Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 99 of 378
Found at i:27140691 original size:41 final size:41
Alignment explanation
Indices: 27140646--27140763 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
27140636 TGAAAGATAA
27140646 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
27140687 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
27140717 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
27140758 ATGTAG
1 ATGTAG
27140764 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:27140703 original size:71 final size:71
Alignment explanation
Indices: 27140614--27140777 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
27140604 GAGATGTATC
27140614 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
27140679 AGGACA
66 AGGACA
27140685 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
27140750 AGGACA
66 AGGACA
27140756 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
27140778 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:27145684 original size:45 final size:45
Alignment explanation
Indices: 27145584--27145733 Score: 176
Period size: 45 Copynumber: 3.3 Consensus size: 45
27145574 TCGGCACAAT
* * * * *
27145584 GAGGGTAGAAGAAGTAA-AAGCAATCAGTTAAGAAGAAAACCGTTTGA
1 GAGGG-AGGAGAAG-AAGAAGCAATCGGTCAAGGAG-AAACCATTTGA
* *
27145631 GAGAGAGGAGAAGAAGAAGCAATTGGTCAAGGAGAAACCATTTGA
1 GAGGGAGGAGAAGAAGAAGCAATCGGTCAAGGAGAAACCATTTGA
* * *
27145676 GAGGGAGGAGAAGAATAAGTAATCGGTCAAGGAGAAACTATTTGA
1 GAGGGAGGAGAAGAAGAAGCAATCGGTCAAGGAGAAACCATTTGA
27145721 GAGGGAGGAGAAG
1 GAGGGAGGAGAAG
27145734 GGATATTCGG
Statistics
Matches: 90, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
45 65 0.72
46 21 0.23
47 4 0.04
ACGTcount: A:0.44, C:0.07, G:0.34, T:0.15
Consensus pattern (45 bp):
GAGGGAGGAGAAGAAGAAGCAATCGGTCAAGGAGAAACCATTTGA
Found at i:27148033 original size:14 final size:14
Alignment explanation
Indices: 27148014--27148048 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
27148004 TGTTGAATGG
27148014 TTTCTTTTTTTCTT
1 TTTCTTTTTTTCTT
27148028 TTTC-TTTTTTCTT
1 TTTCTTTTTTTCTT
27148041 TTT-TTTTT
1 TTTCTTTTT
27148049 GGATTTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTCTTTTTTTCTT
Found at i:27152612 original size:42 final size:43
Alignment explanation
Indices: 27152554--27152668 Score: 126
Period size: 42 Copynumber: 2.7 Consensus size: 43
27152544 TCAATTATCA
* ** *
27152554 ATGCCACTGTCCCAGACAGGGTCTTACACAAAATCGTATA-CG
1 ATGCCAATGTCCCAGACAGGGTCTTACACAAAATCACAAATCG
* *
27152596 ATGCCAATGTCCCAGACATGGTCTTACACCTAAATCACAAATCG
1 ATGCCAATGTCCCAGACAGGGTCTTACA-CAAAATCACAAATCG
**
27152640 ATGCCAACATCCCAGAC-GTGGTCTTACAC
1 ATGCCAATGTCCCAGACAG-GGTCTTACAC
27152669 GATAACACAT
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
42 26 0.43
43 9 0.15
44 26 0.43
ACGTcount: A:0.31, C:0.30, G:0.17, T:0.22
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACAAAATCACAAATCG
Found at i:27152655 original size:44 final size:43
Alignment explanation
Indices: 27152563--27152668 Score: 124
Period size: 44 Copynumber: 2.5 Consensus size: 43
27152553 AATGCCACTG
* ** * **
27152563 TCCCAGACAGGGTCTTACA-CAAAATCGTATACGATGCCAATG
1 TCCCAGACATGGTCTTACACCAAAATCACAAACGATGCCAACA
*
27152605 TCCCAGACATGGTCTTACACCTAAATCACAAATCGATGCCAACA
1 TCCCAGACATGGTCTTACACCAAAATCACAAA-CGATGCCAACA
*
27152649 TCCCAGACGTGGTCTTACAC
1 TCCCAGACATGGTCTTACAC
27152669 GATAACACAT
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
42 18 0.33
43 8 0.15
44 28 0.52
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACCAAAATCACAAACGATGCCAACA
Found at i:27159465 original size:44 final size:42
Alignment explanation
Indices: 27159324--27159480 Score: 149
Period size: 42 Copynumber: 3.7 Consensus size: 42
27159314 CTCGTACAAG
* * * * *
27159324 GCCAACGT-CCAAACGTGGTCTTACATGTAATCAATTATCGAT
1 GCCAACGTCCCAGACATGGTCTTACACGAAATCAAATA-CGAT
* **
27159366 GCC-ACTGTCCCAGACAGGGTCTTACACGAAATCTTATACGAT
1 GCCAAC-GTCCCAGACATGGTCTTACACGAAATCAAATACGAT
* *
27159408 GCCAATGTCCCAGACATGGTCATACACGTAAATCACAAATA-GAT
1 GCCAACGTCCCAGACATGGTCTTACACG-AAAT--CAAATACGAT
*
27159452 GCCAACGTCCCAGACGTGGTCTTACACGA
1 GCCAACGTCCCAGACATGGTCTTACACGA
27159481 CAACACATAT
Statistics
Matches: 93, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
41 2 0.02
42 32 0.34
43 27 0.29
44 28 0.30
45 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (42 bp):
GCCAACGTCCCAGACATGGTCTTACACGAAATCAAATACGAT
Found at i:27162453 original size:10 final size:10
Alignment explanation
Indices: 27162434--27162480 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
27162424 AAATCTGTTG
27162434 AAAA-TAATC
1 AAAATTAATC
27162443 AAAATTAATC
1 AAAATTAATC
*
27162453 AAAATTAATTAT
1 AAAATTAA-T-C
*
27162465 AAAATTAATT
1 AAAATTAATC
27162475 AAAATT
1 AAAATT
27162481 CAACATGTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
9 4 0.12
10 20 0.59
11 2 0.06
12 8 0.24
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (10 bp):
AAAATTAATC
Found at i:27166202 original size:40 final size:40
Alignment explanation
Indices: 27166158--27166375 Score: 316
Period size: 40 Copynumber: 5.5 Consensus size: 40
27166148 CACTCGAATA
*
27166158 CCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
27166198 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
*
27166238 CCTTCGGGACTTAGCCCGGAACTAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
* * *
27166278 CCTTCGGGACTTAGCCCAGATA-TGGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATG
* ** *
27166318 CCTTCGGG-CTTAGCCCGGAATTAGCCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
27166357 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
27166376 TTATCAATCC
Statistics
Matches: 162, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
38 1 0.01
39 32 0.20
40 128 0.79
41 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.23, T:0.21
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGAACTAGTAACTCGCACAAATG
Found at i:27166253 original size:80 final size:80
Alignment explanation
Indices: 27166119--27166375 Score: 317
Period size: 80 Copynumber: 3.2 Consensus size: 80
27166109 AAGCCAAGTA
* * * * * * *
27166119 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCACTCGAATACCTTCGGGACATAGCCCGGATA-T
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-ACT
27166181 AGTAACTCGCACAAATG
64 AGTAACTCGCACAAATG
27166198 CCTTCGGGACTTAGCCCGGA-ACTAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTA
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTA
*
27166262 GTAACTCACACAAATG
65 GTAACTCGCACAAATG
* * * *
27166278 CCTTCGGGACTTAGCCCAGATATGGTAACTCGTACAAATGCCTTCGGG-CTTAGCCCGGAATTAG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
** *
27166342 CCACTAGCACAAATG
66 TAACTCGCACAAATG
27166357 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
27166376 TTATCAATCC
Statistics
Matches: 156, Mismatches: 17, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
79 59 0.38
80 96 0.62
81 1 0.01
ACGTcount: A:0.27, C:0.29, G:0.22, T:0.22
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAACTAG
TAACTCGCACAAATG
Found at i:27170252 original size:53 final size:52
Alignment explanation
Indices: 27170183--27170346 Score: 166
Period size: 53 Copynumber: 3.1 Consensus size: 52
27170173 TTCCTTTCTA
**
27170183 AACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATG
1 AACTTACCA-TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
* * * * *
27170236 AACTCACCATGGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATCG
1 AACTTACCAT-GCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G
** * * * *
27170290 TAGTTTATCAATGCCATGTCTTAACATGGTCTTACATGATTTCCTTGCCTTATG
1 -AACTTA-CCATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
27170344 AAC
1 AAC
27170347 ATCATTAATT
Statistics
Matches: 87, Mismatches: 20, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
52 1 0.01
53 44 0.51
54 2 0.02
55 37 0.43
56 3 0.03
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (52 bp):
AACTTACCATGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG
Found at i:27172250 original size:40 final size:40
Alignment explanation
Indices: 27172206--27172282 Score: 120
Period size: 40 Copynumber: 1.9 Consensus size: 40
27172196 TTAGTGTCAC
27172206 ATATAGCTGAAGCTAT-TCCAATTCGCACACTAAGTGCTTT
1 ATATAGCTGAAGCTATCTCCAA-TCGCACACTAAGTGCTTT
**
27172246 ATATAGCTGAAGCTATCTTGAATCGCACACTAAGTGC
1 ATATAGCTGAAGCTATCTCCAATCGCACACTAAGTGC
27172283 CAACCATAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 31 0.91
41 3 0.09
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (40 bp):
ATATAGCTGAAGCTATCTCCAATCGCACACTAAGTGCTTT
Found at i:27177628 original size:39 final size:39
Alignment explanation
Indices: 27177576--27177741 Score: 260
Period size: 39 Copynumber: 4.3 Consensus size: 39
27177566 TATGAGATTG
* *
27177576 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
*
27177615 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTGGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
27177654 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
* * * **
27177693 AATATATCCGGACTTGAGGTCCGCAGGCTACGTGCTAGA
1 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
27177732 AAAATATCCG
1 AAAATATCCG
27177742 AGTTAAAGAC
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 119 1.00
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (39 bp):
AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGA
Found at i:27177756 original size:78 final size:78
Alignment explanation
Indices: 27177576--27177760 Score: 228
Period size: 78 Copynumber: 2.4 Consensus size: 78
27177566 TATGAGATTG
* ** *
27177576 AAAATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAAAATATCCGGACATGAGATCCGCAG
1 AAAATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCAG
* *
27177641 GCTATATGCTGGA
66 GCTACATGCTAGA
* * * * *
27177654 AAAATATCCGGACATGAGATCCGCAGGCTATATGCTAGAAATATATCCGGACTTGAGGTCCGCAG
1 AAAATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCAG
*
27177719 GCTACGTGCTAGA
66 GCTACATGCTAGA
**
27177732 AAAATATCC-GAGTTAAAGACCCGCAGGCT
1 AAAATATCCGGACAT-AAGACCCGCAGGCT
27177761 TACACTAGTA
Statistics
Matches: 94, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
77 3 0.03
78 91 0.97
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.21
Consensus pattern (78 bp):
AAAATATCCGGACATAAGACCCGCAGGCTATATGCTAGAAAAATATCCGGACATGAGATCCGCAG
GCTACATGCTAGA
Found at i:27182453 original size:47 final size:47
Alignment explanation
Indices: 27182390--27182550 Score: 259
Period size: 47 Copynumber: 3.4 Consensus size: 47
27182380 CCCTTCGGGA
* * *
27182390 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27182437 CCTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27182484 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27182533 CTTATCACATATATACAC
1 CTTATCACATATATACAC
27182551 CTCATACAAA
Statistics
Matches: 105, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
47 59 0.56
49 46 0.44
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27182517 original size:49 final size:49
Alignment explanation
Indices: 27182390--27182547 Score: 252
Period size: 49 Copynumber: 3.3 Consensus size: 49
27182380 CCCTTCGGGA
* *
27182390 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
27182437 CCTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27182484 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
27182533 CTTATCACATATATA
1 CTTATCACATATATA
27182548 CACCTCATAC
Statistics
Matches: 101, Mismatches: 6, Indels: 6
0.89 0.05 0.05
Matches are distributed among these distances:
46 1 0.01
47 47 0.47
49 53 0.52
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:27185109 original size:40 final size:40
Alignment explanation
Indices: 27185039--27185296 Score: 380
Period size: 40 Copynumber: 6.5 Consensus size: 40
27185029 CAACCAAGTA
* * *
27185039 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
27185078 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
27185118 CCTTCGGGACTTAGCTCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
27185158 CCTTCGGGATTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
27185198 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
27185238 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
27185278 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
27185297 TTATCATCCG
Statistics
Matches: 201, Mismatches: 13, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
39 16 0.08
40 184 0.92
41 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:27191530 original size:40 final size:40
Alignment explanation
Indices: 27191475--27191699 Score: 299
Period size: 40 Copynumber: 5.6 Consensus size: 40
27191465 TATTCGGATG
*
27191475 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
27191515 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
27191555 ATATCCGGGCGAAGTCCTGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC--G-AGTTACT
* * *
27191598 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* * *
27191638 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
27191678 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
27191700 TACTTGGGTT
Statistics
Matches: 160, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
39 14 0.09
40 112 0.70
43 34 0.21
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:27191718 original size:83 final size:80
Alignment explanation
Indices: 27191475--27191699 Score: 353
Period size: 83 Copynumber: 2.8 Consensus size: 80
27191465 TATTCGGATG
* *
27191475 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTGCTATATCCGGGCTAAGTCCCGAAGGCA
27191540 TTTGTGCTAGTGACT
66 TTTGTGCTAGTGACT
* * *
27191555 ATATCCGGGCGAAGTCCTGAAGGCATTTGTGCGAGTAGTTGCTATACCCGGGCTAAGTCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA--A-TTGCTATATCCGGGCTAAGTCCCGAAG
27191620 GCATTTGTGCTAGTGACT
63 GCATTTGTGCTAGTGACT
* *
27191638 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGCTATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTGCTATATCCGGGCTAAGTCCCGAAGG
27191700 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
79 15 0.11
80 42 0.32
81 1 0.01
83 74 0.56
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTGCTATATCCGGGCTAAGTCCCGAAGGCA
TTTGTGCTAGTGACT
Found at i:27193514 original size:30 final size:30
Alignment explanation
Indices: 27193480--27193540 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
27193470 TCCTTAACTC
27193480 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
27193510 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
27193540 A
1 A
27193541 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:27196092 original size:29 final size:29
Alignment explanation
Indices: 27196057--27196130 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
27196047 GTTGTGAGAT
* *
27196057 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
27196086 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
27196115 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
27196131 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:27203841 original size:29 final size:29
Alignment explanation
Indices: 27203808--27203880 Score: 103
Period size: 29 Copynumber: 2.5 Consensus size: 29
27203798 GCTGGTTTTC
* *
27203808 GGCACTAAGTGTGCGGGCTTGAAA-TGCAT
1 GGCACTAAGTGTGCGAG-TTGAAAGTACAT
*
27203837 GGCACTAAGTGTGCGAGTTTAAAGTACAT
1 GGCACTAAGTGTGCGAGTTGAAAGTACAT
27203866 GGCACTAAGTGTGCG
1 GGCACTAAGTGTGCG
27203881 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.16, G:0.33, T:0.25
Consensus pattern (29 bp):
GGCACTAAGTGTGCGAGTTGAAAGTACAT
Found at i:27205615 original size:27 final size:27
Alignment explanation
Indices: 27205585--27205671 Score: 72
Period size: 27 Copynumber: 3.3 Consensus size: 27
27205575 CCTAAATTCG
27205585 AATGTAAAAACCTTATGATTTCATTAA
1 AATGTAAAAACCTTATGATTTCATTAA
* * ** * *
27205612 AATGT-AACACC-TACTTAACTAACTT-G
1 AATGTAAAAACCTTA-TGATTTCA-TTAA
*
27205638 AATGTAAAAACCTTATGGTTTCATTAA
1 AATGTAAAAACCTTATGATTTCATTAA
27205665 AATGTAA
1 AATGTAA
27205672 CACCTACTTA
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
25 2 0.05
26 16 0.38
27 22 0.52
28 2 0.05
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (27 bp):
AATGTAAAAACCTTATGATTTCATTAA
Found at i:27205647 original size:53 final size:53
Alignment explanation
Indices: 27205584--27205689 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
27205574 ACCTAAATTC
27205584 GAATGTAAAAACCTTATGATTTCATTAAAATGTAACACCTACTTAACTAACTT
1 GAATGTAAAAACCTTATGATTTCATTAAAATGTAACACCTACTTAACTAACTT
*
27205637 GAATGTAAAAACCTTATGGTTTCATTAAAATGTAACACCTACTTAACTAACTT
1 GAATGTAAAAACCTTATGATTTCATTAAAATGTAACACCTACTTAACTAACTT
27205690 CATGTCAACA
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.41, C:0.17, G:0.08, T:0.34
Consensus pattern (53 bp):
GAATGTAAAAACCTTATGATTTCATTAAAATGTAACACCTACTTAACTAACTT
Found at i:27207036 original size:21 final size:22
Alignment explanation
Indices: 27207012--27207088 Score: 52
Period size: 21 Copynumber: 3.6 Consensus size: 22
27207002 AAAAATCACT
27207012 ATTTT-TTTTAAAAAATTAAAA
1 ATTTTCTTTTAAAAAATTAAAA
* ** * * *
27207033 A-TTTATTTCGAAATAGTCAAA
1 ATTTTCTTTTAAAAAATTAAAA
* *
27207054 ATTTTGTTTT-AAAAATTTAAA
1 ATTTTCTTTTAAAAAATTAAAA
*
27207075 ATTTTCCTTTAAAA
1 ATTTTCTTTTAAAA
27207089 TGACTAAAAA
Statistics
Matches: 41, Mismatches: 12, Indels: 5
0.71 0.21 0.09
Matches are distributed among these distances:
20 3 0.07
21 29 0.71
22 9 0.22
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (22 bp):
ATTTTCTTTTAAAAAATTAAAA
Found at i:27207576 original size:3 final size:3
Alignment explanation
Indices: 27207568--27207593 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
27207558 CATTTCATAT
27207568 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
27207594 TTGGGCCCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:27208878 original size:79 final size:79
Alignment explanation
Indices: 27208747--27208896 Score: 273
Period size: 79 Copynumber: 1.9 Consensus size: 79
27208737 CCAAATCCAC
27208747 ATCCATTTAAATTAGAACATGTAAAGGAACTCGAATCTTAGTAAAATTTAAGAACTGTTTCTAGG
1 ATCCATTTAAATTAGAACATGTAAAGGAACTCGAATCTTAGTAAAATTTAAGAACTGTTTCTAGG
27208812 ACAACAGCCCTAGA
66 ACAACAGCCCTAGA
* * *
27208826 ATCCATTTAAATTAGAACATGTAAAGGAACTCTAATCTTAGTAAGATTTAAGAACTGTTTTTAGG
1 ATCCATTTAAATTAGAACATGTAAAGGAACTCGAATCTTAGTAAAATTTAAGAACTGTTTCTAGG
27208891 ACAACA
66 ACAACA
27208897 ATCGTAGAAT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
79 68 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (79 bp):
ATCCATTTAAATTAGAACATGTAAAGGAACTCGAATCTTAGTAAAATTTAAGAACTGTTTCTAGG
ACAACAGCCCTAGA
Found at i:27217611 original size:47 final size:47
Alignment explanation
Indices: 27217553--27217896 Score: 571
Period size: 47 Copynumber: 7.3 Consensus size: 47
27217543 GTATGAGATA
* *
27217553 TATATATGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
27217600 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
27217647 CATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
27217694 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
27217741 TATATATGTGACAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * *
27217788 CATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
* * * *
27217835 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
27217882 TATAAATGTGATAAG
1 TATATATGTGATAAG
27217897 TCCCGAAGGG
Statistics
Matches: 284, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 284 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:27218073 original size:37 final size:37
Alignment explanation
Indices: 27218014--27218096 Score: 130
Period size: 37 Copynumber: 2.2 Consensus size: 37
27218004 CCGAGCTCTA
* *
27218014 AAGACCCGATGACTACGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
27218051 AAGACCCGATGACCACGGGTGGAGATTTTGTCCGGGT
1 AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
*
27218088 AAGCCCCGA
1 AAGACCCGA
27218097 ACTAAAGGTT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.33, T:0.20
Consensus pattern (37 bp):
AAGACCCGATGACCACGGGTGGAGATTATGTCCGGGT
Found at i:27224123 original size:91 final size:89
Alignment explanation
Indices: 27223942--27224221 Score: 312
Period size: 91 Copynumber: 3.1 Consensus size: 89
27223932 CTTAAAGGTA
* * * * * * *
27223942 CAAAAAGGCCTCAAACTTTTTCAAACAAAGCAATTAAGCCCCTAA-TTTTTTTTGCACTTATTTT
1 CAAAAAGGCCTCAAACCTTTTCAAAAAAAGCAATAAAACTCCTAATTTTTTTTTGCACTCATTTA
*
27224006 GGTACTTGAACTTTCAAAATGTAT
66 GGTACTTGAACTTTCAAAATGCAT
* *
27224030 CAAAAAGGTCTTCAAACCTTTTCAAAAAAAGCAATCAAACTCCTAATTTTTTTTTTGCACTCATT
1 CAAAAAGG-CCTCAAACCTTTTCAAAAAAAGCAATAAAACTCCTAA-TTTTTTTTTGCACTCATT
27224095 TAGGTACTTGAACTTTCAAAATGCAT
64 TAGGTACTTGAACTTTCAAAATGCAT
** * *
27224121 CAAAAAGGCCCTCAAACCTTTTCAAAAAAAAAAAGAAAAACTTAAGCCCCT-ACTTTTTTTTGCA
1 CAAAAAGG-CCTCAAACCTTTTCAAAAAAAGCAA-TAAAAC-T-----CCTAATTTTTTTTTGCA
* *
27224185 CTCAATTGGGTACTTGAACTTTCAAAATGCAT
58 CTCATTTAGGTACTTGAACTTTCAAAATGCAT
27224217 CAAAA
1 CAAAA
27224222 GGACCCTTGA
Statistics
Matches: 164, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
88 8 0.05
89 31 0.19
91 70 0.43
92 4 0.02
93 1 0.01
96 46 0.28
97 1 0.01
98 3 0.02
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (89 bp):
CAAAAAGGCCTCAAACCTTTTCAAAAAAAGCAATAAAACTCCTAATTTTTTTTTGCACTCATTTA
GGTACTTGAACTTTCAAAATGCAT
Found at i:27224396 original size:19 final size:17
Alignment explanation
Indices: 27224356--27224439 Score: 64
Period size: 17 Copynumber: 4.7 Consensus size: 17
27224346 TCAAATATTA
*
27224356 AAAATTTATTAAAAATTGT
1 AAAATTTA-TAAAAA-TAT
27224375 AAAATTTTATAAAAATCAT
1 AAAA-TTTATAAAAAT-AT
**
27224394 AAAAAATAT-AAAATAT
1 AAAATTTATAAAAATAT
*
27224410 AGAAATATA-AAAAATAT
1 A-AAATTTATAAAAATAT
27224427 AAAATTTTATAAA
1 AAAA-TTTATAAA
27224440 GTCATAATAA
Statistics
Matches: 54, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
16 6 0.11
17 22 0.41
18 7 0.13
19 15 0.28
20 4 0.07
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (17 bp):
AAAATTTATAAAAATAT
Found at i:27224398 original size:10 final size:9
Alignment explanation
Indices: 27224385--27224430 Score: 53
Period size: 9 Copynumber: 5.3 Consensus size: 9
27224375 AAAATTTTAT
27224385 AAAAATCATA
1 AAAAAT-ATA
27224395 AAAAATAT-
1 AAAAATATA
27224403 -AAAATAT-
1 AAAAATATA
*
27224410 AGAAATATA
1 AAAAATATA
27224419 AAAAATATA
1 AAAAATATA
27224428 AAA
1 AAA
27224431 TTTTATAAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
7 7 0.22
8 6 0.19
9 13 0.41
10 6 0.19
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (9 bp):
AAAAATATA
Found at i:27224398 original size:20 final size:20
Alignment explanation
Indices: 27224354--27224398 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
27224344 ATTCAAATAT
**
27224354 TAAAAATTTATTAAAAATTG
1 TAAAAATTTATTAAAAATCA
*
27224374 TAAAATTTTA-TAAAAATCA
1 TAAAAATTTATTAAAAATCA
27224393 TAAAAA
1 TAAAAA
27224399 ATATAAAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (20 bp):
TAAAAATTTATTAAAAATCA
Found at i:27224424 original size:24 final size:25
Alignment explanation
Indices: 27224382--27224431 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
27224372 TGTAAAATTT
27224382 TATAAAAATCATAAAAAATATAAAA
1 TATAAAAATCATAAAAAATATAAAA
*
27224407 TATAGAAAT-ATAAAAAATATAAAA
1 TATAAAAATCATAAAAAATATAAAA
27224431 T
1 T
27224432 TTTATAAAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 16 0.67
25 8 0.33
ACGTcount: A:0.70, C:0.02, G:0.02, T:0.26
Consensus pattern (25 bp):
TATAAAAATCATAAAAAATATAAAA
Found at i:27224661 original size:19 final size:19
Alignment explanation
Indices: 27224637--27224773 Score: 68
Period size: 19 Copynumber: 7.2 Consensus size: 19
27224627 CTGTTAAATT
27224637 TTTTATAATTTTTATAAAA
1 TTTTATAATTTTTATAAAA
** *
27224656 TTTTATAAATTTTT-TTTAT
1 TTTTAT-AATTTTTATAAAA
* *
27224675 TTTTTTCTATTTTTATAAAA
1 TTTTAT-AATTTTTATAAAA
*** *
27224695 AAATCTAATTTTTA-ATAAA
1 TTTTATAATTTTTATA-AAA
27224714 --TT-TAATTTTTATTAAAA
1 TTTTATAATTTTTA-TAAAA
* * *
27224731 TTTAATAAGTTTTCTAAAA
1 TTTTATAATTTTTATAAAA
* *
27224750 TTTAATAAATTTTATAATAA
1 TTTTATAATTTTTATAA-AA
27224770 TTTT
1 TTTT
27224774 TTGTATTTTT
Statistics
Matches: 88, Mismatches: 21, Indels: 17
0.70 0.17 0.13
Matches are distributed among these distances:
16 9 0.10
17 4 0.05
18 2 0.02
19 50 0.57
20 23 0.26
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (19 bp):
TTTTATAATTTTTATAAAA
Found at i:27224670 original size:11 final size:10
Alignment explanation
Indices: 27224631--27224669 Score: 53
Period size: 10 Copynumber: 3.9 Consensus size: 10
27224621 TAGGGGCTGT
27224631 TAAATTTTT-
1 TAAATTTTTA
27224640 TATAATTTTTA
1 TA-AATTTTTA
*
27224651 TAAAATTTTA
1 TAAATTTTTA
27224661 TAAATTTTT
1 TAAATTTTT
27224670 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
9 2 0.08
10 22 0.85
11 2 0.08
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
TAAATTTTTA
Found at i:27224731 original size:17 final size:17
Alignment explanation
Indices: 27224694--27224736 Score: 61
Period size: 16 Copynumber: 2.6 Consensus size: 17
27224684 TTTTTATAAA
*
27224694 AAAATCTAATTTTTAAT
1 AAAATTTAATTTTTAAT
*
27224711 -AAATTTAATTTTTATT
1 AAAATTTAATTTTTAAT
27224727 AAAATTTAAT
1 AAAATTTAAT
27224737 AAGTTTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
AAAATTTAATTTTTAAT
Found at i:27224886 original size:87 final size:87
Alignment explanation
Indices: 27224794--27224965 Score: 231
Period size: 87 Copynumber: 2.0 Consensus size: 87
27224784 TAATTAGACT
*
27224794 AGGGGCTTAATTGTT-TTTTTGAAAAAAATT-AAGGGTCTTTTTGATACATTTTGAAAGTTCAAG
1 AGGGGCTTAATT-TTGTTTTTGAAAAAAATTGAA-GGCCTTTTTGATACATTTTGAAAGTTCAAG
*
27224857 TATCCAATTGAGTGAAAAAAAAGC
64 TATCCAATTAAGTGAAAAAAAAGC
* ** * *
27224881 AGGGGCTTAATTTTGTTTTTGAAGAAGTTTGAAGGCCTTTTTGATGCATTTTGAAAGTTCAAGTG
1 AGGGGCTTAATTTTGTTTTTGAAAAAAATTGAAGGCCTTTTTGATACATTTTGAAAGTTCAAGTA
**
27224946 TTTAATTAAGTGAAAAAAAA
66 TCCAATTAAGTGAAAAAAAA
27224966 AAAGAGGAGG
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
86 2 0.03
87 70 0.95
88 2 0.03
ACGTcount: A:0.35, C:0.07, G:0.21, T:0.37
Consensus pattern (87 bp):
AGGGGCTTAATTTTGTTTTTGAAAAAAATTGAAGGCCTTTTTGATACATTTTGAAAGTTCAAGTA
TCCAATTAAGTGAAAAAAAAGC
Found at i:27227541 original size:24 final size:24
Alignment explanation
Indices: 27227509--27227571 Score: 126
Period size: 24 Copynumber: 2.6 Consensus size: 24
27227499 AATCTCAAAT
27227509 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
27227533 GCACTATGTGTGCGATTTACTATG
1 GCACTATGTGTGCGATTTACTATG
27227557 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
27227572 ACATAATAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 39 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (24 bp):
GCACTATGTGTGCGATTTACTATG
Found at i:27230099 original size:47 final size:47
Alignment explanation
Indices: 27230026--27230158 Score: 164
Period size: 47 Copynumber: 2.8 Consensus size: 47
27230016 GGGCTATTGT
* * *
27230026 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCTA-TATTG-TGA
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTATTA-AGACGA
*
27230072 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGC-ATTAAGACGA
1 GAGCTAGTGTAAGA-CATGTCTAGGACAT-GCATCGGCTATTAAGACGA
* *
27230120 GTGCTAGTGTAAGACATGTCTAGGACATGCATCGACTAT
1 GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTAT
27230159 GAGATGTGTT
Statistics
Matches: 75, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
46 20 0.27
47 31 0.41
48 24 0.32
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (47 bp):
GAGCTAGTGTAAGACATGTCTAGGACATGCATCGGCTATTAAGACGA
Found at i:27230202 original size:92 final size:93
Alignment explanation
Indices: 27230028--27230202 Score: 246
Period size: 92 Copynumber: 1.9 Consensus size: 93
27230018 GCTATTGTGA
* * *
27230028 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCTATATTGTGAGAGCCAGTGTAAGACCATGTC
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGAC-ATATTGAGAGAGCCAGTGTAAGACCATGTC
27230093 TAGGACATGGCATCGGCATTAAGACGAGT
65 TAGGACATGGCATCGGCATTAAGACGAGT
* ** *
27230122 GCTAGTGTAAGACATGTCTAGGACATGCATCGAC-TA-TGAGATGTGTTAGTGTAAGACCATGTT
1 GCTAGTGTAAGACATGTCTAGGACATGCATCGACATATTGAGA-GAGCCAGTGTAAGACCATGTC
*
27230185 TGGGACATGGCATCGGCA
65 TAGGACATGGCATCGGCA
27230203 CAGATATGCT
Statistics
Matches: 72, Mismatches: 8, Indels: 4
0.86 0.10 0.05
Matches are distributed among these distances:
91 4 0.06
92 36 0.50
94 32 0.44
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (93 bp):
GCTAGTGTAAGACATGTCTAGGACATGCATCGACATATTGAGAGAGCCAGTGTAAGACCATGTCT
AGGACATGGCATCGGCATTAAGACGAGT
Found at i:27232585 original size:23 final size:23
Alignment explanation
Indices: 27232557--27232602 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
27232547 ATAAAGATTC
*
27232557 TAGTGATTTTTATTAAAGAAAGA
1 TAGTGATTTTTATCAAAGAAAGA
27232580 TAGTGATTTTTATCAAAGAAAGA
1 TAGTGATTTTTATCAAAGAAAGA
27232603 CAGGATTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.17, T:0.37
Consensus pattern (23 bp):
TAGTGATTTTTATCAAAGAAAGA
Found at i:27232609 original size:22 final size:23
Alignment explanation
Indices: 27232558--27232609 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
27232548 TAAAGATTCT
* *
27232558 AGTGATTTTTATTAAAGAAAGAT
1 AGTGATTTTTATCAAAGAAAGAC
27232581 AGTGATTTTTATCAAAGAAAGAC
1 AGTGATTTTTATCAAAGAAAGAC
27232604 AG-GATT
1 AGTGATT
27232610 AACTAAGGCT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 4 0.15
23 23 0.85
ACGTcount: A:0.42, C:0.04, G:0.19, T:0.35
Consensus pattern (23 bp):
AGTGATTTTTATCAAAGAAAGAC
Found at i:27234739 original size:59 final size:59
Alignment explanation
Indices: 27234647--27234765 Score: 220
Period size: 59 Copynumber: 2.0 Consensus size: 59
27234637 CAGTCGACCG
*
27234647 ATCTATTCAAGGCAAGTGGTAGTCGATCTTTCGGTTAGATGGTTGTTAAGGGTTTTTCT
1 ATCTACTCAAGGCAAGTGGTAGTCGATCTTTCGGTTAGATGGTTGTTAAGGGTTTTTCT
*
27234706 ATCTACTCAAGGCAAGTGGTAGTCGATCTTTCGGTTAGATGGTTGTTAATGGTTTTTCT
1 ATCTACTCAAGGCAAGTGGTAGTCGATCTTTCGGTTAGATGGTTGTTAAGGGTTTTTCT
27234765 A
1 A
27234766 ACACTATTTG
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
59 58 1.00
ACGTcount: A:0.21, C:0.13, G:0.26, T:0.40
Consensus pattern (59 bp):
ATCTACTCAAGGCAAGTGGTAGTCGATCTTTCGGTTAGATGGTTGTTAAGGGTTTTTCT
Found at i:27235420 original size:27 final size:27
Alignment explanation
Indices: 27235384--27235663 Score: 308
Period size: 27 Copynumber: 10.4 Consensus size: 27
27235374 GGCCCCCGAT
*
27235384 TTGTAAAATTATCGAAATACCCTTAGA
1 TTGTAAAATTATCGAAATACCCTCAGA
* *
27235411 TTGTAAAATTACCGAAATA-CCTCTAGT
1 TTGTAAAATTATCGAAATACCCTC-AGA
*
27235438 TTGTAAAATTATCGAAATACCC-CCGA
1 TTGTAAAATTATCGAAATACCCTCAGA
*
27235464 TTTGTAAAATTATCGAAAAACCCTCAGA
1 -TTGTAAAATTATCGAAATACCCTCAGA
*
27235492 TTGTAAAATTATCGAAATA-CCTCCGA
1 TTGTAAAATTATCGAAATACCCTCAGA
* *
27235518 TTTGTAAAATTA-CCACAATACCCTCATA
1 -TTGTAAAATTATCGA-AATACCCTCAGA
* *
27235546 TTGTAAAATTA-CTGAAATACCCTCGGT
1 TTGTAAAATTATC-GAAATACCCTCAGA
* *
27235573 TTGTAAAATTACCAAAATACCCTCAGA
1 TTGTAAAATTATCGAAATACCCTCAGA
27235600 TTGTAAAATTA-CTGAAATACCC-C-GA
1 TTGTAAAATTATC-GAAATACCCTCAGA
*
27235625 TTTGTAAAGTTATCGAAATACCCTCA-A
1 -TTGTAAAATTATCGAAATACCCTCAGA
27235652 TTTGTAAAATTA
1 -TTGTAAAATTA
27235664 CAAAAATACC
Statistics
Matches: 216, Mismatches: 23, Indels: 28
0.81 0.09 0.10
Matches are distributed among these distances:
25 2 0.01
26 33 0.15
27 169 0.78
28 12 0.06
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TTGTAAAATTATCGAAATACCCTCAGA
Found at i:27235469 original size:54 final size:54
Alignment explanation
Indices: 27235383--27235663 Score: 342
Period size: 54 Copynumber: 5.2 Consensus size: 54
27235373 AGGCCCCCGA
**
27235383 TTTGTAAAATTATCGAAATACCCTTAGA-TTGTAAAATTACCGAAATA-CCTCTAG
1 TTTGTAAAATTATCGAAATACCC-CCGATTTGTAAAATTACCGAAATACCCTC-AG
* *
27235437 TTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTATCGAAAAACCCTCAG
1 TTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCAG
* *
27235491 ATTGTAAAATTATCGAAATACCTCCGATTTGTAAAATTACC-ACAATACCCTCA-
1 TTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACCGA-AATACCCTCAG
* * *
27235544 TATTGTAAAATTA-CTGAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTCAG
1 T-TTGTAAAATTATC-GAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCAG
* * * *
27235599 ATTGTAAAATTA-CTGAAATA-CCCCGATTTGTAAAGTTATCGAAATACCCTCAA
1 TTTGTAAAATTATC-GAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCAG
27235652 TTTGTAAAATTA
1 TTTGTAAAATTA
27235664 CAAAAATACC
Statistics
Matches: 200, Mismatches: 20, Indels: 15
0.85 0.09 0.06
Matches are distributed among these distances:
53 42 0.21
54 153 0.76
55 5 0.03
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (54 bp):
TTTGTAAAATTATCGAAATACCCCCGATTTGTAAAATTACCGAAATACCCTCAG
Found at i:27235511 original size:81 final size:80
Alignment explanation
Indices: 27235376--27235673 Score: 365
Period size: 81 Copynumber: 3.7 Consensus size: 80
27235366 GTCGTTAAGG
*
27235376 CCCCCGATTTGTAAAATTATCGAAATACCCTTAGATTGTAAAATTACCGAAATACCTCTAGTTTG
1 CCCCCGATTTGTAAAATTATCGAAATACCCTCAGATTGTAAAATTACCGAAATACCTCTAGTTTG
27235441 TAAAATTATCGAAATA
66 TAAAATTA-CGAAATA
* * *
27235457 CCCCCGATTTGTAAAATTATCGAAAAACCCTCAGATTGTAAAATTATCGAAATACCTC-CGATTT
1 CCCCCGATTTGTAAAATTATCGAAATACCCTCAGATTGTAAAATTACCGAAATACCTCTAG-TTT
*
27235521 GTAAAATTACCACAATA
65 GTAAAATTACGA-AATA
* * * * *
27235538 CCCTC-ATATTGTAAAATTA-CTGAAATACCCTCGGTTTGTAAAATTACCAAAATACC-CTCAGA
1 CCCCCGAT-TTGTAAAATTATC-GAAATACCCTCAGATTGTAAAATTACCGAAATACCTCT-AGT
27235600 TTGTAAAATTACTGAAATA
63 TTGTAAAATTAC-GAAATA
* **
27235619 -CCCCGATTTGTAAAGTTATCGAAATACCCTCA-ATTTGTAAAATTACAAAAATACC
1 CCCCCGATTTGTAAAATTATCGAAATACCCTCAGA-TTGTAAAATTACCGAAATACC
27235674 CTTGTAGTAC
Statistics
Matches: 188, Mismatches: 19, Indels: 21
0.82 0.08 0.09
Matches are distributed among these distances:
80 51 0.27
81 135 0.72
82 2 0.01
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (80 bp):
CCCCCGATTTGTAAAATTATCGAAATACCCTCAGATTGTAAAATTACCGAAATACCTCTAGTTTG
TAAAATTACGAAATA
Found at i:27235713 original size:107 final size:108
Alignment explanation
Indices: 27235386--27235720 Score: 239
Period size: 108 Copynumber: 3.1 Consensus size: 108
27235376 CCCCCGATTT
**
27235386 GTAAAATTA-TCGAAATACCCTTAGA-TTGTAAAATTACCGA-AATA-CCTC-TAGTTTGTAAAA
1 GTAAAATTACT-GAAATA-CCTCCGATTTGTAAAATTACC-ACAATACCCTCATA--TTGTAAAA
* * * * * * * **
27235446 TTATC-GAAATACCCCCGATTTGTAAAATTATCGAAAA-ACCCTCAGATT
61 TTA-CAAAAATACCCTCGGTTAGTAAAATCA-CCAAAATACCATCAGAGG
27235494 GTAAAATTA-TCGAAATACCTCCGATTTGTAAAATTACCACAATACCCTCATATTGTAAAATTAC
1 GTAAAATTACT-GAAATACCTCCGATTTGTAAAATTACCACAATACCCTCATATTGTAAAATTAC
** * * * **
27235558 TGAAATACCCTCGGTTTGTAAAATTACCAAAATACCCTCAGATT
65 AAAAATACCCTCGGTTAGTAAAATCACCAAAATACCATCAGAGG
* *
27235602 GTAAAATTACTGAAATACC-CCGATTTGTAAAGTTATCGA-AATACCCTCA-ATTTGTAAAATTA
1 GTAAAATTACTGAAATACCTCCGATTTGTAAAATTA-CCACAATACCCTCATA-TTGTAAAATTA
* * *
27235664 CAAAAATACCCT-TG-TAGTACAAAATCACCGAAATACCAT-TGTAGG
64 CAAAAATACCCTCGGTTAGT--AAAATCACCAAAATACCATCAG-AGG
*
27235709 GTAAAATGACTG
1 GTAAAATTACTG
27235721 TTTTGCCCTT
Statistics
Matches: 197, Mismatches: 18, Indels: 25
0.82 0.08 0.10
Matches are distributed among these distances:
105 3 0.02
106 3 0.02
107 86 0.44
108 98 0.50
109 5 0.03
110 2 0.01
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (108 bp):
GTAAAATTACTGAAATACCTCCGATTTGTAAAATTACCACAATACCCTCATATTGTAAAATTACA
AAAATACCCTCGGTTAGTAAAATCACCAAAATACCATCAGAGG
Found at i:27236167 original size:27 final size:27
Alignment explanation
Indices: 27236121--27236211 Score: 74
Period size: 27 Copynumber: 3.4 Consensus size: 27
27236111 TCTTGATTAC
* *
27236121 GGCTTTGTGCCAATCGTATTTACCCAT
1 GGCTATGTGCCAATCATATTTACCCAT
* ***
27236148 GGCTATGTGCCTATCATATTTATTGAT
1 GGCTATGTGCCAATCATATTTACCCAT
* * ** *
27236175 GACTCTGTATCGATCATATTTACCCAT
1 GGCTATGTGCCAATCATATTTACCCAT
*
27236202 GGCTGTGTGC
1 GGCTATGTGC
27236212 TAATTATAAT
Statistics
Matches: 46, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (27 bp):
GGCTATGTGCCAATCATATTTACCCAT
Found at i:27247869 original size:36 final size:37
Alignment explanation
Indices: 27247822--27247913 Score: 116
Period size: 37 Copynumber: 2.5 Consensus size: 37
27247812 GTTTCCAAAT
* *
27247822 TCACATTTCAATTCAATTTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
* *
27247858 TCACAATTCAATTCAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCAATTC-AATTTCACTTTTCCACTTTCAAG
27247896 TCA-ATATTCAATTCAATT
1 TCACA-ATTCAATTCAATT
27247914 CCACACATAT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
36 13 0.27
37 23 0.48
38 12 0.25
ACGTcount: A:0.33, C:0.23, G:0.01, T:0.43
Consensus pattern (37 bp):
TCACAATTCAATTCAATTTCACTTTTCCACTTTCAAG
Found at i:27254611 original size:22 final size:22
Alignment explanation
Indices: 27254547--27254611 Score: 53
Period size: 22 Copynumber: 2.9 Consensus size: 22
27254537 GCTTAGTGTT
*
27254547 TTCAGCTC-ATTAGTGCTTACCAA
1 TTCAGCTCGA-TAGAGCTTA-CAA
* * *
27254570 TTCAACTCG-TATGAGTTTACTA
1 TTCAGCTCGATA-GAGCTTACAA
27254592 TTCAGCTCGATAGAGCTTAC
1 TTCAGCTCGATAGAGCTTAC
27254612 CGTTTCAGCT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
22 19 0.58
23 14 0.42
ACGTcount: A:0.26, C:0.23, G:0.15, T:0.35
Consensus pattern (22 bp):
TTCAGCTCGATAGAGCTTACAA
Found at i:27254824 original size:20 final size:19
Alignment explanation
Indices: 27254799--27254911 Score: 84
Period size: 20 Copynumber: 5.7 Consensus size: 19
27254789 AGATTATATG
27254799 AATTACTGTTGATACGGATA
1 AATTACTGTT-ATACGGATA
* * *
27254819 AATTACTGATATACTGATG
1 AATTACTGTTATACGGATA
27254838 AATTACTGGTTATACGGA-A
1 AATTACT-GTTATACGGATA
* * * *
27254857 GAACTACTAGTTATATGAATG
1 -AATTACT-GTTATACGGATA
*
27254878 AATTACTGGTTATACGGATG
1 AATTACT-GTTATACGGATA
*
27254898 AACTACTAGTTATA
1 AATTACT-GTTATA
27254912 TGAATGGATT
Statistics
Matches: 73, Mismatches: 17, Indels: 6
0.76 0.18 0.06
Matches are distributed among these distances:
19 14 0.19
20 59 0.81
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.35
Consensus pattern (19 bp):
AATTACTGTTATACGGATA
Found at i:27254884 original size:40 final size:40
Alignment explanation
Indices: 27254796--27254933 Score: 167
Period size: 40 Copynumber: 3.5 Consensus size: 40
27254786 TATAGATTAT
* *
27254796 ATGAATTACT-GTTGATACGGATA-AATTACT-GATATACTG-
1 ATGAATTACTGGTT-ATACGGA-AGAACTACTAGTTATA-TGA
27254835 ATGAATTACTGGTTATACGGAAGAACTACTAGTTATATGA
1 ATGAATTACTGGTTATACGGAAGAACTACTAGTTATATGA
*
27254875 ATGAATTACTGGTTATACGGATGAACTACTAGTTATATGA
1 ATGAATTACTGGTTATACGGAAGAACTACTAGTTATATGA
* * *
27254915 ATGGATTACAGTTTATACG
1 ATGAATTACTGGTTATACG
27254934 AATAAAAATG
Statistics
Matches: 89, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
38 1 0.01
39 25 0.28
40 63 0.71
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.35
Consensus pattern (40 bp):
ATGAATTACTGGTTATACGGAAGAACTACTAGTTATATGA
Found at i:27254930 original size:20 final size:19
Alignment explanation
Indices: 27254796--27254936 Score: 79
Period size: 20 Copynumber: 7.1 Consensus size: 19
27254786 TATAGATTAT
* *
27254796 ATGAATTACTGTTGATACGG
1 ATGAATTACAGTT-ATACGA
* * *
27254816 ATAAATTACTGATATACTG-
1 ATGAATTACAGTTATAC-GA
*
27254835 ATGAATTACTGGTTATACGGA
1 ATGAATTAC-AGTTATAC-GA
* *
27254856 A-GAACTACTAGTTATATGA
1 ATGAATTAC-AGTTATACGA
* *
27254875 ATGAATTACTGGTTATACGG
1 ATGAATTAC-AGTTATACGA
* *
27254895 ATGAACTACTAGTTATATGA
1 ATGAATTAC-AGTTATACGA
*
27254915 ATGGATTACAGTTTATACGA
1 ATGAATTACAG-TTATACGA
27254935 AT
1 AT
27254937 AAAAATGAAT
Statistics
Matches: 96, Mismatches: 20, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
19 17 0.18
20 78 0.81
21 1 0.01
ACGTcount: A:0.36, C:0.10, G:0.19, T:0.35
Consensus pattern (19 bp):
ATGAATTACAGTTATACGA
Found at i:27257411 original size:22 final size:22
Alignment explanation
Indices: 27257383--27257435 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
27257373 AAGGTCACAT
27257383 GCCCATGTGGACACAGAGACAC
1 GCCCATGTGGACACAGAGACAC
27257405 GCCCATGTGGACACAGAGACAC
1 GCCCATGTGGACACAGAGACAC
27257427 GCCCATGTG
1 GCCCATGTG
27257436 TCTCCAACAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.32, G:0.28, T:0.11
Consensus pattern (22 bp):
GCCCATGTGGACACAGAGACAC
Found at i:27263578 original size:40 final size:40
Alignment explanation
Indices: 27263481--27263633 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
27263471 CGAATGGTAT
* * * *
27263481 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAAA
* * *
27263522 TCGGG-TCAATTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGCT-AAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * * *
27263562 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
* * *
27263602 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
27263634 CGCTATATCC
Statistics
Matches: 92, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
40 68 0.74
41 24 0.26
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAA
Found at i:27264166 original size:40 final size:40
Alignment explanation
Indices: 27264108--27264265 Score: 207
Period size: 40 Copynumber: 4.0 Consensus size: 40
27264098 TCGAATGATG
* * *
27264108 TCCGGGCTAAG-TCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGACTAAGAT-CCGAAGGCATTTGTGC-GAGTTACTAAA
*
27264148 TCCGGACTAAGATTCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
27264188 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
*
27264228 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGCTACTA
1 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA
27264266 TAACCGGGCC
Statistics
Matches: 108, Mismatches: 6, Indels: 8
0.89 0.05 0.07
Matches are distributed among these distances:
39 1 0.01
40 96 0.89
41 11 0.10
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27264273 original size:40 final size:40
Alignment explanation
Indices: 27264108--27264293 Score: 195
Period size: 40 Copynumber: 4.7 Consensus size: 40
27264098 TCGAATGATG
* * *
27264108 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
27264148 TCC-GGACTAAGAT-TCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
27264188 TCC-GGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
27264228 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
** * *
27264269 -CCGGGCCATGTCCCGAAGGTATTTG
1 TCCGGGATAAGTCCCGAAGGCATTTG
27264294 AACAAGTGGC
Statistics
Matches: 130, Mismatches: 10, Indels: 12
0.86 0.07 0.08
Matches are distributed among these distances:
39 3 0.02
40 114 0.88
41 13 0.10
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGATAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:27270007 original size:39 final size:39
Alignment explanation
Indices: 27269964--27270089 Score: 130
Period size: 39 Copynumber: 3.2 Consensus size: 39
27269954 GACTTAGGGT
**
27269964 CCGCAGGCTATGTGCTGGAATTATATTCGGACCTAAAG-C
1 CCGCAGGCTATGTGCTGGAATTATAACCGGA-CTAAAGAC
* * *
27270003 CCGCAGGCTATGTGTTGGAATTATAACCGGACTTAAGAT
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTAAAGAC
* * ** *
27270042 CCGCAGGCTACGTGCTGGAAATATGTCCGGGCTAAA-ATC
1 CCGCAGGCTATGTGCTGGAATTATAACCGGACTAAAGA-C
27270081 CCGCAGGCT
1 CCGCAGGCT
27270090 TCTTGCTAGT
Statistics
Matches: 72, Mismatches: 13, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
38 6 0.08
39 66 0.92
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGCAGGCTATGTGCTGGAATTATAACCGGACTAAAGAC
Found at i:27270104 original size:78 final size:77
Alignment explanation
Indices: 27269947--27270109 Score: 170
Period size: 78 Copynumber: 2.1 Consensus size: 77
27269937 TCAGTGATGT
* * * * *
27269947 TTAT-CCGGACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATTCGGACCTAAAGCCCGCAGGC
1 TTATACCGGACTTAAGATCCGCAGGCTACGTGCTGGAAATATATCCGGACCTAAAGCCCGCAGGC
* *
27270011 TATGTGTTGGAA
66 TATGTGCTAGAA
* * *
27270023 TTATAACCGGACTTAAGATCCGCAGGCTACGTGCTGGAAATATGTCCGG-GCTAAAATCCCGCAG
1 TTAT-ACCGGACTTAAGATCCGCAGGCTACGTGCTGGAAATATATCCGGACCT-AAAGCCCGCAG
* *
27270087 GCT-TCTTGCTAGTA
64 GCTAT-GTGCTAGAA
27270101 TTATACCGG
1 TTATACCGG
27270110 GTTTAAATTC
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
76 4 0.06
77 8 0.11
78 59 0.83
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (77 bp):
TTATACCGGACTTAAGATCCGCAGGCTACGTGCTGGAAATATATCCGGACCTAAAGCCCGCAGGC
TATGTGCTAGAA
Found at i:27270325 original size:2 final size:2
Alignment explanation
Indices: 27270318--27270367 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
27270308 TCAATGAAGA
27270318 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
*
27270360 AT AA AT AT
1 AT AT AT AT
27270368 GATTGATGGT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:27272668 original size:40 final size:39
Alignment explanation
Indices: 27272487--27272638 Score: 250
Period size: 39 Copynumber: 3.9 Consensus size: 39
27272477 AATGTTCGAG
27272487 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
27272526 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* * *
27272565 TGATACCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
* *
27272604 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
27272639 GGTTACCATA
Statistics
Matches: 106, Mismatches: 6, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.22, G:0.32, T:0.22
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
Found at i:27280634 original size:40 final size:39
Alignment explanation
Indices: 27280506--27280648 Score: 187
Period size: 39 Copynumber: 3.6 Consensus size: 39
27280496 AATGTTCGAG
*
27280506 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
27280545 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
27280584 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
27280624 CCATAACCGGGCTATGTCCCGAAGG
1 TGATATCCGGGCTAAG-CCCGAAGG
27280649 TGTTTTGAAC
Statistics
Matches: 92, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 52 0.57
40 40 0.43
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:27289391 original size:39 final size:39
Alignment explanation
Indices: 27289337--27289464 Score: 150
Period size: 39 Copynumber: 3.3 Consensus size: 39
27289327 TGGACTTAGG
27289337 GTCCGCAGGCTATGTGCTAGAATTATATCCGGACCTAAA
1 GTCCGCAGGCTATGTGCTAGAATTATATCCGGACCTAAA
* * * *
27289376 GTCCGCAGGCTATGTGCTGGAATTATAACCGGACTTAAG
1 GTCCGCAGGCTATGTGCTAGAATTATATCCGGACCTAAA
** * * *
27289415 GTCCGCAGGCTACATGCTAGAAATATGTCCGG-GCTAAA
1 GTCCGCAGGCTATGTGCTAGAATTATATCCGGACCTAAA
*
27289453 ATCCCGCAGGCT
1 GT-CCGCAGGCT
27289465 TCGAGCTAGT
Statistics
Matches: 74, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
38 4 0.05
39 70 0.95
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (39 bp):
GTCCGCAGGCTATGTGCTAGAATTATATCCGGACCTAAA
Found at i:27289479 original size:78 final size:77
Alignment explanation
Indices: 27289328--27289484 Score: 183
Period size: 78 Copynumber: 2.0 Consensus size: 77
27289318 ATGGTTATCT
* ** * * *
27289328 GGACTTAGGGTCCGCAGGCTATGTGCTAGAATTATATCCGGACCTAAAGTCCGCAGGCTATGTGC
1 GGACTTAAGGTCCGCAGGCTACATGCTAGAAATATATCCGGACCTAAAATCCGCAGGCTATGAGC
*
27289393 TGGAATTATAACC
66 TAGAATTAT-ACC
* *
27289406 GGACTTAAGGTCCGCAGGCTACATGCTAGAAATATGTCCGG-GCTAAAATCCCGCAGGCT-TCGA
1 GGACTTAAGGTCCGCAGGCTACATGCTAGAAATATATCCGGACCTAAAAT-CCGCAGGCTAT-GA
*
27289469 GCTAGTATTATACC
64 GCTAGAATTATACC
27289483 GG
1 GG
27289485 GTTTAAATTC
Statistics
Matches: 67, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
77 12 0.18
78 55 0.82
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (77 bp):
GGACTTAAGGTCCGCAGGCTACATGCTAGAAATATATCCGGACCTAAAATCCGCAGGCTATGAGC
TAGAATTATACC
Found at i:27291394 original size:23 final size:24
Alignment explanation
Indices: 27291307--27291442 Score: 115
Period size: 23 Copynumber: 5.8 Consensus size: 24
27291297 GACTCACCAG
27291307 AGCTCGTAT-GAGCTTACCGATATATC
1 AGCTCGTATAGAGCTTACCG--AT-TC
* *
27291333 AGCTCGTA-AGAGCTTACTGTTTTC
1 AGCTCGTATAGAGCTTACCG-ATTC
* *
27291357 AGCTCAT-TAGTGCTTACCGATTC
1 AGCTCGTATAGAGCTTACCGATTC
* *
27291380 AACTCGTAT-GAGCTTA-CTATTC
1 AGCTCGTATAGAGCTTACCGATTC
*
27291402 AGCTCG-ATAGAGCTTACCGTTTC
1 AGCTCGTATAGAGCTTACCGATTC
*
27291425 AGCTC-AATAGAGCTTACC
1 AGCTCGTATAGAGCTTACC
27291443 ATTTATCAGC
Statistics
Matches: 91, Mismatches: 13, Indels: 15
0.76 0.11 0.13
Matches are distributed among these distances:
21 2 0.02
22 17 0.19
23 35 0.38
24 18 0.20
25 2 0.02
26 17 0.19
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (24 bp):
AGCTCGTATAGAGCTTACCGATTC
Found at i:27291418 original size:45 final size:46
Alignment explanation
Indices: 27291307--27291425 Score: 118
Period size: 45 Copynumber: 2.5 Consensus size: 46
27291297 GACTCACCAG
* *
27291307 AGCTCG-TATGAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTTTC
1 AGCTCGATA-GAGCTTACCG--AT-TCAACTCGTAAGAGCTTAC-GTATTC
* *
27291357 AGCTC-ATTAGTGCTTACCGATTCAACTCGTATGAGCTTAC-TATTC
1 AGCTCGA-TAGAGCTTACCGATTCAACTCGTAAGAGCTTACGTATTC
*
27291402 AGCTCGATAGAGCTTACCGTTTCA
1 AGCTCGATAGAGCTTACCGATTCA
27291426 GCTCAATAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
45 24 0.40
46 1 0.02
47 17 0.28
48 2 0.03
50 14 0.23
51 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (46 bp):
AGCTCGATAGAGCTTACCGATTCAACTCGTAAGAGCTTACGTATTC
Found at i:27291438 original size:45 final size:45
Alignment explanation
Indices: 27291354--27291441 Score: 108
Period size: 45 Copynumber: 2.0 Consensus size: 45
27291344 GCTTACTGTT
* *
27291354 TTCAGCTCATTAGTGCTTACCGATTCAACTCGTATGAGCTTACTA
1 TTCAGCTCATTAGAGCTTACCGATTCAACTCATATGAGCTTACTA
* *
27291399 TTCAGCTCGA-TAGAGCTTACCGTTTCAGCTCA-ATAGAGCTTAC
1 TTCAGCTC-ATTAGAGCTTACCGATTCAACTCATAT-GAGCTTAC
27291442 CATTTATCAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
44 2 0.05
45 34 0.92
46 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (45 bp):
TTCAGCTCATTAGAGCTTACCGATTCAACTCATATGAGCTTACTA
Found at i:27291442 original size:68 final size:72
Alignment explanation
Indices: 27291309--27291442 Score: 188
Period size: 68 Copynumber: 1.9 Consensus size: 72
27291299 CTCACCAGAG
* * *
27291309 CTCGTATGAGCTTACCGATATATCAGCTCGTAAGAGCTTACTGTTTTCAGCTCATTAGTGCTTAC
1 CTCGTATGAGCTTACC-ATATATCAGCTCGTAAGAGCTTACCGTTTTCAGCTCAATAGAGCTTAC
27291374 CGATTCAA
65 CGATTCAA
27291382 CTCGTATGAGCTTA-C-TAT-TCAGCTCG-ATAGAGCTTACCG-TTTCAGCTCAATAGAGCTTAC
1 CTCGTATGAGCTTACCATATATCAGCTCGTA-AGAGCTTACCGTTTTCAGCTCAATAGAGCTTAC
27291442 C
65 C
27291443 ATTTATCAGC
Statistics
Matches: 57, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
68 21 0.37
69 18 0.32
70 3 0.05
72 1 0.02
73 14 0.25
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.33
Consensus pattern (72 bp):
CTCGTATGAGCTTACCATATATCAGCTCGTAAGAGCTTACCGTTTTCAGCTCAATAGAGCTTACC
GATTCAA
Found at i:27291648 original size:19 final size:20
Alignment explanation
Indices: 27291603--27291649 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
27291593 TACCAATTAT
*
27291603 ATGAATTACTGTTGATACGG
1 ATGAATTACTGATGATACGG
* *
27291623 ATAAATTACTGAT-ATACTG
1 ATGAATTACTGATGATACGG
27291642 ATGAATTA
1 ATGAATTA
27291650 TTGGTTATAC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (20 bp):
ATGAATTACTGATGATACGG
Found at i:27294059 original size:18 final size:18
Alignment explanation
Indices: 27294021--27294059 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
27294011 AAGAAAATAA
*
27294021 AAAAATAAAAGATTAATT
1 AAAAATAAAAGATTAAGT
27294039 AAAAATATAAAGA-TAAGT
1 AAAAATA-AAAGATTAAGT
27294057 AAA
1 AAA
27294060 CCAAATTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (18 bp):
AAAAATAAAAGATTAAGT
Found at i:27305381 original size:23 final size:21
Alignment explanation
Indices: 27305328--27305381 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 21
27305318 CCCATGTGGT
*
27305328 CAAGGGACACACCCGTGTGAC
1 CAAGGCACACACCCGTGTGAC
*
27305349 CAAGGGACACACCCGTGTGAC
1 CAAGGCACACACCCGTGTGAC
27305370 CATAGGTCACAC
1 CA-AGG-CACAC
27305382 CTGTGCTGCA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 23 0.77
22 3 0.10
23 4 0.13
ACGTcount: A:0.30, C:0.33, G:0.26, T:0.11
Consensus pattern (21 bp):
CAAGGCACACACCCGTGTGAC
Found at i:27305382 original size:21 final size:21
Alignment explanation
Indices: 27305328--27305371 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
27305318 CCCATGTGGT
27305328 CAAGGGACACACCCGTGTGAC
1 CAAGGGACACACCCGTGTGAC
27305349 CAAGGGACACACCCGTGTGAC
1 CAAGGGACACACCCGTGTGAC
27305370 CA
1 CA
27305372 TAGGTCACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.30, C:0.34, G:0.27, T:0.09
Consensus pattern (21 bp):
CAAGGGACACACCCGTGTGAC
Found at i:27310089 original size:116 final size:116
Alignment explanation
Indices: 27309885--27310117 Score: 457
Period size: 116 Copynumber: 2.0 Consensus size: 116
27309875 AACTGAATTC
27309885 AGAGACTACTATAATAGGAAACTATAATGAAATGCCTTATTTAGGGTAAACTAAAATTGTAGTAA
1 AGAGACTACTATAATAGGAAACTATAATGAAATGCCTTATTTAGGGTAAACTAAAATTGTAGTAA
27309950 GACTGTGATCCACGAAAACGAACTCTAAATTACTGATACTGTGTTCATAAA
66 GACTGTGATCCACGAAAACGAACTCTAAATTACTGATACTGTGTTCATAAA
*
27310001 AGAGACTACTATAATAGGAGACTATAATGAAATGCCTTATTTAGGGTAAACTAAAATTGTAGTAA
1 AGAGACTACTATAATAGGAAACTATAATGAAATGCCTTATTTAGGGTAAACTAAAATTGTAGTAA
27310066 GACTGTGATCCACGAAAACGAACTCTAAATTACTGATACTGTGTTCATAAA
66 GACTGTGATCCACGAAAACGAACTCTAAATTACTGATACTGTGTTCATAAA
27310117 A
1 A
27310118 TATTCTTAAT
Statistics
Matches: 116, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
116 116 1.00
ACGTcount: A:0.41, C:0.14, G:0.17, T:0.28
Consensus pattern (116 bp):
AGAGACTACTATAATAGGAAACTATAATGAAATGCCTTATTTAGGGTAAACTAAAATTGTAGTAA
GACTGTGATCCACGAAAACGAACTCTAAATTACTGATACTGTGTTCATAAA
Found at i:27314954 original size:29 final size:29
Alignment explanation
Indices: 27314943--27315044 Score: 186
Period size: 29 Copynumber: 3.5 Consensus size: 29
27314933 CTTCGAGCTC
27314943 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
* *
27314972 GCACACTCAGTGCCATATTTTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27315001 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACTTAGTGCCATATATTTCCAGCAT
27315030 GCACACTTAGTGCCA
1 GCACACTTAGTGCCA
27315045 ATCTCGTCAC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 69 1.00
ACGTcount: A:0.26, C:0.29, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACTTAGTGCCATATATTTCCAGCAT
Found at i:27322718 original size:29 final size:29
Alignment explanation
Indices: 27322684--27322844 Score: 83
Period size: 29 Copynumber: 5.6 Consensus size: 29
27322674 TACTCGATTT
* * *
27322684 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATACCATTCAAGCC
** * * *
27322713 CGCACACACAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * *
27322742 CGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
* * *** * *
27322771 TGCACACTCAGTGCCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATACCATTCAAGCC
* * * *
27322800 TGCACACTTAGTGCCATA-TATTTCCAGCA
1 CGCACACTTAGTGCCATACCA-TTCAAGCC
*
27322829 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
27322845 ATCTCGTCAC
Statistics
Matches: 110, Mismatches: 19, Indels: 6
0.81 0.14 0.04
Matches are distributed among these distances:
28 1 0.01
29 108 0.98
30 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACCATTCAAGCC
Found at i:27322776 original size:58 final size:59
Alignment explanation
Indices: 27322683--27322844 Score: 195
Period size: 58 Copynumber: 2.8 Consensus size: 59
27322673 ATACTCGATT
** * ** * *
27322683 TCGCACACTTAGTGCCATGCGATTT-AAGCCCGCACACACAGTGCCATACCCTTCGAGC-
1 TCGCACACTTAGTGCCAT-ATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
***
27322741 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATATTTTTCCAGCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
*
27322800 T-GCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCA
1 TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCA
27322845 ATCTCGTCAC
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
57 4 0.04
58 86 0.95
59 1 0.01
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (59 bp):
TCGCACACTTAGTGCCATATATTTCCAGCATGCACACTCAGTGCCATACCCTTCCAGCA
Found at i:27327330 original size:43 final size:42
Alignment explanation
Indices: 27327283--27327398 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 42
27327273 TCCTAGACGT
27327283 GGTCTTACATGTAATCAAATATCGATGCCACTATCCCAGACAG
1 GGTCTTACATGTAATCAAATATCGATGCCA-TATCCCAGACAG
* * * * *
27327326 GGTCTTACATGAAATCAAATAT-GATACCGATGTCCTAGACAT
1 GGTCTTACATGTAATCAAATATCGATGCC-ATATCCCAGACAG
* *
27327368 GGTCTTACACGTAAATCATAA-GTCGATGCCA
1 GGTCTTACATGT-AATCA-AATATCGATGCCA
27327399 ACGTCCCAGA
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 24 0.40
43 29 0.48
44 7 0.12
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAATATCGATGCCATATCCCAGACAG
Found at i:27334099 original size:25 final size:25
Alignment explanation
Indices: 27334059--27334174 Score: 92
Period size: 25 Copynumber: 4.6 Consensus size: 25
27334049 TCTTATACAT
* *
27334059 GTATGCTCACTCGAGCGATAAATCA
1 GTATGCTCTCACGAGCGATAAATCA
* *
27334084 GTATGCTCTCATGAGCTATAAAT-A
1 GTATGCTCTCACGAGCGATAAATCA
* * * *
27334108 GGTATGCACACACAAGCTG-TAAATTA
1 -GTATGCTCTCACGAGC-GATAAATCA
* * * *
27334134 GTCTGCTCTCCCGAGCAATAAATCG
1 GTATGCTCTCACGAGCGATAAATCA
27334159 GTATGCTCTCACGAGC
1 GTATGCTCTCACGAGC
27334175 TGTGGGTTGA
Statistics
Matches: 68, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
24 1 0.01
25 66 0.97
26 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (25 bp):
GTATGCTCTCACGAGCGATAAATCA
Found at i:27334176 original size:50 final size:50
Alignment explanation
Indices: 27334059--27334177 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
27334049 TCTTATACAT
* * *
27334059 GTATGCTCACTCGAGC-GATAAATCAGTATGCTCTCATGAGCTATAAATAG
1 GTATGCTCACACGAGCTG-TAAATCAGTATGCTCTCACGAGCAATAAATAG
* * * * * *
27334109 GTATGCACACACAAGCTGTAAATTAGTCTGCTCTCCCGAGCAATAAATCG
1 GTATGCTCACACGAGCTGTAAATCAGTATGCTCTCACGAGCAATAAATAG
*
27334159 GTATGCTCTCACGAGCTGT
1 GTATGCTCACACGAGCTGT
27334178 GGGTTGAAAA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 55 0.98
51 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (50 bp):
GTATGCTCACACGAGCTGTAAATCAGTATGCTCTCACGAGCAATAAATAG
Found at i:27341481 original size:42 final size:43
Alignment explanation
Indices: 27341434--27341531 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 43
27341424 CTAAGATTAT
27341434 GTGTAAGACCATA-TCTGAGATA-TGACATCGATATGAGACTGC
1 GTGTAAGACCATAGT-TGAGATATTGACATCGATATGAGACTGC
* * * * *
27341476 GTGTAAGACCATAGTTGGGCTATTGGCATCGATATGAGATTTC
1 GTGTAAGACCATAGTTGAGATATTGACATCGATATGAGACTGC
*
27341519 ATGTAAGACCATA
1 GTGTAAGACCATA
27341532 CCTTGGATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
42 18 0.38
43 30 0.62
ACGTcount: A:0.32, C:0.15, G:0.24, T:0.29
Consensus pattern (43 bp):
GTGTAAGACCATAGTTGAGATATTGACATCGATATGAGACTGC
Found at i:27351610 original size:47 final size:47
Alignment explanation
Indices: 27351557--27351889 Score: 508
Period size: 47 Copynumber: 7.1 Consensus size: 47
27351547 TTAGGATTTT
*
27351557 AATGTGATGAATGTGAACATGCGTATGTATGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTATGATAAGGCCGAATGGCC
**
27351604 AATGTGATGAATGTGAACATGCATATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTATGATAAGGCCGAATGGCC
*
27351651 AATGTGATGAATGTGAACATGCGTATGTATGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTATGATAAGGCCGAATGGCC
**
27351698 AATGTGATGAATGTGAACATGCATATGTGCGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGTATGATAAGGCCGAATGGCC
*
27351745 AATGTGATGAATGTGAACATGCATATATGA-GATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGT-ATGATAAGGCCGAATGGCC
*
27351792 AATGTGATGAATGTGAACATGCATATATGA-GATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATGT-ATGATAAGGCCGAATGGCC
* * * * * *
27351839 GATGTGATGAATGTGAACATGTATATATGTGGTAAGGCCGAATGGCT
1 AATGTGATGAATGTGAACATGCATATGTATGATAAGGCCGAATGGCC
27351886 AATG
1 AATG
27351890 CGAAATGTGT
Statistics
Matches: 267, Mismatches: 17, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
47 267 1.00
ACGTcount: A:0.33, C:0.13, G:0.29, T:0.25
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATGTATGATAAGGCCGAATGGCC
Found at i:27351999 original size:46 final size:46
Alignment explanation
Indices: 27351863--27351999 Score: 184
Period size: 46 Copynumber: 3.0 Consensus size: 46
27351853 GAACATGTAT
* *
27351863 ATATGTGGTAAGGCCGAATGGCTAATGCGAAATGTGTATGAGATAG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * *
27351909 ATATGAGATAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
27351955 TTATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
27352000 TGTATATATA
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 78 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:27354702 original size:21 final size:21
Alignment explanation
Indices: 27354677--27354780 Score: 62
Period size: 20 Copynumber: 5.2 Consensus size: 21
27354667 TAGCCTTTGG
27354677 GCTTCCGTTTAGCACTTGTGT
1 GCTTCCGTTTAGCACTTGTGT
*
27354698 GCTTCAG-TTAGCA-TTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
* * *
27354716 GCTTCCGTTTAACACTTCTAT
1 GCTTCCGTTTAGCACTTGTGT
** *
27354737 GCTTTAG-TAAGC-CTTCG-G-
1 GCTTCCGTTTAGCACTT-GTGT
*
27354755 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTGTGT
27354776 GCTTC
1 GCTTC
27354781 AGCTAGACTT
Statistics
Matches: 58, Mismatches: 15, Indels: 20
0.62 0.16 0.22
Matches are distributed among these distances:
18 11 0.19
19 15 0.26
20 16 0.28
21 16 0.28
ACGTcount: A:0.14, C:0.25, G:0.21, T:0.39
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTGTGT
Found at i:27354709 original size:39 final size:39
Alignment explanation
Indices: 27354659--27354798 Score: 181
Period size: 39 Copynumber: 3.6 Consensus size: 39
27354649 GCTTTGATGA
* * *
27354659 GCTTCAATTAGCCTTTGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* * * *
27354698 GCTTCAGTTAGCATTCGGGCTTCCGTTTAACACTTCTAT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
27354737 GCTTTAGTAAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
* *
27354776 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
27354799 AAATCACGAT
Statistics
Matches: 85, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 85 1.00
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
Found at i:27354710 original size:20 final size:19
Alignment explanation
Indices: 27354659--27354799 Score: 65
Period size: 18 Copynumber: 7.3 Consensus size: 19
27354649 GCTTTGATGA
*
27354659 GCTTCAATTAGC-CTTTGG
1 GCTTCAGTTAGCACTTTGG
* *
27354677 GCTTCCGTTTAGCACTTGTGT
1 GCTTCAG-TTAGCACTT-TGG
*
27354698 GCTTCAGTTAGCA-TTCGG
1 GCTTCAGTTAGCACTTTGG
* * **
27354716 GCTTCCGTTTAACACTTCTAT
1 GCTTCAG-TTAGCACTT-TGG
* * *
27354737 GCTTTAGTAAGC-CTTCGG
1 GCTTCAGTTAGCACTTTGG
* *
27354755 GCTTCCGTTTAGCACTTATGT
1 GCTTCAG-TTAGCACTT-TGG
* *
27354776 GCTTCAGCTAG-ACTTCGG
1 GCTTCAGTTAGCACTTTGG
27354794 GCTTCA
1 GCTTCA
27354800 AATCACGATG
Statistics
Matches: 87, Mismatches: 27, Indels: 18
0.66 0.20 0.14
Matches are distributed among these distances:
18 24 0.28
19 23 0.26
20 20 0.23
21 20 0.23
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.38
Consensus pattern (19 bp):
GCTTCAGTTAGCACTTTGG
Found at i:27360481 original size:43 final size:42
Alignment explanation
Indices: 27360392--27360503 Score: 138
Period size: 43 Copynumber: 2.6 Consensus size: 42
27360382 TAAGATTATG
* *
27360392 TGTAAGACCATATCTGGGATATGGCATCGATATGAGACTGCG
1 TGTAAGACCATATCTGGGATATGGCATCGATACGAGACTGCA
* * *
27360434 TGTAAGACCATAGT-TGGGCTATTGGCATCGATACGAGATTTCA
1 TGTAAGACCATA-TCTGGGATA-TGGCATCGATACGAGACTGCA
27360477 TGTAAGACCATA-CATGGGATATGGCAT
1 TGTAAGACCATATC-TGGGATATGGCAT
27360504 TGGTACAGTA
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
42 24 0.40
43 36 0.60
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCGATACGAGACTGCA
Found at i:27361636 original size:24 final size:24
Alignment explanation
Indices: 27361592--27361668 Score: 100
Period size: 24 Copynumber: 3.2 Consensus size: 24
27361582 AAGTCTGTCA
*
27361592 GGAGAGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* * *
27361616 GGATAGGGTTTAGGTGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
* *
27361640 GGAGAGGATTTAGGAGATGATTAG
1 GGAGAGGATTTAGGAGCTGATAAG
27361664 GGAGA
1 GGAGA
27361669 ACAGTGTTGG
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.31, C:0.01, G:0.43, T:0.25
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:27363108 original size:27 final size:27
Alignment explanation
Indices: 27363076--27363187 Score: 84
Period size: 27 Copynumber: 4.2 Consensus size: 27
27363066 AGGAAGCGTC
* *
27363076 CTGGTGGTTATGCCACATTTATCTGAT
1 CTGGTGGCTATGCCACATATATCTGAT
* * *
27363103 CTGGTGGCTCTGCTACATATATCTGTT
1 CTGGTGGCTATGCCACATATATCTGAT
* * * *
27363130 CTGGTGGCTCTACCATGAT-TATCTGTT
1 CTGGTGGCTATGCCA-CATATATCTGAT
* * * *
27363157 CTGGTGACTCTGTCACAT-TATCTGTT
1 CTGGTGGCTATGCCACATATATCTGAT
27363183 CTGGT
1 CTGGT
27363188 AGCAATGCTG
Statistics
Matches: 72, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
26 15 0.21
27 55 0.76
28 2 0.03
ACGTcount: A:0.15, C:0.21, G:0.22, T:0.41
Consensus pattern (27 bp):
CTGGTGGCTATGCCACATATATCTGAT
Found at i:27369995 original size:48 final size:48
Alignment explanation
Indices: 27369923--27370289 Score: 252
Period size: 48 Copynumber: 7.7 Consensus size: 48
27369913 GGGTAAGATA
* * *
27369923 CCGATGCCATGTCCTAGACATGGTCTTACACTGGCTCACACATTAAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATTGAAG
* * * *
27369971 TCGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAT-T-GAAG
* ** * * **
27370021 CCGAT-ACATGTCATAGACATGGTCTTACACTGGCTTTCATCTATCGGTG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-C-ATTGAAG
* * *
27370070 CCGATGCCATGTCCCAAACATGGTCTTACACT-G---ACACATCTCAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAT-TGAAG
* * * * * * * *
27370115 -CGATGCCATGTTCCAAACATGGAT-TTACACTAGTTTTTATATCTCGAGG
1 CCGATGCCATGTCCCAGACATGG-TCTTACACTGGCTCTCACAT-T-GAAG
* * ***
27370164 CCGATGCCATGTTCCAGACATGGTCTTACACTAGCTCT-TGTTTGGATA-
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATT-GA-AG
* * * **
27370212 CCGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAATGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATTGAAG
27370260 CCGATG-CATGTCCCAGACAT-GTCTTACACT
1 CCGATGCCATGTCCCAGACATGGTCTTACACT
27370290 AGCACACATA
Statistics
Matches: 252, Mismatches: 50, Indels: 36
0.75 0.15 0.11
Matches are distributed among these distances:
44 30 0.12
45 4 0.02
46 12 0.05
47 13 0.05
48 88 0.35
49 43 0.17
50 60 0.24
51 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.29
Consensus pattern (48 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATTGAAG
Found at i:27370046 original size:49 final size:50
Alignment explanation
Indices: 27369972--27370104 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 50
27369962 ACATTAAAGT
* *
27369972 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG-GC
1 CGATGACATGTCACAGACATGGTCTTACACTGACTCTCATATATCG-GTGC
* * * *
27370022 CGAT-ACATGTCATAGACATGGTCTTACACTGGCTTTCATCTATCGGTGC
1 CGATGACATGTCACAGACATGGTCTTACACTGACTCTCATATATCGGTGC
* * *
27370071 CGATGCCATGTCCCAAACATGGTCTTACACTGAC
1 CGATGACATGTCACAGACATGGTCTTACACTGAC
27370105 ACATCTCAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 41 0.59
50 28 0.40
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
CGATGACATGTCACAGACATGGTCTTACACTGACTCTCATATATCGGTGC
Found at i:27370243 original size:98 final size:94
Alignment explanation
Indices: 27370115--27370292 Score: 232
Period size: 98 Copynumber: 1.9 Consensus size: 94
27370105 ACATCTCAAG
* * * * * *
27370115 CGATGCCATGTTCCAAACATGGATTTACACTAGTTTTTATATCTCGAGGCCGATGCCATGTTCCA
1 CGATGCCATGTCCCAAACATGGATTTACACTAGCTCTCATA-AT-GAGGCCGATG-CATGTCCCA
27370180 GACATGGTCTTACACTAGCTCTTGTTTGGATAC
63 GACAT-GTCTTACACTAGCTCTTGTTTGGATAC
* *
27370213 CGATGCCATGTCCCAAACATGG-TCTTACACTGGCTCTCATAATGTGGCCGATGCATGTCCCAGA
1 CGATGCCATGTCCCAAACATGGAT-TTACACTAGCTCTCATAATGAGGCCGATGCATGTCCCAGA
27370277 CATGTCTTACACTAGC
65 CATGTCTTACACTAGC
27370293 ACACATATCA
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
94 13 0.18
95 13 0.18
96 9 0.13
97 2 0.03
98 34 0.48
ACGTcount: A:0.24, C:0.26, G:0.20, T:0.30
Consensus pattern (94 bp):
CGATGCCATGTCCCAAACATGGATTTACACTAGCTCTCATAATGAGGCCGATGCATGTCCCAGAC
ATGTCTTACACTAGCTCTTGTTTGGATAC
Found at i:27372773 original size:40 final size:40
Alignment explanation
Indices: 27372709--27372903 Score: 250
Period size: 40 Copynumber: 4.8 Consensus size: 40
27372699 AACACAAAGT
* **
27372709 CTGCGGGACTTTAAGCCCGGAT--ATAGTACCAGCAATAAGC
1 CTGCGGGA-TTTAA-CCCGGATACATATTACCAGCACGAAGC
* * * *
27372749 CTGTGGGACTTAACCCGGATATATATATATTACTAGCACGAAGC
1 CTGCGGGATTTAACCCGG----ATACATATTACCAGCACGAAGC
27372793 CTGCGGGATTTAACCCGGATACATATTACCAGCACGAAGC
1 CTGCGGGATTTAACCCGGATACATATTACCAGCACGAAGC
*
27372833 CTGTGGGATTTAACCCGGATACATATTACCAGCACGAAGC
1 CTGCGGGATTTAACCCGGATACATATTACCAGCACGAAGC
27372873 CTGCGGGATTTAACCCGGATACATATTACCA
1 CTGCGGGATTTAACCCGGATACATATTACCA
27372904 TATATCGACT
Statistics
Matches: 137, Mismatches: 12, Indels: 12
0.85 0.07 0.07
Matches are distributed among these distances:
38 5 0.04
39 4 0.03
40 96 0.70
42 2 0.01
44 30 0.22
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (40 bp):
CTGCGGGATTTAACCCGGATACATATTACCAGCACGAAGC
Found at i:27374898 original size:40 final size:40
Alignment explanation
Indices: 27374843--27375049 Score: 267
Period size: 40 Copynumber: 5.2 Consensus size: 40
27374833 TGAATGATAC
* * *
27374843 CCGGGCTAAGCCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
*
27374883 CCGGGCTAAGACCCGAAGGCATTTGTGC-AGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
*
27374922 CCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * *
27374962 TCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAC
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * ** *
27375002 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
27375042 CC-GGCTAA
1 CCGGGCTAA
27375050 ATTCCGAAGA
Statistics
Matches: 147, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 39 0.27
40 108 0.73
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:27375058 original size:79 final size:78
Alignment explanation
Indices: 27374839--27375049 Score: 305
Period size: 79 Copynumber: 2.7 Consensus size: 78
27374829 CATTTGAATG
* * * *
27374839 ATACCCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTATATCCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCC-GGCTAAGACCCGAAGGCA
27374904 TTTGTGCAGTTGCT
65 TTTGTGCAGTTGCT
* * * *
27374918 ATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAGTTGTTATATTCGGGCTAAGACCCGAAGGCA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATA-TCCGGCTAAGACCCGAAGGCA
27374983 TTTGTGCGAGTTGCT
65 TTTGTGC-AGTTGCT
* *
27374998 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCCGGCTAA
1 ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGCTAA
27375050 ATTCCGAAGA
Statistics
Matches: 116, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
79 69 0.59
80 47 0.41
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (78 bp):
ATACCCGGGTTAAGACCCGAAGGCATTTGTGCTAGTGGTTATATCCGGCTAAGACCCGAAGGCAT
TTGTGCAGTTGCT
Found at i:27382338 original size:30 final size:29
Alignment explanation
Indices: 27382244--27382345 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
27382234 TATAGTGAAT
* * *
27382244 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
27382273 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
27382301 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
27382331 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
27382346 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:27390226 original size:30 final size:29
Alignment explanation
Indices: 27390132--27390233 Score: 109
Period size: 28 Copynumber: 3.5 Consensus size: 29
27390122 TATAGTGAAT
* * *
27390132 CCGCACACTTAGTGCTATATATTTTCAGC
1 CCGCACACTTAGTGCTATAAATTTTAAAC
* *
27390161 TCGCACACTTAGTGCTATAGAA--TCAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
* *
27390189 TCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATA-AATTTTAAAC
27390219 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
27390234 CAATCTTGTC
Statistics
Matches: 61, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
28 23 0.38
29 18 0.30
30 20 0.33
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.29
Consensus pattern (29 bp):
CCGCACACTTAGTGCTATAAATTTTAAAC
Found at i:27394590 original size:27 final size:27
Alignment explanation
Indices: 27394552--27394678 Score: 175
Period size: 27 Copynumber: 4.7 Consensus size: 27
27394542 ACCTTTACTT
27394552 TAAAATTACCAAAATACCCTTGGTTTA
1 TAAAATTACCAAAATACCCTTGGTTTA
* * *
27394579 TAAAATCACCAAAATACCCCTGGTTTG
1 TAAAATTACCAAAATACCCTTGGTTTA
* *
27394606 TAAAATTACTAAAATACCCTTTGTTTA
1 TAAAATTACCAAAATACCCTTGGTTTA
*
27394633 TAAAATTACCAAAATACCCATGGTTTGA
1 TAAAATTACCAAAATACCCTTGGTTT-A
*
27394661 -AAAATTACTAAAATACCC
1 TAAAATTACCAAAATACCC
27394679 CTGTAGGGTA
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
27 86 0.99
28 1 0.01
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.31
Consensus pattern (27 bp):
TAAAATTACCAAAATACCCTTGGTTTA
Found at i:27394613 original size:54 final size:54
Alignment explanation
Indices: 27394552--27394678 Score: 209
Period size: 54 Copynumber: 2.4 Consensus size: 54
27394542 ACCTTTACTT
* *
27394552 TAAAATTACCAAAATACCCTTGGTTTATAAAATCACCAAAATACCCCTGGTTTG
1 TAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTG
* *
27394606 TAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTG
1 TAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTG
*
27394660 AAAAATTACTAAAATACCC
1 TAAAATTACTAAAATACCC
27394679 CTGTAGGGTA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
54 68 1.00
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.31
Consensus pattern (54 bp):
TAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAAATACCCATGGTTTG
Found at i:27394649 original size:81 final size:81
Alignment explanation
Indices: 27394552--27394707 Score: 226
Period size: 81 Copynumber: 1.9 Consensus size: 81
27394542 ACCTTTACTT
* **
27394552 TAAAATTACCAAAATACCCTTGGTTT-ATAAAATCACCAAAATACCCCTGGT-TTGTAAAATTAC
1 TAAAATTACCAAAATACCCATGGTTTGA-AAAATCACCAAAATACCCCT-GTAGGGTAAAATTAC
27394615 TAAAATACCCTTTGTTTA
64 TAAAATACCCTTTGTTTA
* * *
27394633 TAAAATTACCAAAATACCCATGGTTTGAAAAATTACTAAAATACCCCTGTAGGGTAAAATTACTG
1 TAAAATTACCAAAATACCCATGGTTTGAAAAATCACCAAAATACCCCTGTAGGGTAAAATTACTA
27394698 AAATACCCTT
66 AAATACCCTT
27394708 GTGGGGTAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
80 2 0.03
81 64 0.96
82 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (81 bp):
TAAAATTACCAAAATACCCATGGTTTGAAAAATCACCAAAATACCCCTGTAGGGTAAAATTACTA
AAATACCCTTTGTTTA
Found at i:27394691 original size:27 final size:27
Alignment explanation
Indices: 27394661--27394722 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
27394651 CATGGTTTGA
27394661 AAAATTACTAAAATACCCCTGTAGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
* * *
27394688 AAAATTACTGAAATACCCTTGTGGGGT
1 AAAATTACTAAAATACCCCTGTAGGGT
27394715 AAAATTAC
1 AAAATTAC
27394723 CATTTTGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTGTAGGGT
Found at i:27394691 original size:54 final size:54
Alignment explanation
Indices: 27394553--27394705 Score: 166
Period size: 54 Copynumber: 2.8 Consensus size: 54
27394543 CCTTTACTTT
* ** * * *
27394553 AAAATTACCAAAATACCCT-TGGTTTATAAAATCACCAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCTCT-GTGGATAAAATTACCAAAATACCCATGGTTTGA
* **
27394607 AAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAAATACCCATGGTTTGA
1 AAAATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGA
* **
27394661 AAAATTACTAAAATACCC-CTGTAGGGTAAAATTACTGAAATACCC
1 AAAATTACTAAAATACCCTCTGT-GGATAAAATTACCAAAATACCC
27394706 TTGTGGGGTA
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
53 3 0.03
54 83 0.95
55 1 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (54 bp):
AAAATTACTAAAATACCCTCTGTGGATAAAATTACCAAAATACCCATGGTTTGA
Found at i:27395375 original size:28 final size:28
Alignment explanation
Indices: 27395342--27395438 Score: 153
Period size: 28 Copynumber: 3.5 Consensus size: 28
27395332 GCGTAGATCA
27395342 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
27395370 TGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
27395398 CGAAATTACCCCTAAATAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
27395426 C--AATATACCCCTA
1 CGAAAT-TACCCCTA
27395439 GGGTTTAAAT
Statistics
Matches: 65, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
26 3 0.05
27 8 0.12
28 54 0.83
ACGTcount: A:0.45, C:0.26, G:0.08, T:0.21
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:27405327 original size:49 final size:47
Alignment explanation
Indices: 27405211--27405435 Score: 157
Period size: 47 Copynumber: 4.7 Consensus size: 47
27405201 ATTGAGATGA
* * * * *
27405211 GAGCCAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCA-AGATAT
1 GAGCCAATGGAAGACCTGTCTGGGACATGGCATCGACCT-AGATATAT
* * * * *
27405257 GCAAGCCAGTGTAAGAGCTGTCTAGGACATGGCATCGACCTCGATATAT
1 G--AGCCAATGGAAGACCTGTCTGGGACATGGCATCGACCTAGATATAT
** * * * *
27405306 GAAAGTTAATGGAAGACCTGTCTGGGACATGGCATTGACTTAGATGTGT
1 G--AGCCAATGGAAGACCTGTCTGGGACATGGCATCGACCTAGATATAT
* * * * *
27405355 GAGCCAATGTAAGACCTGTCTGGGACATGGCATCAACATAGATGTGT
1 GAGCCAATGGAAGACCTGTCTGGGACATGGCATCGACCTAGATATAT
* * * *
27405402 GAGCCAGTGTAAGACCATGTTTGGAACATGGCAT
1 GAGCCAATGGAAGACC-TGTCTGGGACATGGCAT
27405436 TGGCATCGTA
Statistics
Matches: 147, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
46 1 0.01
47 55 0.37
48 39 0.27
49 52 0.35
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (47 bp):
GAGCCAATGGAAGACCTGTCTGGGACATGGCATCGACCTAGATATAT
Found at i:27405377 original size:47 final size:47
Alignment explanation
Indices: 27405313--27405437 Score: 178
Period size: 47 Copynumber: 2.6 Consensus size: 47
27405303 TATGAAAGTT
* *
27405313 AATGGAAGACCTGTCTGGGACATGGCATTGACTTAGATGTGTGAGCC
1 AATGTAAGACCTGTCTGGGACATGGCATTGACATAGATGTGTGAGCC
**
27405360 AATGTAAGACCTGTCTGGGACATGGCATCAACATAGATGTGTGAGCC
1 AATGTAAGACCTGTCTGGGACATGGCATTGACATAGATGTGTGAGCC
* * *
27405407 AGTGTAAGACCATGTTTGGAACATGGCATTG
1 AATGTAAGACC-TGTCTGGGACATGGCATTG
27405438 GCATCGTATC
Statistics
Matches: 68, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
47 53 0.78
48 15 0.22
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (47 bp):
AATGTAAGACCTGTCTGGGACATGGCATTGACATAGATGTGTGAGCC
Found at i:27408375 original size:40 final size:39
Alignment explanation
Indices: 27408311--27408451 Score: 165
Period size: 40 Copynumber: 3.5 Consensus size: 39
27408301 ACTCAGTATC
* * *
27408311 TCGCACACTAAGTGTCGTACATAGCTGAAGCTATCTCAAA
1 TCGCACACTAAGTGCCATATATAGC-GAAGCTATCTCAAA
* **
27408351 TCGCACACTAAGTGCCATGTATAGCGAAGCTATCTCGATC
1 TCGCACACTAAGTGCCATATATAGCGAAGCTATCTC-AAA
* * * *
27408391 TCACACACTAAGTGCCATATATAGCCAAAGCTATGTCGAA
1 TCGCACACTAAGTGCCATATATAG-CGAAGCTATCTCAAA
27408431 TCGCACACTAAGTGCCATATA
1 TCGCACACTAAGTGCCATATA
27408452 ATTTGATTTT
Statistics
Matches: 85, Mismatches: 14, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
39 11 0.13
40 64 0.75
41 10 0.12
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (39 bp):
TCGCACACTAAGTGCCATATATAGCGAAGCTATCTCAAA
Found at i:27414396 original size:12 final size:12
Alignment explanation
Indices: 27414379--27414403 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27414369 GTTAATTTGT
27414379 ATATAAGGACTA
1 ATATAAGGACTA
27414391 ATATAAGGACTA
1 ATATAAGGACTA
27414403 A
1 A
27414404 GTTGTTAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.08, G:0.16, T:0.24
Consensus pattern (12 bp):
ATATAAGGACTA
Found at i:27422551 original size:40 final size:40
Alignment explanation
Indices: 27422507--27422652 Score: 161
Period size: 40 Copynumber: 3.6 Consensus size: 40
27422497 GTTCAAAACA
* * ***
27422507 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
27422547 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** *
27422587 CCTTCGGG-CTTAGCCCGGATATCACAATTCGCTTACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGC--ACAAATG
27422628 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACTTAGCCCGGATATCAC
27422653 TCGAACATTC
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 22 0.23
40 40 0.43
41 32 0.34
ACGTcount: A:0.23, C:0.32, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:27422634 original size:41 final size:39
Alignment explanation
Indices: 27422537--27422652 Score: 178
Period size: 41 Copynumber: 2.9 Consensus size: 39
27422527 TATGGTAACC
* *
27422537 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
27422577 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
27422616 CGCTTACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGC--ACAATTGCCTTCGGGCTTAGCCCGGATATCAC
27422653 TCGAACATTC
Statistics
Matches: 71, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
39 22 0.31
40 17 0.24
41 32 0.45
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:27430600 original size:40 final size:40
Alignment explanation
Indices: 27430556--27430699 Score: 166
Period size: 39 Copynumber: 3.6 Consensus size: 40
27430546 GTTCAAAACA
* * ***
27430556 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
* * *
27430596 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
** * *
27430636 CCTTCGGG-CTTAGCCCGGATATCACAATTCGTACAATTG
1 CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
27430675 CCTTCGGG-CTTAGCCCGGATATCAC
1 CCTTCGGGACTTAGCCCGGATATCAC
27430700 TCGAACATTC
Statistics
Matches: 93, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 53 0.57
40 40 0.43
ACGTcount: A:0.24, C:0.31, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATCACAACCCGCACAAATG
Found at i:27430672 original size:39 final size:39
Alignment explanation
Indices: 27430586--27430699 Score: 183
Period size: 39 Copynumber: 2.9 Consensus size: 39
27430576 TATGGTAACC
* *
27430586 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
*
27430626 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
27430665 CGTACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
27430700 TCGAACATTC
Statistics
Matches: 70, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
39 53 0.76
40 17 0.24
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:27436236 original size:25 final size:25
Alignment explanation
Indices: 27436189--27436236 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
27436179 TTATAATATG
* * *
27436189 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
*
27436214 AAAATGACCATTATACCCTTAGG
1 AAAATGACCATTATACCCCTAGG
27436237 GTTTATGTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:27436339 original size:20 final size:20
Alignment explanation
Indices: 27436273--27436339 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
27436263 ATTTTGATAA
*
27436273 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
27436293 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
27436313 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
27436333 ACGTGAT
1 ACATGAT
27436340 GTAATCATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:27436422 original size:23 final size:23
Alignment explanation
Indices: 27436392--27436464 Score: 128
Period size: 23 Copynumber: 3.1 Consensus size: 23
27436382 GAAGTGGAAA
27436392 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
27436415 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
*
27436438 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTATGCCCCAGTTATT
27436462 AAA
1 AAA
27436465 AGAGGCTAGG
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
23 26 0.54
24 22 0.46
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:27436481 original size:25 final size:24
Alignment explanation
Indices: 27436391--27436485 Score: 140
Period size: 24 Copynumber: 4.0 Consensus size: 24
27436381 GGAAGTGGAA
27436391 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
27436415 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
27436438 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
27436462 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
27436486 ATGATAAAGT
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
23 23 0.35
24 31 0.48
25 11 0.17
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.28
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:27436714 original size:31 final size:31
Alignment explanation
Indices: 27436679--27436742 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
27436669 CGTTTACCGT
*
27436679 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
27436710 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
27436741 AA
1 AA
27436743 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.23, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:27438819 original size:10 final size:10
Alignment explanation
Indices: 27438801--27438833 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
27438791 AAGGTTAGGA
*
27438801 TATGACACAC
1 TATGCCACAC
27438811 TATGCCACAC
1 TATGCCACAC
27438821 TATGCCACAC
1 TATGCCACAC
27438831 TAT
1 TAT
27438834 TATAACTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.33, C:0.33, G:0.09, T:0.24
Consensus pattern (10 bp):
TATGCCACAC
Found at i:27441966 original size:2 final size:2
Alignment explanation
Indices: 27441959--27441989 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
27441949 GATTTCTACA
27441959 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
27441990 TTTTCTATCC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:27443087 original size:26 final size:26
Alignment explanation
Indices: 27443058--27443110 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
27443048 TATCACATGT
27443058 ACTTGTCATGCATTTATTAATCATTC
1 ACTTGTCATGCATTTATTAATCATTC
27443084 ACTTGTCATGCATTTATTAATCATTC
1 ACTTGTCATGCATTTATTAATCATTC
27443110 A
1 A
27443111 TTATTGAAAC
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:0.28, C:0.19, G:0.08, T:0.45
Consensus pattern (26 bp):
ACTTGTCATGCATTTATTAATCATTC
Found at i:27448748 original size:49 final size:50
Alignment explanation
Indices: 27448674--27448806 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 50
27448664 ACATTAAAGT
* *
27448674 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCATATATCGAG-GC
1 CGATGACATGTCACAGACATGGTCTTACACTGACTCTCATATATCG-GTGC
* * * *
27448724 CGAT-ACATGTCATAGACATGGTCTTACACTGGCTTTCATCTATCGGTGC
1 CGATGACATGTCACAGACATGGTCTTACACTGACTCTCATATATCGGTGC
* * *
27448773 CGATGCCATGTCCCAAACATGGTCTTACACTGAC
1 CGATGACATGTCACAGACATGGTCTTACACTGAC
27448807 ACATCTCAAG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 1 0.01
49 41 0.59
50 28 0.40
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.28
Consensus pattern (50 bp):
CGATGACATGTCACAGACATGGTCTTACACTGACTCTCATATATCGGTGC
Done.