATGTAAAATGCCTTCATAATCCATTCGATTAATTTTTAGTTGGTATTATTAAACGTA
TTTTTTTAAAACGCCTTCAATAATTTATACAAAAAAGACTGACGGATTCTTGAAGGCATTTTTTG
CCCAAAATGCCTTTAATATTCCACACAATAAATTTTTGGTGGGATTATTGAATGTGGTTTTGGTT
AAAAATGCTCATTAATATTTCAAATGATAAATTTTAATGGTC
Found at i:1775664 original size:80 final size:79
Alignment explanation
Indices: 1775525--1775768 Score: 256
Period size: 80 Copynumber: 3.1 Consensus size: 79
1775515 ACTCAGAAAC
* * * * *
1775525 ACCATTTAGCATATGATTCAGCCCCTCAATATCATACAAAATCATTCAACAAAATAATATTAGAC
1 ACCATTCAGCATATGATTCAGCCCC-CAATATCATACAATACCATTCAACAAAACAATATCAGAC
*
1775590 AACAAAGTTCAGCAA
65 AACAAAGTTCAACAA
**** * *
1775605 ACCATTCAGCATATGATTCAGTCCCCCAATATCATACAATACCATTTGGTAATACAATATCATAC
1 ACCATTCAGCATATGATTCAG-CCCCCAATATCATACAATACCATTCAACAAAACAATATCAGAC
*
1775670 AACAAGGTTCAACAA
65 AACAAAGTTCAACAA
** * * * *
1775685 ACCATTCAGCATACAATTTAGCCCCCCAATATCATACAATACCATTCAGCAAAA-AAAATCAAAC
1 ACCATTCAGCATATGATTCAG-CCCCCAATATCATACAATACCATTCAACAAAACAATATCAGAC
* * *
1775749 AATAAGGTTCAATAA
65 AACAAAGTTCAACAA
1775764 ACCAT
1 ACCAT
1775769 AATATTTAAG
Statistics
Matches: 138, Mismatches: 25, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
79 26 0.19
80 108 0.78
81 4 0.03
ACGTcount: A:0.44, C:0.25, G:0.07, T:0.24
Consensus pattern (79 bp):
ACCATTCAGCATATGATTCAGCCCCCAATATCATACAATACCATTCAACAAAACAATATCAGACA
ACAAAGTTCAACAA
Found at i:1785192 original size:21 final size:21
Alignment explanation
Indices: 1785141--1785198 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
1785131 AAAAAAAGAA
*
1785141 CAAGAGCGTGCCAAAATTGAG
1 CAAGAGCGTGCCAAAATGGAG
* * * * *
1785162 GAAAAACGTGCTAGAATGGAG
1 CAAGAGCGTGCCAAAATGGAG
1785183 CAAGAGCGTG-CAAAAT
1 CAAGAGCGTGCCAAAAT
1785199 TTCAGTAGTT
Statistics
Matches: 26, Mismatches: 11, Indels: 1
0.68 0.29 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.41, C:0.16, G:0.29, T:0.14
Consensus pattern (21 bp):
CAAGAGCGTGCCAAAATGGAG
Found at i:1785874 original size:134 final size:134
Alignment explanation
Indices: 1785712--1786088 Score: 452
Period size: 134 Copynumber: 2.8 Consensus size: 134
1785702 ATATAAACAC
** *
1785712 CACCAAAGTAACAGTGTTTTTCTCATAAAAACGTCACTAAATTAGCAGTGTCTCAAAGATACAAA
1 CACCAAAGTAACAGCATTTTTCTTATAAAAACGTCACTAAATTAGCAGTGTCTCAAAGATACAAA
** * * *
1785777 TGTCATTAATATGGAGGTATTTTCAGATACTAACGCCTCTAAAGTAGCAGCGTTTTCAGTTACAA
66 CATCACTAATATAGAGGTATTTTCAGATACAAACGCCTCTAAAGTAGCAGCGTTTTCAGTTACAA
*
1785842 ATGT
131 ACGT
* * * *
1785846 CACCAAAGCAACAGCATTTTTCTTATAAAAATGTCACTAAATTAGCGGTGTCTCAAATATACAAA
1 CACCAAAGTAACAGCATTTTTCTTATAAAAACGTCACTAAATTAGCAGTGTCTCAAAGATACAAA
** *
1785911 CATTGCTAATATAGAGGTATTTTCAGATACAAACGCCTCTAAAGTAGCGGCGTTTTCAGTTACAA
66 CATCACTAATATAGAGGTATTTTCAGATACAAACGCCTCTAAAGTAGCAGCGTTTTCAGTTACAA
1785976 ACGT
131 ACGT
* * ** ** *
1785980 CACCAAAGTAA-TGACATTTTTCTTATAAAAACGTCACTAAGTTAGTGGCATCTTAAAGATACAA
1 CACCAAAGTAACAG-CATTTTTCTTATAAAAACGTCACTAAATTAGCAGTGTCTCAAAGATACAA
* *** * * *
1786044 AC-GCAGCTAATATAGAGACGTTTTCATATACAAATGCCTCCAAAG
65 ACATCA-CTAATATAGAGGTATTTTCAGATACAAACGCCTCTAAAG
1786089 CAATGACGTT
Statistics
Matches: 207, Mismatches: 34, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
133 1 0.00
134 206 1.00
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (134 bp):
CACCAAAGTAACAGCATTTTTCTTATAAAAACGTCACTAAATTAGCAGTGTCTCAAAGATACAAA
CATCACTAATATAGAGGTATTTTCAGATACAAACGCCTCTAAAGTAGCAGCGTTTTCAGTTACAA
ACGT
Found at i:1786012 original size:67 final size:67
Alignment explanation
Indices: 1785808--1786012 Score: 150
Period size: 67 Copynumber: 3.1 Consensus size: 67
1785798 TTCAGATACT
* * * *
1785808 AACGCCTCTAAAGTAGCAGCGTTTTCAGTTACAAATGTCACCAAAGCAA-CAGCATTTTTCTTAT
1 AACGCCTCTAAAGTAGCGGCGTTTTCAGTTACAAACGTCACCAAAGTAATGA-CATTTTTCTTAT
1785872 AAA
65 AAA
* * * * * * * * ** * ** *
1785875 AATGTCACTAAATTAGCGGTG-TCTCAAATATACAAACAT-TGCTAA-T-ATAGAGGTATTTTCA
1 AACGCCTCTAAAGTAGCGGCGTTTTC-AGT-TACAAACGTCACCAAAGTAAT-GACAT-TTTTCT
* *
1785936 GATACA
62 TATAAA
1785942 AACGCCTCTAAAGTAGCGGCGTTTTCAGTTACAAACGTCACCAAAGTAATGACATTTTTCTTATA
1 AACGCCTCTAAAGTAGCGGCGTTTTCAGTTACAAACGTCACCAAAGTAATGACATTTTTCTTATA
1786007 AA
66 AA
1786009 AACG
1 AACG
1786013 TCACTAAGTT
Statistics
Matches: 93, Mismatches: 36, Indels: 18
0.63 0.24 0.12
Matches are distributed among these distances:
65 1 0.01
66 12 0.13
67 64 0.69
68 14 0.15
69 2 0.02
ACGTcount: A:0.37, C:0.20, G:0.15, T:0.29
Consensus pattern (67 bp):
AACGCCTCTAAAGTAGCGGCGTTTTCAGTTACAAACGTCACCAAAGTAATGACATTTTTCTTATA
AA
Found at i:1788525 original size:61 final size:61
Alignment explanation
Indices: 1788356--1788528 Score: 158
Period size: 61 Copynumber: 2.8 Consensus size: 61
1788346 TACGAGGGGT
* ** * * *
1788356 ATTATAATAATTTTAACAAATAATGGTACTAAAAGCAT-TTTA-ATAATTATGATAAGAAGTC
1 ATTATAATAATTTTAACTAATAATGAAAAT-AGAG-ATATTTACATAATTATGATAAGAAGGC
* * * * *
1788417 ATTATAATAATTTTGA-TCAATTAT-AGAAAGAGGGATATTT-CTATAATTATGATAAGATGGC
1 ATTATAATAATTTTAACT-AATAATGA-AAATAGAGATATTTAC-ATAATTATGATAAGAAGGC
*
1788478 ATTATAATAATTTTAACTAATAATGAAAATAGAGATATTTACGTAATTATG
1 ATTATAATAATTTTAACTAATAATGAAAATAGAGATATTTACATAATTATG
1788529 GTAGAAAGAT
Statistics
Matches: 88, Mismatches: 16, Indels: 16
0.73 0.13 0.13
Matches are distributed among these distances:
59 2 0.02
60 5 0.06
61 78 0.89
62 3 0.03
ACGTcount: A:0.45, C:0.05, G:0.12, T:0.38
Consensus pattern (61 bp):
ATTATAATAATTTTAACTAATAATGAAAATAGAGATATTTACATAATTATGATAAGAAGGC
Found at i:1788525 original size:122 final size:124
Alignment explanation
Indices: 1788270--1788528 Score: 275
Period size: 122 Copynumber: 2.1 Consensus size: 124
1788260 TTATACAGGC
*
1788270 ATTTACGTAATTATGATAAAGGAACACTATAATAATTTTGATCAATTACGATGGAAGGGCATTTT
1 ATTTACGTAATTATGATAAAGGAACACTATAATAATTTTGATCAATTACGATGAAAGGGCATTTT
* * ** *
1788335 CATAAGAATGATACGAGGGGTATTATAATAATTTTAACAAATAATGGTACTAAAAGCAT
66 CATAAGAATGATAAGAGGGGCATTATAATAATTTTAACAAATAATGAAAATAAAAGCAT
* * * *
1788394 -TTTA-ATAATTATGAT-AA-GAAGTCATTATAATAATTTTGATCAATTA-TA-GAAAGAGGGAT
1 ATTTACGTAATTATGATAAAGGAA--CACTATAATAATTTTGATCAATTACGATGAAAG-GGCAT
** * * *
1788453 ATTTCTATAATTATGATAAGA-TGGCATTATAATAATTTTAACTAATAATGAAAAT-AGAG-AT
63 -TTTC-ATAAGAATGATAAGAGGGGCATTATAATAATTTTAACAAATAATGAAAATAAAAGCAT
1788514 ATTTACGTAATTATG
1 ATTTACGTAATTATG
1788529 GTAGAAAGAT
Statistics
Matches: 112, Mismatches: 16, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
120 9 0.08
121 14 0.12
122 73 0.65
123 16 0.14
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.36
Consensus pattern (124 bp):
ATTTACGTAATTATGATAAAGGAACACTATAATAATTTTGATCAATTACGATGAAAGGGCATTTT
CATAAGAATGATAAGAGGGGCATTATAATAATTTTAACAAATAATGAAAATAAAAGCAT
Found at i:1789380 original size:13 final size:13
Alignment explanation
Indices: 1789362--1789386 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1789352 TAATCTATTA
1789362 ATTTTAATTTTTG
1 ATTTTAATTTTTG
1789375 ATTTTAATTTTT
1 ATTTTAATTTTT
1789387 TTATTTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (13 bp):
ATTTTAATTTTTG
Found at i:1795734 original size:3 final size:3
Alignment explanation
Indices: 1795726--1795751 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1795716 GAATTACCAA
1795726 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
1795752 AGAAAAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:1797242 original size:765 final size:762
Alignment explanation
Indices: 1795881--1797551 Score: 1893
Period size: 765 Copynumber: 2.2 Consensus size: 762
1795871 GAAAATAAAA
* * * * * *
1795881 AAAAAAAATGTGAAAAGAGAGAAACCATGGGGTGGAGAGAGAATCAGAGAAAAGGGCAGACAATA
1 AAAAAAGATATGAAAAGAGAGAAATCATGGTGTGGAGAGAGAATCAAAGAAAAGGGCAAACAATA
* *
1795946 GGTGTAAGATGACCAAATTCAACCAGTTAAAAAACTTTGCTATCAATGTACTTGATAATTTCTCA
66 GGTGTAAGATGACCAAATTCAACCAGTTAAAAAACTTTACTATCAATGTACTTAATAATTTCTCA
*
1796011 AATACTAAATATGATATCAAAGATTTTTTTTTGGGGGTTAATTGTTGTTCTTATGAGTTTATTTA
131 AATACTAAATATAATATCAAAGATTTTTTTTTGGGGGTTAATTGTTGTTCTTATGAGTTTATTTA
* * *
1796076 TTTGATAGGTTTTTTCTTTCGATTTTTAATTATAAGCCTACACGTGAAAAAAAATGTTGACTATA
196 TTTGATAGGTTTTTACTTTCGATTTTTAATTATAAGCCTACACATGAAAAAAAATGCTGACTATA
** * *
1796141 ATGTGTATTATCCATTATCAATTAAGTTTGTCTTATATTGAAATCAAGTTTTTCATTTATTATTA
261 ACATGTATTATCCACTAACAATTAAGTTTGTCTTATATTGAAATCAAGTTTTTCATTTATTATTA
*
1796206 AATAATTTTAAATTGAATACTTACCTTAATATTTTTCTGAAAAAAAAAAAAAGAACATCATATTC
326 AATAATTTTAAATTGAATACTTACCTTAATATTTATCTG---AAAAAAAAAAGAACATCA-ATTC
* * * * * * * *
1796271 ATAAATTTCTTTGAACATTCATCTCTAATGGCATACTAATTAATCTAAAGACCGTTAGTTAGTCG
387 AGAAAGTTCTTTGAACATTCAACTCTAATGACACACTAATTAATCTAAAAACCGTCA--TAGTCA
*
1796336 ACAACATCAAACTATTACTTAAAAAATAAAAAGAGCTAGCAAATCATATTTGAAAATAGCTGCAA
450 ACAACATCAAACTATTACTTAAAAAATAAAAAGAGCTAGCAAATCATATTTGAAAATAGCTACAA
** * * * ** *
1796401 ATATCCTTCAACGTTAATACAATAAAAGTTGGATAAACCATAGGGCACTCCAAATACTATTGTTT
515 ATATCCCACAACATTAATACAATAAAAGTTAGACAAACCATAGGGCACTCCAAATAAGACTGTTT
* * * *
1796466 TAGTAATTAGAATTACAAAAAATAAAAATAAAAAAGAGAGACAAAAAGCATGAAATATTAGAGAA
580 TAGTAATTAGAATGAC--AAAA-AAAAATAAAAAAGAAAGACAAAAAGCATGAAATAATAAAGAA
*
1796531 AAAGAAAGAAAAAAAT-AAAAAAA-ATCAACAAT-AGTGTAATTTATTAATAAAAAGATTGAATT
642 AAAGAAAGAAAAAAATGAAAAAAATATCAACAATCA-TGTAATTTATTAAT-AAAAGATTAAATT
* *
1796593 CTTAATTTAGGATTCAAATCATTATATCCAAAAATATAAGAAAAAAAAAGAAAAAGGAGTG
705 CTTAACTTAGGATTCAAATCATGATATCCAAAAATAT-A-AAAAAAAAAG-AAAAGGAGTG
**
1796654 AAAAAAGATATGACGAGAGAGAAATCATGGTGTGGAGAGAGAATCAAAG-AAAGAGGCAAACAAT
1 AAAAAAGATATGAAAAGAGAGAAATCATGGTGTGGAGAGAGAATCAAAGAAAAG-GGCAAACAAT
* * * * * * * *
1796718 TGGTGTAATATGACC-AA-TCTAACTAGTTAAAATACTTTACTGTTAGTGTATTTAATAA-TTCT
65 AGGTGTAAGATGACCAAATTC-AACCAGTTAAAAAACTTTACTATCAATGTACTTAATAATTTCT
* * *** * *
1796780 CAAATACT-TATATAATATCAAATATTCAATTTATTTT-TTTGTTAATTGTTTTTTTTTATGAGT
129 CAAATACTAAATATAATATCAAAGATT---TTT-TTTTGGGGGTTAATTG-TTGTTCTTATGAG-
* * * * * *
1796843 TTTTTTTTATTTGATAGGTTATTTACTTTCTATTTTTAATTCTAAGCTTACATATGAAAGAAAAT
188 -TTTATTTATTTGATAGGTT-TTTACTTTCGATTTTTAATTATAAGCCTACACATGAAAAAAAAT
* * *
1796908 GCTGACTATAACATGTATTATCCACTAACAATTAAGTTTGTCTTATATTTAAGTCAAGTTTTTTA
251 GCTGACTATAACATGTATTATCCACTAACAATTAAGTTTGTCTTATATTGAAATCAAGTTTTTCA
* * * * * * * * **
1796973 TTTGTTATTAAGTAGTTTTAGATTGAATACTTACCTTTTATATTTATCTG-AAGAGAATATTACA
316 TTTATTATTAAATAATTTTAAATTGAATACTTACC-TTAATATTTATCTGAAAAAAAAAAGAACA
* * * *
1797037 -C-A-T-AGAAAGTTCTTTGAACCTTCAACTTTAATGATACACTAATTAATTTAAAAACCGTCA-
380 TCAATTCAGAAAGTTCTTTGAACATTCAACTCTAATGACACACTAATTAATCTAAAAACCGTCAT
* * *
1797097 A-TCAACAATATCAAACTATTACTTAAAAAATAAAGAGAGCTAGCTAATCATATTTGAAAATAGC
445 AGTCAACAACATCAAACTATTACTTAAAAAATAAAAAGAGCTAGCAAATCATATTTGAAAATAGC
* * * * *
1797161 TATAAATATCCCACGACATTCATATAATAAAAGTTAGACGAACCA-AGAGGCACTCCAAATAAGA
510 TACAAATATCCCACAACATTAATACAATAAAAGTTAGACAAACCATAG-GGCACTCCAAATAAGA
* * *
1797225 CTGTTTT-GCTTATTAGAATGACAAAAAAAAATCAAGAAGAAAGACAAAAAGCATGAAATAATAA
574 CTGTTTTAG-TAATTAGAATGACAAAAAAAAATAAAAAAGAAAGACAAAAAGCATGAAATAATAA
** * * * *
1797289 AGAAAATTAACGAAAAAAATGAGAAAAAAATATCAACAATCATGTGATTTATTGATAAAATATTA
638 AGAAAAAGAAAGAAAAAAAT--GAAAAAAATATCAACAATCATGTAATTTATTAATAAAAGATTA
* ** * *
1797354 AATTCTTAACTTAGGATTTAAATCATGATATCCACGAATATAAAAAATAAAGAAAATGAGTG
701 AATTCTTAACTTAGGATTCAAATCATGATATCCAAAAATATAAAAAAAAAAGAAAAGGAGTG
* * * * *
1797416 AAAAGAGATGTGAAAAGAGAGAAATCATGGTGTGGAGAGAGAATCAAAGAAAAGGGTAGACAATG
1 AAAAAAGATATGAAAAGAGAGAAATCATGGTGTGGAGAGAGAATCAAAGAAAAGGGCAAACAATA
* * * * * * * * * *
1797481 GGTCTGATATGACCAAATTCAACCAATTAAAAAGCTTCACTACCAATATATTTGATAATTTCTCA
66 GGTGTAAGATGACCAAATTCAACCAGTTAAAAAACTTTACTATCAATGTACTTAATAATTTCTCA
1797546 AATACT
131 AATACT
1797552 TAAAGATTCA
Statistics
Matches: 753, Mismatches: 123, Indels: 53
0.81 0.13 0.06
Matches are distributed among these distances:
762 124 0.16
763 46 0.06
764 18 0.02
765 174 0.23
766 22 0.03
767 1 0.00
769 46 0.06
770 16 0.02
771 15 0.02
772 36 0.05
773 76 0.10
774 24 0.03
776 18 0.02
777 125 0.17
778 12 0.02
ACGTcount: A:0.44, C:0.11, G:0.13, T:0.32
Consensus pattern (762 bp):
AAAAAAGATATGAAAAGAGAGAAATCATGGTGTGGAGAGAGAATCAAAGAAAAGGGCAAACAATA
GGTGTAAGATGACCAAATTCAACCAGTTAAAAAACTTTACTATCAATGTACTTAATAATTTCTCA
AATACTAAATATAATATCAAAGATTTTTTTTTGGGGGTTAATTGTTGTTCTTATGAGTTTATTTA
TTTGATAGGTTTTTACTTTCGATTTTTAATTATAAGCCTACACATGAAAAAAAATGCTGACTATA
ACATGTATTATCCACTAACAATTAAGTTTGTCTTATATTGAAATCAAGTTTTTCATTTATTATTA
AATAATTTTAAATTGAATACTTACCTTAATATTTATCTGAAAAAAAAAAGAACATCAATTCAGAA
AGTTCTTTGAACATTCAACTCTAATGACACACTAATTAATCTAAAAACCGTCATAGTCAACAACA
TCAAACTATTACTTAAAAAATAAAAAGAGCTAGCAAATCATATTTGAAAATAGCTACAAATATCC
CACAACATTAATACAATAAAAGTTAGACAAACCATAGGGCACTCCAAATAAGACTGTTTTAGTAA
TTAGAATGACAAAAAAAAATAAAAAAGAAAGACAAAAAGCATGAAATAATAAAGAAAAAGAAAGA
AAAAAATGAAAAAAATATCAACAATCATGTAATTTATTAATAAAAGATTAAATTCTTAACTTAGG
ATTCAAATCATGATATCCAAAAATATAAAAAAAAAAGAAAAGGAGTG
Found at i:1822714 original size:36 final size:36
Alignment explanation
Indices: 1822674--1822744 Score: 90
Period size: 35 Copynumber: 2.0 Consensus size: 36
1822664 AAAATAATAT
* *
1822674 TTTATTAATTTCAAATCGAATCGAA-TTAAATATAAC
1 TTTA-TAATATCAAATCAAATCGAATTTAAATATAAC
* *
1822710 TTTATAATATCATATCAAATTGAATTTAAATATAA
1 TTTATAATATCAAATCAAATCGAATTTAAATATAA
1822745 AAAAATTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
35 16 0.53
36 14 0.47
ACGTcount: A:0.46, C:0.08, G:0.04, T:0.41
Consensus pattern (36 bp):
TTTATAATATCAAATCAAATCGAATTTAAATATAAC
Found at i:1823195 original size:25 final size:23
Alignment explanation
Indices: 1823167--1823222 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
1823157 TGACACGATG
*
1823167 TAAAAAAAAATATTATTAAAATATA
1 TAAAAAAAAATAAT-TTAAAAT-TA
* *
1823192 TAAAAATAACATAATTTAAAATTT
1 TAAAAA-AAAATAATTTAAAATTA
1823216 TAAAAAA
1 TAAAAAA
1823223 TTCATAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
23 1 0.04
24 7 0.26
25 13 0.48
26 6 0.22
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (23 bp):
TAAAAAAAAATAATTTAAAATTA
Found at i:1823679 original size:21 final size:19
Alignment explanation
Indices: 1823632--1823683 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 19
1823622 GAATCAACAC
1823632 ATAATTAAATAAATTCAAT
1 ATAATTAAATAAATTCAAT
1823651 ATAAAATTAAATCAAATTCACAT
1 AT--AATTAAAT-AAATTCA-AT
*
1823674 GTAATTAAAT
1 ATAATTAAAT
1823684 TTGAATTTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
19 2 0.07
21 16 0.57
22 7 0.25
23 3 0.11
ACGTcount: A:0.56, C:0.08, G:0.02, T:0.35
Consensus pattern (19 bp):
ATAATTAAATAAATTCAAT
Found at i:1827532 original size:2 final size:2
Alignment explanation
Indices: 1827519--1827550 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1827509 CGTCTATGCG
*
1827519 AT AT AT AA 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
1827551 TCAATGTGAC
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1836404 original size:25 final size:23
Alignment explanation
Indices: 1836376--1836421 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
1836366 GATAATTTAT
*
1836376 ATATTTATTTTATATTTTATATAAA
1 ATATTTATTGTA-A-TTTATATAAA
1836401 ATATTTATTGTAATTTATATA
1 ATATTTATTGTAATTTATATA
1836422 GATGTTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 1 0.05
25 11 0.55
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (23 bp):
ATATTTATTGTAATTTATATAAA
Done.