Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168326.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_55, 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: 150338
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 2 of 2
Found at i:92331 original size:23 final size:21
Alignment explanation
Indices: 92276--92337 Score: 70
Period size: 22 Copynumber: 2.9 Consensus size: 21
92266 TCTTCTCTTA
*
92276 TTTTATCTTTCTTTTTTTTTGT
1 TTTTACCTTT-TTTTTTTTTGT
*
92298 TTTTACTTTTTTTTTCTTTTGT
1 TTTTACCTTTTTTTT-TTTTGT
* *
92320 TTTTGCCCTTTTTTTTTT
1 TTTTACCTTTTTTTTTTT
92338 GCTCACCTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 8 0.24
22 26 0.76
ACGTcount: A:0.03, C:0.11, G:0.05, T:0.81
Consensus pattern (21 bp):
TTTTACCTTTTTTTTTTTTGT
Found at i:93755 original size:119 final size:120
Alignment explanation
Indices: 93558--93834 Score: 347
Period size: 120 Copynumber: 2.4 Consensus size: 120
93548 TTGTACAAGA
* *
93558 AAAATTGATACTTTCAA-TTTT-TCCTCAAAAAA---TTTTTTAGAAACTTTAATTTTGAGGAAA
1 AAAATTGATACTTTCAACTTTTCTCC-AAAAAAATTTTTTTTTAGAAACTTTAATTTTAAGGAAA
* * * *
93618 ATTGATACTTTCAACTTTTTCTCAAAAATCCACTTTT-GAAAACTTATTTTTAAGG
65 ATTGATACTTTCAACTTTTCCTCAAAAATACACTTTTAGAAAACTTATTTTCAAAG
93673 AAAATTGATACTTTCAACTTTTCTCCAAAAAAATTTTTTTTTAGAAAGC-TT-ATTTTAAAGGAA
1 AAAATTGATACTTTCAACTTTTCTCCAAAAAAATTTTTTTTTAGAAA-CTTTAATTTT-AAGGAA
* ***
93736 AATTGATACTTTCATCTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAAG
64 AATTGATACTTTCAACTTTTCCTCAAAAATACACTTTTAGAAAACTTATTTTCAAAG
* *
93793 AAAATTAATACTTTCAACTTTTC-CTCAAAAATATTTTTTTTT
1 AAAATTGATACTTTCAACTTTTCTC-CAAAAAAATTTTTTTTT
93835 GAATTTTATT
Statistics
Matches: 141, Mismatches: 12, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
115 17 0.12
116 10 0.07
117 3 0.02
118 5 0.04
119 51 0.36
120 55 0.39
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (120 bp):
AAAATTGATACTTTCAACTTTTCTCCAAAAAAATTTTTTTTTAGAAACTTTAATTTTAAGGAAAA
TTGATACTTTCAACTTTTCCTCAAAAATACACTTTTAGAAAACTTATTTTCAAAG
Found at i:93796 original size:59 final size:58
Alignment explanation
Indices: 93558--93832 Score: 326
Period size: 59 Copynumber: 4.7 Consensus size: 58
93548 TTGTACAAGA
* * *
93558 AAAATTGATACTTTCAATTTTTCCTCAAAAA-A-TTTTTTAG-AAACTTTAATTTTGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAAC-TT-ATTTTAAAG
* **** *
93615 AAAATTGATACTTTCAACTTTTTCTCAAAAATCCACTTTT-GAAAACTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTA-TTTTAAAG
* *
93673 AAAATTGATACTTTCAACTTTT-CTCCAAAAAAATTTTTTTTTAGAAAGCTTATTTTAAAGG
1 AAAATTGATACTTTCAACTTTTCCT-C--AAAAATATTTTTTTAGAAAACTTATTTTAAA-G
*
93734 AAAATTGATACTTTCATCTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTT-AAAG
*
93793 AAAATTAATACTTTCAACTTTTCCTCAAAAATATTTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTT
93833 TTGAATTTTA
Statistics
Matches: 190, Mismatches: 17, Indels: 20
0.84 0.07 0.09
Matches are distributed among these distances:
57 32 0.17
58 33 0.17
59 73 0.38
60 19 0.10
61 31 0.16
62 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.44
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTAAAG
Found at i:93918 original size:9 final size:9
Alignment explanation
Indices: 93904--93937 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
93894 CTAATCAATA
93904 AATAATTAT
1 AATAATTAT
93913 AATAATTAT
1 AATAATTAT
*
93922 AATAATAAT
1 AATAATTAT
93931 AAATAAT
1 -AATAAT
93938 AAATAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 17 0.74
10 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
AATAATTAT
Found at i:93976 original size:13 final size:13
Alignment explanation
Indices: 93958--93982 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93948 AAAACCTAAG
93958 AACGGCTCGGCTT
1 AACGGCTCGGCTT
93971 AACGGCTCGGCT
1 AACGGCTCGGCT
93983 CGACGCGGCT
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:0.16, C:0.32, G:0.32, T:0.20
Consensus pattern (13 bp):
AACGGCTCGGCTT
Found at i:94494 original size:27 final size:26
Alignment explanation
Indices: 94461--94513 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 26
94451 ATCGAAATCT
** *
94461 AAAAATTTTCCAAAAATTTTCAAAAAA
1 AAAAATTCACCAAAAATTCT-AAAAAA
94488 AAAAATTCACCAAAAATTCTAAAAAA
1 AAAAATTCACCAAAAATTCTAAAAAA
94514 TTCCCATCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.25
Consensus pattern (26 bp):
AAAAATTCACCAAAAATTCTAAAAAA
Found at i:94854 original size:18 final size:17
Alignment explanation
Indices: 94833--94892 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 17
94823 AATAGATAAT
94833 TAAAGAAAAATAATTAGA
1 TAAA-AAAAATAATTAGA
94851 TAAATAAAAAT-ATTAAAGA
1 TAAA-AAAAATAATT--AGA
*
94870 TAAATAAAATAATAATAGA
1 TAAAAAAAATAAT--TAGA
94889 TAAA
1 TAAA
94893 TTATAATATA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 3 0.09
18 15 0.43
19 16 0.46
21 1 0.03
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (17 bp):
TAAAAAAAATAATTAGA
Found at i:94860 original size:42 final size:38
Alignment explanation
Indices: 94810--94925 Score: 106
Period size: 42 Copynumber: 2.8 Consensus size: 38
94800 AAATCAAATC
* *
94810 AAATAAAAATGTTAATAGATAATTAAAGAAAAATAATTAGAT
1 AAATAAAAATATTAA-AGATAAAT-AA-AAAAATAA-TAGAT
*
94852 AAATAAAAATATTAAAGATAAATAAAATAATAATAGAT
1 AAATAAAAATATTAAAGATAAATAAAAAAATAATAGAT
* * *
94890 AAATTATAATATATAAATAATAAATAATAATAAATA
1 AAATAAAAATAT-TAAA-GATAAATAA-AA-AAATA
94926 CATATATATT
Statistics
Matches: 63, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
38 15 0.24
39 11 0.17
40 10 0.16
41 9 0.14
42 18 0.29
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (38 bp):
AAATAAAAATATTAAAGATAAATAAAAAAATAATAGAT
Found at i:94889 original size:38 final size:40
Alignment explanation
Indices: 94810--94922 Score: 113
Period size: 38 Copynumber: 2.8 Consensus size: 40
94800 AAATCAAATC
* * *
94810 AAATAAAAATGTTAATAGATAATTAAAGAAAAATAATTAGAT
1 AAATAAAAATATTAA-AGATAAAT-AAGAATAATAATTAGAT
94852 AAATAAAAATATTAAAGATAAATAA-AATAATAA-TAGAT
1 AAATAAAAATATTAAAGATAAATAAGAATAATAATTAGAT
* * * *
94890 AAATTATAATATATAAATAATAAATAATAATAA
1 AAATAAAAATAT-TAAA-GATAAATAAGAATAA
94923 ATACATATAT
Statistics
Matches: 62, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
38 15 0.24
39 11 0.18
40 10 0.16
41 12 0.19
42 14 0.23
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.29
Consensus pattern (40 bp):
AAATAAAAATATTAAAGATAAATAAGAATAATAATTAGAT
Found at i:94898 original size:7 final size:7
Alignment explanation
Indices: 94850--95109 Score: 66
Period size: 7 Copynumber: 36.7 Consensus size: 7
94840 AAATAATTAG
94850 ATAAATA
1 ATAAATA
94857 A-AAATA
1 ATAAATA
* *
94863 TTAAA-G
1 ATAAATA
94869 ATAAAT-
1 ATAAATA
94875 A-AAATA
1 ATAAATA
94881 AT-AATA
1 ATAAATA
*
94887 GATAAATT
1 -ATAAATA
94895 AT-AATA
1 ATAAATA
94901 TATAAATA
1 -ATAAATA
94909 ATAAATA
1 ATAAATA
94916 AT-AATAA
1 ATAAAT-A
*
94923 ATACAT-
1 ATAAATA
* *
94929 ATATATT
1 ATAAATA
94936 AT-AATA
1 ATAAATA
94942 TATAAATA
1 -ATAAATA
94950 GATAAACATA
1 -AT-AA-ATA
94960 TATAAATA
1 -ATAAATA
*
94968 TTAATAATA
1 AT-A-AATA
94977 TATAAATA
1 -ATAAATA
94985 GATAAAT-
1 -ATAAATA
*
94992 ATATATA
1 ATAAATA
*
94999 A-ATATTA
1 ATA-AATA
* *
95006 ACAGATA
1 ATAAATA
*
95013 A-AAAAA
1 ATAAATA
95019 CATAAAT-
1 -ATAAATA
*
95026 ATATATTA
1 ATA-AATA
95034 ATAAATA
1 ATAAATA
* *
95041 GT-AACA
1 ATAAATA
95047 ATAAATAA
1 ATAAAT-A
95055 ATAAATA
1 ATAAATA
*
95062 ATAAACA
1 ATAAATA
95069 CATAAGATA
1 -ATAA-ATA
*
95078 CA-AAAAA
1 -ATAAATA
*
95085 ATAAAAA
1 ATAAATA
95092 ATAAA-A
1 ATAAATA
*
95098 ATAAAAA
1 ATAAATA
95105 ATAAA
1 ATAAA
95110 ATAAAGATAT
Statistics
Matches: 191, Mismatches: 31, Indels: 62
0.67 0.11 0.22
Matches are distributed among these distances:
5 4 0.02
6 51 0.27
7 68 0.36
8 49 0.26
9 13 0.07
10 6 0.03
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (7 bp):
ATAAATA
Found at i:94916 original size:18 final size:19
Alignment explanation
Indices: 94842--95002 Score: 113
Period size: 18 Copynumber: 8.4 Consensus size: 19
94832 TTAAAGAAAA
* *
94842 ATAATTAGATAAATAAAAAT
1 ATAAATAGATAAAT-AATAT
* *
94862 ATTAA-AGATAAATAAAAT
1 ATAAATAGATAAATAATAT
94880 A-ATAATAGATAAATTATAATAT
1 ATA-AATAGAT-AA--ATAATAT
94902 ATAAATA-ATAAATAATA-
1 ATAAATAGATAAATAATAT
*
94919 ATAAATACATATATATTATAATAT
1 ATAAAT--AGATA-A--ATAATAT
*
94943 ATAAATAGATAAA-CATAT
1 ATAAATAGATAAATAATAT
*
94961 ATAAAT--ATTAATAATAT
1 ATAAATAGATAAATAATAT
94978 ATAAATAGATAAAT-ATAT
1 ATAAATAGATAAATAATAT
94996 ATAAATA
1 ATAAATA
95003 TTAACAGATA
Statistics
Matches: 116, Mismatches: 9, Indels: 34
0.73 0.06 0.21
Matches are distributed among these distances:
16 4 0.03
17 16 0.14
18 35 0.30
19 19 0.16
20 10 0.09
21 4 0.03
22 15 0.13
23 7 0.06
24 6 0.05
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (19 bp):
ATAAATAGATAAATAATAT
Found at i:94940 original size:55 final size:58
Alignment explanation
Indices: 94873--94999 Score: 140
Period size: 59 Copynumber: 2.2 Consensus size: 58
94863 TTAAAGATAA
*
94873 ATAAA-ATA-ATAATAGATAAAT-TATA-ATATATAAATAATAAATAATA-ATAAATAC
1 ATAAATATATATAATAGATAAATATAAACATATATAAAT-ATAAATAATATATAAATAC
* * * *
94927 ATATATAT-TATAATATATAAATAGATAAACATATATAAATATTAATAATATATAAATAG
1 ATAAATATATATAATAGATAAAT--ATAAACATATATAAATATAAATAATATATAAATAC
94986 ATAAATATATATAA
1 ATAAATATATATAA
95000 ATATTAACAG
Statistics
Matches: 59, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
54 4 0.07
55 14 0.24
58 12 0.20
59 24 0.41
60 5 0.08
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (58 bp):
ATAAATATATATAATAGATAAATATAAACATATATAAATATAAATAATATATAAATAC
Found at i:94966 original size:59 final size:59
Alignment explanation
Indices: 94898--95028 Score: 158
Period size: 59 Copynumber: 2.2 Consensus size: 59
94888 ATAAATTATA
* *
94898 ATATATAAATAATAAATAATA-ATAAATACATATATAT-TATAATATATAAATAGATAAAC
1 ATATATAAAT-ATAAATAATATATAAATACATAAATATATATAA-ATATAAACAGATAAAC
* * * *
94957 ATATATAAATATTAATAATATATAAATAGATAAATATATATAAATATTAACAGATAAAA
1 ATATATAAATATAAATAATATATAAATACATAAATATATATAAATATAAACAGATAAAC
* *
95016 AAACATAAATATA
1 ATATATAAATATA
95029 TATTAATAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
58 9 0.15
59 47 0.77
60 5 0.08
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.33
Consensus pattern (59 bp):
ATATATAAATATAAATAATATATAAATACATAAATATATATAAATATAAACAGATAAAC
Found at i:94996 original size:35 final size:35
Alignment explanation
Indices: 94883--95036 Score: 155
Period size: 35 Copynumber: 4.6 Consensus size: 35
94873 ATAAAATAAT
* * *
94883 AATAGATAAAT-TATA-ATATATAAATAATAAAT-
1 AATAGATAAATATATATAAATATTAATAATATATA
*
94915 AATA-ATAAATACATAT--ATATT-ATAATATATA
1 AATAGATAAATATATATAAATATTAATAATATATA
*
94946 AATAGATAAACATATATAAATATTAATAATATATA
1 AATAGATAAATATATATAAATATTAATAATATATA
*
94981 AATAGATAAATATATATAAATATTAACAGATA-A-A
1 AATAGATAAATATATATAAATATTAATA-ATATATA
* * *
95015 AAAACATAAATATATATTAATA
1 AATAGATAAATATATATAAATA
95037 AATAGTAACA
Statistics
Matches: 104, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
30 8 0.08
31 14 0.13
32 17 0.16
34 25 0.24
35 37 0.36
36 3 0.03
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.34
Consensus pattern (35 bp):
AATAGATAAATATATATAAATATTAATAATATATA
Found at i:95003 original size:10 final size:10
Alignment explanation
Indices: 94888--95003 Score: 52
Period size: 10 Copynumber: 11.8 Consensus size: 10
94878 ATAATAATAG
94888 ATAAATTATAAT
1 ATAAA-TAT-AT
94900 ATATAA-ATA-
1 ATA-AATATAT
94909 ATAAATA-AT
1 ATAAATATAT
*
94918 AATAAATACAT
1 -ATAAATATAT
*
94929 ATATATTATAAT
1 ATA-AATAT-AT
*
94941 ATATAA-ATAG
1 ATA-AATATAT
*
94951 ATAAACATAT
1 ATAAATATAT
94961 ATAAATAT-T
1 ATAAATATAT
*
94970 A-ATA-ATAT
1 ATAAATATAT
*
94978 AT-AA-ATAG
1 ATAAATATAT
94986 ATAAATATAT
1 ATAAATATAT
94996 ATAAATAT
1 ATAAATAT
95004 TAACAGATAA
Statistics
Matches: 82, Mismatches: 10, Indels: 26
0.69 0.08 0.22
Matches are distributed among these distances:
7 2 0.02
8 13 0.16
9 10 0.12
10 36 0.44
11 9 0.11
12 10 0.12
13 2 0.02
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (10 bp):
ATAAATATAT
Found at i:95059 original size:8 final size:7
Alignment explanation
Indices: 95046--95142 Score: 67
Period size: 7 Copynumber: 14.0 Consensus size: 7
95036 AAATAGTAAC
95046 AATAAATA
1 AATAAA-A
*
95054 AATAAAT
1 AATAAAA
95061 AATAAACA
1 AATAAA-A
* *
95069 CATAAGA
1 AATAAAA
* *
95076 TACAAAAA
1 AATAAA-A
95084 AATAAAA
1 AATAAAA
95091 AAT-AAA
1 AATAAAA
95097 AATAAAA
1 AATAAAA
95104 AAT--AA
1 AATAAAA
95109 AAT-AAA
1 AATAAAA
* *
95115 GATATAA
1 AATAAAA
*
95122 AATACAA
1 AATAAAA
95129 AATAAAA
1 AATAAAA
95136 AATAAAA
1 AATAAAA
95143 TGGGCTTACC
Statistics
Matches: 70, Mismatches: 14, Indels: 11
0.74 0.15 0.12
Matches are distributed among these distances:
5 5 0.07
6 10 0.14
7 40 0.57
8 15 0.21
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (7 bp):
AATAAAA
Found at i:95099 original size:13 final size:13
Alignment explanation
Indices: 95081--95142 Score: 74
Period size: 13 Copynumber: 4.8 Consensus size: 13
95071 TAAGATACAA
95081 AAAAATAAAAAAT
1 AAAAATAAAAAAT
95094 AAAAATAAAAAAT
1 AAAAATAAAAAAT
*
95107 -AAAAT-AAAGAT
1 AAAAATAAAAAAT
*
95118 ATAAAATACAAAAT
1 A-AAAATAAAAAAT
95132 AAAAAATAAAA
1 -AAAAATAAAA
95143 TGGGCTTACC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
11 5 0.12
12 5 0.12
13 18 0.44
14 12 0.29
15 1 0.02
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.16
Consensus pattern (13 bp):
AAAAATAAAAAAT
Found at i:95110 original size:7 final size:7
Alignment explanation
Indices: 95080--95142 Score: 71
Period size: 7 Copynumber: 9.6 Consensus size: 7
95070 ATAAGATACA
95080 AAAAAAT
1 AAAAAAT
95087 AAAAAAT
1 AAAAAAT
95094 -AAAAAT
1 AAAAAAT
95100 AAAAAAT
1 AAAAAAT
95107 --AAAAT
1 AAAAAAT
*
95112 -AAAGAT
1 AAAAAAT
*
95118 ATAAAAT
1 AAAAAAT
*
95125 ACAAAAT
1 AAAAAAT
95132 AAAAAAT
1 AAAAAAT
95139 AAAA
1 AAAA
95143 TGGGCTTACC
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
5 5 0.10
6 10 0.21
7 33 0.69
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.16
Consensus pattern (7 bp):
AAAAAAT
Found at i:95123 original size:25 final size:25
Alignment explanation
Indices: 95082--95143 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
95072 AAGATACAAA
95082 AAAATAAAAAATAAAAATAAAAAAT
1 AAAATAAAAAATAAAAATAAAAAAT
* *
95107 AAAAT-AAAGATATAAAATACAAAAT
1 AAAATAAAAAATA-AAAATAAAAAAT
95132 AAAA-AATAAAAT
1 AAAATAA-AAAAT
95144 GGGCTTACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
24 6 0.19
25 21 0.68
26 4 0.13
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.18
Consensus pattern (25 bp):
AAAATAAAAAATAAAAATAAAAAAT
Found at i:95415 original size:42 final size:43
Alignment explanation
Indices: 95321--95615 Score: 267
Period size: 42 Copynumber: 6.9 Consensus size: 43
95311 TTGATCAAAA
* * * *
95321 CTCCTCTAAGCAGAGGCTCAATGAC-TTTGAAAAACATAAACAAAG
1 CTCCTCTAATCAGAGGATCAACGACTTTTG--AAA-ATAAATAAAG
*
95366 CTCCTCTAATCAGAGGATTAACGAC-TTTGAAAATAAATAAAG
1 CTCCTCTAATCAGAGGATCAACGACTTTTGAAAATAAATAAAG
*
95408 CTTCTCTAATCAGAGGATCAACGACTTTTGAAAATAAATAAACAAAG
1 CTCCTCTAATCAGAGGATCAACGACTTTTGAAAATAAAT----AAAG
*
95455 CTCC-CTTAATCAGAGGCTCAACGAC-TTTGAAAATAAAT--AG
1 CTCCTC-TAATCAGAGGATCAACGACTTTTGAAAATAAATAAAG
* *
95495 CTCCTCTAATCAGA-GACTCAATGACTTTTGAAAAT-AA-AAGG
1 CTCCTCTAATCAGAGGA-TCAACGACTTTTGAAAATAAATAAAG
* *
95536 CTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAAT--TG
1 CTCCTCTAATCAGAGGATCAACGACTTTTGAAAA-TAAATAAAG
*
95578 CTCCTCTGAA-CAGAGGCATC-ACAAC-TTTGAAAAATAAA
1 CTCCTCT-AATCAGAGG-ATCAACGACTTTTG-AAAATAAA
95616 ATTGCTCCTT
Statistics
Matches: 215, Mismatches: 17, Indels: 40
0.79 0.06 0.15
Matches are distributed among these distances:
39 1 0.00
40 23 0.11
41 49 0.23
42 56 0.26
43 22 0.10
45 25 0.12
46 14 0.07
47 25 0.12
ACGTcount: A:0.40, C:0.20, G:0.15, T:0.25
Consensus pattern (43 bp):
CTCCTCTAATCAGAGGATCAACGACTTTTGAAAATAAATAAAG
Found at i:95465 original size:47 final size:46
Alignment explanation
Indices: 95316--95575 Score: 234
Period size: 45 Copynumber: 5.9 Consensus size: 46
95306 CAAATTTGAT
* * * * *
95316 CAAAACTCCTCTAAGCAGAGGCTCAATGACTTTGAAAA-ACATAAA
1 CAAAGCTCCTCTAATCAGAGGATCAACGACTTTGAAAATAAATAAA
*
95361 CAAAGCTCCTCTAATCAGAGGATTAACGACTTTGAAAATAAAT---
1 CAAAGCTCCTCTAATCAGAGGATCAACGACTTTGAAAATAAATAAA
*
95404 -AAAGCTTCTCTAATCAGAGGATCAACGACTTTTGAAAATAAATAAA
1 CAAAGCTCCTCTAATCAGAGGATCAACGAC-TTTGAAAATAAATAAA
*
95450 CAAAGCTCC-CTTAATCAGAGGCTCAACGACTTTGAAAATAAAT---
1 CAAAGCTCCTC-TAATCAGAGGATCAACGACTTTGAAAATAAATAAA
*
95493 ---AGCTCCTCTAATCAGA-GACTCAATGACTTTTG---A-AAAT-AA
1 CAAAGCTCCTCTAATCAGAGGA-TCAACGAC-TTTGAAAATAAATAAA
* *
95532 -AAGGCTCCTCTAATCAGAGGCTCAACGACTTTTGAAAAGTAAAT
1 CAAAGCTCCTCTAATCAGAGGATCAACGAC-TTTGAAAA-TAAAT
95576 TGCTCCTCTG
Statistics
Matches: 180, Mismatches: 15, Indels: 39
0.77 0.06 0.17
Matches are distributed among these distances:
37 4 0.02
38 1 0.01
39 1 0.01
40 21 0.12
41 32 0.18
42 28 0.16
43 13 0.07
44 1 0.01
45 33 0.18
46 21 0.12
47 25 0.14
ACGTcount: A:0.41, C:0.20, G:0.14, T:0.25
Consensus pattern (46 bp):
CAAAGCTCCTCTAATCAGAGGATCAACGACTTTGAAAATAAATAAA
Found at i:95478 original size:89 final size:86
Alignment explanation
Indices: 95321--95598 Score: 331
Period size: 87 Copynumber: 3.2 Consensus size: 86
95311 TTGATCAAAA
* * * * *
95321 CTCCTCTAAGCAGAGGCTCAATGAC-TTTGAAAAACATAAACAAAGCTCCTCTAATCAGAGGATT
1 CTCCTCTAATCAGAGGATCAATGACTTTTGAAAAAAATAAACAAAGCTCCTCTAATCAGAGGCTC
95385 AACGACTTTGAAAATAAATAAAG
66 AACGACTTTGAAAATAAAT--AG
* *
95408 CTTCTCTAATCAGAGGATCAACGACTTTTGAAAATAAATAAACAAAGCTCC-CTTAATCAGAGGC
1 CTCCTCTAATCAGAGGATCAATGACTTTTGAAAA-AAATAAACAAAGCTCCTC-TAATCAGAGGC
95472 TCAACGACTTTGAAAATAAATAG
64 TCAACGACTTTGAAAATAAATAG
*
95495 CTCCTCTAATCAGA-GACTCAATGACTTTTG---AAAAT-AA-AAGGCTCCTCTAATCAGAGGCT
1 CTCCTCTAATCAGAGGA-TCAATGACTTTTGAAAAAAATAAACAAAGCTCCTCTAATCAGAGGCT
*
95554 CAACGACTTTTGAAAAGTAAATTG
65 CAACGAC-TTTGAAAA-TAAATAG
95578 CTCCTCTGAA-CAGAGGCATCA
1 CTCCTCT-AATCAGAGG-ATCA
95599 CAACTTTGAA
Statistics
Matches: 170, Mismatches: 11, Indels: 23
0.83 0.05 0.11
Matches are distributed among these distances:
81 26 0.15
82 11 0.06
83 21 0.12
84 7 0.04
85 1 0.01
86 2 0.01
87 48 0.28
88 9 0.05
89 45 0.26
ACGTcount: A:0.39, C:0.21, G:0.15, T:0.25
Consensus pattern (86 bp):
CTCCTCTAATCAGAGGATCAATGACTTTTGAAAAAAATAAACAAAGCTCCTCTAATCAGAGGCTC
AACGACTTTGAAAATAAATAG
Found at i:96667 original size:15 final size:15
Alignment explanation
Indices: 96639--96668 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96629 ATTTTTCCTT
96639 TTTTTTAATTTTTTA
1 TTTTTTAATTTTTTA
*
96654 TTTTTTCATTTTTTA
1 TTTTTTAATTTTTTA
96669 AAGCATAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (15 bp):
TTTTTTAATTTTTTA
Found at i:106811 original size:59 final size:59
Alignment explanation
Indices: 106568--106845 Score: 393
Period size: 60 Copynumber: 4.7 Consensus size: 59
106558 TTGTACAAAA
* * *
106568 AAAATTGATACTTTCAACTTTTCCTC-AAAA-ATTTGTTTAG-AAACTTTAATTTCGAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAAC-TTATTTTCAAGG
* *
106625 AAAATTGATACTTTTAACTTTTTCC-CAAAAATATTTTTTTTTAGAAAGCTTATTTTCAAGG
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAATA--TTTTTTTAGAAAACTTATTTTCAAGG
* * *
106686 AAAATTGATACTTTCATCTTTTCCTCAAAAATAATTTTTTAGAAAAGCTTATTTTCAAAG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAA-CTTATTTTCAAGG
*
106746 AAAATTGATACTTTCATCTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG
106805 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAT-TTTTTT
106846 TAAATTTTAT
Statistics
Matches: 199, Mismatches: 13, Indels: 15
0.88 0.06 0.07
Matches are distributed among these distances:
57 18 0.09
58 10 0.05
59 57 0.29
60 69 0.35
61 42 0.21
62 3 0.02
ACGTcount: A:0.36, C:0.13, G:0.07, T:0.44
Consensus pattern (59 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTAGAAAACTTATTTTCAAGG
Found at i:106819 original size:119 final size:119
Alignment explanation
Indices: 106568--106867 Score: 409
Period size: 119 Copynumber: 2.5 Consensus size: 119
106558 TTGTACAAAA
* * *
106568 AAAATTGATACTTTCAACTTTTCCTCAAAAAT--TTGTTTAGAAACTTTAATTTCGAGGAAAATT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTAGAAACTTTAATTTCAAAGAAAATT
* *
106631 GATACTTTTAACTTTTTCCCAAAAATATTTTTTTTTAGAAAGCTTATTTTCAAGG
66 GATACTTTCAACTTTTTCCCAAAAATA-TTTTTTTTAGAAAACTTATTTTCAAGG
* *
106686 AAAATTGATACTTTCATCTTTTCCTCAAAAATAATTTTTTAGAAAAGC-TTATTTTCAAAGAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTAG-AAA-CTTTAATTTCAAAGAAAA
*
106750 TTGATACTTTCATC-TTTTCCTCAAAAATA-TTTTTTTAGAAAACTTATTTTCAAGG
64 TTGATACTTTCAACTTTTTCC-CAAAAATATTTTTTTTAGAAAACTTATTTTCAAGG
* *
106805 AAAATTGATACTTTCAACTTTTCCTCAAAAATATATTTTTT-TAAA-TTTTATTT-AAAGAAAAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATA-ATTTTTTAGAAACTTTAATTTCAAAGAAAAT
106867 T
65 T
106868 AAATTAAATT
Statistics
Matches: 163, Mismatches: 12, Indels: 16
0.85 0.06 0.08
Matches are distributed among these distances:
116 10 0.06
117 5 0.03
118 34 0.21
119 57 0.35
120 20 0.12
121 36 0.22
122 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (119 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATAATTTTTTAGAAACTTTAATTTCAAAGAAAATT
GATACTTTCAACTTTTTCCCAAAAATATTTTTTTTAGAAAACTTATTTTCAAGG
Found at i:106903 original size:5 final size:5
Alignment explanation
Indices: 106862--106949 Score: 88
Period size: 5 Copynumber: 17.0 Consensus size: 5
106852 TTATTTAAAG
* * * *
106862 AAAATT AAATT AAATT AAATT AAAATT AAAAT GAAAAT AAAAT TAAA-
1 AAAA-T AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAAAT
*
106909 AAAAT AAAAT AAAAAT AAAAT AAAAC AAAAT AAAAT AAAAT
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
106950 GTATTAAAAA
Statistics
Matches: 72, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
4 3 0.04
5 51 0.71
6 18 0.25
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (5 bp):
AAAAT
Found at i:106917 original size:6 final size:6
Alignment explanation
Indices: 106878--107004 Score: 55
Period size: 6 Copynumber: 20.2 Consensus size: 6
106868 AAATTAAATT
* * * * *
106878 AAATTA AAATTA AAATGA AAATAA AATTAA AAAAATA AAATAA AAAT-A
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATA-A AAATAA AAATAA
* **
106926 AAAT-A AAA-CA AAAT-A AAATAA AATGTATTAA AAATTATA ATCTAA
1 AAATAA AAATAA AAATAA AAATAA AA---A-TAA AAA-TA-A AAATAA
*
106971 TAAATAA ATAATAA AAATAA TAATAA TAAATAA A
1 -AAATAA A-AATAA AAATAA AAATAA -AAATAA A
107005 TAACCTGGAA
Statistics
Matches: 97, Mismatches: 12, Indels: 24
0.73 0.09 0.18
Matches are distributed among these distances:
5 18 0.19
6 45 0.46
7 26 0.27
8 2 0.02
9 1 0.01
10 5 0.05
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (6 bp):
AAATAA
Found at i:106930 original size:11 final size:11
Alignment explanation
Indices: 106862--106949 Score: 72
Period size: 11 Copynumber: 7.9 Consensus size: 11
106852 TTATTTAAAG
* *
106862 AAAATTAAATT
1 AAAATAAAATA
* *
106873 AAATTAAATTA
1 AAAATAAAATA
* *
106884 AAATTAAAATG
1 AAAATAAAATA
106895 AAAATAAAATTAAA
1 AAAATAAAA-T--A
106909 AAAATAAAATA
1 AAAATAAAATA
106920 AAAATAAAAT-
1 AAAATAAAATA
*
106930 AAAACAAAAT-
1 AAAATAAAATA
106940 AAAATAAAAT
1 AAAATAAAAT
106950 GTATTAAAAA
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
10 18 0.28
11 35 0.55
12 1 0.02
13 1 0.02
14 9 0.14
ACGTcount: A:0.74, C:0.01, G:0.01, T:0.24
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:106997 original size:26 final size:26
Alignment explanation
Indices: 106908--107007 Score: 86
Period size: 26 Copynumber: 4.0 Consensus size: 26
106898 ATAAAATTAA
106908 AAAAATAA-AATAA-AAAT-AA-AAT
1 AAAAATAATAATAATAAATAAATAAT
* ** *
106930 AAAACAAAATAA-AATAAA-ATGTATT
1 AAAA-ATAATAATAATAAATAAATAAT
*
106955 AAAAATTATAATCTAATAAATAAATAAT
1 AAAAATAATAA--TAATAAATAAATAAT
106983 AAAAATAATAATAATAAATAAATAA
1 AAAAATAATAATAATAAATAAATAA
107008 CCTGGAAATG
Statistics
Matches: 59, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
22 4 0.07
23 5 0.08
24 10 0.17
25 6 0.10
26 14 0.24
27 6 0.10
28 14 0.24
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (26 bp):
AAAAATAATAATAATAAATAAATAAT
Found at i:107929 original size:42 final size:41
Alignment explanation
Indices: 107866--107985 Score: 107
Period size: 42 Copynumber: 2.9 Consensus size: 41
107856 AAATCAAATC
* * *
107866 AAATAAAAAATGTTAATAGATAATTAAAGAAAAATAATTAGAT
1 AAATAAAAAATATTAACAGATAAATAAA-AAAAATAA-TAGAT
* *
107909 AAAT-AAAAATATTAACAGATAAATAAAAATAATAATAGTT
1 AAATAAAAAATATTAACAGATAAATAAAAAAAATAATAGAT
* * * * *
107949 AAATTATAATATATAAATAGATAAATAATAATAAATA
1 AAA-TAAAAAATATTAACAGATAAATAA-AAAAAATA
107986 CATATATATT
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
40 7 0.11
41 8 0.13
42 38 0.60
43 10 0.16
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (41 bp):
AAATAAAAAATATTAACAGATAAATAAAAAAAATAATAGAT
Found at i:107930 original size:20 final size:20
Alignment explanation
Indices: 107866--107981 Score: 97
Period size: 20 Copynumber: 5.5 Consensus size: 20
107856 AAATCAAATC
*
107866 AAATAAAAAATGTTAATAGAT
1 AAAT-AAAAATATTAATAGAT
* * *
107887 AATTAAAGAAAAATAATTAGAT
1 AAATAAA-AATATTAA-TAGAT
*
107909 AAATAAAAATATTAACAGAT
1 AAATAAAAATATTAATAGAT
* *
107929 AAATAAAAATAATAATAGTT
1 AAATAAAAATATTAATAGAT
* *
107949 AAATTATAATATATAAATAGAT
1 AAA-TA-AAAATATTAATAGAT
*
107971 AAATAATAATA
1 AAATAAAAATA
107982 AATACATATA
Statistics
Matches: 74, Mismatches: 17, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
20 31 0.42
21 18 0.24
22 25 0.34
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (20 bp):
AAATAAAAATATTAATAGAT
Found at i:107952 original size:14 final size:14
Alignment explanation
Indices: 107935--108153 Score: 71
Period size: 14 Copynumber: 16.4 Consensus size: 14
107925 AGATAAATAA
107935 AAATAATAATAGT-T
1 AAATAATAATA-TAT
*
107949 AAATTATAATATAT
1 AAATAATAATATAT
107963 AAATAGATAA-ATA-
1 AAATA-ATAATATAT
107976 ATAATAAATACATATAT
1 A-AAT-AATA-ATATAT
*
107993 --ATTATAATATAT
1 AAATAATAATATAT
*
108005 AAATAGATAA-ACAT
1 AAATA-ATAATATAT
*
108019 ATAT-A-AATAT-T
1 AAATAATAATATAT
*
108030 AAA-AATATATAAAT
1 AAATAATA-ATATAT
*
108044 AGATAA-ATATATAT
1 AAATAATA-ATATAT
* * *
108058 AAATATTAACAGAT
1 AAATAATAATATAT
*
108072 AAAAAATAA-ATAT
1 AAATAATAATATAT
* *
108085 --ATATTAATAAAT
1 AAATAATAATATAT
* *
108097 -AGTAATAATAAAT
1 AAATAATAATATAT
* *
108110 AAATACATAAGATAC
1 AAATA-ATAATATAT
*
108125 AAA-AAAAATATA-
1 AAATAATAATATAT
108137 AAAT-ATAA-ATAT
1 AAATAATAATATAT
108149 AAATA
1 AAATA
108154 TAAAATAAAG
Statistics
Matches: 151, Mismatches: 30, Indels: 49
0.66 0.13 0.21
Matches are distributed among these distances:
11 14 0.09
12 22 0.15
13 27 0.18
14 63 0.42
15 22 0.15
16 3 0.02
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (14 bp):
AAATAATAATATAT
Found at i:107972 original size:8 final size:8
Alignment explanation
Indices: 107948--108160 Score: 99
Period size: 8 Copynumber: 26.8 Consensus size: 8
107938 TAATAATAGT
107948 TAAAT-TA
1 TAAATATA
107955 T-AATATA
1 TAAATATA
*
107962 TAAATAGA
1 TAAATATA
107970 TAAATAATAA
1 TAAAT-AT-A
*
107980 TAAATACA
1 TAAATATA
*
107988 TATATAT-
1 TAAATATA
107995 TATAATATA
1 TA-AATATA
*
108004 TAAATAGA
1 TAAATATA
108012 TAAACATATA
1 T-AA-ATATA
108022 TAAATATTA
1 TAAATA-TA
*
108031 AAAATATA
1 TAAATATA
*
108039 TAAATAGA
1 TAAATATA
108047 TAAATATA
1 TAAATATA
108055 TATAA-ATA
1 TA-AATATA
* * *
108063 TTAACAGA
1 TAAATATA
*
108071 TAAA-AAA
1 TAAATATA
108078 TAAATATA
1 TAAATATA
*
108086 T-ATTA-A
1 TAAATATA
108092 TAAATAGTA
1 TAAATA-TA
*
108101 -ATAATAAA
1 TA-AATATA
*
108109 TAAATACA
1 TAAATATA
*
108117 TAAGATACAA
1 TAA-ATA-TA
* *
108127 AAAAAATA
1 TAAATATA
108135 TAAA-ATA
1 TAAATATA
108142 T-AA-ATA
1 TAAATATA
108148 TAAATATA
1 TAAATATA
108156 -AAATA
1 TAAATA
108161 AAGATATAAA
Statistics
Matches: 159, Mismatches: 26, Indels: 42
0.70 0.11 0.19
Matches are distributed among these distances:
6 11 0.07
7 31 0.19
8 75 0.47
9 28 0.18
10 14 0.09
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.31
Consensus pattern (8 bp):
TAAATATA
Found at i:107984 original size:10 final size:10
Alignment explanation
Indices: 107927--108049 Score: 53
Period size: 11 Copynumber: 12.1 Consensus size: 10
107917 ATATTAACAG
*
107927 ATAAATAAAA
1 ATAAATAATA
107937 AT-AATAATA
1 ATAAATAATA
* *
107946 GTTAAATTATA
1 -ATAAATAATA
*
107957 ATATATAAATA
1 ATAAAT-AATA
107968 GATAAATAATA
1 -ATAAATAATA
107979 ATAAATACATA
1 ATAAATA-ATA
*
107990 TATATTATAATA
1 -ATA-AATAATA
108002 TATAAATAGATA
1 -ATAAATA-ATA
*
108014 A-ACAT-AT-
1 ATAAATAATA
*
108021 ATAAATATTA
1 ATAAATAATA
108031 A-AAAT-AT-
1 ATAAATAATA
108038 ATAAATAGATA
1 ATAAATA-ATA
108049 A
1 A
108050 ATATATATAA
Statistics
Matches: 85, Mismatches: 13, Indels: 29
0.67 0.10 0.23
Matches are distributed among these distances:
7 2 0.02
8 10 0.12
9 11 0.13
10 20 0.24
11 21 0.25
12 18 0.21
13 3 0.04
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (10 bp):
ATAAATAATA
Found at i:107997 original size:42 final size:41
Alignment explanation
Indices: 107925--108062 Score: 143
Period size: 42 Copynumber: 3.5 Consensus size: 41
107915 AAATATTAAC
*
107925 AGATAAATAA-AAAT-AATAATAGTTAAATTATAATATATAAAT
1 AGATAAATAATATATAAATAATA--T-AATTATAATATATAAAT
107967 AGATAAATAATA-ATAAATACATATATATTATAATATATAAAT
1 AGATAAATAATATATAAATA-ATATA-ATTATAATATATAAAT
*
108009 AGATAAA-CATATATAAAT-AT-TAA--A-AATATATAAAT
1 AGATAAATAATATATAAATAATATAATTATAATATATAAAT
108044 AGATAAAT-ATATATAAATA
1 AGATAAATAATATATAAATA
108063 TTAACAGATA
Statistics
Matches: 88, Mismatches: 1, Indels: 20
0.81 0.01 0.18
Matches are distributed among these distances:
35 28 0.32
36 1 0.01
38 1 0.01
39 2 0.02
40 2 0.02
41 4 0.05
42 42 0.48
43 5 0.06
44 3 0.03
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (41 bp):
AGATAAATAATATATAAATAATATAATTATAATATATAAAT
Found at i:108043 original size:35 final size:35
Alignment explanation
Indices: 107963--108066 Score: 131
Period size: 35 Copynumber: 3.0 Consensus size: 35
107953 TATAATATAT
* * *
107963 AAATAGATAAATA-ATAATAAATACATATATATT-A
1 AAATATATAAATAGATAA-AAATATATAAATATTAA
* *
107997 TAATATATAAATAGATAAACATATATAAATATTAA
1 AAATATATAAATAGATAAAAATATATAAATATTAA
*
108032 AAATATATAAATAGATAAATATATATAAATATTAA
1 AAATATATAAATAGATAAAAATATATAAATATTAA
108067 CAGATAAAAA
Statistics
Matches: 61, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
34 23 0.38
35 38 0.62
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.34
Consensus pattern (35 bp):
AAATATATAAATAGATAAAAATATATAAATATTAA
Found at i:108074 original size:49 final size:48
Alignment explanation
Indices: 107914--108093 Score: 140
Period size: 49 Copynumber: 3.8 Consensus size: 48
107904 TAGATAAATA
*
107914 AAAATATTAACAGAT--A-AATAAAAATA-AT-AATAGTTAAAT-TAT
1 AAAATATAAACAGATAAATAATAAAAATATATAAATAGTTAAATATAT
* * * *
107956 AATATATAAATAGATAAATAATAATAAATACATATATA-TTATAATATAT
1 AAAATATAAACAGATAAATAATAA-AAATATATAAATAGTTA-AATATAT
* * * *
108005 AAATAGATAAACATATATAAATATTAAAAATATATAAATAGATAAATATAT
1 AAA-ATATAAAC--AGATAAATAATAAAAATATATAAATAGTTAAATATAT
* * * *
108056 ATAAATATTAACAGATAAAAAATAAATATATATTAATA
1 A-AAATATAAACAGATAAATAATAAAAATATATAAATA
108094 AATAGTAATA
Statistics
Matches: 106, Mismatches: 19, Indels: 19
0.74 0.13 0.13
Matches are distributed among these distances:
42 12 0.11
44 1 0.01
45 5 0.05
46 5 0.05
47 5 0.05
48 6 0.06
49 26 0.25
50 6 0.06
51 25 0.24
52 15 0.14
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (48 bp):
AAAATATAAACAGATAAATAATAAAAATATATAAATAGTTAAATATAT
Found at i:108079 original size:35 final size:33
Alignment explanation
Indices: 107969--108119 Score: 112
Period size: 35 Copynumber: 4.5 Consensus size: 33
107959 ATATAAATAG
* * *
107969 ATAAATAATA-ATAAATACATAT--ATATTATA
1 ATAAAAAATAGATAAATATATATAAATATTAAA
* *
107999 ATATATAAATAGATAAACATATATAAATATTAAAA
1 ATA-AAAAATAGATAAATATATATAAATATT-AAA
*
108034 ATATATAAATAGATAAATATATATAAATATTAACA
1 ATA-AAAAATAGATAAATATATATAAATATTAA-A
* * *
108069 GATAAAAAATAAATATATAT-TAATAAATAGTAATA
1 -ATAAAAAATAGATAAATATAT-ATAAATATTAA-A
*
108104 ATAAATAAATACATAA
1 ATAAA-AAATAGATAA
108120 GATACAAAAA
Statistics
Matches: 99, Mismatches: 13, Indels: 13
0.79 0.10 0.10
Matches are distributed among these distances:
30 3 0.03
31 5 0.05
32 10 0.10
34 13 0.13
35 65 0.66
36 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (33 bp):
ATAAAAAATAGATAAATATATATAAATATTAAA
Found at i:108141 original size:7 final size:7
Alignment explanation
Indices: 108129--108191 Score: 73
Period size: 6 Copynumber: 9.7 Consensus size: 7
108119 AGATACAAAA
108129 AAAATAT
1 AAAATAT
108136 AAAATAT
1 AAAATAT
108143 -AAATAT
1 AAAATAT
108149 -AAATAT
1 AAAATAT
108155 AAAATA-
1 AAAATAT
*
108161 AAGATAT
1 AAAATAT
*
108168 AAAATAC
1 AAAATAT
108175 AAAATA-
1 AAAATAT
108181 AAAA-AT
1 AAAATAT
108187 AAAAT
1 AAAAT
108192 GGGCCTACCC
Statistics
Matches: 49, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
5 1 0.02
6 25 0.51
7 23 0.47
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:108154 original size:19 final size:18
Alignment explanation
Indices: 108130--108189 Score: 75
Period size: 19 Copynumber: 3.2 Consensus size: 18
108120 GATACAAAAA
108130 AAATATAAAATATAAATAT
1 AAATATAAAATA-AAATAT
108149 AAATATAAAATAAAGATAT
1 AAATATAAAATAAA-ATAT
* *
108168 AAAATACAAAATAAAAAAT
1 -AAATATAAAATAAAATAT
108187 AAA
1 AAA
108190 ATGGGCCTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.14
19 19 0.51
20 13 0.35
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (18 bp):
AAATATAAAATAAAATAT
Found at i:108160 original size:50 final size:51
Alignment explanation
Indices: 108068--108191 Score: 130
Period size: 50 Copynumber: 2.4 Consensus size: 51
108058 AAATATTAAC
* * *
108068 AGATA-AAAAATAAATATATATTAATAAATAGTAATAATAAATAAATACATA
1 AGATACAAAAA-AAATATAAAATAATAAATAGTAATAATAAATAAAGACATA
*
108119 AGATACAAAAAAAATATAAAAT-ATAAATA-TAA-ATATAAAATAAAGATATA
1 AGATACAAAAAAAATATAAAATAATAAATAGTAATA-AT-AAATAAAGACATA
* *
108169 AAATACAAAATAAAAAATAAAAT
1 AGATACAAAA-AAAATATAAAAT
108192 GGGCCTACCC
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
48 1 0.02
49 5 0.08
50 27 0.43
51 25 0.40
52 5 0.08
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.25
Consensus pattern (51 bp):
AGATACAAAAAAAATATAAAATAATAAATAGTAATAATAAATAAAGACATA
Found at i:108168 original size:32 final size:30
Alignment explanation
Indices: 108116--108191 Score: 82
Period size: 32 Copynumber: 2.4 Consensus size: 30
108106 AAATAAATAC
* *
108116 ATAAGATACAAAA-AAAATATAAAATATAAA
1 ATAA-ATATAAAATAAAATATAAAATACAAA
108146 TATAAATATAAAATAAAGATATAAAATACAAA
1 -ATAAATATAAAATAAA-ATATAAAATACAAA
*
108178 ATAAAAAATAAAAT
1 AT-AAATATAAAAT
108192 GGGCCTACCC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
30 7 0.18
31 9 0.23
32 23 0.59
ACGTcount: A:0.72, C:0.03, G:0.03, T:0.22
Consensus pattern (30 bp):
ATAAATATAAAATAAAATATAAAATACAAA
Found at i:108190 original size:19 final size:19
Alignment explanation
Indices: 108100--108191 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 19
108090 AATAAATAGT
*
108100 AATAATAAAT-AAATACATA
1 AATAAAAAATAAAATACA-A
* *
108119 AGATACAAAA-AAAATATAA
1 A-ATAAAAAATAAAATACAA
* *
108138 AAT-ATAAATATAAATATAA
1 AATAAAAAATA-AAATACAA
*
108157 AATAAAGATATAAAATACAA
1 AATAAA-AAATAAAATACAA
108177 AATAAAAAATAAAAT
1 AATAAAAAATAAAAT
108192 GGGCCTACCC
Statistics
Matches: 58, Mismatches: 9, Indels: 12
0.73 0.11 0.15
Matches are distributed among these distances:
17 3 0.05
18 3 0.05
19 22 0.38
20 26 0.45
21 4 0.07
ACGTcount: A:0.72, C:0.03, G:0.02, T:0.23
Consensus pattern (19 bp):
AATAAAAAATAAAATACAA
Found at i:111695 original size:2 final size:2
Alignment explanation
Indices: 111690--111728 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
111680 TCTCTCGCTC
111690 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
111729 CTGACGCAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:115988 original size:25 final size:24
Alignment explanation
Indices: 115938--116018 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 24
115928 GCGGTATCAA
* *
115938 AGTTGAAGGTTCAA-AACGTGAGAAG
1 AGTTGAAGATTCAAGAA-GGGA-AAG
*
115963 AGTTGAAGATTCAAGATATGGAAAG
1 AGTTGAAGATTCAAGA-AGGGAAAG
* * * *
115988 AGTCGAAGGTTCGAGACGGGAAAG
1 AGTTGAAGATTCAAGAAGGGAAAG
116012 AGTTGAA
1 AGTTGAA
116019 AGTTCGAGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 5
0.76 0.15 0.08
Matches are distributed among these distances:
24 12 0.27
25 29 0.64
26 3 0.07
27 1 0.02
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (24 bp):
AGTTGAAGATTCAAGAAGGGAAAG
Found at i:116294 original size:11 final size:11
Alignment explanation
Indices: 116278--116306 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
116268 AATCTGATAA
116278 GAGATTTGTTT
1 GAGATTTGTTT
116289 GAGATTTGTTT
1 GAGATTTGTTT
116300 GAGATTT
1 GAGATTT
116307 ATCAGATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.00, G:0.28, T:0.52
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:116419 original size:52 final size:52
Alignment explanation
Indices: 116333--116489 Score: 180
Period size: 52 Copynumber: 3.0 Consensus size: 52
116323 TGGACAAGAA
* * * *
116333 GACTTGCAAAAGAAGAATT-T-CAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAG-GAAA-AGGATTCTTAATAGGCAAGTTT
116385 GACTTACAAGAGAAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTT
1 GACTTACAAGAGAAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTT
* *
116437 GACTTAC-AGTAGAAGAATTCTAAGAGG-AGAGAGATTCTTAAT-GAGCAAGTTT
1 GACTTACAAG-AGAAGAATTCTAAAAGGAAAAG-GATTCTTAATAG-GCAAGTTT
116489 G
1 G
116490 TATGGTTATA
Statistics
Matches: 94, Mismatches: 6, Indels: 10
0.85 0.05 0.09
Matches are distributed among these distances:
51 6 0.06
52 80 0.85
53 5 0.05
54 3 0.03
ACGTcount: A:0.41, C:0.09, G:0.24, T:0.26
Consensus pattern (52 bp):
GACTTACAAGAGAAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTT
Found at i:117956 original size:20 final size:21
Alignment explanation
Indices: 117924--117963 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
117914 GGTGGGGATT
117924 TATTATAACTTTA-TATTTAG
1 TATTATAACTTTATTATTTAG
117944 TATTAATAA-TTTATTATTTA
1 TATT-ATAACTTTATTATTTA
117964 TTTAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (21 bp):
TATTATAACTTTATTATTTAG
Found at i:118124 original size:17 final size:17
Alignment explanation
Indices: 118094--118127 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
118084 TTTTTAAAAA
118094 AATAAAAATATATATAT
1 AATAAAAATATATATAT
118111 AATATAAAAT-TATATAT
1 AATA-AAAATATATATAT
118128 TTTATTCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AATAAAAATATATATAT
Found at i:121154 original size:13 final size:13
Alignment explanation
Indices: 121136--121174 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
121126 ATAAAAAAGA
121136 TAATAAAATTATT
1 TAATAAAATTATT
* *
121149 TAATAAATTTTTT
1 TAATAAAATTATT
121162 TAA-AAAATTATT
1 TAATAAAATTATT
121174 T
1 T
121175 TTATCAAAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TAATAAAATTATT
Found at i:132795 original size:3 final size:3
Alignment explanation
Indices: 132789--132841 Score: 90
Period size: 3 Copynumber: 17.7 Consensus size: 3
132779 CATCATCATC
132789 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TCT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT
132834 ATT ATT AT
1 ATT ATT AT
132842 GCATAAATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
2 1 0.02
3 46 0.96
4 1 0.02
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:134382 original size:17 final size:16
Alignment explanation
Indices: 134364--134423 Score: 66
Period size: 17 Copynumber: 3.6 Consensus size: 16
134354 TCTTCGTCTT
*
134364 TCTTTTTTTTTTGTTTT
1 TCTTTTTTTTTT-TTTC
* *
134381 TCTTTTTGTTTTTCTC
1 TCTTTTTTTTTTTTTC
134397 TCTTTTTCTTTTTTTTC
1 TCTTTTT-TTTTTTTTC
*
134414 CCTTTTTTTT
1 TCTTTTTTTT
134424 ATCGTTACTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
16 12 0.33
17 24 0.67
ACGTcount: A:0.00, C:0.15, G:0.03, T:0.82
Consensus pattern (16 bp):
TCTTTTTTTTTTTTTC
Found at i:134386 original size:12 final size:12
Alignment explanation
Indices: 134366--134395 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
134356 TTCGTCTTTC
134366 TTTTT-TTTTTG
1 TTTTTCTTTTTG
134377 TTTTTCTTTTTG
1 TTTTTCTTTTTG
134389 TTTTTCT
1 TTTTTCT
134396 CTCTTTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 5 0.28
12 13 0.72
ACGTcount: A:0.00, C:0.07, G:0.07, T:0.87
Consensus pattern (12 bp):
TTTTTCTTTTTG
Found at i:135156 original size:12 final size:12
Alignment explanation
Indices: 135121--135159 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
135111 AGTTAAAGAA
*
135121 AAATCAAAATAA
1 AAATCAAAATAG
135133 AAATCAAAATAG
1 AAATCAAAATAG
*
135145 AAATCAGAATAG
1 AAATCAAAATAG
135157 AAA
1 AAA
135160 GGAAGGAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.15
Consensus pattern (12 bp):
AAATCAAAATAG
Found at i:135251 original size:58 final size:59
Alignment explanation
Indices: 135189--135539 Score: 482
Period size: 57 Copynumber: 6.0 Consensus size: 59
135179 TTTTGTGTAG
*
135189 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTGAAAATTTATTTTTAG
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAA
*
135247 GGAAAATTGATACTTTCAAC-TTTCCCCAAAAATATTTTTTTTTGGAAATTTA-TTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATA-TTTTTTTTGAAAATTTATTTTTAA
* * *
135305 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATA--TTTTTTGGAAATTTATTCTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAA
** *
135362 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAA-TTT-ATTTTTAA
* ****
135423 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA-CCCCTTTTTG-AAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAA
*
135480 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTTA
1 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAA-TTT-ATTTTTA
135540 TTTAAAGAAA
Statistics
Matches: 261, Mismatches: 20, Indels: 21
0.86 0.07 0.07
Matches are distributed among these distances:
56 15 0.06
57 91 0.35
58 54 0.21
59 44 0.17
60 12 0.05
61 45 0.17
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (59 bp):
GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTTGAAAATTTATTTTTAA
Found at i:135391 original size:30 final size:30
Alignment explanation
Indices: 135301--135391 Score: 77
Period size: 30 Copynumber: 3.1 Consensus size: 30
135291 GAAATTTATT
135301 TTAAGGAAAATTGATACTTTCAACTTTTCC
1 TTAAGGAAAATTGATACTTTCAACTTTTCC
* * * *
135331 CTAA--AAATATT--T--TTTGGAAATTTATTC
1 TTAAGGAAA-ATTGATACTTT-CAACTTT-TCC
135358 TTAAGGAAAATTGATACTTTCAACTTTTCC
1 TTAAGGAAAATTGATACTTTCAACTTTTCC
135388 TTAA
1 TTAA
135392 AAATATTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 18
0.63 0.11 0.26
Matches are distributed among these distances:
25 3 0.07
26 5 0.11
27 6 0.14
28 6 0.14
29 6 0.14
30 10 0.23
31 5 0.11
32 3 0.07
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (30 bp):
TTAAGGAAAATTGATACTTTCAACTTTTCC
Found at i:135471 original size:118 final size:115
Alignment explanation
Indices: 135189--135537 Score: 506
Period size: 118 Copynumber: 3.0 Consensus size: 115
135179 TTTTGTGTAG
* *
135189 GGAAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTTGAAAATTTATTTTTAGGGAAAAT
1 GGAAAATTGATACTTTCAACTTTT-CCCAAAAA-AATTTTTTG-AAATTTATTTTTAAGGAAAAT
* *
135254 TGATACTTTCAAC-TTTCCCCAAAAATATTTTTTTTTGGAAA-TTT-ATTTTAA
63 TGATACTTTCAACTTTTCCCTAAAAATA-TTTTTTTTGAAAATTTTGATTTTAA
* *
135305 GGAAAATTGATACTTTCAACTTTTCCCTAAAAATATTTTTTGGAAATTTATTCTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCCC-AAAAAAATTTTTT-GAAATTTATTTTTAAGGAAAATT
*
135370 GATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAATTTTGATTTTCAA
64 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTT-AA
***
135423 GGAAAATTGATACTTTCAACTTTTCCTCAAAAACCCCTTTTTGAAATTTATTTTTAAGGAAAATT
1 GGAAAATTGATACTTTCAACTTTTCC-CAAAAA-AATTTTTTGAAATTTATTTTTAAGGAAAATT
135488 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTT
64 GATACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTT
135538 TATTTAAAGA
Statistics
Matches: 213, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
115 53 0.25
116 45 0.21
117 5 0.02
118 104 0.49
119 6 0.03
ACGTcount: A:0.34, C:0.12, G:0.08, T:0.45
Consensus pattern (115 bp):
GGAAAATTGATACTTTCAACTTTTCCCAAAAAAATTTTTTGAAATTTATTTTTAAGGAAAATTGA
TACTTTCAACTTTTCCCTAAAAATATTTTTTTTGAAAATTTTGATTTTAA
Found at i:135567 original size:17 final size:15
Alignment explanation
Indices: 135547--135688 Score: 85
Period size: 16 Copynumber: 8.9 Consensus size: 15
135537 TTATTTAAAG
135547 AAAATAGAATAATAAAT
1 AAAATA-AATAA-AAAT
*
135564 AAAATAAAATAAAAGT
1 AAAAT-AAATAAAAAT
135580 GAAAATAAATAAAAAT
1 -AAAATAAATAAAAAT
*
135596 -AAA-AAACAAAAAT
1 AAAATAAATAAAAAT
*
135609 AAAAATAAAATAAAGAT
1 -AAAAT-AAATAAAAAT
*
135626 AAAA-AGAATATTAAAT
1 AAAATA-AATA-AAAAT
* *
135642 AAACCTAATCTAATAAAT
1 AAA-ATAA-ATAA-AAAT
135660 -AAATAAATAAATAAT
1 AAAATAAATAAA-AAT
*
135675 AAAACAAATAAAAA
1 AAAATAAATAAAAA
135689 AATTCTAAAA
Statistics
Matches: 98, Mismatches: 13, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
13 9 0.09
14 5 0.05
15 15 0.15
16 35 0.36
17 26 0.27
18 8 0.08
ACGTcount: A:0.73, C:0.04, G:0.04, T:0.20
Consensus pattern (15 bp):
AAAATAAATAAAAAT
Found at i:135568 original size:5 final size:5
Alignment explanation
Indices: 135560--135629 Score: 65
Period size: 5 Copynumber: 13.6 Consensus size: 5
135550 ATAGAATAAT
*
135560 AAATA AAATA AAATA AAAGTGA AAAT- AAATAA AAATA AAA-A ACA-A
1 AAATA AAATA AAATA AAA-T-A AAATA AAAT-A AAATA AAATA AAATA
135605 AAATAA AAATA AAATA AAGATA AAA
1 AAAT-A AAATA AAATA AA-ATA AAA
135630 AGAATATTAA
Statistics
Matches: 56, Mismatches: 2, Indels: 14
0.78 0.03 0.19
Matches are distributed among these distances:
4 10 0.18
5 26 0.46
6 16 0.29
7 4 0.07
ACGTcount: A:0.79, C:0.01, G:0.04, T:0.16
Consensus pattern (5 bp):
AAATA
Found at i:135597 original size:6 final size:6
Alignment explanation
Indices: 135554--135630 Score: 65
Period size: 6 Copynumber: 13.3 Consensus size: 6
135544 AAGAAAATAG
* *
135554 AATAATA AAT-AA AAT-AA AATAAA AGTGAA AAT--A AATAAA AATAAAA
1 AATAA-A AATAAA AATAAA AATAAA AATAAA AATAAA AATAAA AAT-AAA
* *
135600 AACAAA AATAAA AAT-AA AATAAA GATAAA AA
1 AATAAA AATAAA AATAAA AATAAA AATAAA AA
135631 GAATATTAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
4 4 0.07
5 14 0.24
6 32 0.55
7 8 0.14
ACGTcount: A:0.78, C:0.01, G:0.04, T:0.17
Consensus pattern (6 bp):
AATAAA
Found at i:135640 original size:29 final size:29
Alignment explanation
Indices: 135547--135630 Score: 87
Period size: 30 Copynumber: 2.7 Consensus size: 29
135537 TTATTTAAAG
* *
135547 AAAATAGAATAATAAATAAAATAAAATAAAAGTG
1 AAAATA-AATAA-AAATAAAA-AACA-AAAA-TA
135581 AAAATAAATAAAAATAAAAAACAAAAATA
1 AAAATAAATAAAAATAAAAAACAAAAATA
*
135610 AAAATAAAATAAAGATAAAAA
1 AAAAT-AAATAAAAATAAAAA
135631 GAATATTAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
29 6 0.13
30 18 0.39
31 3 0.07
32 8 0.17
33 5 0.11
34 6 0.13
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (29 bp):
AAAATAAATAAAAATAAAAAACAAAAATA
Found at i:135677 original size:11 final size:11
Alignment explanation
Indices: 135583--135677 Score: 56
Period size: 11 Copynumber: 8.5 Consensus size: 11
135573 TAAAAGTGAA
135583 AATAAATAAA-
1 AATAAATAAAT
*
135593 AATAAA-AAAC
1 AATAAATAAAT
135603 AA-AAATAAA-
1 AATAAATAAAT
135612 AATAAAATAAA-
1 AAT-AAATAAAT
* *
135623 GATAAAAAGAAT
1 AATAAATA-AAT
*
135635 ATTAAATAAACCT
1 AATAAATAAA--T
*
135648 AATCTAATAAAT
1 AAT-AAATAAAT
135660 AAATAAATAAAT
1 -AATAAATAAAT
135672 AATAAA
1 AATAAA
135678 ACAAATAAAA
Statistics
Matches: 67, Mismatches: 8, Indels: 19
0.71 0.09 0.20
Matches are distributed among these distances:
9 8 0.12
10 15 0.22
11 19 0.28
12 13 0.19
13 6 0.09
14 6 0.09
ACGTcount: A:0.73, C:0.04, G:0.02, T:0.21
Consensus pattern (11 bp):
AATAAATAAAT
Found at i:136753 original size:38 final size:40
Alignment explanation
Indices: 136711--136808 Score: 116
Period size: 38 Copynumber: 2.5 Consensus size: 40
136701 ATATATCTAT
* *
136711 ATAAATAAAATACATATAAATCTATT-CTAAATAA-AAAA
1 ATAAATAAAATACATATAAATATATTAATAAATAATAAAA
* *
136749 ATAAAT-AAATACAATATAAATATATTAATACATAATAATA
1 ATAAATAAAATAC-ATATAAATATATTAATAAATAATAAAA
136789 AT-AATAAAATACATA-AAATA
1 ATAAATAAAATACATATAAATA
136809 CAAAAGAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 8
0.81 0.06 0.12
Matches are distributed among these distances:
37 6 0.12
38 23 0.44
39 12 0.23
40 11 0.21
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (40 bp):
ATAAATAAAATACATATAAATATATTAATAAATAATAAAA
Found at i:136788 original size:3 final size:3
Alignment explanation
Indices: 136774--136840 Score: 52
Period size: 3 Copynumber: 22.7 Consensus size: 3
136764 ATAAATATAT
* *
136774 TAA TACA TAA TAA TAA TAA TAA -AA TACA TAA -AA TACA AAA GAA -AA
1 TAA TA-A TAA TAA TAA TAA TAA TAA TA-A TAA TAA TA-A TAA TAA TAA
*
136819 -AA TAA TAA TAA TAA AAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TA
136841 CTAGATAGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
2 8 0.15
3 38 0.70
4 8 0.15
ACGTcount: A:0.70, C:0.04, G:0.01, T:0.24
Consensus pattern (3 bp):
TAA
Found at i:136818 original size:21 final size:21
Alignment explanation
Indices: 136775--136835 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
136765 TAAATATATT
* *
136775 AATACATAATAATAATAATAA
1 AATACATAATAATAAAAAGAA
136796 AATACATAA-AATACAAAAGAAAA
1 AATACATAATAATA-AAAAG--AA
136819 AATA-ATAATAATAAAAA
1 AATACATAATAATAAAAA
136836 TAATACTAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 4 0.12
21 12 0.35
22 8 0.24
23 10 0.29
ACGTcount: A:0.72, C:0.05, G:0.02, T:0.21
Consensus pattern (21 bp):
AATACATAATAATAAAAAGAA
Found at i:137009 original size:1 final size:1
Alignment explanation
Indices: 137003--137076 Score: 76
Period size: 1 Copynumber: 74.0 Consensus size: 1
136993 AACATTGTTA
* * * * * * * *
137003 TTTTTTTGTTTTTTCTTTGTTTTTTTGTTTTTTTGTTTTTTTTTTATTTTTTTTGTTTTTTTATT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
137068 TTTTTTTTT
1 TTTTTTTTT
137077 ACCAAAGCTT
Statistics
Matches: 57, Mismatches: 16, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 57 1.00
ACGTcount: A:0.03, C:0.01, G:0.07, T:0.89
Consensus pattern (1 bp):
T
Found at i:137043 original size:28 final size:28
Alignment explanation
Indices: 137003--137075 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
136993 AACATTGTTA
*
137003 TTTTTTTGTTTTTTCTTT-GTTTTTTTG
1 TTTTTTTGTTTTTTTTTTAGTTTTTTTG
*
137030 TTTTTTTGTTTTTTTTTTATTTTTTTTG
1 TTTTTTTGTTTTTTTTTTAGTTTTTTTG
*
137058 TTTTTTTATTTTTTTTTT
1 TTTTTTTGTTTTTTTTTT
137076 TACCAAAGCT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 17 0.40
28 25 0.60
ACGTcount: A:0.03, C:0.01, G:0.07, T:0.89
Consensus pattern (28 bp):
TTTTTTTGTTTTTTTTTTAGTTTTTTTG
Found at i:137072 original size:19 final size:19
Alignment explanation
Indices: 137003--137075 Score: 89
Period size: 19 Copynumber: 3.9 Consensus size: 19
136993 AACATTGTTA
* *
137003 TTTTTTTGTTTTTTCTTTG
1 TTTTTTTATTTTTTTTTTG
*
137022 TTTTTTTGTTTTTTTGTTT-
1 TTTTTTTATTTTTTT-TTTG
137041 TTTTTTTA--TTTTTTTTG
1 TTTTTTTATTTTTTTTTTG
137058 TTTTTTTATTTTTTTTTT
1 TTTTTTTATTTTTTTTTT
137076 TACCAAAGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
16 3 0.06
17 13 0.27
19 29 0.60
20 3 0.06
ACGTcount: A:0.03, C:0.01, G:0.07, T:0.89
Consensus pattern (19 bp):
TTTTTTTATTTTTTTTTTG
Found at i:137179 original size:42 final size:41
Alignment explanation
Indices: 137087--137298 Score: 261
Period size: 42 Copynumber: 5.0 Consensus size: 41
137077 ACCAAAGCTT
* * *
137087 CTCTAAACAGAGGCTCAACGACTTTGAAAAATATAAATTGCTC
1 CTCTAAACAGAGGCAC-ACGACTTTG-GAAATGTAAATTGCTC
137130 CTCTAAACAGAGGCACCACGACTTTGGAAATGTAAATTGCTC
1 CTCTAAACAGAGGCA-CACGACTTTGGAAATGTAAATTGCTC
*
137172 CTTTAAACAGAGGCA-ACGGAACTTTGGAAATGTAAATTGCTC
1 CTCTAAACAGAGGCACAC-G-ACTTTGGAAATGTAAATTGCTC
*
137214 CTCTAAACAGAGGCA-ACGGAACTTT-GAAAAGTAAATTGCTC
1 CTCTAAACAGAGGCACAC-G-ACTTTGGAAATGTAAATTGCTC
*
137255 CTCTAAACAGAGGCACCACGACTTTGAGAAA-GTAAATTGTTC
1 CTCTAAACAGAGGCA-CACGACTTTG-GAAATGTAAATTGCTC
137297 CT
1 CT
137299 TGACAATCAT
Statistics
Matches: 155, Mismatches: 7, Indels: 15
0.88 0.04 0.08
Matches are distributed among these distances:
40 2 0.01
41 36 0.23
42 87 0.56
43 29 0.19
44 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (41 bp):
CTCTAAACAGAGGCACACGACTTTGGAAATGTAAATTGCTC
Found at i:137269 original size:83 final size:82
Alignment explanation
Indices: 137087--137298 Score: 270
Period size: 83 Copynumber: 2.5 Consensus size: 82
137077 ACCAAAGCTT
* *
137087 CTCTAAACAGAGGCTCAACGACTTTGAAAAATATAAATTGCTCCTCTAAACAGAGGCACCACGAC
1 CTCTAAACAGAGG--CAACGACTTTGAGAAATGTAAATTGCTCCTCTAAACAGAGGCA-CACGAC
*
137152 TTTGGAAATGTAAATTGCTC
63 TTTGGAAAAGTAAATTGCTC
*
137172 CTTTAAACAGAGGCAACGGAACTTTG-GAAATGTAAATTGCTCCTCTAAACAGAGGCA-ACGGAA
1 CTCTAAACAGAGGCAAC-G-ACTTTGAGAAATGTAAATTGCTCCTCTAAACAGAGGCACAC-G-A
137235 CTTT-GAAAAGTAAATTGCTC
62 CTTTGGAAAAGTAAATTGCTC
*
137255 CTCTAAACAGAGGCACCACGACTTTGAGAAA-GTAAATTGTTCCT
1 CTCTAAACAGAGGCA--ACGACTTTGAGAAATGTAAATTGCTCCT
137299 TGACAATCAT
Statistics
Matches: 114, Mismatches: 6, Indels: 16
0.84 0.04 0.12
Matches are distributed among these distances:
82 2 0.02
83 52 0.46
84 40 0.35
85 20 0.18
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.25
Consensus pattern (82 bp):
CTCTAAACAGAGGCAACGACTTTGAGAAATGTAAATTGCTCCTCTAAACAGAGGCACACGACTTT
GGAAAAGTAAATTGCTC
Found at i:137540 original size:3 final size:3
Alignment explanation
Indices: 137526--137592 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
137516 TTCTATCTGG
* *
137526 TAT TAT TTT TAT TAT TAT TAT T-T T-T TCT T-T T-T TAT T-T TAT GTAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT
137570 T-T TAT TAT TAT TAT TAT GTAT TA
1 TAT TAT TAT TAT TAT TAT -TAT TA
137593 ATATATGTAT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
2 12 0.21
3 38 0.68
4 6 0.11
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (3 bp):
TAT
Found at i:137668 original size:29 final size:29
Alignment explanation
Indices: 137608--137683 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
137598 TGTATATCTG
*
137608 TATTTAT-TTATTTT-TTTATTTAGAATA
1 TATTTATATTATTTTATTTATATAGAATA
*
137635 GATTTATATGTATTTTATTTATATAG-ATA
1 TATTTATAT-TATTTTATTTATATAGAATA
*
137664 TATTTATTATTATATTATTT
1 TATTTA-TATTATTTTATTT
137684 TTTTTGTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 6 0.15
28 1 0.02
29 23 0.56
30 11 0.27
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.63
Consensus pattern (29 bp):
TATTTATATTATTTTATTTATATAGAATA
Found at i:138383 original size:16 final size:17
Alignment explanation
Indices: 138362--138405 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
138352 GATTTTTCAG
138362 AGAGAAGGGAGAGA-AA
1 AGAGAAGGGAGAGAGAA
* *
138378 AGAGAAGGAAGAGAGAG
1 AGAGAAGGGAGAGAGAA
*
138395 AGAGAGGGGAG
1 AGAGAAGGGAG
138406 GAGTGTTCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
16 13 0.57
17 10 0.43
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (17 bp):
AGAGAAGGGAGAGAGAA
Found at i:138664 original size:9 final size:9
Alignment explanation
Indices: 138650--138778 Score: 64
Period size: 9 Copynumber: 13.4 Consensus size: 9
138640 AGCCGCTAGG
*
138650 TTTTTTTTT
1 TTTTTTTTA
138659 TTTTTTTTA
1 TTTTTTTTA
*
138668 TTTGTTTTA
1 TTTTTTTTA
138677 TTTATTTTTTA
1 -TT-TTTTTTA
*
138688 TTTATTAGATTA
1 TTT-TT--TTTA
*
138700 GGTTTATTTAATA
1 --TTT-TTT-TTA
*
138713 TTCTTTTTA
1 TTTTTTTTA
* *
138722 TCTTTATT-
1 TTTTTTTTA
*
138730 TTATTTTTA
1 TTTTTTTTA
*
138739 TTTTGTTTA
1 TTTTTTTTA
138748 TTTTTATTTA
1 TTTTT-TTTA
*
138758 TTTATTTTA
1 TTTTTTTTA
138767 -TTTTTTTA
1 TTTTTTTTA
138775 TTTT
1 TTTT
138779 ATTATTCTAT
Statistics
Matches: 90, Mismatches: 19, Indels: 22
0.69 0.15 0.17
Matches are distributed among these distances:
8 12 0.13
9 42 0.47
10 17 0.19
11 8 0.09
12 3 0.03
13 2 0.02
14 6 0.07
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:138675 original size:13 final size:12
Alignment explanation
Indices: 138650--138778 Score: 55
Period size: 13 Copynumber: 9.9 Consensus size: 12
138640 AGCCGCTAGG
138650 TTTTTT-TTTTT
1 TTTTTTATTTTT
138661 TTTTTTATTTGTT
1 TTTTTTATTT-TT
*
138674 TTATTTATTTTT
1 TTTTTTATTTTT
**
138686 TATTTATTAGATTAGGT
1 T-TTT-TT--ATT-TTT
* * *
138703 TTATTTAATATT
1 TTTTTTATTTTT
*
138715 CTTTTTATCTTTAT
1 TTTTTTAT-TTT-T
*
138729 TTTATTT-TTATT
1 TTT-TTTATTTTT
*
138741 TTGTTTATTTTT
1 TTTTTTATTTTT
138753 ATTTATTTATTTTAT
1 -TTT-TTTATTTT-T
138768 TTTTTTATTTT
1 TTTTTTATTTT
138779 ATTATTCTAT
Statistics
Matches: 87, Mismatches: 17, Indels: 26
0.67 0.13 0.20
Matches are distributed among these distances:
11 9 0.10
12 19 0.22
13 29 0.33
14 17 0.20
15 6 0.07
16 5 0.06
17 2 0.02
ACGTcount: A:0.17, C:0.02, G:0.04, T:0.78
Consensus pattern (12 bp):
TTTTTTATTTTT
Found at i:138734 original size:5 final size:5
Alignment explanation
Indices: 138717--138781 Score: 59
Period size: 5 Copynumber: 13.4 Consensus size: 5
138707 TTAATATTCT
*
138717 TTTTA TCTTTA TTTTA TTTTTA TTTT- GTTTA TTTT- TATTTA -TTTA
1 TTTTA T-TTTA TTTTA -TTTTA TTTTA TTTTA TTTTA T-TTTA TTTTA
138762 TTTTA -TTT- TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TT
138782 ATTCTATTTT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
4 14 0.28
5 26 0.52
6 10 0.20
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:138747 original size:26 final size:25
Alignment explanation
Indices: 138650--138796 Score: 82
Period size: 23 Copynumber: 6.0 Consensus size: 25
138640 AGCCGCTAGG
*
138650 TTTT-TTTT-TTTTT-TTTTATTTG
1 TTTTATTTTATTTTTATTTTATTTA
138672 TTTTA-TTTATTTTT-TATTTA-TTA
1 TTTTATTTTATTTTTAT-TTTATTTA
** * *
138695 GATTAGGTTTATTTAATATTCTT-TTTA
1 TTTTA-TTTTATTT-TTATT-TTATTTA
*
138722 TCTTTATTTTATTTTTATTTTGTTTA
1 T-TTTATTTTATTTTTATTTTATTTA
138748 TTTT-TATTTA--TTTATTTTATTT-
1 TTTTAT-TTTATTTTTATTTTATTTA
*
138770 TTTTATTTTATTATTCTATTTTCTTTA
1 TTTTATTTTATT-TT-TATTTTATTTA
138797 AATAAAAATC
Statistics
Matches: 97, Mismatches: 10, Indels: 31
0.70 0.07 0.22
Matches are distributed among these distances:
22 15 0.15
23 23 0.24
24 5 0.05
25 18 0.19
26 20 0.21
27 13 0.13
28 3 0.03
ACGTcount: A:0.18, C:0.03, G:0.03, T:0.76
Consensus pattern (25 bp):
TTTTATTTTATTTTTATTTTATTTA
Found at i:138783 original size:21 final size:21
Alignment explanation
Indices: 138748--138796 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
138738 ATTTTGTTTA
*
138748 TTTTTATTTATTTATTTTATT
1 TTTTTATTTATTTATTCTATT
138769 TTTTTATTT-TATTATTCTATT
1 TTTTTATTTAT-TTATTCTATT
138790 TTCTTTA
1 TT-TTTA
138797 AATAAAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTTATTTATTTATTCTATT
Found at i:138902 original size:56 final size:55
Alignment explanation
Indices: 138807--139132 Score: 532
Period size: 56 Copynumber: 5.9 Consensus size: 55
138797 AATAAAAATC
138807 AAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 AAAATTTCAAAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
138863 TAAAATTTCAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 -AAAATTTCAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
*
138919 ATAAATTTCAAAAAAAT-TTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT-AAA
1 A-AAATTTCAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
138973 AAAATTTC-AAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 AAAATTTCAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
* *
139027 TAAATTTCAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
1 AAAATTTC-AAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
*
139083 ATAAATTTCCAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 A-AAATTT-CAAAAAAATATTTTT-AGGAAAAGTTGAAAGTATCAATTTT
139133 TCCTACACAA
Statistics
Matches: 256, Mismatches: 5, Indels: 15
0.93 0.02 0.05
Matches are distributed among these distances:
52 7 0.03
53 40 0.16
54 14 0.05
55 34 0.13
56 92 0.36
57 43 0.17
58 26 0.10
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (55 bp):
AAAATTTCAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
Found at i:139027 original size:164 final size:169
Alignment explanation
Indices: 138807--139132 Score: 583
Period size: 164 Copynumber: 2.0 Consensus size: 169
138797 AATAAAAATC
138807 AAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAAATTTC
1 AAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAT-AAATTTC
138872 -AAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTT-C-AAAAAA
65 AAAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAA
138934 -ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
130 TATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
138973 AAAATTTC-AAAAAATATTTTTA-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTCA
1 AAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTCA
*
139036 AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAT
66 AAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAT
*
139101 ATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
131 ATTTTTGAGGAAAAGTTGAAAGTATCAATTTT
139133 TCCTACACAA
Statistics
Matches: 154, Mismatches: 2, Indels: 7
0.94 0.01 0.04
Matches are distributed among these distances:
163 7 0.05
164 87 0.56
165 15 0.10
166 14 0.09
167 31 0.20
ACGTcount: A:0.47, C:0.07, G:0.11, T:0.35
Consensus pattern (169 bp):
AAAATTTCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAATAAATTTCA
AAAAAAATATTTTTAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCCAAAAAAAT
ATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAA
Found at i:139181 original size:12 final size:12
Alignment explanation
Indices: 139164--139202 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
139154 CTTTCCTTCC
*
139164 TTTCTATTCTGA
1 TTTCTATTTTGA
139176 TTTCTATTTTGA
1 TTTCTATTTTGA
*
139188 TTTTTATTTTGA
1 TTTCTATTTTGA
139200 TTT
1 TTT
139203 TTCTTTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTCTATTTTGA
Found at i:144391 original size:42 final size:42
Alignment explanation
Indices: 144344--144768 Score: 483
Period size: 42 Copynumber: 10.1 Consensus size: 42
144334 ATGATTGTCA
*
144344 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAG
144386 AGGAGCAATTTACTTTC-CAAAGTTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCTCAAAG-T-CGTGGTGCCTCTGTTTAG
* *
144427 AGGAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
144468 AAGAGCAATTTATTTTTTCAAAGTTCCGT--TGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCTCAAAG-T-CGTGGTGCCTCTGTTTAG
*
144510 AGGAGCAATTTACATTTC-CAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTAC-TTTCTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
144552 AGGAGCAATTTATCTTTC-AAAAGTCATGGTGCCTCTATTTAG
1 AGGAGCAATTTA-CTTTCTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
144594 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTATTTAG
1 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAG
* * *
144636 AGGAGCAATTTATTTTTTCAAAGTTC-TGTTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCTCAAAG-TCGTGGTGCCTCTGTTTAG
* * *
144678 AGAAGCAATGTACATTTC-CAAAGTCATGGTGCCTCTGTTTAG
1 AGGAGCAATTTAC-TTTCTCAAAGTCGTGGTGCCTCTGTTTAG
* * * * *
144720 AGGAGCAATTTATGTTTTTCAAAGTTGTTGAGCCTCTGTTTAG
1 AGGAGCAATTTA-CTTTCTCAAAGTCGTGGTGCCTCTGTTTAG
144763 AGGAGC
1 AGGAGC
144769 TTTGGTAAAA
Statistics
Matches: 335, Mismatches: 30, Indels: 35
0.84 0.08 0.09
Matches are distributed among these distances:
39 2 0.01
40 7 0.02
41 64 0.19
42 221 0.66
43 39 0.12
44 2 0.01
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.38
Consensus pattern (42 bp):
AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTGTTTAG
Found at i:144585 original size:84 final size:84
Alignment explanation
Indices: 144344--144768 Score: 576
Period size: 84 Copynumber: 5.1 Consensus size: 84
144334 ATGATTGTCA
* *
144344 AGGAGCAATTTAC-TTTCTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTA-CTTTCCAAA
1 AGGAGCAATTTACATTTC-CAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAA
*
144407 GTTCCGTTGCCTCTGTTTAG
65 GTTCTGTTGCCTCTGTTTAG
* * * * *
144427 AGGAGCAATTTA-TTTTTCAAAGTTGTGGTGCCTCTGTTTAGAAGAGCAATTTATTTTTTCAAAG
1 AGGAGCAATTTACATTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAG
*
144491 TTCCGTTGCCTCTGTTTAG
66 TTCTGTTGCCTCTGTTTAG
*
144510 AGGAGCAATTTACATTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTA-TCTTTCAAAA
1 AGGAGCAATTTACATTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTC-AAA
* *
144574 G-TCATGGTGCCTCTATTTAG
65 GTTC-TGTTGCCTCTGTTTAG
** *
144594 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAG
1 AGGAGCAATTTACATTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAG
144659 TTCTGTTGCCTCTGTTTAG
66 TTCTGTTGCCTCTGTTTAG
* * * *
144678 AGAAGCAATGTACATTTCCAAAGTCATGGTGCCTCTGTTTAGAGGAGCAATTTATGTTTTTCAAA
1 AGGAGCAATTTACATTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTAT-TTTTTCAAA
144743 G-T-TGTTGAGCCTCTGTTTAG
65 GTTCTGTT--GCCTCTGTTTAG
144763 AGGAGC
1 AGGAGC
144769 TTTGGTAAAA
Statistics
Matches: 303, Mismatches: 29, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
82 33 0.11
83 65 0.21
84 171 0.56
85 34 0.11
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.38
Consensus pattern (84 bp):
AGGAGCAATTTACATTTCCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAG
TTCTGTTGCCTCTGTTTAG
Found at i:144627 original size:126 final size:124
Alignment explanation
Indices: 144344--144768 Score: 556
Period size: 126 Copynumber: 3.4 Consensus size: 124
144334 ATGATTGTCA
* *
144344 AGGAGCAATTTACTTTCTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGT
1 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGT
* **
144409 TCCGT-TGCCTCTGTTTAGAGGAGCAATTTATTTTTCAAAGTTGTGGTGCCTCTGTTTAG
66 T-CGTGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCAAAGTCATGGTGCCTCTGTTTAG
* *
144468 AAGAGCAATTTATTTTTTCAAAGTTCCGT--TGCCTCTGTTTAGAGGAGCAATTTACATTTCCAA
1 AGGAGCAATTTATTTTTTCAAAG-T-CGTGGTGCCTCTATTTAGAGGAGCAATTTAC-TTTCCAA
* *
144531 AG-TCGTGGTGCCTCTATTTAGAGGAGCAATTTATCTTTCAAAAGTCATGGTGCCTCTATTTAG
63 AGTTCGT-GTGCCTCTGTTTAGAGGAGCAATTTATCTTTC-AAAGTCATGGTGCCTCTGTTTAG
* *
144594 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTTTTCAAAG
1 AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTA-CTTTCCAAAG
* *
144659 TTC-TGTTGCCTCTGTTTAGAGAAGCAATGTA-CATTTCCAAAGTCATGGTGCCTCTGTTTAG
65 TTCGTG-TGCCTCTGTTTAGAGGAGCAATTTATC-TTT-CAAAGTCATGGTGCCTCTGTTTAG
* * * *
144720 AGGAGCAATTTATGTTTTTCAAAGTTGTTGAGCCTCTGTTTAGAGGAGC
1 AGGAGCAATTTAT-TTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGC
144769 TTTGGTAAAA
Statistics
Matches: 266, Mismatches: 21, Indels: 25
0.85 0.07 0.08
Matches are distributed among these distances:
123 3 0.01
124 49 0.18
125 42 0.16
126 138 0.52
127 34 0.13
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.38
Consensus pattern (124 bp):
AGGAGCAATTTATTTTTTCAAAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCAAAGT
TCGTGTGCCTCTGTTTAGAGGAGCAATTTATCTTTCAAAGTCATGGTGCCTCTGTTTAG
Found at i:144820 original size:8 final size:8
Alignment explanation
Indices: 144775--144811 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
144765 GAGCTTTGGT
144775 AAAAAC-A
1 AAAAACAA
144782 AAAAACAA
1 AAAAACAA
144790 AAAAACAA
1 AAAAACAA
144798 AAAAACAA
1 AAAAACAA
144806 AGAAAA
1 A-AAAA
144812 AATAAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
7 6 0.21
8 18 0.64
9 4 0.14
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (8 bp):
AAAAACAA
Done.