Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 19 of 45
Found at i:3544831 original size:25 final size:24
Alignment explanation
Indices: 3544802--3544860 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
3544792 AATATGAAAT
3544802 TATTTAAATAATTATTT-TATATTAA
1 TATTTAAATAATT-TTTATA-ATTAA
*
3544827 TATTTATATAATTTTTATAATTAA
1 TATTTAAATAATTTTTATAATTAA
*
3544851 -ATTAAAATAA
1 TATTTAAATAA
3544861 AAATTATATA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 8 0.27
24 8 0.27
25 14 0.47
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (24 bp):
TATTTAAATAATTTTTATAATTAA
Found at i:3548966 original size:29 final size:28
Alignment explanation
Indices: 3548934--3549005 Score: 85
Period size: 27 Copynumber: 2.5 Consensus size: 28
3548924 TTATTTTTAT
*
3548934 TTAAAACTTTTAAAAATTACATTTATTCA
1 TTAAAACTTTTAAAAATTACATTAATT-A
*
3548963 TT--AACTTTTAAAAATTATATTAATTA
1 TTAAAACTTTTAAAAATTACATTAATTA
3548989 TTAATAACATTTTAAAA
1 TTAA-AAC-TTTTAAAA
3549006 TATTTCATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
26 3 0.08
27 21 0.57
29 5 0.14
30 8 0.22
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.46
Consensus pattern (28 bp):
TTAAAACTTTTAAAAATTACATTAATTA
Found at i:3549362 original size:16 final size:15
Alignment explanation
Indices: 3549341--3549373 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 15
3549331 CATGTATCCT
3549341 AAAAATTAATTTTTTA
1 AAAAATT-ATTTTTTA
3549357 AAAAATTATTTTTTA
1 AAAAATTATTTTTTA
3549372 AA
1 AA
3549374 CTATATGGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAAATTATTTTTTA
Found at i:3549474 original size:19 final size:22
Alignment explanation
Indices: 3549433--3549477 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 22
3549423 TTTGATTATT
*
3549433 AATATTATTTTTTTCACATAAA
1 AATATTATTTTATTCACATAAA
3549455 AATA-TATTTTATTCA-A-AAA
1 AATATTATTTTATTCACATAAA
3549474 AATA
1 AATA
3549478 ATGTATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 7 0.32
20 1 0.05
21 10 0.45
22 4 0.18
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (22 bp):
AATATTATTTTATTCACATAAA
Found at i:3549807 original size:59 final size:59
Alignment explanation
Indices: 3549664--3549825 Score: 175
Period size: 59 Copynumber: 2.7 Consensus size: 59
3549654 ATTAATGCAT
* *
3549664 TAAACTTTTAAAAATTATGAATAAAAATGAAATA-CTAATTAAAAGTAAAAGATAATAAATA
1 TAAA-TTTTAAAAATTATAAATAAAAATAAAATATC-AA-TAAAAGTAAAAGATAATAAATA
* * * * * * * *
3549725 TAACTTTTAAAGATAATACATAAAAATAAAATATCAAT-AAATTTAATGAATGATAAATA
1 TAAATTTTAAAAATTATAAATAAAAATAAAATATCAATAAAAGTAAAAG-ATAATAAATA
*
3549784 TAAATTTTAAAAATTATAAATAAAAATAAAATATCGATAAAA
1 TAAATTTTAAAAATTATAAATAAAAATAAAATATCAATAAAA
3549826 AATTATAAAC
Statistics
Matches: 83, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
58 7 0.08
59 43 0.52
60 29 0.35
61 4 0.05
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.31
Consensus pattern (59 bp):
TAAATTTTAAAAATTATAAATAAAAATAAAATATCAATAAAAGTAAAAGATAATAAATA
Found at i:3550164 original size:19 final size:18
Alignment explanation
Indices: 3550129--3550174 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
3550119 TTATGGTTGG
*
3550129 AAAAAAA-TATATTTTTT
1 AAAAAAATTATATATTTT
3550146 AAAAAAATTATTATATTTT
1 AAAAAAATTA-TATATTTT
3550165 AAAAAAATTA
1 AAAAAAATTA
3550175 AAATTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 7 0.27
18 2 0.08
19 17 0.65
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAAAAATTATATATTTT
Found at i:3550371 original size:16 final size:17
Alignment explanation
Indices: 3550350--3550390 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
3550340 TTTATAATTG
*
3550350 TATAAAAATATTTAT-A
1 TATAAAAATATTCATCA
*
3550366 TATAAACATATTCATCA
1 TATAAAAATATTCATCA
3550383 T-TAAAAAT
1 TATAAAAAT
3550391 TGTCTATCTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 19 0.90
17 2 0.10
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (17 bp):
TATAAAAATATTCATCA
Found at i:3554008 original size:36 final size:36
Alignment explanation
Indices: 3553961--3554044 Score: 136
Period size: 36 Copynumber: 2.3 Consensus size: 36
3553951 ATCTCAAAAT
3553961 ATATATAATATAAAATTTGAA-ATCATAAATATCAAA
1 ATATATAATATAAAATTTGAATAT-ATAAATATCAAA
3553997 ATATATAATATAAAATTTGAATATATAAATATCAAA
1 ATATATAATATAAAATTTGAATATATAAATATCAAA
3554033 AT-TATTAATATA
1 ATATA-TAATATA
3554045 TTAAAATTTA
Statistics
Matches: 46, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
35 2 0.04
36 42 0.91
37 2 0.04
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (36 bp):
ATATATAATATAAAATTTGAATATATAAATATCAAA
Found at i:3554012 original size:22 final size:22
Alignment explanation
Indices: 3553982--3554034 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
3553972 AAAATTTGAA
3553982 ATCATAAATATCAAAATATATAAT
1 ATCA-AAATATCAAAATATA-AAT
* * *
3554006 AT-AAAATTTGAATATATAAAT
1 ATCAAAATATCAAAATATAAAT
3554027 ATCAAAAT
1 ATCAAAAT
3554035 TATTAATATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 5 0.20
22 17 0.68
23 1 0.04
24 2 0.08
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.34
Consensus pattern (22 bp):
ATCAAAATATCAAAATATAAAT
Found at i:3554962 original size:17 final size:15
Alignment explanation
Indices: 3554940--3554982 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
3554930 TTTCCATCAT
3554940 TAATTTTTTGTAAAAAA
1 TAATTTTTT-T-AAAAA
3554957 TAATTTTCATTTAAAAA
1 TAATTTT--TTTAAAAA
3554974 TAATTTTTT
1 TAATTTTTT
3554983 ATCACAACTC
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 2 0.08
17 19 0.79
18 1 0.04
19 2 0.08
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (15 bp):
TAATTTTTTTAAAAA
Found at i:3555631 original size:29 final size:31
Alignment explanation
Indices: 3555599--3555662 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 31
3555589 GGACATTTAA
3555599 ATATTTATATTA-AA-TATTTTTTTAATAAT-
1 ATATTTATATTATAATTATTTTTTTAA-AATC
3555628 ATA-TTATATTATAATTATTTTTTTAAAATC
1 ATATTTATATTATAATTATTTTTTTAAAATC
3555658 ATATT
1 ATATT
3555663 CATGAATTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
28 8 0.26
29 8 0.26
30 14 0.45
31 1 0.03
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (31 bp):
ATATTTATATTATAATTATTTTTTTAAAATC
Found at i:3557698 original size:28 final size:28
Alignment explanation
Indices: 3557666--3557724 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
3557656 TTCTAACATG
* *
3557666 GCAGAACTTTTTGTATTCTCATAAATTT
1 GCAGAAATTTTTATATTCTCATAAATTT
3557694 GCAGAAATTTTTATATTCTCATAAATTT
1 GCAGAAATTTTTATATTCTCATAAATTT
3557722 GCA
1 GCA
3557725 AAAACTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.44
Consensus pattern (28 bp):
GCAGAAATTTTTATATTCTCATAAATTT
Found at i:3558816 original size:23 final size:23
Alignment explanation
Indices: 3558788--3558835 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
3558778 GTAAAAAAAT
*
3558788 ATTATT-ATGATAAATTATTAGTA
1 ATTATTGATGATAAA-TATCAGTA
*
3558811 ATTATTGATTATAAATATCAGTA
1 ATTATTGATGATAAATATCAGTA
3558834 AT
1 AT
3558836 AAAAAAAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 15 0.68
24 7 0.32
ACGTcount: A:0.44, C:0.02, G:0.08, T:0.46
Consensus pattern (23 bp):
ATTATTGATGATAAATATCAGTA
Found at i:3561006 original size:2 final size:2
Alignment explanation
Indices: 3560999--3561032 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3560989 ATAATTTCTA
3560999 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3561033 GATTGATCAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3562334 original size:39 final size:42
Alignment explanation
Indices: 3562244--3562329 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 42
3562234 GTTGTCGAGA
*
3562244 TAAAATAAAATTTAATATAATTATATGATATGAAAAAAATAAT
1 TAAAATATAATTTAATATAATTATATGATAT-AAAAAAATAAT
3562287 TAAAATATAATTT-ATATAATATTATATGATATAAAAAATATAA
1 TAAAATATAATTTAATAT-A-ATTATATGATATAAAAAA-ATAA
3562330 ATATATAAAT
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
42 4 0.10
43 19 0.49
44 16 0.41
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.37
Consensus pattern (42 bp):
TAAAATATAATTTAATATAATTATATGATATAAAAAAATAAT
Found at i:3562343 original size:25 final size:25
Alignment explanation
Indices: 3562315--3562364 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
3562305 ATATTATATG
3562315 ATATA-AAAAATATAAAT-ATATAA
1 ATATATAAAAATATAAATAATATAA
* *
3562338 ATATATTAAAATTTAAATAATATAA
1 ATATATAAAAATATAAATAATATAA
3562363 AT
1 AT
3562365 TACGATATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 5 0.22
24 10 0.43
25 8 0.35
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (25 bp):
ATATATAAAAATATAAATAATATAA
Found at i:3562349 original size:10 final size:8
Alignment explanation
Indices: 3562315--3562364 Score: 50
Period size: 8 Copynumber: 6.2 Consensus size: 8
3562305 ATATTATATG
3562315 ATATA-AA
1 ATATATAA
*
3562322 AAATATAA
1 ATATATAA
3562330 ATATATAA
1 ATATATAA
3562338 ATATATTAA
1 ATATA-TAA
*
3562347 A-ATTTAA
1 ATATATAA
3562354 ATAATATAA
1 AT-ATATAA
3562363 AT
1 AT
3562365 TACGATATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
7 8 0.23
8 16 0.46
9 11 0.31
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
ATATATAA
Found at i:3567848 original size:10 final size:12
Alignment explanation
Indices: 3567827--3567972 Score: 65
Period size: 11 Copynumber: 12.2 Consensus size: 12
3567817 CTTCAATAGG
*
3567827 ATAACATAAAAT
1 ATAATATAAAAT
3567839 -TAAT-TAAAAT
1 ATAATATAAAAT
*
3567849 ATAATATAAAAA
1 ATAATATAAAAT
*
3567861 ATAATAT-TAAT
1 ATAATATAAAAT
*
3567872 ATAATAT-TAAT
1 ATAATATAAAAT
*
3567883 AT-AT-TAATAT
1 ATAATATAAAAT
**
3567893 ATTAATAT-TTAT
1 A-TAATATAAAAT
* *
3567905 ATGATATAAATT
1 ATAATATAAAAT
3567917 ATTAATATATTATAAT
1 A-TAATATA--A-AAT
*
3567933 -TTATATAAAAT
1 ATAATATAAAAT
3567944 ATAAAATATAAAAT
1 AT--AATATAAAAT
*
3567958 ATAAAATATAAAT
1 ATAATATA-AAAT
3567971 AT
1 AT
3567973 TTTAAAAATA
Statistics
Matches: 103, Mismatches: 16, Indels: 29
0.70 0.11 0.20
Matches are distributed among these distances:
9 1 0.01
10 11 0.11
11 31 0.30
12 27 0.26
13 13 0.13
14 17 0.17
15 1 0.01
16 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:3567888 original size:8 final size:8
Alignment explanation
Indices: 3567875--3567928 Score: 67
Period size: 8 Copynumber: 6.8 Consensus size: 8
3567865 TATTAATATA
3567875 ATATTAAT
1 ATATTAAT
3567883 ATATTAAT
1 ATATTAAT
3567891 ATATTAAT
1 ATATTAAT
3567899 AT-TTATAT
1 ATATTA-AT
*
3567907 GATATAAAT
1 -ATATTAAT
3567916 -TATTAAT
1 ATATTAAT
3567923 ATATTA
1 ATATTA
3567929 TAATTTATAT
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
7 9 0.22
8 25 0.62
9 4 0.10
10 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (8 bp):
ATATTAAT
Found at i:3567922 original size:32 final size:33
Alignment explanation
Indices: 3567862--3567940 Score: 108
Period size: 32 Copynumber: 2.4 Consensus size: 33
3567852 ATATAAAAAA
* *
3567862 TAATATTAATATAATATTAATATATTAATATAT
1 TAATATTTATATAATATAAATATATTAATATAT
*
3567895 TAATATTTATATGATATAAAT-TATTAATATAT
1 TAATATTTATATAATATAAATATATTAATATAT
3567927 T-ATAATTTATATAA
1 TAAT-ATTTATATAA
3567941 AATATAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
31 2 0.05
32 21 0.51
33 18 0.44
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (33 bp):
TAATATTTATATAATATAAATATATTAATATAT
Found at i:3567924 original size:24 final size:26
Alignment explanation
Indices: 3567859--3567930 Score: 78
Period size: 25 Copynumber: 2.8 Consensus size: 26
3567849 ATAATATAAA
*
3567859 AAATAATATTAATATAATATTAAT-ATAT
1 AAAT-ATATTAATATATTA-T-ATGATAT
*
3567887 TAATATATTAATAT-TTATATGATAT
1 AAATATATTAATATATTATATGATAT
3567912 AAAT-TATTAATATATTATA
1 AAATATATTAATATATTATA
3567931 ATTTATATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 11 0.28
25 13 0.33
26 2 0.05
27 10 0.26
28 3 0.08
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (26 bp):
AAATATATTAATATATTATATGATAT
Found at i:3567945 original size:7 final size:7
Alignment explanation
Indices: 3567935--3567987 Score: 72
Period size: 7 Copynumber: 7.4 Consensus size: 7
3567925 ATTATAATTT
3567935 ATATAAA
1 ATATAAA
3567942 ATATAAA
1 ATATAAA
3567949 ATATAAA
1 ATATAAA
3567956 ATATAAA
1 ATATAAA
3567963 ATATAAA
1 ATATAAA
*
3567970 TATTTTAAA
1 -A-TATAAA
3567979 A-ATAAA
1 ATATAAA
3567985 ATA
1 ATA
3567988 CATAAACATC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
6 5 0.12
7 29 0.71
8 2 0.05
9 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
ATATAAA
Found at i:3567959 original size:21 final size:23
Alignment explanation
Indices: 3567908--3567987 Score: 76
Period size: 21 Copynumber: 3.4 Consensus size: 23
3567898 TATTTATATG
* *
3567908 ATATAAATTATTAATATATTATAATTT
1 ATATAAAATA-TAA-ATATTATAA--A
3567935 ATATAAAATATAAA-A-TATAAA
1 ATATAAAATATAAATATTATAAA
*
3567956 ATATAAAATATAAATATTTTAAA
1 ATATAAAATATAAATATTATAAA
3567979 A-ATAAAATA
1 ATATAAAATA
3567988 CATAAACATC
Statistics
Matches: 48, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
21 14 0.29
22 9 0.19
23 11 0.23
24 1 0.02
25 1 0.02
26 3 0.06
27 9 0.19
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
ATATAAAATATAAATATTATAAA
Found at i:3568156 original size:10 final size:10
Alignment explanation
Indices: 3568140--3568202 Score: 54
Period size: 10 Copynumber: 6.1 Consensus size: 10
3568130 AAACGATATC
3568140 TTAAAAAATA
1 TTAAAAAATA
*
3568150 ATAAAAAATA
1 TTAAAAAATA
**
3568160 TTAATTAATA
1 TTAAAAAATA
* *
3568170 TTTAATAATA
1 TTAAAAAATA
3568180 TTTATAAAAATA
1 -TTA-AAAAATA
*
3568192 ATAAAAAATA
1 TTAAAAAATA
3568202 T
1 T
3568203 CACTTAATTA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
10 31 0.76
11 4 0.10
12 6 0.15
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:3568210 original size:42 final size:42
Alignment explanation
Indices: 3568135--3568236 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 42
3568125 TATTAAAACG
* *
3568135 ATATCTTA-AAAAATAATAAAAAATATTAATTAA-TATTTAATA
1 ATAT-TTATAAAAATAATAAAAAATATCAATTAATTA-CTAATA
* *
3568177 ATATTTATAAAAATAATAAAAAATATCACTTAATTACTAATC
1 ATATTTATAAAAATAATAAAAAATATCAATTAATTACTAATA
* *
3568219 ATATTGATTAAAATAATA
1 ATATTTATAAAAATAATA
3568237 TTTAAAAAAT
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
41 3 0.06
42 47 0.90
43 2 0.04
ACGTcount: A:0.57, C:0.05, G:0.01, T:0.37
Consensus pattern (42 bp):
ATATTTATAAAAATAATAAAAAATATCAATTAATTACTAATA
Found at i:3570036 original size:257 final size:258
Alignment explanation
Indices: 3569563--3570066 Score: 911
Period size: 257 Copynumber: 2.0 Consensus size: 258
3569553 TATTTTTGTG
*
3569563 TATATATATATATATATATATATTAAAGTAGTACTCCATGAGAGTAATTGGCCGTTGACATTTGG
1 TATATATATATATATATATATATTAAAGTAGTACTCCATGAGAGTAATTGGCCGTCGACATTTGG
*
3569628 TCCGAGTCAGCTCCAAAGCTTACAGAACCTTTTTGACAGAGTCCTAGGTTATAAAGTCTGACCTG
66 TCCAAGTCAGCTCCAAAGCTTACAGAACCTTTTTGACAGAGTCCTAGGTTATAAAGTCTGACCTG
* *
3569693 TTTTTTGTCAGCATGTCATTTGCCAAAGCATTCCTGCTTTCAATTTATAATTTATTCTAGACCAG
131 TTTTTTGTCAGCATGTCATTTGCCAAAGCATTCCTGCCTTCAATTTATAATATATTCTAGACCAG
*
3569758 CTTTGACAATATTTGTTGAATTCTAAGGTAATGTATGTTGAACATGTTAGCTCAAATCCTACA
196 CTTTGACAATATTTGTTGAATTCTAAGGTAACGTATGTTGAACATGTTAGCTCAAATCCTACA
*
3569821 TATATATATATATATA-ATATATTAAAGTAGTACTTCATGAGAGTAATTGGCCGTCGACATTTGG
1 TATATATATATATATATATATATTAAAGTAGTACTCCATGAGAGTAATTGGCCGTCGACATTTGG
* *
3569885 TCCAAGTCAGCTCCAAAGCTTACAGAACCTTTTTGACTGAGTCCTAGGTTATAAAGTCTGACCTT
66 TCCAAGTCAGCTCCAAAGCTTACAGAACCTTTTTGACAGAGTCCTAGGTTATAAAGTCTGACCTG
* *
3569950 TTTTTTGTCAGCATGTCATTTGCCAAATCATTCCTGCCTTCAATTTATAATATATTCTAGATCAG
131 TTTTTTGTCAGCATGTCATTTGCCAAAGCATTCCTGCCTTCAATTTATAATATATTCTAGACCAG
3570015 CTTTGACAATATTTGTTGAATTCTAAGGTAACGTATGTTGAACATGTTAGCT
196 CTTTGACAATATTTGTTGAATTCTAAGGTAACGTATGTTGAACATGTTAGCT
3570067 ATTGTCTCAA
Statistics
Matches: 236, Mismatches: 10, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
257 220 0.93
258 16 0.07
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (258 bp):
TATATATATATATATATATATATTAAAGTAGTACTCCATGAGAGTAATTGGCCGTCGACATTTGG
TCCAAGTCAGCTCCAAAGCTTACAGAACCTTTTTGACAGAGTCCTAGGTTATAAAGTCTGACCTG
TTTTTTGTCAGCATGTCATTTGCCAAAGCATTCCTGCCTTCAATTTATAATATATTCTAGACCAG
CTTTGACAATATTTGTTGAATTCTAAGGTAACGTATGTTGAACATGTTAGCTCAAATCCTACA
Found at i:3571798 original size:3 final size:3
Alignment explanation
Indices: 3571790--3571826 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3571780 TATATTTCAT
3571790 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
3571827 GATGATGATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:3574532 original size:3 final size:3
Alignment explanation
Indices: 3574524--3574557 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
3574514 GTCGATACGA
* *
3574524 TAT TAT TAT GAT TAT TAT TAT TTT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3574558 TTGGATAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3577139 original size:21 final size:21
Alignment explanation
Indices: 3577113--3577153 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
3577103 GTTAAGTGTC
3577113 TATTTTTATAAA-ATTATTTTT
1 TATTTTT-TAAATATTATTTTT
*
3577134 TATTTTTTAAATTTTATTTT
1 TATTTTTTAAATATTATTTT
3577154 AATTTATAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TATTTTTTAAATATTATTTTT
Found at i:3577153 original size:19 final size:19
Alignment explanation
Indices: 3577113--3577164 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
3577103 GTTAAGTGTC
3577113 TATTTTTATAAAATTATTTTT
1 TATTTTT-T-AAATTATTTTT
3577134 TATTTTTTAAATT-TTATTT
1 TATTTTTTAAATTATT-TTT
* *
3577153 TAATTTATAAAT
1 TATTTTTTAAAT
3577165 GATATAATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 2 0.07
19 18 0.64
20 1 0.04
21 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTTTTTAAATTATTTTT
Found at i:3578195 original size:21 final size:21
Alignment explanation
Indices: 3578170--3578215 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
3578160 TAAAGATATA
3578170 TATATATATATATATTTAGCT
1 TATATATATATATATTTAGCT
3578191 TATATATATATATATTTAGCT
1 TATATATATATATATTTAGCT
3578212 TATA
1 TATA
3578216 AAGAAGGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (21 bp):
TATATATATATATATTTAGCT
Found at i:3579104 original size:19 final size:19
Alignment explanation
Indices: 3579070--3579122 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
3579060 ATTCAAGGGT
* *
3579070 TTCATATTTCATAATATCAAG
1 TTCATAATT-ATAATA-CAAA
3579091 TTC-TAATTATAATACAAA
1 TTCATAATTATAATACAAA
*
3579109 TTCATAATTTTAAT
1 TTCATAATTATAAT
3579123 TTTATGCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 6 0.21
19 15 0.54
20 4 0.14
21 3 0.11
ACGTcount: A:0.42, C:0.11, G:0.02, T:0.45
Consensus pattern (19 bp):
TTCATAATTATAATACAAA
Found at i:3579895 original size:25 final size:26
Alignment explanation
Indices: 3579861--3579915 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 26
3579851 TAGGCACTGA
*
3579861 TTAAGAATTATA-TAAT-TATTAATTT
1 TTAAAAATTATATTAATATATT-ATTT
3579886 TTAAAAATTATATTTAATATATTATTT
1 TTAAAAATTATA-TTAATATATTATTT
3579913 TTA
1 TTA
3579916 TTGATTTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
25 11 0.42
27 11 0.42
28 4 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (26 bp):
TTAAAAATTATATTAATATATTATTT
Found at i:3581217 original size:2 final size:2
Alignment explanation
Indices: 3581204--3581237 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
3581194 AGGTTTTTCC
*
3581204 TA TA TA TG 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 TA TA TA TA
3581238 AATAAAGAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3581657 original size:22 final size:22
Alignment explanation
Indices: 3581632--3581688 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
3581622 AATCAAAATT
*
3581632 TAAATTTTTTATTGGAATCAAA
1 TAAATTTTTAATTGGAATCAAA
* * *
3581654 TAAAATTTTAATTTGATTCAAA
1 TAAATTTTTAATTGGAATCAAA
*
3581676 TAAATTTATAATT
1 TAAATTTTTAATT
3581689 TTATTTTTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.47
Consensus pattern (22 bp):
TAAATTTTTAATTGGAATCAAA
Found at i:3581724 original size:18 final size:18
Alignment explanation
Indices: 3581678--3581728 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
3581668 GATTCAAATA
*
3581678 AATTTATAATTTTATTTTT
1 AATTTATAA-TTAATTTTT
**
3581697 ATATAAATAATTAATTTTT
1 A-ATTTATAATTAATTTTT
3581716 AATTTATAATTAA
1 AATTTATAATTAA
3581729 ATAAATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 10 0.38
19 10 0.38
20 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTATAATTAATTTTT
Found at i:3581748 original size:22 final size:21
Alignment explanation
Indices: 3581692--3581748 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 21
3581682 TATAATTTTA
*
3581692 TTTTTATATAAA-TAATTAAT
1 TTTTTATATAAATTAATAAAT
* *
3581712 TTTTAATTTATAATTAAATAAAT
1 TTTTTATATA-AATT-AATAAAT
3581735 TTTTTATATAAATT
1 TTTTTATATAAATT
3581749 TAATTTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
20 8 0.28
21 2 0.07
22 5 0.17
23 14 0.48
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTTATATAAATTAATAAAT
Found at i:3589797 original size:59 final size:58
Alignment explanation
Indices: 3589673--3589857 Score: 246
Period size: 59 Copynumber: 3.2 Consensus size: 58
3589663 ATTTTTATCA
* *
3589673 CACCCAAACTTTAGATCACCACCAAGGCAAC-CATTCGCGCACTAGGTGATGCCAAAT
1 CACCCAAACTTTAGATCACCACCAAGGCAACAAATTCGCGCACTAGGTGATGCCAAGT
* * * * * *
3589730 CACCCAAACTTTAGATCGCCACCAAGGCGACTAAATTCGTGCATTAGTTGACGCCAAGT
1 CACCCAAACTTTAGATCACCACCAAGGCAAC-AAATTCGCGCACTAGGTGATGCCAAGT
* * *
3589789 CACCCAAACTTTAGATCACCACCAAGGCAACCAGATTCGCGCACTAGGTGATGCTAAGA
1 CACCCAAACTTTAGATCACCACCAAGGCAA-CAAATTCGCGCACTAGGTGATGCCAAGT
3589848 CACCCAAACT
1 CACCCAAACT
3589858 AGGATCGCCA
Statistics
Matches: 108, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
57 29 0.27
59 78 0.72
60 1 0.01
ACGTcount: A:0.33, C:0.32, G:0.17, T:0.18
Consensus pattern (58 bp):
CACCCAAACTTTAGATCACCACCAAGGCAACAAATTCGCGCACTAGGTGATGCCAAGT
Found at i:3589882 original size:59 final size:58
Alignment explanation
Indices: 3589672--3589932 Score: 235
Period size: 59 Copynumber: 4.5 Consensus size: 58
3589662 TATTTTTATC
*
3589672 ACACCCAAACTTTAGATCACCACCAAGGCAACC--ATTCGCGCACTAGGTGATGCCAA-
1 ACACCCAAAC-TTAGATCGCCACCAAGGCAACCAGATTCGCGCACTAGGTGATGCCAAG
* * * * * * *
3589728 ATCACCCAAACTTTAGATCGCCACCAAGGCGACTAAATTCGTGCATTAGTTGACGCCAAG
1 A-CACCCAAAC-TTAGATCGCCACCAAGGCAACCAGATTCGCGCACTAGGTGATGCCAAG
* * *
3589788 TCACCCAAACTTTAGATCACCACCAAGGCAACCAGATTCGCGCACTAGGTGATGCTAAG
1 ACACCCAAAC-TTAGATCGCCACCAAGGCAACCAGATTCGCGCACTAGGTGATGCCAAG
* * * * ** *
3589847 ACACCCAAAC-TAGGATCGCCATCAGGGCAACCCAGATTAC-CACACTAAGTGACACCCAG
1 ACACCCAAACTTA-GATCGCCACCAAGGCAA-CCAGATT-CGCGCACTAGGTGATGCCAAG
* * *
3589906 TCACCCGAACTTTGATCGCCACCAAGG
1 ACACCCAAACTTAGATCGCCACCAAGG
3589933 TGACCCAGAT
Statistics
Matches: 165, Mismatches: 32, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
56 1 0.01
57 31 0.19
58 14 0.08
59 117 0.71
60 2 0.01
ACGTcount: A:0.33, C:0.33, G:0.18, T:0.17
Consensus pattern (58 bp):
ACACCCAAACTTAGATCGCCACCAAGGCAACCAGATTCGCGCACTAGGTGATGCCAAG
Found at i:3589908 original size:118 final size:115
Alignment explanation
Indices: 3589673--3589932 Score: 296
Period size: 118 Copynumber: 2.2 Consensus size: 115
3589663 ATTTTTATCA
3589673 CACCCAAACTTTAGATCACCACCAAGGCAACCATTCGCGCACTAGGTGATGCCAAATCACCCAAA
1 CACCCAAACTTTAGATCACCACCAAGGCAACCATTCGCGCACTAGGTGATGCCAAATCACCCAAA
* * ** * *
3589738 CTTTAGATCGCCACCAAGGCGACTAAATTCGTGCATTAGTTGACGCCAAGT
66 C-TTAGATCGCCACCAAGGCAACCAAATTCGCACATAAGTTGACACCAAGT
*
3589789 CACCCAAACTTTAGATCACCACCAAGGCAACCAGATTCGCGCACTAGGTGATGCTAAGA-CACCC
1 CACCCAAACTTTAGATCACCACCAAGGCAACC--ATTCGCGCACTAGGTGATGCCAA-ATCACCC
* * * *
3589853 AAAC-TAGGATCGCCATCAGGGCAACCCAGATTAC-CACACTAAG-TGACACCCAGT
63 AAACTTA-GATCGCCACCAAGGCAA-CCAAATT-CGCACA-TAAGTTGACACCAAGT
* *
3589907 CACCCGAACTTT-GATCGCCACCAAGG
1 CACCCAAACTTTAGATCACCACCAAGG
3589933 TGACCCAGAT
Statistics
Matches: 124, Mismatches: 13, Indels: 13
0.83 0.09 0.09
Matches are distributed among these distances:
116 34 0.27
117 27 0.22
118 58 0.47
119 5 0.04
ACGTcount: A:0.32, C:0.33, G:0.18, T:0.17
Consensus pattern (115 bp):
CACCCAAACTTTAGATCACCACCAAGGCAACCATTCGCGCACTAGGTGATGCCAAATCACCCAAA
CTTAGATCGCCACCAAGGCAACCAAATTCGCACATAAGTTGACACCAAGT
Found at i:3589986 original size:58 final size:59
Alignment explanation
Indices: 3589778--3589987 Score: 145
Period size: 59 Copynumber: 3.6 Consensus size: 59
3589768 GTGCATTAGT
* ** * * ** * *
3589778 TGACGCCAAGTCACCCAAACTTTAGATCACCACCAAGG-CAACCAGATTCGCGCACTAGG
1 TGACACCAAGTCACCCAAAC-TCGGATCACCACCAAGGTGACCCAGATTAACACACTAAG
** * * * * * * ** *
3589837 TGATGCTAAGACACCCAAACTAGGATCGCCATCAGGGCAACCCAGATTACCACACTAAG
1 TGACACCAAGTCACCCAAACTCGGATCACCACCAAGGTGACCCAGATTAACACACTAAG
* * ** * *
3589896 TGACACCCAGTCACCCGAACTTTGATCGCCACCAAGGTGACCCAGATTAAC-CACTACG
1 TGACACCAAGTCACCCAAACTCGGATCACCACCAAGGTGACCCAGATTAACACACTAAG
**
3589954 TGACACCAAGTCACTTAAACTCGGATCACCACCA
1 TGACACCAAGTCACCCAAACTCGGATCACCACCA
3589988 GCGTGATCCT
Statistics
Matches: 115, Mismatches: 35, Indels: 3
0.75 0.23 0.02
Matches are distributed among these distances:
58 45 0.39
59 70 0.61
ACGTcount: A:0.33, C:0.34, G:0.17, T:0.16
Consensus pattern (59 bp):
TGACACCAAGTCACCCAAACTCGGATCACCACCAAGGTGACCCAGATTAACACACTAAG
Found at i:3594173 original size:24 final size:25
Alignment explanation
Indices: 3594137--3594188 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 25
3594127 ACATATCATT
* *
3594137 TTTATTTATTAAAT-TAATTTTATA
1 TTTATTAAATAAATATAATTTTATA
*
3594161 TTTATTAAATAAATAATATTTTTATA
1 TTTATTAAATAAAT-ATAATTTTATA
3594187 TT
1 TT
3594189 ATGTTCAAGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 12 0.52
26 11 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTATTAAATAAATATAATTTTATA
Found at i:3594184 original size:20 final size:20
Alignment explanation
Indices: 3594139--3594185 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
3594129 ATATCATTTT
* **
3594139 TATTTATTAAATTAATTTTA
1 TATTTATTAAATAAATAATA
3594159 TATTTATTAAATAAATAATA
1 TATTTATTAAATAAATAATA
*
3594179 TTTTTAT
1 TATTTAT
3594186 ATTATGTTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TATTTATTAAATAAATAATA
Found at i:3594687 original size:16 final size:16
Alignment explanation
Indices: 3594662--3594693 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
3594652 AAAAAGAAAC
*
3594662 TTTTATATTTAATTTT
1 TTTTAAATTTAATTTT
3594678 TTTTAAATTTAATTTT
1 TTTTAAATTTAATTTT
3594694 CCAACTTCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTAAATTTAATTTT
Found at i:3597536 original size:16 final size:16
Alignment explanation
Indices: 3597500--3597533 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3597490 GGTCATATTA
*
3597500 AATTTAAATTTTTTTT
1 AATTTAAATTTTTTGT
3597516 AATTTAAATTATTTTGT
1 AATTTAAATT-TTTTGT
3597533 A
1 A
3597534 TTTGTGATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (16 bp):
AATTTAAATTTTTTGT
Found at i:3600565 original size:2 final size:2
Alignment explanation
Indices: 3600558--3600591 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3600548 AAAGTAAAAC
3600558 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
3600592 TTCTATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:3603969 original size:113 final size:112
Alignment explanation
Indices: 3603735--3604253 Score: 424
Period size: 113 Copynumber: 4.6 Consensus size: 112
3603725 ATTTGCTTGT
* * * * *
3603735 GTATATATGCCACCAATGCATAAT-TAACCTAATTCCCTATATTACAACATGTATATTAAAGTGT
1 GTATATATGCCACC-ATGCATAATAAAACC-GATTCTCTACATTACAACATGCATATTAAAGTGT
* * * * * * * *
3603799 ATCATATTGCTCGTGCATGCACGTAGATTTGCTTGTATATCGAT-TTGCA
64 ATCGTACTGTTCATACATGCACGTAGATTTGCTTGTGTATCAATATAG-A
* * ** * * *
3603848 ATGTATATGCCACCTACACATAATAAAACCAATTCTTTAAATTACAACATGCATATTAAAGTGTA
1 GTATATATGCCACC-ATGCATAATAAAACCGATTCTCTACATTACAACATGCATATTAAAGTGTA
* * * *
3603913 TCGTACTATTCGTACAAT-CACGTAGATTTGCTTGTGTACCAATGTAGA
65 TCGTACTGTTCATAC-ATGCACGTAGATTTGCTTGTGTATCAATATAGA
* ** * * *
3603961 GTACATATGCCACCAATGCATAAT--AACTTATTCTCTACATCACAACATGCATATCAAACTGTA
1 GTATATATGCCACC-ATGCATAATAAAACCGATTCTCTACATTACAACATGCATATTAAAGTGTA
* * * ** *
3604024 TCGCACTG-TCTATACAAGCACATAGATTTGCTTGTGTATTGATATATA
65 TCGTACTGTTC-ATACATGCACGTAGATTTGCTTGTGTATCAATATAGA
* * * * ** *
3604072 GCATATATGCCACCAGTGCATAATAAAACTGATTCTTTACATTGCAATGTGCATATTCAAGTGTA
1 GTATATATGCCACCA-TGCATAATAAAACCGATTCTCTACATTACAACATGCATATTAAAGTGTA
* * *
3604137 TTGTACTGTTCATACATGCATGTAGA-TTG-TTGGTGTATCAATATATA
65 TCGTACTGTTCATACATGCACGTAGATTTGCTT-GTGTATCAATATAGA
* * * * * *
3604184 GTATATACGGCACCGATGCATAATAAAATCGATTATCTACATCACAACATGCATGTTAAAGTGTA
1 GTATATATGCCACC-ATGCATAATAAAACCGATTCTCTACATTACAACATGCATATTAAAGTGTA
3604249 TCGTA
65 TCGTA
3604254 TTATATGCAT
Statistics
Matches: 321, Mismatches: 74, Indels: 23
0.77 0.18 0.06
Matches are distributed among these distances:
110 4 0.01
111 87 0.27
112 70 0.22
113 150 0.47
114 10 0.03
ACGTcount: A:0.34, C:0.18, G:0.14, T:0.34
Consensus pattern (112 bp):
GTATATATGCCACCATGCATAATAAAACCGATTCTCTACATTACAACATGCATATTAAAGTGTAT
CGTACTGTTCATACATGCACGTAGATTTGCTTGTGTATCAATATAGA
Found at i:3604050 original size:111 final size:111
Alignment explanation
Indices: 3603891--3604097 Score: 263
Period size: 111 Copynumber: 1.9 Consensus size: 111
3603881 TCTTTAAATT
* * * * * *
3603891 ACAACATGCATATTAAAGTGTATCGTACTATTCGTACAATCACGTAGATTTGCTTGTGTACCAAT
1 ACAACATGCATATCAAACTGTATCGCACTATTCATACAAGCACATAGATTTGCTTGTGTACCAAT
* *
3603956 GTAGAGTACATATGCCACCAATGCATAATAACTTATTCTCTACATC
66 ATAGAGCACATATGCCACCAATGCATAATAACTTATTCTCTACATC
* ***
3604002 ACAACATGCATATCAAACTGTATCGCACT-GTCTATACAAGCACATAGATTTGCTTGTGTATTGA
1 ACAACATGCATATCAAACTGTATCGCACTATTC-ATACAAGCACATAGATTTGCTTGTGTACCAA
* * *
3604066 TATATAGCATATATGCCACCAGTGCATAATAA
65 TATAGAGCACATATGCCACCAATGCATAATAA
3604098 AACTGATTCT
Statistics
Matches: 80, Mismatches: 15, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
110 2 0.03
111 78 0.98
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (111 bp):
ACAACATGCATATCAAACTGTATCGCACTATTCATACAAGCACATAGATTTGCTTGTGTACCAAT
ATAGAGCACATATGCCACCAATGCATAATAACTTATTCTCTACATC
Found at i:3609825 original size:21 final size:21
Alignment explanation
Indices: 3609800--3609844 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3609790 TTTGTGTACA
3609800 TTTTACTTCTACTCTTATATT
1 TTTTACTTCTACTCTTATATT
* * *
3609821 TTTTACTTGTGCTCTTCTATT
1 TTTTACTTCTACTCTTATATT
3609842 TTT
1 TTT
3609845 ATTATCTATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.13, C:0.18, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTACTTCTACTCTTATATT
Found at i:3611435 original size:14 final size:14
Alignment explanation
Indices: 3611416--3611479 Score: 51
Period size: 14 Copynumber: 4.5 Consensus size: 14
3611406 ATCTCTGTCA
3611416 AAAATATTTATATC
1 AAAATATTTATATC
** *
3611430 AAAATACCTATGTC
1 AAAATATTTATATC
3611444 AAGAATATCTT-TATC
1 AA-AATAT-TTATATC
*
3611459 AAAATTTTTATA-C
1 AAAATATTTATATC
3611472 TAAAATAT
1 -AAAATAT
3611480 CTGTGTCAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
13 3 0.08
14 25 0.66
15 9 0.24
16 1 0.03
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.39
Consensus pattern (14 bp):
AAAATATTTATATC
Found at i:3613769 original size:22 final size:22
Alignment explanation
Indices: 3613682--3613799 Score: 75
Period size: 25 Copynumber: 5.1 Consensus size: 22
3613672 TTGAATTGAG
*
3613682 TTAATTTAAA-AATTTATTT-TA
1 TTAATTTAAATAA-TAATTTATA
*
3613703 TTAATTTTATATTAATAA-TTATAA
1 TTAA-TTTA-AATAATAATTTAT-A
*
3613727 TTAAATTTAAAATAAATATTTTATA
1 TT-AATTT-AAAT-AATAATTTATA
3613752 TT-ATTTAAATAATAATTTA-A
1 TTAATTTAAATAATAATTTATA
3613772 CTTAATTTAAATTAATAAAATTTATA
1 -TTAATTTAAA-TAAT--AATTTATA
3613798 TT
1 TT
3613800 TAAATTCAAC
Statistics
Matches: 77, Mismatches: 5, Indels: 26
0.71 0.05 0.24
Matches are distributed among these distances:
20 1 0.01
21 14 0.18
22 17 0.22
23 12 0.16
24 10 0.13
25 18 0.23
26 5 0.06
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAATTTAAATAATAATTTATA
Found at i:3615411 original size:11 final size:12
Alignment explanation
Indices: 3615387--3615412 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3615377 ATAAAATTAA
3615387 TTCTTCATTTTT
1 TTCTTCATTTTT
3615399 TTCTTCATTTTT
1 TTCTTCATTTTT
3615411 TT
1 TT
3615413 AAAAAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (12 bp):
TTCTTCATTTTT
Found at i:3615474 original size:29 final size:29
Alignment explanation
Indices: 3615405--3615495 Score: 87
Period size: 29 Copynumber: 3.1 Consensus size: 29
3615395 TTTTTTCTTC
* *
3615405 ATTTTTTTAAAAA-AATTACTCACTTTCTT
1 ATTTTTTTAAAAATAATTTCTCA-TTTTTT
****
3615434 ATTTGAAAAAAAATAATTTCTCATTTTTT
1 ATTTTTTTAAAAATAATTTCTCATTTTTT
*
3615463 ATTTTTTTAAAAAATAATTTCTC-CTTTTT
1 ATTTTTTT-AAAAATAATTTCTCATTTTTT
3615492 ATTT
1 ATTT
3615496 GATTTTTTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
29 27 0.55
30 22 0.45
ACGTcount: A:0.35, C:0.10, G:0.01, T:0.54
Consensus pattern (29 bp):
ATTTTTTTAAAAATAATTTCTCATTTTTT
Found at i:3616171 original size:24 final size:26
Alignment explanation
Indices: 3616146--3616195 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
3616136 AAGCCACTTA
3616146 TTTG-TTTATCAAAAATGGTGGTTAT
1 TTTGATTTATCAAAAATGGTGGTTAT
*
3616171 TTTGTATTTGTCAAAAATGGTGGTT
1 TTTG-ATTTATCAAAAATGGTGGTT
3616196 TCCTTTGGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
27 18 0.82
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (26 bp):
TTTGATTTATCAAAAATGGTGGTTAT
Found at i:3616186 original size:27 final size:26
Alignment explanation
Indices: 3616154--3616239 Score: 93
Period size: 28 Copynumber: 3.2 Consensus size: 26
3616144 TATTTGTTTA
3616154 TCAAAAATGGTGGTTATTTTGTATTTG
1 TCAAAAATGGTGGTT-TTTTGTATTTG
*
3616181 TCAAAAATGGTGGTTTCCTTTGGATTTG
1 TCAAAAATGGTGGTTT--TTTGTATTTG
* * * *
3616209 TCAAATATGGAGGCTTGTT-TATTTG
1 TCAAAAATGGTGGTTTTTTGTATTTG
3616234 TCAAAA
1 TCAAAA
3616240 TTTGTGGCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
25 10 0.20
26 3 0.06
27 15 0.30
28 22 0.44
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (26 bp):
TCAAAAATGGTGGTTTTTTGTATTTG
Found at i:3620906 original size:27 final size:27
Alignment explanation
Indices: 3620865--3620917 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
3620855 AAATAGAGGC
*
3620865 TCCCTCCTCCATCTCAAGTATCCCTCA
1 TCCCTCATCCATCTCAAGTATCCCTCA
* **
3620892 TCCCTCATCCCTCTCTTGTATCCCTC
1 TCCCTCATCCATCTCAAGTATCCCTC
3620918 TTCAATTCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.13, C:0.49, G:0.04, T:0.34
Consensus pattern (27 bp):
TCCCTCATCCATCTCAAGTATCCCTCA
Found at i:3621314 original size:19 final size:21
Alignment explanation
Indices: 3621276--3621315 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
3621266 AAAATTAATA
3621276 TTATAATAAATATATATTTAT
1 TTATAATAAATATATATTTAT
*
3621297 TTATAA-AATTATAT-TTTAT
1 TTATAATAAATATATATTTAT
3621316 ATTAATATCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 5 0.28
20 7 0.39
21 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATAATAAATATATATTTAT
Found at i:3621903 original size:23 final size:22
Alignment explanation
Indices: 3621865--3621911 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
3621855 AAATAAAATA
*
3621865 AAAATTATAAATATTAAAATTT
1 AAAATTATAAATATTAAAAGTT
3621887 AAAATT-TAAATTCATTAAAAGTT
1 AAAATTATAAA-T-ATTAAAAGTT
3621910 AA
1 AA
3621912 TTAGTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 4 0.18
22 7 0.32
23 11 0.50
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
AAAATTATAAATATTAAAAGTT
Found at i:3624156 original size:29 final size:31
Alignment explanation
Indices: 3624105--3624163 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
3624095 ATTATATTTT
* *
3624105 TAAAATTTTTTAATATATTTAAATATTAAAA
1 TAAAATTTTTTAATATATATAAAAATTAAAA
3624136 TAAAATTTTTTAAT-T-TATAAAAATTAAA
1 TAAAATTTTTTAATATATATAAAAATTAAA
3624164 TATTTTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
29 11 0.42
30 1 0.04
31 14 0.54
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (31 bp):
TAAAATTTTTTAATATATATAAAAATTAAAA
Found at i:3624896 original size:10 final size:11
Alignment explanation
Indices: 3624868--3624920 Score: 60
Period size: 11 Copynumber: 5.2 Consensus size: 11
3624858 CTATATTAAA
3624868 AAAATAAATTT
1 AAAATAAATTT
3624879 -AAAT--ATTT
1 AAAATAAATTT
3624887 AAAAT-AATTT
1 AAAATAAATTT
* *
3624897 AAATTAAAATT
1 AAAATAAATTT
3624908 AAAATAAATTT
1 AAAATAAATTT
3624919 AA
1 AA
3624921 GTAATAAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
8 4 0.11
9 4 0.11
10 12 0.34
11 15 0.43
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAATAAATTT
Found at i:3627060 original size:50 final size:50
Alignment explanation
Indices: 3627001--3627538 Score: 722
Period size: 50 Copynumber: 10.8 Consensus size: 50
3626991 TATACTTAGA
**
3627001 GTCAACAATTATGGCCACTTTTCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACTTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * * * *
3627051 GTCAACAATTATTGCCACCTCTCTCTATTGTCAAAAGTTGATGAAAAATC
1 GTCAACAATTATGGCCACTTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
3627101 GTCAACAATTATGGCCA-TCTCCCTTTATTTTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACT-TCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * * * *
3627151 GTCAACAATTATGGCCACCTCCTTATATTATCAAAAGTTGATGAAGAATC
1 GTCAACAATTATGGCCACTTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
3627201 GTCAACAATTATGGCCATTTCCCTTTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACTTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
3627251 GTCAACAATTATGGACACATCCCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACTTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * * *
3627301 GTCAACAATTATGGTCACCTCCCTCTATTGTCAAAAGTTTGTGAAGAATC
1 GTCAACAATTATGGCCACTTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
3627351 GTCAACAATTATGGTCACTTCCCTCTATTATCAAAGATTGGTGAAGAATC
1 GTCAACAATTATGGCCACTTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
3627401 GTCAACAAGTATGGCCA-TCTCCCTCTATTGTCAAAGGTTAGTGAAGAATC
1 GTCAACAATTATGGCCACT-TCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
3627451 GTCAACAATTATAGCTACCTT-CCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCA-CTTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
3627501 GTCAACAATTATGGTCACCTCTCTCTATTGTCAAAGGT
1 GTCAACAATTATGGCCACTTCCCTCTATTGTCAAAGGT
3627539 ACTTTCCATC
Statistics
Matches: 428, Mismatches: 54, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
49 3 0.01
50 423 0.99
51 1 0.00
52 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.32
Consensus pattern (50 bp):
GTCAACAATTATGGCCACTTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:3631961 original size:50 final size:50
Alignment explanation
Indices: 3631899--3632236 Score: 482
Period size: 50 Copynumber: 6.8 Consensus size: 50
3631889 TATACTTAGA
* * * *
3631899 GTCAACAATTATGGCCACCTTTCTGTATTATCAAAGGTTGATGAAGAATC
1 GTCAACAATTATGGCCACCTTCCTCTATTGTCAAAGGTTGGTGAAGAATC
*
3631949 GTCAACAATTATGGCCACC-TCCTTCTATTGTCAAAGATTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTTCC-TCTATTGTCAAAGGTTGGTGAAGAATC
* * *
3631999 GTCAACAATTATGGCCACATCCCTCTATTATCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTTCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
3632049 GTCAACAATTATAGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTTCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
3632099 GTCAACAATTATGGTCATCTCCCTCTATTGTCAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTTCCTCTATTGTCAAAGGTTGGTGAAGAATC
* * *
3632149 GTCAACAATTATGGCCATCTTCCTCTATTATTAAAGGTTGGTGAAGAATC
1 GTCAACAATTATGGCCACCTTCCTCTATTGTCAAAGGTTGGTGAAGAATC
* *
3632199 GTCAACAATTATAGTCA-CTTCTCTCTATTGTCAAAGGT
1 GTCAACAATTATGGCCACCTTC-CTCTATTGTCAAAGGT
3632237 ACTTTCCACC
Statistics
Matches: 262, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
49 6 0.02
50 254 0.97
51 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (50 bp):
GTCAACAATTATGGCCACCTTCCTCTATTGTCAAAGGTTGGTGAAGAATC
Found at i:3632174 original size:150 final size:150
Alignment explanation
Indices: 3631899--3632236 Score: 534
Period size: 150 Copynumber: 2.3 Consensus size: 150
3631889 TATACTTAGA
* * * *
3631899 GTCAACAATTATGGCCACCTTTCTGTATTATCAAAGGTTGATGAAGAATCGTCAACAATTATGGC
1 GTCAACAATTATAGCCACCTCTCTCTATTGTCAAAGGTTGATGAAGAATCGTCAACAATTATGGC
*
3631964 CACCTCCTTCTATTGTCAAAGATTGGTGAAGAATCGTCAACAATTATGGCCACATCCCTCTATTA
66 CACCTCCCTCTATTGTCAAAGATTGGTGAAGAATCGTCAACAATTATGGCCACATCCCTCTATTA
3632029 TCAAAGGTTGGTGAAGAATC
131 TCAAAGGTTGGTGAAGAATC
* * *
3632049 GTCAACAATTATAGCCACCTCCCTCTATTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGT
1 GTCAACAATTATAGCCACCTCTCTCTATTGTCAAAGGTTGATGAAGAATCGTCAACAATTATGGC
* * *
3632114 CATCTCCCTCTATTGTCAAAGGTTGGTGAAGAATCGTCAACAATTATGGCCATC-TTCCTCTATT
66 CACCTCCCTCTATTGTCAAAGATTGGTGAAGAATCGTCAACAATTATGGCCA-CATCCCTCTATT
*
3632178 ATTAAAGGTTGGTGAAGAATC
130 ATCAAAGGTTGGTGAAGAATC
* *
3632199 GTCAACAATTATAGTCACTTCTCTCTATTGTCAAAGGT
1 GTCAACAATTATAGCCACCTCTCTCTATTGTCAAAGGT
3632237 ACTTTCCACC
Statistics
Matches: 172, Mismatches: 15, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
150 171 0.99
151 1 0.01
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.31
Consensus pattern (150 bp):
GTCAACAATTATAGCCACCTCTCTCTATTGTCAAAGGTTGATGAAGAATCGTCAACAATTATGGC
CACCTCCCTCTATTGTCAAAGATTGGTGAAGAATCGTCAACAATTATGGCCACATCCCTCTATTA
TCAAAGGTTGGTGAAGAATC
Found at i:3632668 original size:20 final size:20
Alignment explanation
Indices: 3632643--3632687 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
3632633 TAAGAGACTC
** *
3632643 AAAAATTATTAAATTATTTT
1 AAAAATTAAAAAATTATCTT
3632663 AAAAATTAAAAAATTATCTT
1 AAAAATTAAAAAATTATCTT
3632683 AAAAA
1 AAAAA
3632688 ATTTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATTAAAAAATTATCTT
Found at i:3632696 original size:21 final size:21
Alignment explanation
Indices: 3632643--3632706 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
3632633 TAAGAGACTC
*
3632643 AAAAATTATT-AAATTAT-TTT
1 AAAAATT-TTAAAATTATCTTA
**
3632663 AAAAATTAAAAAATTATCTTA
1 AAAAATTTTAAAATTATCTTA
* *
3632684 AAAAATTTTAAAAATAACTTA
1 AAAAATTTTAAAATTATCTTA
3632705 AA
1 AA
3632707 GTCATTTATA
Statistics
Matches: 35, Mismatches: 7, Indels: 3
0.78 0.16 0.07
Matches are distributed among these distances:
20 14 0.40
21 21 0.60
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (21 bp):
AAAAATTTTAAAATTATCTTA
Found at i:3636858 original size:6 final size:6
Alignment explanation
Indices: 3636849--3636884 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
3636839 TTAATTTTAT
* *
3636849 TTTAAA TTTATA TTTAAA TATAAA TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
3636885 GCAAAAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTTAAA
Found at i:3640410 original size:18 final size:18
Alignment explanation
Indices: 3640384--3640431 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
3640374 ATATTTTTAA
*
3640384 AATTTATATAATAAAAAT
1 AATTAATATAATAAAAAT
* *
3640402 AATTAATATATTAAAATT
1 AATTAATATAATAAAAAT
3640420 AATATAATATAA
1 AAT-TAATATAA
3640432 ATTTTTTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
18 18 0.72
19 7 0.28
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AATTAATATAATAAAAAT
Found at i:3640416 original size:32 final size:32
Alignment explanation
Indices: 3640354--3640433 Score: 90
Period size: 32 Copynumber: 2.5 Consensus size: 32
3640344 AAATATATAA
* *
3640354 TTATAAAATATAAAATAAATATATTTTTAAAAT
1 TTATATAATA-AAAATAAATATATTATTAAAAT
*
3640387 TTATATAATAAAAATAATTA-ATATATTAAAAT
1 TTATATAATAAAAATAAATATAT-TATTAAAAT
* *
3640419 TAATATAATATAAAT
1 TTATATAATAAAAAT
3640434 TTTTTAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
31 2 0.05
32 30 0.73
33 9 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
TTATATAATAAAAATAAATATATTATTAAAAT
Found at i:3640429 original size:17 final size:16
Alignment explanation
Indices: 3640314--3640493 Score: 81
Period size: 15 Copynumber: 11.1 Consensus size: 16
3640304 AGTGACCTCG
3640314 TAAAATTTAATATAATTA
1 TAAAA-TTAATATAA-TA
*
3640332 TACGAATATAATA-AATA
1 TA-AAAT-TAATATAATA
* *
3640349 TATAATT-ATAAAATA
1 TAAAATTAATATAATA
* * *
3640364 TAAAATAAATATATTTT
1 TAAAATTAATATA-ATA
*
3640381 TAAAATTTATATAATAA
1 TAAAATTAATATAAT-A
*
3640398 AAATAATTAATAT-AT-
1 TAA-AATTAATATAATA
3640413 TAAAATTAATATAATA
1 TAAAATTAATATAATA
* *
3640429 T-AAATT-TTTTAA-A
1 TAAAATTAATATAATA
* *
3640442 TAATA-TAATAAAATA
1 TAAAATTAATATAATA
3640457 TATAAATATAATATAAATA
1 TA-AAAT-TAATAT-AATA
*
3640476 TATAAATTATTA-AATA
1 TA-AAATTAATATAATA
3640492 TA
1 TA
3640494 TTAGGGATGG
Statistics
Matches: 123, Mismatches: 23, Indels: 34
0.68 0.13 0.19
Matches are distributed among these distances:
13 3 0.02
14 21 0.17
15 22 0.18
16 17 0.14
17 20 0.16
18 22 0.18
19 18 0.15
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.41
Consensus pattern (16 bp):
TAAAATTAATATAATA
Found at i:3640444 original size:41 final size:40
Alignment explanation
Indices: 3640398--3640496 Score: 101
Period size: 41 Copynumber: 2.4 Consensus size: 40
3640388 TATATAATAA
* * *
3640398 AAATAATTAATATATTAAAATTAATATAATATAAATTTTTT
1 AAATAATTAATATATTAAAATAAATATAATATAAA-TATAT
* * *
3640439 AAATAATATAATAAAAT-ATATAAATATAATATAAATATAT
1 AAATAAT-TAATATATTAAAATAAATATAATATAAATATAT
*
3640479 AAATTATTAAATATATTA
1 AAATAATT-AATATATTA
3640497 GGGATGGCAA
Statistics
Matches: 46, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
39 1 0.02
40 15 0.33
41 23 0.50
42 7 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (40 bp):
AAATAATTAATATATTAAAATAAATATAATATAAATATAT
Found at i:3640445 original size:23 final size:23
Alignment explanation
Indices: 3640410--3640491 Score: 76
Period size: 23 Copynumber: 3.4 Consensus size: 23
3640400 ATAATTAATA
3640410 TATTAAAATTAATATAATATAAATT
1 TATT-AAA-TAATATAATATAAATT
* *
3640435 TTTTAAATAATATAATA-AAATA
1 TATTAAATAATATAATATAAATT
* *
3640457 TATAAATATAATATAAATATATAAAT
1 TATTAA-ATAATAT-AATATA-AATT
3640483 TATTAAATA
1 TATTAAATA
3640492 TATTAGGGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 8
0.75 0.11 0.13
Matches are distributed among these distances:
22 8 0.17
23 17 0.37
24 7 0.15
25 7 0.15
26 7 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (23 bp):
TATTAAATAATATAATATAAATT
Found at i:3640464 original size:13 final size:14
Alignment explanation
Indices: 3640337--3640481 Score: 55
Period size: 13 Copynumber: 10.7 Consensus size: 14
3640327 AATTATACGA
3640337 ATATAAT-AAATAT
1 ATATAATAAAATAT
*
3640350 ATAATTATAAAATAT
1 AT-ATAATAAAATAT
3640365 A-A-AAT-AAATAT
1 ATATAATAAAATAT
** *
3640376 AT-TTTTAAAATTT
1 ATATAATAAAATAT
3640389 ATATAATAAAAATAATT
1 ATATAAT-AAAAT-A-T
*
3640406 AATATATTAAAAT-T
1 -ATATAATAAAATAT
3640420 AATATAATATAAAT-T
1 -ATATAATA-AAATAT
*
3640435 -T-T--TTAAATA-
1 ATATAATAAAATAT
3640444 ATATAATAAAATAT
1 ATATAATAAAATAT
*
3640458 ATA-AATATAATAT
1 ATATAATAAAATAT
*
3640471 AAATATATAAA
1 ATATA-ATAAA
3640482 TTATTAAATA
Statistics
Matches: 98, Mismatches: 15, Indels: 36
0.66 0.10 0.24
Matches are distributed among these distances:
9 4 0.04
10 2 0.02
11 8 0.08
12 4 0.04
13 28 0.29
14 19 0.19
15 21 0.21
17 6 0.06
18 6 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
ATATAATAAAATAT
Found at i:3640464 original size:18 final size:18
Alignment explanation
Indices: 3640443--3640494 Score: 72
Period size: 19 Copynumber: 2.9 Consensus size: 18
3640433 TTTTTTAAAT
3640443 AATATAATAAAATATATA
1 AATATAATAAAATATATA
3640461 AATATAATATAAATATATA
1 AATATAATA-AAATATATA
*
3640480 AAT-T-ATTAAATATAT
1 AATATAATAAAATATAT
3640495 TAGGGATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 8 0.25
17 2 0.06
18 10 0.31
19 12 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATATAATAAAATATATA
Found at i:3640465 original size:55 final size:54
Alignment explanation
Indices: 3640336--3640489 Score: 155
Period size: 55 Copynumber: 2.9 Consensus size: 54
3640326 TAATTATACG
*
3640336 AATATAAT-AAATATATAAT-TATAAAATATAAAATAAATATATTTTTAAAATT
1 AATATAATAAAATATATAATATATAAAATATAAAATAAATAAATTTTTAAAATT
* * *
3640388 TATATAATAAAA-ATAATTAATATATTAAAAT-TAATATAATATAAATTTTTTAAA-T
1 AATATAATAAAATAT-A-TAATATA-TAAAATATAAAATAA-ATAAATTTTTAAAATT
* *
3640443 AATATAATAAAATATATAA-ATAT--AATAT-AAATATATAAATTATTAAA
1 AATATAATAAAATATATAATATATAAAATATAAAATAAATAAATTTTTAAA
3640490 TATATTAGGG
Statistics
Matches: 85, Mismatches: 9, Indels: 19
0.75 0.08 0.17
Matches are distributed among these distances:
49 11 0.13
50 7 0.08
51 1 0.01
52 10 0.12
53 7 0.08
54 7 0.08
55 22 0.26
56 20 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (54 bp):
AATATAATAAAATATATAATATATAAAATATAAAATAAATAAATTTTTAAAATT
Found at i:3640660 original size:20 final size:20
Alignment explanation
Indices: 3640622--3640660 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3640612 TTATAGTATT
***
3640622 TTATTTTAATTTTTTATTAA
1 TTATTTTAATTTAACATTAA
3640642 TTATTTTAATTTAACATTA
1 TTATTTTAATTTAACATTA
3640661 TAAATATTTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (20 bp):
TTATTTTAATTTAACATTAA
Found at i:3640749 original size:19 final size:21
Alignment explanation
Indices: 3640697--3640750 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
3640687 AATATAATTT
* *
3640697 TAATATATATA-ATATATATC
1 TAATATTTATATATATATATA
3640717 TAATATTTATATATATATATA
1 TAATATTTATATATATATATA
*
3640738 TGAT-TTTA-ATATA
1 TAATATTTATATATA
3640751 CTTATCTAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.17
20 14 0.47
21 11 0.37
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TAATATTTATATATATATATA
Found at i:3642378 original size:45 final size:43
Alignment explanation
Indices: 3642294--3642392 Score: 105
Period size: 45 Copynumber: 2.3 Consensus size: 43
3642284 TAATAATTTA
* *
3642294 TATATTTATATTATATTATATTTAATATAATTTTATTTAAAAT
1 TATATTTATATTATATAAAATTTAATATAATTTTATTTAAAAT
* *
3642337 TTTATTTATATTATATAAAAAATTTAATATTTAA-TTT-TTTAATAT
1 TATATTTATATTATAT--AAAATTTAATA--TAATTTTATTTAAAAT
3642382 TATA-TTATATT
1 TATATTTATATT
3642393 TAAAATGTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
43 15 0.32
44 7 0.15
45 19 0.40
46 3 0.06
47 3 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (43 bp):
TATATTTATATTATATAAAATTTAATATAATTTTATTTAAAAT
Found at i:3643212 original size:2 final size:2
Alignment explanation
Indices: 3643205--3643232 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
3643195 TCCGTTCCTT
3643205 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA
3643233 AAAAACTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:3643504 original size:20 final size:21
Alignment explanation
Indices: 3643475--3643528 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
3643465 AAATGATTTA
3643475 ATTAAA-AAATAAATTAT-AT
1 ATTAAATAAATAAATTATAAT
*
3643494 ATTAAATAAAT-AATTTTAAT
1 ATTAAATAAATAAATTATAAT
3643514 ATTAAATATAATAAA
1 ATTAAATA-AATAAA
3643529 AATTAGTAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 11 0.37
20 14 0.47
21 3 0.10
22 2 0.07
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (21 bp):
ATTAAATAAATAAATTATAAT
Found at i:3644797 original size:19 final size:21
Alignment explanation
Indices: 3644763--3644802 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 21
3644753 ACGGCTTAAT
3644763 TTATTATTTAATTAATAAAAA
1 TTATTATTTAATTAATAAAAA
3644784 TTATT-TTT-ATTAATAAAAA
1 TTATTATTTAATTAATAAAAA
3644803 AATTTAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 11 0.58
20 3 0.16
21 5 0.26
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATTATTTAATTAATAAAAA
Found at i:3644803 original size:21 final size:25
Alignment explanation
Indices: 3644761--3644806 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 25
3644751 ATACGGCTTA
3644761 ATTTATTATTTAATTAATAAAAATT
1 ATTTATTATTTAATTAATAAAAATT
3644786 ATTT-TTA-TTAA-TAA-AAAAATT
1 ATTTATTATTTAATTAATAAAAATT
3644807 TAAATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
21 7 0.33
22 3 0.14
23 4 0.19
24 3 0.14
25 4 0.19
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (25 bp):
ATTTATTATTTAATTAATAAAAATT
Found at i:3645565 original size:18 final size:18
Alignment explanation
Indices: 3645538--3645574 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
3645528 ACATTAAGAC
3645538 TTTTTCTTTTGTTTTTTT
1 TTTTTCTTTTGTTTTTTT
*
3645556 TTTTTTTTTTGTTTTTTT
1 TTTTTCTTTTGTTTTTTT
3645574 T
1 T
3645575 AAGAACTTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.00, C:0.03, G:0.05, T:0.92
Consensus pattern (18 bp):
TTTTTCTTTTGTTTTTTT
Found at i:3645733 original size:25 final size:28
Alignment explanation
Indices: 3645687--3645747 Score: 83
Period size: 25 Copynumber: 2.3 Consensus size: 28
3645677 TTTATGATTT
3645687 TAATTATATTCATGATTAATATTTATTA
1 TAATTATATTCATGATTAATATTTATTA
*
3645715 TAATTA-ATT-ATGA-TAATATTTTTTA
1 TAATTATATTCATGATTAATATTTATTA
*
3645740 TATTTATA
1 TAATTATA
3645748 ATTACAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 16 0.53
26 5 0.17
27 3 0.10
28 6 0.20
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (28 bp):
TAATTATATTCATGATTAATATTTATTA
Found at i:3646457 original size:2 final size:2
Alignment explanation
Indices: 3646450--3646487 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
3646440 ATGCACATAC
3646450 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3646488 TTCTTTTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3646895 original size:20 final size:21
Alignment explanation
Indices: 3646854--3646897 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
3646844 GATATTTTTT
*
3646854 AATTTTTTATTTTATTAATAA
1 AATTTTTTATTTTAGTAATAA
*
3646875 AATTTTTTATTTT-GTAGTAA
1 AATTTTTTATTTTAGTAATAA
3646895 AAT
1 AAT
3646898 AAAATATATC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
AATTTTTTATTTTAGTAATAA
Found at i:3648329 original size:21 final size:23
Alignment explanation
Indices: 3648287--3648329 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
3648277 TACAATAAAT
*
3648287 ATAAAATAATTTTTAAATTAGTA
1 ATAAAATAATTTTTAAAGTAGTA
*
3648310 ATAATATAA-TTTT-AAGTAGT
1 ATAAAATAATTTTTAAAGTAGT
3648330 GCTTCTAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 4 0.22
23 8 0.44
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (23 bp):
ATAAAATAATTTTTAAAGTAGTA
Found at i:3651146 original size:3 final size:3
Alignment explanation
Indices: 3651140--3651176 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
3651130 TTATAAATTC
3651140 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
3651177 CTATATGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:3664557 original size:12 final size:12
Alignment explanation
Indices: 3664542--3664571 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
3664532 ATTTTAAAAA
3664542 ATATATATATTT
1 ATATATATATTT
*
3664554 ATATTTATATTT
1 ATATATATATTT
3664566 ATATAT
1 ATATAT
3664572 GCATTAGACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
ATATATATATTT
Found at i:3667718 original size:11 final size:10
Alignment explanation
Indices: 3667677--3667727 Score: 54
Period size: 9 Copynumber: 5.3 Consensus size: 10
3667667 AATATTTTAT
*
3667677 TTTATATAAA
1 TTTATATATA
*
3667687 TTTA-AAATA
1 TTTATATATA
3667696 TTT-TATATA
1 TTTATATATA
3667705 TTTATATGATA
1 TTTATAT-ATA
3667716 TTTATAT-TA
1 TTTATATATA
3667725 TTT
1 TTT
3667728 TTTATTATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
9 18 0.51
10 7 0.20
11 10 0.29
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (10 bp):
TTTATATATA
Found at i:3667958 original size:11 final size:11
Alignment explanation
Indices: 3667939--3667998 Score: 58
Period size: 11 Copynumber: 5.9 Consensus size: 11
3667929 CATTCATTTA
*
3667939 TTTACATTATT
1 TTTATATTATT
3667950 TTTATATTATT
1 TTTATATTATT
3667961 TTTATATTA--
1 TTTATATTATT
*
3667970 TAT-TA-TATT
1 TTTATATTATT
*
3667979 TTTA-AATATT
1 TTTATATTATT
3667989 TTTATATTAT
1 TTTATATTAT
3667999 ATATAATTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 5 0.12
10 8 0.20
11 23 0.57
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
TTTATATTATT
Found at i:3667968 original size:28 final size:29
Alignment explanation
Indices: 3667937--3667996 Score: 72
Period size: 28 Copynumber: 2.1 Consensus size: 29
3667927 CACATTCATT
*
3667937 TATTTACA-T-TATTTTTATATTATTTTTA
1 TATTTACATTATATTTTTA-AATATTTTTA
*
3667965 TA-TTATATTATATTTTTAAATATTTTTA
1 TATTTACATTATATTTTTAAATATTTTTA
3667993 TATT
1 TATT
3667997 ATATATAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
27 4 0.15
28 14 0.52
29 9 0.33
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (29 bp):
TATTTACATTATATTTTTAAATATTTTTA
Found at i:3667993 original size:18 final size:19
Alignment explanation
Indices: 3667936--3667998 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 19
3667926 TCACATTCAT
*
3667936 TTATTTACATTATTTTTATA
1 TTATTTA-AATATTTTTATA
**
3667956 TTATTTTTATATTATATTATA
1 TTATTTAAATATT-T-TTATA
3667977 TT-TTTAAATATTTTTATA
1 TTATTTAAATATTTTTATA
3667995 TTAT
1 TTAT
3667999 ATATAATTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
18 7 0.20
19 6 0.17
20 15 0.43
21 7 0.20
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTATTTAAATATTTTTATA
Found at i:3668007 original size:28 final size:29
Alignment explanation
Indices: 3667946--3668000 Score: 94
Period size: 28 Copynumber: 1.9 Consensus size: 29
3667936 TTATTTACAT
*
3667946 TATTTTTATATTATTTTTATATTATATTA
1 TATTTTTATAATATTTTTATATTATATTA
3667975 TATTTTTA-AATATTTTTATATTATAT
1 TATTTTTATAATATTTTTATATTATAT
3668001 ATAATTTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (29 bp):
TATTTTTATAATATTTTTATATTATATTA
Found at i:3668016 original size:13 final size:14
Alignment explanation
Indices: 3667993--3668021 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
3667983 AATATTTTTA
3667993 TATTATATATAATT
1 TATTATATATAATT
3668007 TATTAT-TATAATT
1 TATTATATATAATT
3668020 TA
1 TA
3668022 ATTTTAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TATTATATATAATT
Found at i:3668022 original size:39 final size:39
Alignment explanation
Indices: 3667937--3668022 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
3667927 CACATTCATT
* * *
3667937 TATTTACATTATTTTTATATTATTTTTATATTATATTATA
1 TATTTA-AATATTTTTATATTATTATAATATTATATTATA
*
3667977 TTTTTAAATATTTTTATATTATATATAAT-TTATTATTATA
1 TATTTAAATATTTTTATATTAT-TATAATATTA-TATTATA
3668017 -ATTTAA
1 TATTTAA
3668023 TTTTAAATTT
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
39 23 0.59
40 16 0.41
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (39 bp):
TATTTAAATATTTTTATATTATTATAATATTATATTATA
Found at i:3668050 original size:21 final size:22
Alignment explanation
Indices: 3668019--3668060 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
3668009 TTATTATAAT
**
3668019 TTAATTTTAAATTTTAAATTAA
1 TTAATTTTAAAAATTAAATTAA
3668041 TTAA-TTTAAAAATTAAATTA
1 TTAATTTTAAAAATTAAATTA
3668061 TTACATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TTAATTTTAAAAATTAAATTAA
Found at i:3668549 original size:19 final size:19
Alignment explanation
Indices: 3668504--3668551 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
3668494 TCGATTTATA
**
3668504 AATTTTTAAAATTAATTTT
1 AATTTTTAAAATTAATAAT
*
3668523 ACA-GTTTAAAATTAATAAT
1 A-ATTTTTAAAATTAATAAT
3668542 AATTTTTAAA
1 AATTTTTAAA
3668552 TTTTTTATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.04
19 21 0.91
20 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
AATTTTTAAAATTAATAAT
Found at i:3674087 original size:10 final size:10
Alignment explanation
Indices: 3674072--3674112 Score: 55
Period size: 10 Copynumber: 3.9 Consensus size: 10
3674062 TCACCATCAT
*
3674072 TTATTTTACA
1 TTATTTTATA
3674082 TTATTTTTATA
1 TTA-TTTTATA
3674093 TTATTTTATA
1 TTATTTTATA
3674103 TTATATTTAT
1 TTAT-TTTAT
3674113 CTTTTTAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
10 14 0.50
11 14 0.50
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (10 bp):
TTATTTTATA
Found at i:3674098 original size:21 final size:20
Alignment explanation
Indices: 3674072--3674135 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
3674062 TCACCATCAT
3674072 TTATTTTACATTATTTTTATA
1 TTATTTTA-ATTATTTTTATA
*
3674093 TTATTTTATATTATATTTAT-
1 TTATTTTA-ATTATTTTTATA
* *
3674113 CT-TTTTAAATATTTTTATA
1 TTATTTTAATTATTTTTATA
3674132 TTAT
1 TTAT
3674136 ATATAATGTA
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
18 9 0.26
19 6 0.17
20 2 0.06
21 18 0.51
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTTAATTATTTTTATA
Found at i:3674684 original size:19 final size:19
Alignment explanation
Indices: 3674639--3674686 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
3674629 TCGATTTATA
**
3674639 AATTTTTAAAATTAATTTT
1 AATTTTTAAAATTAATAAT
*
3674658 ACA-GTTTAAAATTAATAAT
1 A-ATTTTTAAAATTAATAAT
3674677 AATTTTTAAA
1 AATTTTTAAA
3674687 TTTTTTTATA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
18 1 0.04
19 21 0.91
20 1 0.04
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (19 bp):
AATTTTTAAAATTAATAAT
Found at i:3684385 original size:15 final size:13
Alignment explanation
Indices: 3684353--3684378 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
3684343 TATTTAAAAA
3684353 TATTATATATTTT
1 TATTATATATTTT
3684366 TATTATATATTTT
1 TATTATATATTTT
3684379 ATAATTAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TATTATATATTTT
Found at i:3685130 original size:2 final size:2
Alignment explanation
Indices: 3685123--3685153 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
3685113 AGTCAAAAGC
3685123 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3685154 CAGCTCAACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:3688135 original size:12 final size:12
Alignment explanation
Indices: 3688118--3688144 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
3688108 ACTACTACAG
3688118 ATATTAATACTA
1 ATATTAATACTA
3688130 ATATTAATACTA
1 ATATTAATACTA
3688142 ATA
1 ATA
3688145 ATTTGTACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATTAATACTA
Found at i:3691343 original size:17 final size:17
Alignment explanation
Indices: 3691321--3691354 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
3691311 GGGAAAAGAC
3691321 AGAATTAAGAACCCCAA
1 AGAATTAAGAACCCCAA
3691338 AGAATTAAGAACCCCAA
1 AGAATTAAGAACCCCAA
3691355 TGAGGAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.24, G:0.12, T:0.12
Consensus pattern (17 bp):
AGAATTAAGAACCCCAA
Found at i:3693075 original size:15 final size:15
Alignment explanation
Indices: 3693043--3693071 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
3693033 AAGTGTGTTA
3693043 AAAAAAAAGAGAGAG
1 AAAAAAAAGAGAGAG
3693058 AAAAAAAAGA-AGAG
1 AAAAAAAAGAGAGAG
3693072 GAAAGTGGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (15 bp):
AAAAAAAAGAGAGAG
Found at i:3696811 original size:15 final size:14
Alignment explanation
Indices: 3696791--3696820 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
3696781 ATATAATGAA
3696791 TTAAATAATATTAAT
1 TTAAATAAT-TTAAT
3696806 TTAAATAATTTAAT
1 TTAAATAATTTAAT
3696820 T
1 T
3696821 GATAAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAATAATTTAAT
Found at i:3697899 original size:14 final size:15
Alignment explanation
Indices: 3697880--3697919 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 15
3697870 AAATGTATTA
3697880 TTTTAATATAAT-AT
1 TTTTAATATAATAAT
3697894 TTTT-A-ATAATAAT
1 TTTTAATATAATAAT
3697907 TTTTAATTATAAT
1 TTTTAA-TATAAT
3697920 TTATCTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
12 5 0.23
13 7 0.32
14 5 0.23
16 5 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TTTTAATATAATAAT
Found at i:3697920 original size:13 final size:13
Alignment explanation
Indices: 3697887--3697921 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
3697877 TTATTTTAAT
3697887 ATAAT-ATTTTTA
1 ATAATAATTTTTA
3697899 ATAATAATTTTTA
1 ATAATAATTTTTA
*
3697912 ATTATAATTT
1 ATAATAATTT
3697922 ATCTTATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 5 0.24
13 16 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATAATAATTTTTA
Found at i:3698024 original size:27 final size:27
Alignment explanation
Indices: 3697966--3698024 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
3697956 CATATATTTT
* *
3697966 TATT-AATTTTAATAATATTATTATAA
1 TATTAAATTTTAATAATATAATAATAA
*
3697992 TATTAAATTTTAATATTATAATAATTAA
1 TATTAAATTTTAATAATATAATAA-TAA
3698020 T-TTAA
1 TATTAA
3698025 TTTCACCGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 4 0.14
27 20 0.71
28 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TATTAAATTTTAATAATATAATAATAA
Found at i:3708754 original size:2 final size:2
Alignment explanation
Indices: 3708747--3708775 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3708737 AAGCAGTAAA
3708747 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3708776 GGAAAAACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3713142 original size:4 final size:4
Alignment explanation
Indices: 3713133--3713161 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
3713123 AAGGCTGAAG
3713133 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT A
3713162 TTCCAGCTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
AAAT
Found at i:3715184 original size:12 final size:12
Alignment explanation
Indices: 3715167--3715191 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
3715157 TTTTTTTATA
3715167 TTTATTATATTT
1 TTTATTATATTT
3715179 TTTATTATATTT
1 TTTATTATATTT
3715191 T
1 T
3715192 AATTTTTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (12 bp):
TTTATTATATTT
Found at i:3716683 original size:15 final size:15
Alignment explanation
Indices: 3716663--3716699 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
3716653 CAGCTTTTTT
3716663 ATTAATTTAAATGTA
1 ATTAATTTAAATGTA
3716678 ATTAATTT--ATGTA
1 ATTAATTTAAATGTA
3716691 ATT-ATTTAA
1 ATTAATTTAA
3716700 TAAATAGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.20
13 8 0.40
15 8 0.40
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (15 bp):
ATTAATTTAAATGTA
Found at i:3717205 original size:2 final size:2
Alignment explanation
Indices: 3717198--3717229 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
3717188 TTTGTTCTAC
*
3717198 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
3717230 ATTTATCCAT
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:3717793 original size:16 final size:16
Alignment explanation
Indices: 3717772--3717855 Score: 75
Period size: 16 Copynumber: 5.2 Consensus size: 16
3717762 AAAAATAATT
*
3717772 ATTATTTTAAGTTTAA
1 ATTATTTTAAATTTAA
*
3717788 ATTATTTATAAAAATTTTA
1 ATTATTT-T--AAATTTAA
* *
3717807 A--ATTTTATATATAA
1 ATTATTTTAAATTTAA
*
3717821 ATTA-TTTAAATTAAA
1 ATTATTTTAAATTTAA
3717836 ATTATTTTAAATTTAA
1 ATTATTTTAAATTTAA
3717852 ATTA
1 ATTA
3717856 ATAAATTTTA
Statistics
Matches: 53, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
14 6 0.11
15 12 0.23
16 23 0.43
17 5 0.09
19 7 0.13
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (16 bp):
ATTATTTTAAATTTAA
Found at i:3717806 original size:20 final size:23
Alignment explanation
Indices: 3717783--3717833 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 23
3717773 TTATTTTAAG
3717783 TTTAAATTATT-TATA-AAAAT-
1 TTTAAATTATTATATATAAAATA
*
3717803 TTTAAATT-TTATATATAAATTA
1 TTTAAATTATTATATATAAAATA
3717825 TTTAAATTA
1 TTTAAATTA
3717834 AAATTATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 12 0.46
21 4 0.15
22 8 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTAAATTATTATATATAAAATA
Found at i:3722444 original size:16 final size:16
Alignment explanation
Indices: 3722425--3722477 Score: 106
Period size: 16 Copynumber: 3.3 Consensus size: 16
3722415 ATGATCAGAA
3722425 AATTAATCGATCACAT
1 AATTAATCGATCACAT
3722441 AATTAATCGATCACAT
1 AATTAATCGATCACAT
3722457 AATTAATCGATCACAT
1 AATTAATCGATCACAT
3722473 AATTA
1 AATTA
3722478 GGCAGAATGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.45, C:0.17, G:0.06, T:0.32
Consensus pattern (16 bp):
AATTAATCGATCACAT
Found at i:3726088 original size:2 final size:2
Alignment explanation
Indices: 3726035--3726075 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
3726025 ACGGATACAA
3726035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3726076 CACACATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3726579 original size:40 final size:41
Alignment explanation
Indices: 3726524--3726606 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
3726514 TTCTTTTGAG
* *
3726524 TAGAAATTCATAAGATTG-CGTAACTCAAGAAAGGCACGTC
1 TAGAAATTAATAAGATTGAAGTAACTCAAGAAAGGCACGTC
3726564 TAGAAATTAATAAGATTGAAGTAACTCAAGAAAGGCACGTC
1 TAGAAATTAATAAGATTGAAGTAACTCAAGAAAGGCACGTC
3726605 TA
1 TA
3726607 AGGGTATAAC
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 17 0.43
41 23 0.57
ACGTcount: A:0.43, C:0.14, G:0.19, T:0.23
Consensus pattern (41 bp):
TAGAAATTAATAAGATTGAAGTAACTCAAGAAAGGCACGTC
Found at i:3726710 original size:3 final size:3
Alignment explanation
Indices: 3726702--3726748 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
3726692 ACTAGTTATA
3726702 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
3726749 CTTACAGTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Done.