Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 20 of 62
Found at i:4352203 original size:30 final size:30
Alignment explanation
Indices: 4352143--4352319 Score: 149
Period size: 30 Copynumber: 5.9 Consensus size: 30
4352133 TACAAGAACC
* * *
4352143 AAAATAGCAAAAACAGAAACTGAAAGGACT
1 AAAATAGCAAAAACAAAAATTTAAAGGACT
* * *
4352173 AAAATGGCATAAACAAAAATTTAAAAGACT
1 AAAATAGCAAAAACAAAAATTTAAAGGACT
* * * * *
4352203 ATAATAGCACAAGCAAAAACTTAAGGGACT
1 AAAATAGCAAAAACAAAAATTTAAAGGACT
* * *
4352233 -AAATAGAAAAAACATACATTTAAAGGACT
1 AAAATAGCAAAAACAAAAATTTAAAGGACT
* *** * *
4352262 AAAATAGTAAAAATTGAAATTTAAGGGATT
1 AAAATAGCAAAAACAAAAATTTAAAGGACT
* *
4352292 AAAATAGCAAAAATAGAAATTTAAAGGA
1 AAAATAGCAAAAACAAAAATTTAAAGGA
4352320 TCAGAATAGC
Statistics
Matches: 115, Mismatches: 31, Indels: 2
0.78 0.21 0.01
Matches are distributed among these distances:
29 21 0.18
30 94 0.82
ACGTcount: A:0.58, C:0.09, G:0.14, T:0.19
Consensus pattern (30 bp):
AAAATAGCAAAAACAAAAATTTAAAGGACT
Found at i:4352328 original size:30 final size:30
Alignment explanation
Indices: 4352250--4352331 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 30
4352240 AAAAACATAC
* *
4352250 ATTTAAAGGA-CTAAAATAGTAAAAATTGAA
1 ATTTAAAGGATC-AAAATAGCAAAAATAGAA
* *
4352280 ATTTAAGGGATTAAAATAGCAAAAATAGAA
1 ATTTAAAGGATCAAAATAGCAAAAATAGAA
*
4352310 ATTTAAAGGATCAGAATAGCAA
1 ATTTAAAGGATCAAAATAGCAA
4352332 TTATAAATAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 44 1.00
ACGTcount: A:0.55, C:0.05, G:0.16, T:0.24
Consensus pattern (30 bp):
ATTTAAAGGATCAAAATAGCAAAAATAGAA
Found at i:4354273 original size:58 final size:58
Alignment explanation
Indices: 4354183--4354299 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
4354173 GTACTTTTAA
4354183 TGCCGTAACTCTGCAGATAGCGATATGGAAAAAAAGCTAATTTAATATTGCTATTCTT
1 TGCCGTAACTCTGCAGATAGCGATATGGAAAAAAAGCTAATTTAATATTGCTATTCTT
4354241 TGCCGTAACTCTGCAGATAGCGATATGGAAAAAAAGCTAATTTAATATTGCTATTCTT
1 TGCCGTAACTCTGCAGATAGCGATATGGAAAAAAAGCTAATTTAATATTGCTATTCTT
4354299 T
1 T
4354300 TTGTTGAGGA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (58 bp):
TGCCGTAACTCTGCAGATAGCGATATGGAAAAAAAGCTAATTTAATATTGCTATTCTT
Found at i:4356984 original size:13 final size:13
Alignment explanation
Indices: 4356968--4357111 Score: 118
Period size: 13 Copynumber: 11.2 Consensus size: 13
4356958 AATATAAGTT
4356968 TATATATAAACTA
1 TATATATAAACTA
4356981 TATATATAAACTA
1 TATATATAAACTA
*
4356994 TGTATATAAACTA
1 TATATATAAACTA
* *
4357007 TAT-T-TATATTA
1 TATATATAAACTA
*
4357018 TAAACTATATAA-T-
1 TATA-TATA-AACTA
*
4357031 TAT-TATAAGCTA
1 TATATATAAACTA
*
4357043 TATATATAAATTA
1 TATATATAAACTA
* *
4357056 TGTTTATATGAACTA
1 --TATATATAAACTA
4357071 TATATATAAACTA
1 TATATATAAACTA
* *
4357084 TATATGTAAAATA
1 TATATATAAACTA
*
4357097 TATATGTAAACTA
1 TATATATAAACTA
4357110 TA
1 TA
4357112 AAAAGTATAT
Statistics
Matches: 104, Mismatches: 18, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
10 1 0.01
11 12 0.12
12 4 0.04
13 73 0.70
14 3 0.03
15 11 0.11
ACGTcount: A:0.48, C:0.06, G:0.04, T:0.42
Consensus pattern (13 bp):
TATATATAAACTA
Found at i:4357028 original size:20 final size:19
Alignment explanation
Indices: 4356998--4357049 Score: 72
Period size: 18 Copynumber: 2.8 Consensus size: 19
4356988 AAACTATGTA
*
4356998 TATAAACTATATTTA-TAT
1 TATAAACTATATATATTAT
4357016 TATAAACTATATA-ATTAT
1 TATAAACTATATATATTAT
*
4357034 TATAAGCTATATATAT
1 TATAAACTATATATAT
4357050 AAATTATGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 1 0.03
18 27 0.90
19 2 0.07
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (19 bp):
TATAAACTATATATATTAT
Found at i:4357055 original size:20 final size:18
Alignment explanation
Indices: 4356998--4357056 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
4356988 AAACTATGTA
*
4356998 TATAAACTATAT-TTATAT
1 TATAAACTATATAATA-AT
*
4357016 TATAAACTATATAATTAT
1 TATAAACTATATAATAAT
*
4357034 TATAAGCTATATATATAAAT
1 TATAAACTATATA-AT-AAT
4357054 TAT
1 TAT
4357057 GTTTATATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 26 0.76
19 3 0.09
20 5 0.15
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.46
Consensus pattern (18 bp):
TATAAACTATATAATAAT
Found at i:4357255 original size:19 final size:19
Alignment explanation
Indices: 4357231--4357308 Score: 57
Period size: 19 Copynumber: 3.6 Consensus size: 19
4357221 TTTATTTTAT
4357231 TTGGGAATTTAGAGGGAAA
1 TTGGGAATTTAGAGGGAAA
4357250 TTGGGAAATTTTGAGAATATAGGGAAA
1 TTGGG-AA-TTT-AG-----AGGGAAA
*
4357277 TTGAGAATTTAGAGGGAAA
1 TTGGGAATTTAGAGGGAAA
*
4357296 TTGAGAAATTTAG
1 TTG-GGAATTTAG
4357309 GGTCCGTTTG
Statistics
Matches: 47, Mismatches: 3, Indels: 17
0.70 0.04 0.25
Matches are distributed among these distances:
19 15 0.32
20 9 0.19
21 3 0.06
22 2 0.04
24 2 0.04
25 3 0.06
26 2 0.04
27 11 0.23
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (19 bp):
TTGGGAATTTAGAGGGAAA
Found at i:4357282 original size:17 final size:18
Alignment explanation
Indices: 4357260--4357302 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
4357250 TTGGGAAATT
*
4357260 TTGAGAA-TATAGGGAAA
1 TTGAGAATTAGAGGGAAA
4357277 TTGAGAATTTAGAGGGAAA
1 TTGAGAA-TTAGAGGGAAA
4357296 TTGAGAA
1 TTGAGAA
4357303 ATTTAGGGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
19 16 0.70
ACGTcount: A:0.44, C:0.00, G:0.30, T:0.26
Consensus pattern (18 bp):
TTGAGAATTAGAGGGAAA
Found at i:4357307 original size:20 final size:19
Alignment explanation
Indices: 4357270--4357308 Score: 69
Period size: 19 Copynumber: 2.0 Consensus size: 19
4357260 TTGAGAATAT
4357270 AGGGAAATTGAGAATTTAG
1 AGGGAAATTGAGAATTTAG
4357289 AGGGAAATTGAGAAATTTAG
1 AGGGAAATTGAG-AATTTAG
4357309 GGTCCGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.44, C:0.00, G:0.31, T:0.26
Consensus pattern (19 bp):
AGGGAAATTGAGAATTTAG
Found at i:4358311 original size:48 final size:49
Alignment explanation
Indices: 4358235--4358328 Score: 181
Period size: 48 Copynumber: 1.9 Consensus size: 49
4358225 TCTTGGTCCA
4358235 GAAATGCCAATGAAAGTGATGCATTCAGTTTATCTGATAGTAGCCTAAT
1 GAAATGCCAATGAAAGTGATGCATTCAGTTTATCTGATAGTAGCCTAAT
4358284 GAAA-GCCAATGAAAGTGATGCATTCAGTTTATCTGATAGTAGCCT
1 GAAATGCCAATGAAAGTGATGCATTCAGTTTATCTGATAGTAGCCT
4358329 TAAACCCTCA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
48 41 0.91
49 4 0.09
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (49 bp):
GAAATGCCAATGAAAGTGATGCATTCAGTTTATCTGATAGTAGCCTAAT
Found at i:4359361 original size:21 final size:21
Alignment explanation
Indices: 4359335--4359377 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
4359325 TTTCTGGGTT
* *
4359335 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCATTCA
*
4359356 AGGGGAACCGATACCCCTTCA
1 AGGGGAACCGATACCCATTCA
4359377 A
1 A
4359378 CGAATGAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.28, G:0.26, T:0.16
Consensus pattern (21 bp):
AGGGGAACCGATACCCATTCA
Found at i:4359480 original size:67 final size:66
Alignment explanation
Indices: 4359357--4359506 Score: 205
Period size: 68 Copynumber: 2.3 Consensus size: 66
4359347 ACCCATTCAA
*
4359357 GGGGAACCGATACCCCTTCAACGAATGAATTCCAGAATGCAAGAGGGGAATCGATACCCCCA-GG
1 GGGGAACCGATACCCCCTCAACGAATGAATTCCAGAATGCAAGAGGGGAATCGATACCCCCAGGG
4359421 G
66 G
* * **
4359422 GGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCTTGA-GGGAATCGATACCCCCA
1 GGGGAACCGATACCCCCTCAACG-A-ATG-AATTCCAGAATGCAAGAGGGGAATCGATACCCCCA
4359486 GGGG
63 GGGG
*
4359490 GGGGAACCGATTCCCCC
1 GGGGAACCGATACCCCC
4359507 ATGAGAAAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
65 21 0.28
66 1 0.01
67 20 0.27
68 33 0.44
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (66 bp):
GGGGAACCGATACCCCCTCAACGAATGAATTCCAGAATGCAAGAGGGGAATCGATACCCCCAGGG
G
Found at i:4359839 original size:29 final size:29
Alignment explanation
Indices: 4359805--4359874 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
4359795 CATATTATGA
**
4359805 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
**
4359834 TACATGACATGAATTCATATTGTATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
4359863 TACATGACATGA
1 TACATGACATGA
4359875 TTATGCAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:4359932 original size:30 final size:32
Alignment explanation
Indices: 4359890--4359950 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
4359880 CAGAAAAGTT
*
4359890 ATATGCACTATGTG-ATAAAGGTATGTAAATG
1 ATATGCACTATGTGTATAAAGGTATGGAAATG
*
4359921 ATATGC-CTATGTGTTTAAAGGTATGGAAAT
1 ATATGCACTATGTGTATAAAGGTATGGAAAT
4359951 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (32 bp):
ATATGCACTATGTGTATAAAGGTATGGAAATG
Found at i:4366251 original size:66 final size:65
Alignment explanation
Indices: 4366174--4366320 Score: 181
Period size: 66 Copynumber: 2.2 Consensus size: 65
4366164 ACCCATTCAA
*
4366174 GGGAACCGATACCCCTTCAACG-AAATGAATTTCCAGAATGC-AAGAGGAATCGATACCCCCAGG
1 GGGAACCGATACCCC-TCAACGTAAATGAAATTCCAGAATGCTAAGAGGAATCGATACCCCCA--
4366237 GGG
63 GGG
* * * * *
4366240 GGGAACCGATACCCCTCATCGTATATGAAATTCCAGATTGCTTGAGGGGAATCGATACCCCCAGG
1 GGGAACCGATACCCCTCAACGTAAATGAAATTCCAGAATGC-TAAGAGGAATCGATACCCCCAGG
4366305 G
65 G
*
4366306 GGGAACCGATTCCCC
1 GGGAACCGATACCCC
4366321 ATGAGAAAAA
Statistics
Matches: 71, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
65 5 0.07
66 48 0.68
68 18 0.25
ACGTcount: A:0.29, C:0.27, G:0.26, T:0.18
Consensus pattern (65 bp):
GGGAACCGATACCCCTCAACGTAAATGAAATTCCAGAATGCTAAGAGGAATCGATACCCCCAGGG
Found at i:4366655 original size:29 final size:29
Alignment explanation
Indices: 4366621--4366690 Score: 104
Period size: 29 Copynumber: 2.4 Consensus size: 29
4366611 CATATTATGA
**
4366621 TACATGACATGAATTTGTATTAAATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
**
4366650 TACATGACATGAATTCATATTGTATGTAT
1 TACATGACATGAATTCATATTAAATGTAT
4366679 TACATGACATGA
1 TACATGACATGA
4366691 TTATGCAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (29 bp):
TACATGACATGAATTCATATTAAATGTAT
Found at i:4366748 original size:30 final size:31
Alignment explanation
Indices: 4366706--4366765 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
4366696 CAGAAAAGTT
*
4366706 ATATGCACTATGTGATAAAGGTATGTAAATG
1 ATATGCACTATGTGATAAAGGTATGGAAATG
*
4366737 ATATGC-CTATGTGTTAAAGGTATGGAAAT
1 ATATGCACTATGTGATAAAGGTATGGAAAT
4366766 ACTATGTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 21 0.78
31 6 0.22
ACGTcount: A:0.37, C:0.07, G:0.23, T:0.33
Consensus pattern (31 bp):
ATATGCACTATGTGATAAAGGTATGGAAATG
Found at i:4367059 original size:22 final size:22
Alignment explanation
Indices: 4366985--4367051 Score: 134
Period size: 22 Copynumber: 3.0 Consensus size: 22
4366975 TTATGGACAT
4366985 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
4367007 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
4367029 AATTCTACGGGCACTTCGGTGC
1 AATTCTACGGGCACTTCGGTGC
4367051 A
1 A
4367052 TTTATACGAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (22 bp):
AATTCTACGGGCACTTCGGTGC
Found at i:4368779 original size:2 final size:2
Alignment explanation
Indices: 4368772--4368802 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4368762 TACTTTTAAT
4368772 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4368803 GAAATACTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:4369061 original size:7 final size:7
Alignment explanation
Indices: 4369051--4369117 Score: 71
Period size: 7 Copynumber: 9.6 Consensus size: 7
4369041 TTTATAAAAA
4369051 AAACCCT
1 AAACCCT
4369058 AAACCCT
1 AAACCCT
4369065 AAACCCT
1 AAACCCT
* **
4369072 GAACTTT
1 AAACCCT
4369079 AAACCCT
1 AAACCCT
**
4369086 AAACTTT
1 AAACCCT
*
4369093 AAACCTT
1 AAACCCT
4369100 AAACCCT
1 AAACCCT
*
4369107 AAACCTT
1 AAACCCT
4369114 AAAC
1 AAAC
4369118 TATATACGTA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 49 1.00
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.22
Consensus pattern (7 bp):
AAACCCT
Found at i:4369081 original size:21 final size:21
Alignment explanation
Indices: 4369051--4369117 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
4369041 TTTATAAAAA
*
4369051 AAACCCTAAACCCTAAACCCT
1 AAACCTTAAACCCTAAACCCT
* * **
4369072 GAACTTTAAACCCTAAACTTT
1 AAACCTTAAACCCTAAACCCT
*
4369093 AAACCTTAAACCCTAAACCTT
1 AAACCTTAAACCCTAAACCCT
4369114 AAAC
1 AAAC
4369118 TATATACGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.43, C:0.33, G:0.01, T:0.22
Consensus pattern (21 bp):
AAACCTTAAACCCTAAACCCT
Found at i:4369344 original size:24 final size:24
Alignment explanation
Indices: 4369305--4369371 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
4369295 TATATAAATA
* *
4369305 TATATATATAACCTATAGTATATG-
1 TATATATACAATCTAT-GTATATGT
*
4369329 TATATATACAATCTATTTATATGT
1 TATATATACAATCTATGTATATGT
* *
4369353 TATATAAACAATATATGTA
1 TATATATACAATCTATGTA
4369372 ACCTATAGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.17
24 30 0.83
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (24 bp):
TATATATACAATCTATGTATATGT
Found at i:4369399 original size:21 final size:20
Alignment explanation
Indices: 4369375--4369465 Score: 74
Period size: 21 Copynumber: 4.3 Consensus size: 20
4369365 ATATGTAACC
*
4369375 TATAGTTTATAAAAAATAGTT
1 TATA-TTTATAAAATATAGTT
**
4369396 TATATTAGTATACTATATAGTT
1 TATATT--TATAAAATATAGTT
** *
4369418 TATACTTTATAACCTATAGTA
1 TATA-TTTATAAAATATAGTT
*
4369439 TATAATTTATAAATTATAGTT
1 TAT-ATTTATAAAATATAGTT
4369460 TATATT
1 TATATT
4369466 AATGTACTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 9
0.75 0.13 0.12
Matches are distributed among these distances:
20 5 0.09
21 33 0.59
22 16 0.29
23 2 0.04
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (20 bp):
TATATTTATAAAATATAGTT
Found at i:4369500 original size:22 final size:21
Alignment explanation
Indices: 4369450--4369500 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 21
4369440 ATAATTTATA
*
4369450 AATTATAGTTTATATTAATGT
1 AATTATAATTTATATTAATGT
*
4369471 ACTATATAATTTATATTAATGTT
1 AAT-TATAATTTATATTAATG-T
4369494 AATTATA
1 AATTATA
4369501 TTAACTATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 2 0.08
22 20 0.80
23 3 0.12
ACGTcount: A:0.41, C:0.02, G:0.06, T:0.51
Consensus pattern (21 bp):
AATTATAATTTATATTAATGT
Found at i:4369501 original size:15 final size:14
Alignment explanation
Indices: 4369481--4369529 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 14
4369471 ACTATATAAT
4369481 TTATATTAATGTTAA
1 TTATATTAAT-TTAA
*
4369496 TTATATTAACTATAA
1 TTATATTAA-TTTAA
4369511 TTTATATTAATATTAA
1 -TTATATTAAT-TTAA
4369527 TTA
1 TTA
4369530 CAAATTATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 16 0.55
16 13 0.45
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (14 bp):
TTATATTAATTTAA
Found at i:4369515 original size:16 final size:15
Alignment explanation
Indices: 4369474--4369528 Score: 67
Period size: 16 Copynumber: 3.5 Consensus size: 15
4369464 TTAATGTACT
4369474 ATATAATTTATATTA
1 ATATAATTTATATTA
*
4369489 ATGTTAA-TTATATTA
1 AT-ATAATTTATATTA
4369504 ACTATAATTTATATTA
1 A-TATAATTTATATTA
4369520 ATATTAATT
1 ATA-TAATT
4369529 ACAAATTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
15 16 0.47
16 18 0.53
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (15 bp):
ATATAATTTATATTA
Found at i:4369737 original size:15 final size:15
Alignment explanation
Indices: 4369717--4369747 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
4369707 ACACCAATCC
4369717 CCTACAGATGTCATA
1 CCTACAGATGTCATA
4369732 CCTACAGATGTCATA
1 CCTACAGATGTCATA
4369747 C
1 C
4369748 ACTTGACCCA
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:0.29, G:0.13, T:0.26
Consensus pattern (15 bp):
CCTACAGATGTCATA
Found at i:4370134 original size:34 final size:29
Alignment explanation
Indices: 4370076--4370140 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
4370066 TTTTATTAAT
*
4370076 TTTATTAAATAATTTTATATAATATTTCTA
1 TTTATTAAATAATTTCATATAATATTT-TA
4370106 TTTATTAATATAATTATCATAATAAATATTTTA
1 TTTATTAA-ATAATT-TCAT-AT-AATATTTTA
4370139 TT
1 TT
4370141 ATAACATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 8 0.27
31 6 0.20
32 3 0.10
33 6 0.20
34 7 0.23
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (29 bp):
TTTATTAAATAATTTCATATAATATTTTA
Found at i:4370309 original size:16 final size:16
Alignment explanation
Indices: 4370290--4370360 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
4370280 CAGATCATTT
4370290 ACAGGTCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
*
4370306 ACAGATCAGGTTAAAA
1 ACAGGTCAGGTTAAAA
* *
4370322 ACATGTCATGTTAAAA
1 ACAGGTCAGGTTAAAA
* * *
4370338 ACATGTAAGGTTGAAA
1 ACAGGTCAGGTTAAAA
4370354 ACAGGTC
1 ACAGGTC
4370361 GGGTAATACC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.44, C:0.13, G:0.21, T:0.23
Consensus pattern (16 bp):
ACAGGTCAGGTTAAAA
Found at i:4373747 original size:17 final size:18
Alignment explanation
Indices: 4373725--4373758 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4373715 TCAGCCGGCC
4373725 CGGTTC-GAACGGTTCAG
1 CGGTTCTGAACGGTTCAG
*
4373742 CGGTTCTGACCGGTTCA
1 CGGTTCTGAACGGTTCA
4373759 CTAATAGCGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.15, C:0.26, G:0.32, T:0.26
Consensus pattern (18 bp):
CGGTTCTGAACGGTTCAG
Found at i:4378783 original size:15 final size:15
Alignment explanation
Indices: 4378754--4378798 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
4378744 ACATCCAACA
* *
4378754 TCACCAAAAACTACT
1 TCACCAACAATTACT
* *
4378769 TCACCCATAATTACT
1 TCACCAACAATTACT
4378784 TCACCAACAATTACT
1 TCACCAACAATTACT
4378799 CCTATTGCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (15 bp):
TCACCAACAATTACT
Found at i:4390531 original size:43 final size:43
Alignment explanation
Indices: 4390484--4390614 Score: 101
Period size: 43 Copynumber: 3.1 Consensus size: 43
4390474 ACCAAAGGAC
4390484 CTTCCAAAGTCAAAAGCCCAAAGGAAACAAAACCTTCACTTGA
1 CTTCCAAAGTCAAAAGCCCAAAGGAAACAAAACCTTCACTTGA
* * * * * ** ***
4390527 CTTCC-CAGCCAAAAAG--TAAA--ATTACTAAAAGCACCAAAGGA
1 CTTCCAAAGTC-AAAAGCCCAAAGGA-AAC-AAAACCTTCACTTGA
4390568 CCTTCCAAAGTCAAAAGCCCAAAGGAAACAAAACCTTCACTTGA
1 -CTTCCAAAGTCAAAAGCCCAAAGGAAACAAAACCTTCACTTGA
4390612 CTT
1 CTT
4390615 TCCCACAAAA
Statistics
Matches: 59, Mismatches: 20, Indels: 18
0.61 0.21 0.19
Matches are distributed among these distances:
39 1 0.02
40 2 0.03
41 12 0.20
42 13 0.22
43 16 0.27
44 12 0.20
45 2 0.03
46 1 0.02
ACGTcount: A:0.44, C:0.27, G:0.11, T:0.17
Consensus pattern (43 bp):
CTTCCAAAGTCAAAAGCCCAAAGGAAACAAAACCTTCACTTGA
Found at i:4390590 original size:85 final size:86
Alignment explanation
Indices: 4390447--4390619 Score: 339
Period size: 85 Copynumber: 2.0 Consensus size: 86
4390437 GCCTTTCAAG
4390447 CAGCCAAAAAGTAAAATTACTAAAAGCACCAAAGGACCTTCCAAAGTCAAAAGCCCAAAGGAAAC
1 CAGCCAAAAAGTAAAATTACTAAAAGCACCAAAGGACCTTCCAAAGTCAAAAGCCCAAAGGAAAC
4390512 AAAACCTTCACTTGAC-TTCC
66 AAAACCTTCACTTGACTTTCC
4390532 CAGCCAAAAAGTAAAATTACTAAAAGCACCAAAGGACCTTCCAAAGTCAAAAGCCCAAAGGAAAC
1 CAGCCAAAAAGTAAAATTACTAAAAGCACCAAAGGACCTTCCAAAGTCAAAAGCCCAAAGGAAAC
4390597 AAAACCTTCACTTGACTTTCC
66 AAAACCTTCACTTGACTTTCC
4390618 CA
1 CA
4390620 CAAAACAAAT
Statistics
Matches: 87, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 81 0.93
86 6 0.07
ACGTcount: A:0.46, C:0.27, G:0.12, T:0.16
Consensus pattern (86 bp):
CAGCCAAAAAGTAAAATTACTAAAAGCACCAAAGGACCTTCCAAAGTCAAAAGCCCAAAGGAAAC
AAAACCTTCACTTGACTTTCC
Found at i:4392623 original size:18 final size:18
Alignment explanation
Indices: 4392602--4392690 Score: 71
Period size: 17 Copynumber: 5.2 Consensus size: 18
4392592 ATCTCTCATC
4392602 TTTTTTTTCTTTTCTTTT
1 TTTTTTTTCTTTTCTTTT
**
4392620 TTTTCATTCATTTT-TTTT
1 TTTTTTTTC-TTTTCTTTT
*
4392638 TGTTTTTTC--TTCTTTT
1 TTTTTTTTCTTTTCTTTT
* * *
4392654 TTTGTTTT-TTTCCTCTT
1 TTTTTTTTCTTTTCTTTT
*
4392671 TTTTTCTTC-TTTCTTTT
1 TTTTTTTTCTTTTCTTTT
4392688 TTT
1 TTT
4392691 AGTTTTTTTT
Statistics
Matches: 53, Mismatches: 13, Indels: 11
0.69 0.17 0.14
Matches are distributed among these distances:
15 2 0.04
16 10 0.19
17 20 0.38
18 17 0.32
19 4 0.08
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.82
Consensus pattern (18 bp):
TTTTTTTTCTTTTCTTTT
Found at i:4392635 original size:21 final size:20
Alignment explanation
Indices: 4392611--4392678 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
4392601 CTTTTTTTTC
4392611 TTTTCTTTTTTTTCATTCATT
1 TTTTCTTTTTTTTC-TTCATT
*
4392632 TTTTTTTGTTTTTTCTTC-TT
1 TTTTCTT-TTTTTTCTTCATT
* *
4392652 TTTT-TGTTTTTTTCCTCTTT
1 TTTTCT-TTTTTTTCTTCATT
4392672 TTTTCTT
1 TTTTCTT
4392679 CTTTCTTTTT
Statistics
Matches: 41, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
19 10 0.24
20 14 0.34
21 10 0.24
22 7 0.17
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.81
Consensus pattern (20 bp):
TTTTCTTTTTTTTCTTCATT
Found at i:4392638 original size:19 final size:19
Alignment explanation
Indices: 4392611--4392685 Score: 64
Period size: 19 Copynumber: 3.8 Consensus size: 19
4392601 CTTTTTTTTC
*
4392611 TTTTCTTTTTTTTCATTCATT
1 TTTTTTTTTTTTTC-TTCA-T
4392632 TTTTTTTGTTTTTTCTTC-T
1 TTTTTTT-TTTTTTCTTCAT
*
4392651 TTTTTTGTTTTTTTCCTC-T
1 TTTTTT-TTTTTTTCTTCAT
* *
4392670 TTTTTTCTTCTTTCTT
1 TTTTTTTTTTTTTCTT
4392686 TTTTTAGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
18 7 0.15
19 23 0.49
20 1 0.02
21 9 0.19
22 7 0.15
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.80
Consensus pattern (19 bp):
TTTTTTTTTTTTTCTTCAT
Found at i:4392638 original size:30 final size:32
Alignment explanation
Indices: 4392597--4392655 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
4392587 TAAGCATCTC
4392597 TCATCTTTTTTT-TCTTTTCTT-TTTTTTCAT
1 TCATCTTTTTTTGTCTTTTCTTCTTTTTTCAT
* *
4392627 TCATTTTTTTTTGTTTTTTCTTCTTTTTT
1 TCATCTTTTTTTGTCTTTTCTTCTTTTTT
4392656 TGTTTTTTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 8 0.32
32 6 0.24
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.80
Consensus pattern (32 bp):
TCATCTTTTTTTGTCTTTTCTTCTTTTTTCAT
Found at i:4392644 original size:11 final size:11
Alignment explanation
Indices: 4392600--4392700 Score: 62
Period size: 11 Copynumber: 8.9 Consensus size: 11
4392590 GCATCTCTCA
4392600 TCTTTTTTTTCT
1 TCTTTTTTTT-T
4392612 T-TTCTTTTTTT
1 TCTT-TTTTTTT
**
4392623 TCATTCATTTTT
1 TC-TTTTTTTTT
*
4392635 T-TTTGTTTTT
1 TCTTTTTTTTT
*
4392645 TCTTCTTTTTT
1 TCTTTTTTTTT
* **
4392656 TGTTTTTTTCC
1 TCTTTTTTTTT
*
4392667 TCTTTTTTTCT
1 TCTTTTTTTTT
4392678 TCTTTCTTTTTT
1 TCTTT-TTTTTT
*
4392690 TAGTTTTTTTT
1 T-CTTTTTTTT
4392701 AGCTCTTATG
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
10 8 0.12
11 32 0.46
12 24 0.35
13 5 0.07
ACGTcount: A:0.03, C:0.13, G:0.03, T:0.81
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:4392760 original size:20 final size:21
Alignment explanation
Indices: 4392737--4392775 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
4392727 CATGACCAAG
4392737 AAAA-TCA-ACTTCTGACAGCC
1 AAAACTCACACTT-TGACAGCC
4392757 AAAACTCACACTTTGACAG
1 AAAACTCACACTTTGACAG
4392776 TTTGGCATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.24
21 9 0.53
22 4 0.24
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (21 bp):
AAAACTCACACTTTGACAGCC
Found at i:4397984 original size:31 final size:30
Alignment explanation
Indices: 4397909--4397984 Score: 80
Period size: 30 Copynumber: 2.5 Consensus size: 30
4397899 AAATTACCAT
* * * * *
4397909 TTTAGTCCCTAAACTTTTCAAAGTTTATAC
1 TTTAGTCACTAAACTTTACAAAATTAATAA
*
4397939 TTTAGTCACCAAACTTTACAAAATCTAATAA
1 TTTAGTCACTAAACTTTACAAAAT-TAATAA
*
4397970 TTTGGTCACTAAACT
1 TTTAGTCACTAAACT
4397985 AAATCCATTT
Statistics
Matches: 37, Mismatches: 8, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
30 20 0.54
31 17 0.46
ACGTcount: A:0.36, C:0.20, G:0.07, T:0.38
Consensus pattern (30 bp):
TTTAGTCACTAAACTTTACAAAATTAATAA
Found at i:4403284 original size:14 final size:14
Alignment explanation
Indices: 4403267--4403305 Score: 62
Period size: 13 Copynumber: 2.9 Consensus size: 14
4403257 CAAACTAAAT
4403267 AATAAAAACAATTA
1 AATAAAAACAATTA
4403281 AATAAAAAC-ATTA
1 AATAAAAACAATTA
*
4403294 AATACAAACAAT
1 AATAAAAACAAT
4403306 ATAATTCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (14 bp):
AATAAAAACAATTA
Found at i:4403300 original size:41 final size:42
Alignment explanation
Indices: 4403255--4403381 Score: 107
Period size: 44 Copynumber: 2.9 Consensus size: 42
4403245 AGTAAAAAAT
4403255 TACAAACTAAATAATAAAAACAATTAAATAAAAACATTAA-A
1 TACAAACTAAATAATAAAAACAATTAAATAAAAACATTAACA
** *
4403296 TACAAAC-AATATAATTCAAACAATGAAATAATAAAAACATTAACA
1 TACAAACTAA-ATAATAAAAACAAT--TA-AATAAAAACATTAACA
* * * *
4403341 AACAAAATAAATAA-AAAGTTCATAATTAAATAAAAACATTA
1 TACAAACTAAATAATAAA---AACAATTAAATAAAAACATTA
4403382 CATTTACTGA
Statistics
Matches: 67, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
40 2 0.03
41 19 0.28
43 1 0.01
44 28 0.42
45 11 0.16
46 2 0.03
47 4 0.06
ACGTcount: A:0.65, C:0.10, G:0.02, T:0.23
Consensus pattern (42 bp):
TACAAACTAAATAATAAAAACAATTAAATAAAAACATTAACA
Found at i:4405204 original size:31 final size:31
Alignment explanation
Indices: 4405162--4405224 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
4405152 AGAGTCGAGG
*
4405162 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
*
4405193 GTTTACTTATGTTCTTCGGAACATATGGACT
1 GTTTACCTATGTTCTTCGGAACATATGGACT
4405224 G
1 G
4405225 GTCCTTCGGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.40
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGAACATATGGACT
Found at i:4405439 original size:31 final size:31
Alignment explanation
Indices: 4405404--4405500 Score: 133
Period size: 31 Copynumber: 3.1 Consensus size: 31
4405394 TATGTTACAG
4405404 ATTACCTATGTTCTTCTGGACATATGGACAT
1 ATTACCTATGTTCTTCTGGACATATGGACAT
* *
4405435 ATTACATATGTTCTT-TGGGACATATGGACAG
1 ATTACCTATGTTCTTCT-GGACATATGGACAT
* * *
4405466 GTTACCCATGTTCTTCGGGACATATGGACAT
1 ATTACCTATGTTCTTCTGGACATATGGACAT
4405497 ATTA
1 ATTA
4405501 TTATATGAGG
Statistics
Matches: 56, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
30 1 0.02
31 55 0.98
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.36
Consensus pattern (31 bp):
ATTACCTATGTTCTTCTGGACATATGGACAT
Found at i:4406765 original size:21 final size:21
Alignment explanation
Indices: 4406732--4406771 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4406722 ACCCTGCAGC
*
4406732 GGTGGCATCTGAACTGGCTGG
1 GGTGGCATCTGAAATGGCTGG
* *
4406753 GGTGGTATTTGAAATGGCT
1 GGTGGCATCTGAAATGGCT
4406772 ATAGTTGTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.17, C:0.12, G:0.40, T:0.30
Consensus pattern (21 bp):
GGTGGCATCTGAAATGGCTGG
Found at i:4409094 original size:21 final size:21
Alignment explanation
Indices: 4409043--4409095 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
4409033 ATTCTGACTA
4409043 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* * *
4409064 TTGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
4409085 TCGCAATGCGA
1 TCGCATTGCGA
4409096 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:4409110 original size:20 final size:20
Alignment explanation
Indices: 4409085--4409137 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
4409075 TTTTCCTAAT
4409085 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
4409105 TCGCAATGAGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
4409125 TCGTAACGCGAAT
1 TCGCAATGCGAAT
4409138 CTGACTATCG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:4409790 original size:20 final size:20
Alignment explanation
Indices: 4409743--4409834 Score: 78
Period size: 20 Copynumber: 4.6 Consensus size: 20
4409733 GTTACGATTC
* **
4409743 TTGTATTGCGATAGTCAAAT
1 TTGTGTTGCGATAGTCATTT
* *
4409763 TCGCGTTGCGATAGTCATTT
1 TTGTGTTGCGATAGTCATTT
**
4409783 TTGTGTTGCGATTTTCATTT
1 TTGTGTTGCGATAGTCATTT
**
4409803 TCT-TGTTGCGATTTTCATTT
1 T-TGTGTTGCGATAGTCATTT
*
4409823 TCGTGTTGCGAT
1 TTGTGTTGCGAT
4409835 TTAAAGTTTC
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
20 59 0.98
21 1 0.02
ACGTcount: A:0.15, C:0.14, G:0.22, T:0.49
Consensus pattern (20 bp):
TTGTGTTGCGATAGTCATTT
Found at i:4409845 original size:20 final size:20
Alignment explanation
Indices: 4409762--4409836 Score: 105
Period size: 20 Copynumber: 3.8 Consensus size: 20
4409752 GATAGTCAAA
* **
4409762 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
*
4409782 TTTGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
*
4409802 TTCTTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
4409822 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
4409837 AAAGTTTCGG
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.11, C:0.15, G:0.21, T:0.53
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:4411751 original size:20 final size:20
Alignment explanation
Indices: 4411726--4411882 Score: 135
Period size: 20 Copynumber: 8.5 Consensus size: 20
4411716 AGAATAGTTT
*
4411726 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATG
*
4411746 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
4411766 ACTATCGCAAT--G-AGA-G
1 ACTATCGCAATGCGAAAATG
4411782 A--ATCGCAATGCG-AAATG
1 ACTATCGCAATGCGAAAATG
**
4411799 AAAATCGCAA--C-AACAA--
1 ACTATCGCAATGCGAA-AATG
*
4411815 A--ATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
4411833 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
**
4411853 ACTATCGCAATGCGAATTTG
1 ACTATCGCAATGCGAAAATG
4411873 ACTATCGCAA
1 ACTATCGCAA
4411883 CGAAAGAATC
Statistics
Matches: 115, Mismatches: 8, Indels: 28
0.76 0.05 0.19
Matches are distributed among these distances:
14 15 0.13
16 9 0.08
17 8 0.07
18 4 0.03
19 7 0.06
20 72 0.63
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:4411787 original size:34 final size:34
Alignment explanation
Indices: 4411749--4411903 Score: 152
Period size: 34 Copynumber: 4.4 Consensus size: 34
4411739 AAAAATGACT
* * *
4411749 ATCGCAACGCGAAAATGACTATCGCAATGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
** *
4411783 ATCGCAATGCG-AAATGAAAATCGCAAC-AACAAA
1 ATCGCAATGCGAAAATGACTATCGCAACGAA-AGA
*
4411816 ATCGCAACGCGAAAATGACTATCGCAATGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCGCAA--CG-AAA-GA
**
4411854 CTATCGCAATGCGAATTTGACTATCGCAACGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
4411890 ATCGCAATGCGAAA
1 ATCGCAATGCGAAA
4411904 TGAAAATCGC
Statistics
Matches: 98, Mismatches: 14, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
32 1 0.01
33 25 0.26
34 36 0.37
36 3 0.03
37 4 0.04
38 5 0.05
40 24 0.24
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
Found at i:4411993 original size:20 final size:20
Alignment explanation
Indices: 4411929--4411995 Score: 80
Period size: 20 Copynumber: 3.4 Consensus size: 20
4411919 GATTCTCTCG
* ** *
4411929 TTGCGATAGCCAAATTCGTA
1 TTGCGATAGTCATTTTCGCA
*
4411949 TTGCAATAGTCATTTTCGCA
1 TTGCGATAGTCATTTTCGCA
*
4411969 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCATTTTCGCA
4411989 TTGCGAT
1 TTGCGAT
4411996 TTTAAGTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.22, C:0.19, G:0.21, T:0.37
Consensus pattern (20 bp):
TTGCGATAGTCATTTTCGCA
Found at i:4412520 original size:18 final size:19
Alignment explanation
Indices: 4412481--4412522 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 19
4412471 CTCACCTGTC
4412481 ATCGTTCAAGAGGCCTCCCCT
1 ATCGTTCAAGAGG-C-CCCCT
4412502 ATCGTTCAAGAGG-CCCCT
1 ATCGTTCAAGAGGCCCCCT
4412520 ATC
1 ATC
4412523 ATCCCTCAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
21 13 0.62
ACGTcount: A:0.21, C:0.36, G:0.19, T:0.24
Consensus pattern (19 bp):
ATCGTTCAAGAGGCCCCCT
Found at i:4412531 original size:21 final size:22
Alignment explanation
Indices: 4412507--4412567 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 22
4412497 CCCCTATCGT
4412507 TCAAGAGGCCCCTATCATCC-C
1 TCAAGAGGCCCCTATCATCCAC
* ** *
4412528 TCAAGAGTCCCCTCCCA-CCAT
1 TCAAGAGGCCCCTATCATCCAC
*
4412549 TCAAGAGGCCACTATCATC
1 TCAAGAGGCCCCTATCATC
4412568 GTTGAAGAGG
Statistics
Matches: 30, Mismatches: 8, Indels: 3
0.73 0.20 0.07
Matches are distributed among these distances:
20 2 0.07
21 27 0.90
22 1 0.03
ACGTcount: A:0.26, C:0.41, G:0.13, T:0.20
Consensus pattern (22 bp):
TCAAGAGGCCCCTATCATCCAC
Found at i:4412576 original size:42 final size:42
Alignment explanation
Indices: 4412506--4412597 Score: 114
Period size: 42 Copynumber: 2.2 Consensus size: 42
4412496 TCCCCTATCG
* *
4412506 TTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCACCA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCAACA
** *
4412548 TTCAAGAGGCCACTATCATCGTTGAAGAGGTCCCTCCCAACA
1 TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAACA
*
4412590 TTCTAGAG
1 TTCAAGAG
4412598 CCCGATTCAC
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
42 41 0.95
43 2 0.05
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (42 bp):
TTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCAACA
Found at i:4413986 original size:14 final size:14
Alignment explanation
Indices: 4413967--4414002 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
4413957 ATTGTTTAAT
4413967 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
4413981 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
4413995 TGATTTGT
1 TGATTTGT
4414003 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:4414196 original size:34 final size:33
Alignment explanation
Indices: 4414108--4414203 Score: 111
Period size: 33 Copynumber: 2.8 Consensus size: 33
4414098 AAAACAGACT
* ** *
4414108 ATCGCAACGCGGAAATGACTATCGTAACGAGAGA
1 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
* *
4414142 ATCGTAATGCGAAATGAAAATCGCAACTAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
4414175 ATCGCAATGCGAAAATGAAAATTGCAACG
1 ATCGCAATGCG-AAATGAAAATCGCAACG
4414204 CGAAACTAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
33 29 0.56
34 23 0.44
ACGTcount: A:0.43, C:0.18, G:0.23, T:0.17
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:4414264 original size:14 final size:14
Alignment explanation
Indices: 4414245--4414274 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
4414235 TCGCATTACA
4414245 ATTCTCTCGTTGCG
1 ATTCTCTCGTTGCG
4414259 ATTCTCTCGTTGCG
1 ATTCTCTCGTTGCG
4414273 AT
1 AT
4414275 AGTCATTTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.10, C:0.27, G:0.20, T:0.43
Consensus pattern (14 bp):
ATTCTCTCGTTGCG
Found at i:4414290 original size:34 final size:34
Alignment explanation
Indices: 4414252--4414353 Score: 91
Period size: 40 Copynumber: 2.8 Consensus size: 34
4414242 ACAATTCTCT
4414252 CGTTGCGATTCTCTCGTTGCGATAGTCAT-TTCCG
1 CGTTGCGATTCTCTCGTTGCGATAGTCATATT-CG
*
4414286 CGTTGCGATGGTCATTTCCGTGTTGCGATAGTCATATTCG
1 CGTTGCGAT--TC-TCT-C--GTTGCGATAGTCATATTCG
* *
4414326 TGTTGCGATT-TCCGCGTTGCGATAGTCA
1 CGTTGCGATTCT-CTCGTTGCGATAGTCA
4414354 AAAAAATGTC
Statistics
Matches: 56, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
34 22 0.39
36 4 0.07
37 2 0.04
38 2 0.04
40 24 0.43
41 2 0.04
ACGTcount: A:0.14, C:0.23, G:0.26, T:0.37
Consensus pattern (34 bp):
CGTTGCGATTCTCTCGTTGCGATAGTCATATTCG
Found at i:4414291 original size:20 final size:20
Alignment explanation
Indices: 4414266--4414334 Score: 95
Period size: 20 Copynumber: 3.5 Consensus size: 20
4414256 GCGATTCTCT
4414266 CGTTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
4414286 CGTTGCGATGGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
4414306 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
*
4414326 TGTTGCGAT
1 CGTTGCGAT
4414335 TTCCGCGTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.14, C:0.20, G:0.28, T:0.38
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:4416794 original size:24 final size:24
Alignment explanation
Indices: 4416767--4416820 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
4416757 TTGAAAAATC
4416767 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
4416791 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
4416815 ATCAAA
1 ATCAAA
4416821 TTTCGAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:4416834 original size:24 final size:24
Alignment explanation
Indices: 4416767--4416834 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 24
4416757 TTGAAAAATC
* * *
4416767 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
** *
4416791 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAGTCCGAATACTGACCAAG
* *
4416815 ATCAAATTTCGAATACTGAC
1 ATCAAAGTCCGAATACTGAC
4416835 TAGTACTCAC
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.24
Consensus pattern (24 bp):
ATCAAAGTCCGAATACTGACCAAG
Found at i:4417688 original size:20 final size:20
Alignment explanation
Indices: 4417663--4417728 Score: 96
Period size: 20 Copynumber: 3.3 Consensus size: 20
4417653 AATTCAGTAA
4417663 TGCGATAGTCAGAATCTCGT
1 TGCGATAGTCAGAATCTCGT
* *
4417683 TGCGATAGTCAGCATCTCAT
1 TGCGATAGTCAGAATCTCGT
* *
4417703 TGCGATAGTCAGATTCGCGT
1 TGCGATAGTCAGAATCTCGT
4417723 TGCGAT
1 TGCGAT
4417729 TTACGTATTC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 40 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (20 bp):
TGCGATAGTCAGAATCTCGT
Found at i:4417738 original size:20 final size:20
Alignment explanation
Indices: 4417715--4417787 Score: 137
Period size: 20 Copynumber: 3.6 Consensus size: 20
4417705 CGATAGTCAG
*
4417715 ATTCGCGTTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4417735 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4417755 ATTCGCATTGCGATTTACGT
1 ATTCGCATTGCGATTTACGT
4417775 ATTCGCATTGCGA
1 ATTCGCATTGCGA
4417788 ATTAGCAAAA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 52 1.00
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTCGCATTGCGATTTACGT
Found at i:4417829 original size:21 final size:21
Alignment explanation
Indices: 4417777--4417829 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
4417767 ATTTACGTAT
*
4417777 TCGCATTGCGAATTAGCAAAA
1 TCGCAATGCGAATTAGCAAAA
* * * *
4417798 TCGTAACGCGAATTTGGAAAA
1 TCGCAATGCGAATTAGCAAAA
4417819 TCGCAATGCGA
1 TCGCAATGCGA
4417830 TAATCAGAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAATTAGCAAAA
Found at i:4418828 original size:26 final size:26
Alignment explanation
Indices: 4418799--4418851 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
4418789 GCAGTTCACC
4418799 ATTAATTTTATAGTTTAAAATTTACG
1 ATTAATTTTATAGTTTAAAATTTACG
4418825 ATTAATTTTATAGTTTAAAATTTACG
1 ATTAATTTTATAGTTTAAAATTTACG
4418851 A
1 A
4418852 ATGGTCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (26 bp):
ATTAATTTTATAGTTTAAAATTTACG
Found at i:4419196 original size:19 final size:19
Alignment explanation
Indices: 4419172--4419219 Score: 69
Period size: 19 Copynumber: 2.5 Consensus size: 19
4419162 TAGATGTATG
* *
4419172 ATTTTTAAATTACATTTAA
1 ATTTTTAAATAAAATTTAA
4419191 ATTTTTAAATAAAATTTAA
1 ATTTTTAAATAAAATTTAA
*
4419210 ATTTGTAAAT
1 ATTTTTAAAT
4419220 CACGTCATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (19 bp):
ATTTTTAAATAAAATTTAA
Found at i:4421182 original size:44 final size:42
Alignment explanation
Indices: 4421121--4421228 Score: 137
Period size: 43 Copynumber: 2.5 Consensus size: 42
4421111 ACATCTAAAA
4421121 TTTTCAATCTCACTTTTTATATTTATAATT-AAGACCCCTAATTT
1 TTTTCAATCT-ACTTTTTATATTTATAATTGAAG--CCCTAATTT
**
4421165 TTTTCAAATCTACTTTTTACCTTTATAATTGAAGCCCTAATTT
1 TTTTC-AATCTACTTTTTATATTTATAATTGAAGCCCTAATTT
*
4421208 TTTTTAATCTTACTTTTTATA
1 TTTTCAATC-TACTTTTTATA
4421229 ATGAACACAC
Statistics
Matches: 56, Mismatches: 5, Indels: 7
0.82 0.07 0.10
Matches are distributed among these distances:
42 4 0.07
43 22 0.39
44 22 0.39
45 8 0.14
ACGTcount: A:0.28, C:0.17, G:0.03, T:0.53
Consensus pattern (42 bp):
TTTTCAATCTACTTTTTATATTTATAATTGAAGCCCTAATTT
Found at i:4425568 original size:55 final size:55
Alignment explanation
Indices: 4425484--4425594 Score: 222
Period size: 55 Copynumber: 2.0 Consensus size: 55
4425474 AGTGTCAGGC
4425484 GTAACGATATGATGGTTAATTATAGTTTAACAAGATAGATGAGTCCGATTGATGT
1 GTAACGATATGATGGTTAATTATAGTTTAACAAGATAGATGAGTCCGATTGATGT
4425539 GTAACGATATGATGGTTAATTATAGTTTAACAAGATAGATGAGTCCGATTGATGT
1 GTAACGATATGATGGTTAATTATAGTTTAACAAGATAGATGAGTCCGATTGATGT
4425594 G
1 G
4425595 GTTATTTGTC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 56 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.34
Consensus pattern (55 bp):
GTAACGATATGATGGTTAATTATAGTTTAACAAGATAGATGAGTCCGATTGATGT
Found at i:4428430 original size:34 final size:33
Alignment explanation
Indices: 4428387--4428471 Score: 80
Period size: 34 Copynumber: 2.5 Consensus size: 33
4428377 AAACAAACAC
* * *
4428387 AAATGAACGAATATAAACGAACGGATGTAAACGA
1 AAATAAACGAA-ATAAACGAACGAACGTAAACGA
* * * *
4428421 ACATAAACGAAAGTAAATGAATGAACGTAAATGA
1 AAATAAACGAAA-TAAACGAACGAACGTAAACGA
4428455 AAATAAACGAACATAAA
1 AAATAAACGAA-ATAAA
4428472 TGACCAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
33 1 0.02
34 39 0.95
35 1 0.02
ACGTcount: A:0.58, C:0.11, G:0.16, T:0.15
Consensus pattern (33 bp):
AAATAAACGAAATAAACGAACGAACGTAAACGA
Found at i:4428606 original size:14 final size:14
Alignment explanation
Indices: 4428588--4428647 Score: 59
Period size: 14 Copynumber: 4.3 Consensus size: 14
4428578 AAACATAATT
4428588 GAACGAACATAAAC
1 GAACGAACATAAAC
* *
4428602 AAACGAATATAAAC
1 GAACGAACATAAAC
*
4428616 GAATGAA-AGTAAAC
1 GAACGAACA-TAAAC
* *
4428630 GAACGAACGTAAAT
1 GAACGAACATAAAC
4428644 GAAC
1 GAAC
4428648 ATAAATGAAC
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
13 1 0.03
14 36 0.97
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.12
Consensus pattern (14 bp):
GAACGAACATAAAC
Found at i:4434532 original size:24 final size:24
Alignment explanation
Indices: 4434504--4434564 Score: 113
Period size: 24 Copynumber: 2.5 Consensus size: 24
4434494 CTCAATGCAT
4434504 GATATATGTATATCAATACAAAGA
1 GATATATGTATATCAATACAAAGA
4434528 GATATATGTATATCAATACAAAGA
1 GATATATGTATATCAATACAAAGA
*
4434552 GATATATATATAT
1 GATATATGTATAT
4434565 ATATATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.49, C:0.07, G:0.11, T:0.33
Consensus pattern (24 bp):
GATATATGTATATCAATACAAAGA
Found at i:4441866 original size:29 final size:31
Alignment explanation
Indices: 4441798--4441863 Score: 89
Period size: 33 Copynumber: 2.1 Consensus size: 31
4441788 TGTTCAAAGT
* *
4441798 TTGGCCACCAACCAAGATGAAATTTCTAATAAG
1 TTGGCCACCAACCAAGATGAAATTTC--ACAAC
4441831 TTGGCCACCAACCAAGATGAAATTTC-CAAC
1 TTGGCCACCAACCAAGATGAAATTTCACAAC
4441861 TTG
1 TTG
4441864 CCAACTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 5 0.16
33 26 0.84
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (31 bp):
TTGGCCACCAACCAAGATGAAATTTCACAAC
Found at i:4443567 original size:2 final size:2
Alignment explanation
Indices: 4443551--4443603 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
4443541 TAAAAATATT
* *
4443551 TC TC TC TA TC CC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
4443593 TC TC TC TC TC T
1 TC TC TC TC TC T
4443604 ATATATATAT
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.02, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:4443608 original size:2 final size:2
Alignment explanation
Indices: 4443603--4443635 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
4443593 TCTCTCTCTC
4443603 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
4443636 TATGAATCAA
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:4443896 original size:40 final size:41
Alignment explanation
Indices: 4443820--4443900 Score: 112
Period size: 40 Copynumber: 2.0 Consensus size: 41
4443810 GTAAAGTAGT
*
4443820 ATTTAAATTTTATTTTTTCTCAAAAATAATCATTACGTTTA
1 ATTTAAATTTTAGTTTTTCTCAAAAATAATCATTACGTTTA
* *
4443861 ATTTAAATTTT-GTTTTTCTTAAAAAT-ATACCTTACGTTTA
1 ATTTAAATTTTAGTTTTTCTCAAAAATAAT-CATTACGTTTA
4443901 GCTTAAGTTT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
39 2 0.06
40 23 0.64
41 11 0.31
ACGTcount: A:0.35, C:0.10, G:0.04, T:0.52
Consensus pattern (41 bp):
ATTTAAATTTTAGTTTTTCTCAAAAATAATCATTACGTTTA
Found at i:4446388 original size:7 final size:7
Alignment explanation
Indices: 4446376--4446404 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
4446366 CTTTCCCCAA
4446376 CTCTCTG
1 CTCTCTG
4446383 CTCTCTG
1 CTCTCTG
4446390 CTCTCTG
1 CTCTCTG
4446397 CTCTCTG
1 CTCTCTG
4446404 C
1 C
4446405 CTTGGCTACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.00, C:0.45, G:0.14, T:0.41
Consensus pattern (7 bp):
CTCTCTG
Found at i:4447947 original size:59 final size:59
Alignment explanation
Indices: 4447852--4448042 Score: 204
Period size: 59 Copynumber: 3.2 Consensus size: 59
4447842 ATAATTGAGT
* * * * *
4447852 GATCATTTTGTAACTTTCAATAGTTGGAGGACTCAACAAAGA-AACACCGTATAGCCAGG
1 GATCATTTTATAACTTTTAATAGTAGGAGGATTCAACAAA-ACAACACCGTATAGCCAAG
* * * *
4447911 GATCATTTTATAACTTTTAATAGTCGGAGGATTCAACAAAACAATACCGTATAGTCAAT
1 GATCATTTTATAACTTTTAATAGTAGGAGGATTCAACAAAACAACACCGTATAGCCAAG
* * * * * * *
4447970 GACCATTTTATAACTTTTAATAGTAGGAGAATTCAAGAAAACTAGACCTTATAGTCAAAG
1 GATCATTTTATAACTTTTAATAGTAGGAGGATTCAACAAAACAACACCGTATAG-CCAAG
4448030 GATCATTTATATA
1 GATCATTT-TATA
4448043 CCTAACCATA
Statistics
Matches: 110, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
58 1 0.01
59 96 0.87
60 9 0.08
61 4 0.04
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.30
Consensus pattern (59 bp):
GATCATTTTATAACTTTTAATAGTAGGAGGATTCAACAAAACAACACCGTATAGCCAAG
Found at i:4450807 original size:30 final size:30
Alignment explanation
Indices: 4450773--4450847 Score: 84
Period size: 30 Copynumber: 2.5 Consensus size: 30
4450763 TATTCTATTT
* *
4450773 AGTTTAGTGACCAAATTATAATA-TTTTAAA
1 AGTTTAGTGACCAAAGTATAA-ACTTTGAAA
4450803 AGTTT-GATGACCAAAGTATAAACTTTGAAA
1 AGTTTAG-TGACCAAAGTATAAACTTTGAAA
4450833 AGTTTAAG-GACCAAA
1 AGTTT-AGTGACCAAA
4450848 ATAGAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
29 2 0.05
30 36 0.92
32 1 0.03
ACGTcount: A:0.44, C:0.09, G:0.15, T:0.32
Consensus pattern (30 bp):
AGTTTAGTGACCAAAGTATAAACTTTGAAA
Found at i:4452721 original size:15 final size:15
Alignment explanation
Indices: 4452701--4452729 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
4452691 TGCACATGTG
4452701 ACATATGTGATATGA
1 ACATATGTGATATGA
4452716 ACATATGTGATATG
1 ACATATGTGATATG
4452730 GGTTTTATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.34
Consensus pattern (15 bp):
ACATATGTGATATGA
Found at i:4452967 original size:38 final size:38
Alignment explanation
Indices: 4452914--4453014 Score: 166
Period size: 38 Copynumber: 2.7 Consensus size: 38
4452904 TTTGGGATAT
*
4452914 ATGATAGGTCCTTCGGGACACAGATGACATCCTTTGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
* * *
4452952 ATGGTAGGTGCTTCGGGATACAGATGACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
4452990 ATGATAGGTCCTTCGGGACACAGAT
1 ATGATAGGTCCTTCGGGACACAGAT
4453015 TTCACATGCC
Statistics
Matches: 56, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.24, C:0.20, G:0.31, T:0.26
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:4453243 original size:82 final size:83
Alignment explanation
Indices: 4453106--4453304 Score: 301
Period size: 82 Copynumber: 2.4 Consensus size: 83
4453096 GTGTTCTCAG
* * *
4453106 TAATGTACATGGACTTATAAAAGATATCAAAAGTGTTTGCATTATTATATGATATCATGTTATTA
1 TAATGTACATGGGCTTATAAAAGATATCAAAAGTGTTTGCATTATTATATAATATCATGTCATTA
* *
4453171 TTG-TTATAGTTAATCAA
66 TTGTTTATACTGAATCAA
*
4453188 TAATGTACATGGGCTTATAAAAGATATTAAAAGTGTTTGCATTATTATATAATATCATGTCATTA
1 TAATGTACATGGGCTTATAAAAGATATCAAAAGTGTTTGCATTATTATATAATATCATGTCATTA
*
4453253 TTGTTTATACTGAATCAG
66 TTGTTTATACTGAATCAA
* * *
4453271 TACTGTACATGGGCCTACAAAAGATATCAAAAGT
1 TAATGTACATGGGCTTATAAAAGATATCAAAAGT
4453305 ATACATGGGC
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 64 0.61
83 41 0.39
ACGTcount: A:0.38, C:0.10, G:0.15, T:0.38
Consensus pattern (83 bp):
TAATGTACATGGGCTTATAAAAGATATCAAAAGTGTTTGCATTATTATATAATATCATGTCATTA
TTGTTTATACTGAATCAA
Found at i:4453518 original size:18 final size:18
Alignment explanation
Indices: 4453493--4453554 Score: 70
Period size: 18 Copynumber: 3.4 Consensus size: 18
4453483 TGGGTTCATA
4453493 ATAATGATATTGATGTTG
1 ATAATGATATTGATGTTG
* ** **
4453511 AGAATGATAGAGATCATG
1 ATAATGATATTGATGTTG
*
4453529 ATAACGATATTGATGTTG
1 ATAATGATATTGATGTTG
4453547 ATAATGAT
1 ATAATGAT
4453555 GGTATTTATG
Statistics
Matches: 32, Mismatches: 12, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.35
Consensus pattern (18 bp):
ATAATGATATTGATGTTG
Found at i:4456138 original size:9 final size:8
Alignment explanation
Indices: 4456124--4456177 Score: 65
Period size: 8 Copynumber: 6.9 Consensus size: 8
4456114 CATAAGAGCT
4456124 AAAAAAAG
1 AAAAAAAG
4456132 AAAAAAAG
1 AAAAAAAG
4456140 AAAAAAA-
1 AAAAAAAG
* *
4456147 AAGAACAG
1 AAAAAAAG
*
4456155 AAAAAACG
1 AAAAAAAG
*
4456163 AAAAAATG
1 AAAAAAAG
4456171 AAAAAAA
1 AAAAAAA
4456178 TATGAGAGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
7 5 0.13
8 33 0.87
ACGTcount: A:0.83, C:0.04, G:0.11, T:0.02
Consensus pattern (8 bp):
AAAAAAAG
Found at i:4457039 original size:30 final size:30
Alignment explanation
Indices: 4457005--4457079 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
4456995 AAAGAGATTT
* **
4457005 AGTTTAGTGACCAAATTATAAGA-TTTTGAA
1 AGTTTAGTGACCAAAGTATAA-ACTTTAAAA
*
4457035 AGTTTGGTGACCAAAGTATAAACTTTAAAA
1 AGTTTAGTGACCAAAGTATAAACTTTAAAA
*
4457065 AGTTTAGGGACCAAA
1 AGTTTAGTGACCAAA
4457080 ATGGTAATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 1 0.03
30 37 0.97
ACGTcount: A:0.41, C:0.09, G:0.19, T:0.31
Consensus pattern (30 bp):
AGTTTAGTGACCAAAGTATAAACTTTAAAA
Found at i:4459221 original size:38 final size:38
Alignment explanation
Indices: 4459127--4459222 Score: 156
Period size: 38 Copynumber: 2.5 Consensus size: 38
4459117 CGGGATATAA
4459127 GATAGGTCCTTCGGGACACAGATGACATCCTTCGGGAT
1 GATAGGTCCTTCGGGACACAGATGACATCCTTCGGGAT
* ** *
4459165 GATAGGTCATTCAAGACACATATGACATCCTTCGGGAT
1 GATAGGTCCTTCGGGACACAGATGACATCCTTCGGGAT
4459203 GATAGGTCCTTCGGGACACA
1 GATAGGTCCTTCGGGACACA
4459223 ATTTCACATG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
38 51 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (38 bp):
GATAGGTCCTTCGGGACACAGATGACATCCTTCGGGAT
Found at i:4459503 original size:82 final size:83
Alignment explanation
Indices: 4459316--4459514 Score: 319
Period size: 82 Copynumber: 2.4 Consensus size: 83
4459306 GAGTTCTTAG
*
4459316 TAATGTACATGGGCTTATAAAAGATATCAAAAGTGTTTGCATTATTATATGATATCATGTTATTA
1 TAATGTACATGGGCTTATAAAAGATATCAAAAGTGTTTGCATTATTATATGATACCATGTTATTA
*
4459381 TTGTTTATACTGAATCAA
66 TTGTTTACACTGAATCAA
* * *
4459399 TAATGTACATGGACTTATAAAAGTTATCATAAGTGTTTGCATTATTATAT-ATACCATGTTATTA
1 TAATGTACATGGGCTTATAAAAGATATCAAAAGTGTTTGCATTATTATATGATACCATGTTATTA
*
4459463 TTGTTTACACTGAATCAT
66 TTGTTTACACTGAATCAA
* *
4459481 TACTGTACATGGGCTTACAAAAGATATCAAAAGT
1 TAATGTACATGGGCTTATAAAAGATATCAAAAGT
4459515 ATACATGGGC
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
82 58 0.55
83 47 0.45
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (83 bp):
TAATGTACATGGGCTTATAAAAGATATCAAAAGTGTTTGCATTATTATATGATACCATGTTATTA
TTGTTTACACTGAATCAA
Found at i:4466390 original size:15 final size:15
Alignment explanation
Indices: 4466370--4466407 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
4466360 TAGTATTATG
4466370 AAATATA-G-TTTTA
1 AAATATATGATTTTA
4466383 AAATATATGTATTTTA
1 AAATATATG-ATTTTA
4466399 AAATATATG
1 AAATATATG
4466408 TGTAGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.32
14 1 0.05
16 14 0.64
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (15 bp):
AAATATATGATTTTA
Found at i:4466411 original size:18 final size:18
Alignment explanation
Indices: 4466375--4466426 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 18
4466365 TTATGAAATA
4466375 TAGTTTTAAAATATA-TG
1 TAGTTTTAAAATATATTG
4466392 TA-TTTTAAAATATATGTG
1 TAGTTTTAAAATATAT-TG
*
4466410 TAGTTTTTAATATATAT
1 TAG-TTTTAAAATATAT
4466427 ATATATATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
16 12 0.40
17 2 0.07
18 4 0.13
20 12 0.40
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (18 bp):
TAGTTTTAAAATATATTG
Found at i:4466424 original size:2 final size:2
Alignment explanation
Indices: 4466419--4466458 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
4466409 GTAGTTTTTA
*
4466419 AT AT AT AT AT AT AT AT AT AT A- AT GT -T AT AT -T 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
4466458 A
1 A
4466459 GTTTATTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
1 3 0.09
2 31 0.91
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4466475 original size:29 final size:29
Alignment explanation
Indices: 4466420--4466475 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
4466410 TAGTTTTTAA
*
4466420 TATATATATATATATATATAATGTTATAT
1 TATATATATATATATATATAATATTATAT
* *
4466449 TATATATATAGTTTAT-TATATTATTAT
1 TATATATATA-TATATATATAATATTAT
4466476 TGTATTAATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 19 0.83
30 4 0.17
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (29 bp):
TATATATATATATATATATAATATTATAT
Found at i:4476275 original size:15 final size:15
Alignment explanation
Indices: 4476255--4476285 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4476245 TTTGACTATG
*
4476255 AGATATTTTAATGGA
1 AGATATTTCAATGGA
4476270 AGATATTTCAATGGA
1 AGATATTTCAATGGA
4476285 A
1 A
4476286 AATTGAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.03, G:0.19, T:0.35
Consensus pattern (15 bp):
AGATATTTCAATGGA
Found at i:4478453 original size:19 final size:19
Alignment explanation
Indices: 4478421--4478463 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
4478411 ATTTGAATTA
*
4478421 TATTT-TGATGTTTTGATG
1 TATTTATGATATTTTGATG
*
4478439 TATTTATGATATTTTTATG
1 TATTTATGATATTTTGATG
4478458 T-TTTAT
1 TATTTAT
4478464 TTCACCTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.21, C:0.00, G:0.14, T:0.65
Consensus pattern (19 bp):
TATTTATGATATTTTGATG
Found at i:4482687 original size:2 final size:2
Alignment explanation
Indices: 4482680--4482745 Score: 82
Period size: 2 Copynumber: 33.0 Consensus size: 2
4482670 GTAGTATAGT
*
4482680 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA GTA TA TA GA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA
*
4482723 T- TA TA CTA TA T- TA TA CA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA
4482746 GTAGGTATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
1 2 0.04
2 50 0.89
3 4 0.07
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:4482758 original size:32 final size:32
Alignment explanation
Indices: 4482685--4482758 Score: 87
Period size: 32 Copynumber: 2.3 Consensus size: 32
4482675 ATAGTTATAT
* *
4482685 ATATATATATATATATATATATATATATAGTAT
1 ATATAT-TATATATATATATACATATATAGTAG
*
4482718 ATAGATTATACTATAT-TATACATATATAGTAG
1 ATATATTATA-TATATATATACATATATAGTAG
*
4482750 GTATATTAT
1 ATATATTAT
4482759 TATTATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
32 25 0.71
33 10 0.29
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.46
Consensus pattern (32 bp):
ATATATTATATATATATATACATATATAGTAG
Found at i:4482761 original size:3 final size:3
Alignment explanation
Indices: 4482753--4482798 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
4482743 ATAGTAGGTA
4482753 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4482799 TTCAGGTGTA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:4483663 original size:28 final size:28
Alignment explanation
Indices: 4483631--4483691 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
4483621 AACCCGAACT
*
4483631 CGACCCGAATATCACACTTAAAAAAACC
1 CGACCCAAATATCACACTTAAAAAAACC
4483659 CGACCCAAATATCACACTTAAAAAAACC
1 CGACCCAAATATCACACTTAAAAAAACC
4483687 CGACC
1 CGACC
4483692 TGACCCGAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.46, C:0.34, G:0.07, T:0.13
Consensus pattern (28 bp):
CGACCCAAATATCACACTTAAAAAAACC
Found at i:4484437 original size:22 final size:22
Alignment explanation
Indices: 4484403--4484467 Score: 112
Period size: 22 Copynumber: 3.0 Consensus size: 22
4484393 GTGAAATTTA
*
4484403 TCCCGAAGAACCACTGTATATG
1 TCCCGAAGGACCACTGTATATG
*
4484425 TCTCGAAGGACCACTGTATATG
1 TCCCGAAGGACCACTGTATATG
4484447 TCCCGAAGGACCACTGTATAT
1 TCCCGAAGGACCACTGTATAT
4484468 CCCTCGACTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (22 bp):
TCCCGAAGGACCACTGTATATG
Found at i:4500346 original size:69 final size:69
Alignment explanation
Indices: 4500217--4500373 Score: 181
Period size: 69 Copynumber: 2.3 Consensus size: 69
4500207 AGACACCTAG
** * *
4500217 AAATAATTATGATTAGGTG-TTCTCGTGTGAGTCACTCTAATCCTTCAGCACTCCTATGTGAGTC
1 AAATAATTATGATTAGGTGCCCCT-ATGTGAGTCACTCTAACCCTTCAGCACTCCTATGTGAGTC
* *
4500281 ATCGG
65 ACCGA
* * *** * *
4500286 GAATACTTATGATTAGGTGCCCCTATGTGAGTCACTCTAACCCTTCAGTGTTCTTGTGTGAGTCA
1 AAATAATTATGATTAGGTGCCCCTATGTGAGTCACTCTAACCCTTCAGCACTCCTATGTGAGTCA
4500351 CCGA
66 CCGA
4500355 AAATAATTATGATTAGGTG
1 AAATAATTATGATTAGGTG
4500374 TTCCTTTGCA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
69 70 0.97
70 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.34
Consensus pattern (69 bp):
AAATAATTATGATTAGGTGCCCCTATGTGAGTCACTCTAACCCTTCAGCACTCCTATGTGAGTCA
CCGA
Found at i:4503734 original size:200 final size:197
Alignment explanation
Indices: 4503374--4504000 Score: 622
Period size: 201 Copynumber: 3.1 Consensus size: 197
4503364 ACAAGTGTTT
* * *
4503374 ATAGGCATATTTGAGGGGTATTTTTGGG-AAGTTACTCTA-AAATATTTTGTAATTTATAAGATT
1 ATAGGCATATTCGA-GGGTATTTTTGGGTAA-TTAATCTAGAAAT-TTTTATAATTTATAAGATT
* * * **
4503437 AGAGGTGTAGTATTGGAAATTAT-ATTTATATTGAGGCCAATATCGACACATACGAGGTATTAAA
63 AGAGGCGTAGTATT-GAAATTATCATTTA-ATTGAGGCTAATATCGACACATACGAGATATTGTA
* * * *
4503501 AGCCGGGTAAAAATCGCGTTGGAAATGGTTCCAAAGCTTGTTTTGTGCATAGAGAATAAGCTAAA
126 AG-CGGGTAAAAATCGAGTTGAAAATAGTTCCAAAGCTTGTTTTGTGCATAGAGAAAAAGCTAAA
4503566 ATGGCTTG
190 ATGGCTTG
* * *
4503574 ATAGGCATGTTCGAGGGCTATTTTTGGGTAATTAATCTAGAAATCTTTATCATTTATAAGATTAG
1 ATAGGCATATTCGAGGG-TATTTTTGGGTAATTAATCTAGAAATTTTTATAATTTATAAGATTAG
* * * * * * * *
4503639 AGGCATAGTATTCGAACTTATCATTTAGTTGAGGCTAATATTGATACATATGCGATATTGTAAGA
65 AGGCGTAGTATT-GAAATTATCATTTAATTGAGGCTAATATCGACACATACGAGATATTGTAAGC
** * *
4503704 GAGGTAAAAATCGAGTTGAAAATAGTTCCAAAGCTCAATTTTGTGCAT-GAAGAAAAACCTTAAA
129 G-GGTAAAAATCGAGTTGAAAATAGTTCCAAAGCT-TGTTTTGTGCATAG-AGAAAAAGCTAAAA
4503768 TGGCTTG
191 TGGCTTG
* ** * *
4503775 ATAGGCATATTCGAAGGGTAATTTCAGGTAGTTAAT-TAGAATTTTTTTATAATTTATAAGATTA
1 ATAGGCATATTCG-AGGGTATTTTTGGGTAATTAATCTAGAA-ATTTTTATAATTTATAAGATTA
* * * * *
4503839 AAGGCGTAGTATTGTAATTTATC-TTTCAATTGAGGCTATTATCAACACATACGAGACATTGTAA
64 GAGGCGTAGTATTG-AAATTATCATTT-AATTGAGGCTAATATCGACACATACGAGATATTGTAA
* * * *
4503903 GCGGGATAAAAAT-AACGTTGAAAATAGTTCTAAAGCTTGGTTTTGTGCGTCA-AGAAGAAGCTA
127 GCGGG-TAAAAATCGA-GTTGAAAATAGTTCCAAAGCTT-GTTTTGTGCAT-AGAGAAAAAGCTA
4503966 AAATGGCTTG
188 AAATGGCTTG
* * *
4503976 ATAGACATGTTTGAGGTGTATTTTT
1 ATAGGCATATTCGAGG-GTATTTTT
4504001 AATTAAAAAA
Statistics
Matches: 349, Mismatches: 61, Indels: 33
0.79 0.14 0.07
Matches are distributed among these distances:
199 4 0.01
200 138 0.40
201 203 0.58
202 4 0.01
ACGTcount: A:0.34, C:0.10, G:0.22, T:0.34
Consensus pattern (197 bp):
ATAGGCATATTCGAGGGTATTTTTGGGTAATTAATCTAGAAATTTTTATAATTTATAAGATTAGA
GGCGTAGTATTGAAATTATCATTTAATTGAGGCTAATATCGACACATACGAGATATTGTAAGCGG
GTAAAAATCGAGTTGAAAATAGTTCCAAAGCTTGTTTTGTGCATAGAGAAAAAGCTAAAATGGCT
TG
Found at i:4508783 original size:23 final size:25
Alignment explanation
Indices: 4508739--4508788 Score: 59
Period size: 23 Copynumber: 2.1 Consensus size: 25
4508729 ATATATTTAT
*
4508739 TATTATTTCTAATAATAAAATATTA
1 TATTATTTCTAATAATAAAATAATA
* *
4508764 TATT-TTT-TAATATTATAATAATA
1 TATTATTTCTAATAATAAAATAATA
4508787 TA
1 TA
4508789 CTAAATTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 15 0.68
24 3 0.14
25 4 0.18
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTATTTCTAATAATAAAATAATA
Found at i:4508819 original size:23 final size:23
Alignment explanation
Indices: 4508773--4508823 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
4508763 ATATTTTTTA
**
4508773 ATATTATAATAATATACTAAATT
1 ATATTATAATAATATAAGAAATT
*
4508796 ATATTATAATAATATAAGACATT
1 ATATTATAATAATATAAGAAATT
4508819 ATATT
1 ATATT
4508824 TTTATTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (23 bp):
ATATTATAATAATATAAGAAATT
Found at i:4508900 original size:24 final size:26
Alignment explanation
Indices: 4508868--4508946 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
4508858 ATTGTATTAT
4508868 TTATTAATT-TT-AT-ATAAATAATA
1 TTATTAATTATTAATAATAAATAATA
*
4508891 TTATTAAATTATTAATAATGAATAATA
1 TTATT-AATTATTAATAATAAATAATA
* *
4508918 TTATTTATGTACTTAATATTAATATAATA
1 TTATTAAT-TA-TTAATAATAA-ATAATA
4508947 ATTTTAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
23 5 0.11
24 4 0.09
25 2 0.04
26 4 0.09
27 16 0.36
28 8 0.18
29 6 0.13
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.49
Consensus pattern (26 bp):
TTATTAATTATTAATAATAAATAATA
Found at i:4508959 original size:22 final size:23
Alignment explanation
Indices: 4508932--4509014 Score: 75
Period size: 23 Copynumber: 3.7 Consensus size: 23
4508922 TTATGTACTT
4508932 AATATTAATATAATA-ATTTTAA
1 AATATTAATATAATACATTTTAA
* * *
4508954 AATATTTTAATA-AAGATATTTAAA
1 AATA--TTAATATAATACATTTTAA
*
4508978 ATATATTAAT-TAATACTTTTTAA
1 A-ATATTAATATAATACATTTTAA
4509001 AATA-TAATATAATA
1 AATATTAATATAATA
4509015 TTATTAATTT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
21 4 0.08
22 12 0.24
23 17 0.35
24 13 0.27
25 3 0.06
ACGTcount: A:0.53, C:0.01, G:0.01, T:0.45
Consensus pattern (23 bp):
AATATTAATATAATACATTTTAA
Found at i:4508963 original size:24 final size:24
Alignment explanation
Indices: 4508933--4509043 Score: 88
Period size: 24 Copynumber: 4.5 Consensus size: 24
4508923 TATGTACTTA
4508933 ATATTAATATAATAATTTTAAAAT
1 ATATTAATATAATAATTTTAAAAT
* *
4508957 ATTTTAATA-AA-GATATTTAAAAT
1 ATATTAATATAATAAT-TTTAAAAT
*
4508980 ATATTAAT-TAATACTTTTTAAAAT
1 ATATTAATATAATA-ATTTTAAAAT
*
4509004 ATAATATAATATTATTAA-TTTAATTAAT
1 AT-AT-TAATA-TAATAATTTTAA--AAT
4509032 A-ATTAATATAAT
1 ATATTAATATAAT
4509044 TTATAATATG
Statistics
Matches: 69, Mismatches: 8, Indels: 20
0.71 0.08 0.21
Matches are distributed among these distances:
22 2 0.03
23 19 0.28
24 21 0.30
25 8 0.12
26 11 0.16
28 8 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (24 bp):
ATATTAATATAATAATTTTAAAAT
Found at i:4509038 original size:16 final size:16
Alignment explanation
Indices: 4509001--4509050 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 16
4508991 TACTTTTTAA
4509001 AATATAATATAATATTATT
1 AATATAAT-TAATA--ATT
*
4509020 AATTTAATTAATAATT
1 AATATAATTAATAATT
*
4509036 AATATAATTTATAAT
1 AATATAATTAATAAT
4509051 ATGTTTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 16 0.57
18 5 0.18
19 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATATAATTAATAATT
Found at i:4510536 original size:334 final size:334
Alignment explanation
Indices: 4509927--4510595 Score: 1329
Period size: 334 Copynumber: 2.0 Consensus size: 334
4509917 AGTGACCACA
*
4509927 ATGAAAGGATTTAAAATTTGGTGGGTTTAATTGAGTAAATTGATAAGTATAGGGAATAATTTATG
1 ATGAAAGGATTTAAAATTTGGGGGGTTTAATTGAGTAAATTGATAAGTATAGGGAATAATTTATG
4509992 AAGTTGTGATTAAAACTAAATATTAAGAATGGAAGAATGGAGGGCAATTTAGTTCTTTTGAAGGA
66 AAGTTGTGATTAAAACTAAATATTAAGAATGGAAGAATGGAGGGCAATTTAGTTCTTTTGAAGGA
4510057 ATGAATTTTATATTCATTTAAATTGGGTTATTTAATAAAAGTGAATAGGAGAAATAGGGGATAAG
131 ATGAATTTTATATTCATTTAAATTGGGTTATTTAATAAAAGTGAATAGGAGAAATAGGGGATAAG
4510122 TCTGAAGTGGTTCTCTTCTTTTTCTTTTTCACGTCCCGTTCATCTAGTTAGTTTTTCCTTTCGTT
196 TCTGAAGTGGTTCTCTTCTTTTTCTTTTTCACGTCCCGTTCATCTAGTTAGTTTTTCCTTTCGTT
4510187 TTTGGGTTGGTTTTGAAGCCTTAAGTGATATAGATGCTTAAAGAAAGTTCAAGGAGGATTAAAGC
261 TTTGGGTTGGTTTTGAAGCCTTAAGTGATATAGATGCTTAAAGAAAGTTCAAGGAGGATTAAAGC
4510252 TAAGAGATG
326 TAAGAGATG
4510261 ATGAAAGGATTTAAAATTTGGGGGGTTTAATTGAGTAAATTGATAAGTATAGGGAATAATTTATG
1 ATGAAAGGATTTAAAATTTGGGGGGTTTAATTGAGTAAATTGATAAGTATAGGGAATAATTTATG
4510326 AAGTTGTGATTAAAACTAAATATTAAGAATGGAAGAATGGAGGGCAATTTAGTTCTTTTGAAGGA
66 AAGTTGTGATTAAAACTAAATATTAAGAATGGAAGAATGGAGGGCAATTTAGTTCTTTTGAAGGA
4510391 ATGAATTTTATATTCATTTAAATTGGGTTATTTAATAAAAGTGAATAGGAGAAATAGGGGATAAG
131 ATGAATTTTATATTCATTTAAATTGGGTTATTTAATAAAAGTGAATAGGAGAAATAGGGGATAAG
4510456 TCTGAAGTGGTTCTCTTCTTTTTCTTTTTCACGTCCCGTTCATCTAGTTAGTTTTTCCTTTCGTT
196 TCTGAAGTGGTTCTCTTCTTTTTCTTTTTCACGTCCCGTTCATCTAGTTAGTTTTTCCTTTCGTT
4510521 TTTGGGTTGGTTTTGAAGCCTTAAGTGATATAGATGCTTAAAGAAAGTTCAAGGAGGATTAAAGC
261 TTTGGGTTGGTTTTGAAGCCTTAAGTGATATAGATGCTTAAAGAAAGTTCAAGGAGGATTAAAGC
4510586 TAAGAGATG
326 TAAGAGATG
4510595 A
1 A
4510596 AGGATTTATT
Statistics
Matches: 334, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
334 334 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (334 bp):
ATGAAAGGATTTAAAATTTGGGGGGTTTAATTGAGTAAATTGATAAGTATAGGGAATAATTTATG
AAGTTGTGATTAAAACTAAATATTAAGAATGGAAGAATGGAGGGCAATTTAGTTCTTTTGAAGGA
ATGAATTTTATATTCATTTAAATTGGGTTATTTAATAAAAGTGAATAGGAGAAATAGGGGATAAG
TCTGAAGTGGTTCTCTTCTTTTTCTTTTTCACGTCCCGTTCATCTAGTTAGTTTTTCCTTTCGTT
TTTGGGTTGGTTTTGAAGCCTTAAGTGATATAGATGCTTAAAGAAAGTTCAAGGAGGATTAAAGC
TAAGAGATG
Found at i:4511114 original size:20 final size:20
Alignment explanation
Indices: 4511069--4511114 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
4511059 TCGATACCAT
4511069 TATT-AAAAAATGGATTCCA
1 TATTGAAAAAATGGATTCCA
* *
4511088 TAATGAAAAAATGG-TATCGA
1 TATTGAAAAAATGGAT-TCCA
4511108 TATTGAA
1 TATTGAA
4511115 GGGAGTATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (20 bp):
TATTGAAAAAATGGATTCCA
Found at i:4512922 original size:81 final size:80
Alignment explanation
Indices: 4512719--4513209 Score: 637
Period size: 81 Copynumber: 6.1 Consensus size: 80
4512709 TCCAAAGGCA
* * * * * * * *
4512719 TTTAACCCTACATCTAACTTGCATGATTGACACTTTTATGCCAAATGCACAGTTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATATAT
4512784 CTTTTACTCAACGATC
66 CTTTTACTCAA-GATC
* * * * *
4512800 -TTAACTGTTCATCTAA-TTGCAATAATTGACACCTCTCTGCCACATGCACAGTTAGGCCATATA
1 TTTAACCGTTCATCTAACTGGC-ATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATATA
4512863 TCTTTTACTC-AGTAGTC
65 TCTTTTACTCAAG-A-TC
* *
4512880 TTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGGTAGGCCATATAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATATAT
*
4512945 CTTTTGCTCAATGATC
66 CTTTTACTCAA-GATC
* * * *
4512961 TTTAACCATTCATCTAAGTGGTATAATTGACACCTTTCTGCCAAATGCACAACTAGGCCATATAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATATAT
4513026 CTTTTACTCAACGATC
66 CTTTTACTCAA-GATC
*
4513042 TTTAACCGTTCATCTAACTGGCATAATTGAAACCCTTTCTGCCAAATGCACAGCTAGGCCATATA
1 TTTAACCGTTCATCTAACTGGCATAATTGACA-CCTTTCTGCCAAATGCACAGCTAGGCCATATA
*
4513107 TCTTTTACTCAACAGTC
65 TCTTTTACTCAAGA-TC
* * *
4513124 TTTAACCATTCATTTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATATAT
* *
4513189 CGTTTACTCAACGGTC
66 CTTTTACTCAA-GATC
4513205 TTTAA
1 TTTAA
4513210 ACTAAAATTT
Statistics
Matches: 363, Mismatches: 37, Indels: 20
0.86 0.09 0.05
Matches are distributed among these distances:
78 1 0.00
79 6 0.02
80 61 0.17
81 215 0.59
82 79 0.22
83 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (80 bp):
TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATATAT
CTTTTACTCAAGATC
Found at i:4513155 original size:244 final size:242
Alignment explanation
Indices: 4512744--4513209 Score: 700
Period size: 244 Copynumber: 1.9 Consensus size: 242
4512734 AACTTGCATG
* ** * *
4512744 ATTGACACTTTTATGCCAAATGCACAGTTAGGCCATTTATCTTTTACTCAACGATCTTAACTGTT
1 ATTGACACCTTTATGCCAAATGCACAACTAGGCCATATATCTTTTACTCAACGATCTTAACCGTT
* * * *
4512809 CATCTAATTGCAATAATTGACACCTCTCTGCCACATGCACAGTTAGGCCATATATCTTTTACTCA
66 CATCTAATGGCAATAATTGAAACCTCTCTGCCAAATGCACAGCTAGGCCATATATCTTTTACTCA
** * * *
4512874 GTAGTCTTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGGTAGGCC
131 ACAGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCC
* * *
4512939 ATATATCTTTTGCTCAATGATCTTTAACCATTCATCTAAGTGGTATA
196 ATATATCGTTTACTCAACGATCTTTAACCATTCATCTAAGTGGTATA
*
4512986 ATTGACACCTTTCTGCCAAATGCACAACTAGGCCATATATCTTTTACTCAACGATCTTTAACCGT
1 ATTGACACCTTTATGCCAAATGCACAACTAGGCCATATATCTTTTACTCAACGATC-TTAACCGT
*
4513051 TCATCTAACTGGC-ATAATTGAAACCCTTTCTGCCAAATGCACAGCTAGGCCATATATCTTTTAC
65 TCATCTAA-TGGCAATAATTGAAA-CCTCTCTGCCAAATGCACAGCTAGGCCATATATCTTTTAC
*
4513115 TCAACAGTCTTTAACCATTCATTTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAG
128 TCAACAGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAG
* *
4513180 GCCATTTATCGTTTACTCAACGGTCTTTAA
193 GCCATATATCGTTTACTCAACGATCTTTAA
4513210 ACTAAAATTT
Statistics
Matches: 199, Mismatches: 22, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
242 51 0.26
243 24 0.12
244 124 0.62
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.34
Consensus pattern (242 bp):
ATTGACACCTTTATGCCAAATGCACAACTAGGCCATATATCTTTTACTCAACGATCTTAACCGTT
CATCTAATGGCAATAATTGAAACCTCTCTGCCAAATGCACAGCTAGGCCATATATCTTTTACTCA
ACAGTCTTTAACCATTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCC
ATATATCGTTTACTCAACGATCTTTAACCATTCATCTAAGTGGTATA
Found at i:4513160 original size:163 final size:161
Alignment explanation
Indices: 4512719--4513209 Score: 666
Period size: 163 Copynumber: 3.0 Consensus size: 161
4512709 TCCAAAGGCA
* * * * * * * *
4512719 TTTAACCCTACATCTAACTTGCATGATTGACACTTTTATGCCAAATGCACAGTTAGGCCATTTAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATATAT
** * * *
4512784 CTTTTACTCAACGATC-TTAACTGTTCATCTAATTGCAATAATTGACACCTCTCTGCCACATGCA
66 CTTTTACTCAACGATCTTTAACCATTCATCTAATGGC-ATAATTGACACCTTTCTGCCAAATGCA
*
4512848 CAGTTAGGCCATATATCTTTTACTC-A-GTAGTC
130 CAGCTAGGCCATATATCTTTTACTCAACG-A-TC
* *
4512880 TTTAATCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGGTAGGCCATATAT
1 TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATATAT
* * *
4512945 CTTTTGCTCAATGATCTTTAACCATTCATCTAAGTGGTATAATTGACACCTTTCTGCCAAATGCA
66 CTTTTACTCAACGATCTTTAACCATTCATCTAA-TGGCATAATTGACACCTTTCTGCCAAATGCA
*
4513010 CAACTAGGCCATATATCTTTTACTCAACGATC
130 CAGCTAGGCCATATATCTTTTACTCAACGATC
*
4513042 TTTAACCGTTCATCTAACTGGCATAATTGAAACCCTTTCTGCCAAATGCACAGCTAGGCCATATA
1 TTTAACCGTTCATCTAACTGGCATAATTGACA-CCTTTCTGCCAAATGCACAGCTAGGCCATATA
*
4513107 TCTTTTACTCAAC-AGTCTTTAACCATTCATTTAACTGGCATAATTGACACCTTTCTGCCAAATG
65 TCTTTTACTCAACGA-TCTTTAACCATTCATCTAA-TGGCATAATTGACACCTTTCTGCCAAATG
* * *
4513171 CACAGCTAGGCCATTTATCGTTTACTCAACGGTC
128 CACAGCTAGGCCATATATCTTTTACTCAACGATC
4513205 TTTAA
1 TTTAA
4513210 ACTAAAATTT
Statistics
Matches: 293, Mismatches: 31, Indels: 10
0.88 0.09 0.03
Matches are distributed among these distances:
161 70 0.24
162 95 0.32
163 127 0.43
164 1 0.00
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (161 bp):
TTTAACCGTTCATCTAACTGGCATAATTGACACCTTTCTGCCAAATGCACAGCTAGGCCATATAT
CTTTTACTCAACGATCTTTAACCATTCATCTAATGGCATAATTGACACCTTTCTGCCAAATGCAC
AGCTAGGCCATATATCTTTTACTCAACGATC
Found at i:4514904 original size:30 final size:31
Alignment explanation
Indices: 4514839--4514907 Score: 122
Period size: 31 Copynumber: 2.3 Consensus size: 31
4514829 TACCAGTTTG
*
4514839 TTGGTATCGGTCACATTGTTGACGAAAATCG
1 TTGGTATCGGTCACATTGTTGACGAAAATCA
4514870 TTGGTATCGGTCACATTGTTGACG-AAATCA
1 TTGGTATCGGTCACATTGTTGACGAAAATCA
4514900 TTGGTATC
1 TTGGTATC
4514908 TTTGAACAGT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
30 13 0.35
31 24 0.65
ACGTcount: A:0.25, C:0.16, G:0.25, T:0.35
Consensus pattern (31 bp):
TTGGTATCGGTCACATTGTTGACGAAAATCA
Found at i:4515542 original size:215 final size:214
Alignment explanation
Indices: 4515144--4515572 Score: 824
Period size: 215 Copynumber: 2.0 Consensus size: 214
4515134 GATAATTAAG
4515144 ATCACGTGTCAGCAAATCGATTACTAAATAACTAACAAAGTTCATGTACTAAGGTAAAATCTTAA
1 ATCACGTGTCAGCAAATCGATTACTAAATAACTAACAAAGTTCATGTACTAAGGTAAAATCTTAA
4515209 TAGAAATCAACCTCTCATCGAGAAAGTATCGAAATTGCTAGCATTTTGCCAGCTTCCAAGTATGA
66 TAGAAATCAACCTCTCATCGAGAAAGTATCGAAATTGCTAGCATTTTGCCAGCTTCCAAGTATGA
4515274 TAAATGATCAGTCACTTTATTCTCAGACCCTTTCTTGTCCCTAACTTTAATATGGAATTC-TGAA
131 TAAATGATCAGTCACTTTATTCTCAGACCCTTTCTTGTCCCTAACTTTAATATGGAATTCTTGAA
*
4515338 GTAATAGCCCCTATCTCAT
196 GTAATAGCACCTATCTCAT
4515357 ATCACGTGTCAGCAAATCGATTACTAAATAACTAACAAAGTTCATGTACTAAGGTAAAATCTTAA
1 ATCACGTGTCAGCAAATCGATTACTAAATAACTAACAAAGTTCATGTACTAAGGTAAAATCTTAA
4515422 TAGAAATCAACCTCTCATCGAGAAAAGTATCCGAAATTGCTAGCATTTTGCCAGCTTCCAAGTAT
66 TAGAAATCAACCTCTCATCGAG-AAAGTAT-CGAAATTGCTAGCATTTTGCCAGCTTCCAAGTAT
4515487 GATAAATGATCAGTCACTTTATTCTCAGACCCTTTCTTGTCCCTAACTTTAATATGGAATTCTTG
129 GATAAATGATCAGTCACTTTATTCTCAGACCCTTTCTTGTCCCTAACTTTAATATGGAATTCTTG
4515552 AAGTAATAGCACCTATCTCAT
194 AAGTAATAGCACCTATCTCAT
4515573 TAAACGTGGC
Statistics
Matches: 212, Mismatches: 1, Indels: 3
0.98 0.00 0.01
Matches are distributed among these distances:
213 87 0.41
214 7 0.03
215 96 0.45
216 22 0.10
ACGTcount: A:0.34, C:0.21, G:0.13, T:0.31
Consensus pattern (214 bp):
ATCACGTGTCAGCAAATCGATTACTAAATAACTAACAAAGTTCATGTACTAAGGTAAAATCTTAA
TAGAAATCAACCTCTCATCGAGAAAGTATCGAAATTGCTAGCATTTTGCCAGCTTCCAAGTATGA
TAAATGATCAGTCACTTTATTCTCAGACCCTTTCTTGTCCCTAACTTTAATATGGAATTCTTGAA
GTAATAGCACCTATCTCAT
Found at i:4521783 original size:32 final size:31
Alignment explanation
Indices: 4521747--4521825 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 31
4521737 AATTCAGTGA
*
4521747 TAGAAACTTTTCAGTGCCCA-ATAACTTCACTT
1 TAGAAACTTTTCAGTG-ACATATAACTTCA-TT
* *
4521779 TAGAAACATTTT-AGTGATATATCACTTCATT
1 TAGAAAC-TTTTCAGTGACATATAACTTCATT
4521810 TCAGAAACTTTTCAGT
1 T-AGAAACTTTTCAGT
4521826 AATGATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
31 8 0.20
32 28 0.70
33 4 0.10
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (31 bp):
TAGAAACTTTTCAGTGACATATAACTTCATT
Found at i:4522055 original size:143 final size:143
Alignment explanation
Indices: 4521744--4522246 Score: 699
Period size: 142 Copynumber: 3.5 Consensus size: 143
4521734 TTCAATTCAG
* * * *
4521744 TGATAGAAACTTTTCAGTGCCCAATAACTTCACTTTAGAAACATTT-TAGTGATATATCACTTCA
1 TGATAGAAACTTTTCAGTGCCCAATAATTTCACTTCATAAACTTTTATAGTGATATATCACTTCA
* * **
4521808 TTTCAGAAACTTTTCAGTAATGATATATCACTTTATTTTAGAAAAATGTTTATTTCTCATAGACC
66 TTTCAGAAACTTTTCAGTAGTGATATATCACTTTATTTTAGAAAAAAGTCCATTTCTCATAGACC
4521873 ATTTAATGCACAA
131 ATTTAATGCACAA
* * * *
4521886 TGATAGAAAGTTTTCAGTGCCTAATAATTTTACTTCATAAAC-TTTACAGTTG-TATATCACTTC
1 TGATAGAAACTTTTCAGTGCCCAATAATTTCACTTCATAAACTTTTATAG-TGATATATCACTTC
* * * *
4521949 ATTTTAGAAACTTTTCAGTAGTGATATATCATTTTATTTTAGGAAAAAAGTCCATTTCTTATATA
65 ATTTCAGAAACTTTTCAGTAGTGATATATCACTTTATTTTA-GAAAAAAGTCCATTTCTCATAGA
4522014 CCATTTAATGCACAA
129 CCATTTAATGCACAA
* * *
4522029 TGATAGAAACTTTTCAGTGCACAATAATTTCATTTAATAAACTTTTA-AGTGATATATCACTTCA
1 TGATAGAAACTTTTCAGTGCCCAATAATTTCACTTCATAAACTTTTATAGTGATATATCACTTCA
* * *
4522093 TTTCAGAAACTTTTCAGTAGTGATATATCACTTCATTTCAGAAAAACGTCCATTTCTCATAGACC
66 TTTCAGAAACTTTTCAGTAGTGATATATCACTTTATTTTAGAAAAAAGTCCATTTCTCATAGACC
4522158 ATTTAATGCACAA
131 ATTTAATGCACAA
* * * *
4522171 TGACAAAAACATTTCAGTGCCCAATAATTTCACTTCATAAACTTTTCAGTAGTTATATATCACTT
1 TGATAGAAACTTTTCAGTGCCCAATAATTTCACTTCATAAACTTTT-A-TAGTGATATATCACTT
*
4522236 CATTTTAGAAA
64 CATTTCAGAAA
4522247 ATTGTACATT
Statistics
Matches: 317, Mismatches: 36, Indels: 13
0.87 0.10 0.04
Matches are distributed among these distances:
141 3 0.01
142 164 0.52
143 122 0.38
144 4 0.01
145 24 0.08
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (143 bp):
TGATAGAAACTTTTCAGTGCCCAATAATTTCACTTCATAAACTTTTATAGTGATATATCACTTCA
TTTCAGAAACTTTTCAGTAGTGATATATCACTTTATTTTAGAAAAAAGTCCATTTCTCATAGACC
ATTTAATGCACAA
Found at i:4522093 original size:32 final size:34
Alignment explanation
Indices: 4522057--4522136 Score: 110
Period size: 35 Copynumber: 2.4 Consensus size: 34
4522047 GCACAATAAT
*
4522057 TTCATTTAATAAACTTTT-A-AGTGATATATCAC
1 TTCATTTAAGAAACTTTTCAGAGTGATATATCAC
*
4522089 TTCATTTCAGAAACTTTTCAGTAGTGATATATCAC
1 TTCATTTAAGAAACTTTTCAG-AGTGATATATCAC
*
4522124 TTCATTTCAGAAA
1 TTCATTTAAGAAA
4522137 AACGTCCATT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
32 16 0.37
33 1 0.02
35 26 0.60
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (34 bp):
TTCATTTAAGAAACTTTTCAGAGTGATATATCAC
Found at i:4522296 original size:110 final size:110
Alignment explanation
Indices: 4522089--4522353 Score: 394
Period size: 110 Copynumber: 2.4 Consensus size: 110
4522079 GATATATCAC
* * * *
4522089 TTCATTTCAGAAACTTTTCAGTAGTGATATATCACTTCATTTCAGAAAAACGTCCATTTCTCATA
1 TTCACTTCATAAACTTTTCAGTAGTCATATATCACTTCATTTCAGAAAAACGTACATTTCTCATA
*
4522154 GACCATTTAATGCACAATGACAAAAACATTTCAGTGCCCAATAAT
66 GACCATTTAATGCACAATGACAAAAACATTTCAATGCCCAATAAT
* * **
4522199 TTCACTTCATAAACTTTTCAGTAGTTATATATCACTTCATTTTAGAAAATTGTACATTTCTCATA
1 TTCACTTCATAAACTTTTCAGTAGTCATATATCACTTCATTTCAGAAAAACGTACATTTCTCATA
* *
4522264 GACCATTTAATGCACAATGACAGAAACTTTTCAATGCCCAATAAT
66 GACCATTTAATGCACAATGACAAAAACATTTCAATGCCCAATAAT
*
4522309 TTCACTTCATTAACTTTTC---AGTCATATATCACTTCATTTCA-AAAA
1 TTCACTTCATAAACTTTTCAGTAGTCATATATCACTTCATTTCAGAAAA
4522354 CTTTTCAGTA
Statistics
Matches: 142, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
106 4 0.03
107 20 0.14
110 118 0.83
ACGTcount: A:0.35, C:0.20, G:0.08, T:0.36
Consensus pattern (110 bp):
TTCACTTCATAAACTTTTCAGTAGTCATATATCACTTCATTTCAGAAAAACGTACATTTCTCATA
GACCATTTAATGCACAATGACAAAAACATTTCAATGCCCAATAAT
Found at i:4522308 original size:252 final size:251
Alignment explanation
Indices: 4521956--4522495 Score: 778
Period size: 252 Copynumber: 2.1 Consensus size: 251
4521946 TTCATTTTAG
* * * * *
4521956 AAACTTTTCAGTAGTGATATATCATTTTATTTTAGGAAAAAAGTCCATTTCTTATATACCATTTA
1 AAACTTTTCAGTAGT-ATATATCACTTCATTTTA-GAAAAAAGTACATTTCTCATAGACCATTTA
* * * *
4522021 ATGCACAATGATAGAAACTTTTCAGTGCACAATAATTTCATTTAATAAACTTTTAAGTGATATAT
64 ATGCACAATGACAGAAACTTTTCAATGCACAATAATTTCACTTAATAAACTTTTAAGTCATATAT
* *
4522086 CACTTCATTTCAGAAACTTTTCAGTAGTGATATATCACTTCATTTCAGAAAAACGTCCATTTCTC
129 CACTTCATTTCAAAAACTTTTCAGTAGTGATATATCACTTCATTTCAGAAAAACATCCATTTCTC
* *
4522151 ATAGACCATTTAATGCACAATGACAAAAACATTTCAGTGCCCAATAATTTCACTTCAT
194 ATAGACCATTTAATGCACAATGACAAAAACATTTCAATGCCCAATAACTTCACTTCAT
**
4522209 AAACTTTTCAGTAGTTATATATCACTTCATTTTAGAAAATTGTACATTTCTCATAGACCATTTAA
1 AAACTTTTCAGTAG-TATATATCACTTCATTTTAGAAAAAAGTACATTTCTCATAGACCATTTAA
* * * *
4522274 TGCACAATGACAGAAACTTTTCAATGCCCAATAATTTCACTTCATTAACTTTTCAGTCATATATC
65 TGCACAATGACAGAAACTTTTCAATGCACAATAATTTCACTTAATAAACTTTTAAGTCATATATC
* * * * *
4522339 ACTTCATTTCAAAAACTTTTCAGTAGTGATATATCACTTTATTTCATAAAAATATCTATTTCTCG
130 ACTTCATTTCAAAAACTTTTCAGTAGTGATATATCACTTCATTTCAGAAAAACATCCATTTCTCA
* * * *
4522404 TAGACCATTTAATGTACAATGACAGAAACTTTTCAATGCCTAATAACTTCACTTCAT
195 TAGACCATTTAATGCACAATGACAAAAACATTTCAATGCCCAATAACTTCACTTCAT
*
4522461 AAATTTTTCAGT-G-ATATATCACTTCATTTTAGAAA
1 AAACTTTTCAGTAGTATATATCACTTCATTTTAGAAA
4522496 CTTTTCAGTG
Statistics
Matches: 257, Mismatches: 29, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
249 22 0.09
251 1 0.00
252 203 0.79
253 30 0.12
254 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.09, T:0.38
Consensus pattern (251 bp):
AAACTTTTCAGTAGTATATATCACTTCATTTTAGAAAAAAGTACATTTCTCATAGACCATTTAAT
GCACAATGACAGAAACTTTTCAATGCACAATAATTTCACTTAATAAACTTTTAAGTCATATATCA
CTTCATTTCAAAAACTTTTCAGTAGTGATATATCACTTCATTTCAGAAAAACATCCATTTCTCAT
AGACCATTTAATGCACAATGACAAAAACATTTCAATGCCCAATAACTTCACTTCAT
Found at i:4522328 original size:142 final size:142
Alignment explanation
Indices: 4522199--4522530 Score: 458
Period size: 142 Copynumber: 2.4 Consensus size: 142
4522189 GCCCAATAAT
* * *
4522199 TTCACTTCATAAACTTTTCAGTAGTTATATATCACTTCATTTTAGAAAATTGTAC-ATTTCTCAT
1 TTCATTTCAAAAACTTTTCAGTAG-TATATATCACTTCATTTTAGAAAATTAT-CTATTTCTCAT
* *
4522263 AGACCATTTAATGCACAATGACAGAAACTTTTCAATGCCCAATAATTTCACTTCATTAACTTTTC
64 AGACCATTTAATGCACAATGACAGAAACTTTTCAATGCCCAATAACTTCACTTCATAAACTTTTC
4522328 AGT-CATATATCAC
129 AGTGCATATATCAC
* * * * *
4522341 TTCATTTCAAAAACTTTTCAGTAGTGATATATCACTTTATTTCATAAAAATATCTATTTCTCGTA
1 TTCATTTCAAAAACTTTTCAGTAGT-ATATATCACTTCATTTTAGAAAATTATCTATTTCTCATA
* * *
4522406 GACCATTTAATGTACAATGACAGAAACTTTTCAATGCCTAATAACTTCACTTCATAAATTTTTCA
65 GACCATTTAATGCACAATGACAGAAACTTTTCAATGCCCAATAACTTCACTTCATAAACTTTTCA
4522471 GTG-ATATATCAC
130 GTGCATATATCAC
* * *
4522483 TTCATTTTAGAAACTTTTCAGT-G-ATACATCACTTCATTTTAGAAAATT
1 TTCATTTCAAAAACTTTTCAGTAGTATATATCACTTCATTTTAGAAAATT
4522531 TTAGTGATAT
Statistics
Matches: 167, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
139 20 0.12
141 3 0.02
142 144 0.86
ACGTcount: A:0.34, C:0.18, G:0.08, T:0.40
Consensus pattern (142 bp):
TTCATTTCAAAAACTTTTCAGTAGTATATATCACTTCATTTTAGAAAATTATCTATTTCTCATAG
ACCATTTAATGCACAATGACAGAAACTTTTCAATGCCCAATAACTTCACTTCATAAACTTTTCAG
TGCATATATCAC
Found at i:4522356 original size:32 final size:34
Alignment explanation
Indices: 4522320--4522389 Score: 90
Period size: 35 Copynumber: 2.1 Consensus size: 34
4522310 TCACTTCATT
4522320 AACTTTTC-AGTCATATATCACTTCATTTCA-AA
1 AACTTTTCAAGTCATATATCACTTCATTTCATAA
* *
4522352 AACTTTTCAGTAGTGATATATCACTTTATTTCATAA
1 AACTTTTCA--AGTCATATATCACTTCATTTCATAA
4522388 AA
1 AA
4522390 ATATCTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
32 8 0.25
35 20 0.62
36 4 0.12
ACGTcount: A:0.36, C:0.17, G:0.06, T:0.41
Consensus pattern (34 bp):
AACTTTTCAAGTCATATATCACTTCATTTCATAA
Done.