Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008482.1 Hibiscus syriacus cultivar Beakdansim tig00111314_pilon, 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: 206108
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:1272 original size:7 final size:7
Alignment explanation
Indices: 1260--1284 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1250 GAAAGTTAAT
1260 AAATTTA
1 AAATTTA
1267 AAATTTA
1 AAATTTA
1274 AAATTTA
1 AAATTTA
1281 AAAT
1 AAAT
1285 ATCCAATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (7 bp):
AAATTTA
Found at i:2749 original size:14 final size:14
Alignment explanation
Indices: 2721--2765 Score: 72
Period size: 14 Copynumber: 3.1 Consensus size: 14
2711 TGGACAATTA
2721 AAATAAAAATAAAAT
1 AAATAAAAAT-AAAT
*
2736 TAATAAAAATAAAT
1 AAATAAAAATAAAT
2750 AAATAAAAATAAAT
1 AAATAAAAATAAAT
2764 AA
1 AA
2766 CAACGATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
14 19 0.68
15 9 0.32
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (14 bp):
AAATAAAAATAAAT
Found at i:2988 original size:33 final size:33
Alignment explanation
Indices: 2929--3049 Score: 97
Period size: 35 Copynumber: 3.6 Consensus size: 33
2919 AAATGATTTC
* *
2929 AAAACTAT-ATAATATATGTTTCAAAATGTTTCTTT
1 AAAACTATAAT-ATTTAT-TTTAAAAATGTTT-TTT
* *
2964 TAAA-TATTATATTTATTTTAAAAATGTTTTTT
1 AAAACTATAATATTTATTTTAAAAATGTTTTTT
* * *
2996 AAAACCGTATAATATTTTTTTTAAAAACG-TTTTA
1 AAAA-C-TATAATATTTATTTTAAAAATGTTTTTT
3030 AAAACTAT-ATATTATATTTT
1 AAAACTATAATATT-TATTTT
3050 TTCAAAGTGT
Statistics
Matches: 72, Mismatches: 9, Indels: 13
0.77 0.10 0.14
Matches are distributed among these distances:
31 5 0.07
32 14 0.19
33 13 0.18
34 16 0.22
35 24 0.33
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (33 bp):
AAAACTATAATATTTATTTTAAAAATGTTTTTT
Found at i:3050 original size:33 final size:33
Alignment explanation
Indices: 2891--3116 Score: 121
Period size: 33 Copynumber: 6.7 Consensus size: 33
2881 AAAATGTTTT
2891 TTTTAAAAACTATATATTATAAGTTTTT--AAATG
1 TTTTAAAAACTATATATTAT-A-TTTTTAAAAATG
* * * * *
2924 ATTTCAAAACTATATAATATATGTTTCAAAATG
1 TTTTAAAAACTATATATTATATTTTTAAAAATG
**
2957 TTTCTTTTAAA-TATTATATT-TA-TTTTAAAAATG
1 -TT-TTAAAAACTA-TATATTATATTTTTAAAAATG
* *
2990 TTTTTTAAAACCGTATAATATT-T-TTTTTAAAAACG
1 --TTTTAAAAAC-TAT-ATATTATATTTTTAAAAATG
**
3025 TTTTAAAAACTATATATTATATTTTTTCAAA-G
1 TTTTAAAAACTATATATTATATTTTTAAAAATG
*
3057 TGTTT-AAAACTATATAATATATAAATGTTTTAAATATG
1 T-TTTAAAAACTATAT-AT-TAT--AT-TTTTAAAAATG
*
3095 TTTTCAAAA-TATTATATTATAT
1 TTTTAAAAACTA-TATATTATAT
3117 ATATATATAT
Statistics
Matches: 152, Mismatches: 20, Indels: 41
0.71 0.09 0.19
Matches are distributed among these distances:
31 9 0.06
32 17 0.11
33 57 0.38
34 14 0.09
35 28 0.18
36 5 0.03
37 13 0.09
38 9 0.06
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (33 bp):
TTTTAAAAACTATATATTATATTTTTAAAAATG
Found at i:3050 original size:34 final size:32
Alignment explanation
Indices: 2891--3078 Score: 100
Period size: 32 Copynumber: 5.7 Consensus size: 32
2881 AAAATGTTTT
* * *
2891 TTTTAAAAACTATATATTATAAGTTTTT-AAATG
1 TTTT-AAAACTATATAATAT-ATTTTTTAAAAAG
* * * *
2924 ATTTCAAAACTATATAATATATGTTTCAAAATG
1 -TTTTAAAACTATATAATATATTTTTTAAAAAG
*
2957 TTTCTTTTAAA-TAT-T-ATAT-TTATTTTAAAAATG
1 --T-TTTAAAACTATATAATATATT-TTTTAAAAA-G
** *
2990 TTTTTTAAAACCGTATAATATTTTTTTTAAAAACG
1 --TTTTAAAACTATATAATATATTTTTTAAAAA-G
* *
3025 TTTTAAAAACTATATATTATATTTTTT-CAAAG
1 TTTT-AAAACTATATAATATATTTTTTAAAAAG
3057 TGTTTAAAACTATATAATATAT
1 T-TTTAAAACTATATAATATAT
3079 AAATGTTTTA
Statistics
Matches: 122, Mismatches: 21, Indels: 24
0.73 0.13 0.14
Matches are distributed among these distances:
31 1 0.01
32 39 0.32
33 35 0.29
34 26 0.21
35 19 0.16
36 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (32 bp):
TTTTAAAACTATATAATATATTTTTTAAAAAG
Found at i:3050 original size:35 final size:36
Alignment explanation
Indices: 2967--3051 Score: 102
Period size: 34 Copynumber: 2.4 Consensus size: 36
2957 TTTCTTTTAA
* * *
2967 ATATTATATTTATTTTAAAAATGTTTTTTAAAACCGT
1 ATATTATATTT-TTTTAAAAACGTTTTTAAAAACCAT
* *
3004 ATAATAT-TTTTTTTAAAAACG-TTTTAAAAACTAT
1 ATATTATATTTTTTTAAAAACGTTTTTAAAAACCAT
3038 ATATTATATTTTTT
1 ATATTATATTTTTT
3052 CAAAGTGTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
34 16 0.39
35 16 0.39
36 3 0.07
37 6 0.15
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.53
Consensus pattern (36 bp):
ATATTATATTTTTTTAAAAACGTTTTTAAAAACCAT
Found at i:3119 original size:2 final size:2
Alignment explanation
Indices: 3103--3167 Score: 116
Period size: 2 Copynumber: 33.5 Consensus size: 2
3093 TGTTTTCAAA
3103 AT AT -T AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
3143 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
3168 ATGAGACGAA
Statistics
Matches: 61, Mismatches: 0, Indels: 4
0.94 0.00 0.06
Matches are distributed among these distances:
1 2 0.03
2 59 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:11404 original size:2 final size:2
Alignment explanation
Indices: 11397--11443 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
11387 ATCTTAACGT
11397 TA TA TA TA 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 TA
11439 TA TA T
1 TA TA T
11444 GTGTGTGTGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11866 original size:2 final size:2
Alignment explanation
Indices: 11861--11890 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11851 TTTAAATTTA
11861 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
11891 TAAAAAGAAA
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:12151 original size:29 final size:30
Alignment explanation
Indices: 12111--12175 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
12101 TCGACATAGG
* * *
12111 TTTAGGGGTTGAAATGAATGTTTTT-AAGT
1 TTTAGGGATTGAAATAAAAGTTTTTAAAGT
12140 TTTAGGGATTGAAATAAAAGTTTTTAAAGT
1 TTTAGGGATTGAAATAAAAGTTTTTAAAGT
12170 TTTAGG
1 TTTAGG
12176 TTTATTTCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 22 0.69
30 10 0.31
ACGTcount: A:0.32, C:0.00, G:0.25, T:0.43
Consensus pattern (30 bp):
TTTAGGGATTGAAATAAAAGTTTTTAAAGT
Found at i:12676 original size:31 final size:32
Alignment explanation
Indices: 12641--12706 Score: 89
Period size: 32 Copynumber: 2.1 Consensus size: 32
12631 TAAACAATAT
*
12641 ATTTTTTATAT-TAATACAAAATAATAATTAA
1 ATTTTATATATGTAATACAAAATAATAATTAA
* * *
12672 ATTTTATATATGTATTATAAAATTATAATTAA
1 ATTTTATATATGTAATACAAAATAATAATTAA
12704 ATT
1 ATT
12707 AATTGAACCT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 10 0.33
32 20 0.67
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (32 bp):
ATTTTATATATGTAATACAAAATAATAATTAA
Found at i:12793 original size:43 final size:43
Alignment explanation
Indices: 12721--12809 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
12711 GAACCTTTAC
*
12721 TTATTATAATGATTAATGATCATTCTATAACAATTT-ATAATA
1 TTATTATAATGATCAATGATCATTCTATAACAATTTAATAATA
*
12763 TTATTATAATGATGCAATGATCATTTTATAACAATTTAATAATA
1 TTATTATAATGAT-CAATGATCATTCTATAACAATTTAATAATA
12807 TTA
1 TTA
12810 ATAATTTTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 13 0.30
43 21 0.49
44 9 0.21
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.45
Consensus pattern (43 bp):
TTATTATAATGATCAATGATCATTCTATAACAATTTAATAATA
Found at i:22538 original size:21 final size:22
Alignment explanation
Indices: 22513--22564 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
22503 ACACTTTACA
*
22513 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
22536 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
22559 ATATAA
1 ATATAA
22565 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:22549 original size:23 final size:23
Alignment explanation
Indices: 22523--22585 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
22513 ATATAACCAC
22523 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
22546 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
22569 TACCTATTACATCATAT
1 TACCTATTACATTATAT
22586 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:22626 original size:21 final size:21
Alignment explanation
Indices: 22601--22646 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
22591 CCTATTATAT
22601 TAAAAGTG-TCCATACTTTTTA
1 TAAAAG-GATCCATACTTTTTA
* *
22622 TAAAAGGATCGATACTTTTTT
1 TAAAAGGATCCATACTTTTTA
22643 TAAA
1 TAAA
22647 CTTATGTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.41
Consensus pattern (21 bp):
TAAAAGGATCCATACTTTTTA
Found at i:23036 original size:39 final size:39
Alignment explanation
Indices: 22982--23068 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
22972 TCAAGTTGTA
*
22982 GATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
*
23021 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTG
1 GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
23060 GATTTTGAT
1 GATTTTGAT
23069 GAGCATCGGA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
39 46 1.00
ACGTcount: A:0.17, C:0.14, G:0.21, T:0.48
Consensus pattern (39 bp):
GATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTG
Found at i:23348 original size:18 final size:18
Alignment explanation
Indices: 23325--23361 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23315 GCCGAAATAT
23325 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
23343 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
23361 A
1 A
23362 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:23637 original size:25 final size:25
Alignment explanation
Indices: 23609--23659 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
23599 TTAATCCAAA
*
23609 TAATGTACCCATAACAATGTTCAAT
1 TAATGTACCCACAACAATGTTCAAT
*
23634 TAATGTACCCACAACAATGTTTAAT
1 TAATGTACCCACAACAATGTTCAAT
23659 T
1 T
23660 GATTTGTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.20, G:0.08, T:0.33
Consensus pattern (25 bp):
TAATGTACCCACAACAATGTTCAAT
Found at i:23949 original size:21 final size:20
Alignment explanation
Indices: 23932--23989 Score: 62
Period size: 23 Copynumber: 2.7 Consensus size: 20
23922 CAATATAACC
23932 ACTACCTATTACATTATATAA
1 ACTACCTATTACATTATA-AA
*
23953 ACGATACCTATTACATTATAAGG
1 AC--TACCTATTACATTATAA-A
*
23976 GCTACCTATTACAT
1 ACTACCTATTACAT
23990 CATATGTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 14 0.44
22 1 0.03
23 17 0.53
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.34
Consensus pattern (20 bp):
ACTACCTATTACATTATAAA
Found at i:24333 original size:20 final size:20
Alignment explanation
Indices: 24308--24346 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24298 TCCACAGTGA
* *
24308 AAAAAGTATGGACACTTTAT
1 AAAAAGGATAGACACTTTAT
24328 AAAAAGGATAGACACTTTA
1 AAAAAGGATAGACACTTTA
24347 CAATATAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.10, G:0.15, T:0.26
Consensus pattern (20 bp):
AAAAAGGATAGACACTTTAT
Found at i:24374 original size:21 final size:22
Alignment explanation
Indices: 24349--24400 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 22
24339 ACACTTTACA
*
24349 ATATAACCACTACCTATTACATT
1 ATATAAACA-TACCTATTACATT
24372 ATATAAACGATACCTATTACATT
1 ATATAAAC-ATACCTATTACATT
24395 ATATAA
1 ATATAA
24401 GGGCTACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 26 0.96
24 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.02, T:0.35
Consensus pattern (22 bp):
ATATAAACATACCTATTACATT
Found at i:24385 original size:23 final size:23
Alignment explanation
Indices: 24359--24421 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
24349 ATATAACCAC
24359 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
** *
24382 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGA
*
24405 TACCTATTACATCATAT
1 TACCTATTACATTATAT
24422 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:24514 original size:425 final size:425
Alignment explanation
Indices: 23691--24518 Score: 1506
Period size: 426 Copynumber: 1.9 Consensus size: 425
23681 TTTGAATTAT
23691 TTGATTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATT
1 TTGATTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATT
* *
23756 AGAATTTTAATTTAATAATAATATATATCGTAACGTAAAAATAAATCATTATACGCCTATAATTA
66 AGAATTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTA
23821 CTAAATTAATATATTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
131 CTAAATTAATATATTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
23886 AGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT
196 AGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT
23951 AAACGATACCTATTACATTATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
261 AAACGATACCTATTACATTATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
*
24016 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAAGTTATGTAATTTATGTTTCAATT
326 TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATT
24081 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
391 TTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
* *
24116 TTGATTTAATAATTTCATTTGCAC-AAAAATTATTTGATTGTTTTTATA-TTTATAAAATATTAT
1 TTGA-TTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATA-
24179 TTAGAATTTTTAATTTAATAATAATATATACCGTAACGTAAAAA-ATAATCATTAGACGCCTATA
64 TTAGAA-TTTTAATTTAATAATAATATATACCGTAACGTAAAAATA-AATCATTAGACGCCTATA
*
24243 ATTACTAAATTAATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
127 ATTACTAAATTAATATATTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGA
24308 AAAAAGTATGGACAC-TTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
192 AAAAAGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATT
24372 ATATAAACGATACCTATTACATTATATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
257 ATATAAACGATACCTATTACA-T-TATAAGGGCTACCTATTACATCATATGTTTACCTATTATAT
24437 TGAAAGTGTCCATAC-TTTTATAAAAAGGATCGATAC-TTTTTTAAAACTTATGTAATTTATGTT
320 TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTT
24500 TCAATTTTTTTAACAGTGT
385 TCAATTTTTTTAACAGTGT
24519 ACTGCGAATT
Statistics
Matches: 391, Mismatches: 6, Indels: 12
0.96 0.01 0.03
Matches are distributed among these distances:
424 13 0.03
425 149 0.38
426 173 0.44
427 56 0.14
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.39
Consensus pattern (425 bp):
TTGATTAATAATTTCATTTGCACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATAATATT
AGAATTTTAATTTAATAATAATATATACCGTAACGTAAAAATAAATCATTAGACGCCTATAATTA
CTAAATTAATATATTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAA
AGTATGGACACTTTTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATAT
AAACGATACCTATTACATTATAAGGGCTACCTATTACATCATATGTTTACCTATTATATTGAAAG
TGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATGTAATTTATGTTTCAATT
TTTTTAACAGTGTTTCATGTTTTCCACCTACAATA
Found at i:28112 original size:3 final size:3
Alignment explanation
Indices: 28104--28183 Score: 72
Period size: 3 Copynumber: 27.0 Consensus size: 3
28094 ACTTGTTTGG
* * * **
28104 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * *
28152 AGC TTC ATC GTC ATC ATC ATC GTC ATC -TC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
28184 GTCAGCTTCA
Statistics
Matches: 59, Mismatches: 17, Indels: 2
0.76 0.22 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.24, C:0.35, G:0.06, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:28121 original size:12 final size:12
Alignment explanation
Indices: 28104--28187 Score: 89
Period size: 12 Copynumber: 7.1 Consensus size: 12
28094 ACTTGTTTGG
*
28104 ATCATCATCTTC
1 ATCATCATCGTC
*
28116 ATCATCATCATC
1 ATCATCATCGTC
* *
28128 ATCATCGTCATC
1 ATCATCATCGTC
* *
28140 ATCTTCATCGCC
1 ATCATCATCGTC
* *
28152 AGCTTCATCGTC
1 ATCATCATCGTC
28164 ATCATCATCGTC
1 ATCATCATCGTC
28176 ATC-TCATCGTC
1 ATCATCATCGTC
28187 A
1 A
28188 GCTTCATCTT
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
11 9 0.15
12 53 0.85
ACGTcount: A:0.24, C:0.35, G:0.07, T:0.35
Consensus pattern (12 bp):
ATCATCATCGTC
Found at i:28194 original size:12 final size:12
Alignment explanation
Indices: 28142--28195 Score: 65
Period size: 12 Copynumber: 4.6 Consensus size: 12
28132 TCGTCATCAT
*
28142 CTTCATCGCCAG
1 CTTCATCGTCAG
*
28154 CTTCATCGTCAT
1 CTTCATCGTCAG
* *
28166 CATCATCGTCAT
1 CTTCATCGTCAG
28178 C-TCATCGTCAG
1 CTTCATCGTCAG
28189 CTTCATC
1 CTTCATC
28196 TTCTGCGACC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.27
12 27 0.73
ACGTcount: A:0.19, C:0.37, G:0.11, T:0.33
Consensus pattern (12 bp):
CTTCATCGTCAG
Found at i:30058 original size:198 final size:199
Alignment explanation
Indices: 29646--31601 Score: 3528
Period size: 198 Copynumber: 9.9 Consensus size: 199
29636 TTTAAATTAG
29646 TATCGACACAAAC--TA-TAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
29707 ATTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT-GGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
29771 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
29835 AAAA
196 AAAA
29839 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
29904 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
29968 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGGAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
30033 AAAA
196 AAAA
30037 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
30102 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
30167 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT-GGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
30231 AAAA
196 AAAA
* *
30235 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCCCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
30300 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
30365 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTT-AATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAA
30429 AAAAA
195 AAAAA
30434 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
30499 ATTGTACCGGTTACATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
30563 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
30627 AAAA
196 AAAA
30631 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
30696 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
30761 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT-GGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
30825 AAAA
196 AAAA
*
30829 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
30893 ATTGTACCGGTTCGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
** *
30958 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAA
31023 AAAAA
195 AAAAA
31028 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
31093 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
** *
31158 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
31222 AAAA
196 AAAA
*
31226 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACACATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
31291 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
31356 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCT-GGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
31420 AAAA
196 AAAA
* *
31424 TATCGACACAAACTATATTAGTGTCGACACATGATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
31489 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
* *
31554 TTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
130 TCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
31602 GGCCATATTG
Statistics
Matches: 1706, Mismatches: 39, Indels: 29
0.96 0.02 0.02
Matches are distributed among these distances:
193 13 0.01
195 2 0.00
196 79 0.05
197 328 0.19
198 736 0.43
199 408 0.24
200 140 0.08
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
AAAA
Found at i:30484 original size:397 final size:397
Alignment explanation
Indices: 29646--31601 Score: 3533
Period size: 397 Copynumber: 4.9 Consensus size: 397
29636 TTTAAATTAG
29646 TATCGACACAAAC--TA-TAGTGTCGACACATTATTTAGACATATTCTCTCAT-AAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
29707 ATTGTACTGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT-GGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
29771 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT-GGAAA
29835 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
29900 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTG
260 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
*
29964 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGG
**
30029 GGAAAAAA
390 AAAAAAAA
30037 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
30102 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
30167 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
* *
30232 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATCCCCTCATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
*
30297 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTTG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTG
30362 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTT-AATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGG
30426 AAAAAAAA
390 AAAAAAAA
30434 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
*
30499 ATTGTACCGGTTACATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
30563 CGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCT-GGAAA
30627 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
195 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGG
30692 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
260 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
* *
30757 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG
325 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGG
30822 -AAAAAAA
390 AAAAAAAA
*
30829 TATCGACAC-AACTATATTAGTGTCGACACATTATTTAGACATATCCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
* *
30893 ATTGTACCGGTTCGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGATTTTGGGA
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTGGGA
**
30958 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAA
130 TCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGG-AA
31023 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
194 AAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCG
31088 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
259 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
31153 GGGATCGACAC-TTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
324 GGGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTG
31217 GAAAAAAAA
389 GAAAAAAAA
*
31226 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACACATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
31291 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
31356 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
* *
31421 AAATATCGACACAAACTATATTAGTGTCGACACATGATTTAGACATATCCTCTCATAAAACCGGT
196 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
* *
31486 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTTTCGATGTTTTTG
261 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-GTTCGATGATTTTG
* *
31551 GGATTGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTT
325 GGATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTT
31602 GGCCATATTG
Statistics
Matches: 1509, Mismatches: 37, Indels: 30
0.96 0.02 0.02
Matches are distributed among these distances:
391 13 0.01
393 2 0.00
394 134 0.09
395 209 0.14
396 457 0.30
397 501 0.33
398 155 0.10
399 38 0.03
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (397 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCCATTCATTCTGGAAAA
AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGT
ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTCAATTCATTCTGGA
AAAAAAA
Found at i:31766 original size:19 final size:19
Alignment explanation
Indices: 31720--31768 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
31710 TTATATTCAC
*
31720 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
31739 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
31758 ATACAAAATTA
1 ATACAAAATTA
31769 ACTCGACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:33598 original size:33 final size:33
Alignment explanation
Indices: 33561--33626 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
33551 CATCTTAATA
*
33561 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
33594 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
33627 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:35949 original size:17 final size:18
Alignment explanation
Indices: 35927--35969 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 18
35917 ATATATCCGG
35927 TATCATTT-TACCGGTTT
1 TATCATTTATACCGGTTT
35944 TATCATTTTGATACCGGTTT
1 TATCA-TTT-ATACCGGTTT
35964 TATCAT
1 TATCAT
35970 ATTTTTACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.22
18 3 0.13
19 1 0.04
20 14 0.61
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.51
Consensus pattern (18 bp):
TATCATTTATACCGGTTT
Found at i:36126 original size:20 final size:20
Alignment explanation
Indices: 36100--36145 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
36090 CACTTTTAAA
36100 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
36119 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
36140 TTTACC
1 TTTACC
36146 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:36606 original size:228 final size:227
Alignment explanation
Indices: 36204--36651 Score: 799
Period size: 228 Copynumber: 2.0 Consensus size: 227
36194 TTAAAACTGC
36204 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
1 TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
**
36269 TTAATTTAATAATTTAATTTACACAAAATTTTATTTGATTGTTTTGATATTTTATAAAATATTAT
66 TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
* *
36334 TTAGAATTTAAATTTAACAATATTAACCAAATATAATAATAAATATGTTTTCAACAGTGAAATAA
131 TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTC-ACAGTGAAATAA
*
36399 GTATGGACACTTTTATAAAAATGATATATATTT
195 GTATGGACACTTTTATAAAAAGGATATATATTT
36432 TTTTGAAAGTTATGTAATTTATGTTTCAATTT-TTTAATAGTGTTTCATGTTTTCCACCTACAAT
1 TTTT-AAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAAT
*
36496 ATTAATTTAATAATTTCATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
65 ATTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTA
* *
36561 TTTAGATTTTAAATTTAACAATATTAACTAAAGATAATAATAAATATATTTTCACAGTGAAATAA
130 TTTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAA
36626 GTATGGACACTTTTATAAAAAGGATA
195 GTATGGACACTTTTATAAAAAGGATA
36652 GATAATTTAC
Statistics
Matches: 211, Mismatches: 8, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
227 37 0.18
228 147 0.70
229 27 0.13
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (227 bp):
TTTTAAAGTTATGTAATTTATGTTTCAATTTATTTAATAGTGTTTCATGTTTTCCACCTACAATA
TTAATTTAATAATTTAATTTACACAAAAAATTATTTGATTGTTTTGATATTTTATAAAATATTAT
TTAGAATTTAAATTTAACAATATTAACCAAAGATAATAATAAATATATTTTCACAGTGAAATAAG
TATGGACACTTTTATAAAAAGGATATATATTT
Found at i:38073 original size:37 final size:36
Alignment explanation
Indices: 38032--38150 Score: 152
Period size: 35 Copynumber: 3.3 Consensus size: 36
38022 TTACAATCAA
* *
38032 CTTTGAAAAAATGGTTTTTAAATTTTAGTAAATGTTT
1 CTTTG-AAAAATGGTTTTTAAAGTTTGGTAAATGTTT
*
38069 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGGTTTTTAAAGTTTGGTAAATGTTT
* *
38104 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATGGTTTTT-AAAGTTTGGTAAATGTTT
*
38141 -GTTGAAAAAT
1 CTTTGAAAAAT
38151 TGTAATGGGA
Statistics
Matches: 73, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
35 32 0.44
36 19 0.26
37 22 0.30
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGGTTTTTAAAGTTTGGTAAATGTTT
Found at i:38146 original size:36 final size:36
Alignment explanation
Indices: 38032--38150 Score: 145
Period size: 37 Copynumber: 3.3 Consensus size: 36
38022 TTACAATCAA
* *
38032 CTTTGAAAAAATGGTTTTT-AAATTTTAGTAAATGTTT
1 CTTTG-AAAAAT-GTTTTTCAAAGTTTGGTAAATGTTT
*
38069 CTTTG-AAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
*
38104 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAAT-GTTTTTCAAAGTTTGGTAAATGTTT
*
38141 -GTTGAAAAAT
1 CTTTGAAAAAT
38151 TGTAATGGGA
Statistics
Matches: 73, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
34 5 0.07
35 26 0.36
36 14 0.19
37 28 0.38
ACGTcount: A:0.33, C:0.04, G:0.18, T:0.45
Consensus pattern (36 bp):
CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTT
Found at i:39503 original size:20 final size:20
Alignment explanation
Indices: 39478--39517 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
39468 GACCGTTAAA
39478 TAGGGGGAATCGGTACCCTC
1 TAGGGGGAATCGGTACCCTC
*
39498 TAGGGGGAATCGGTTCCCTC
1 TAGGGGGAATCGGTACCCTC
39518 CGAGCATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.17, C:0.25, G:0.35, T:0.23
Consensus pattern (20 bp):
TAGGGGGAATCGGTACCCTC
Found at i:43741 original size:36 final size:35
Alignment explanation
Indices: 43694--43761 Score: 109
Period size: 36 Copynumber: 1.9 Consensus size: 35
43684 GAAAAAATGG
*
43694 TTTTCAAAGTTTGGTAAATGTTTCTTTGAAAATAGT
1 TTTTCAAAGTTTGGTAAATGTTT-GTTGAAAATAGT
*
43730 TTTTCAAAGTTTGGTAGATGTTTGTTGAAAAT
1 TTTTCAAAGTTTGGTAAATGTTTGTTGAAAAT
43762 TTGTAATGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 8 0.27
36 22 0.73
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.47
Consensus pattern (35 bp):
TTTTCAAAGTTTGGTAAATGTTTGTTGAAAATAGT
Found at i:45059 original size:37 final size:37
Alignment explanation
Indices: 45017--45091 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
45007 ATTGTATCTC
45017 TCATAACTCATATACGTCTCAAAATACGAATTAAATA
1 TCATAACTCATATACGTCTCAAAATACGAATTAAATA
*
45054 TCATAACTCATATACGTCTCAAAATACGAGTTAAATA
1 TCATAACTCATATACGTCTCAAAATACGAATTAAATA
45091 T
1 T
45092 GTCACGTCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.44, C:0.19, G:0.07, T:0.31
Consensus pattern (37 bp):
TCATAACTCATATACGTCTCAAAATACGAATTAAATA
Found at i:46903 original size:20 final size:20
Alignment explanation
Indices: 46878--46916 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
46868 TTCAAAATAG
*
46878 TCAAATTTCACATTCTAACA
1 TCAAATTTAACATTCTAACA
*
46898 TCAAATTTAATATTCTAAC
1 TCAAATTTAACATTCTAAC
46917 TTTCAATTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (20 bp):
TCAAATTTAACATTCTAACA
Found at i:52493 original size:2 final size:2
Alignment explanation
Indices: 52486--52530 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
52476 TTTTACAATG
52486 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52528 AT A
1 AT A
52531 GTTCAAGAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:54155 original size:42 final size:42
Alignment explanation
Indices: 54108--54193 Score: 109
Period size: 42 Copynumber: 2.0 Consensus size: 42
54098 TACGCGGTCT
* *
54108 TTCGGGACATATATGTAATCCTTTAGAACATATATGTAGTCC
1 TTCGGGACACATATGTAATCATTTAGAACATATATGTAGTCC
* ** * *
54150 TTCGGGACACATATTTGGTCATTTGGAACATATATGTGGTCC
1 TTCGGGACACATATGTAATCATTTAGAACATATATGTAGTCC
54192 TT
1 TT
54194 ATAGACAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (42 bp):
TTCGGGACACATATGTAATCATTTAGAACATATATGTAGTCC
Found at i:54189 original size:21 final size:20
Alignment explanation
Indices: 54112--54233 Score: 82
Period size: 21 Copynumber: 5.8 Consensus size: 20
54102 CGGTCTTTCG
**
54112 GGACATATATGTAATCCTTT
1 GGACATATATGTGGTCCTTT
* * *
54132 AGAACATATATGTAGTCCTTCG
1 -GGACATATATGTGGTCCTT-T
* * *
54154 GGACACATATTTGGTCATTT
1 GGACATATATGTGGTCCTTT
54174 GGAACATATATGTGGTCCTTAT
1 GG-ACATATATGTGGTCCTT-T
* * *
54196 AGACAATTCTATGTGGTCATTT
1 GGAC-A-TATATGTGGTCCTTT
54218 AGGACATATATGTGGT
1 -GGACATATATGTGGT
54234 TCTTCAGGAT
Statistics
Matches: 78, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
20 2 0.03
21 56 0.72
22 5 0.06
23 15 0.19
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.37
Consensus pattern (20 bp):
GGACATATATGTGGTCCTTT
Found at i:54267 original size:44 final size:44
Alignment explanation
Indices: 54166--54267 Score: 116
Period size: 44 Copynumber: 2.3 Consensus size: 44
54156 ACACATATTT
* * *
54166 GGTCATTTGGAACATATATGTGGTCCTTATAGACAATTCTATGT
1 GGTCATTTGGGACATATATGTGGTCCTTATAGACAATTCTACGA
* * * *
54210 GGTCATTTAGGACATATATGTGGTTCTTCA-GGATAATTCTACGA
1 GGTCATTTGGGACATATATGTGGTCCTT-ATAGACAATTCTACGA
*
54254 GGTCCTTTGGGACA
1 GGTCATTTGGGACA
54268 ATGTTATATG
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
44 47 0.98
45 1 0.02
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.36
Consensus pattern (44 bp):
GGTCATTTGGGACATATATGTGGTCCTTATAGACAATTCTACGA
Found at i:56017 original size:21 final size:21
Alignment explanation
Indices: 55991--56043 Score: 97
Period size: 21 Copynumber: 2.5 Consensus size: 21
55981 GTAAAATACG
55991 GTATGAACAGTGAACAGTATC
1 GTATGAACAGTGAACAGTATC
*
56012 GTATGAACAATGAACAGTATC
1 GTATGAACAGTGAACAGTATC
56033 GTATGAACAGT
1 GTATGAACAGT
56044 AGTGAATAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.25
Consensus pattern (21 bp):
GTATGAACAGTGAACAGTATC
Found at i:56904 original size:24 final size:24
Alignment explanation
Indices: 56877--56942 Score: 98
Period size: 24 Copynumber: 2.8 Consensus size: 24
56867 AGCTCGTATA
56877 AATTTGCACCGTAGTGCCACGTAG
1 AATTTGCACCGTAGTGCCACGTAG
* *
56901 AATTTGCACCGAAGTGCCGCGTAG
1 AATTTGCACCGTAGTGCCACGTAG
*
56925 AA-ATGCACCGTAGTGCCA
1 AATTTGCACCGTAGTGCCA
56943 TATAAGATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 13 0.35
24 24 0.65
ACGTcount: A:0.27, C:0.26, G:0.26, T:0.21
Consensus pattern (24 bp):
AATTTGCACCGTAGTGCCACGTAG
Found at i:59813 original size:29 final size:29
Alignment explanation
Indices: 59773--59839 Score: 116
Period size: 29 Copynumber: 2.3 Consensus size: 29
59763 TACAGAAGTT
*
59773 AAAGATTCAGTTACAAGAATTATTGGATA
1 AAAGATTTAGTTACAAGAATTATTGGATA
*
59802 AAAGATTTAGTTACAAGAATTGTTGGATA
1 AAAGATTTAGTTACAAGAATTATTGGATA
59831 AAAGATTTA
1 AAAGATTTA
59840 TAAGACTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.33
Consensus pattern (29 bp):
AAAGATTTAGTTACAAGAATTATTGGATA
Found at i:64803 original size:39 final size:38
Alignment explanation
Indices: 64744--64851 Score: 126
Period size: 38 Copynumber: 2.8 Consensus size: 38
64734 AGATTCTCAA
* ** * *
64744 GAAAATAAATTCAATGATTTATTTTCTTTTACAAGATAG
1 GAAAATAAATTAAACAATTTATTTCCTTTTACAA-ACAG
* * *
64783 GAAAATAAATTTAACAATTTATTCCCTTTTACAAACAT
1 GAAAATAAATTAAACAATTTATTTCCTTTTACAAACAG
*
64821 GAAAATAAATCAAACAATTTATTTCCTTTTA
1 GAAAATAAATTAAACAATTTATTTCCTTTTA
64852 AAATATAGAA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
38 30 0.51
39 29 0.49
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.39
Consensus pattern (38 bp):
GAAAATAAATTAAACAATTTATTTCCTTTTACAAACAG
Found at i:65163 original size:114 final size:114
Alignment explanation
Indices: 64972--65280 Score: 343
Period size: 114 Copynumber: 2.7 Consensus size: 114
64962 AATATAATGA
* * * * ** * *
64972 AAATAAATTTAACAATTTATTTTTTTA-GATGATAGAATCATCCACGATTCTCAATAACATAAAT
1 AAATAAATTCAACAATTTATTTTTTTACAAAGTTAGAATCATTAAAGATTCTCAAGAA-ATAAAT
* *
65036 TCGATAATTTATTTTCCTGACAAAATTAAAATCATTCAAGATTC-CAAAG
65 TCAACAATTTATTTTCCTGACAAAATTAAAATCATTCAAGATTCACAAAG
* * *
65085 AAATAAATTCAACAATTTATTTTTTTACAAAGTTATAATCATTTAAGATTCTCAAGGAAACAAAT
1 AAATAAATTCAACAATTTATTTTTTTACAAAGTTAGAATCATTAAAGATTCTCAA-GAAATAAAT
* * * * * * *
65150 TCAACAATCTATTTTCCTTATAAAGTTATAATCATTTAAGATTCACAAGG
65 TCAACAATTTATTTTCCTGACAAAATTAAAATCATTCAAGATTCACAAAG
** *
65200 AAATAAATTCAACAACCTATTTTCCTTACAAAGTTAGAATCATTAAAGATTCTCAATGAAATAAA
1 AAATAAATTCAACAATTTATTTT-TTTACAAAGTTAGAATCATTAAAGATTCTCAA-GAAATAAA
* *
65265 TTTAACTATTTATTTT
64 TTCAACAATTTATTTT
65281 TCCTTACGAA
Statistics
Matches: 163, Mismatches: 29, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
113 26 0.16
114 61 0.37
115 27 0.17
116 49 0.30
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (114 bp):
AAATAAATTCAACAATTTATTTTTTTACAAAGTTAGAATCATTAAAGATTCTCAAGAAATAAATT
CAACAATTTATTTTCCTGACAAAATTAAAATCATTCAAGATTCACAAAG
Found at i:65188 original size:58 final size:58
Alignment explanation
Indices: 65017--65300 Score: 322
Period size: 58 Copynumber: 4.9 Consensus size: 58
65007 AATCATCCAC
* * * * * * * *
65017 GATTCTCAA-TAACATAAATTCGATAATTTATTTTCCTGACAAAATTAAAATCATTCAA
1 GATTCTCAAGGAA-ATAAATTCAACAATCTATTTTCCTTACAAAGTTAGAATCATTTAA
* * * *
65075 GATTC-CAAAGAAATAAATTCAACAATTTATTTT-TTTACAAAGTTATAATCATTTAA
1 GATTCTCAAGGAAATAAATTCAACAATCTATTTTCCTTACAAAGTTAGAATCATTTAA
* * *
65131 GATTCTCAAGGAAACAAATTCAACAATCTATTTTCCTTATAAAGTTATAATCATTTAA
1 GATTCTCAAGGAAATAAATTCAACAATCTATTTTCCTTACAAAGTTAGAATCATTTAA
* * *
65189 GATTCACAAGGAAATAAATTCAACAACCTATTTTCCTTACAAAGTTAGAATCATTAAA
1 GATTCTCAAGGAAATAAATTCAACAATCTATTTTCCTTACAAAGTTAGAATCATTTAA
* * * * *
65247 GATTCTCAATGAAATAAATTTAACTATTTATTTTTCCTTACGAAGTTAGAATCA
1 GATTCTCAAGGAAATAAATTCAACAATCTA-TTTTCCTTACAAAGTTAGAATCA
65301 ACACAAGATT
Statistics
Matches: 196, Mismatches: 26, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
56 23 0.12
57 47 0.24
58 104 0.53
59 22 0.11
ACGTcount: A:0.42, C:0.14, G:0.07, T:0.36
Consensus pattern (58 bp):
GATTCTCAAGGAAATAAATTCAACAATCTATTTTCCTTACAAAGTTAGAATCATTTAA
Found at i:65500 original size:39 final size:40
Alignment explanation
Indices: 65438--65547 Score: 114
Period size: 45 Copynumber: 2.6 Consensus size: 40
65428 AACAAAAATT
* *
65438 AAAAGGAATTAATCCTTTAATTTTAC-CAACCCAATAATC
1 AAAAGGAACTAATCCTTTGATTTTACACAACCCAATAATC
* **
65477 AAAAGGAACTAATCATTTGATTTTAATTTTCACAATTCAATAATC
1 AAAAGGAACTAATCCTTTGATTTT-A----CACAACCCAATAATC
*
65522 GAAAGGAACTAATCCTTTGATTTTAC
1 AAAAGGAACTAATCCTTTGATTTTAC
65548 TTTTGACAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 11
0.76 0.09 0.14
Matches are distributed among these distances:
39 21 0.36
40 2 0.03
44 2 0.03
45 33 0.57
ACGTcount: A:0.41, C:0.16, G:0.08, T:0.35
Consensus pattern (40 bp):
AAAAGGAACTAATCCTTTGATTTTACACAACCCAATAATC
Found at i:65504 original size:45 final size:45
Alignment explanation
Indices: 65453--65570 Score: 150
Period size: 45 Copynumber: 2.6 Consensus size: 45
65443 GAATTAATCC
*
65453 TTTAATTTTACCAACCCAATAATCAAAAGGAACTAATCATTTGAT
1 TTTAATTTTACCAATCCAATAATCAAAAGGAACTAATCATTTGAT
* * *
65498 TTTAATTTT-CACAATTCAATAATCGAAAGGAACTAATCCTTTGAT
1 TTTAATTTTAC-CAATCCAATAATCAAAAGGAACTAATCATTTGAT
* *
65543 TTTACTTTTGA-CAATCTAATAATCAAAA
1 TTTAATTTT-ACCAATCCAATAATCAAAA
65571 ACTTTGGATC
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
44 1 0.02
45 61 0.98
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (45 bp):
TTTAATTTTACCAATCCAATAATCAAAAGGAACTAATCATTTGAT
Found at i:69987 original size:52 final size:52
Alignment explanation
Indices: 69909--70012 Score: 174
Period size: 52 Copynumber: 2.0 Consensus size: 52
69899 ATAGGTTAAG
69909 GTGATTATAAATGGTTGAATTCTTTTAATTTA-AGAGGAGAATCGTAATTGAT
1 GTGATTATAAATGGTTGAATTCTTTTAATTTAGA-AGGAGAATCGTAATTGAT
* *
69961 GTGATTATAAATGGTTGCATTCTTTTAATTTGGAAGGAGAATCGTAATTGAT
1 GTGATTATAAATGGTTGAATTCTTTTAATTTAGAAGGAGAATCGTAATTGAT
70013 AAAAATGATG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
52 48 0.98
53 1 0.02
ACGTcount: A:0.33, C:0.05, G:0.22, T:0.40
Consensus pattern (52 bp):
GTGATTATAAATGGTTGAATTCTTTTAATTTAGAAGGAGAATCGTAATTGAT
Found at i:73064 original size:29 final size:29
Alignment explanation
Indices: 73031--73122 Score: 96
Period size: 30 Copynumber: 3.1 Consensus size: 29
73021 CTTAAATTTT
* *
73031 GTTTAGTGACTAAAATATAAGTTTTAAAA
1 GTTTAGTGACTAAAATATAAATTTGAAAA
** * *
73060 GTTTAGTGGTTAAAATAAAAACTTTGAAAC
1 GTTTAGTGACTAAAATATAAA-TTTGAAAA
73090 GTTTA-TGGACTAAAATTATAAATTTGAAAA
1 GTTTAGT-GACTAAAA-TATAAATTTGAAAA
73120 GTT
1 GTT
73123 ATATATATTT
Statistics
Matches: 50, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 18 0.36
30 27 0.54
31 5 0.10
ACGTcount: A:0.43, C:0.04, G:0.15, T:0.37
Consensus pattern (29 bp):
GTTTAGTGACTAAAATATAAATTTGAAAA
Found at i:79282 original size:21 final size:21
Alignment explanation
Indices: 79258--79317 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
79248 TTTAATTTTG
79258 ATTATTTTTATATTACATTAT
1 ATTATTTTTATATTACATTAT
*
79279 ATTATTTATATATT---TTAT
1 ATTATTTTTATATTACATTAT
*
79297 ATTATTAGTTTTTATTACATT
1 ATTATT--TTTATATTACATT
79318 CGTATATATA
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
18 10 0.32
20 6 0.19
21 13 0.42
23 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (21 bp):
ATTATTTTTATATTACATTAT
Found at i:79663 original size:144 final size:145
Alignment explanation
Indices: 79472--79744 Score: 458
Period size: 144 Copynumber: 1.9 Consensus size: 145
79462 TTTTTTTTAT
* *
79472 TATTATTATATACATATTTTTTTTCCTCCCTCTCATATTTAGCTATTATATATATATATGGTGTT
1 TATTATTATATACATATATTTTTTCCTCCCTCTCATATTTAGCTATTATATATATATATGGTATT
* *
79537 AATATTATTATATGTTTTTACTAACTTTATTTATTTTACTTTATACGCTATTATTTTACATTTTA
66 AATATTATTATATGTTCTTACTAACTTTATTTATTCTACTTTATACGCTATTATTTTACATTTTA
79602 TTTTTATAATTTTTC
131 TTTTTATAATTTTTC
*
79617 TATTATTAT-TATATATATTTTTTCCTCCCTCTCATATTTAGCTATTATATATATATATGGTATT
1 TATTATTATATACATATATTTTTTCCTCCCTCTCATATTTAGCTATTATATATATATATGGTATT
* * * *
79681 GATATTCTTATATGTTCTTATTAATTTTATTTATTCTACTTTATACGCTATTATTTTACATTTT
66 AATATTATTATATGTTCTTACTAACTTTATTTATTCTACTTTATACGCTATTATTTTACATTTT
79745 TTATATATGT
Statistics
Matches: 119, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
144 110 0.92
145 9 0.08
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (145 bp):
TATTATTATATACATATATTTTTTCCTCCCTCTCATATTTAGCTATTATATATATATATGGTATT
AATATTATTATATGTTCTTACTAACTTTATTTATTCTACTTTATACGCTATTATTTTACATTTTA
TTTTTATAATTTTTC
Found at i:82621 original size:2 final size:2
Alignment explanation
Indices: 82614--82662 Score: 89
Period size: 2 Copynumber: 24.5 Consensus size: 2
82604 AAAATACGAA
82614 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
82656 AC AT AT A
1 AT AT AT A
82663 GTTATTTAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:84273 original size:6 final size:6
Alignment explanation
Indices: 84262--84291 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
84252 CGAATCTATA
*
84262 AATTTT AATTTT AATTTT AATTTC AATTTT
1 AATTTT AATTTT AATTTT AATTTT AATTTT
84292 CTCAATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.63
Consensus pattern (6 bp):
AATTTT
Found at i:90309 original size:43 final size:43
Alignment explanation
Indices: 90256--90470 Score: 225
Period size: 43 Copynumber: 5.0 Consensus size: 43
90246 ACGAAAGGGT
* *
90256 CATCCGCGATTTCAACTCCACAACGGAGGATATCGTACCCACG
1 CATCCGCGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* **
90299 CATCTGCGATTTCAACTCCACGATAGAGGATATCGTACCCACA
1 CATCCGCGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* * * * * *
90342 CATCCACAATTTCAACTCCATGATGGAGGATATCGTACCAACG
1 CATCCGCGATTTCAACTCCACGACGGAGGATATCGTACCCACA
* * * *
90385 GATCCGTGATTTCAACTCCACGACGGAGGATATTGTGCCCACA
1 CATCCGCGATTTCAACTCCACGACGGAGGATATCGTACCCACA
** * * * *
90428 CATCCATGGTTTCAACTTCACGACGAAGGGA-ATCGTACACACA
1 CATCCGCGATTTCAACTCCACGACGGA-GGATATCGTACCCACA
90471 AGCAACATAC
Statistics
Matches: 141, Mismatches: 30, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
43 138 0.98
44 3 0.02
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (43 bp):
CATCCGCGATTTCAACTCCACGACGGAGGATATCGTACCCACA
Found at i:90900 original size:66 final size:66
Alignment explanation
Indices: 90817--91053 Score: 210
Period size: 66 Copynumber: 3.5 Consensus size: 66
90807 TCCACGATTT
*
90817 CAAATTTTGTCTCCCTTGAGACAATTTCTCTTGAAACA-TAAACTTTGAAAACATTTCCCTTGAA
1 CAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATTAAACTTTGAAAACATTTCCCTTGAA
90881 A
66 A
* * * * *
90882 CAAAATTTTGTCTCCCTTGAGACAGTTTTTCTTAAAACCAGATTTTATCTCGCTT-AAGACAATT
1 C-AAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAA-C--A-TTAAACT---TTGAAAAC-ATT
90946 TCCCTTGAAA
57 TCCCTTGAAA
* * ** * * * *
90956 CTAATTTTGTCTCCCTCGAGACAGTTTCT-TATGAAACACCAAACTTTGAGATCGTTTCCCTTAA
1 CAAATTTTGTCTCCCTTGAGACAGTTTCTCT-TGAAACATTAAACTTTGAAAACATTTCCCTTGA
91020 AA
65 AA
** *
91022 CAAATTTTGTCTCTTTTGAAACAGTTTCTCTT
1 CAAATTTTGTCTCCCTTGAGACAGTTTCTCTT
91054 AAAGCATCAT
Statistics
Matches: 135, Mismatches: 24, Indels: 25
0.73 0.13 0.14
Matches are distributed among these distances:
65 1 0.01
66 70 0.52
67 4 0.03
69 4 0.03
70 1 0.01
71 4 0.03
72 2 0.01
73 33 0.24
74 16 0.12
ACGTcount: A:0.30, C:0.22, G:0.11, T:0.38
Consensus pattern (66 bp):
CAAATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAACATTAAACTTTGAAAACATTTCCCTTGAA
A
Found at i:90978 original size:36 final size:36
Alignment explanation
Indices: 90869--90983 Score: 113
Period size: 37 Copynumber: 3.1 Consensus size: 36
90859 CTTTGAAAAC
90869 ATTTCCCTTGAAACAAAATTTTGTCTCCCTTGAGACA
1 ATTTCCCTTGAAAC-AAATTTTGTCTCCCTTGAGACA
* ** * * * * *
90906 GTTTTTCTTAAAACCAGATTTTATCTCGCTTAAGACA
1 ATTTCCCTTGAAA-CAAATTTTGTCTCCCTTGAGACA
* *
90943 ATTTCCCTTGAAACTAATTTTGTCTCCCTCGAGACA
1 ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
*
90979 GTTTC
1 ATTTC
90984 TTATGAAACA
Statistics
Matches: 58, Mismatches: 19, Indels: 3
0.73 0.24 0.04
Matches are distributed among these distances:
36 21 0.36
37 36 0.62
38 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.38
Consensus pattern (36 bp):
ATTTCCCTTGAAACAAATTTTGTCTCCCTTGAGACA
Found at i:90991 original size:36 final size:36
Alignment explanation
Indices: 90885--90992 Score: 96
Period size: 36 Copynumber: 3.0 Consensus size: 36
90875 CTTGAAACAA
90885 AATTTTGTCTCCCTTGAGACAGTTTTTCTTA--AAACC
1 AATTTTGTCTCCCTTGAGACAG--TTTCTTATGAAACC
* * * * * *
90921 AGATTTTATCTCGCTTAAGACAATTTCCCT-TGAAACT
1 A-ATTTTGTCTCCCTTGAGACAGTTT-CTTATGAAACC
*
90958 AATTTTGTCTCCCTCGAGACAGTTTCTTATGAAAC
1 AATTTTGTCTCCCTTGAGACAGTTTCTTATGAAAC
90993 ACCAAACTTT
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
35 5 0.09
36 28 0.51
37 22 0.40
ACGTcount: A:0.27, C:0.22, G:0.12, T:0.39
Consensus pattern (36 bp):
AATTTTGTCTCCCTTGAGACAGTTTCTTATGAAACC
Found at i:91290 original size:40 final size:39
Alignment explanation
Indices: 91243--91372 Score: 129
Period size: 40 Copynumber: 3.2 Consensus size: 39
91233 ATGGTCTACG
91243 TCCTCATCACGTAGGAACCGTGTCATCCTTCGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCTT-GACCAGATC
* * *
91283 TTCTCATCACGTAGGAGCCGTGTCAACCTTGGATAACCAG-TC
1 TCCTCATCACGTAGGAACCGTGTCATCCTT-G---ACCAGATC
* * * *
91325 ACCTCAACACGTAGGAA-CGTGTTATCCCTTGACTAGATC
1 TCCTCATCACGTAGGAACCGTGTCAT-CCTTGACCAGATC
91364 TCCTCATCA
1 TCCTCATCA
91373 AGTAAGAGTC
Statistics
Matches: 72, Mismatches: 13, Indels: 11
0.75 0.14 0.11
Matches are distributed among these distances:
38 4 0.06
39 9 0.12
40 28 0.39
41 7 0.10
42 19 0.26
43 5 0.07
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.26
Consensus pattern (39 bp):
TCCTCATCACGTAGGAACCGTGTCATCCTTGACCAGATC
Found at i:91370 original size:81 final size:83
Alignment explanation
Indices: 91244--91433 Score: 242
Period size: 81 Copynumber: 2.3 Consensus size: 83
91234 TGGTCTACGT
* * * *
91244 CCTCATCACGTAGGAACCGTGTCAT-CCTTCGACCAGATCTTCTCATCACGTAGGAGCCGTGTCA
1 CCTCATCACGTAGGAA-CGTGTTATCCCTTCGACCAGATCTCCTCATCAAGTAAGAGCCGTGTCA
* *
91308 ACCTTGGATAACCAGTC-A
65 ACCTTAGATAACCAGCCGA
* * *
91326 CCTCAACACGTAGGAACGTGTTATCCCTT-GACTAGATCTCCTCATCAAGTAAGAGTCGTGTCAA
1 CCTCATCACGTAGGAACGTGTTATCCCTTCGACCAGATCTCCTCATCAAGTAAGAGCCGTGTCAA
* *
91390 CTTTAGATAACCAGCCGT
66 CCTTAGATAACCAGCCGA
91408 CCTCATCACGTAGGAACTGTGTTATC
1 CCTCATCACGTAGGAAC-GTGTTATC
91434 GTCCTTAGAC
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
81 50 0.54
82 35 0.38
83 8 0.09
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (83 bp):
CCTCATCACGTAGGAACGTGTTATCCCTTCGACCAGATCTCCTCATCAAGTAAGAGCCGTGTCAA
CCTTAGATAACCAGCCGA
Found at i:96367 original size:9 final size:9
Alignment explanation
Indices: 96348--96387 Score: 55
Period size: 9 Copynumber: 4.3 Consensus size: 9
96338 AGCTTATATT
96348 TTTTTAA-A
1 TTTTTAATA
96356 TTTTTAATA
1 TTTTTAATA
96365 TTTTTAATACA
1 TTTTTAAT--A
96376 TTTTTAATA
1 TTTTTAATA
96385 TTT
1 TTT
96388 ATTTTTATAC
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 7 0.24
9 13 0.45
11 9 0.31
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (9 bp):
TTTTTAATA
Found at i:96392 original size:33 final size:31
Alignment explanation
Indices: 96355--96425 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 31
96345 ATTTTTTTAA
* *
96355 ATTTTTAATA-TTTTTAATACATTTTTAATATTT
1 ATTTTT-ATACTTTTGAATA-ATTTTGAA-ATTT
96388 ATTTTTATACTTTTGAATAATTTTGAAATTT
1 ATTTTTATACTTTTGAATAATTTTGAAATTT
96419 ATATTTT
1 AT-TTTT
96426 TGTTAAAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 6 0.18
32 14 0.41
33 14 0.41
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (31 bp):
ATTTTTATACTTTTGAATAATTTTGAAATTT
Found at i:96410 original size:23 final size:24
Alignment explanation
Indices: 96363--96406 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
96353 AAATTTTTAA
*
96363 TATTTTTAATACATTTTTAATATT
1 TATTTTTAATACATTTTGAATATT
96387 TATTTTT-ATAC-TTTTGAATA
1 TATTTTTAATACATTTTGAATA
96407 ATTTTGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 8 0.42
23 4 0.21
24 7 0.37
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (24 bp):
TATTTTTAATACATTTTGAATATT
Found at i:101084 original size:114 final size:114
Alignment explanation
Indices: 100931--101152 Score: 320
Period size: 114 Copynumber: 1.9 Consensus size: 114
100921 TAATGGTTAT
*
100931 GCTATTGCCAAAGTGGGTAACCAAACTGTTATTGCTGGCAACAACTTGGCTGCTAATACAGTGAC
1 GCTATTGCCAAAGTCGGTAACCAAACTGTTATTGCTGGCAACAACTTGGCTGCTAATACAGTGAC
* *
100996 TAATGGGGCTTGTTATGGGAACTCAGGTGCTATTTCAATGTCAGGAGAG
66 TAATGGGGCTTGTTATGGGAACTCAGATGCTATTCCAATGTCAGGAGAG
* * * * * **
101045 GCTATTGCTAAAG-CGGTCAACCATACTGTTATTGTTGGCAGCAACTTGGTTGCTAATTTAGTGA
1 GCTATTGCCAAAGTCGGT-AACCAAACTGTTATTGCTGGCAACAACTTGGCTGCTAATACAGTGA
* *
101109 TTAATGGGGCTTGTTTTGGGAACTCAGATGCTATTCCAATGTCA
65 CTAATGGGGCTTGTTATGGGAACTCAGATGCTATTCCAATGTCA
101153 AATGAGGCTG
Statistics
Matches: 95, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
113 3 0.03
114 92 0.97
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (114 bp):
GCTATTGCCAAAGTCGGTAACCAAACTGTTATTGCTGGCAACAACTTGGCTGCTAATACAGTGAC
TAATGGGGCTTGTTATGGGAACTCAGATGCTATTCCAATGTCAGGAGAG
Found at i:119752 original size:2 final size:2
Alignment explanation
Indices: 119745--119771 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
119735 GGTGCCGAAG
119745 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
119772 GACACAAAAC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:121111 original size:3 final size:3
Alignment explanation
Indices: 121098--121213 Score: 178
Period size: 3 Copynumber: 38.0 Consensus size: 3
121088 TTCATTTAAA
* *
121098 ATT AGT ATT ATT ATT ATT AGT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
121146 ATT ATT ATT ATT ATT ATT ATT ATT ATT AGT ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
*
121192 AAT ATT ATAT ATT ATT ATT ATT
1 ATT ATT AT-T ATT ATT ATT ATT
121214 TAATAAATAA
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
3 98 0.95
4 5 0.05
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:123603 original size:12 final size:14
Alignment explanation
Indices: 123576--123608 Score: 52
Period size: 12 Copynumber: 2.5 Consensus size: 14
123566 TATGTTTTAT
123576 TTTATTTGCAAGTA
1 TTTATTTGCAAGTA
123590 TTTATTT-C-AGTA
1 TTTATTTGCAAGTA
123602 TTTATTT
1 TTTATTT
123609 TTCTGTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.24, C:0.06, G:0.09, T:0.61
Consensus pattern (14 bp):
TTTATTTGCAAGTA
Found at i:130332 original size:83 final size:83
Alignment explanation
Indices: 130193--130457 Score: 460
Period size: 83 Copynumber: 3.2 Consensus size: 83
130183 AATGGAACAA
* *
130193 ATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGCAAAACC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCAAAACC
130258 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
*
130276 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCAAAACC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCAAAACC
130341 AATCATTGAATTTAGAAG
66 AATCATTGAATTTAGAAG
* *
130359 ATGAATTTGTTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGG-TTGGACAGAAC
1 ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGG-CAAAAC
*
130423 CAATCATTGAATTTGGAAG
65 CAATCATTGAATTTAGAAG
130442 ATGAATTTGCTCATAG
1 ATGAATTTGCTCATAG
130458 TAGAAATAAA
Statistics
Matches: 175, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
82 4 0.02
83 171 0.98
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (83 bp):
ATGAATTTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTAATCTGGTTTGGCAAAACC
AATCATTGAATTTAGAAG
Found at i:133024 original size:22 final size:22
Alignment explanation
Indices: 132996--133050 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
132986 ATCTACACTC
* *
132996 TTCAAAGATGATAGATTATCTT
1 TTCAAAGATGACAAATTATCTT
* *
133018 TTTAAAGATGACAAATTCTCTT
1 TTCAAAGATGACAAATTATCTT
133040 TTCAAAGATGA
1 TTCAAAGATGA
133051 AAACTTTATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (22 bp):
TTCAAAGATGACAAATTATCTT
Found at i:133847 original size:76 final size:76
Alignment explanation
Indices: 133721--133947 Score: 445
Period size: 76 Copynumber: 3.0 Consensus size: 76
133711 CTATTTCTCA
133721 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
133786 AGCCTTCGGGT
66 AGCCTTCGGGT
*
133797 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTAATGTTTTCAA
1 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
133862 AGCCTTCGGGT
66 AGCCTTCGGGT
133873 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
133938 AGCCTTCGGG
66 AGCCTTCGGG
133948 AGCTTTTTGA
Statistics
Matches: 149, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 149 1.00
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (76 bp):
CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGT
Found at i:133940 original size:105 final size:105
Alignment explanation
Indices: 133831--134052 Score: 435
Period size: 105 Copynumber: 2.1 Consensus size: 105
133821 ATGTTTCCAA
133831 AAAGCCTTCGGGAGCTTTTTAATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTAATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
133896 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
66 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
*
133936 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTAATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134001 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
66 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
134041 AAAGCCTTCGGG
1 AAAGCCTTCGGG
134053 TCATCTATAA
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 116 1.00
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (105 bp):
AAAGCCTTCGGGAGCTTTTTAATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:133943 original size:29 final size:29
Alignment explanation
Indices: 133907--133976 Score: 140
Period size: 29 Copynumber: 2.4 Consensus size: 29
133897 ATGTTTCCAA
133907 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
133936 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTC
133965 AAAGCCTTCGGG
1 AAAGCCTTCGGG
133977 TCATCTATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.19, C:0.19, G:0.26, T:0.37
Consensus pattern (29 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:134016 original size:76 final size:76
Alignment explanation
Indices: 133936--134203 Score: 529
Period size: 76 Copynumber: 3.5 Consensus size: 76
133926 TGATGTTTTC
133936 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134001 GATGTTTCCAA
66 GATGTTTCCAA
134012 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134077 GATGTTTCCAA
66 GATGTTTCCAA
134088 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134153 GATGTTTCC-A
66 GATGTTTCCAA
134163 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
134204 AGCTTTTTGA
Statistics
Matches: 192, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 42 0.22
76 150 0.78
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (76 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
GATGTTTCCAA
Found at i:134199 original size:29 final size:29
Alignment explanation
Indices: 134152--134232 Score: 144
Period size: 29 Copynumber: 2.8 Consensus size: 29
134142 CTTCAGTGCA
*
134152 TGATGTTTCCAAAAGCCTTCGGGAGCTTTT
1 TGATGTTTTC-AAAGCCTTCGGGAGCTTTT
134182 TGATGTTTTCAAAGCCTTCGGGAGCTTTT
1 TGATGTTTTCAAAGCCTTCGGGAGCTTTT
134211 TGATGTTTTCAAAGCCTTCGGG
1 TGATGTTTTCAAAGCCTTCGGG
134233 TCATCTATAA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 41 0.82
30 9 0.18
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (29 bp):
TGATGTTTTCAAAGCCTTCGGGAGCTTTT
Found at i:134203 original size:104 final size:105
Alignment explanation
Indices: 134088--134308 Score: 435
Period size: 104 Copynumber: 2.1 Consensus size: 105
134078 ATGTTTCCAA
134088 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134153 GATGTTTCC-AAAAGCCTTCGGGAGCTTTTTGATGTTTTC
66 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
134192 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134257 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
66 GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
134297 AAAGCCTTCGGG
1 AAAGCCTTCGGG
134309 TCATCTATAA
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 74 0.64
105 42 0.36
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (105 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
GATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTC
Found at i:134318 original size:76 final size:76
Alignment explanation
Indices: 134192--134724 Score: 1039
Period size: 76 Copynumber: 7.0 Consensus size: 76
134182 TGATGTTTTC
134192 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134257 GATGTTTCCAA
66 GATGTTTCCAA
134268 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134333 GATGTTTCCAA
66 GATGTTTCCAA
134344 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134409 GATGTTTCCAA
66 GATGTTTCCAA
*
134420 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134485 GATGTTTCCAA
66 GATGTTTCCAA
134496 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134561 GATGTTTCCAA
66 GATGTTTCCAA
134572 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
134637 GATGTTTCCAA
66 GATGTTTCCAA
*
134648 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTGTAAGTCCTTCAGTGCAT
1 AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
*
134713 GATGTTTTCAA
66 GATGTTTCCAA
134724 A
1 A
134725 CATTTCCATC
Statistics
Matches: 453, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
76 453 1.00
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (76 bp):
AAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCAT
GATGTTTCCAA
Found at i:134348 original size:256 final size:257
Alignment explanation
Indices: 133721--134460 Score: 1464
Period size: 256 Copynumber: 2.9 Consensus size: 257
133711 CTATTTCTCA
133721 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
133786 AGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
*
133851 AATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
133916 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
133978 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
134043 AGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
134108 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCC-AAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
134172 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
134234 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
134299 AGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
66 AGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
134364 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
131 GATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
134429 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
196 GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGG
134461 TCATCTGTAA
Statistics
Matches: 481, Mismatches: 1, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
256 256 0.53
257 225 0.47
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.36
Consensus pattern (257 bp):
CATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTT
GATGTTTTCAAAGCCTTCGGGTCATCTATAAGTCCTTCAGTGCATGATGTTTCCAAAAAGCCTTC
GGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGAGCTTTTTGATGTTTTCAAAGCCTTCGGGT
Found at i:134863 original size:3 final size:3
Alignment explanation
Indices: 134850--134956 Score: 151
Period size: 3 Copynumber: 35.0 Consensus size: 3
134840 TTCATTTAAA
* * *
134850 ATT AGT ATT ATT ATT ATT AGT ATT ATT ATT ATT AGT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
134898 ATT ATT ATT ATT ATT ATT AGT ATTT ATT ATT ATT ATT AAT ATT ATAT
1 ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT AT-T
134945 ATT ATT ATT ATT
1 ATT ATT ATT ATT
134957 TAATAAATAA
Statistics
Matches: 92, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
3 87 0.95
4 5 0.05
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:142340 original size:13 final size:13
Alignment explanation
Indices: 142319--142354 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
142309 ATTACCCGAA
142319 CTGACCCGACATG
1 CTGACCCGACATG
* *
142332 TTTACCCGACATG
1 CTGACCCGACATG
142345 CTGACCCGAC
1 CTGACCCGAC
142355 CCGACCCGTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.22, C:0.39, G:0.19, T:0.19
Consensus pattern (13 bp):
CTGACCCGACATG
Found at i:142380 original size:15 final size:16
Alignment explanation
Indices: 142360--142396 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
142350 CCGACCCGAC
142360 CCGTTGAAC-AGTTGA
1 CCGTTGAACTAGTTGA
*
142375 CCGTTG-ACTCGTTGA
1 CCGTTGAACTAGTTGA
142390 CCGTTGA
1 CCGTTGA
142397 CCGGCGTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 2 0.11
15 17 0.89
ACGTcount: A:0.19, C:0.24, G:0.27, T:0.30
Consensus pattern (16 bp):
CCGTTGAACTAGTTGA
Found at i:142387 original size:8 final size:7
Alignment explanation
Indices: 142360--142399 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
142350 CCGACCCGAC
142360 CCGTTGAA
1 CCGTTG-A
*
142368 CAGTTGA
1 CCGTTGA
142375 CCGTTGA
1 CCGTTGA
142382 CTCGTTGA
1 C-CGTTGA
142390 CCGTTGA
1 CCGTTGA
142397 CCG
1 CCG
142400 GCGTTGACCA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 17 0.59
8 12 0.41
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.28
Consensus pattern (7 bp):
CCGTTGA
Found at i:144880 original size:24 final size:24
Alignment explanation
Indices: 144853--144957 Score: 81
Period size: 24 Copynumber: 4.4 Consensus size: 24
144843 AAATATTTTA
144853 TCTGATTTCCGA-CTTGAATTATGT
1 TCTGATTTCCGATC-TGAATTATGT
* *
144877 TCTGA-TACATC-ACCTGAATTATGT
1 TCTGATTTC--CGATCTGAATTATGT
* * *
144901 TCTGATTTCTGATCTGGATTCTGT
1 TCTGATTTCCGATCTGAATTATGT
* * *
144925 TCTGATATCTGATCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTATGT
*
144949 TTTGATTTC
1 TCTGATTTC
144958 TGATATCTCC
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
23 2 0.03
24 60 0.91
25 4 0.06
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.47
Consensus pattern (24 bp):
TCTGATTTCCGATCTGAATTATGT
Found at i:144905 original size:12 final size:12
Alignment explanation
Indices: 144890--144959 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
144880 GATACATCAC
*
144890 CTGAATTATGTT
1 CTGAATTCTGTT
* *
144902 CTGATTTCTGAT
1 CTGAATTCTGTT
*
144914 CTGGATTCTGTT
1 CTGAATTCTGTT
*
144926 CTG-ATATCTGAT
1 CTGAAT-TCTGTT
144938 CTGAATTCTGTT
1 CTGAATTCTGTT
* *
144950 TTGATTTCTG
1 CTGAATTCTG
144960 ATATCTCCGT
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
11 2 0.04
12 42 0.91
13 2 0.04
ACGTcount: A:0.17, C:0.14, G:0.19, T:0.50
Consensus pattern (12 bp):
CTGAATTCTGTT
Found at i:144909 original size:48 final size:48
Alignment explanation
Indices: 144853--144957 Score: 115
Period size: 48 Copynumber: 2.2 Consensus size: 48
144843 AAATATTTTA
144853 TCTGATTTCCGA-CTTGAATTATGTTCTGATA-CATCACCTGAATTATGT
1 TCTGATTTCCGATC-TGAATTATGTTCTGATATC-TCACCTGAATTATGT
* * * * * *
144901 TCTGATTTCTGATCTGGATTCTGTTCTGATATCTGATCTGAATTCTGT
1 TCTGATTTCCGATCTGAATTATGTTCTGATATCTCACCTGAATTATGT
*
144949 TTTGATTTC
1 TCTGATTTC
144958 TGATATCTCC
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 46 0.96
49 2 0.04
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.47
Consensus pattern (48 bp):
TCTGATTTCCGATCTGAATTATGTTCTGATATCTCACCTGAATTATGT
Found at i:144959 original size:24 final size:24
Alignment explanation
Indices: 144890--144961 Score: 108
Period size: 24 Copynumber: 3.0 Consensus size: 24
144880 GATACATCAC
*
144890 CTGAATTATGTTCTGATTTCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
* *
144914 CTGGATTCTGTTCTGATATCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
*
144938 CTGAATTCTGTTTTGATTTCTGAT
1 CTGAATTCTGTTCTGATTTCTGAT
144962 ATCTCCGTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.18, C:0.14, G:0.18, T:0.50
Consensus pattern (24 bp):
CTGAATTCTGTTCTGATTTCTGAT
Found at i:145129 original size:2 final size:2
Alignment explanation
Indices: 145122--145154 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
145112 GATGGGGGTG
145122 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 T
145155 GTTTTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:147983 original size:12 final size:12
Alignment explanation
Indices: 147961--147992 Score: 55
Period size: 12 Copynumber: 2.6 Consensus size: 12
147951 TTTGTATTTT
147961 TAAAGATTAAATG
1 TAAA-ATTAAATG
147974 TAAAATTAAATG
1 TAAAATTAAATG
147986 TAAAATT
1 TAAAATT
147993 GTAAACATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 15 0.79
13 4 0.21
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.34
Consensus pattern (12 bp):
TAAAATTAAATG
Found at i:149007 original size:20 final size:22
Alignment explanation
Indices: 148972--149015 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 22
148962 TCACCACTTA
*
148972 ATTATTTAACTATTTTATTTTT
1 ATTATTTAACTATTTTAATTTT
148994 ATTATTT-A-TATTTTAATTTT
1 ATTATTTAACTATTTTAATTTT
149014 AT
1 AT
149016 CAATTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 13 0.62
21 1 0.05
22 7 0.33
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (22 bp):
ATTATTTAACTATTTTAATTTT
Found at i:155132 original size:2 final size:2
Alignment explanation
Indices: 155125--155157 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
155115 AACATGTTAA
155125 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
155158 ATTTAATTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:156261 original size:43 final size:43
Alignment explanation
Indices: 156169--156315 Score: 141
Period size: 43 Copynumber: 3.3 Consensus size: 43
156159 ATTAAAGTTC
*** *
156169 GCGGCGTTTTTTTAAACTAAAAACGCCGCAATAGGTAACGATATATA
1 GCGGCGTTTTTTT-AAC---AAACGCCGCAATAGGTGTTGATATTTA
* *
156216 GCGGCGTTTTTTTAACAAACGCCGCAATAGGTGTTAAAATTTA
1 GCGGCGTTTTTTTAACAAACGCCGCAATAGGTGTTGATATTTA
* * * * *
156259 GCGACATTTTTATCACAAACGCCGCAATAAGTGTTGATATTTA
1 GCGGCGTTTTTTTAACAAACGCCGCAATAGGTGTTGATATTTA
**
156302 GATGCGTTTTTTTA
1 GCGGCGTTTTTTTA
156316 TGAAAACGCC
Statistics
Matches: 81, Mismatches: 19, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
43 65 0.80
46 3 0.04
47 13 0.16
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (43 bp):
GCGGCGTTTTTTTAACAAACGCCGCAATAGGTGTTGATATTTA
Found at i:156447 original size:46 final size:45
Alignment explanation
Indices: 156359--156448 Score: 105
Period size: 45 Copynumber: 2.0 Consensus size: 45
156349 ACATTTTTAG
* * *
156359 GATACAAACGCCGCAATATGTGTTAATATTTGGCGATGTTTTTTT
1 GATACAAACGCCGCAATATGTATGAATATTCGGCGATGTTTTTTT
156404 GATACAAACGCCGCTAA-ATGTATGACATATTGCGGCG-T-TTTTTTT
1 GATACAAACGCCGC-AATATGTATGA-ATATT-CGGCGATGTTTTTTT
156449 ACAAAAGTCG
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
45 27 0.69
46 8 0.21
47 4 0.10
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (45 bp):
GATACAAACGCCGCAATATGTATGAATATTCGGCGATGTTTTTTT
Found at i:157617 original size:63 final size:64
Alignment explanation
Indices: 157415--157631 Score: 235
Period size: 64 Copynumber: 3.4 Consensus size: 64
157405 AAGGTGTATT
* * ** * *
157415 GATGCATAGGTAGTGCATCGATGCA-CTCTTTTAAATAGAAAACATCGAATAG-GATTTATGCAT
1 GATGCATAAGTAGTGCATCGATGCATCCCCATTAAATA-AAAACATCAAAT-GCAATTTATGCAT
157478 C
64 C
* * * **
157479 GATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGTAATTCGTGCATC
1 GATGCATAAGTAGTGCATCGATGCATCCCCATTAAATAAAAACATCAAATGCAATTTATGCATC
* * * *
157543 GATGCATAAGTAGTGCATCGATGCAT-CCCGTT-ATTAATGAACATCAAATGCATTTTATGCATC
1 GATGCATAAGTAGTGCATCGATGCATCCCCATTAAATAA-AAACATCAAATGCAATTTATGCATC
*
157606 GATGCACAAGTAGTGCATCGATGCAT
1 GATGCATAAGTAGTGCATCGATGCAT
157632 ACCTTCATTA
Statistics
Matches: 132, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
62 4 0.03
63 50 0.38
64 69 0.52
65 9 0.07
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.28
Consensus pattern (64 bp):
GATGCATAAGTAGTGCATCGATGCATCCCCATTAAATAAAAACATCAAATGCAATTTATGCATC
Found at i:158269 original size:15 final size:15
Alignment explanation
Indices: 158251--158343 Score: 177
Period size: 15 Copynumber: 6.2 Consensus size: 15
158241 GAGGGTATTA
158251 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
158266 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
158281 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
158296 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
*
158311 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGATG
158326 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGATG
158341 TAG
1 TAG
158344 GAGTCCTACG
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 76 1.00
ACGTcount: A:0.14, C:0.20, G:0.33, T:0.32
Consensus pattern (15 bp):
TAGTCCTTCGGGATG
Found at i:161769 original size:83 final size:83
Alignment explanation
Indices: 161634--161790 Score: 199
Period size: 83 Copynumber: 1.9 Consensus size: 83
161624 TTACTCTATT
* * ** * *
161634 GCGGCGTTTTTTTGCACAAACGCCACTATAAACAATACTATTGCGGCATTTGTTTGATAAATGCC
1 GCGGCGTTTTTTTGAACAAACGCCACTATAAACAACACTATAACGGCATTTGTGT-AAAAATGCC
*
161699 TCTAAATTACTTTTATTTA
65 GCTAAATTACTTTTATTTA
* * **
161718 GCGGCG-TTTTTTGAACAAACGCCACTATAAATAACACTATAACTGTGTTTGTGTAAAAATGCCG
1 GCGGCGTTTTTTTGAACAAACGCCACTATAAACAACACTATAACGGCATTTGTGTAAAAATGCCG
161782 CTAAATTAC
66 CTAAATTAC
161791 CAATCTATTG
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
82 17 0.27
83 39 0.63
84 6 0.10
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (83 bp):
GCGGCGTTTTTTTGAACAAACGCCACTATAAACAACACTATAACGGCATTTGTGTAAAAATGCCG
CTAAATTACTTTTATTTA
Found at i:161819 original size:42 final size:41
Alignment explanation
Indices: 161772--161911 Score: 115
Period size: 42 Copynumber: 3.4 Consensus size: 41
161762 GTGTTTGTGT
* *
161772 AAAAATGCCGCTAAATTACCAATCTATTGCGGCGATTGTTAA
1 AAAAACGCCGCTAAATTACCACTCTATTGCGGCG-TTGTTAA
* * ** * * *
161814 AAAAATGCCACTATAA--ACGTCTCTATTACGGTGTT-TGAA
1 AAAAACGCCGCTA-AATTACCACTCTATTGCGGCGTTGTTAA
* *
161853 CTATAAACGCCGCTAAATTACCACTCTATTGCGGCGTTTGTTTA
1 --AAAAACGCCGCTAAATTACCACTCTATTGCGGCG-TTGTTAA
161897 AAAAACGCCGCTAAA
1 AAAAACGCCGCTAAA
161912 GTATCATTCT
Statistics
Matches: 74, Mismatches: 17, Indels: 14
0.70 0.16 0.13
Matches are distributed among these distances:
39 3 0.04
40 4 0.05
41 22 0.30
42 39 0.53
43 4 0.05
44 2 0.03
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (41 bp):
AAAAACGCCGCTAAATTACCACTCTATTGCGGCGTTGTTAA
Found at i:161824 original size:82 final size:83
Alignment explanation
Indices: 161738--161901 Score: 204
Period size: 83 Copynumber: 2.0 Consensus size: 83
161728 TTGAACAAAC
* * ** *
161738 GCCACTATAAATAACACTATAACTGTGTTTG-TGTAAAAATGCCGCTAAATTACCAATCTATTGC
1 GCCACTATAAACAACACTATAACGGTGTTTGAACTAAAAACGCCGCTAAATTACCAATCTATTGC
161802 GGCGATTGTTAAAAAAAT
66 GGCGATTGTTAAAAAAAT
** * * * *
161820 GCCACTATAAACGTCTCTATTACGGTGTTTGAACTATAAACGCCGCTAAATTACCACTCTATTGC
1 GCCACTATAAACAACACTATAACGGTGTTTGAACTAAAAACGCCGCTAAATTACCAATCTATTGC
* *
161885 GGCGTTTGTTTAAAAAA
66 GGCGATTGTTAAAAAAA
161902 CGCCGCTAAA
Statistics
Matches: 68, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
82 25 0.37
83 43 0.63
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (83 bp):
GCCACTATAAACAACACTATAACGGTGTTTGAACTAAAAACGCCGCTAAATTACCAATCTATTGC
GGCGATTGTTAAAAAAAT
Found at i:162369 original size:31 final size:31
Alignment explanation
Indices: 162299--162420 Score: 181
Period size: 31 Copynumber: 3.9 Consensus size: 31
162289 GAGTTTTATG
* * *
162299 AATGACGCGTCCTAGGGAACGCACCTCCCTTG
1 AATGGCGCGTCTTAGGGAACGCACCT-CCTTT
162331 AATGGCGCGTCTTAGGGAACGCACCTCCTTT
1 AATGGCGCGTCTTAGGGAACGCACCTCCTTT
*
162362 AATGGCGCGTCTTAGGGAACACACCTCCTTT
1 AATGGCGCGTCTTAGGGAACGCACCTCCTTT
* *
162393 AATGGCGCGTCGTAGGGAACGCGCCTCC
1 AATGGCGCGTCTTAGGGAACGCACCTCC
162421 CATGCCCGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
31 59 0.71
32 24 0.29
ACGTcount: A:0.20, C:0.31, G:0.27, T:0.21
Consensus pattern (31 bp):
AATGGCGCGTCTTAGGGAACGCACCTCCTTT
Found at i:162747 original size:31 final size:30
Alignment explanation
Indices: 162685--162748 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
162675 TCATATTGTA
** *
162685 AAAATAAAAAAGCTGAAATCACATTAATTG
1 AAAATAAAAAAAATGAAATAACATTAATTG
162715 AAAATAAAAGAAAATGAAATAACA-TAAGTTG
1 AAAATAAAA-AAAATGAAATAACATTAA-TTG
162746 AAA
1 AAA
162749 CATTAGAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
30 12 0.41
31 17 0.59
ACGTcount: A:0.62, C:0.06, G:0.11, T:0.20
Consensus pattern (30 bp):
AAAATAAAAAAAATGAAATAACATTAATTG
Found at i:166892 original size:2 final size:2
Alignment explanation
Indices: 166879--166942 Score: 119
Period size: 2 Copynumber: 31.5 Consensus size: 2
166869 ATATTTTATT
166879 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
166922 TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA T
166943 TGATAAAAAG
Statistics
Matches: 61, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 59 0.97
3 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:175842 original size:13 final size:13
Alignment explanation
Indices: 175824--175848 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
175814 ACCAGTCTGA
175824 ACCGACCCGACCG
1 ACCGACCCGACCG
175837 ACCGACCCGACC
1 ACCGACCCGACC
175849 CGACTGTTGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.56, G:0.20, T:0.00
Consensus pattern (13 bp):
ACCGACCCGACCG
Found at i:184781 original size:7 final size:7
Alignment explanation
Indices: 184769--184838 Score: 51
Period size: 7 Copynumber: 10.3 Consensus size: 7
184759 AAAGAAGGGG
184769 AGAAGAA
1 AGAAGAA
184776 AGAAGAGA
1 AGAAGA-A
184784 A-AAG-A
1 AGAAGAA
*
184789 GGAAGAA
1 AGAAGAA
184796 AGAAGAGA
1 AGAAGA-A
*
184804 A-AAGAG
1 AGAAGAA
184810 A-AAGAA
1 AGAAGAA
184816 AGAAG-A
1 AGAAGAA
*
184822 ACAAGAA
1 AGAAGAA
184829 GAGAAGAA
1 -AGAAGAA
184837 AG
1 AG
184839 TTAAAGTTAG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
5 1 0.02
6 14 0.28
7 25 0.50
8 10 0.20
ACGTcount: A:0.67, C:0.01, G:0.31, T:0.00
Consensus pattern (7 bp):
AGAAGAA
Found at i:184793 original size:20 final size:20
Alignment explanation
Indices: 184770--184821 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
184760 AAGAAGGGGA
184770 GAAGAAAGAAGAGAAAAGAG
1 GAAGAAAGAAGAGAAAAGAG
184790 GAAGAAAGAAGAGAAAAGAG
1 GAAGAAAGAAGAGAAAAGAG
*
184810 AAAGAAAGAAGA
1 GAAGAAAGAAGA
184822 ACAAGAAGAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (20 bp):
GAAGAAAGAAGAGAAAAGAG
Found at i:184797 original size:10 final size:10
Alignment explanation
Indices: 184769--184822 Score: 51
Period size: 10 Copynumber: 5.4 Consensus size: 10
184759 AAAGAAGGGG
184769 AGAAGAAAGA
1 AGAAGAAAGA
184779 AG-AGAAAAGA
1 AGAAG-AAAGA
*
184789 GGAAGAAAGA
1 AGAAGAAAGA
184799 AG-AGAAA-A
1 AGAAGAAAGA
184807 GAGAAAGAAAGA
1 -AG-AAGAAAGA
184819 AGAA
1 AGAA
184823 CAAGAAGAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
8 1 0.03
9 9 0.25
10 16 0.44
11 9 0.25
12 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (10 bp):
AGAAGAAAGA
Found at i:184820 original size:27 final size:28
Alignment explanation
Indices: 184754--184836 Score: 82
Period size: 27 Copynumber: 2.9 Consensus size: 28
184744 CACCGGGAGT
**
184754 GAAAGAAAGAAGGGGAGAAGA-AAGAAGA
1 GAAAGAAAGAA-GAAAGAAGAGAAGAAGA
*
184782 GAAA-AGAGGAAGAAAGAAGAGAA-AAGA
1 GAAAGA-AAGAAGAAAGAAGAGAAGAAGA
184809 GAAAGAAAGAAGAACAAGAAGAGAAGAA
1 GAAAGAAAGAAG-A-AAGAAGAGAAGAA
184837 AGTTAAAGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
27 21 0.47
28 12 0.27
29 10 0.22
30 2 0.04
ACGTcount: A:0.65, C:0.01, G:0.34, T:0.00
Consensus pattern (28 bp):
GAAAGAAAGAAGAAAGAAGAGAAGAAGA
Found at i:187080 original size:64 final size:63
Alignment explanation
Indices: 187012--187192 Score: 209
Period size: 64 Copynumber: 2.8 Consensus size: 63
187002 TTGGAACACT
* *** *
187012 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAGAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGA-AAAAAGCC
** * **
187076 TGATGCATCGATGCATGGCTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAAAGCC
* * * *
187140 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
187193 CAATTAATTC
Statistics
Matches: 98, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
64 52 0.53
65 46 0.47
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAAAGCC
Found at i:187164 original size:19 final size:19
Alignment explanation
Indices: 187140--187190 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
187130 GAAAAAATTC
187140 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
187159 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
187178 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
187191 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:187166 original size:65 final size:65
Alignment explanation
Indices: 187033--187192 Score: 207
Period size: 65 Copynumber: 2.5 Consensus size: 65
187023 TGCACCAAGT
* * ***
187033 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAGAAATAGCCTGATGCATCGATGCATGGCTT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAGAAAAAGCCAGATGCATCGATGCATGGAGA
* **
187097 GTGCATCGATGCATCAAATGCATTCGATGTTTTGA-AAAAATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAGAAAAAGCCAGA-TGCATCGATGCATGGAG
187161 A
65 A
* *
187162 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
187193 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 35 0.42
65 48 0.58
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAGAAAAAGCCAGATGCATCGATGCATGGAGA
Found at i:187232 original size:65 final size:63
Alignment explanation
Indices: 187034--187241 Score: 197
Period size: 65 Copynumber: 3.2 Consensus size: 63
187024 GCACCAAGTG
* * * ** * *
187034 TGCATCGATGCATGAAATGCATTCGATGTTTGAGAAATAGCCTGATGCATCGATGCATGGCTTG-
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCA-AAAAATTCAGATGCATCGATGCAT-GCATGA
* * * *
187098 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAATTCAGAGTGCATCGATGCATGGA-GA
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAAAATTCAGA-TGCATCGATGCATGCATGA
* **
187162 GTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCATCGATGCATCGATGCATGCACT
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAAATTCA--GATGCATCGATGCATGCA-T
187226 GA
62 GA
187228 TGCATCGGTGCATG
1 TGCATCGGTGCATG
187242 CCTTTGAATA
Statistics
Matches: 122, Mismatches: 14, Indels: 15
0.81 0.09 0.10
Matches are distributed among these distances:
63 11 0.09
64 50 0.41
65 59 0.48
66 2 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (63 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAAATTCAGATGCATCGATGCATGCATGA
Found at i:195718 original size:19 final size:19
Alignment explanation
Indices: 195694--195744 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
195684 GAAAAAATTC
195694 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
195713 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
195732 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
195745 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:195786 original size:65 final size:64
Alignment explanation
Indices: 195590--195795 Score: 183
Period size: 65 Copynumber: 3.2 Consensus size: 64
195580 GCACCAAGTG
* * * ** *
195590 TGCATCGATGCATG--ATGCATTCGATGTTTGAGAAATAGCCTGATGCATCGATGCATGG-CTTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCA-AAAAATTCAGATGCATCGATGCATGGAC-TG
195652 -
64 A
* * *
195652 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAAAATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAAAATTCAGA-TGCATCGATGCATGGACTG
195715 A
64 A
* ** *
195716 GTGCATCGGTGCATGGAATGCATTCGATG-TTCAATTAATTCATCGATGCATTGATGCATGGACT
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAAATTCA--GATGCATCGATGCATGGACT
195780 GA
63 GA
195782 TGCATCGGTGCATG
1 TGCATCGGTGCATG
195796 CCTTTGAATA
Statistics
Matches: 121, Mismatches: 12, Indels: 19
0.80 0.08 0.12
Matches are distributed among these distances:
62 13 0.11
63 11 0.09
64 34 0.28
65 61 0.50
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (64 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAAATTCAGATGCATCGATGCATGGACTGA
Found at i:197076 original size:19 final size:19
Alignment explanation
Indices: 197038--197074 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
197028 AAACAAGTAA
197038 ATTTTTTAATAAATTTTTT
1 ATTTTTTAATAAATTTTTT
*
197057 ATTTTTTAA-ATATTTTTT
1 ATTTTTTAATAAATTTTTT
197075 TACCTTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (19 bp):
ATTTTTTAATAAATTTTTT
Found at i:197418 original size:113 final size:114
Alignment explanation
Indices: 197284--197640 Score: 379
Period size: 113 Copynumber: 3.1 Consensus size: 114
197274 ATTCGAAGAT
*
197284 TAAATTAATTTTATTTATTAAAATTAGGACTAAATTGATAGAATCTATAAGTGAAAGTGACAAAA
1 TAAATTAATTTTAATTATTAAAATTAGGACTAAATTGATAGAAT-TATAAGT-AAAGTGACAAAA
* * *
197349 TGTAATTATATCAATTTTATTAAACTCTAAAACTTAAGATGAGAT-AAAATA
64 TGTAACTATATC-ATTTTATTAAATTTTAAAACTTAAGATGAGATAAAAATA
* *
197400 TAAA-TAATTTTAA-T-TTAAAATTACGACTAAATTGATAGAATATAAAAGTATAAGTGACAAAT
1 TAAATTAATTTTAATTATTAAAATTAGGACTAAATTGATAGAAT-TATAAGTA-AAGTGACAAA-
* *
197462 AT-AACACTATATCATTTTCATTAAATTTTAAAATTTAAGATGGGTGAGATAAAAAATA
63 ATGTA-ACTATATCATTTT-ATTAAATTTTAAAACTTAAGA----TGAGAT-AAAAATA
* * *
197520 TAAATTAATTTTAATTTATTAAAATTAGGACTAAATTGATAGAATAATAAGTCAAATTGAC-CAA
1 TAAATTAATTTTAA-TTATTAAAATTAGGACTAAATTGATAGAATTATAAGT-AAAGTGACAAAA
* * *
197584 TGT--GTATTATCATTTGATTAAATTTTAAAAGTTAAGATGAGATAAAAATA
64 TGTAACTA-TATCATTTTATTAAATTTTAAAACTTAAGATGAGATAAAAATA
*
197634 TATATTA
1 TAAATTA
197641 TGTTTTTGTT
Statistics
Matches: 205, Mismatches: 19, Indels: 36
0.79 0.07 0.14
Matches are distributed among these distances:
112 1 0.00
113 48 0.23
114 41 0.20
115 14 0.07
116 4 0.02
118 6 0.03
119 22 0.11
120 18 0.09
121 11 0.05
122 1 0.00
123 12 0.06
124 27 0.13
ACGTcount: A:0.48, C:0.05, G:0.10, T:0.37
Consensus pattern (114 bp):
TAAATTAATTTTAATTATTAAAATTAGGACTAAATTGATAGAATTATAAGTAAAGTGACAAAATG
TAACTATATCATTTTATTAAATTTTAAAACTTAAGATGAGATAAAAATA
Found at i:200265 original size:12 final size:12
Alignment explanation
Indices: 200247--200289 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
200237 ACTATACGGT
200247 ATGAACAATACC
1 ATGAACAATACC
* *
200259 TTGAACAGTA--
1 ATGAACAATACC
200269 ATGAACAATACC
1 ATGAACAATACC
200281 ATGAACAAT
1 ATGAACAAT
200290 GCTACATTGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 8 0.32
12 17 0.68
ACGTcount: A:0.49, C:0.19, G:0.12, T:0.21
Consensus pattern (12 bp):
ATGAACAATACC
Found at i:202834 original size:15 final size:15
Alignment explanation
Indices: 202814--202844 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
202804 ACATATATAA
202814 TTTAATTACCTAGAC
1 TTTAATTACCTAGAC
202829 TTTAATTACCTAGAC
1 TTTAATTACCTAGAC
202844 T
1 T
202845 ATCAAAACTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (15 bp):
TTTAATTACCTAGAC
Found at i:204622 original size:29 final size:29
Alignment explanation
Indices: 204587--204647 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
204577 TATAAATATT
**
204587 GGAGGACAACTTTGTAACTTTTAATAGTC
1 GGAGGACAACTTTACAACTTTTAATAGTC
*
204616 GGAGGACCACTTTACAACTTTTAATAGTC
1 GGAGGACAACTTTACAACTTTTAATAGTC
204645 GGA
1 GGA
204648 TACTCAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.16, G:0.21, T:0.31
Consensus pattern (29 bp):
GGAGGACAACTTTACAACTTTTAATAGTC
Done.