Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 145 of 147
Found at i:27215064 original size:40 final size:38
Alignment explanation
Indices: 27214996--27215085 Score: 92
Period size: 40 Copynumber: 2.3 Consensus size: 38
27214986 TATTTATTAA
* *
27214996 ATTTATATATAATTATTTTTAAAAATTTAAATCGTATC
1 ATTTTTATATAATTATTTTTAAAAATTTAAATCATATC
* *
27215034 ATTTTTATAT-ATTATTTTTATATCATATTTATATCATATC
1 ATTTTTATATAATTATTTTTA-A--AAATTTAAATCATATC
27215074 ATTGTATTATAT
1 ATT-T-TTATAT
27215086 TTTAAATTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
37 10 0.23
38 10 0.23
40 16 0.37
41 1 0.02
42 6 0.14
ACGTcount: A:0.37, C:0.06, G:0.02, T:0.56
Consensus pattern (38 bp):
ATTTTTATATAATTATTTTTAAAAATTTAAATCATATC
Found at i:27218451 original size:30 final size:28
Alignment explanation
Indices: 27218386--27218474 Score: 90
Period size: 30 Copynumber: 3.0 Consensus size: 28
27218376 AATAGATTTG
27218386 AATATTAAAATTTATATATTCAT-ATTTTTT
1 AATA-TAAAA-TTATATATT-ATAATTTTTT
*
27218416 TATATAAAATTATATATTATAATTTATATT
1 AATATAAAATTATATATTATAATTT-T-TT
* * *
27218446 AATATAAAAATATAAAATATAATTTTTT
1 AATATAAAATTATATATTATAATTTTTT
27218474 A
1 A
27218475 TTTTATTAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
27 2 0.04
28 16 0.31
29 7 0.14
30 26 0.51
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
AATATAAAATTATATATTATAATTTTTT
Found at i:27218493 original size:29 final size:29
Alignment explanation
Indices: 27218453--27218508 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
27218443 ATTAATATAA
*
27218453 AAATATAAAAT-ATAATTTTTTATTTTATT
1 AAATATAAAATAATAA-TTATTATTTTATT
*
27218482 AAATATATAATAATAATTATTATTTTA
1 AAATATAAAATAATAATTATTATTTTA
27218509 AATTATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (29 bp):
AAATATAAAATAATAATTATTATTTTATT
Found at i:27218532 original size:16 final size:16
Alignment explanation
Indices: 27218493--27218536 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
27218483 AATATATAAT
27218493 AATAATTATTA-TTTTA
1 AATAA-TATTATTTTTA
*
27218509 AATTATATTATTTTTA
1 AATAATATTATTTTTA
*
27218525 TATAATATTATT
1 AATAATATTATT
27218537 AACCTATGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.21
16 19 0.79
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
AATAATATTATTTTTA
Found at i:27220105 original size:16 final size:16
Alignment explanation
Indices: 27220084--27220121 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
27220074 AAATATATTT
* *
27220084 TTTAAATTTTATTAAA
1 TTTAAATATAATTAAA
27220100 TTTAAATATAATTAAA
1 TTTAAATATAATTAAA
27220116 TTTAAA
1 TTTAAA
27220122 CATTAAAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTTAAATATAATTAAA
Found at i:27220942 original size:12 final size:11
Alignment explanation
Indices: 27220909--27220950 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
27220899 ATGTAATACA
27220909 ATATAAAATTT
1 ATATAAAATTT
27220920 -TAGTAAAATTT
1 ATA-TAAAATTT
27220931 ATATATAAATTT
1 ATATA-AAATTT
27220943 A-ATAAAAT
1 ATATAAAAT
27220951 AAAAAATATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
10 6 0.21
11 13 0.46
12 9 0.32
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (11 bp):
ATATAAAATTT
Found at i:27220943 original size:22 final size:22
Alignment explanation
Indices: 27220909--27220950 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27220899 ATGTAATACA
*
27220909 ATATAAAATTTTAGTAAAATTT
1 ATATAAAATTTTAATAAAATTT
27220931 ATATATAAA-TTTAATAAAAT
1 ATATA-AAATTTTAATAAAAT
27220951 AAAAAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATATAAAATTTTAATAAAATTT
Found at i:27222963 original size:11 final size:11
Alignment explanation
Indices: 27222943--27222988 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
27222933 TTACGATGAT
*
27222943 AATATGATATA
1 AATATAATATA
27222954 AATATAATATA
1 AATATAATATA
*
27222965 AATAAAAATATA
1 AAT-ATAATATA
*
27222977 AAAATAATATA
1 AATATAATATA
27222988 A
1 A
27222989 TTTAAAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
11 21 0.70
12 9 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (11 bp):
AATATAATATA
Found at i:27223006 original size:24 final size:24
Alignment explanation
Indices: 27222968--27223043 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 24
27222958 TAATATAAAT
*
27222968 AAAAATATAAAAATAATATAATTTA
1 AAAAAT-TAATAATAATATAATTTA
27222993 AAAAATTAATAAT-A-ATAATTTA
1 AAAAATTAATAATAATATAATTTA
* * *
27223015 TAAATTTAATAA-AAT-TAAAATTA
1 AAAAATTAATAATAATAT-AATTTA
27223038 AAAAAT
1 AAAAAT
27223044 AATTTTATTT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
22 20 0.48
23 10 0.24
24 6 0.14
25 6 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
AAAAATTAATAATAATATAATTTA
Found at i:27223013 original size:22 final size:22
Alignment explanation
Indices: 27222979--27223043 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
27222969 AAAATATAAA
27222979 AATAAT-ATAATTTAAAAAATT
1 AATAATAATAATTTAAAAAATT
* *
27223000 AATAATAATAATTTATAAATTT
1 AATAATAATAATTTAAAAAATT
*
27223022 AATAA-AATTAAAATTAAAAAAT
1 AATAATAA-T-AATTTAAAAAAT
27223044 AATTTTATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 8 0.22
22 19 0.53
23 9 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AATAATAATAATTTAAAAAATT
Found at i:27223121 original size:14 final size:14
Alignment explanation
Indices: 27223064--27223124 Score: 50
Period size: 14 Copynumber: 4.1 Consensus size: 14
27223054 TTTTATATCG
* *
27223064 ATATAAATTATAAC
1 ATATAAATTTTAAT
*
27223078 ATATAATTTTTATAT
1 ATATAAATTTTA-AT
* *
27223093 AAAATAAAATATTAAT
1 -ATAT-AAATTTTAAT
27223109 ATATAAATTTTAAT
1 ATATAAATTTTAAT
27223123 AT
1 AT
27223125 TTTATATGAT
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
14 21 0.58
15 4 0.11
16 5 0.14
17 6 0.17
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
ATATAAATTTTAAT
Found at i:27228052 original size:3 final size:3
Alignment explanation
Indices: 27228037--27228068 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
27228027 TCCATCCCCT
*
27228037 TCC TCC CCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
27228069 AAGAGAATCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.69, G:0.00, T:0.31
Consensus pattern (3 bp):
TCC
Found at i:27228219 original size:96 final size:99
Alignment explanation
Indices: 27228092--27228272 Score: 280
Period size: 96 Copynumber: 1.9 Consensus size: 99
27228082 AAGCCGGTAT
* *
27228092 CATCATCATCACCAGCATGTCTCCGGTATCCATTTC-CTTCCT-CC-C-CCTCCTCCTCAGGAAA
1 CATCATCATCACCAACATGCCTCCGGTATCCA-TTCACTTCCTCCCTCTCCTCCTCCTCAGGAAA
27228153 ATCCAAAAAGCCGTCATCATCCAAAAAATCATTAA
65 ATCCAAAAAGCCGTCATCATCCAAAAAATCATTAA
* *
27228188 CATCATCATCACCAACATGCCTCCTGTATCCATTCACTTCCTCCCTCTCCTCCTCCTCAGGAGAA
1 CATCATCATCACCAACATGCCTCCGGTATCCATTCACTTCCTCCCTCTCCTCCTCCTCAGGAAAA
*
27228253 TCCAAAAAGCCGTTATCATC
66 TCCAAAAAGCCGTCATCATC
27228273 ATCATCACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
95 3 0.04
96 35 0.46
97 2 0.03
98 1 0.01
99 35 0.46
ACGTcount: A:0.28, C:0.38, G:0.08, T:0.26
Consensus pattern (99 bp):
CATCATCATCACCAACATGCCTCCGGTATCCATTCACTTCCTCCCTCTCCTCCTCCTCAGGAAAA
TCCAAAAAGCCGTCATCATCCAAAAAATCATTAA
Found at i:27228323 original size:3 final size:3
Alignment explanation
Indices: 27228315--27228341 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
27228305 CTTCCTCCCT
27228315 CTC CTC CTC CTC CTC CTC CTC CTC CTC
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC
27228342 AGGAGAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CTC
Found at i:27228364 original size:96 final size:100
Alignment explanation
Indices: 27228226--27228428 Score: 310
Period size: 99 Copynumber: 2.1 Consensus size: 100
27228216 TCCATTCACT
27228226 TCCTCC-CTCTCCTCCTCCTCAGGAGAATCCAAAAAGCCG-T-T-ATCATCATCATCACCAGCAT
1 TCCTCCTCTCTCCTCCTCCTCAGGAGAATCCAAAAAGCCGTTATCATCATCATCATCACCAGCAT
*
27228287 GCCTCCT-GTATCCATTCCCTTCCTCCCTCTCCTCC
66 GCCT-CTGGTATCCATCCCCTTCCTCCCTCTCCTCC
* **
27228322 TCCTCCTC-CTCCTCCTCCTCAGGAGAATCTAAAAAGTTGTTATCATCATCATCATCACCAGCAT
1 TCCTCCTCTCTCCTCCTCCTCAGGAGAATCCAAAAAGCCGTTATCATCATCATCATCACCAGCAT
*
27228386 GTCTCTGGTATCCATCCCCTTCCTCCCTCTCCTCC
66 GCCTCTGGTATCCATCCCCTTCCTCCCTCTCCTCC
27228421 TCCTCCTC
1 TCCTCCTC
27228429 GGGAGAATCC
Statistics
Matches: 97, Mismatches: 5, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
96 34 0.35
97 2 0.02
98 3 0.03
99 58 0.60
ACGTcount: A:0.18, C:0.43, G:0.08, T:0.30
Consensus pattern (100 bp):
TCCTCCTCTCTCCTCCTCCTCAGGAGAATCCAAAAAGCCGTTATCATCATCATCATCACCAGCAT
GCCTCTGGTATCCATCCCCTTCCTCCCTCTCCTCC
Found at i:27231392 original size:21 final size:23
Alignment explanation
Indices: 27231346--27231389 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
27231336 ATTTTTTTAT
* *
27231346 TTTTATATATTATTTTAATAAAA
1 TTTTACATATTATTTAAATAAAA
27231369 TTTTACATA-TATTTAAATAAA
1 TTTTACATATTATTTAAATAAA
27231390 TTTATGTATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (23 bp):
TTTTACATATTATTTAAATAAAA
Found at i:27233266 original size:17 final size:17
Alignment explanation
Indices: 27233244--27233276 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27233234 AATGACTTTA
*
27233244 ATAATTATTATTATATT
1 ATAATTATAATTATATT
27233261 ATAATTATAATTATAT
1 ATAATTATAATTATAT
27233277 AGTATAAGTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATAATTATAATTATATT
Found at i:27235235 original size:29 final size:28
Alignment explanation
Indices: 27235190--27235292 Score: 116
Period size: 29 Copynumber: 3.5 Consensus size: 28
27235180 TTATTATATC
*
27235190 TAAATAAGTTTTAAATTTTAATTTGTGTT
1 TAAATAAATTTTAAATTTTAATTTGT-TT
* * *
27235219 TAAATAAATTATTAATTTTTAAATTGTTA
1 TAAATAAATT-TTAAATTTTAATTTGTTT
*
27235248 TAAATAAATTGTTAAATTTTAATTTATATT
1 TAAATAAATT-TTAAATTTTAATTTGT-TT
27235278 TAAATAAAATTTTAA
1 TAAAT-AAATTTTAA
27235293 CATAATACAT
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
29 33 0.53
30 24 0.39
31 5 0.08
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (28 bp):
TAAATAAATTTTAAATTTTAATTTGTTT
Found at i:27237674 original size:6 final size:6
Alignment explanation
Indices: 27237663--27237698 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
27237653 CATTTGCTTT
27237663 GTAATA GTAATA GTAATA GTAATA GTAATA GTAATA
1 GTAATA GTAATA GTAATA GTAATA GTAATA GTAATA
27237699 TATATATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
GTAATA
Found at i:27252034 original size:26 final size:26
Alignment explanation
Indices: 27251963--27252035 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 26
27251953 ATATATTATC
* *
27251963 AATTGATATTATTTTATTAATAAATAA
1 AATTAATATT-TTTTATAAATAAATAA
** *
27251990 ATATTAAT-TTTTAAAATAAATATATAA
1 A-ATTAATATTTT-TTATAAATAAATAA
27252017 AATTAATATTTTTTATAAA
1 AATTAATATTTTTTATAAA
27252036 ATTTATTCGT
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
26 13 0.36
27 18 0.50
28 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (26 bp):
AATTAATATTTTTTATAAATAAATAA
Found at i:27258696 original size:17 final size:17
Alignment explanation
Indices: 27258674--27258707 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
27258664 TTTGACATAC
27258674 TTAGTGATTCTTTAGAT
1 TTAGTGATTCTTTAGAT
27258691 TTAGTGATTCTTTAGAT
1 TTAGTGATTCTTTAGAT
27258708 AAAGTGTATT
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:0.24, C:0.06, G:0.18, T:0.53
Consensus pattern (17 bp):
TTAGTGATTCTTTAGAT
Found at i:27258713 original size:17 final size:17
Alignment explanation
Indices: 27258676--27258713 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
27258666 TGACATACTT
**
27258676 AGTGATTCTTTAGATTT
1 AGTGATTCTTTAGATAA
27258693 AGTGATTCTTTAGATAA
1 AGTGATTCTTTAGATAA
27258710 AGTG
1 AGTG
27258714 TATTAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (17 bp):
AGTGATTCTTTAGATAA
Found at i:27262750 original size:3 final size:3
Alignment explanation
Indices: 27262742--27262776 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
27262732 GCCAAAGACG
27262742 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
27262777 ACGGACCAGT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:27262819 original size:2 final size:2
Alignment explanation
Indices: 27262812--27262841 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27262802 ATCAAATCGC
27262812 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
27262842 TCCCCTTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27265129 original size:2 final size:2
Alignment explanation
Indices: 27265124--27265153 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27265114 ATATATATAT
27265124 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
27265154 TACTCTCGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:27271210 original size:36 final size:36
Alignment explanation
Indices: 27271163--27271249 Score: 174
Period size: 36 Copynumber: 2.4 Consensus size: 36
27271153 GCTATTAGTT
27271163 TTGAGCAGGGGGAGCAATCCTCTCTACCTGAGAGTG
1 TTGAGCAGGGGGAGCAATCCTCTCTACCTGAGAGTG
27271199 TTGAGCAGGGGGAGCAATCCTCTCTACCTGAGAGTG
1 TTGAGCAGGGGGAGCAATCCTCTCTACCTGAGAGTG
27271235 TTGAGCAGGGGGAGC
1 TTGAGCAGGGGGAGC
27271250 TACCTTCGGC
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 51 1.00
ACGTcount: A:0.22, C:0.21, G:0.37, T:0.21
Consensus pattern (36 bp):
TTGAGCAGGGGGAGCAATCCTCTCTACCTGAGAGTG
Found at i:27276097 original size:29 final size:29
Alignment explanation
Indices: 27276056--27276117 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
27276046 GTAAATTTTT
*
27276056 ATTTTTATATTTTATATTTTACAAAATAA
1 ATTTTTATATTTTATATTATACAAAATAA
* * *
27276085 ATTTTTA-ATTTTTTTATTATATAAATTAA
1 ATTTTTATA-TTTTATATTATACAAAATAA
27276114 ATTT
1 ATTT
27276118 ACTGAATGAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.04
29 27 0.96
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (29 bp):
ATTTTTATATTTTATATTATACAAAATAA
Found at i:27276546 original size:6 final size:6
Alignment explanation
Indices: 27276531--27276574 Score: 61
Period size: 6 Copynumber: 7.3 Consensus size: 6
27276521 TTCACCGACG
* * *
27276531 GCCACC GCCACG GCCACC GCCACC GCCACC GACACC GCCTCC GC
1 GCCACC GCCACC GCCACC GCCACC GCCACC GCCACC GCCACC GC
27276575 TTCCAAAACC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.16, C:0.61, G:0.20, T:0.02
Consensus pattern (6 bp):
GCCACC
Found at i:27277908 original size:2 final size:2
Alignment explanation
Indices: 27277901--27277930 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27277891 CTGGAATTAA
27277901 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
27277931 GACTTGGAGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27283466 original size:31 final size:31
Alignment explanation
Indices: 27283428--27283523 Score: 86
Period size: 33 Copynumber: 3.0 Consensus size: 31
27283418 TATATTTTAT
* *
27283428 ATTTTTATGTTAATATAAAATATAAA-ATATA
1 ATTTTTAT-ATAAAATAAAATATAAATATATA
*
27283459 ATTTTTATATAAAATATAATATAAATATATAAA
1 ATTTTTATATAAAATAAAATATAAATATAT--A
* *** *
27283492 ATTTTAATATTTTATAAGATATAAATATATA
1 ATTTTTATATAAAATAAAATATAAATATATA
27283523 A
1 A
27283524 ATTACCAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 6
0.78 0.13 0.09
Matches are distributed among these distances:
30 14 0.26
31 14 0.26
33 25 0.47
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (31 bp):
ATTTTTATATAAAATAAAATATAAATATATA
Found at i:27283486 original size:18 final size:18
Alignment explanation
Indices: 27283438--27283487 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
27283428 ATTTTTATGT
27283438 TAATATAAAATATAAAATA
1 TAATAT-AAATATAAAATA
* **
27283457 TAATTTTTATATAAAATA
1 TAATATAAATATAAAATA
27283475 TAATATAAATATA
1 TAATATAAATATA
27283488 TAAAATTTTA
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
18 20 0.80
19 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TAATATAAATATAAAATA
Found at i:27283507 original size:20 final size:19
Alignment explanation
Indices: 27283447--27283507 Score: 70
Period size: 18 Copynumber: 3.2 Consensus size: 19
27283437 TTAATATAAA
27283447 ATATAAAATATAAT-TTTT
1 ATATAAAATATAATATTTT
**
27283465 ATATAAAATATAATATAAAT
1 ATATAAAATATAATAT-TTT
*
27283485 ATATAAAATTTTAATATTTT
1 ATATAAAA-TATAATATTTT
27283505 ATA
1 ATA
27283508 AGATATAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
18 14 0.40
19 1 0.03
20 13 0.37
21 7 0.20
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATAAAATATAATATTTT
Found at i:27284063 original size:20 final size:19
Alignment explanation
Indices: 27284039--27284086 Score: 51
Period size: 20 Copynumber: 2.5 Consensus size: 19
27284029 TTATGAATAT
*
27284039 TTTTAAAATGATAATGAAA
1 TTTTAAAATAATAATGAAA
* * *
27284058 TATTTAATATAATATTTAAA
1 T-TTTAAAATAATAATGAAA
27284078 TTTTAAAAT
1 TTTTAAAAT
27284087 TTTTAATATG
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 8 0.35
20 15 0.65
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (19 bp):
TTTTAAAATAATAATGAAA
Found at i:27284091 original size:28 final size:27
Alignment explanation
Indices: 27284055--27284127 Score: 94
Period size: 28 Copynumber: 2.7 Consensus size: 27
27284045 AATGATAATG
* *
27284055 AAATATTTAATATAATATTTAAATTTT
1 AAATTTTTAATATAATATTTAAATTAT
*
27284082 AAAATTTTTAATATGATATTTAAATTAT
1 -AAATTTTTAATATAATATTTAAATTAT
27284110 AAATTTATTAAT-TAATAT
1 AAATTT-TTAATATAATAT
27284128 AATATTTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 11 0.28
28 29 0.73
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (27 bp):
AAATTTTTAATATAATATTTAAATTAT
Found at i:27284197 original size:18 final size:19
Alignment explanation
Indices: 27284174--27284210 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
27284164 ATTTATATTA
27284174 ATCATATT-ATTAATAAAT
1 ATCATATTAATTAATAAAT
27284192 ATCATATTAATTAATAAAT
1 ATCATATTAATTAATAAAT
27284211 TTATAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (19 bp):
ATCATATTAATTAATAAAT
Found at i:27285369 original size:17 final size:16
Alignment explanation
Indices: 27285347--27285382 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
27285337 ATATAGAGAT
*
27285347 AAAATATTATAAAATAA
1 AAAATATAAT-AAATAA
27285364 AAAATATAATAAATAA
1 AAAATATAATAAATAA
27285380 AAA
1 AAA
27285383 TAATAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 9 0.50
17 9 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (16 bp):
AAAATATAATAAATAA
Found at i:27285388 original size:16 final size:17
Alignment explanation
Indices: 27285358--27285394 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
27285348 AAATATTATA
27285358 AAATAAAAAATATAA-T
1 AAATAAAAAATATAACT
27285374 AAAT-AAAAATAATAACT
1 AAATAAAAAAT-ATAACT
27285391 AAAT
1 AAAT
27285395 CAATTCTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 6 0.32
16 8 0.42
17 5 0.26
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAAAATATAACT
Found at i:27289945 original size:22 final size:21
Alignment explanation
Indices: 27289918--27289971 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
27289908 AAATAATGAT
27289918 TAAATCAATTCCAATAATTAGC
1 TAAATCAATTCCAAT-ATTAGC
* *
27289940 TAAATCAATATCTAATATTATC
1 TAAATCAAT-TCCAATATTAGC
*
27289962 TAAATTAATT
1 TAAATCAATT
27289972 TAAAATATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.04
22 22 0.79
23 5 0.18
ACGTcount: A:0.46, C:0.13, G:0.02, T:0.39
Consensus pattern (21 bp):
TAAATCAATTCCAATATTAGC
Found at i:27290479 original size:32 final size:32
Alignment explanation
Indices: 27290443--27290503 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 32
27290433 TATAACATAT
* *
27290443 AATTTTCATATAAAATATAATATAAATACTTA
1 AATTTTAATATAAAATAAAATATAAATACTTA
***
27290475 AATTTTAATATTTTATAAAATATAAATAC
1 AATTTTAATATAAAATAAAATATAAATAC
27290504 ATGATTTATC
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 24 1.00
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (32 bp):
AATTTTAATATAAAATAAAATATAAATACTTA
Found at i:27295222 original size:24 final size:24
Alignment explanation
Indices: 27295188--27295236 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
27295178 GCTAGAAAAT
27295188 ATAGTCGCGATGGTAGTTTTTCTA
1 ATAGTCGCGATGGTAGTTTTTCTA
*
27295212 ATAGTCTCGATGGTAGTTTTTCTA
1 ATAGTCGCGATGGTAGTTTTTCTA
27295236 A
1 A
27295237 GTAATGGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.12, G:0.22, T:0.43
Consensus pattern (24 bp):
ATAGTCGCGATGGTAGTTTTTCTA
Found at i:27303719 original size:23 final size:21
Alignment explanation
Indices: 27303628--27303725 Score: 58
Period size: 21 Copynumber: 4.4 Consensus size: 21
27303618 AACTCTTTGA
*
27303628 ATTTAATTTGTAAAATATTATT
1 ATTTAATTTATAAAAT-TTATT
* *
27303650 AGTTTTAATTTAAAAAATTTATG
1 A--TTTAATTTATAAAATTTATT
*
27303673 ATGATT--TTTATGAAATTT-TAT
1 AT--TTAATTTATAAAATTTAT-T
27303694 ATTTAATTTATAAAATATTATTT
1 ATTTAATTTATAAAAT-TTA-TT
27303717 ATTTTAATT
1 A-TTTAATT
27303726 CAAATATTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 20
0.68 0.08 0.24
Matches are distributed among these distances:
19 2 0.03
20 1 0.02
21 22 0.38
22 3 0.05
23 9 0.16
24 21 0.36
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (21 bp):
ATTTAATTTATAAAATTTATT
Found at i:27304998 original size:1 final size:1
Alignment explanation
Indices: 27304987--27305018 Score: 55
Period size: 1 Copynumber: 32.0 Consensus size: 1
27304977 GTTTACTCTC
*
27304987 TTTTGTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
27305019 CATATAAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.03, T:0.97
Consensus pattern (1 bp):
T
Found at i:27305310 original size:23 final size:24
Alignment explanation
Indices: 27305284--27305333 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
27305274 ATAATTTTTA
*
27305284 TTAAAATTTTAAATT-ATATTATT
1 TTAAAATTTTAAATTCATAATATT
**
27305307 TT-AAATTTTTTATTCATAATATT
1 TTAAAATTTTAAATTCATAATATT
27305330 TTAA
1 TTAA
27305334 TATTATATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.45
23 11 0.50
24 1 0.05
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TTAAAATTTTAAATTCATAATATT
Found at i:27310281 original size:13 final size:13
Alignment explanation
Indices: 27310263--27310292 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
27310253 TATGAGCTTC
27310263 TTCCATCTAGATG
1 TTCCATCTAGATG
27310276 TTCCATCTAGATG
1 TTCCATCTAGATG
27310289 TTCC
1 TTCC
27310293 TTGGTATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (13 bp):
TTCCATCTAGATG
Found at i:27323475 original size:20 final size:18
Alignment explanation
Indices: 27323450--27323493 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
27323440 GTGTTTTTAC
*
27323450 TTTATTTCTCTCTTTATAT
1 TTTATTTATCT-TTTATAT
*
27323469 GTTTATTTATCTTTTTTAT
1 -TTTATTTATCTTTTATAT
27323488 TTTATT
1 TTTATT
27323494 ACTTATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 6 0.27
20 10 0.45
ACGTcount: A:0.16, C:0.09, G:0.02, T:0.73
Consensus pattern (18 bp):
TTTATTTATCTTTTATAT
Found at i:27324055 original size:4 final size:4
Alignment explanation
Indices: 27324046--27324100 Score: 51
Period size: 4 Copynumber: 13.8 Consensus size: 4
27324036 TTTTCTGTAT
* * *
27324046 TTTA TTTA TTTA TTTA TTTA -TGA GTTCTG TTTA TTTA ATTA -TTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA -TT-TA TTTA TTTA TTTA TTTA TTTA
27324094 TTTA TTT
1 TTTA TTT
27324101 GTGATATATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
3 5 0.12
4 34 0.81
5 3 0.07
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.69
Consensus pattern (4 bp):
TTTA
Found at i:27324074 original size:32 final size:32
Alignment explanation
Indices: 27324038--27324098 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
27324028 TCTTTTTCTT
*
27324038 TTCTGTAT-TTTATTTATTTATTTATTTATGAG
1 TTCTGTATATTTAATTA-TTATTTATTTATGAG
*
27324070 TTCTGTTTATTTAATTATTATTTATTTAT
1 TTCTGTATATTTAATTATTATTTATTTAT
27324099 TTGTGATATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 19 0.73
33 7 0.27
ACGTcount: A:0.23, C:0.03, G:0.07, T:0.67
Consensus pattern (32 bp):
TTCTGTATATTTAATTATTATTTATTTATGAG
Found at i:27330838 original size:18 final size:18
Alignment explanation
Indices: 27330815--27330849 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
27330805 TATAGATTTT
27330815 ATGCATTGCATCCATTAC
1 ATGCATTGCATCCATTAC
* *
27330833 ATGCATTTCATGCATTA
1 ATGCATTGCATCCATTA
27330850 TATCATCACA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.37
Consensus pattern (18 bp):
ATGCATTGCATCCATTAC
Found at i:27331227 original size:69 final size:69
Alignment explanation
Indices: 27331096--27331229 Score: 157
Period size: 69 Copynumber: 1.9 Consensus size: 69
27331086 GCATAATTTT
* * * * *
27331096 TAAGTCTTTCAAGCATAATCATCAAGTTCTCTAGGCAAGATTCATAAGTATTCTGAGTTGAATCT
1 TAAGTCTTTCAAGCATAATCATCAAGTTCTCGAGGCAAAATTCATAACTATTCTAAGCTGAATCT
27331161 ATTA
66 ATTA
* *
27331165 TAAGTCTTTCGAGCATAATCATTAAGTTCTTCGA-GCAAAATTCATAAACCT-TTC-AAGCTGAA
1 TAAGTCTTTCAAGCATAATCATCAAGTTC-TCGAGGCAAAATTCAT-AA-CTATTCTAAGCTGAA
27331227 TCT
63 TCT
27331230 GCTATTAGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
69 46 0.84
70 8 0.15
71 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.35
Consensus pattern (69 bp):
TAAGTCTTTCAAGCATAATCATCAAGTTCTCGAGGCAAAATTCATAACTATTCTAAGCTGAATCT
ATTA
Found at i:27331571 original size:17 final size:17
Alignment explanation
Indices: 27331549--27331581 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
27331539 AGCTTGACGT
27331549 AAAAAAATA-ATAAAAAC
1 AAAAAAA-AGATAAAAAC
27331566 AAAAAAAAGATAAAAA
1 AAAAAAAAGATAAAAA
27331582 AGAAGGGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 1 0.07
17 14 0.93
ACGTcount: A:0.85, C:0.03, G:0.03, T:0.09
Consensus pattern (17 bp):
AAAAAAAAGATAAAAAC
Found at i:27331829 original size:13 final size:12
Alignment explanation
Indices: 27331811--27331851 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
27331801 TATCTATAAA
27331811 TTTTTTATTTAT
1 TTTTTTATTTAT
27331823 CTTTTTTATTTTAT
1 -TTTTTTA-TTTAT
*
27331837 TTTATTATTTAT
1 TTTTTTATTTAT
27331849 TTT
1 TTT
27331852 ATCTTTCTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 8 0.31
13 13 0.50
14 5 0.19
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTATTTAT
Found at i:27331852 original size:12 final size:12
Alignment explanation
Indices: 27331810--27331853 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 12
27331800 TTATCTATAA
27331810 ATTTT-TTATTT
1 ATTTTATTATTT
*
27331821 ATCTTTTTTATTTT
1 AT-TTTATTA-TTT
27331835 ATTTTATTATTT
1 ATTTTATTATTT
27331847 ATTTTAT
1 ATTTTAT
27331854 CTTTCTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 2 0.07
12 13 0.45
13 9 0.31
14 5 0.17
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (12 bp):
ATTTTATTATTT
Found at i:27331864 original size:18 final size:17
Alignment explanation
Indices: 27331813--27331864 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 17
27331803 TCTATAAATT
*
27331813 TTTTATTTATCTTTTTTA
1 TTTTATTT-TCTTATTTA
*
27331831 TTTTATTTTATTATTTA
1 TTTTATTTTCTTATTTA
27331848 TTTTATCTTTCTTATTT
1 TTTTAT-TTTCTTATTT
27331865 GTTGTTTATC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
17 13 0.43
18 17 0.57
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (17 bp):
TTTTATTTTCTTATTTA
Found at i:27332252 original size:69 final size:69
Alignment explanation
Indices: 27332126--27332271 Score: 168
Period size: 69 Copynumber: 2.1 Consensus size: 69
27332116 GCATGAGCTT
** * * * * *
27332126 AATTTGTTATAAGTTCTTTGGACATAATCACCAAGTCCTCCAGGCAAGATTCGTAAGTCTTCT-G
1 AATTTGTTATAAGACCTTCGAACATAATCACCAAGTCCTCCAAGCAAAATTCATAAGT-TTCTCG
*
27332190 AGTTG
65 AGTAG
* * * *
27332195 AATTTGTTATAAGACCTTCGAACATAATCATCAAGTCTTCCAAGTAAAATTCATAAGTTTTTCGA
1 AATTTGTTATAAGACCTTCGAACATAATCACCAAGTCCTCCAAGCAAAATTCATAAGTTTCTCGA
27332260 GTAG
66 GTAG
27332264 AATTTGTT
1 AATTTGTT
27332272 TTAGAATTAA
Statistics
Matches: 64, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
68 3 0.05
69 61 0.95
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (69 bp):
AATTTGTTATAAGACCTTCGAACATAATCACCAAGTCCTCCAAGCAAAATTCATAAGTTTCTCGA
GTAG
Found at i:27333932 original size:24 final size:24
Alignment explanation
Indices: 27333886--27333932 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
27333876 AAGATAATGA
*
27333886 TTAAAATATATATATTAAAAATAC
1 TTAAAATATATATAATAAAAATAC
*
27333910 TTAAAATA-ATAATAATAATAATA
1 TTAAAATATAT-ATAATAAAAATA
27333933 GAATAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 2 0.10
24 18 0.90
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
TTAAAATATATATAATAAAAATAC
Found at i:27335415 original size:20 final size:20
Alignment explanation
Indices: 27335371--27335433 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
27335361 TTATTACTTA
27335371 TTTTATCTTGCTAATT-TA-TT
1 TTTTATCTT--TAATTATATTT
*
27335391 GTTTATCTTTAATTATATTT
1 TTTTATCTTTAATTATATTT
*
27335411 TTTTATATTT-ATCTA-ATTT
1 TTTTATCTTTAAT-TATATTT
27335430 TTTT
1 TTTT
27335434 TAAATTTATC
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
18 5 0.14
19 12 0.32
20 20 0.54
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.68
Consensus pattern (20 bp):
TTTTATCTTTAATTATATTT
Found at i:27335750 original size:69 final size:69
Alignment explanation
Indices: 27335652--27335798 Score: 183
Period size: 69 Copynumber: 2.1 Consensus size: 69
27335642 TACATGAGCC
* * * *
27335652 AAATCTGTTATAAGTCTTCTGAGCATAATCACCAAGTCTTCCAG-GTAAGATTCGTAAGTCTTTT
1 AAATTTGTTATAAGTCTTCTGAGCATAATCACCAAGTCCT-CAGAGCAAGATTCATAAGTCTTTT
27335716 AAGCT
65 AAGCT
* *
27335721 GAATTTGTTATAAGTCCTT-T-AGGCATAATCACCAAGTCCTCTGAGCAAGATTCATAAGTCTTT
1 AAATTTGTTATAAGT-CTTCTGA-GCATAATCACCAAGTCCTCAGAGCAAGATTCATAAGTCTTT
*
27335784 TAAGTT
64 TAAGCT
27335790 AAATTTGTT
1 AAATTTGTT
27335799 TTATAATTGA
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
68 3 0.04
69 61 0.91
70 3 0.04
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.37
Consensus pattern (69 bp):
AAATTTGTTATAAGTCTTCTGAGCATAATCACCAAGTCCTCAGAGCAAGATTCATAAGTCTTTTA
AGCT
Found at i:27336068 original size:15 final size:17
Alignment explanation
Indices: 27336048--27336090 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
27336038 CTTGACGTAA
*
27336048 AAAAATAATAA-TA-AT
1 AAAAATAAAAAGTATAT
27336063 AAAAATAAAAAGTATAT
1 AAAAATAAAAAGTATAT
*
27336080 AAAAACAAAAA
1 AAAAATAAAAA
27336091 AAAGGATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 2 0.08
17 12 0.50
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (17 bp):
AAAAATAAAAAGTATAT
Found at i:27336380 original size:21 final size:20
Alignment explanation
Indices: 27336356--27336394 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
27336346 TTTTTTTATT
27336356 TTATTACTTATTTTATCTTGC
1 TTATTACTTA-TTTATCTTGC
**
27336377 TTATTTGTTATTTATCTT
1 TTATTACTTATTTATCTT
27336395 TAATTATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.18, C:0.10, G:0.05, T:0.67
Consensus pattern (20 bp):
TTATTACTTATTTATCTTGC
Found at i:27340557 original size:23 final size:24
Alignment explanation
Indices: 27340514--27340570 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
27340504 AGAGTTTTTG
**
27340514 TTATTAATTTGATTTTGATTAT-T
1 TTATTAATTTGATTTCAATTATAT
27340537 TTATTAATTCTG-TTTCAATTATAT
1 TTATTAATT-TGATTTCAATTATAT
*
27340561 TAATTAATTT
1 TTATTAATTT
27340571 TTTTATTTGT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 18 0.62
24 11 0.38
ACGTcount: A:0.30, C:0.04, G:0.05, T:0.61
Consensus pattern (24 bp):
TTATTAATTTGATTTCAATTATAT
Found at i:27349587 original size:27 final size:27
Alignment explanation
Indices: 27349549--27349602 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
27349539 CTCTAACTTC
27349549 AAGTGATAGCATTCATGTAAATTCTAG
1 AAGTGATAGCATTCATGTAAATTCTAG
27349576 AAGTGATAGCATTCATGTAAATTCTAG
1 AAGTGATAGCATTCATGTAAATTCTAG
27349603 CATTCTAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (27 bp):
AAGTGATAGCATTCATGTAAATTCTAG
Found at i:27361460 original size:13 final size:13
Alignment explanation
Indices: 27361442--27361492 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
27361432 TTATAATACA
*
27361442 TAAATTTAAAATT
1 TAAATTTAAAAAT
27361455 TAAATTTATAAAAT
1 TAAATTTA-AAAAT
*
27361469 T-ATTTTAAAAAT
1 TAAATTTAAAAAT
*
27361481 AAAATTATAAAA
1 TAAATT-TAAAA
27361493 TTTATAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
12 5 0.16
13 16 0.52
14 10 0.32
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TAAATTTAAAAAT
Found at i:27361497 original size:26 final size:26
Alignment explanation
Indices: 27361446--27361494 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
27361436 AATACATAAA
* *
27361446 TTTAAAATTTAAATTTATAAAATTAT
1 TTTAAAATATAAAATTATAAAATTAT
27361472 TTTAAAA-ATAAAATTATAAAATT
1 TTTAAAATATAAAATTATAAAATT
27361495 TATAAATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
TTTAAAATATAAAATTATAAAATTAT
Found at i:27361519 original size:23 final size:23
Alignment explanation
Indices: 27361469--27361530 Score: 74
Period size: 23 Copynumber: 2.8 Consensus size: 23
27361459 TTTATAAAAT
* *
27361469 TATTTTAAAAATAAAAT-TATAA
1 TATTTTATAAATAAAATAAATAA
*
27361491 -AATTTATAAATAAAATAAATAA
1 TATTTTATAAATAAAATAAATAA
*
27361513 TATTTTATAAATTAAATA
1 TATTTTATAAATAAAATA
27361531 CGAATCTCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
21 14 0.42
22 4 0.12
23 15 0.45
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (23 bp):
TATTTTATAAATAAAATAAATAA
Found at i:27362603 original size:2 final size:2
Alignment explanation
Indices: 27362592--27362630 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
27362582 ATAACTTTCC
27362592 TA TA -A TA TA TA TA 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 TA TA TA
27362631 CACTGTAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:27363957 original size:15 final size:14
Alignment explanation
Indices: 27363930--27363986 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
27363920 ATAAATTATA
27363930 TAATTTATTAAAAAT
1 TAATTT-TTAAAAAT
* *
27363945 TTATTTTTGAAAAGT
1 TAATTTTT-AAAAAT
27363960 TAATTTTTAAAAA-
1 TAATTTTTAAAAAT
*
27363973 -AATTTTAAAAAAT
1 TAATTTTTAAAAAT
27363986 T
1 T
27363987 TTCAAAAAGG
Statistics
Matches: 34, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
12 11 0.32
14 6 0.18
15 17 0.50
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (14 bp):
TAATTTTTAAAAAT
Found at i:27378394 original size:16 final size:17
Alignment explanation
Indices: 27378358--27378395 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
27378348 CATATTACTT
*
27378358 TCATATTTATATTTTGTA
1 TCATATTTATA-TTCGTA
27378376 TCATATTTATA-TCGTA
1 TCATATTTATATTCGTA
27378392 TCAT
1 TCAT
27378396 CGTATCTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.29, C:0.11, G:0.05, T:0.55
Consensus pattern (17 bp):
TCATATTTATATTCGTA
Found at i:27384673 original size:2 final size:2
Alignment explanation
Indices: 27384666--27384696 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
27384656 GTCTGGGTAC
*
27384666 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
27384697 GTGTTATGCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:27389136 original size:12 final size:12
Alignment explanation
Indices: 27389119--27389199 Score: 92
Period size: 12 Copynumber: 6.8 Consensus size: 12
27389109 TTAAGGCTAA
*
27389119 ATACATATAGAC
1 ATACATATATAC
*
27389131 ATACATACATA-
1 ATACATATATAC
*
27389142 ATACATATAGAC
1 ATACATATATAC
*
27389154 ATACATACATAC
1 ATACATATATAC
27389166 ATACATATATAC
1 ATACATATATAC
* *
27389178 ATACATACATAA
1 ATACATATATAC
*
27389190 ATATATATAT
1 ATACATATAT
27389200 CCAGTCGATT
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
11 9 0.16
12 48 0.84
ACGTcount: A:0.52, C:0.16, G:0.02, T:0.30
Consensus pattern (12 bp):
ATACATATATAC
Found at i:27389199 original size:4 final size:4
Alignment explanation
Indices: 27389119--27389188 Score: 88
Period size: 4 Copynumber: 17.8 Consensus size: 4
27389109 TTAAGGCTAA
* * * *
27389119 ATAC ATAT AGAC ATAC ATAC ATA- ATAC ATAT AGAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
*
27389166 ATAC ATAT ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATA
27389189 AATATATATA
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
3 3 0.05
4 52 0.95
ACGTcount: A:0.51, C:0.19, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:27389735 original size:39 final size:39
Alignment explanation
Indices: 27389691--27389821 Score: 114
Period size: 39 Copynumber: 3.4 Consensus size: 39
27389681 TCAAATAATT
*
27389691 TTATTTAATAAATTATTTAAATTTAATATTTTTAGATAA
1 TTATTTAATAAATTATTTAAATTTAATAATTTTAGATAA
** ** *
27389730 TTATTTAAATTAAA--ATCAAAATCTATAA-AAGATT-GAAAA
1 TTATTT-AA-TAAATTATTTAAAT-T-TAATAATTTTAGATAA
*
27389769 TTATTTAATAGATTATTTAAATTTAATAATTTTAGATAA
1 TTATTTAATAAATTATTTAAATTTAATAATTTTAGATAA
27389808 --A-TTAATAAATTATT
1 TTATTTAATAAATTATT
27389822 GACTATAAAG
Statistics
Matches: 71, Mismatches: 13, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
36 12 0.17
37 7 0.10
38 7 0.10
39 32 0.45
40 6 0.08
41 7 0.10
ACGTcount: A:0.48, C:0.02, G:0.04, T:0.47
Consensus pattern (39 bp):
TTATTTAATAAATTATTTAAATTTAATAATTTTAGATAA
Found at i:27397486 original size:7 final size:7
Alignment explanation
Indices: 27397472--27397503 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
27397462 ATCACAATTG
27397472 CACAGAC
1 CACAGAC
*
27397479 CGCAGAC
1 CACAGAC
27397486 CACAGAC
1 CACAGAC
27397493 CACAGAC
1 CACAGAC
27397500 CACA
1 CACA
27397504 TAGAAAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.41, C:0.44, G:0.16, T:0.00
Consensus pattern (7 bp):
CACAGAC
Found at i:27399430 original size:10 final size:9
Alignment explanation
Indices: 27399415--27399444 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
27399405 ATTTTTACTA
27399415 TTTTTTTCT
1 TTTTTTTCT
27399424 TTCTTTTTCT
1 TT-TTTTTCT
27399434 TTTTTTTCT
1 TTTTTTTCT
27399443 TT
1 TT
27399445 ACATAGGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (9 bp):
TTTTTTTCT
Found at i:27421329 original size:19 final size:20
Alignment explanation
Indices: 27421302--27421340 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
27421292 AAATTAAAAG
27421302 CAAATAATGAGATTCAACAA
1 CAAATAATGAGATTCAACAA
* *
27421322 CAAA-AATGTGATTGAACAA
1 CAAATAATGAGATTCAACAA
27421341 TTTGCTTTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.54, C:0.13, G:0.13, T:0.21
Consensus pattern (20 bp):
CAAATAATGAGATTCAACAA
Found at i:27425563 original size:30 final size:30
Alignment explanation
Indices: 27425529--27425591 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
27425519 CAGAACTTTA
27425529 TTTGATTCTACTTTTGGGGTAACCGAATTT
1 TTTGATTCTACTTTTGGGGTAACCGAATTT
27425559 TTTGATTCTACTTTTGGGGTAACCGAATTT
1 TTTGATTCTACTTTTGGGGTAACCGAATTT
27425589 TTT
1 TTT
27425592 CATGAACAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.19, C:0.13, G:0.19, T:0.49
Consensus pattern (30 bp):
TTTGATTCTACTTTTGGGGTAACCGAATTT
Found at i:27428627 original size:16 final size:16
Alignment explanation
Indices: 27428608--27428638 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
27428598 AAAGAAACAA
27428608 GACAAGATAGATGTTG
1 GACAAGATAGATGTTG
27428624 GACAAGATAGATGTT
1 GACAAGATAGATGTT
27428639 ACTATCTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.06, G:0.29, T:0.26
Consensus pattern (16 bp):
GACAAGATAGATGTTG
Found at i:27438600 original size:17 final size:19
Alignment explanation
Indices: 27438578--27438612 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
27438568 AATCAAATCA
27438578 AATTAAT-T-CCACAAAAT
1 AATTAATCTCCCACAAAAT
27438595 AATTAATCTCCCACAAAA
1 AATTAATCTCCCACAAAA
27438613 ACATGTTGTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 1 0.06
19 8 0.50
ACGTcount: A:0.51, C:0.23, G:0.00, T:0.26
Consensus pattern (19 bp):
AATTAATCTCCCACAAAAT
Found at i:27442809 original size:19 final size:19
Alignment explanation
Indices: 27442782--27442821 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
27442772 TATAATTTAT
27442782 TTATCATTAATATAAAATA
1 TTATCATTAATATAAAATA
* *
27442801 TTATTATTAATATCAAATA
1 TTATCATTAATATAAAATA
27442820 TT
1 TT
27442822 TCGTATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (19 bp):
TTATCATTAATATAAAATA
Found at i:27446528 original size:42 final size:42
Alignment explanation
Indices: 27446467--27446546 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
27446457 AAAGTACGAT
27446467 CACATTAGTCAAATCGATGATGAGATATTTATCACTTGCGAA
1 CACATTAGTCAAATCGATGATGAGATATTTATCACTTGCGAA
* *
27446509 CACATTAGTCAATTGGATGATGAGATATTTATCACTTG
1 CACATTAGTCAAATCGATGATGAGATATTTATCACTTG
27446547 TAAGCTGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (42 bp):
CACATTAGTCAAATCGATGATGAGATATTTATCACTTGCGAA
Found at i:27446884 original size:43 final size:43
Alignment explanation
Indices: 27446823--27446909 Score: 165
Period size: 43 Copynumber: 2.0 Consensus size: 43
27446813 AGGGGCTACT
*
27446823 AAGTAATTATCACAGCATTTTGATATTTCCATATATTAGACAA
1 AAGTAATTATCACAGCATTTTGATATCTCCATATATTAGACAA
27446866 AAGTAATTATCACAGCATTTTGATATCTCCATATATTAGACAA
1 AAGTAATTATCACAGCATTTTGATATCTCCATATATTAGACAA
27446909 A
1 A
27446910 TAGCAGATAT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (43 bp):
AAGTAATTATCACAGCATTTTGATATCTCCATATATTAGACAA
Found at i:27449227 original size:156 final size:156
Alignment explanation
Indices: 27449057--27449369 Score: 509
Period size: 156 Copynumber: 2.0 Consensus size: 156
27449047 TAATCAAGTC
*
27449057 AAATTTAAATATTTTTATACATAATTGGAGTAACCTATAAGCTTAATTAAATTTTTATATTTTAA
1 AAATTTAAATATTTTTATACATAATTGGAATAACCTATAAGCTTAATTAAATTTTTATATTTTAA
* * * * *
27449122 TATGTTTTAATTATTTTTATTTAATAAAATATCTCAAACTCGAGTTCGAGTTCGAATTTAAATAC
66 TATATTTTAATTATTTTTATTTAATAAAATATCTCAAACTCGAGCTCGAATTCAAATTCAAATAC
27449187 AAATAATTAAAATTTTGTCAAACATA
131 AAATAATTAAAATTTTGTCAAACATA
* ** * *
27449213 AAATTTAAATATTTTTATATATAATTGGAATAATTTGTAAGTTTAATTAAATTTTTATATTTTAA
1 AAATTTAAATATTTTTATACATAATTGGAATAACCTATAAGCTTAATTAAATTTTTATATTTTAA
27449278 TATATTTTAATTATTTTTATTTAATAAAATATCTCAAACTCGAGCTCGAATTCAAATTCAAATAC
66 TATATTTTAATTATTTTTATTTAATAAAATATCTCAAACTCGAGCTCGAATTCAAATTCAAATAC
**
27449343 AAATAATTAAGTTTTTGTCAAACATA
131 AAATAATTAAAATTTTGTCAAACATA
27449369 A
1 A
27449370 TAATCAAATT
Statistics
Matches: 144, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
156 144 1.00
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (156 bp):
AAATTTAAATATTTTTATACATAATTGGAATAACCTATAAGCTTAATTAAATTTTTATATTTTAA
TATATTTTAATTATTTTTATTTAATAAAATATCTCAAACTCGAGCTCGAATTCAAATTCAAATAC
AAATAATTAAAATTTTGTCAAACATA
Found at i:27453173 original size:17 final size:17
Alignment explanation
Indices: 27453148--27453181 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
27453138 TATCATTATT
*
27453148 TTTATTAAAAATATTTA
1 TTTAATAAAAATATTTA
*
27453165 TTTAATAAATATATTTA
1 TTTAATAAAAATATTTA
27453182 AAATTTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTAATAAAAATATTTA
Found at i:27461648 original size:30 final size:31
Alignment explanation
Indices: 27461612--27461670 Score: 95
Period size: 30 Copynumber: 1.9 Consensus size: 31
27461602 GATTTTGAAC
27461612 TATATTTAAT-ATTCTTAAATAAA-TATAAAT
1 TATATTTAATAATT-TTAAATAAATTATAAAT
27461642 TATATTTAATAATTTTAAATAAATTATAA
1 TATATTTAATAATTTTAAATAAATTATAA
27461671 GTTAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (31 bp):
TATATTTAATAATTTTAAATAAATTATAAAT
Found at i:27461665 original size:24 final size:26
Alignment explanation
Indices: 27461636--27461684 Score: 75
Period size: 24 Copynumber: 2.0 Consensus size: 26
27461626 TTAAATAAAT
*
27461636 ATAAATTAT-ATTTAA-TAATTTTAA
1 ATAAATTATAAGTTAATTAATTTTAA
27461660 ATAAATTATAAGTTAATTAATTTTA
1 ATAAATTATAAGTTAATTAATTTTA
27461685 CTTTAAGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 9 0.41
25 5 0.23
26 8 0.36
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
ATAAATTATAAGTTAATTAATTTTAA
Found at i:27462560 original size:75 final size:76
Alignment explanation
Indices: 27462477--27462622 Score: 183
Period size: 78 Copynumber: 1.9 Consensus size: 76
27462467 ATTTAAGATT
* *
27462477 TTTTTGAT-AAAAAATACA-TTAAATAATACCCTT-TAAAAATATATTAGAG-ATTATTTAAAAC
1 TTTTTGATAAAAAAATA-ATTTAAATAATACCCTTCAAAAAAT-TA-AAGAGTATTATTTAAAAC
*
27462538 TTTTTTGGCATGTG
63 GTTTTTGGCATGTG
*
27462552 TTTTTGATAAAAAAAAATAATTTAAATAATATCCTTCAAAAAATTAAAGAGTATTATTTAAAACG
1 TTTTTGAT--AAAAAAATAATTTAAATAATACCCTTCAAAAAATTAAAGAGTATTATTTAAAACG
27462617 TTTTTG
64 TTTTTG
27462623 ACAATAAAAG
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
75 8 0.13
77 5 0.08
78 42 0.69
79 6 0.10
ACGTcount: A:0.45, C:0.07, G:0.08, T:0.40
Consensus pattern (76 bp):
TTTTTGATAAAAAAATAATTTAAATAATACCCTTCAAAAAATTAAAGAGTATTATTTAAAACGTT
TTTGGCATGTG
Found at i:27462962 original size:24 final size:24
Alignment explanation
Indices: 27462934--27462981 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
27462924 TTGAGTATTT
27462934 ATTATTA-ATAAATATTAATAAAAA
1 ATTATTACATAAATATTAA-AAAAA
*
27462958 ATTATTATCATATATATTAAAAAA
1 ATTATTA-CATAAATATTAAAAAA
27462982 TTTATGATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 7 0.33
25 4 0.19
26 10 0.48
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (24 bp):
ATTATTACATAAATATTAAAAAAA
Found at i:27462979 original size:22 final size:23
Alignment explanation
Indices: 27462954--27463013 Score: 56
Period size: 22 Copynumber: 2.7 Consensus size: 23
27462944 AATATTAATA
27462954 AAAAATTATTATCAT-A-TATATT
1 AAAAATTATTATCATAATTAT-TT
* *
27462976 AAAAAAT-TTATGATAATTATTT
1 AAAAATTATTATCATAATTATTT
*
27462998 AAAAATTAATAT-ATAA
1 AAAAATTATTATCATAA
27463014 ATTTTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 6 0.19
22 19 0.61
23 6 0.19
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
AAAAATTATTATCATAATTATTT
Found at i:27462986 original size:21 final size:21
Alignment explanation
Indices: 27462945--27463012 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
27462935 TTATTAATAA
*
27462945 ATATTAATAAAAAA-TTATTAT
1 ATATTATTAAAAAATTTA-TAT
27462966 CATATATATTAAAAAATTTATGAT
1 -ATAT-TATTAAAAAATTTAT-AT
* *
27462990 A-ATTATTTAAAAATTAATAT
1 ATATTATTAAAAAATTTATAT
27463010 ATA
1 ATA
27463013 AATTTTTTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
20 3 0.08
21 14 0.36
22 6 0.15
23 11 0.28
24 5 0.13
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
ATATTATTAAAAAATTTATAT
Found at i:27463768 original size:25 final size:25
Alignment explanation
Indices: 27463735--27463786 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
27463725 ATTACCATTA
27463735 TATGCAAACCATTAATTTAATTAAT
1 TATGCAAACCATTAATTTAATTAAT
27463760 TATGCAAACCATTAATTTAATTAAT
1 TATGCAAACCATTAATTTAATTAAT
27463785 TA
1 TA
27463787 GGTTCTCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (25 bp):
TATGCAAACCATTAATTTAATTAAT
Found at i:27463809 original size:33 final size:33
Alignment explanation
Indices: 27463782--27463846 Score: 130
Period size: 33 Copynumber: 2.0 Consensus size: 33
27463772 TAATTTAATT
27463782 AATTAGGTTCTCTTAAGTTAGATTAATTAAAAG
1 AATTAGGTTCTCTTAAGTTAGATTAATTAAAAG
27463815 AATTAGGTTCTCTTAAGTTAGATTAATTAAAA
1 AATTAGGTTCTCTTAAGTTAGATTAATTAAAA
27463847 AAACTCTGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.40, C:0.06, G:0.14, T:0.40
Consensus pattern (33 bp):
AATTAGGTTCTCTTAAGTTAGATTAATTAAAAG
Found at i:27463950 original size:8 final size:8
Alignment explanation
Indices: 27463939--27463963 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
27463929 AAACAATAAA
27463939 ATTAAATT
1 ATTAAATT
27463947 ATTAAATT
1 ATTAAATT
27463955 ATTAAATT
1 ATTAAATT
27463963 A
1 A
27463964 AAAAGAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
ATTAAATT
Found at i:27466498 original size:20 final size:19
Alignment explanation
Indices: 27466453--27466500 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
27466443 ATAATTACTT
27466453 TTAATATAAAAATAATAATA
1 TTAATA-AAAAATAATAATA
*
27466473 TAAATAAACAAATAA-AATA
1 TTAATAAA-AAATAATAATA
27466492 GTTAATAAA
1 -TTAATAAA
27466501 TAAAAAGTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (19 bp):
TTAATAAAAAATAATAATA
Found at i:27466687 original size:20 final size:20
Alignment explanation
Indices: 27466662--27466715 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
27466652 ATTAAATATA
27466662 TACATAAATAAAAAAAGCAT
1 TACATAAATAAAAAAAGCAT
* * **
27466682 TACATAATTAAATAAATTAT
1 TACATAAATAAAAAAAGCAT
27466702 TA-ATAAATAAAAAA
1 TACATAAATAAAAAA
27466716 TAATCTAAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.65, C:0.06, G:0.02, T:0.28
Consensus pattern (20 bp):
TACATAAATAAAAAAAGCAT
Found at i:27474182 original size:24 final size:24
Alignment explanation
Indices: 27474155--27474202 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
27474145 AGATAGTAAC
*
27474155 TTTGGGCTTCTTATTTAAATGATA
1 TTTGGGCTTCTTATTTAAAGGATA
27474179 TTTGGGCTTCTTATTTAAAGGATA
1 TTTGGGCTTCTTATTTAAAGGATA
27474203 GAAGGGATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.08, G:0.19, T:0.48
Consensus pattern (24 bp):
TTTGGGCTTCTTATTTAAAGGATA
Found at i:27482559 original size:26 final size:25
Alignment explanation
Indices: 27482516--27482572 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
27482506 TGGATTTAGA
*
27482516 ATTTTTTTCTATAGATATTAATT-TTG
1 ATTTTTTTCTATACATA-T-ATTGTTG
* *
27482542 ATTTTTTTTTTTACATATATTGTTG
1 ATTTTTTTCTATACATATATTGTTG
27482567 ATTTTT
1 ATTTTT
27482573 AAATTGGGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 3 0.11
25 10 0.37
26 14 0.52
ACGTcount: A:0.23, C:0.04, G:0.07, T:0.67
Consensus pattern (25 bp):
ATTTTTTTCTATACATATATTGTTG
Found at i:27483351 original size:4 final size:4
Alignment explanation
Indices: 27483342--27483404 Score: 81
Period size: 4 Copynumber: 15.8 Consensus size: 4
27483332 CTTCTCTCTT
* * * *
27483342 TATA TATA TATA TATA TATA TATA TTTA TTTA TATT TATA TTTA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
*
27483390 TATA TATG TATA TAT
1 TATA TATA TATA TAT
27483405 CCCACTTTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (4 bp):
TATA
Found at i:27483353 original size:6 final size:6
Alignment explanation
Indices: 27483342--27483404 Score: 81
Period size: 6 Copynumber: 10.5 Consensus size: 6
27483332 CTTCTCTCTT
* * * *
27483342 TATATA TATATA TATATA TATATA TTTATT TATATT TATATT TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
*
27483390 TATATA TGTATA TAT
1 TATATA TATATA TAT
27483405 CCCACTTTCT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 51 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (6 bp):
TATATA
Found at i:27483357 original size:10 final size:10
Alignment explanation
Indices: 27483342--27483404 Score: 81
Period size: 10 Copynumber: 6.3 Consensus size: 10
27483332 CTTCTCTCTT
27483342 TATATATATA
1 TATATATATA
27483352 TATATATATA
1 TATATATATA
* *
27483362 TATATTTATT
1 TATATATATA
*
27483372 TATATTTATA
1 TATATATATA
*
27483382 TTTATATATA
1 TATATATATA
*
27483392 TATATGTATA
1 TATATATATA
27483402 TAT
1 TAT
27483405 CCCACTTTCT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
10 46 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (10 bp):
TATATATATA
Found at i:27493217 original size:185 final size:184
Alignment explanation
Indices: 27492152--27493424 Score: 1262
Period size: 186 Copynumber: 6.9 Consensus size: 184
27492142 TGATGGTTAC
* * * * * * *
27492152 TGAAGGTATTTTTTGATAACAAACGCATTTAATAATTTTTTTATAAAATTTTTGGGACTATTAAA
1 TGAAGGT-TTTTTTGAAAACAAATGCCTTCAATAATTTTTCT-TAAAATTTTTGAGATTATTAAA
* * **
27492217 GACGTCTTCCATTGAAAAATACCTTTAATATTTC-ACAACTCAAATTTTAAGACAG-TTAGTGAA
64 GATGTCTTCCAGTGAAAAACGCCTTTAAT-TTTCTACAACTCAAATTTTAAGAC-GTTTAGTGAA
* * *
27492280 GGCGTTTATTCTAGAAAAATATCTTCACTAATTCCTTCTAGTTTACATACATAATTAT
127 GGCGTTTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
* * *
27492338 TAAAGACG-TTTTTTGAAAAC-AATCGCCATCAATAATTTTTTCTT-AAATTTTAG-GATTATT-
1 TGAAG--GTTTTTTTGAAAACAAAT-GCCTTCAATAA-TTTTTCTTAAAATTTTTGAGATTATTA
* ** * *
27492398 AA-ATGCCTTTTTTAGTGAAAAACGCCTTCAATTTT-TCACAACTCAAATTTTAAGATGTTTAGT
62 AAGATG--TCTTCCAGTGAAAAACGCCTTTAATTTTCT-ACAACTCAAATTTTAAGACGTTTAGT
** *
27492461 GAAAACGTTTATTCTA-AAAAA-ACTTCTTCACCT-ATTTCTTCTAATTTACGTACATAATTAT
124 GAAGGCGTTTATTCTAGAAAAATAC--CTTCA-CTAATTCCTTCTAATTTACGTACATAATTAT
* **
27492522 TGAATGCTTTTTTTTTTAAAC-AAT-CATCTTCAATAATTTTT-TTAAAAATTTTTGAGATTATT
1 TGAA-G-GTTTTTTTGAAAACAAATGC--CTTCAATAATTTTTCTT-AAAATTTTTGAGATTATT
* ** * * *
27492584 AAA-AGTGTCTTCCAATGAAAAATACCTTTAATTTTTTACAACTCAAATTTTCAGACATTTAGTG
61 AAAGA-TGTCTTCCAGTGAAAAACGCCTTTAATTTTCTACAACTCAAATTTTAAGACGTTTAGTG
* *
27492648 AAGGCGTTTATTCTAGAAAAATACCTTCACTGATTCCTTCTAATTTATGTACATAATTAT
125 AAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
* * *
27492708 TGAAAGTATTTTTTTGAAAA-TAATCGCCTTCAATAATTTTTTCTTAAAATTTATGAGATTATTA
1 TG-AAG-GTTTTTTTGAAAACAAAT-GCCTTCAATAA-TTTTTCTTAAAATTTTTGAGATTATTA
* * * * * * * *
27492772 AAGGTAT-TTTCAGTCAAAAACACCTTCAATTTTCTATAACTCAAATTTTAAGACATTTAGTGAA
62 AAGATGTCTTCCAGTGAAAAACGCCTTTAATTTTCTACAACTCAAATTTTAAGACGTTTAGTGAA
* * * * * *
27492836 TGTGTTTATTTTAGAAAAATGCCTTCACTAATTCCTTCTAATTAACATACATAATTAT
127 GGCGTTTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
* * * *
27492894 TGAAGGCATTTTTTGAAAACAAATGCCTTTAATAATTTTTTCTTAAATTTTTTGGGATTATT-AA
1 TGAAGG-TTTTTTTGAAAACAAATGCCTTCAATAA-TTTTTCTTAAAATTTTTGAGATTATTAAA
* * * * * * * * *
27492958 -ATGCATCTTCTAGTGAAAAACG-CTTTCAATATTCCACTACTTAAATTTTAAAATGGTTAGTAA
64 GATG--TCTTCCAGTGAAAAACGCCTTT-AATTTTCTACAACTCAAATTTTAAGACGTTTAGTGA
* *
27493021 AGGCGTTTATTCTAG-AAAATCACCTTCACTAATTCTTTATAATTTACGTACATAATTAT
126 AGGCGTTTATTCTAGAAAAAT-ACCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
* *
27493080 TGAAGGTTTTTTTTAGAACAAATGCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAG
1 TGAAGGTTTTTTTGAAAACAAATGCCTTCAATAATTTT-TCTTAAAATTTTTGAGATTATTAAAG
* * *
27493145 ATGTCTTCCAGTGAAAAATGCCTTTAATTTCCCTA-AACTCAAAATTTAAGACGTTTAGTGAAGG
65 ATGTCTTCCAGTGAAAAACGCCTTTAATTT-TCTACAACTCAAATTTTAAGACGTTTAGTGAAGG
* *
27493209 CATTTATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
129 CGTTTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
* * * *
27493265 TGAAGGTATTTTTTGAAAATAAATGCCTTTAATAATTTTTTTTAAAATTTTTTGATATTATTAAA
1 TGAAGGT-TTTTTTGAAAACAAATGCCTTCAATAATTTTTCTTAAAA-TTTTTGAGATTATTAAA
** * * * * * *
27493330 GGCGTGTTCTAGTGAAAAACGCCTTTAATGTTTC-ACTACTCAAATTTTAAAATGGTTAGTGAAG
64 GATGTCTTCCAGTGAAAAACGCCTTTAAT-TTTCTACAACTCAAATTTTAAGACGTTTAGTGAAG
* *
27493394 GCGTTTATTCTAGAAGAATGCCTTCACTAAT
128 GCGTTTATTCTAGAAAAATACCTTCACTAAT
27493425 AATTTTTGTA
Statistics
Matches: 898, Mismatches: 140, Indels: 98
0.79 0.12 0.09
Matches are distributed among these distances:
182 3 0.00
183 15 0.02
184 106 0.12
185 247 0.28
186 470 0.52
187 49 0.05
188 8 0.01
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (184 bp):
TGAAGGTTTTTTTGAAAACAAATGCCTTCAATAATTTTTCTTAAAATTTTTGAGATTATTAAAGA
TGTCTTCCAGTGAAAAACGCCTTTAATTTTCTACAACTCAAATTTTAAGACGTTTAGTGAAGGCG
TTTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
Found at i:27493261 original size:371 final size:369
Alignment explanation
Indices: 27492152--27493424 Score: 1457
Period size: 371 Copynumber: 3.4 Consensus size: 369
27492142 TGATGGTTAC
* * * * * *
27492152 TGAAGGTATTTTTTGATAACAAACGCATTTAATAATTTTTTTATAAAATTTTTGGGACTATTAAA
1 TGAAGGCATTTTTTGAAAACAAATGCCTTTAATAATTTTTTT-TAAAATTTTTGAGATTATTAAA
* * **
27492217 GACGTCTTCCATTGAAAAATACCTTTAATATTTCACAACTCAAATTTTAAGACAGTTAGTGAAGG
65 G-CGTCTTCCAGTGAAAAATACCTTTAATATTTCACAACTCAAATTTTAAAATGGTTAGTGAAGG
* * * *
27492282 CGTTTATTCTAGAAAAATATCTTCACTAATTCCTTCTAGTTTACATACATAATTATTAAAGACG-
129 CGTTTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAG--GT
* * * * *
27492346 TTTTTTGAAAAC-AATCGCCATCAATAATTTTTTCTT-AAATTTTAG-GATTATTAAATGCCT-T
192 TTTTTTTAGAACAAATCGCCTTCAATAATTTTTTCTTAAAATTTTTGAGATTATTAAA-G-ATGT
* * *
27492407 TTTTAGTGAAAAACGCCTTCAATTTT-TCACAACTCAAATTTTAAGATGTTTAGTGAAAACGTTT
255 TTTCAGTGAAAAACGCCTTCAATTTTCT-ACAACTCAAATTTTAAGACGTTTAGTGAAAGCGTTT
* * *
27492471 ATTCTAAAAAAACT-TCTTCACCT-ATTTCTTCTAATTTACGTACATAATTAT
319 ATTCTAGAAAAA-TGCCTTCA-CTAATTCCTTCTAATTTACGTACATAATTAT
* * ** * *
27492522 TGAATGCTTTTTTTTTTAAAC-AAT-CATCTTCAATAATTTTTTTAAAAATTTTTGAGATTATTA
1 TGAAGGC-ATTTTTTGAAAACAAATGC--CTTTAATAATTTTTTTTAAAATTTTTGAGATTATT-
* * * * *
27492585 AAAGTGTCTTCCAATGAAAAATACCTTTAATTTTTTACAACTCAAATTTTCAGACAT--TTAGTG
62 AAAGCGTCTTCCAGTGAAAAATACCTTTAATATTTCACAACTCAAATTTT-A-AAATGGTTAGTG
* * *
27492648 AAGGCGTTTATTCTAGAAAAATACCTTCACTGATTCCTTCTAATTTATGTACATAATTATTGAAA
125 AAGGCGTTTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAG
* * *
27492713 GTATTTTTTT-GAAAATAATCGCCTTCAATAATTTTTTCTTAAAATTTATGAGATTATTAAAGGT
190 GT-TTTTTTTAGAACA-AATCGCCTTCAATAATTTTTTCTTAAAATTTTTGAGATTATTAAAGAT
* * * * * * *
27492777 ATTTTCAGTCAAAAACACCTTCAATTTTCTATAACTCAAATTTTAAGACATTTAGTGAATGTGTT
253 GTTTTCAGTGAAAAACGCCTTCAATTTTCTACAACTCAAATTTTAAGACGTTTAGTGAAAGCGTT
* * *
27492842 TATTTTAGAAAAATGCCTTCACTAATTCCTTCTAATTAACATACATAATTAT
318 TATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
* *
27492894 TGAAGGCATTTTTTGAAAACAAATGCCTTTAATAATTTTTTCTTAAATTTTTTGGGATTATTAAA
1 TGAAGGCATTTTTTGAAAACAAATGCCTTTAATAATTTTTT-TTAAAATTTTTGAGATTATTAAA
* * * * * *
27492959 TGCATCTTCTAGTG-AAAA-ACGCTTTCAATATTCCACTACTTAAATTTTAAAATGGTTAGTAAA
65 -GCGTCTTCCAGTGAAAAATAC-CTTT-AATATTTCACAACTCAAATTTTAAAATGGTTAGTGAA
* *
27493022 GGCGTTTATTCTAG-AAAATCACCTTCACTAATTCTTTATAATTTACGTACATAATTATTGAAGG
127 GGCGTTTATTCTAGAAAAAT-ACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGG
*
27493086 TTTTTTTTAGAACAAAT-GCCTTCAATAATTTTCTCTTAAAATTTTTGAGATTATTAAAGATGTC
191 TTTTTTTTAGAACAAATCGCCTTCAATAATTTTTTCTTAAAATTTTTGAGATTATTAAAGATGT-
* * * * * * *
27493150 TTCCAGTGAAAAATGCCTTTAATTTCCCTA-AACTCAAAATTTAAGACGTTTAGTGAAGGCATTT
255 TTTCAGTGAAAAACGCCTTCAATTT-TCTACAACTCAAATTTTAAGACGTTTAGTGAAAGCGTTT
27493214 ATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
319 ATTCTAGAAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
* * *
27493265 TGAAGGTATTTTTTGAAAATAAATGCCTTTAATAATTTTTTTTAAAATTTTTTGATATTATTAAA
1 TGAAGGCATTTTTTGAAAACAAATGCCTTTAATAATTTTTTTTAAAA-TTTTTGAGATTATTAAA
* * ** * *
27493330 GGCGTGTTCTAGTGAAAAACGCCTTTAATGTTTCACTACTCAAATTTTAAAATGGTTAGTGAAGG
65 -GCGTCTTCCAGTGAAAAATACCTTTAATATTTCACAACTCAAATTTTAAAATGGTTAGTGAAGG
* *
27493395 CGTTTATTCTAGAAGAATGCCTTCACTAAT
129 CGTTTATTCTAGAAAAATACCTTCACTAAT
27493425 AATTTTTGTA
Statistics
Matches: 766, Mismatches: 105, Indels: 63
0.82 0.11 0.07
Matches are distributed among these distances:
368 1 0.00
369 3 0.00
370 187 0.24
371 326 0.43
372 236 0.31
373 13 0.02
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (369 bp):
TGAAGGCATTTTTTGAAAACAAATGCCTTTAATAATTTTTTTTAAAATTTTTGAGATTATTAAAG
CGTCTTCCAGTGAAAAATACCTTTAATATTTCACAACTCAAATTTTAAAATGGTTAGTGAAGGCG
TTTATTCTAGAAAAATACCTTCACTAATTCCTTCTAATTTACGTACATAATTATTGAAGGTTTTT
TTTAGAACAAATCGCCTTCAATAATTTTTTCTTAAAATTTTTGAGATTATTAAAGATGTTTTCAG
TGAAAAACGCCTTCAATTTTCTACAACTCAAATTTTAAGACGTTTAGTGAAAGCGTTTATTCTAG
AAAAATGCCTTCACTAATTCCTTCTAATTTACGTACATAATTAT
Found at i:27494113 original size:25 final size:25
Alignment explanation
Indices: 27494083--27494136 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
27494073 TATTGGTATG
*
27494083 CTGAATCATATGTCGAATGGTGTTT
1 CTGAATCATATATCGAATGGTGTTT
** * *
27494108 CTGAATGGTTTATTGAATGGTGTTT
1 CTGAATCATATATCGAATGGTGTTT
27494133 CTGA
1 CTGA
27494137 GTGATTTGGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.09, G:0.26, T:0.43
Consensus pattern (25 bp):
CTGAATCATATATCGAATGGTGTTT
Found at i:27494115 original size:13 final size:13
Alignment explanation
Indices: 27494097--27494136 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
27494087 ATCATATGTC
27494097 GAATGGTGTTTCT
1 GAATGGTGTTTCT
27494110 GAATGGT-TTAT-T
1 GAATGGTGTT-TCT
27494122 GAATGGTGTTTCT
1 GAATGGTGTTTCT
27494135 GA
1 GA
27494137 GTGATTTGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
12 11 0.46
13 13 0.54
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (13 bp):
GAATGGTGTTTCT
Found at i:27494149 original size:25 final size:25
Alignment explanation
Indices: 27494097--27494149 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
27494087 ATCATATGTC
* *
27494097 GAATGGTGTTTCTGAATGGTTTATT
1 GAATGGTGTTTCTGAATGATTTAGT
* *
27494122 GAATGGTGTTTCTGAGTGATTTGGT
1 GAATGGTGTTTCTGAATGATTTAGT
27494147 GAA
1 GAA
27494150 ATGTGTCTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.21, C:0.04, G:0.32, T:0.43
Consensus pattern (25 bp):
GAATGGTGTTTCTGAATGATTTAGT
Found at i:27498789 original size:42 final size:42
Alignment explanation
Indices: 27498743--27498836 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 42
27498733 ATTATTCAAG
* *
27498743 ATATTTTAATAAA-AA-AATGCTACTAATATTAAAT-TTTGGATA
1 ATATTTTAATAAATAATAATACTA-TAAT-TTAAATATTT-AATA
*
27498785 ATA-TTT-ATAAATAATAATACTATTATTTAAATATTTAATA
1 ATATTTTAATAAATAATAATACTATAATTTAAATATTTAATA
27498825 ATATTTTAATAA
1 ATATTTTAATAA
27498837 TAAACATCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
40 17 0.39
41 14 0.32
42 13 0.30
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.45
Consensus pattern (42 bp):
ATATTTTAATAAATAATAATACTATAATTTAAATATTTAATA
Found at i:27499522 original size:97 final size:98
Alignment explanation
Indices: 27499333--27499522 Score: 328
Period size: 97 Copynumber: 1.9 Consensus size: 98
27499323 ACAAACATCC
*
27499333 ACAACACAACAGCACGCTGAAAGAGACCCTTAAGGACAACGTGCCCTTCCAAAGGACACATTAGC
1 ACAACACAACAGCACGCGGAAAGAGACCCTTAAGGACAACGTGCCCTTCCAAAGGACACATTAGC
27499398 TCTCACCGCCAAACCTTCTCAAATTTACTTTGT
66 TCTCACCGCCAAACCTTCTCAAATTTACTTTGT
* * *
27499431 ACAACACAACAGCACGCGGAAAGAGACCCTTAAGGACTACGTGGCC-TCCCAAGGACACATTAGC
1 ACAACACAACAGCACGCGGAAAGAGACCCTTAAGGACAACGTGCCCTTCCAAAGGACACATTAGC
*
27499495 TCTCACCGCCGAACCTTCTCAAATTTAC
66 TCTCACCGCCAAACCTTCTCAAATTTAC
27499523 CTGCCCTTAA
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
97 44 0.51
98 43 0.49
ACGTcount: A:0.33, C:0.33, G:0.16, T:0.18
Consensus pattern (98 bp):
ACAACACAACAGCACGCGGAAAGAGACCCTTAAGGACAACGTGCCCTTCCAAAGGACACATTAGC
TCTCACCGCCAAACCTTCTCAAATTTACTTTGT
Found at i:27501478 original size:19 final size:19
Alignment explanation
Indices: 27501454--27501493 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
27501444 GCTTCCAGGG
27501454 ACACCATTTCATTTCAGAC
1 ACACCATTTCATTTCAGAC
27501473 ACACCATTTCATTTCAGAC
1 ACACCATTTCATTTCAGAC
27501492 AC
1 AC
27501494 TAGCTAGCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.33, C:0.33, G:0.05, T:0.30
Consensus pattern (19 bp):
ACACCATTTCATTTCAGAC
Found at i:27503221 original size:16 final size:16
Alignment explanation
Indices: 27503202--27503233 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27503192 TATTATTTAT
27503202 TTATTAATTTAAAATA
1 TTATTAATTTAAAATA
*
27503218 TTATTGATTTAAAATA
1 TTATTAATTTAAAATA
27503234 AATATATTTG
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:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
TTATTAATTTAAAATA
Found at i:27503564 original size:2 final size:2
Alignment explanation
Indices: 27503557--27503586 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
27503547 ACAGATATGC
27503557 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
27503587 TGTATGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27503742 original size:18 final size:18
Alignment explanation
Indices: 27503719--27503756 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
27503709 CACACTTAAA
27503719 ATACTCTTTT-GATATTTT
1 ATACTCTTTTAG-TATTTT
27503737 ATACTCTTTTAGTATTTT
1 ATACTCTTTTAGTATTTT
27503755 AT
1 AT
27503757 GTGTAGCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.24, C:0.11, G:0.05, T:0.61
Consensus pattern (18 bp):
ATACTCTTTTAGTATTTT
Found at i:27504032 original size:17 final size:18
Alignment explanation
Indices: 27504010--27504044 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
27504000 TTATTTTTAT
*
27504010 TTAAAATTAATA-AAAAA
1 TTAAAAATAATATAAAAA
27504027 TTAAAAATAATATAAAAA
1 TTAAAAATAATATAAAAA
27504045 CATTAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAATAATATAAAAA
Found at i:27504053 original size:19 final size:17
Alignment explanation
Indices: 27504010--27504054 Score: 54
Period size: 19 Copynumber: 2.5 Consensus size: 17
27504000 TTATTTTTAT
*
27504010 TTAAAATTAATAAAAAA
1 TTAAAATAAATAAAAAA
27504027 TTAAAAATAATATAAAAACA
1 TT-AAAATAA-ATAAAAA-A
27504047 TTAAAATA
1 TTAAAATA
27504055 CATTATTTTC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 2 0.08
18 6 0.25
19 13 0.54
20 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (17 bp):
TTAAAATAAATAAAAAA
Found at i:27504449 original size:19 final size:21
Alignment explanation
Indices: 27504425--27504469 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
27504415 TAATTTTATA
27504425 TTTATA-TT-AAAAATAATAT
1 TTTATATTTAAAAAATAATAT
27504444 TTTATATTTAAAAAATAATAT
1 TTTATATTTAAAAAATAATAT
*
27504465 GTTAT
1 TTTAT
27504470 TAATATATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 2 0.09
21 15 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTATATTTAAAAAATAATAT
Found at i:27511558 original size:15 final size:15
Alignment explanation
Indices: 27511521--27511563 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
27511511 AGAGAAATTG
*
27511521 AAATAA-AAATATATA
1 AAATAATAAAT-TTTA
*
27511536 AAAAAATAAATTTTA
1 AAATAATAAATTTTA
27511551 AAATAATAAATTT
1 AAATAATAAATTT
27511564 GTTAGACAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 20 0.83
16 4 0.17
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATAATAAATTTTA
Found at i:27516097 original size:2 final size:2
Alignment explanation
Indices: 27516090--27516116 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27516080 TGTTCAGTAC
27516090 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
27516117 TATCACTTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:27530537 original size:32 final size:32
Alignment explanation
Indices: 27530501--27530569 Score: 86
Period size: 32 Copynumber: 2.2 Consensus size: 32
27530491 TTTTGCCATA
*
27530501 TTCATCTACT-CTTAATCTTTTTATCATTTAGT
1 TTCATCTACTAATT-ATCTTTTTATCATTTAGT
* **
27530533 TTCATGTTTTAATTATCTTTTTATCATTTAGT
1 TTCATCTACTAATTATCTTTTTATCATTTAGT
27530565 TTCAT
1 TTCAT
27530570 GTTTTAATTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 30 0.94
33 2 0.06
ACGTcount: A:0.22, C:0.14, G:0.04, T:0.59
Consensus pattern (32 bp):
TTCATCTACTAATTATCTTTTTATCATTTAGT
Found at i:27530570 original size:32 final size:32
Alignment explanation
Indices: 27530515--27530579 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
27530505 TCTACTCTTA
27530515 ATCTTTTTATCATTTAGTTTCATGTTTTAATT
1 ATCTTTTTATCATTTAGTTTCATGTTTTAATT
27530547 ATCTTTTTATCATTTAGTTTCATGTTTTAATT
1 ATCTTTTTATCATTTAGTTTCATGTTTTAATT
27530579 A
1 A
27530580 ATATCCTTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.23, C:0.09, G:0.06, T:0.62
Consensus pattern (32 bp):
ATCTTTTTATCATTTAGTTTCATGTTTTAATT
Found at i:27533101 original size:92 final size:92
Alignment explanation
Indices: 27532939--27533110 Score: 265
Period size: 92 Copynumber: 1.9 Consensus size: 92
27532929 GAGTTTACGA
* * *
27532939 TCATATCAATATTTTTAAAGATAAAAAATTAACAAAATTAATTATTGAATTAAAGTTACTGAATT
1 TCATATCAATATTTTTAAAGATAAAAAATTAACAAAATTAATAATTGAATTAAAATTACTAAATT
*
27533004 GAAATAATATAATAACTAGATTTATGG
66 AAAATAATATAATAACTAGATTTATGG
* * *
27533031 TCATGTCAATATTTTTAATGATAAAAAATTAATAAAATTAATAATTGAATTAAAATTA-TCAAAT
1 TCATATCAATATTTTTAAAGATAAAAAATTAACAAAATTAATAATTGAATTAAAATTACT-AAAT
27533095 TAAAATAATATAATAA
65 TAAAATAATATAATAA
27533111 TTAAATTTGT
Statistics
Matches: 72, Mismatches: 7, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
91 1 0.01
92 71 0.99
ACGTcount: A:0.52, C:0.05, G:0.06, T:0.37
Consensus pattern (92 bp):
TCATATCAATATTTTTAAAGATAAAAAATTAACAAAATTAATAATTGAATTAAAATTACTAAATT
AAAATAATATAATAACTAGATTTATGG
Found at i:27538758 original size:2 final size:2
Alignment explanation
Indices: 27538751--27538779 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
27538741 GATAAACAGC
27538751 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 T
27538780 TCAATTTCTA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:27544185 original size:22 final size:22
Alignment explanation
Indices: 27544160--27544201 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27544150 TTGTCTATCC
**
27544160 TAATTTTAGGGATACAAATACT
1 TAATTTTAAAGATACAAATACT
27544182 TAATTTTAAAGATACAAATA
1 TAATTTTAAAGATACAAATA
27544202 TAAATATACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.48, C:0.07, G:0.10, T:0.36
Consensus pattern (22 bp):
TAATTTTAAAGATACAAATACT
Found at i:27548145 original size:22 final size:22
Alignment explanation
Indices: 27548120--27548161 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
27548110 TTATCTATCC
* *
27548120 TAATTTTAAGGATACAAATACT
1 TAATTCTAAAGATACAAATACT
27548142 TAATTCTAAAGATACAAATA
1 TAATTCTAAAGATACAAATA
27548162 TAAATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (22 bp):
TAATTCTAAAGATACAAATACT
Done.