Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 65 of 325
Found at i:20067206 original size:15 final size:16
Alignment explanation
Indices: 20067185--20067236 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
20067175 CTAATCGAGA
20067185 AAGAAG-AAAACGAAG
1 AAGAAGAAAAACGAAG
*
20067200 GAGAAGAAAAACGAAG
1 AAGAAGAAAAACGAAG
20067216 AAGAAGGGAAAAA-GAAG
1 AAGAA--GAAAAACGAAG
20067233 AAGA
1 AAGA
20067237 GAAGTTCGAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
15 5 0.16
16 13 0.41
17 8 0.25
18 6 0.19
ACGTcount: A:0.65, C:0.04, G:0.31, T:0.00
Consensus pattern (16 bp):
AAGAAGAAAAACGAAG
Found at i:20068035 original size:63 final size:63
Alignment explanation
Indices: 20067936--20068061 Score: 207
Period size: 63 Copynumber: 2.0 Consensus size: 63
20067926 AACATGCGTA
* *
20067936 GGATCAGAGCGGTAGCGTCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
1 GGATCAGAGCAGTAGCATCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
* * *
20067999 GGATCAGAGCAGTAGCATCTTAACATTGAGACGTGGAACACATCATGTATCCGGTCTAACTCT
1 GGATCAGAGCAGTAGCATCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
20068062 AGAGGTAGCT
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (63 bp):
GGATCAGAGCAGTAGCATCTCAACATCGAGACGTGGAACACATCATGTATACGGTCTAACTCT
Found at i:20080439 original size:9 final size:9
Alignment explanation
Indices: 20080421--20080452 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
20080411 AAATTTAGAG
*
20080421 TTCTTTTAT
1 TTCTTCTAT
20080430 TTCTTCTAT
1 TTCTTCTAT
20080439 TTCTTCTAT
1 TTCTTCTAT
20080448 TTCTT
1 TTCTT
20080453 TGTTCTCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.00, T:0.72
Consensus pattern (9 bp):
TTCTTCTAT
Found at i:20092642 original size:32 final size:30
Alignment explanation
Indices: 20092605--20092669 Score: 94
Period size: 32 Copynumber: 2.1 Consensus size: 30
20092595 ACTTAACGAG
20092605 CAAATGCCTCTAAAATAATAAAAAAAATTTAA
1 CAAATGCCTCTAAAATAAT-AAAAAAA-TTAA
* *
20092637 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
20092667 CAA
1 CAA
20092670 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 7 0.23
31 6 0.19
32 18 0.58
ACGTcount: A:0.58, C:0.14, G:0.03, T:0.25
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:20094577 original size:40 final size:40
Alignment explanation
Indices: 20094503--20094684 Score: 289
Period size: 40 Copynumber: 4.6 Consensus size: 40
20094493 AACCCAAGTA
*
20094503 CCTTCGGGAT-TTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGG-TCTTAGCCCGGATATAGTC-ACTAGCACAAATG
20094542 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
*
20094582 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
20094622 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
**
20094662 CCTTCGGGAATTAGCCCGGATAT
1 CCTTCGGGTCTTAGCCCGGATAT
20094685 CATCCGAATA
Statistics
Matches: 135, Mismatches: 5, Indels: 5
0.93 0.03 0.03
Matches are distributed among these distances:
38 1 0.01
39 12 0.09
40 121 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:20098494 original size:43 final size:43
Alignment explanation
Indices: 20098442--20098530 Score: 169
Period size: 43 Copynumber: 2.1 Consensus size: 43
20098432 TTATTTAGTG
20098442 ATTGAATAAGTGTATTTTTATATTATAGATCAAGAAATACCGA
1 ATTGAATAAGTGTATTTTTATATTATAGATCAAGAAATACCGA
*
20098485 ATTGAATAAGTGTATTTTTCTATTATAGATCAAGAAATACCGA
1 ATTGAATAAGTGTATTTTTATATTATAGATCAAGAAATACCGA
20098528 ATT
1 ATT
20098531 CGAACCTAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.38
Consensus pattern (43 bp):
ATTGAATAAGTGTATTTTTATATTATAGATCAAGAAATACCGA
Found at i:20098937 original size:46 final size:46
Alignment explanation
Indices: 20098785--20098992 Score: 231
Period size: 46 Copynumber: 4.5 Consensus size: 46
20098775 GGGTTAATGT
* * **
20098785 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
* * *
20098831 GAGCCCGTGTAAGACCATGTCTGGGACATTGCATCGGCATCGAGATGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACA-TGCATCGGCCTCAAGATGA
* * * *
20098879 GTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATG-A
*
20098926 -AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCT-CAAGATGA
* *
20098971 TAGTCAGTGTAAGACCATGTCT
1 GAGCCAGTGTAAGA-CATGTCT
20098993 AAGACATGGC
Statistics
Matches: 136, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
45 3 0.02
46 74 0.54
47 34 0.25
48 25 0.18
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGATGA
Found at i:20099015 original size:47 final size:48
Alignment explanation
Indices: 20098926--20099052 Score: 145
Period size: 47 Copynumber: 2.7 Consensus size: 48
20098916 TCAAGACGTA
* **
20098926 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACTACGAGAT-ATG
* * *
20098972 AGTCAGTGTAAGACCATGTCTAAGACATGGCATCAACT-TGAGATATG
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACTACGAGATATG
* *
20099019 AGCCAATATAAGACCATGTCTAGGACATGGCATC
1 AGCCAGTGTAAGACCATGTCTAGGACATGGCATC
20099053 GGCACCTTAC
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
46 14 0.21
47 47 0.69
48 7 0.10
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTAGGACATGGCATCAACTACGAGATATG
Found at i:20099045 original size:140 final size:140
Alignment explanation
Indices: 20098790--20099047 Score: 324
Period size: 140 Copynumber: 1.8 Consensus size: 140
20098780 AATGTGAGCT
* * **
20098790 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCCGTGTAAGACCATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTAA
* ** * * * * *
20098855 GACATTGCATCGGCATCGAGATGAGTGCTAGTGTAAGACATGTCTGGGACATGCATTGGCCTCAA
66 GACATGGCATCAACATCGAGATGAGAGCCAATATAAGACATGTCTAGGACATGCATTGGCCTCAA
20098920 GACGTAAGCC
131 GACGTAAGCC
* * *
20098930 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCATGTCTA
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAGCCAGTGTAAGACCATGTCTA
*
20098994 AGACATGGCATCAAC-TTGAGAT-ATGAGCCAATATAAGACCATGTCTAGGACATG
65 AGACATGGCATCAACATCGAGATGA-GAGCCAATATAAGA-CATGTCTAGGACATG
20099048 GCATCGGCAC
Statistics
Matches: 99, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
138 1 0.01
139 16 0.16
140 81 0.82
141 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (140 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAGCCAGTGTAAGACCATGTCTAA
GACATGGCATCAACATCGAGATGAGAGCCAATATAAGACATGTCTAGGACATGCATTGGCCTCAA
GACGTAAGCC
Found at i:20106151 original size:30 final size:30
Alignment explanation
Indices: 20106117--20106173 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
20106107 ATTTTCGAGC
*
20106117 CTAGGGGTAAAATGGTCATTTTGTCAAGGT
1 CTAGGGGCAAAATGGTCATTTTGTCAAGGT
*
20106147 CTAGGGGCAAAATGGTCATTTTTTCAA
1 CTAGGGGCAAAATGGTCATTTTGTCAA
20106174 AGAAGTGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.12, G:0.26, T:0.33
Consensus pattern (30 bp):
CTAGGGGCAAAATGGTCATTTTGTCAAGGT
Found at i:20106730 original size:94 final size:93
Alignment explanation
Indices: 20106513--20106731 Score: 270
Period size: 94 Copynumber: 2.3 Consensus size: 93
20106503 TTAATGTGAG
*
20106513 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCCGTGTAAGACCATGTCG
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACA-TATGAGAGCCAGTGTAAGACCATGTCG
*
20106578 GGGACATGGCATCAGCATCGAGACGAGTG
65 GGGACATGGCATCAGCATCGAGACGAGTA
*
20106607 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCA-A-GACGTATGCCAGTGTAAGA-CATGT
1 CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGA-G-A-GCCAGTGTAAGACCATGT
* *
20106669 CTGGGACAT-GCATCAGC-TACGAGATGA-TA
63 CGGGGACATGGCATCAGCAT-CGAGACGAGTA
*
20106698 CTCAGTGTAAGACCATGTCTAGGACATGGCATCG
1 CT-AGTGTAAGA-CATGTCTGGGACAT-GCATCG
20106732 ACTTGAGATA
Statistics
Matches: 112, Mismatches: 6, Indels: 14
0.85 0.05 0.11
Matches are distributed among these distances:
91 6 0.05
92 26 0.23
93 27 0.24
94 53 0.47
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (93 bp):
CTAGTGTAAGACATGTCTGGGACATGCATCGGCCACATATGAGAGCCAGTGTAAGACCATGTCGG
GGACATGGCATCAGCATCGAGACGAGTA
Found at i:20106740 original size:47 final size:45
Alignment explanation
Indices: 20106515--20106730 Score: 190
Period size: 46 Copynumber: 4.6 Consensus size: 45
20106505 AATGTGAGCT
* * *
20106515 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGA-GA-GC-C
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTC--GA-GACGATGCTC
* *
20106561 CGTGTAAGACCATGTCGGGGACATGGCATCAGCATCGAGACGAGTGCT-
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-TCGAGACGA-TGCTC
* *
20106609 AGTGTAAGACATGTCTGGGACATGCATCGGCCTCAAGACGTATGC-C
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CTCGAGACG-ATGCTC
* *
20106655 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGAGATGATACTC
1 AGTGTAAGACATGTCTGGGACATGCATCAGCT-CGAGACGATGCTC
*
20106701 AGTGTAAGACCATGTCTAGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
20106731 GACTTGAGAT
Statistics
Matches: 142, Mismatches: 14, Indels: 26
0.78 0.08 0.14
Matches are distributed among these distances:
45 7 0.05
46 71 0.50
47 42 0.30
48 22 0.15
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCTCGAGACGATGCTC
Found at i:20106770 original size:140 final size:141
Alignment explanation
Indices: 20106515--20106780 Score: 310
Period size: 140 Copynumber: 1.9 Consensus size: 141
20106505 AATGTGAGCT
* * * *
20106515 AGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCCGTGTAAGACCATGTCGGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCGAG
* * * *
20106580 GACATGGCATCAGCATCGAGACGAGTGCTAGTGTAAGACATGTCTGGGACA-TGCATCGGCCTCA
66 GACATGGCATCAGCATCGAGACGAGAGCCAATGTAAGACATGTCTGGGACATTACATCGGCCTCA
20106644 AGACGTATGCC
131 AGACGTATGCC
* * *
20106655 AGTGTAAGACATGTCTGGGACATGCATCAGCTACGA-GATGATA-CTCAGTGTAAGACCATGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-ATGATGAGAGC-CAGTGTAAGACCATGTCG
* * * *
20106718 AGGACATGGCATC-G-ACTTGAGA-TATGAGCCAATGTATGATCATGTCTTGGACATTACATCGG
64 AGGACATGGCATCAGCA-TCGAGACGA-GAGCCAATGTAAGA-CATGTCTGGGACATTACATCGG
20106780 C
126 C
20106781 ACCTTACCCC
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
138 2 0.02
139 17 0.16
140 77 0.73
141 9 0.09
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (141 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCACATGATGAGAGCCAGTGTAAGACCATGTCGAG
GACATGGCATCAGCATCGAGACGAGAGCCAATGTAAGACATGTCTGGGACATTACATCGGCCTCA
AGACGTATGCC
Found at i:20107957 original size:20 final size:21
Alignment explanation
Indices: 20107918--20107957 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
20107908 GTGGAAATGG
*
20107918 CTACACGGGCATGTTGCCCTT
1 CTACACGAGCATGTTGCCCTT
*
20107939 CTACACGAGCGTG-TGCCCT
1 CTACACGAGCATGTTGCCCT
20107958 ATTTCAAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.15, C:0.35, G:0.25, T:0.25
Consensus pattern (21 bp):
CTACACGAGCATGTTGCCCTT
Found at i:20111623 original size:23 final size:23
Alignment explanation
Indices: 20111597--20111642 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
20111587 AGCACAGCGG
20111597 GTTACCATCTCTCGTAAGATCTT
1 GTTACCATCTCTCGTAAGATCTT
*
20111620 GTTACCATCTCTCGTAATATCTT
1 GTTACCATCTCTCGTAAGATCTT
20111643 CACCTAAAAA
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:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (23 bp):
GTTACCATCTCTCGTAAGATCTT
Found at i:20125020 original size:15 final size:15
Alignment explanation
Indices: 20125002--20125031 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
20124992 TTTCTCAATA
20125002 TTGGATCTCTTTATT
1 TTGGATCTCTTTATT
*
20125017 TTGGATCTTTTTATT
1 TTGGATCTCTTTATT
20125032 CTAGGTTTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (15 bp):
TTGGATCTCTTTATT
Found at i:20126760 original size:10 final size:9
Alignment explanation
Indices: 20126737--20126762 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
20126727 TTTGGTGTTG
20126737 GTTTTTGAT
1 GTTTTTGAT
20126746 GTTTTTGAT
1 GTTTTTGAT
20126755 GTTTTTGA
1 GTTTTTGA
20126763 GGTTCTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.23, T:0.65
Consensus pattern (9 bp):
GTTTTTGAT
Found at i:20127120 original size:30 final size:30
Alignment explanation
Indices: 20127069--20127126 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
20127059 ATTTACGAGC
*
20127069 CTAAGAGCAAAATCGTAATTTTTGTAAAGT
1 CTAAGAGCAAAATCGTAATTTTTCTAAAGT
* *
20127099 CTAAGGGCAAAA-CGGTCATTTTTCTAAA
1 CTAAGAGCAAAATC-GTAATTTTTCTAAA
20127127 CTATGAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (30 bp):
CTAAGAGCAAAATCGTAATTTTTCTAAAGT
Found at i:20131238 original size:8 final size:8
Alignment explanation
Indices: 20131225--20131268 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
20131215 GTAACACCCC
20131225 AAAATTTT
1 AAAATTTT
20131233 AAAA-TTT
1 AAAATTTT
*
20131240 -GAATTGTT
1 AAAATT-TT
20131248 AAAATTTT
1 AAAATTTT
20131256 AAAATTTT
1 AAAATTTT
20131264 AAAAT
1 AAAAT
20131269 GGGCATTGTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
6 2 0.06
7 4 0.13
8 21 0.68
9 4 0.13
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (8 bp):
AAAATTTT
Found at i:20139632 original size:28 final size:28
Alignment explanation
Indices: 20139578--20139640 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
20139568 AAAGGCATCC
20139578 AAAAAGAAAAACAAAAGTACAAAAATAGA
1 AAAAAGAAAAACAAAAG-ACAAAAATAGA
**
20139607 AAAAAGAAAAGGAAAAG-CAAACAATAGA
1 AAAAAGAAAAACAAAAGACAAA-AATAGA
*
20139635 ACAAAG
1 AAAAAG
20139641 GTCATAGTGA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
27 4 0.13
28 11 0.37
29 15 0.50
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.05
Consensus pattern (28 bp):
AAAAAGAAAAACAAAAGACAAAAATAGA
Found at i:20141445 original size:64 final size:64
Alignment explanation
Indices: 20141366--20141546 Score: 294
Period size: 64 Copynumber: 2.8 Consensus size: 64
20141356 ATATCACATT
*
20141366 TAGTTAGGAGTATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATC-TCATC
1 TAGTTAGGAGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCAT-ATC
* * *
20141430 TAGTTAGGAGCATTTGATTCATTTCGATCATAGCATCCTAATTGTTTGACATAAGCATCATATT
1 TAGTTAGGAGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCATATC
*
20141494 TAGTTAGGAGCATTTGACTCATTTTGATCATAGCATCCTAATTATTTG-CATAA
1 TAGTTAGGAGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATAA
20141547 TCATAGACAT
Statistics
Matches: 109, Mismatches: 7, Indels: 3
0.92 0.06 0.03
Matches are distributed among these distances:
63 5 0.05
64 103 0.94
65 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.39
Consensus pattern (64 bp):
TAGTTAGGAGCATTTGACTCATTTCGATCATAGCATCCTAATTATTTGACATAAGCATCATATC
Found at i:20141696 original size:44 final size:45
Alignment explanation
Indices: 20141614--20141698 Score: 127
Period size: 44 Copynumber: 1.9 Consensus size: 45
20141604 TCGGTGAAGT
* *
20141614 CAAGTCTTATCTCCCTGAGGTTGCAGTGGAACAGACTAAAGATTG
1 CAAGTCTTATCTCCCTGAAGTAGCAGTGGAACAGACTAAAGATTG
* *
20141659 CAAGTCTTATTTCCCT-AAGTAGTAGTGGAACAGACTAAAG
1 CAAGTCTTATCTCCCTGAAGTAGCAGTGGAACAGACTAAAG
20141699 GCGACAAATC
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 21 0.58
45 15 0.42
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (45 bp):
CAAGTCTTATCTCCCTGAAGTAGCAGTGGAACAGACTAAAGATTG
Found at i:20141935 original size:177 final size:178
Alignment explanation
Indices: 20141775--20142194 Score: 517
Period size: 177 Copynumber: 2.4 Consensus size: 178
20141765 AGTTGCAGTG
* * * * *
20141775 GAGCAGGCTCAATAT-ATAAGTCTTATC-TCCTTGATGTTG-TAGTAGAGCAGATTAAAGATTGA
1 GAGCAGGCTCAAGATGAT-AGTCTTATCTTCC-TGAGGTTGCAAGGA-AGCAGACTAAAGATTGA
* * * * *
20141837 AGATCTTATCTCCCTCAGCAGTAACGGAGCAGATTGAGGATGGCGAATCTTATCTCCATGCACAG
63 AGATCTTATCTCCCTAAACAGTAACGGAGCAGATCGAAGATGGCGAATCTTATCTCCACGCACAG
20141902 GCAATGGAGAAAATTTTAGCCACTGACCTTATCTCTCT-AAGGTAGCAAGA
128 GCAATGGAGAAAATTTTAGCCACTGACCTTATCTCTCTGAAGGTAGCAAGA
* * *
20141952 GAGCAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTTGCAAGGAAGCAGACTGAAGATTGAAGA
1 GAGCAGGCTCAAGATGATAGTCTTATCTTCCTGAGGTTGCAAGGAAGCAGACTAAAGATTGAAGA
* *
20142017 TCTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGCGAATCTTCTCTCCACGCACAGGCA
66 TCTTATCTCCCTAAACAGTAACGGAGCAGATCGAAGATGGCGAATCTTATCTCCACGCACAGGCA
* * * *
20142082 ATGGAGCAGATTTTAGCCACTGGCCTTATCTCTCTG-AGGTAACAAGA
131 ATGGAGAAAATTTTAGCCACTGACCTTATCTCTCTGAAGGTAGCAAGA
* * * * * * * * * *
20142129 GAGTAGGTTGAAGATGGTAGTCTTATCTTACTAAGATAGCAAGGAAACAGACTGAAGATTGAAGA
1 GAGCAGGCTCAAGATGATAGTCTTATCTTCCTGAGGTTGCAAGGAAGCAGACTAAAGATTGAAGA
20142194 T
66 T
20142195 TGGAAGAGGC
Statistics
Matches: 213, Mismatches: 26, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
177 205 0.96
178 8 0.04
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.26
Consensus pattern (178 bp):
GAGCAGGCTCAAGATGATAGTCTTATCTTCCTGAGGTTGCAAGGAAGCAGACTAAAGATTGAAGA
TCTTATCTCCCTAAACAGTAACGGAGCAGATCGAAGATGGCGAATCTTATCTCCACGCACAGGCA
ATGGAGAAAATTTTAGCCACTGACCTTATCTCTCTGAAGGTAGCAAGA
Found at i:20142332 original size:43 final size:45
Alignment explanation
Indices: 20142253--20142348 Score: 115
Period size: 43 Copynumber: 2.2 Consensus size: 45
20142243 AGCCTCAAGC
* ***
20142253 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AG-T
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACGGAAGATTGAAGAT
* * *
20142296 CTTATCTTTCTGAGGTAGTAAGAAAGGAGACGGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAAAGCAGACGGAAGATTGAAGAT
20142341 CTTATCTC
1 CTTATCTC
20142349 CCTAAGCAGT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 33 0.77
44 2 0.05
45 8 0.19
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGAAAGCAGACGGAAGATTGAAGAT
Found at i:20142494 original size:323 final size:323
Alignment explanation
Indices: 20141928--20142517 Score: 930
Period size: 323 Copynumber: 1.8 Consensus size: 323
20141918 TAGCCACTGA
*
20141928 CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATGATAGTCTTATCTTCCTGAGGTTGCA
1 CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATGA-AGTCTTATCTTCCTGAGGTAGCA
* *
20141993 AGGAAGCAGACTGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGC
65 AGAAAGCAGACGGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGC
* * * *
20142058 GAATCTTCTCTCCACGCACAGGCAATGGAGCAGATTTTAGCCACTGGCCTTATCTCTCTGAGGTA
130 AAATCTTATCTCCACGCACAGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAAGTA
*
20142123 ACAAGAGAGTAGGTTGAAGATGGTAGTCTTATCTTACTAAGATAGCAAGGAAACAGACTGAAGAT
195 ACAAGAGAGTAGGTTGAAGATGGTAGTCTTATCTTACTAAGATAGCAAGGAAACAGACTGAAAAT
20142188 TGAAGATTGGAAGAGGCAAATCTCATCTCTATGTATCGGCAATGGAGCAGATTTAAGCCTCAAG
260 TGAAGATTGGAAGAGGCAAATCTCATCTCTATGTATCGGCAATGGAGCAGATTTAAGCCTCAAG
* * *
20142252 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTTCTGAGGTAGTA
1 CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGA-TGAAGTCTTATCTTCCTGAGGTAGCA
* *
20142316 AGAAAGGAGACGGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATCGAAGATGGC
65 AGAAAGCAGACGGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGC
* *
20142381 AAATCTTATCTCCATGTACAGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAAGTA
130 AAATCTTATCTCCACGCACAGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAAGTA
* ** * * * * **
20142446 GCAAGAGAGTAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTAGACTGAAAAT
195 ACAAGAGAGTAGGTTGAAGATGGTAGTCTTATCTTACTAAGATAGCAAGGAAACAGACTGAAAAT
*
20142511 TGTAGAT
260 TGAAGAT
20142518 CTTATCTCCC
Statistics
Matches: 240, Mismatches: 25, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
323 201 0.84
324 37 0.15
325 2 0.01
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (323 bp):
CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATGAAGTCTTATCTTCCTGAGGTAGCAA
GAAAGCAGACGGAAGATTGAAGATCTTATCTCCCTAAACAGTAGCGGAGCAGATCGAAGATGGCA
AATCTTATCTCCACGCACAGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTCTCTGAAGTAA
CAAGAGAGTAGGTTGAAGATGGTAGTCTTATCTTACTAAGATAGCAAGGAAACAGACTGAAAATT
GAAGATTGGAAGAGGCAAATCTCATCTCTATGTATCGGCAATGGAGCAGATTTAAGCCTCAAG
Found at i:20142555 original size:177 final size:177
Alignment explanation
Indices: 20142197--20142955 Score: 961
Period size: 177 Copynumber: 4.3 Consensus size: 177
20142187 TTGAAGATTG
* * * * * *
20142197 GAAGA-GGCAAATCTCATCTCTATGTATCGGCAATGGAGCAGATTTAAGCCTCAAGCCTTATCTC
1 GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTC
* * * *
20142261 TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTG-AGTCTTATCTTTCTGAGGTAGTAAGAAAGGAG
66 TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAG
* * *
20142325 ACGGAAGATTGAAGATCTTATCTCCCTAAGCAGTAGCGGAGCAGATC
131 ACTGAAAATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
*
20142372 GAAGATGGCAAATCTTATCTCCATGTA-CAGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCT
1 GAAGATGGCGAATCTTATCTCCATGTATC-GGCAATGGAGCAGATTTTAGCCACTAGCCTTATCT
* * ** *
20142436 CTCTGAAGTAGCAAGAGAGTAGGTTGGCGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGTA
65 CTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCA
* * * *
20142501 GACTGAAAATTGTAGATCTTATCTCCCTAAGTAATAGTAGAGCAGATC
130 GACTGAAAATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
* * * * * *
20142549 GAAGATGGCGAATCTTATCTCCATGTA-CAGGCAATGAAGAAAATTTTAGCCATTGGTCTTATCT
1 GAAGATGGCGAATCTTATCTCCATGTATC-GGCAATGGAGCAGATTTTAGCCACTAGCCTTATCT
* *
20142613 CTCTGAGGTAGCAAGAGAGCAGGTTGAAGATAGTAGTCTTATCTTCCTGAGGTAACAAGGAAGCA
65 CTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCA
* * *
20142678 GACTGAAGATTGTAGATTTTATCTCCCTAAGCAGTAGCAGAGCAGATC
130 GACTGAAAATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
* * * *
20142726 GAAGATGGTGAATCTTATCTTCATGTATCGACAATGGAGTAGATTTTAGCCACTAGCCTTATCTC
1 GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTC
* ** ** * *
20142791 TTTGAGGTAGCAAGAGAATAGGTTGGCGATTGTAGCCTTATCTTCCTGAGGTAGCAAGGAAACAG
66 TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAG
* * * **
20142856 A-TTAAAGATTGAAAATCTTATCTCCCTAAGCAGTTGTGGAGCAGATC
131 ACTGAAA-ATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
* * * * *
20142903 GAGGATGGCGAATTTTATCTCCATGTATCGGGAATGGAGTAGATTTAAGCCAC
1 GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCAC
20142956 CAGTCCTATT
Statistics
Matches: 507, Mismatches: 72, Indels: 8
0.86 0.12 0.01
Matches are distributed among these distances:
175 6 0.01
176 83 0.16
177 417 0.82
178 1 0.00
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.28
Consensus pattern (177 bp):
GAAGATGGCGAATCTTATCTCCATGTATCGGCAATGGAGCAGATTTTAGCCACTAGCCTTATCTC
TCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAG
ACTGAAAATTGAAGATCTTATCTCCCTAAGCAGTAGCAGAGCAGATC
Found at i:20142652 original size:44 final size:45
Alignment explanation
Indices: 20142604--20142702 Score: 114
Period size: 44 Copynumber: 2.2 Consensus size: 45
20142594 TTAGCCATTG
* **
20142604 GTCTTATCTCT-CTGAGGTAGCAA-GAGAGCAGGTTGAAGATAGTA
1 GTCTTATCTCTCCTGAGGTAACAAGGA-AGCAGACTGAAGATAGTA
*
20142648 GTCTTATCT-TCCTGAGGTAACAAGGAAGCAGACTGAAGATTGTA
1 GTCTTATCTCTCCTGAGGTAACAAGGAAGCAGACTGAAGATAGTA
*
20142692 GATTTTATCTC
1 G-TCTTATCTC
20142703 CCTAAGCAGT
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
43 1 0.02
44 36 0.78
45 9 0.20
ACGTcount: A:0.29, C:0.15, G:0.25, T:0.30
Consensus pattern (45 bp):
GTCTTATCTCTCCTGAGGTAACAAGGAAGCAGACTGAAGATAGTA
Found at i:20147458 original size:24 final size:24
Alignment explanation
Indices: 20147431--20147478 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
20147421 GATTTTTGTG
*
20147431 ATTAGTCCGTTGGAATCTCAAGGT
1 ATTAGTCCGTTGGAAACTCAAGGT
20147455 ATTAGTCCGTTGGAAACTCAAGGT
1 ATTAGTCCGTTGGAAACTCAAGGT
20147479 GTTATGTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (24 bp):
ATTAGTCCGTTGGAAACTCAAGGT
Found at i:20147971 original size:25 final size:25
Alignment explanation
Indices: 20147923--20147972 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
20147913 TTTGGCTTGA
**
20147923 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
20147948 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
20147973 TAAATTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:20158175 original size:3 final size:3
Alignment explanation
Indices: 20158167--20158196 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
20158157 ATTTCAGAGC
*
20158167 AAG AAG AAG AAG AAA AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
20158197 CTAAATGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20158918 original size:16 final size:16
Alignment explanation
Indices: 20158893--20158960 Score: 91
Period size: 16 Copynumber: 4.2 Consensus size: 16
20158883 TGATTCACTA
* *
20158893 TAATGAAATAGGGTTG
1 TAATGGAATAGAGTTG
*
20158909 TAATTGAATAGAGTTG
1 TAATGGAATAGAGTTG
*
20158925 TAATGGAATAGAGCTG
1 TAATGGAATAGAGTTG
*
20158941 TAATGGAATAGAGCTG
1 TAATGGAATAGAGTTG
20158957 TAAT
1 TAAT
20158961 CAGTAATTCA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.38, C:0.03, G:0.28, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGTTG
Found at i:20159031 original size:44 final size:46
Alignment explanation
Indices: 20158942--20159035 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 46
20158932 ATAGAGCTGT
* *
20158942 AATGGAATAGAGCTGTAATCAGTAATTCAACTATTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTATTTAGTTAAATGG
* ***
20158988 AATGGAATAGAGTTGTAAT-AG-AATTCTTGTATTTAGTTAAATGG
1 AATGGAATAGAGCTGTAATCAGTAATTCAACTATTTAGTTAAATGG
20159032 AATG
1 AATG
20159036 ATGTTGTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
44 22 0.52
45 2 0.05
46 18 0.43
ACGTcount: A:0.36, C:0.05, G:0.23, T:0.35
Consensus pattern (46 bp):
AATGGAATAGAGCTGTAATCAGTAATTCAACTATTTAGTTAAATGG
Found at i:20159137 original size:25 final size:26
Alignment explanation
Indices: 20159104--20159154 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
20159094 GTTGGTAGAT
*
20159104 GATTATTGTT-ATTAAATTTTAATAA
1 GATTATTGTTAAATAAATTTTAATAA
*
20159129 GATTATTGTTAAATATATTTTAATAA
1 GATTATTGTTAAATAAATTTTAATAA
20159155 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 10 0.43
26 13 0.57
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (26 bp):
GATTATTGTTAAATAAATTTTAATAA
Found at i:20159270 original size:13 final size:13
Alignment explanation
Indices: 20159246--20159315 Score: 78
Period size: 13 Copynumber: 5.7 Consensus size: 13
20159236 TAATAACATA
20159246 ATTAAT-ATAATT
1 ATTAATAATAATT
20159258 ATTAATAATAATT
1 ATTAATAATAATT
20159271 ATT-AT--TAATT
1 ATTAATAATAATT
*
20159281 -TTAATATAAAATT
1 ATTAATA-ATAATT
*
20159294 ATTAATAATATTT
1 ATTAATAATAATT
20159307 ATTAATAAT
1 ATTAATAAT
20159316 TTTAATATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
9 2 0.04
10 7 0.14
12 8 0.16
13 26 0.53
14 6 0.12
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
ATTAATAATAATT
Found at i:20159271 original size:22 final size:22
Alignment explanation
Indices: 20159232--20159316 Score: 73
Period size: 23 Copynumber: 3.7 Consensus size: 22
20159222 AATAATACAT
20159232 ATTTTAATAACATAATTAATA-TA
1 ATTTTAAT-A-ATAATTAATATTA
*
20159255 ATTATTAATAATAATTATTATTA
1 ATT-TTAATAATAATTAATATTA
* * *
20159278 ATTTTAATATAAAATTATTAATA
1 ATTTTAATA-ATAATTAATATTA
*
20159301 ATATTTATTAATAATT
1 AT-TTTAATAATAATT
20159317 TTAATATAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
22 15 0.28
23 27 0.51
24 11 0.21
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTTTAATAATAATTAATATTA
Found at i:20159294 original size:36 final size:36
Alignment explanation
Indices: 20159247--20159333 Score: 142
Period size: 36 Copynumber: 2.5 Consensus size: 36
20159237 AATAACATAA
*
20159247 TTAATAT--AATTATTAATAATAATTATTATTAATT
1 TTAATATAAAATTATTAATAATAATTATTAATAATT
*
20159281 TTAATATAAAATTATTAATAATATTTATTAATAATT
1 TTAATATAAAATTATTAATAATAATTATTAATAATT
20159317 TTAATATAAAATTATTA
1 TTAATATAAAATTATTA
20159334 TTAAGAACAT
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
34 7 0.14
36 42 0.86
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
TTAATATAAAATTATTAATAATAATTATTAATAATT
Found at i:20159296 original size:20 final size:20
Alignment explanation
Indices: 20159271--20159333 Score: 71
Period size: 20 Copynumber: 3.4 Consensus size: 20
20159261 AATAATAATT
20159271 ATTATTAATTTTAATATAAA
1 ATTATTAATTTTAATATAAA
**
20159291 ATTATTAA---TAATAT-TT
1 ATTATTAATTTTAATATAAA
*
20159307 ATTAATAATTTTAATATAAA
1 ATTATTAATTTTAATATAAA
20159327 ATTATTA
1 ATTATTA
20159334 TTAAGAACAT
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 7 0.21
17 6 0.18
19 6 0.18
20 14 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTATTAATTTTAATATAAA
Found at i:20159590 original size:58 final size:58
Alignment explanation
Indices: 20159457--20159592 Score: 177
Period size: 58 Copynumber: 2.3 Consensus size: 58
20159447 TATTATTATT
* *
20159457 AAATTTTAATA-AGATTATTATTAAAAATAATTTAATAAAAATAATAAATAATTTAATC
1 AAATTTTAATATA-ATTATTACTAAAAATAATTTAATAAAAATAATAAATAATTTAATA
* * * * *
20159515 ATATTTTAACATGATTATTACTAAATATAATTTAAT-AAAATAATATATAATTTAATA
1 AAATTTTAATATAATTATTACTAAAAATAATTTAATAAAAATAATAAATAATTTAATA
20159572 AAATTCTTAATATAATTATTA
1 AAATT-TTAATATAATTATTA
20159593 TTATATGAAT
Statistics
Matches: 66, Mismatches: 10, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 23 0.35
58 43 0.65
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (58 bp):
AAATTTTAATATAATTATTACTAAAAATAATTTAATAAAAATAATAAATAATTTAATA
Found at i:20173434 original size:41 final size:41
Alignment explanation
Indices: 20173389--20173619 Score: 277
Period size: 41 Copynumber: 5.6 Consensus size: 41
20173379 ATAGTCAAAA
* ** * *
20173389 CTATTATAATTTCTTACACTCAGTGCGTTACATAGCCGAAG
1 CTATTATAATCTCACACACTAAGTGCATTACATAGCCGAAG
20173430 CTATTATAATCTCACACACTAAGTGCATTACATAGCCGAAG
1 CTATTATAATCTCACACACTAAGTGCATTACATAGCCGAAG
*
20173471 CTATTATAATCTCACACACTAAGCGCATTACATAGCCGAAG
1 CTATTATAATCTCACACACTAAGTGCATTACATAGCCGAAG
** * *
20173512 CTATTATAATCTCGTACACAAAGTGCATTACACAGCCGAAG
1 CTATTATAATCTCACACACTAAGTGCATTACATAGCCGAAG
** * *
20173553 CTATCT-CGATCTCGCACACAAAGTGCATTACATAGCCGAAG
1 CTAT-TATAATCTCACACACTAAGTGCATTACATAGCCGAAG
** *
20173594 CTATCT-CGATCTCGCACACTAAGTGC
1 CTAT-TATAATCTCACACACTAAGTGC
20173620 CAAATGTAAT
Statistics
Matches: 173, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
41 172 0.99
42 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (41 bp):
CTATTATAATCTCACACACTAAGTGCATTACATAGCCGAAG
Found at i:20173606 original size:123 final size:123
Alignment explanation
Indices: 20173389--20173616 Score: 307
Period size: 123 Copynumber: 1.9 Consensus size: 123
20173379 ATAGTCAAAA
* * ** * * * *
20173389 CTATTATAATTTCTTACACTCAGTGCGTTACATAGCCGAAGCTATTATAATCTCACACACTAAGT
1 CTATTATAATCTCGTACACAAAGTGCATTACACAGCCGAAGCTATTACAATCTCACACACAAAGT
*
20173454 GCATTACATAGCCGAAGCTATTATAATCTCACACACTAAGCGCATTACATAGCCGAAG
66 GCATTACATAGCCGAAGCTATTACAATCTCACACACTAAGCGCATTACATAGCCGAAG
* *
20173512 CTATTATAATCTCGTACACAAAGTGCATTACACAGCCGAAGCTATCT-CGATCTCGCACACAAAG
1 CTATTATAATCTCGTACACAAAGTGCATTACACAGCCGAAGCTAT-TACAATCTCACACACAAAG
* *
20173576 TGCATTACATAGCCGAAGCTATCT-CGATCTCGCACACTAAG
65 TGCATTACATAGCCGAAGCTAT-TACAATCTCACACACTAAG
20173617 TGCCAAATGT
Statistics
Matches: 90, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
123 88 0.98
124 2 0.02
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.26
Consensus pattern (123 bp):
CTATTATAATCTCGTACACAAAGTGCATTACACAGCCGAAGCTATTACAATCTCACACACAAAGT
GCATTACATAGCCGAAGCTATTACAATCTCACACACTAAGCGCATTACATAGCCGAAG
Found at i:20178619 original size:13 final size:15
Alignment explanation
Indices: 20178601--20178632 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
20178591 TTTACTCATC
20178601 AATCTCTT-CCTC-G
1 AATCTCTTACCTCTG
20178614 AATCTCTTACCTCTG
1 AATCTCTTACCTCTG
20178629 AATC
1 AATC
20178633 AGCCTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.47
14 4 0.24
15 5 0.29
ACGTcount: A:0.22, C:0.34, G:0.06, T:0.38
Consensus pattern (15 bp):
AATCTCTTACCTCTG
Found at i:20181140 original size:41 final size:41
Alignment explanation
Indices: 20181033--20181143 Score: 181
Period size: 41 Copynumber: 2.7 Consensus size: 41
20181023 AAGCATAGTT
* *
20181033 GAAAC-ATTATAATTTCGCACAC-ACAATGCATTACATAGCC
1 GAAACTATTATAATCTCGCACACTA-AGTGCATTACATAGCC
20181073 GAAACTATTATAATCTCGCACACTAAGTGCATTACATAGCC
1 GAAACTATTATAATCTCGCACACTAAGTGCATTACATAGCC
20181114 GAAACTATTATAATCTCGCACACTAAGTGC
1 GAAACTATTATAATCTCGCACACTAAGTGC
20181144 CAAACGTAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
40 5 0.07
41 61 0.91
42 1 0.01
ACGTcount: A:0.38, C:0.24, G:0.12, T:0.26
Consensus pattern (41 bp):
GAAACTATTATAATCTCGCACACTAAGTGCATTACATAGCC
Found at i:20182839 original size:29 final size:29
Alignment explanation
Indices: 20182801--20182859 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
20182791 TGAAGTATGA
20182801 TAATTTCATATTTTTCTATTACTTTTGAT
1 TAATTTCATATTTTTCTATTACTTTTGAT
*
20182830 TAATTTCATATTTTTCTATTGCTTTTGAT
1 TAATTTCATATTTTTCTATTACTTTTGAT
20182859 T
1 T
20182860 GCTTCTTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.22, C:0.10, G:0.05, T:0.63
Consensus pattern (29 bp):
TAATTTCATATTTTTCTATTACTTTTGAT
Found at i:20195471 original size:16 final size:18
Alignment explanation
Indices: 20195445--20195477 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20195435 TTAAATTGAC
20195445 TAAATTAATTTT-TCAAT
1 TAAATTAATTTTCTCAAT
20195462 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
20195478 CCTAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:20202891 original size:19 final size:19
Alignment explanation
Indices: 20202867--20202905 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
20202857 TTCAACGCTT
20202867 AGGTTCATGTGGCATGGTA
1 AGGTTCATGTGGCATGGTA
20202886 AGGTTCATGTGGCATGGTA
1 AGGTTCATGTGGCATGGTA
20202905 A
1 A
20202906 CACGAAATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.23, C:0.10, G:0.36, T:0.31
Consensus pattern (19 bp):
AGGTTCATGTGGCATGGTA
Found at i:20203252 original size:15 final size:16
Alignment explanation
Indices: 20203230--20203261 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
20203220 TTAAATAACC
*
20203230 GAAAAAAATTATTAAT
1 GAAAAAATTTATTAAT
20203246 GAAAAAATTTATTAAT
1 GAAAAAATTTATTAAT
20203262 AATTAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.34
Consensus pattern (16 bp):
GAAAAAATTTATTAAT
Found at i:20203264 original size:19 final size:20
Alignment explanation
Indices: 20203237--20203275 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
20203227 ACCGAAAAAA
*
20203237 ATTATTAATGAAA-AAATTT
1 ATTAATAATGAAATAAATTT
*
20203256 ATTAATAATTAAATAAATTT
1 ATTAATAATGAAATAAATTT
20203276 TTTATAGGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.44
Consensus pattern (20 bp):
ATTAATAATGAAATAAATTT
Found at i:20209702 original size:32 final size:32
Alignment explanation
Indices: 20209661--20209726 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
20209651 TTACGATAAG
20209661 GTGATCCTCTTCTTTATACTTGTTCATTTTGA
1 GTGATCCTCTTCTTTATACTTGTTCATTTTGA
20209693 GTGATCCTCTTCTTTATACTTGTTCATTTTGA
1 GTGATCCTCTTCTTTATACTTGTTCATTTTGA
20209725 GT
1 GT
20209727 CTCAATATGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.15, C:0.18, G:0.14, T:0.53
Consensus pattern (32 bp):
GTGATCCTCTTCTTTATACTTGTTCATTTTGA
Found at i:20213321 original size:23 final size:23
Alignment explanation
Indices: 20213291--20213336 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
20213281 CGAGTCAAGG
20213291 ACAATCATACTTTAATGAAACAA
1 ACAATCATACTTTAATGAAACAA
20213314 ACAATCATACTTTAATGAAACAA
1 ACAATCATACTTTAATGAAACAA
20213337 TTACAATAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.17, G:0.04, T:0.26
Consensus pattern (23 bp):
ACAATCATACTTTAATGAAACAA
Found at i:20219365 original size:20 final size:20
Alignment explanation
Indices: 20219340--20219377 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
20219330 AATATTATAT
*
20219340 TAATTATATATGTTAAATAA
1 TAATTATATATATTAAATAA
20219360 TAATTATATATATTAAAT
1 TAATTATATATATTAAAT
20219378 CACAAATCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (20 bp):
TAATTATATATATTAAATAA
Found at i:20224184 original size:80 final size:79
Alignment explanation
Indices: 20224020--20224238 Score: 338
Period size: 80 Copynumber: 2.8 Consensus size: 79
20224010 TATTCGGATG
* *
20224020 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATCCGGGCTAAG-CCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCGAAGGCAT
20224083 TTGTGCGAGTTACT
66 TTGTGCGAGTTACT
*
20224097 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGT-CCGAAGGCA
20224162 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
* *
20224177 ATAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CTATATCCGGGCT-AAGTCCGAAGG
20224239 TACTTGGTTT
Statistics
Matches: 132, Mismatches: 5, Indels: 8
0.91 0.03 0.06
Matches are distributed among these distances:
77 39 0.30
78 12 0.09
79 13 0.10
80 68 0.52
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:20224219 original size:40 final size:40
Alignment explanation
Indices: 20224020--20224205 Score: 315
Period size: 40 Copynumber: 4.7 Consensus size: 40
20224010 TATTCGGATG
* *
20224020 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
20224060 A-ATCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
20224097 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
20224137 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
20224177 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
20224206 AGCAAGTAGC
Statistics
Matches: 137, Mismatches: 6, Indels: 6
0.92 0.04 0.04
Matches are distributed among these distances:
37 23 0.17
38 11 0.08
39 11 0.08
40 92 0.67
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:20236650 original size:37 final size:37
Alignment explanation
Indices: 20236589--20236667 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
20236579 TTATTACGAA
* * *
20236589 GTCTTACCCAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
* *
20236626 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
20236663 GTCTT
1 GTCTT
20236668 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACCCAGACAAAATCCCCACACGAAGTCATCGG
Found at i:20236864 original size:47 final size:47
Alignment explanation
Indices: 20236786--20237448 Score: 1123
Period size: 47 Copynumber: 13.9 Consensus size: 47
20236776 CCCTTCGGGA
* * * * * *
20236786 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20236833 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20236880 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20236927 CTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20236973 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20237022 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20237071 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20237118 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20237165 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20237214 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20237262 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20237309 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20237356 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20237405 CTTATCACATATATACACTTTCACATTCATCACATCGGTCATTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
20237449 CGCCATACTA
Statistics
Matches: 593, Mismatches: 15, Indels: 16
0.95 0.02 0.03
Matches are distributed among these distances:
46 19 0.03
47 341 0.58
48 75 0.13
49 158 0.27
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20237119 original size:191 final size:190
Alignment explanation
Indices: 20236786--20237448 Score: 1181
Period size: 191 Copynumber: 3.5 Consensus size: 190
20236776 CCCTTCGGGA
* * * * * *
20236786 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
20236849 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
20236914 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGC
131 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20236973 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATAT
20237038 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
20237103 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20237165 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGG-CCTATCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCAC--ATATAT
20237229 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
64 ACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCA
20237294 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
129 CATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20237356 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
*
20237421 ACTTTCACATTCATCACATCGGTCATTA
66 ACTTTCACATTCATCACATCGGCCATTA
20237449 CGCCATACTA
Statistics
Matches: 461, Mismatches: 9, Indels: 9
0.96 0.02 0.02
Matches are distributed among these distances:
187 10 0.02
188 1 0.00
189 38 0.08
190 35 0.08
191 311 0.67
192 66 0.14
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (190 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20237227 original size:238 final size:238
Alignment explanation
Indices: 20236788--20237448 Score: 1136
Period size: 238 Copynumber: 2.8 Consensus size: 238
20236778 CTTCGGGACT
* * * * * * *
20236788 TATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
20236851 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
20236916 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT-GGCCATTAGGCCTTATCA
131 GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
20236980 CATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
196 CA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
20237024 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
20237089 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
20237154 GGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCC-TAT
131 GGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
*
20237218 CACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
194 CACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
20237264 TATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
*
20237327 TTTCACATTCATCACATCGGCCATTAGGCCCTATCACATATATATACACTTTCACATTCATCACA
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACA
*
20237392 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGTCATTA
129 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTA
20237449 CGCCATACTA
Statistics
Matches: 408, Mismatches: 10, Indels: 12
0.95 0.02 0.03
Matches are distributed among these distances:
236 8 0.02
237 1 0.00
238 259 0.63
240 128 0.31
241 12 0.03
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (238 bp):
TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CAATATATACACTTTCACATTCATCACATCGGCCATTAGGCCC
Found at i:20246565 original size:46 final size:46
Alignment explanation
Indices: 20246515--20246643 Score: 181
Period size: 46 Copynumber: 2.8 Consensus size: 46
20246505 TGATTGAGCA
*
20246515 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-GAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGAT-CTGAACG
*
20246561 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATCTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCTGAACG
* **
20246607 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTTGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20246644 GCGGGTTACA
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
45 3 0.04
46 72 0.96
ACGTcount: A:0.20, C:0.20, G:0.28, T:0.32
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATCTGAACG
Found at i:20249173 original size:46 final size:46
Alignment explanation
Indices: 20249123--20249298 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
20249113 TGATTGAGCA
20249123 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
20249169 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
20249214 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
20249262 -CCTGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20249299 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 5 0.05
46 61 0.55
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:20249279 original size:93 final size:93
Alignment explanation
Indices: 20249120--20249291 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
20249110 GGATGATTGA
*
20249120 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
20249185 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
20249213 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAACTCGTTGAG
20249277 TTGAGTCCGAGTTCG
65 TTGAGTCCGAGTTCG
20249292 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:20256076 original size:80 final size:80
Alignment explanation
Indices: 20255943--20256120 Score: 297
Period size: 80 Copynumber: 2.2 Consensus size: 80
20255933 CGGATGATAA
20255943 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
* *
20256008 TGCGAGTTA-CTATAT
66 AGCAAG-TAGCTATAT
20256023 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
20256088 AGCAAGTAGCTATAT
66 AGCAAGTAGCTATAT
* *
20256103 CC-GGCTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
20256121 TACTTGGTTT
Statistics
Matches: 93, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
79 16 0.17
80 77 0.83
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
AGCAAGTAGCTATAT
Found at i:20256101 original size:40 final size:40
Alignment explanation
Indices: 20255939--20256087 Score: 289
Period size: 40 Copynumber: 3.7 Consensus size: 40
20255929 TATTCGGATG
20255939 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
20255979 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
20256019 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
20256059 ATAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
20256088 AGCAAGTAGC
Statistics
Matches: 107, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 107 1.00
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:20260254 original size:19 final size:19
Alignment explanation
Indices: 20260202--20260261 Score: 52
Period size: 19 Copynumber: 3.1 Consensus size: 19
20260192 GTACTTTTGG
*
20260202 TTGGTTTAATTTTGGTTATA
1 TTGG-TTAATGTTGGTTATA
*
20260222 TTGG-T-ATGTATTGGTTATT
1 TTGGTTAATG--TTGGTTATA
20260241 TTGGTTAATGTTGGCTTATA
1 TTGGTTAATGTTGG-TTATA
20260261 T
1 T
20260262 GTGTTTTAGT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
17 2 0.06
18 1 0.03
19 16 0.50
20 10 0.31
21 3 0.09
ACGTcount: A:0.18, C:0.02, G:0.23, T:0.57
Consensus pattern (19 bp):
TTGGTTAATGTTGGTTATA
Found at i:20270852 original size:613 final size:604
Alignment explanation
Indices: 20269696--20270917 Score: 1989
Period size: 613 Copynumber: 2.0 Consensus size: 604
20269686 CTTGGATCGG
* *
20269696 GGAAAAACGAAAGTTGTCGACTAGTTGCCCGACTTCGTTTTGTATCGTCCGAGGTAAGTTTATAA
1 GGAAAAACGAAAGTCGTCGACTAGCTGCCCGACTTCGTTTTGTATCGTCCGAGGTAAGTTTATAA
* * *
20269761 ACAAATAGACGTGTTTATTTGGTAATTAAATTTTATATTTATATATTGTTATGAAACGTAGAATT
66 ACAAATAGACATGTTTATTTGGTAATTAAATGTTATATTTATATACTGTTATGAAACGTAGAATT
20269826 TTAATAAACTATGGCCGAAAATGATTAAATTTGACTACTACACTTCAGAGTTCGATTCGACCAAG
131 TTAATAAACTATGGCCGAAAATGATTAAATTTGACTACTACACTTCAGAGTTCGATTCGACCAAG
*
20269891 TTACGACGTCCGAAAGCCCCGATGAACCTTAGGAATAGTTAGGATACATATGTCATGACATAGGA
196 TTACGACGTCCGAAAGCCCCGATAAACCTTAGGAATAGTTAGGATACATATGTCATGACATAGGA
* *
20269956 TTCTGATATATGTGTGCGAGTAAGACTATGGCAACAGTATGTGGTTTGTTTACGAGTAAGACCCT
261 TTCCGATATATGTGTGCGAGTAAGACCATGGCAACAGTATGTGGTTTGTTTACGAGTAAGACCCT
* ** *
20270021 GTCTGGGACAGTGGCATCGATATGTGGCTACATGTAAGGCCATGTCTGGGACATTGGTGTTGTAC
326 ATCTGGGACAGTGGCATCGATATGTGGCTACATGTAAGGCCACATCTGGGACATTGGCGTTGTAC
*
20270086 AATTTACCTGATTATCCGAGTGTCCTATCCGATTCTGAATGGTTCATCAGGCAATGATAAACTCT
391 AATTTACCTGATTATCCGAGTGTCCTATCCGATTCCGAATGGTTCATCAGGCAATGATAAACTCT
* * *
20270151 GTTTGAATATGTAAAACGAGTTATGTACAGGTATGGATTAATTTGTTACCAAGCCAAATTAAGGT
456 GTTTGAATATGAAAAACGAGCTATGTACAGGTATGGATTAATTTGTTACCAAGCCAAAGTAAGGT
* *
20270216 AAGTAAGTAATTAATGGTTGATATAAATGGCTTATTAAATAAATATGGGAGATGTAATCATATGA
521 AAGTAAGTAATTAATGGTTGATATAAATGACTTATTAAATAAATAGGGGAGATGTAATCATATGA
20270281 TAGTAAACGAATTTGATAA
586 TAGTAAACGAATTTGATAA
* * * *
20270300 GGAAAAATGAAAGTCGTCGACTAGCTGTCCGATTTCGTTTTGTATCGTCCGAGGTAGGTTTATAA
1 GGAAAAACGAAAGTCGTCGACTAGCTGCCCGACTTCGTTTTGTATCGTCCGAGGTAAGTTTATAA
** *
20270365 GTAAATAGACATGTTTATTTGGTAATTAAATGTTATATTTATATACTGTTATGAAATGTAGAATT
66 ACAAATAGACATGTTTATTTGGTAATTAAATGTTATATTTATATACTGTTATGAAACGTAGAATT
** * *
20270430 TTAATATGCTATGGCCGAAAATGATTAAATTTGACTACTACACTTCCGAGTTCGATTCGACCGAG
131 TTAATAAACTATGGCCGAAAATGATTAAATTTGACTACTACACTTCAGAGTTCGATTCGACCAAG
*
20270495 TTACGACGTCCGAAAGCCTCGTATAAACCTTAGGAATAGTTAGGATACATATGTCATGACATAGG
196 TTACGACGTCCGAAAGCCCCG-ATAAACCTTAGGAATAGTTAGGATACATATGTCATGACATAGG
*
20270560 ATTCCGATATATGTGTGCGAGTAAGACCATGGCATC-GATATGTGGTTTCGATATCTGTTTACGA
260 ATTCCGATATATGTGTGCGAGTAAGACCATGGCAACAG-TATGT-G----G-T-T-TGTTTACGA
* *
20270624 GTAAGACCCTATTTGGGACAGTGGCATCGATATGTGGCTACATGTAAGGCCACATCTGGGACGTT
316 GTAAGACCCTATCTGGGACAGTGGCATCGATATGTGGCTACATGTAAGGCCACATCTGGGACATT
** * *
20270689 GGCGTTGTATGATTTACAC-GATTATCTGAGTGTCCTATCCGATTCCGAATGGTTCATCGGGCAA
381 GGCGTTGTACAATTTAC-CTGATTATCCGAGTGTCCTATCCGATTCCGAATGGTTCATCAGGCAA
*
20270753 TGATAAACTCTGTTTGAATATGAAAAACGAGCTATGTACAGGTATGGATTAATTTTTTACCAAGC
445 TGATAAACTCTGTTTGAATATGAAAAACGAGCTATGTACAGGTATGGATTAATTTGTTACCAAGC
20270818 CAAAGTAAGGTAAGTAAGTAATTAATGGTTGATATAAATGACTTATTAAATAAATAGGGGAGATG
510 CAAAGTAAGGTAAGTAAGTAATTAATGGTTGATATAAATGACTTATTAAATAAATAGGGGAGATG
20270883 TAATCATATGATAGTAAACGAATTTGATAA
575 TAATCATATGATAGTAAACGAATTTGATAA
20270913 GGAAA
1 GGAAA
20270918 TATATATGTA
Statistics
Matches: 569, Mismatches: 38, Indels: 13
0.92 0.06 0.02
Matches are distributed among these distances:
604 200 0.35
605 80 0.14
606 1 0.00
610 1 0.00
611 1 0.00
612 1 0.00
613 284 0.50
614 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.32
Consensus pattern (604 bp):
GGAAAAACGAAAGTCGTCGACTAGCTGCCCGACTTCGTTTTGTATCGTCCGAGGTAAGTTTATAA
ACAAATAGACATGTTTATTTGGTAATTAAATGTTATATTTATATACTGTTATGAAACGTAGAATT
TTAATAAACTATGGCCGAAAATGATTAAATTTGACTACTACACTTCAGAGTTCGATTCGACCAAG
TTACGACGTCCGAAAGCCCCGATAAACCTTAGGAATAGTTAGGATACATATGTCATGACATAGGA
TTCCGATATATGTGTGCGAGTAAGACCATGGCAACAGTATGTGGTTTGTTTACGAGTAAGACCCT
ATCTGGGACAGTGGCATCGATATGTGGCTACATGTAAGGCCACATCTGGGACATTGGCGTTGTAC
AATTTACCTGATTATCCGAGTGTCCTATCCGATTCCGAATGGTTCATCAGGCAATGATAAACTCT
GTTTGAATATGAAAAACGAGCTATGTACAGGTATGGATTAATTTGTTACCAAGCCAAAGTAAGGT
AAGTAAGTAATTAATGGTTGATATAAATGACTTATTAAATAAATAGGGGAGATGTAATCATATGA
TAGTAAACGAATTTGATAA
Found at i:20271527 original size:15 final size:15
Alignment explanation
Indices: 20271507--20271538 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
20271497 TGAGTTTGGT
20271507 TTGGCTAGACTATGG
1 TTGGCTAGACTATGG
20271522 TTGGCTAGACTATGG
1 TTGGCTAGACTATGG
20271537 TT
1 TT
20271539 TGAGCTCGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.12, G:0.31, T:0.38
Consensus pattern (15 bp):
TTGGCTAGACTATGG
Found at i:20274727 original size:337 final size:337
Alignment explanation
Indices: 20274112--20274786 Score: 1350
Period size: 337 Copynumber: 2.0 Consensus size: 337
20274102 TAATTAAATG
20274112 TAAGTTCGGGAACAAAATGGGCTTAGATGTTGAATGGTTAAGAAATGTGATCTAATATTGATTGT
1 TAAGTTCGGGAACAAAATGGGCTTAGATGTTGAATGGTTAAGAAATGTGATCTAATATTGATTGT
20274177 TGAAACTCATGCTTAAGATATATACGCAATGAATGTGTATATGTACATAAGTGTATGTAATTGGA
66 TGAAACTCATGCTTAAGATATATACGCAATGAATGTGTATATGTACATAAGTGTATGTAATTGGA
20274242 ATTAAAAGACATGTTTTGATAGATTTGGCATAGGTGAAGTTTGTAATGGAATGCATGAAATGTCA
131 ATTAAAAGACATGTTTTGATAGATTTGGCATAGGTGAAGTTTGTAATGGAATGCATGAAATGTCA
20274307 TGGTTTATTTTTTAGTAAATTAAGGCCATGATAGATTTGGATCCTGTTGAAATTGGTTTGGTGAT
196 TGGTTTATTTTTTAGTAAATTAAGGCCATGATAGATTTGGATCCTGTTGAAATTGGTTTGGTGAT
20274372 TTGTTGGCATGAATTTCCCTTGATGATGATGGTATGCTATGGCTTGAATCAAATTGGCAGATGTG
261 TTGTTGGCATGAATTTCCCTTGATGATGATGGTATGCTATGGCTTGAATCAAATTGGCAGATGTG
20274437 CATGTCTTGAAT
326 CATGTCTTGAAT
20274449 TAAGTTCGGGAACAAAATGGGCTTAGATGTTGAATGGTTAAGAAATGTGATCTAATATTGATTGT
1 TAAGTTCGGGAACAAAATGGGCTTAGATGTTGAATGGTTAAGAAATGTGATCTAATATTGATTGT
20274514 TGAAACTCATGCTTAAGATATATACGCAATGAATGTGTATATGTACATAAGTGTATGTAATTGGA
66 TGAAACTCATGCTTAAGATATATACGCAATGAATGTGTATATGTACATAAGTGTATGTAATTGGA
20274579 ATTAAAAGACATGTTTTGATAGATTTGGCATAGGTGAAGTTTGTAATGGAATGCATGAAATGTCA
131 ATTAAAAGACATGTTTTGATAGATTTGGCATAGGTGAAGTTTGTAATGGAATGCATGAAATGTCA
20274644 TGGTTTATTTTTTAGTAAATTAAGGCCATGATAGATTTGGATCCTGTTGAAATTGGTTTGGTGAT
196 TGGTTTATTTTTTAGTAAATTAAGGCCATGATAGATTTGGATCCTGTTGAAATTGGTTTGGTGAT
20274709 TTGTTGGCATGAATTTCCCTTGATGATGATGGTATGCTATGGCTTGAATCAAATTGGCAGATGTG
261 TTGTTGGCATGAATTTCCCTTGATGATGATGGTATGCTATGGCTTGAATCAAATTGGCAGATGTG
20274774 CATGTCTTGAAT
326 CATGTCTTGAAT
20274786 T
1 T
20274787 GGGACCAAGT
Statistics
Matches: 338, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
337 338 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.37
Consensus pattern (337 bp):
TAAGTTCGGGAACAAAATGGGCTTAGATGTTGAATGGTTAAGAAATGTGATCTAATATTGATTGT
TGAAACTCATGCTTAAGATATATACGCAATGAATGTGTATATGTACATAAGTGTATGTAATTGGA
ATTAAAAGACATGTTTTGATAGATTTGGCATAGGTGAAGTTTGTAATGGAATGCATGAAATGTCA
TGGTTTATTTTTTAGTAAATTAAGGCCATGATAGATTTGGATCCTGTTGAAATTGGTTTGGTGAT
TTGTTGGCATGAATTTCCCTTGATGATGATGGTATGCTATGGCTTGAATCAAATTGGCAGATGTG
CATGTCTTGAAT
Found at i:20279339 original size:16 final size:16
Alignment explanation
Indices: 20279320--20279352 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
20279310 CACTAACATG
20279320 AAAATGTAATGACAAT
1 AAAATGTAATGACAAT
*
20279336 AAAATGTAATGGCAAT
1 AAAATGTAATGACAAT
20279352 A
1 A
20279353 TATACTTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.06, G:0.15, T:0.24
Consensus pattern (16 bp):
AAAATGTAATGACAAT
Found at i:20279830 original size:21 final size:21
Alignment explanation
Indices: 20279806--20279877 Score: 90
Period size: 21 Copynumber: 3.4 Consensus size: 21
20279796 TTATTTTCAG
*
20279806 CAACTTCTTCTTCTTCAGCAA
1 CAACTTCCTCTTCTTCAGCAA
**
20279827 CAACTTCCTCTTCTTTGGCAA
1 CAACTTCCTCTTCTTCAGCAA
* * *
20279848 CAACTTCCTCTTCTACAGTAG
1 CAACTTCCTCTTCTTCAGCAA
20279869 CAACTTCCT
1 CAACTTCCT
20279878 TCTCAACAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.22, C:0.35, G:0.07, T:0.36
Consensus pattern (21 bp):
CAACTTCCTCTTCTTCAGCAA
Found at i:20279833 original size:18 final size:18
Alignment explanation
Indices: 20279801--20279860 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
20279791 CTTTCTTATT
** *
20279801 TTCAGCAACTTCTTCTTC
1 TTCAGCAACAACTTCCTC
20279819 TTCAGCAACAACTTCCTC
1 TTCAGCAACAACTTCCTC
*
20279837 TTCTTTGGCAACAACTTCCTC
1 TTC---AGCAACAACTTCCTC
20279858 TTC
1 TTC
20279861 TACAGTAGCA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
18 18 0.51
21 17 0.49
ACGTcount: A:0.20, C:0.35, G:0.07, T:0.38
Consensus pattern (18 bp):
TTCAGCAACAACTTCCTC
Found at i:20287847 original size:13 final size:13
Alignment explanation
Indices: 20287825--20287857 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
20287815 TTTCTTTAGT
20287825 TTAG-TTAGTTAA
1 TTAGTTTAGTTAA
20287837 TTAGTTTAGTTAA
1 TTAGTTTAGTTAA
20287850 TTAGTTTA
1 TTAGTTTA
20287858 ATAAACAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 4 0.20
13 16 0.80
ACGTcount: A:0.30, C:0.00, G:0.15, T:0.55
Consensus pattern (13 bp):
TTAGTTTAGTTAA
Found at i:20288299 original size:29 final size:29
Alignment explanation
Indices: 20288257--20288314 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
20288247 GAAGTATGTT
20288257 TTTGTCTTTGCTACCAACTTCCAATCGAG
1 TTTGTCTTTGCTACCAACTTCCAATCGAG
20288286 TTTGTCTTTGCTACCAACTTCCAATCGAG
1 TTTGTCTTTGCTACCAACTTCCAATCGAG
20288315 ACAGATGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.38
Consensus pattern (29 bp):
TTTGTCTTTGCTACCAACTTCCAATCGAG
Found at i:20310382 original size:27 final size:27
Alignment explanation
Indices: 20310349--20310413 Score: 80
Period size: 30 Copynumber: 2.3 Consensus size: 27
20310339 AAAATGTTTA
20310349 TAAAATTATTG-TGTTTTA-AATTTTTT
1 TAAAATTATTGAT-TTTTATAATTTTTT
20310375 TAATAATTATTGAAATTTTTATAATTTTTT
1 TAA-AATTATTG--ATTTTTATAATTTTTT
20310405 TAAAATTAT
1 TAAAATTAT
20310414 GTATATTGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
26 3 0.09
27 8 0.24
29 11 0.32
30 12 0.35
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (27 bp):
TAAAATTATTGATTTTTATAATTTTTT
Found at i:20312068 original size:23 final size:24
Alignment explanation
Indices: 20312042--20312096 Score: 64
Period size: 23 Copynumber: 2.4 Consensus size: 24
20312032 AATAATTAAA
20312042 AAAATAAAAT-AAA-AAAT-GAATTT
1 AAAATAAAATCAAATAAATAG-A-TT
20312065 AAAAT-AAATCAAATAAATAGATT
1 AAAATAAAATCAAATAAATAGATT
20312088 AAAATAAAA
1 AAAATAAAA
20312097 AATTTCTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
22 4 0.14
23 15 0.54
24 8 0.29
25 1 0.04
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.24
Consensus pattern (24 bp):
AAAATAAAATCAAATAAATAGATT
Found at i:20315640 original size:41 final size:41
Alignment explanation
Indices: 20315590--20315929 Score: 527
Period size: 41 Copynumber: 8.3 Consensus size: 41
20315580 AATTCATCAT
* *
20315590 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20315631 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20315672 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20315713 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20315754 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20315795 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20315836 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20315877 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
20315918 ATTCATATCACC
1 ATTCAGATCACC
20315930 AATTCCAAAC
Statistics
Matches: 270, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 270 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:20315733 original size:82 final size:82
Alignment explanation
Indices: 20315596--20315929 Score: 668
Period size: 82 Copynumber: 4.1 Consensus size: 82
20315586 TCATATTCGG
20315596 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
20315661 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
20315678 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
20315743 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
20315760 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
20315825 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
20315842 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
20315907 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
20315924 ATCACC
1 ATCACC
20315930 AATTCCAAAC
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 252 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:20316165 original size:19 final size:19
Alignment explanation
Indices: 20316141--20316177 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
20316131 TTGTTCGATC
*
20316141 CACACATATATATATATTA
1 CACACATATACATATATTA
20316160 CACACATATACATATATT
1 CACACATATACATATATT
20316178 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:20322527 original size:41 final size:41
Alignment explanation
Indices: 20322477--20322816 Score: 527
Period size: 41 Copynumber: 8.3 Consensus size: 41
20322467 AATTCATCAT
* *
20322477 ATTCGGATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20322518 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20322559 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20322600 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20322641 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20322682 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20322723 ATTCATATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
* *
20322764 ATTCAGATCACCGGCGCTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
*
20322805 ATTCATATCACC
1 ATTCAGATCACC
20322817 AATTCCAAAC
Statistics
Matches: 270, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 270 1.00
ACGTcount: A:0.22, C:0.28, G:0.21, T:0.29
Consensus pattern (41 bp):
ATTCAGATCACCGGCACTTAGCCTGCTAGGCTTATAACCTG
Found at i:20322620 original size:82 final size:82
Alignment explanation
Indices: 20322483--20322816 Score: 668
Period size: 82 Copynumber: 4.1 Consensus size: 82
20322473 TCATATTCGG
20322483 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
20322548 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
20322565 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
20322630 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
20322647 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
20322712 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
20322729 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
1 ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
20322794 TTTATAACCTGATTCAT
66 TTTATAACCTGATTCAT
20322811 ATCACC
1 ATCACC
20322817 AATTCCAAAC
Statistics
Matches: 252, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 252 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.29
Consensus pattern (82 bp):
ATCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCGCTTAGCCTGCTAGG
TTTATAACCTGATTCAT
Found at i:20323052 original size:19 final size:19
Alignment explanation
Indices: 20323028--20323064 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
20323018 TTGTTCGATC
*
20323028 CACACATATATATATATTA
1 CACACATATACATATATTA
20323047 CACACATATACATATATT
1 CACACATATACATATATT
20323065 CGCACATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (19 bp):
CACACATATACATATATTA
Found at i:20328604 original size:33 final size:33
Alignment explanation
Indices: 20328557--20328619 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
20328547 GATAAAACTT
*
20328557 TAAAACACAGTGTATCTTTGTTATTAATGAGCA
1 TAAAACACAATGTATCTTTGTTATTAATGAGCA
20328590 TAAAACACAATGTATCTTTGTTATTAATGA
1 TAAAACACAATGTATCTTTGTTATTAATGA
20328620 TCCTCCAGAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (33 bp):
TAAAACACAATGTATCTTTGTTATTAATGAGCA
Found at i:20333648 original size:55 final size:54
Alignment explanation
Indices: 20333561--20333815 Score: 226
Period size: 55 Copynumber: 4.8 Consensus size: 54
20333551 ATTAGGGTTT
*
20333561 AAGGATACCATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAA-GTTTCTAAGGC
* * * * * *
20333616 AAGGAAATCATGTAAGACCATGTCAAGACATGGC-ATTGATAAGTTACTATAAGGAA
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTT--TCTAAGG-C
* * *
20333672 AAGG-TTCCAT-TGAAGACCATGCCAAGGCATGGC-ATTGGTGAG-TTCATAAGGC
1 AAGGATACCATGT-AAGACCATGCCAAGACATGGCAATTGGTAAGTTTC-TAAGGC
* * *
20333724 AAGGATACCATATAAGACCATGTCAAGACACGGCAA-TGGTAAGTTTC-AA---
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
* ** *
20333773 AAGGATACCACGTAAGACCATGAAAAGTCATGGCAA-TGGTAAG
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAG
20333816 GTACCCGTGT
Statistics
Matches: 164, Mismatches: 27, Indels: 24
0.76 0.13 0.11
Matches are distributed among these distances:
49 37 0.23
52 7 0.04
53 37 0.23
54 14 0.09
55 65 0.40
56 4 0.02
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATTGGTAAGTTTCTAAGGC
Found at i:20340725 original size:180 final size:180
Alignment explanation
Indices: 20339884--20341221 Score: 1636
Period size: 180 Copynumber: 7.5 Consensus size: 180
20339874 AGATTAAATT
* * * * *** * *
20339884 AAATCTGCTCTATTGCCGATACATGGAGATAAAATTCACCAT-T-TTTA-ATCTGCTCCACTGCC
1 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTGCA
* * * **
20339946 ACTTCGGGGAGATAAGATCCTCAACCCTCAGTCTGCTTCCTTGCTACCTCA-G--G--AAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* * * * **
20340006 ATTCTTCAACTTGCTCCCTTGTTACCTCAGAGAGATGAGG-TTGGACGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* ** ** * * * *
20340055 AAATCTGCTCCATTGCCAATACATGGATTTAAGATTCACCACCTGTGAAGATCTACTCCGCTGCG
1 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTGCA
* * *
20340120 ACTTCAGGGAGATAAAA-CTTCAATTCTCAATTTGCTTCCTTGCTACTTCAGGAAGATCAA-ACT
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGAT-AAGACT
* * * * * * *
20340183 C---CTTCAACCTACTCTCTTGTTACTTCAGAGAGATGAGGCTTAAG-GCTT
130 CATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTT-GGTGGTA
* * * *
20340231 AAATCTACTTCC--TAGTCGATACATGGAGATAAGATT-AGCCATCTGTGAAGATTTGCTCCGCT
1 AAATCTGC-TCCATTACT-GATACATGGAGATAAGATTCA-CCATCTGCGAAGATCTGCTCCGCT
* * *
20340293 GCAATCTT-AGGGAGATAAGATCTTTAATTCTCAGTCTGCTTCCTTGCTACCTTAGGAAGATAAG
63 GCAA-CTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAG
* * *
20340357 ACTCATTCATAAACATGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
127 ACTCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* * * * * *
20340411 AAATCTACTCTATTGCCTGATACATGGAAATAAGATTCACCATTTGCGAAGATCTGCTCTGCTGC
1 AAATCTGCTCCATT-ACTGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTGC
* * * * *
20340476 AATCTT-AGGGAGATAAGATCTTTAATTTTTAGTCTGCTTCCTTACTACCTCAGGAAGATAAGAC
65 AA-CTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGAC
* * *
20340540 TCATTCATAAACCTGCTCTCTTGGTACCTCAGAGAGATAAGGCTTGGTGGTA
129 TCATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* * ** *
20340592 AAATCTGCTCCATTACTGATTCATGGAGATAAGATTCACCATCTACGAAGATCTGCTCTACTGTA
1 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTGCA
**
20340657 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTTTGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
20340722 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* * *
20340772 AAATATGCTCCATTACTAATTCATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTGCA
1 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTGCA
* *
20340837 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGTTTCCTTACTACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
* *
20340902 ATTCTTCAACCTACTCTCTTGCTACTTCAGAGAGATAAGGCTTGGTGGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* * * *
20340952 AAATCTTCTCCATTACTGATTCATGGAGATAAGATTTACCATCTGCGAAGATCTGCTCTGCTGCA
1 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTGCA
* * *
20341017 ACTTCAAGGAGATAAAATCTTCAATTCTCAGTTTACTTCCTTGCTACCTCAGGAAGATAAGACTC
66 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
*
20341082 ATTCTTCAACTTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
131 ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
* ** ** *
20341132 AAATCTGCTCCATTGCTGATACATGGAGATAAGATTCACCATCTGTAAAGATCTATTCCACTGCA
1 AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTGCA
*
20341197 ACTTCAGGGAGATAAGATCTTCAAT
66 ACTTCAGGGAGATAAAATCTTCAAT
20341222 CTTTACCAAT
Statistics
Matches: 1017, Mismatches: 124, Indels: 43
0.86 0.10 0.04
Matches are distributed among these distances:
171 36 0.04
172 1 0.00
173 29 0.03
174 28 0.03
175 35 0.03
176 64 0.06
177 46 0.05
178 4 0.00
179 8 0.01
180 601 0.59
181 163 0.16
182 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (180 bp):
AAATCTGCTCCATTACTGATACATGGAGATAAGATTCACCATCTGCGAAGATCTGCTCCGCTGCA
ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTC
ATTCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTTGGTGGTA
Found at i:20340937 original size:88 final size:86
Alignment explanation
Indices: 20340657--20341119 Score: 208
Period size: 93 Copynumber: 5.2 Consensus size: 86
20340647 CTCTACTGTA
* * **
20340657 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGCTTCCTTGCTACCTTTGGAAGATAAGACTC
1 ACTTCAGAGAGATAAAATCTTCAATTCTCAGTCTG-TTCCTTACTACCTCAGGAAGATAAGACTC
20340722 ATTCTTCAACCTGCTCTCTTGCT
65 ATTCTTCAACCT-CTCTCTTGCT
* ** ** ** * * * * ** *
20340745 ACCTCAGAGAGAT-AAGGCTT-GGTGGTAAAATATGCTCCATTACTAATTCATGG-AGATAAGAT
1 ACTTCAGAGAGATAAAATCTTCAATTCT-CAGTCTGTTCC-TTACTACCTCA-GGAAGATAAGAC
* * ** * *
20340807 TCACCATCTGCGAAGATCTGCTCCGCTGCA
63 TCA--TTCTTC-AACCTCT-CT-C-TTGCT
*
20340837 ACTTCAGGGAGATAAAATCTTCAATTCTCAGTCTGTTTCCTTACTACCTCAGGAAGATAAGACTC
1 ACTTCAGAGAGATAAAATCTTCAATTCTCAGTCTG-TTCCTTACTACCTCAGGAAGATAAGACTC
20340902 ATTCTTCAACCTACTCTCTTGCT
65 ATTCTTCAACCT-CTCTCTTGCT
** ** ** * * *
20340925 ACTTCAGAGAGAT-AAGGCTT-GGTGGTAAAATCT-TCTCCATTACTGA-TTCATGG-AGATAAG
1 ACTTCAGAGAGATAAAATCTTCAATTCT-CAGTCTGT-TCC-TTACT-ACCTCA-GGAAGATAAG
* * ** *
20340985 ATTTACCA-TCTGCGAAGATCTGCTCTGCTGCA
61 A-CT--CATTCTTC-AACCTCT-CTCT--TGCT
* * *
20341017 ACTTCA-AGGAGATAAAATCTTCAATTCTCAGTTTACTTCCTTGCTACCTCAGGAAGATAAGACT
1 ACTTCAGA-GAGATAAAATCTTCAATTCTCAGTCT-GTTCCTTACTACCTCAGGAAGATAAGACT
*
20341081 CATTCTTCAACTTGCTCTCTTGCT
64 CATTCTTCAACCT-CTCTCTTGCT
*
20341105 ACCTCAGAGAGATAA
1 ACTTCAGAGAGATAA
20341120 GGCTTGGTGG
Statistics
Matches: 262, Mismatches: 77, Indels: 72
0.64 0.19 0.18
Matches are distributed among these distances:
85 1 0.00
86 10 0.04
87 51 0.19
88 47 0.18
89 14 0.05
90 28 0.11
91 14 0.05
92 34 0.13
93 52 0.20
94 10 0.04
95 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.32
Consensus pattern (86 bp):
ACTTCAGAGAGATAAAATCTTCAATTCTCAGTCTGTTCCTTACTACCTCAGGAAGATAAGACTCA
TTCTTCAACCTCTCTCTTGCT
Found at i:20344995 original size:47 final size:47
Alignment explanation
Indices: 20344917--20345560 Score: 1072
Period size: 47 Copynumber: 13.6 Consensus size: 47
20344907 CCCTTCGGGA
* * * * * * *
20344917 CTTATCACATTTATATACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20344964 TTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20345011 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20345058 CTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20345107 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20345154 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20345201 CTTATCACATAGATACACTTTAACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20345248 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20345295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20345342 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20345391 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20345438 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20345485 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20345532 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
20345561 TATTCAAATA
Statistics
Matches: 564, Mismatches: 27, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
47 453 0.80
49 111 0.20
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20345240 original size:190 final size:189
Alignment explanation
Indices: 20344917--20345560 Score: 1085
Period size: 190 Copynumber: 3.4 Consensus size: 189
20344907 CCCTTCGGGA
* * * * * * * * *
20344917 CTTATCACATTTATATACTTTCACATCCATCACGTTGGCCACTCGGCTTTGTCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
*
20344981 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACAT
*
20345046 CGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 CGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20345107 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGCCTTATCAC-ATATATACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
* * *
20345171 CTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATAGATACACTTTAACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACAT
20345236 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20345295 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
20345360 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
65 ACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
* *
20345425 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
130 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20345485 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACA-ATATATAC
20345550 ACTTTCACATT
65 ACTTTCACATT
20345561 TATTCAAATA
Statistics
Matches: 433, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
188 92 0.21
190 341 0.79
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (189 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAATATATACA
CTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20347071 original size:13 final size:13
Alignment explanation
Indices: 20347053--20347077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20347043 TACTAAATTT
20347053 TCATGGATTCAAA
1 TCATGGATTCAAA
20347066 TCATGGATTCAA
1 TCATGGATTCAA
20347078 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:20349576 original size:119 final size:120
Alignment explanation
Indices: 20349364--20349652 Score: 456
Period size: 119 Copynumber: 2.4 Consensus size: 120
20349354 CCAGCATGAT
* * * * * * * ***
20349364 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCACGGATA
*
20349429 TATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
66 CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
20349484 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGC-CTTCGGAACTTAGTC-CGGAT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAG-CACGGAT
20349547 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
65 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
20349603 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGG
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGG
20349653 GATTTAGCCC
Statistics
Matches: 156, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
119 113 0.72
120 43 0.28
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGCACGGATA
CATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:20349665 original size:159 final size:159
Alignment explanation
Indices: 20349368--20349665 Score: 454
Period size: 159 Copynumber: 1.9 Consensus size: 159
20349358 CATGATTGCT
* * *** *
20349368 CTTCGGGACCTAGCCCGGATATAACACCAGCACAAATGCTCTTCGGGGTTTAGCACGGATATATC
1 CTTCGGAACCTAGCCCGGATACAACACCAGCACAAATGCTCTTCGGAACTTAGCACGGATACATC
20349433 ACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACT
66 ACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACT
*
20349498 TAGTCCGGATACATCACTAGCACGAATGC
131 TAGCCCGGATACATCACTAGCACGAATGC
* * * * *
20349527 CTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACTTAGTC-CGGATACAT
1 CTTCGGAACCTAGCCCGGATACAACACCAGCACAAATGCTCTTCGGAACTTAG-CACGGATACAT
* *
20349591 CACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGGAT
65 CACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAAC
20349656 TTAGCCCGGA
130 TTAGCCCGGA
20349666 CATTTCACTC
Statistics
Matches: 124, Mismatches: 14, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
159 123 0.99
160 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (159 bp):
CTTCGGAACCTAGCCCGGATACAACACCAGCACAAATGCTCTTCGGAACTTAGCACGGATACATC
ACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGGAACT
TAGCCCGGATACATCACTAGCACGAATGC
Found at i:20349674 original size:40 final size:40
Alignment explanation
Indices: 20349364--20349652 Score: 456
Period size: 40 Copynumber: 7.2 Consensus size: 40
20349354 CCAGCATGAT
* * * * * * *
20349364 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*** *
20349404 TGCTCTTCGGGGTTTAG-CACGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTC-CGGATACATCACTAGCACGAA
20349444 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
20349484 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
20349524 TGC-CTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
20349563 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
20349603 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
20349643 TGCTCTTCGG
1 TGCTCTTCGG
20349653 GATTTAGCCC
Statistics
Matches: 236, Mismatches: 10, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
39 40 0.17
40 195 0.83
41 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:20351199 original size:47 final size:47
Alignment explanation
Indices: 20351121--20351810 Score: 1175
Period size: 47 Copynumber: 14.6 Consensus size: 47
20351111 CCCTTCGGGA
* * * * * * *
20351121 CTTATCACATTTATATACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20351168 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20351215 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20351262 CTTATCACATATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20351311 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20351358 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20351405 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
20351452 CTTATCACATATATACACTTTCACATTCATCGCATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20351499 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20351546 CTTATCACATATATACACTTTCACATTCATCACATC-GCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20351592 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20351641 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
20351688 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20351735 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
20351782 CTTATCACATATATATACACTTTCACATT
1 CTTATCAC--ATATATACACTTTCACATT
20351811 TATTCAAATA
Statistics
Matches: 611, Mismatches: 25, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
46 18 0.03
47 484 0.79
48 27 0.04
49 82 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:20353319 original size:13 final size:13
Alignment explanation
Indices: 20353301--20353325 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20353291 TACTAAATTT
20353301 TCATGGATTCAAA
1 TCATGGATTCAAA
20353314 TCATGGATTCAA
1 TCATGGATTCAA
20353326 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAA
Found at i:20375130 original size:55 final size:55
Alignment explanation
Indices: 20375030--20375166 Score: 136
Period size: 55 Copynumber: 2.5 Consensus size: 55
20375020 TTAAGGATAC
* * *
20375030 CATGTAAGACCATGCCAAGGCATGGCAATTGGTAAGGTTTCTAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCAATTGATAAGGTTTATAAGGCAAGGAAAT
* * ***
20375085 CATGTAAGGCCATGTCAAGACATGG-AATTGATAA-GTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCAATTGATAAGGTT--TATAAGGC-AAGGAAAT
* *
20375140 CATGTAAGACCATACCAAGGCATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
20375167 TTGGTGAGTC
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
53 3 0.05
54 8 0.12
55 50 0.76
56 5 0.08
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (55 bp):
CATGTAAGACCATGCCAAGACATGGCAATTGATAAGGTTTATAAGGCAAGGAAAT
Found at i:20376308 original size:29 final size:29
Alignment explanation
Indices: 20376263--20376338 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
20376253 TCTTGACATA
* *
20376263 TACTGGGCCAAAGCCTTTCGTTTAATGGT
1 TACTGGGCCGAAGCCTTTCGTTTAACGGT
*
20376292 TATTGGGCCGAAGCCTTTCGTTTAACGGT
1 TACTGGGCCGAAGCCTTTCGTTTAACGGT
*
20376321 TACTGGACCGAAGCCTTT
1 TACTGGGCCGAAGCCTTT
20376339 TCATAAATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (29 bp):
TACTGGGCCGAAGCCTTTCGTTTAACGGT
Found at i:20376363 original size:31 final size:31
Alignment explanation
Indices: 20376322--20376400 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
20376312 TTTAACGGTT
*
20376322 ACTGGACCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
20376353 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
20376384 ACTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
20376401 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:20376471 original size:42 final size:42
Alignment explanation
Indices: 20376424--20376515 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
20376414 TGGCCCTTAG
* ** *
20376424 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
20376466 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
20376508 GCCCATTT
1 GCCCATTT
20376516 GGGGAGACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:20376691 original size:25 final size:24
Alignment explanation
Indices: 20376663--20376730 Score: 109
Period size: 24 Copynumber: 2.8 Consensus size: 24
20376653 CTCTTTTAAT
*
20376663 AACTGGGGCAAAGCCCTTTCTGATA
1 AACTGGGGCAGAGCCCTTTC-GATA
*
20376688 AACTGGGGCAGAGCCCTTTCGGTA
1 AACTGGGGCAGAGCCCTTTCGATA
20376712 AACTGGGGCAGAGCCCTTT
1 AACTGGGGCAGAGCCCTTT
20376731 TAGCACTTCC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
24 22 0.54
25 19 0.46
ACGTcount: A:0.24, C:0.25, G:0.29, T:0.22
Consensus pattern (24 bp):
AACTGGGGCAGAGCCCTTTCGATA
Found at i:20377679 original size:27 final size:26
Alignment explanation
Indices: 20377631--20377686 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
20377621 GTAAATCTAC
*
20377631 AAACCAAGGGTATTGCAGTAATTTTGT
1 AAACCAAGGGTATTCCAGTAATTTT-T
*
20377658 AAACCAATGGTATTCCTA-TAATTTTT
1 AAACCAAGGGTATTCC-AGTAATTTTT
20377684 AAA
1 AAA
20377687 AAAGTCAAGG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 21 0.81
28 1 0.04
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (26 bp):
AAACCAAGGGTATTCCAGTAATTTTT
Found at i:20377745 original size:27 final size:27
Alignment explanation
Indices: 20377715--20377791 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
20377705 GTAATCTTGT
20377715 AAATCAGGGGTATTTTGGTAATTT-TAC
1 AAATCAGGGGTATTTTGGTAATTTCT-C
* *
20377742 AAAT-TGAGGGTATTTCGGTAATTTCTC
1 AAATCAG-GGGTATTTTGGTAATTTCTC
* **
20377769 AAACCAGTAGTATTTTGGTAATT
1 AAATCAGGGGTATTTTGGTAATT
20377792 CTATCCTATA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
26 1 0.03
27 37 0.93
28 2 0.05
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTCTC
Found at i:20377857 original size:27 final size:27
Alignment explanation
Indices: 20377823--20377914 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
20377813 GTAATTTCAC
20377823 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
20377850 AA-CTGAGGGTAAAATGGTAATGTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
* * * *
20377877 AATCGAGCGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
20377904 AATCGAGGGTA
1 AATCGAGGGTA
20377915 CTTTGGTAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 1 0.02
27 52 0.96
28 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:20377937 original size:54 final size:53
Alignment explanation
Indices: 20377813--20377937 Score: 128
Period size: 54 Copynumber: 2.3 Consensus size: 53
20377803 GGGTATTTCA
* * * * *
20377813 GTAATTTCACAATCGAGGGTAAAACGGTAATTTTGTAAACTGAGGGTAAAATG
1 GTAATTTTACAATCGAGCGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
***
20377866 GTAATGTTGTA-AATCGAGCGTAAAACGATAATTCTATAAA-TCGAGGGTACTTTG
1 GTAAT-TT-TACAATCGAGCGTAAAACGATAATTCTATAAACT-GAGGGTAAAATG
20377920 GTAATTTTACAAGTCGAG
1 GTAATTTTACAA-TCGAG
20377938 GGTATTTCAA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
52 2 0.03
53 10 0.17
54 46 0.78
55 1 0.02
ACGTcount: A:0.36, C:0.10, G:0.23, T:0.30
Consensus pattern (53 bp):
GTAATTTTACAATCGAGCGTAAAACGATAATTCTATAAACTGAGGGTAAAATG
Found at i:20385597 original size:16 final size:16
Alignment explanation
Indices: 20385576--20385606 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
20385566 TTATTCCCCG
*
20385576 AGCAACAATTGTTCTA
1 AGCAACAACTGTTCTA
20385592 AGCAACAACTGTTCT
1 AGCAACAACTGTTCT
20385607 GAACAAGAGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.13, T:0.29
Consensus pattern (16 bp):
AGCAACAACTGTTCTA
Found at i:20386047 original size:13 final size:14
Alignment explanation
Indices: 20386029--20386059 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
20386019 TTAGCTGCTT
20386029 TATTATAAAAAA-A
1 TATTATAAAAAATA
20386042 TATTATAAAAAATA
1 TATTATAAAAAATA
20386056 TATT
1 TATT
20386060 TTATTTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
TATTATAAAAAATA
Found at i:20386537 original size:16 final size:17
Alignment explanation
Indices: 20386508--20386544 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
20386498 TGTACATTTA
20386508 AATTTATTTAAATTTTG
1 AATTTATTTAAATTTTG
20386525 TAATTT-TTT-AATTTTG
1 -AATTTATTTAAATTTTG
20386541 AATT
1 AATT
20386545 CCATAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 4 0.21
16 7 0.37
17 3 0.16
18 5 0.26
ACGTcount: A:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (17 bp):
AATTTATTTAAATTTTG
Found at i:20389875 original size:40 final size:40
Alignment explanation
Indices: 20389781--20389925 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
20389771 TACTCGAATG
*
20389781 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* * *
20389822 ACATTCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
20389862 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
20389902 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
20389926 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.68
41 27 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:20396974 original size:26 final size:26
Alignment explanation
Indices: 20396945--20396997 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
20396935 TCAAACATGC
20396945 ATTTAAGTCAATTTAAC-CCTAGGGGT
1 ATTTAAGT-AATTTAACTCCTAGGGGT
** *
20396971 ATTTCGGTAATTTATCTCCTAGGGGT
1 ATTTAAGTAATTTAACTCCTAGGGGT
20396997 A
1 A
20396998 AAACTGTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (26 bp):
ATTTAAGTAATTTAACTCCTAGGGGT
Found at i:20398518 original size:26 final size:26
Alignment explanation
Indices: 20398482--20398565 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
20398472 CATGAAATTC
20398482 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
20398508 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
20398534 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
20398560 TTATCA
1 TTATCA
20398566 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:20402807 original size:305 final size:305
Alignment explanation
Indices: 20402256--20402866 Score: 1204
Period size: 305 Copynumber: 2.0 Consensus size: 305
20402246 ATTGGGTTAT
*
20402256 CTTGGTTTGGAAATATTGATGATGCTTTGAGCTACAAATTGAAATATTTTTTATGTTTTATTTTG
1 CTTGGTTTGGAAATATTGATGATGCTTTGAGCTACAAATTCAAATATTTTTTATGTTTTATTTTG
20402321 AGGTTGTAGATGCATTTTGAATTGATATATGTATGGTTGTGTCAAATGCCTTGTTTTGCTGTGAA
66 AGGTTGTAGATGCATTTTGAATTGATATATGTATGGTTGTGTCAAATGCCTTGTTTTGCTGTGAA
*
20402386 TTTAAGGTCCATTTGGAAGCTAGGAAAACAATTTCCGAAAAATATTTTCCTGGTTTTACTGTGTT
131 TTTAAGGTCCATTTGGAAGCCAGGAAAACAATTTCCGAAAAATATTTTCCTGGTTTTACTGTGTT
20402451 TGGAAGCTTGAAAACATTTTACATTTGGAAAATGTTTTCCAAGACATGGGTAAAATGACTTGCAA
196 TGGAAGCTTGAAAACATTTTACATTTGGAAAATGTTTTCCAAGACATGGGTAAAATGACTTGCAA
20402516 TTTGGGGAAAAAGTCTTACCGATTTCTTTTCAGTAAGACATTTTC
261 TTTGGGGAAAAAGTCTTACCGATTTCTTTTCAGTAAGACATTTTC
20402561 CTTGGTTTGGAAATATTGATGATGCTTTGAGCTACAAATTCAAATATTTTTTATGTTTTATTTTG
1 CTTGGTTTGGAAATATTGATGATGCTTTGAGCTACAAATTCAAATATTTTTTATGTTTTATTTTG
20402626 AGGTTGTAGATGCATTTTGAATTGATATATGTATGGTTGTGTCAAATGCCTTGTTTTGCTGTGAA
66 AGGTTGTAGATGCATTTTGAATTGATATATGTATGGTTGTGTCAAATGCCTTGTTTTGCTGTGAA
20402691 TTTAAGGTCCATTTGGAAGCCAGGAAAACAATTTCCGAAAAATATTTTCCTGGTTTTACTGTGTT
131 TTTAAGGTCCATTTGGAAGCCAGGAAAACAATTTCCGAAAAATATTTTCCTGGTTTTACTGTGTT
20402756 TGGAAGCTTGAAAACATTTTACATTTGGAAAATGTTTTCCAAGACATGGGTAAAATGACTTGCAA
196 TGGAAGCTTGAAAACATTTTACATTTGGAAAATGTTTTCCAAGACATGGGTAAAATGACTTGCAA
20402821 TTTGGGGAAAAAGTCTTACCGATTTCTTTTCAGTAAGACATTTTC
261 TTTGGGGAAAAAGTCTTACCGATTTCTTTTCAGTAAGACATTTTC
20402866 C
1 C
20402867 ATCTCCTTCT
Statistics
Matches: 304, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
305 304 1.00
ACGTcount: A:0.28, C:0.11, G:0.20, T:0.40
Consensus pattern (305 bp):
CTTGGTTTGGAAATATTGATGATGCTTTGAGCTACAAATTCAAATATTTTTTATGTTTTATTTTG
AGGTTGTAGATGCATTTTGAATTGATATATGTATGGTTGTGTCAAATGCCTTGTTTTGCTGTGAA
TTTAAGGTCCATTTGGAAGCCAGGAAAACAATTTCCGAAAAATATTTTCCTGGTTTTACTGTGTT
TGGAAGCTTGAAAACATTTTACATTTGGAAAATGTTTTCCAAGACATGGGTAAAATGACTTGCAA
TTTGGGGAAAAAGTCTTACCGATTTCTTTTCAGTAAGACATTTTC
Found at i:20405446 original size:11 final size:12
Alignment explanation
Indices: 20405424--20405456 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
20405414 CTTGGAACTT
20405424 TTCTTTTGTTTG
1 TTCTTTTGTTTG
*
20405436 TT-TTTTTTTTG
1 TTCTTTTGTTTG
20405447 TTCTTTTGTT
1 TTCTTTTGTT
20405457 AGATTCCTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.56
12 8 0.44
ACGTcount: A:0.00, C:0.06, G:0.12, T:0.82
Consensus pattern (12 bp):
TTCTTTTGTTTG
Found at i:20413105 original size:28 final size:28
Alignment explanation
Indices: 20413063--20413127 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
20413053 TCAGTGTACG
*
20413063 AAATATTGAGAATGACACTTAATGTGCG
1 AAATATTGAGAATGACACTTAATGTGCA
* *
20413091 AGATATTGAGAATGACACTTAGTGTGCA
1 AAATATTGAGAATGACACTTAATGTGCA
20413119 AAATATTGA
1 AAATATTGA
20413128 ATGATTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGACACTTAATGTGCA
Found at i:20413244 original size:39 final size:39
Alignment explanation
Indices: 20413200--20413460 Score: 391
Period size: 39 Copynumber: 6.7 Consensus size: 39
20413190 GACTTTATAA
* *
20413200 TGGTGTTATATCTGGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
20413239 TGGTGTTATATCCGGGCTAAGTCCTGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
20413278 TGGTGGTATATCTGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
20413317 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
20413356 TGGTGTTATATCCGGGCTAAGCCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* * *
20413395 TGGTGTTATATCCGGGCTAAAGT-CTGCAGGC-TTTGTGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
20413433 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
20413461 CATGCTTTGT
Statistics
Matches: 204, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
38 22 0.11
39 177 0.87
40 5 0.02
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:20416114 original size:19 final size:19
Alignment explanation
Indices: 20416086--20416126 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
20416076 TTCATCATAG
* *
20416086 TAAAATAAAATAATAAAAA
1 TAAAACAAAACAATAAAAA
*
20416105 TAAAACAAAACCATAAAAA
1 TAAAACAAAACAATAAAAA
20416124 TAA
1 TAA
20416127 TTAAAAGGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (19 bp):
TAAAACAAAACAATAAAAA
Found at i:20416633 original size:28 final size:28
Alignment explanation
Indices: 20416574--20416675 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
20416564 ATACAGAAAA
* * *
20416574 TGTGGCAGAGTCACCAGATACAGATATTT
1 TGTGGCAGTGCCACCAGA-ACAGATAATT
20416603 TGTGGCAGTGCCACCAGAACAGATAATT
1 TGTGGCAGTGCCACCAGAACAGATAATT
* * *
20416631 TGTGGCAGGGCAACCAGAACAGATTATT
1 TGTGGCAGTGCCACCAGAACAGATAATT
20416659 TGTGGCA-TAGCCACCAG
1 TGTGGCAGT-GCCACCAG
20416676 GACGCTTCCG
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
28 48 0.75
29 16 0.25
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (28 bp):
TGTGGCAGTGCCACCAGAACAGATAATT
Found at i:20416828 original size:28 final size:28
Alignment explanation
Indices: 20416787--20416845 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
20416777 ACCCTAGGGT
*
20416787 TATAAAGGTCATTTTGCATACATAGAGG
1 TATAAAGGTAATTTTGCATACATAGAGG
* *
20416815 TATAATGGTAATTTTGCATACATAGGGG
1 TATAAAGGTAATTTTGCATACATAGAGG
20416843 TAT
1 TAT
20416846 TCTAGTAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.34, C:0.08, G:0.22, T:0.36
Consensus pattern (28 bp):
TATAAAGGTAATTTTGCATACATAGAGG
Found at i:20421144 original size:23 final size:23
Alignment explanation
Indices: 20421114--20421160 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
20421104 CGTCAATCCT
20421114 TGGCAGAGGGTACTTATTCTTAA
1 TGGCAGAGGGTACTTATTCTTAA
20421137 TGGCAGAGGGTACTTATTCTTAA
1 TGGCAGAGGGTACTTATTCTTAA
20421160 T
1 T
20421161 CGTTAGTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.36
Consensus pattern (23 bp):
TGGCAGAGGGTACTTATTCTTAA
Found at i:20424023 original size:19 final size:19
Alignment explanation
Indices: 20423995--20424035 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
20423985 TTCATCATAG
* *
20423995 TAAAATAAAATAATAAAAA
1 TAAAACAAAACAATAAAAA
*
20424014 TAAAACAAAACCATAAAAA
1 TAAAACAAAACAATAAAAA
20424033 TAA
1 TAA
20424036 TTAAAAGGCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.76, C:0.07, G:0.00, T:0.17
Consensus pattern (19 bp):
TAAAACAAAACAATAAAAA
Found at i:20424545 original size:28 final size:28
Alignment explanation
Indices: 20424494--20424584 Score: 121
Period size: 28 Copynumber: 3.2 Consensus size: 28
20424484 GTGACAGAGT
*
20424494 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
* *
20424523 CACCAGAACAGATAATTTATGGCAGGGC
1 CACCAGAACAGATAATTTGTGGCAGTGC
*
20424551 CACCAGAACAGATTATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
20424579 CACCAG
1 CACCAG
20424585 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
28 48 0.87
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:20424737 original size:28 final size:28
Alignment explanation
Indices: 20424690--20424754 Score: 105
Period size: 28 Copynumber: 2.3 Consensus size: 28
20424680 AAATTAACCC
*
20424690 TAGGGGTATAAATGTCATTTTGCATACA
1 TAGGGGTATAAATGTAATTTTGCATACA
20424718 TAGGGGTAT-AATGGTAATTTTGCATACA
1 TAGGGGTATAAAT-GTAATTTTGCATACA
20424746 TAGGGGTAT
1 TAGGGGTAT
20424755 TCTAGTAAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 3 0.09
28 32 0.91
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
TAGGGGTATAAATGTAATTTTGCATACA
Found at i:20430470 original size:28 final size:28
Alignment explanation
Indices: 20430436--20430500 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
20430426 TCAGTGTACG
*
20430436 AAATATTGAGAATGGCACTTAATGTGCG
1 AAATATTGAGAATGGCACTTAATGTGCA
* *
20430464 AGATATTGAGAATGGCACTTAGTGTGCA
1 AAATATTGAGAATGGCACTTAATGTGCA
20430492 AAATATTGA
1 AAATATTGA
20430501 ATGATTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.37, C:0.09, G:0.25, T:0.29
Consensus pattern (28 bp):
AAATATTGAGAATGGCACTTAATGTGCA
Found at i:20430803 original size:40 final size:39
Alignment explanation
Indices: 20430573--20430795 Score: 313
Period size: 39 Copynumber: 5.7 Consensus size: 39
20430563 GACTTTATAA
* *
20430573 TGGTGTTATATCCAGGCTAAGTCCCGAAGGCATTCGTGT
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
** *
20430612 TGGTGTTATATCCGGGCTAAGTCTTGAAGGCATTCATGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
*
20430651 TGGTGTTATATTCGGGCTAAGTCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
20430690 TGGTGTTATATCTGGGCTAAGGCCCGAAGGCATTCGTGC
1 TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
* *
20430729 TGGTGTTATATCCGGGCTAAAGTCCCGCAGGCTTTC-TGC
1 TGGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGC
*
20430768 TGGTATTATATCCGGGCTTAAAGTCCCG
1 TGGTGTTATATCCGGGC-T-AAGTCCCG
20430796 CATGCTTTGT
Statistics
Matches: 165, Mismatches: 17, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 141 0.85
40 24 0.15
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (39 bp):
TGGTGTTATATCCGGGCTAAGTCCCGAAGGCATTCGTGC
Found at i:20432482 original size:22 final size:22
Alignment explanation
Indices: 20432454--20432496 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
20432444 TTGCCTTCTT
20432454 AATATTATAACTTCACCATAAC
1 AATATTATAACTTCACCATAAC
20432476 AATATTATAACTTCACCATAA
1 AATATTATAACTTCACCATAA
20432497 TACTTTTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.33
Consensus pattern (22 bp):
AATATTATAACTTCACCATAAC
Found at i:20434048 original size:17 final size:18
Alignment explanation
Indices: 20434028--20434063 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
20434018 TAAAAGAGTT
*
20434028 AATTAGG-ATTAAATTGA
1 AATTAGGTAATAAATTGA
20434045 AATTAGGTAATAAATTGA
1 AATTAGGTAATAAATTGA
20434063 A
1 A
20434064 TAAAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (18 bp):
AATTAGGTAATAAATTGA
Done.