Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 158 of 320
Found at i:52219299 original size:12 final size:12
Alignment explanation
Indices: 52219282--52219306 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52219272 TTATTCCAAA
52219282 TGATTAGGATGC
1 TGATTAGGATGC
52219294 TGATTAGGATGC
1 TGATTAGGATGC
52219306 T
1 T
52219307 ATGATCAGAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.32, T:0.36
Consensus pattern (12 bp):
TGATTAGGATGC
Found at i:52223072 original size:40 final size:39
Alignment explanation
Indices: 52223028--52223178 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 39
52223018 GGATATAACT
* *
52223028 ACTCGCTCAAATGCCTTCGGGACATAGCCCGG-TTAGAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT--AGTA
*
52223068 ACTCGCACAATTGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGA-TTAGTA
*
52223108 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTC
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTA
* ** *
52223147 ACTAGTGCAGATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
52223179 TTTTCATCCA
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 33 0.33
40 65 0.65
42 2 0.02
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTAGTA
Found at i:52229384 original size:42 final size:45
Alignment explanation
Indices: 52229324--52229623 Score: 260
Period size: 49 Copynumber: 6.6 Consensus size: 45
52229314 CGTTTTCTCA
** *
52229324 ATGCCATAGTTCAACTATGGTCTTACACAT-C-T-TCACATAAT-G
1 ATGCCATAGCCCAGCTATGGTCTTACACATACATATCACAT-ATCG
*
52229366 ATGCCATAGCCCAGCTATGGTCTTACACAT--AT-TCATATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACACATACATATCACATATCG
52229408 ATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACAC---AT-ACATATCACATATCG
*
52229457 ATGCCATAGCCCAGCTATGGTTTTACACGTAATCACATATCACATATCG
1 ATGCCATAGCCCAGCTATGGTCTTACAC---AT-ACATATCACATATCG
* * *
52229506 ATGCCATAGCCTAGCTATGGTCTTACACAAATCACATATCTCA-CT-G
1 ATGCCATAGCCCAGCTATGGTCTTACAC--AT-ACATATCACATATCG
* * * * *
52229552 ATGCCATATCCCAGATATGGTCTTATACAGTAGCATAT-ATCACACCG
1 ATGCCATAGCCCAGCTATGGTCTTACACA-TA-CATATCA-CATATCG
* *
52229599 ATGCCATATCCCAGATATGGTCTTA
1 ATGCCATAGCCCAGCTATGGTCTTA
52229624 TACGGAAATC
Statistics
Matches: 226, Mismatches: 18, Indels: 23
0.85 0.07 0.09
Matches are distributed among these distances:
41 2 0.01
42 62 0.27
44 2 0.01
45 10 0.04
46 25 0.11
47 27 0.12
48 15 0.07
49 83 0.37
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.29
Consensus pattern (45 bp):
ATGCCATAGCCCAGCTATGGTCTTACACATACATATCACATATCG
Found at i:52229464 original size:49 final size:49
Alignment explanation
Indices: 52229391--52229623 Score: 280
Period size: 49 Copynumber: 4.8 Consensus size: 49
52229381 TATGGTCTTA
*
52229391 CACATATTCATATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
1 CACATA-TCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
*
52229441 CACATATCACATATCGATGCCATAGCCCAGCTATGGTTTTACACGTAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* *
52229490 CACATATCACATATCGATGCCATAGCCTAGCTATGGTCTTACAC-AAAT
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
* * * * * *
52229538 CACATATCTCA-CT-GATGCCATATCCCAGATATGGTCTTATACAGT-AG
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACAC-GTAAT
* * * *
52229585 CATATATCAC--ACCGATGCCATATCCCAGATATGGTCTTA
1 CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTA
52229624 TACGGAAATC
Statistics
Matches: 163, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
46 25 0.15
47 36 0.22
48 13 0.08
49 83 0.51
50 6 0.04
ACGTcount: A:0.31, C:0.27, G:0.14, T:0.29
Consensus pattern (49 bp):
CACATATCACATATCGATGCCATAGCCCAGCTATGGTCTTACACGTAAT
Found at i:52229633 original size:95 final size:97
Alignment explanation
Indices: 52229406--52229644 Score: 274
Period size: 95 Copynumber: 2.5 Consensus size: 97
52229396 ATTCATATAT
*
52229406 CGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATATCACATATCGATGCCATAGCCCAG
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACATATCGATGCCATAGCCCAG
* * *
52229471 CTATGGTTTTACACGTAATCACATATCACATAT
66 ATATGGTTTTACACGTAAGCACATATCACA-AC
* * * *
52229504 CGATGCCATAGCCTAGCTATGGTCTTACAC-AAATCACATATCTCA-CT-GATGCCATATCCCAG
1 CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACATATCGATGCCATAGCCCAG
*
52229566 ATATGGTCTTATACA-GT-AGCATATATCAC-AC
66 ATATGGT-TT-TACACGTAAGCACATATCACAAC
* * * * *
52229597 CGATGCCATATCCCAGATATGGTCTTATACGGAAATCACTTGTCACAT
1 CGATGCCATAGCCCAGCTATGGTCTTACAC-GAAATCACATATCACAT
52229645 GTAGTTGAAG
Statistics
Matches: 120, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
93 27 0.22
95 42 0.35
96 5 0.04
97 17 0.14
98 29 0.24
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.28
Consensus pattern (97 bp):
CGATGCCATAGCCCAGCTATGGTCTTACACGAAATCACATATCACATATCGATGCCATAGCCCAG
ATATGGTTTTACACGTAAGCACATATCACAAC
Found at i:52229688 original size:31 final size:31
Alignment explanation
Indices: 52229651--52229762 Score: 179
Period size: 31 Copynumber: 3.6 Consensus size: 31
52229641 ACATGTAGTT
*
52229651 GAAGCTACCACTATTCACTGATCAGGTAGCC
1 GAAGCTACCACTTTTCACTGATCAGGTAGCC
* * *
52229682 GGAGCTACCATTTTTCGCTGATCAGGTAGCC
1 GAAGCTACCACTTTTCACTGATCAGGTAGCC
*
52229713 GAAGCTACCACTTTTCACTGATCAGGTAGCA
1 GAAGCTACCACTTTTCACTGATCAGGTAGCC
52229744 GAAGCTACCACTTTTCACT
1 GAAGCTACCACTTTTCACT
52229763 TGTCATTTGT
Statistics
Matches: 73, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 73 1.00
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.27
Consensus pattern (31 bp):
GAAGCTACCACTTTTCACTGATCAGGTAGCC
Found at i:52229829 original size:50 final size:50
Alignment explanation
Indices: 52229738--52229914 Score: 239
Period size: 50 Copynumber: 3.5 Consensus size: 50
52229728 CACTGATCAG
* ** * *
52229738 GTAGCAGAAGCTACCACTTTTCACTTGTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCTTTCACTTATCACTT-TCAGTTGTCCTTGATCAGATAAGT
* * *
52229789 GTAGTCGAAGCTTTCACTTATCATTTTCAGTTGTCCTTGATCAAATAAGT
1 GTAGCCGAAGCTTTCACTTATCACTTTCAGTTGTCCTTGATCAGATAAGT
*
52229839 GTAGCCGAAGCTATT-ACTTATCACTTTCATTTGTCCTTGATCAGATAAGT
1 GTAGCCGAAGCT-TTCACTTATCACTTTCAGTTGTCCTTGATCAGATAAGT
*
52229889 GTAGCCGAAGCTATCACTTATCACTT
1 GTAGCCGAAGCTTTCACTTATCACTT
52229915 GTTGCCATGG
Statistics
Matches: 111, Mismatches: 13, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
49 1 0.01
50 88 0.79
51 22 0.20
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (50 bp):
GTAGCCGAAGCTTTCACTTATCACTTTCAGTTGTCCTTGATCAGATAAGT
Found at i:52240540 original size:20 final size:21
Alignment explanation
Indices: 52240508--52240547 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
52240498 TGGGGAAATT
52240508 CAAAATAAATAAT-AATAAAA
1 CAAAATAAATAATAAATAAAA
52240528 CAAAA-AAAGTAATAAATAAA
1 CAAAATAAA-TAATAAATAAA
52240548 TAAATCAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.17
20 9 0.50
21 6 0.33
ACGTcount: A:0.75, C:0.05, G:0.03, T:0.17
Consensus pattern (21 bp):
CAAAATAAATAATAAATAAAA
Found at i:52243243 original size:1 final size:1
Alignment explanation
Indices: 52243237--52243304 Score: 64
Period size: 1 Copynumber: 68.0 Consensus size: 1
52243227 AACTGAATGC
* * * * * * * *
52243237 AAAAAAAAAAAAAAAAAAACAAAACAAAACAAAACAAAAAAACAAAAAAAAGAAAAAGAAAAACA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
52243302 AAA
1 AAA
52243305 CATCATTGAA
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:52243284 original size:34 final size:34
Alignment explanation
Indices: 52243236--52243306 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 34
52243226 AAACTGAATG
*
52243236 CAAAAAAAAAAAAAAAA-AAACAAAACAAAACAAAA
1 CAAAAAAAAAAAAAAAAGAAA-AAGA-AAAACAAAA
*
52243271 CAAAAAAACAAAAAAAAGAAAAAGAAAAACAAAA
1 CAAAAAAAAAAAAAAAAGAAAAAGAAAAACAAAA
52243305 CA
1 CA
52243307 TCATTGAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
34 11 0.33
35 19 0.58
36 3 0.09
ACGTcount: A:0.86, C:0.11, G:0.03, T:0.00
Consensus pattern (34 bp):
CAAAAAAAAAAAAAAAAGAAAAAGAAAAACAAAA
Found at i:52251394 original size:11 final size:11
Alignment explanation
Indices: 52251378--52251415 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
52251368 ATATTAAAAG
52251378 ATATATACATA
1 ATATATACATA
52251389 ATATATA-A-A
1 ATATATACATA
*
52251398 ATGTATACATA
1 ATATATACATA
52251409 ATATATA
1 ATATATA
52251416 GAAAATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
9 7 0.30
10 2 0.09
11 14 0.61
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (11 bp):
ATATATACATA
Found at i:52251394 original size:38 final size:39
Alignment explanation
Indices: 52251298--52251395 Score: 94
Period size: 38 Copynumber: 2.5 Consensus size: 39
52251288 AGGAGTAGTG
* * *
52251298 AAGATATATACATGAGATA-ATATAAAAAATATAGTATTCA
1 AAGATATATACAT-A-ATATATATAAAAAATACAATATTAA
* ** *
52251338 AA-ATATGTACATGGTATATAT-AAAAGTACAATATTAA
1 AAGATATATACATAATATATATAAAAAATACAATATTAA
52251375 AAGATATATACATAATATATA
1 AAGATATATACATAATATATA
52251396 AAATGTATAC
Statistics
Matches: 46, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
37 16 0.35
38 19 0.41
39 9 0.20
40 2 0.04
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.32
Consensus pattern (39 bp):
AAGATATATACATAATATATATAAAAAATACAATATTAA
Found at i:52251424 original size:20 final size:20
Alignment explanation
Indices: 52251380--52251451 Score: 67
Period size: 20 Copynumber: 3.5 Consensus size: 20
52251370 ATTAAAAGAT
52251380 ATATACATAATATATA-AAA
1 ATATACATAATATATAGAAA
*
52251399 TGTATACATAATATATAGAAA
1 -ATATACATAATATATAGAAA
* * *
52251420 ATATA-ATATTTAAAAAGAATA
1 ATATACATA-ATATATAGAA-A
52251441 ATATACATAAT
1 ATATACATAAT
52251452 GCAAGAATAT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 3 0.07
20 26 0.62
21 10 0.24
22 3 0.07
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.33
Consensus pattern (20 bp):
ATATACATAATATATAGAAA
Found at i:52251870 original size:22 final size:22
Alignment explanation
Indices: 52251842--52251887 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
52251832 ATAATATTAG
52251842 AATAATAATAACAATATTTAAT
1 AATAATAATAACAATATTTAAT
52251864 AATAATAATAACAATATTTAAT
1 AATAATAATAACAATATTTAAT
52251886 AA
1 AA
52251888 AGAAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (22 bp):
AATAATAATAACAATATTTAAT
Found at i:52251887 original size:19 final size:21
Alignment explanation
Indices: 52251834--52251883 Score: 75
Period size: 22 Copynumber: 2.4 Consensus size: 21
52251824 TAACATTAAT
*
52251834 AATA-TTAGAATAATAATAAC
1 AATATTTATAATAATAATAAC
52251854 AATATTTAATAATAATAATAAC
1 AATATTT-ATAATAATAATAAC
52251876 AATATTTA
1 AATATTTA
52251884 ATAAAGAAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 4 0.15
21 3 0.11
22 20 0.74
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (21 bp):
AATATTTATAATAATAATAAC
Found at i:52253868 original size:13 final size:13
Alignment explanation
Indices: 52253852--52253876 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52253842 GAAATTAAAG
52253852 ACAGAATTTGAAC
1 ACAGAATTTGAAC
52253865 ACAGAATTTGAA
1 ACAGAATTTGAA
52253877 AATACCTCAG
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:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (13 bp):
ACAGAATTTGAAC
Found at i:52253991 original size:74 final size:73
Alignment explanation
Indices: 52253875--52254242 Score: 258
Period size: 75 Copynumber: 4.8 Consensus size: 73
52253865 ACAGAATTTG
* *
52253875 AAAATACCTCAGCATGTGACCTGAGGCCCCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAA
1 AAAATACCTCAG--TGT-ACCTGAAG-CTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAA
*
52253940 AAGTAAAAATTA
62 AAGCAAAAATTA
* * *
52253952 AAAATACCTCAACGTGT-CTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
1 AAAATACCTC-A-GTGTACCTGAAGCTCAACTCACTTCTCGCAATATGAGTTGA-TTTTTTGAAA
* *
52254016 AGCAGAAATTG
63 AGCAAAAATTA
* * * * *
52254027 AAAATTCCTCAGTGTACCCTGAAGTTCAACTCATTTCTTGCAATATGAGTTGATTTTTTTTTAAA
1 AAAATACCTCAGTGTA-CCTGAAGCTCAACTCACTTCTCGCAATATGAGTTGA---TTTTTTGAA
*
52254092 GAATTTGCAAAACAAACTTTG
62 -AA---GC--AA-AAA--TTA
* * * * *
52254113 AAAATAACTCGGCATGTGGCCTGAGGCTCAACTCACGTCTCGCAATATGAGTTGATTTTTTG-AA
1 AAAATACCTCAG--TGT-ACCTGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAAA
* *
52254177 A-CATAAATTG
63 AGCAAAAATTA
* * * *
52254187 AAAATACCTTAACGTGT-CCTGAGGCTCATCTCACCTCTCGCAATATGAGTTGATTT
1 AAAATACC-TCA-GTGTACCTGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTT
52254243 CTGAAACTTA
Statistics
Matches: 239, Mismatches: 31, Indels: 47
0.75 0.10 0.15
Matches are distributed among these distances:
72 37 0.15
73 4 0.02
74 41 0.17
75 64 0.27
76 4 0.02
77 23 0.10
78 3 0.01
79 2 0.01
81 2 0.01
83 3 0.01
84 4 0.02
85 6 0.03
86 12 0.05
88 34 0.14
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (73 bp):
AAAATACCTCAGTGTACCTGAAGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTTGAAAAGC
AAAAATTA
Found at i:52254269 original size:14 final size:14
Alignment explanation
Indices: 52254252--52254283 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
52254242 TCTGAAACTT
*
52254252 AAAAGCAGAAATTG
1 AAAAGAAGAAATTG
52254266 AAAAGAAGAAATTG
1 AAAAGAAGAAATTG
52254280 AAAA
1 AAAA
52254284 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.66, C:0.03, G:0.19, T:0.12
Consensus pattern (14 bp):
AAAAGAAGAAATTG
Found at i:52266758 original size:36 final size:37
Alignment explanation
Indices: 52266699--52266799 Score: 87
Period size: 37 Copynumber: 2.6 Consensus size: 37
52266689 AGGAGTAGTG
* * * *
52266699 AAGATATATATATGAGATAATATAAAAAATATAGTATTCA
1 AAGATATATACAT-A-AT-ATATAAAAAATACAATATTAA
* * *
52266739 AA-ATATGTACATGATATATATAAAAGTACAATATTAA
1 AAGATATATACATAATATATA-AAAAATACAATATTAA
*
52266776 AAGATATATACGTAATATATAAAA
1 AAGATATATACATAATATATAAAA
52266800 TGTATACATA
Statistics
Matches: 49, Mismatches: 10, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
36 5 0.10
37 19 0.39
38 15 0.31
39 8 0.16
40 2 0.04
ACGTcount: A:0.55, C:0.04, G:0.09, T:0.32
Consensus pattern (37 bp):
AAGATATATACATAATATATAAAAAATACAATATTAA
Found at i:52267746 original size:19 final size:20
Alignment explanation
Indices: 52267711--52267749 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
52267701 AAGAAAACAA
52267711 AAGAGAGAAGAAGGGAGAGG
1 AAGAGAGAAGAAGGGAGAGG
*
52267731 AAGAGAG-AGGAGGGAGAGG
1 AAGAGAGAAGAAGGGAGAGG
52267750 GGAAAGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (20 bp):
AAGAGAGAAGAAGGGAGAGG
Found at i:52269646 original size:21 final size:21
Alignment explanation
Indices: 52269613--52269661 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
52269603 AAAGCGAAAT
52269613 AAATAAATAAATAAATAAAAG
1 AAATAAATAAATAAATAAAAG
**
52269634 AAATGAAAT-AATAAATAAATC
1 AAAT-AAATAAATAAATAAAAG
52269655 AAATAAA
1 AAATAAA
52269662 ATGTAATAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 3 0.12
21 18 0.72
22 4 0.16
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (21 bp):
AAATAAATAAATAAATAAAAG
Found at i:52269658 original size:5 final size:4
Alignment explanation
Indices: 52269609--52269661 Score: 63
Period size: 4 Copynumber: 12.8 Consensus size: 4
52269599 ATAGAAAGCG
*
52269609 AAAT AAAT AAAT AAAT AAAT AAAAG AAAT GAAAT -AAT AAAT AAAT CAAAT
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT -AAAT AAAT AAAT AAAT -AAAT
52269659 AAA
1 AAA
52269662 ATGTAATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 3 0.07
4 29 0.67
5 11 0.26
ACGTcount: A:0.74, C:0.02, G:0.04, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:52273386 original size:32 final size:31
Alignment explanation
Indices: 52273342--52273405 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 31
52273332 ACAAATTTCT
* * *
52273342 TTAATTAGTATGAGTTATCAAATTAAATTAA
1 TTAATTAGTATGAATAATCAAATTAAAGTAA
* *
52273373 TTAATTTATTATGAATAATTAAATTAAAGTAA
1 TTAA-TTAGTATGAATAATCAAATTAAAGTAA
52273405 T
1 T
52273406 CACTTATAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.44
Consensus pattern (31 bp):
TTAATTAGTATGAATAATCAAATTAAAGTAA
Found at i:52279859 original size:16 final size:16
Alignment explanation
Indices: 52279838--52279896 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
52279828 ATGAATTGAC
*
52279838 AAAAGCTGAAATGCCG
1 AAAAGCCGAAATGCCG
*
52279854 AAAAGCCGAAAAGCCG
1 AAAAGCCGAAATGCCG
** * *
52279870 AAAAGTTGAAATGTCA
1 AAAAGCCGAAATGCCG
52279886 AAAAGCCGAAA
1 AAAAGCCGAAA
52279897 GTTGGGCTAC
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.51, C:0.17, G:0.22, T:0.10
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:52279861 original size:8 final size:8
Alignment explanation
Indices: 52279838--52279874 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
52279828 ATGAATTGAC
*
52279838 AAAAGCTG
1 AAAAGCCG
*
52279846 AAATGCCG
1 AAAAGCCG
52279854 AAAAGCCG
1 AAAAGCCG
52279862 AAAAGCCG
1 AAAAGCCG
52279870 AAAAG
1 AAAAG
52279875 TTGAAATGTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.51, C:0.19, G:0.24, T:0.05
Consensus pattern (8 bp):
AAAAGCCG
Found at i:52279880 original size:24 final size:23
Alignment explanation
Indices: 52279853--52279900 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
52279843 CTGAAATGCC
*
52279853 GAAAAGCCGAAAAGCCGAAAAGTT
1 GAAAAGCCAAAAAGCCG-AAAGTT
* *
52279877 GAAATGTCAAAAAGCCGAAAGTT
1 GAAAAGCCAAAAAGCCGAAAGTT
52279900 G
1 G
52279901 GGCTACGGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.48, C:0.15, G:0.25, T:0.12
Consensus pattern (23 bp):
GAAAAGCCAAAAAGCCGAAAGTT
Found at i:52280025 original size:19 final size:19
Alignment explanation
Indices: 52279993--52280030 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
52279983 ACTTAGGTTG
*
52279993 AGAATTGGCCAAATGGGCC
1 AGAATGGGCCAAATGGGCC
*
52280012 AGAATGGGCTAAATGGGCC
1 AGAATGGGCCAAATGGGCC
52280031 TGATAGGCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.18, G:0.34, T:0.16
Consensus pattern (19 bp):
AGAATGGGCCAAATGGGCC
Found at i:52280153 original size:29 final size:29
Alignment explanation
Indices: 52280107--52280214 Score: 105
Period size: 29 Copynumber: 3.8 Consensus size: 29
52280097 TGTGAGCATG
*
52280107 AATAT-AATATGATTTGGGCCTAATGGGC
1 AATATGAATATGAATTGGGCCTAATGGGC
* *
52280135 AATATGAATGTGAATTGGGCCTAGTGGGC
1 AATATGAATATGAATTGGGCCTAATGGGC
* * *
52280164 CATAAGAATATGAACTGGGCC-AGATGGGC
1 AATATGAATATGAATTGGGCCTA-ATGGGC
* * *
52280193 CATTTGAATAAG-ATTGGGCCTA
1 AATATGAATATGAATTGGGCCTA
52280215 GTAGGCCATA
Statistics
Matches: 65, Mismatches: 12, Indels: 5
0.79 0.15 0.06
Matches are distributed among these distances:
28 13 0.20
29 52 0.80
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (29 bp):
AATATGAATATGAATTGGGCCTAATGGGC
Found at i:52280175 original size:58 final size:57
Alignment explanation
Indices: 52280112--52280224 Score: 138
Period size: 58 Copynumber: 2.0 Consensus size: 57
52280102 GCATGAATAT
** ** *
52280112 AATATGATTTGGGCCTA-ATGGGCAATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCAATATGAATAAG-ATTGGGCCTAGTAGGCCATAAG
* *
52280170 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTAGGCCATA
1 AATATGAACTGGGCCAGATGGGCAATATGAATAAGATTGGGCCTAGTAGGCCATA
52280225 TGCATGTATG
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 20 0.43
58 27 0.57
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCAATATGAATAAGATTGGGCCTAGTAGGCCATAAG
Found at i:52284643 original size:29 final size:29
Alignment explanation
Indices: 52284610--52284689 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 29
52284600 ATATGATTTG
* *
52284610 GGCCTAATGGGCCATATGAATGTGAATTA
1 GGCCTAATGGGCCATATGAATATGAACTA
* * *
52284639 GGCCTAGTGGGCCATAAGAATATGAACTG
1 GGCCTAATGGGCCATATGAATATGAACTA
* * *
52284668 GGCCAAATAGGCCATTTGAATA
1 GGCCTAATGGGCCATATGAATA
52284690 AGATTGGGCC
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (29 bp):
GGCCTAATGGGCCATATGAATATGAACTA
Found at i:52284688 original size:58 final size:57
Alignment explanation
Indices: 52284599--52284711 Score: 136
Period size: 58 Copynumber: 2.0 Consensus size: 57
52284589 GCATGAATAT
** * * ** *
52284599 AATATGATTTGGGCCTAATGGGCCATATGAATGTGAATTAGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCCAAATAGGCCATATGAATAAG-ATTAGGCCTAGTAGGCCATAAG
* *
52284657 AATATGAACTGGGCCAAATAGGCCATTTGAATAAGATTGGGCCTAGTAGGCCATA
1 AATATGAACTGGGCCAAATAGGCCATATGAATAAGATTAGGCCTAGTAGGCCATA
52284712 TGCATGTATG
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
57 18 0.39
58 28 0.61
ACGTcount: A:0.32, C:0.15, G:0.27, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAAATAGGCCATATGAATAAGATTAGGCCTAGTAGGCCATAAG
Found at i:52289049 original size:12 final size:12
Alignment explanation
Indices: 52289032--52289056 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52289022 GTTTGGCACA
52289032 ACCTAGCACACG
1 ACCTAGCACACG
52289044 ACCTAGCACACG
1 ACCTAGCACACG
52289056 A
1 A
52289057 GCGTGTGTGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.40, G:0.16, T:0.08
Consensus pattern (12 bp):
ACCTAGCACACG
Found at i:52295909 original size:6 final size:6
Alignment explanation
Indices: 52295843--52295895 Score: 106
Period size: 6 Copynumber: 8.8 Consensus size: 6
52295833 AGGAAAAGAA
52295843 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT
52295891 AAATA
1 AAATA
52295896 AACATAAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AAATAT
Found at i:52297515 original size:4 final size:4
Alignment explanation
Indices: 52297506--52297532 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
52297496 TAGAAAACAA
52297506 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
52297533 GAATAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:52297565 original size:19 final size:19
Alignment explanation
Indices: 52297543--52297590 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
52297533 GAATAATGAT
* *
52297543 AATAATATTAATTAATAGA
1 AATAATATTAAATAAAAGA
* *
52297562 AATAGTAATAAATAAAAGA
1 AATAATATTAAATAAAAGA
*
52297581 AATAAAATTA
1 AATAATATTA
52297591 TCTAAATAAG
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (19 bp):
AATAATATTAAATAAAAGA
Found at i:52300806 original size:18 final size:20
Alignment explanation
Indices: 52300762--52300799 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
52300752 TCACACACGG
*
52300762 CCGTGTGGCTTGGGACACAC
1 CCGTGTGGCTTGAGACACAC
52300782 CCGTGTGGCTTGAGACAC
1 CCGTGTGGCTTGAGACAC
52300800 GCCTGTGCCC
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:0.16, C:0.29, G:0.34, T:0.21
Consensus pattern (20 bp):
CCGTGTGGCTTGAGACACAC
Found at i:52303214 original size:42 final size:43
Alignment explanation
Indices: 52303116--52303226 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 43
52303106 AACAAGTACA
* * ** *
52303116 ATGCCGACGTCCCGGACGTGGTCTTACATGTAATTCAATATCG
1 ATGCCGATGTCCCAGACAAGGTCTTACATGTAAATCAATATCG
** *
52303159 ATGCCTCTGTCCCAGGCAAGGTCTTACATG-AAATCAGATA-CG
1 ATGCCGATGTCCCAGACAAGGTCTTACATGTAAATCA-ATATCG
*
52303201 ATGCCGATGTCCCAGACATGGTCTTA
1 ATGCCGATGTCCCAGACAAGGTCTTA
52303227 TACATAAATC
Statistics
Matches: 55, Mismatches: 12, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
42 29 0.53
43 26 0.47
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (43 bp):
ATGCCGATGTCCCAGACAAGGTCTTACATGTAAATCAATATCG
Found at i:52306014 original size:22 final size:22
Alignment explanation
Indices: 52305989--52306031 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
52305979 AGTAAACAAA
* *
52305989 AATTGAAATTAAAATTAAAATT
1 AATTGAAATAAAAATAAAAATT
*
52306011 AATTGTAATAAAAATAAAAAT
1 AATTGAAATAAAAATAAAAAT
52306032 AAAAATGGAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (22 bp):
AATTGAAATAAAAATAAAAATT
Found at i:52312407 original size:23 final size:23
Alignment explanation
Indices: 52312381--52312443 Score: 81
Period size: 23 Copynumber: 2.7 Consensus size: 23
52312371 TATGATTATT
*
52312381 TATTTAAAATTATTATACCTTAA
1 TATTTAAAATTATTATAACTTAA
** * *
52312404 TATTTATTACTATCATAACTTAA
1 TATTTAAAATTATTATAACTTAA
52312427 TATTTAAAATTATTATA
1 TATTTAAAATTATTATA
52312444 TATTAAAATT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.43, C:0.08, G:0.00, T:0.49
Consensus pattern (23 bp):
TATTTAAAATTATTATAACTTAA
Found at i:52312449 original size:23 final size:23
Alignment explanation
Indices: 52312366--52312454 Score: 69
Period size: 23 Copynumber: 4.0 Consensus size: 23
52312356 TAAAATTTTA
*
52312366 AAAATTATGAT-TATT--TATTT
1 AAAATTATTATATATTAATATTT
**
52312386 AAAATTATTATACCTTAATATTT
1 AAAATTATTATATATTAATATTT
** * *
52312409 ATTACTATCATA-ACTTAATATTT
1 AAAATTATTATATA-TTAATATTT
*
52312432 AAAATTATTATATATTAAAATTT
1 AAAATTATTATATATTAATATTT
52312455 TAGGATTGCT
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
20 10 0.20
21 2 0.04
23 38 0.75
24 1 0.02
ACGTcount: A:0.44, C:0.06, G:0.01, T:0.49
Consensus pattern (23 bp):
AAAATTATTATATATTAATATTT
Found at i:52313119 original size:16 final size:15
Alignment explanation
Indices: 52313067--52313118 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
52313057 ATGTGAAAAA
52313067 TATTATTTAA-AATT
1 TATTATTTAATAATT
* *
52313081 TATTATTAAAATAATA
1 TATTATT-TAATAATT
*
52313097 AATTATATTAATAATT
1 TATTAT-TTAATAATT
52313113 TATTAT
1 TATTAT
52313119 AATAATTAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
14 7 0.24
15 2 0.07
16 19 0.66
17 1 0.03
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTATTTAATAATT
Found at i:52313124 original size:16 final size:16
Alignment explanation
Indices: 52313077--52313124 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
52313067 TATTATTTAA
52313077 AATTTATTATTAA-AAT
1 AATTTATTA-TAATAAT
** *
52313093 AATAAATTATATTAAT
1 AATTTATTATAATAAT
52313109 AATTTATTATAATAAT
1 AATTTATTATAATAAT
52313125 TAAATATGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
AATTTATTATAATAAT
Found at i:52313680 original size:21 final size:21
Alignment explanation
Indices: 52313635--52313700 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
52313625 GTTTTTGGTT
* *
52313635 TTTTGGAGAAGGATTGTTCTTTG
1 TTTTGGAGGAGG-TT-TTTTTTG
52313658 TTTTGGAGGAGGTTTTTTTTG
1 TTTTGGAGGAGGTTTTTTTTG
**
52313679 TTTT-TTGGAGGTGTTTTTTTG
1 TTTTGGAGGAGGT-TTTTTTTG
52313700 T
1 T
52313701 NNNNNNNNNN
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.16
21 19 0.50
22 2 0.05
23 11 0.29
ACGTcount: A:0.11, C:0.02, G:0.30, T:0.58
Consensus pattern (21 bp):
TTTTGGAGGAGGTTTTTTTTG
Found at i:52313684 original size:23 final size:23
Alignment explanation
Indices: 52313626--52313698 Score: 71
Period size: 23 Copynumber: 3.2 Consensus size: 23
52313616 TAGGGGTGGG
* *
52313626 TTTTTGGTTTTTTGGAGAAGGATT
1 TTTTTTGTTTTTTGGAGGAGG-TT
*
52313650 GTTCTTTG--TTTTGGAGGAGGTT
1 -TTTTTTGTTTTTTGGAGGAGGTT
*
52313672 TTTTTTGTTTTTTGGAGG-TGTT
1 TTTTTTGTTTTTTGGAGGAGGTT
52313694 TTTTT
1 TTTTT
52313699 GTNNNNNNNN
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
21 6 0.15
22 10 0.24
23 20 0.49
25 5 0.12
ACGTcount: A:0.10, C:0.01, G:0.29, T:0.60
Consensus pattern (23 bp):
TTTTTTGTTTTTTGGAGGAGGTT
Found at i:52339974 original size:40 final size:40
Alignment explanation
Indices: 52339869--52340051 Score: 273
Period size: 40 Copynumber: 4.6 Consensus size: 40
52339859 ACTACTTGCT
*
52339869 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
52339908 CAAATGCCTTC-GGACTTAGCCTGGATATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
52339947 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
52339987 CAAATGCCTTCGGGACTTAGCTC-GAAATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
52340027 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
52340052 TTATCATCCG
Statistics
Matches: 131, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
39 50 0.38
40 80 0.61
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:52339983 original size:79 final size:80
Alignment explanation
Indices: 52339869--52340051 Score: 282
Period size: 79 Copynumber: 2.3 Consensus size: 80
52339859 ACTACTTGCT
* *
52339869 CAAATGCCTTC-GGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTC-GGACTTAGCCTGG
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAG-CTCG
* * *
52339932 ATA-TAGTAATTCGCA
65 AAATTAGTAACTAGCA
52339947 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCTCGA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCTCGA
*
52340012 AATTAGTCACTAGCA
66 AATTAGTAACTAGCA
52340027 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
52340052 TTATCATCCG
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
78 11 0.11
79 43 0.45
80 42 0.44
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCTCGA
AATTAGTAACTAGCA
Found at i:52344479 original size:57 final size:58
Alignment explanation
Indices: 52344381--52344522 Score: 164
Period size: 57 Copynumber: 2.5 Consensus size: 58
52344371 TACCATATTA
* * *
52344381 TAGGATTACCAGTCCAGGCTAAATCCTTTATGTAACGTATGC-TCAGAAGAGCTTA-AT
1 TAGGATTACCAGTCCAGGCTAAATCCTATATGTAACATATGCTTCAGAAGA-ATTATAT
* * * *
52344438 TAGGATTACAAGTCCAGGCTAAATCCTA-ATTGTATCATATGCTTGAGAGGAATTATAT
1 TAGGATTACCAGTCCAGGCTAAATCCTATA-TGTAACATATGCTTCAGAAGAATTATAT
* *
52344496 CAGGATTACCCGTCCAGGCTAAATCCT
1 TAGGATTACCAGTCCAGGCTAAATCCT
52344523 TTCTATAACG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
56 1 0.01
57 39 0.54
58 32 0.44
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.30
Consensus pattern (58 bp):
TAGGATTACCAGTCCAGGCTAAATCCTATATGTAACATATGCTTCAGAAGAATTATAT
Found at i:52346525 original size:20 final size:20
Alignment explanation
Indices: 52346502--52346540 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
52346492 AAAATGAATA
*
52346502 GTAATTATTATGAATTATCC
1 GTAAATATTATGAATTATCC
*
52346522 GTAAATGTTATGAATTATC
1 GTAAATATTATGAATTATC
52346541 TAGTAATGCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.44
Consensus pattern (20 bp):
GTAAATATTATGAATTATCC
Found at i:52351734 original size:30 final size:30
Alignment explanation
Indices: 52351658--52351743 Score: 86
Period size: 30 Copynumber: 2.9 Consensus size: 30
52351648 TTCAACTCAC
* *
52351658 GAGCTAAACCTTAGCTCAACTTCAGCTTAG
1 GAGCTAAACCTTAGCTCAACTTTAGCTAAG
* * *
52351688 GAGTTTAACCTCAGCTCAACTTTAGCTCAAG
1 GAGCTAAACCTTAGCTCAACTTTAGCT-AAG
* *
52351719 G-GCTAAAGCTTAGCTC-ATTTTAGCT
1 GAGCTAAACCTTAGCTCAACTTTAGCT
52351744 TAAACCCGAT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
29 8 0.18
30 34 0.76
31 3 0.07
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (30 bp):
GAGCTAAACCTTAGCTCAACTTTAGCTAAG
Found at i:52354465 original size:47 final size:47
Alignment explanation
Indices: 52354387--52354585 Score: 272
Period size: 47 Copynumber: 4.2 Consensus size: 47
52354377 CCCTTCGGGA
* * * * * **
52354387 CTTATCACATTTATGCACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
* *
52354434 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
**
52354481 CTTATCACGCATATACACTTTCACATTCATCACATCGGCCATTAAGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
*
52354528 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAAGC
52354577 CTTATCACA
1 CTTATCACA
52354586 ATTTAGAATT
Statistics
Matches: 134, Mismatches: 16, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
47 90 0.67
49 44 0.33
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAAGC
Found at i:52354581 original size:96 final size:94
Alignment explanation
Indices: 52354402--52354584 Score: 276
Period size: 96 Copynumber: 1.9 Consensus size: 94
52354392 CACATTTATG
* ** *
52354402 CACTTTCACATCCATCACATTGGCCACTCGGCCCTGTCACATATATACACTTTCACATTCATCAC
1 CACTTTCACATCCATCACATCGGCCACTAAGCCCTATCACATATATACACTTTCACATTCATCAC
52354467 ATCGGCCATTAAGCCTTATCACGCATATA
66 ATCGGCCATTAAGCCTTATCACGCATATA
* * *
52354496 CACTTTCACATTCATCACATCGGCCATTAAGCCTTATCACATATATATACACTTTCACATTCATC
1 CACTTTCACATCCATCACATCGGCCACTAAGCCCTATCAC--ATATATACACTTTCACATTCATC
*
52354561 ACATCGGCCATTAGGCCTTATCAC
64 ACATCGGCCATTAAGCCTTATCAC
52354585 AATTTAGAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
94 33 0.42
96 46 0.58
ACGTcount: A:0.28, C:0.33, G:0.09, T:0.30
Consensus pattern (94 bp):
CACTTTCACATCCATCACATCGGCCACTAAGCCCTATCACATATATACACTTTCACATTCATCAC
ATCGGCCATTAAGCCTTATCACGCATATA
Found at i:52357076 original size:16 final size:16
Alignment explanation
Indices: 52357055--52357089 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
52357045 TATCATATTA
52357055 TATCATATTGTAAATG
1 TATCATATTGTAAATG
52357071 TATCATATTGTAAATG
1 TATCATATTGTAAATG
52357087 TAT
1 TAT
52357090 TTATGACATG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (16 bp):
TATCATATTGTAAATG
Found at i:52360365 original size:49 final size:48
Alignment explanation
Indices: 52360298--52360486 Score: 216
Period size: 49 Copynumber: 3.8 Consensus size: 48
52360288 GTAGACAGGG
* *
52360298 TTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA
1 TTATC-GGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAA
* * *
52360347 TTATACGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCAAA
1 TTAT-CGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGA-CCAA
* * * ** *
52360397 GTTATCGGGTACGCATCGTAGCCAACACTTAGTACTACACATACGACCAA
1 -TTATC-GGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAA
*
52360447 TTATCCGATACACGTAGTAGCCTGCACTTAGTACTACACA
1 TTAT-CGGTACACGTAGTAGCCTGCACTTAGTACTACACA
52360487 CGTAACCTCA
Statistics
Matches: 115, Mismatches: 20, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
49 71 0.62
50 9 0.08
51 35 0.30
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (48 bp):
TTATCGGTACACGTAGTAGCCTGCACTTAGTACTACACATGCGACCAA
Found at i:52360444 original size:100 final size:100
Alignment explanation
Indices: 52360297--52360489 Score: 323
Period size: 100 Copynumber: 1.9 Consensus size: 100
52360287 TGTAGACAGG
* ** * *
52360297 GTTATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATACGGTACACGT
1 GTTATCGGGTACGCATAGTAGCCAACACTTAGTACTACACATACGACCAATTATACGATACACGT
52360362 AGTAGCCTGCACTTAGTACTACACACGTGATCAAA
66 AGTAGCCTGCACTTAGTACTACACACGTGATCAAA
* *
52360397 GTTATCGGGTACGCATCGTAGCCAACACTTAGTACTACACATACGACCAATTATCCGATACACGT
1 GTTATCGGGTACGCATAGTAGCCAACACTTAGTACTACACATACGACCAATTATACGATACACGT
52360462 AGTAGCCTGCACTTAGTACTACACACGT
66 AGTAGCCTGCACTTAGTACTACACACGT
52360490 AACCTCACAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
100 86 1.00
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.25
Consensus pattern (100 bp):
GTTATCGGGTACGCATAGTAGCCAACACTTAGTACTACACATACGACCAATTATACGATACACGT
AGTAGCCTGCACTTAGTACTACACACGTGATCAAA
Found at i:52360780 original size:27 final size:27
Alignment explanation
Indices: 52360740--52360793 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
52360730 TCATACATCC
* *
52360740 CATGTAATAGTAATTTAACATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
**
52360767 CATGTAACAATAATTTGCCATTCAATT
1 CATGTAACAATAATTTAACATTCAATT
52360794 TCACATGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (27 bp):
CATGTAACAATAATTTAACATTCAATT
Found at i:52363289 original size:29 final size:27
Alignment explanation
Indices: 52363271--52363340 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
52363261 ATATTAAGTC
52363271 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
52363298 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
52363326 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
52363341 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:52363334 original size:28 final size:28
Alignment explanation
Indices: 52363271--52363368 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
52363261 ATATTAAGTC
*
52363271 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
52363298 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
52363326 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
52363355 CGCACACTTAGTGC
1 CGCACACTTAGTGC
52363369 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:52367299 original size:19 final size:20
Alignment explanation
Indices: 52367246--52367302 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 20
52367236 AGCTGGCCTT
52367246 TATTATGTATAATTATAATATAA
1 TATTATG-A-AATTA-AATATAA
*
52367269 TATTTAT-TAATTAAATA-AA
1 TA-TTATGAAATTAAATATAA
52367288 TATTATGAAATTAAA
1 TATTATGAAATTAAA
52367303 CTCAATGCAT
Statistics
Matches: 30, Mismatches: 2, Indels: 8
0.75 0.05 0.20
Matches are distributed among these distances:
18 4 0.13
19 11 0.37
20 4 0.13
21 5 0.17
23 2 0.07
24 4 0.13
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.46
Consensus pattern (20 bp):
TATTATGAAATTAAATATAA
Found at i:52367408 original size:11 final size:11
Alignment explanation
Indices: 52367380--52367420 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
52367370 GGAAGCATGC
* *
52367380 TCTTTTCTTTG
1 TCTTTTTTTTT
52367391 TCTTTTTTTTT
1 TCTTTTTTTTT
52367402 TCTTTTTTTTT
1 TCTTTTTTTTT
52367413 CTCTTTTT
1 -TCTTTTT
52367421 GTAACTCTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
11 20 0.74
12 7 0.26
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:52368312 original size:28 final size:28
Alignment explanation
Indices: 52368275--52368332 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
52368265 AATATGTATA
52368275 AATATAATTATCTAAATGCAGTTAATAT
1 AATATAATTATCTAAATGCAGTTAATAT
52368303 AATATAATTATCTAAATGCAGTTAATAT
1 AATATAATTATCTAAATGCAGTTAATAT
52368331 AA
1 AA
52368333 CATGTTTAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.38
Consensus pattern (28 bp):
AATATAATTATCTAAATGCAGTTAATAT
Found at i:52372405 original size:17 final size:18
Alignment explanation
Indices: 52372373--52372406 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52372363 TTGTCCTTTT
52372373 ATATAATGATTAATAAAG
1 ATATAATGATTAATAAAG
*
52372391 ATATGATGA-TAATAAA
1 ATATAATGATTAATAAA
52372407 ATTTGAACTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (18 bp):
ATATAATGATTAATAAAG
Found at i:52372500 original size:14 final size:14
Alignment explanation
Indices: 52372464--52372502 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
52372454 ATTTTATGTG
*
52372464 AATTTTTAATAAAT
1 AATTTTTATTAAAT
*
52372478 -ATATTTATTAAAT
1 AATTTTTATTAAAT
52372491 AATTTTTATTAA
1 AATTTTTATTAA
52372503 TATGTCATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
AATTTTTATTAAAT
Found at i:52373049 original size:15 final size:15
Alignment explanation
Indices: 52373033--52373062 Score: 51
Period size: 15 Copynumber: 1.9 Consensus size: 15
52373023 TAGTTATGTT
52373033 AATTAATTTTAATTTA
1 AATT-ATTTTAATTTA
52373049 AATTATTTTAATTT
1 AATTATTTTAATTT
52373063 GAACAGTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTATTTTAATTTA
Found at i:52378359 original size:33 final size:32
Alignment explanation
Indices: 52378288--52378366 Score: 106
Period size: 32 Copynumber: 2.4 Consensus size: 32
52378278 TTTTCCCGTT
*
52378288 GATTTCTTCATCGCCAAACCCCCTTCCCCATC
1 GATTTCTTCATCTCCAAACCCCCTTCCCCATC
* *
52378320 GATTTCTTCATCTTCAAACCCCTCTTCCCCGTC
1 GATTTCTTCATCTCCAAACCCC-CTTCCCCATC
52378353 -ATTTTCTTCATCTC
1 GA-TTTCTTCATCTC
52378367 TGAACACTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
32 21 0.51
33 20 0.49
ACGTcount: A:0.16, C:0.42, G:0.05, T:0.37
Consensus pattern (32 bp):
GATTTCTTCATCTCCAAACCCCCTTCCCCATC
Found at i:52386253 original size:45 final size:45
Alignment explanation
Indices: 52386189--52386408 Score: 322
Period size: 45 Copynumber: 5.0 Consensus size: 45
52386179 TATCGTACAG
* *
52386189 TACTATTCGGGCCTTTGAGCCTAGCAGGCTATAGTGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* * * *
52386234 TACTATTCGGACCTTTGAGCCTAGCAGACTATAATGCCAGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
52386279 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
* *
52386324 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAA
1 TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
*
52386369 TGA-TA-TCGGG-CTTCGAGCCTAGCAGGCGA-AATGCCGGTGA
1 T-ACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGA
52386409 ATGAATTCGG
Statistics
Matches: 162, Mismatches: 12, Indels: 5
0.91 0.07 0.03
Matches are distributed among these distances:
42 10 0.06
43 18 0.11
44 5 0.03
45 128 0.79
46 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (45 bp):
TACTATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAGA
Found at i:52388130 original size:48 final size:48
Alignment explanation
Indices: 52388074--52388546 Score: 411
Period size: 48 Copynumber: 9.9 Consensus size: 48
52388064 GTGAATTACT
* * * *
52388074 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACATGTCGAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * *
52388122 AATGCCATGTCCCAGACATGGTCTTACACTAGCGCACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * *
52388170 GATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAAT-GTGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCGAGGCC
* * * * *
52388218 GATGCTATGTCCTAGACATTGTCTTACACTAG-TGCACATATCAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCT-CACATATCGAGGCC
* * * * *
52388266 GAT-CCATGTCCCAGACATGGCCTTACACTGGCTCTCATAAT--ATTGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACAT-ATCGA-GGCC
* * * * *
52388313 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTA-ATATCGTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC-ACATATCGAGGCC
* * * * *
52388361 GATGCGATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCC
* * * * * * *
52388409 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCACAAC-ATCGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGA-GGCC
* * * * * * *
52388457 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTGTGACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCC
* *
52388505 GATGCCTTGTCCCAGACATGGTCTTACACTAGCGCACATATC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATC
52388547 ACCTAAATGT
Statistics
Matches: 339, Mismatches: 73, Indels: 26
0.77 0.17 0.06
Matches are distributed among these distances:
46 1 0.00
47 40 0.12
48 296 0.87
49 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCTCACATATCGAGGCC
Found at i:52388242 original size:96 final size:97
Alignment explanation
Indices: 52388074--52388547 Score: 473
Period size: 96 Copynumber: 4.9 Consensus size: 97
52388064 GTGAATTACT
* * * * * * **
52388074 GATGCCATGTTCCAAACATGGTCTTACACTAGCTCACAT-GTCGAGGCTAATGCCATGTCCCAGA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-GTGGCCGATGCCATGTCCCAGA
52388138 CATGGTCTTACACTAGCGCACATATCAAT-GCC
65 CATGGTCTTACACTAGCGCACATATCAATCGCC
* * *
52388170 GATGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAATGTGGCCGATGCTATGTCCTAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGAC
* *
52388235 ATTGTCTTACACTAGTGCACATATCAAT-GCC
66 ATGGTCTTACACTAGCGCACATATCAATCGCC
* * * * * *
52388266 GAT-CCATGTCCCAGACATGGCCTTACACTGGCTCTCATAATATTGTCGATGCCATGTTCCAAAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGAC
* * * * *
52388330 ATGGTCTTACACTGGCTCTA-ATATC-GTGGCT
66 ATGGTCTTACACTAGCGC-ACATATCAATCGCC
* * * *
52388361 GATGCGATGTCCCAGACATGGTCTTACACTAGCACACATATCAATGT---CGATGCCATGTCCCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTGGCCGATGCCATGTCCCA
* * * * * * *
52388423 AACATGGTCTTACACTGGCTCTCACAAC-ATCGTC
63 GACATGGTCTTACACTAGCGCACATATCAATCGCC
* * * * *
52388457 GATGCCATGTTCCAAACATGGTCTTACACTGGCTCTCATATTGTGACCGATGCCTTGTCCCAGAC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGAC
52388522 ATGGTCTTACACTAGCGCACATATCA
66 ATGGTCTTACACTAGCGCACATATCA
52388548 CCTAAATGTC
Statistics
Matches: 310, Mismatches: 56, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
93 4 0.01
94 3 0.01
95 76 0.25
96 220 0.71
97 1 0.00
98 2 0.01
99 4 0.01
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (97 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCCATGTCCCAGAC
ATGGTCTTACACTAGCGCACATATCAATCGCC
Found at i:52391875 original size:34 final size:34
Alignment explanation
Indices: 52391836--52391910 Score: 150
Period size: 34 Copynumber: 2.2 Consensus size: 34
52391826 CGTAGCAAGG
52391836 AGATAGTACACTTTAGGCATTCATCGGGTGTGCA
1 AGATAGTACACTTTAGGCATTCATCGGGTGTGCA
52391870 AGATAGTACACTTTAGGCATTCATCGGGTGTGCA
1 AGATAGTACACTTTAGGCATTCATCGGGTGTGCA
52391904 AGATAGT
1 AGATAGT
52391911 TCATCGAGTA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 41 1.00
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.29
Consensus pattern (34 bp):
AGATAGTACACTTTAGGCATTCATCGGGTGTGCA
Found at i:52393853 original size:40 final size:40
Alignment explanation
Indices: 52393779--52394000 Score: 385
Period size: 40 Copynumber: 5.6 Consensus size: 40
52393769 AACCCAAGTA
* *
52393779 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
52393818 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52393858 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52393898 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
52393938 CCTTCGAGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
52393978 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
52394001 CATTCGAATA
Statistics
Matches: 175, Mismatches: 6, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
39 12 0.07
40 162 0.93
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:52397825 original size:46 final size:48
Alignment explanation
Indices: 52397718--52397987 Score: 284
Period size: 46 Copynumber: 5.7 Consensus size: 48
52397708 TTTGTGCGCT
* * * * *
52397718 AGTGTAAGGCATGTCTGGGACATGGCATCGGCATTGAGACG-AGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
*
52397765 AGTGTAAGACATGTCTGGGACAT-GCATTGGCCTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
* *
52397811 AGTGTAAGACATGTCTGGGACAT-GTATCGGACTCGAGATGTA-AGCC
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
* *** * *
52397857 AGTGTAAGACATGTCTGGGACATGGCATTGGCGAGGATATGTGAGAGCT
1 AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGT-AGAGCC
* * * *
52397906 AGTGTAAGACCGTGTCTGGGACATGGCGTCGGCCTCGA-AT-TCAATAGTC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGCCTCGAGATGT--AGAGCC
52397955 AGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 AGTGTAAGA-CATGTCTGGGACATGGCATCGGC
52397988 ATTATACCCT
Statistics
Matches: 188, Mismatches: 29, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
46 82 0.44
47 34 0.18
48 2 0.01
49 48 0.26
50 22 0.12
ACGTcount: A:0.26, C:0.18, G:0.33, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACATGTCTGGGACATGGCATCGGCCTCGAGATGTAGAGCC
Found at i:52398350 original size:27 final size:26
Alignment explanation
Indices: 52398295--52398350 Score: 60
Period size: 26 Copynumber: 2.1 Consensus size: 26
52398285 AACCTTAACA
* *
52398295 CTAGGGGTATATCAGTAATTTTACTC
1 CTAGGGGTAAATCAGTAATTTTACAC
*
52398321 CTAGGGGTAAATCTA-TAAATTTTCCAC
1 CTAGGGGTAAATC-AGT-AATTTTACAC
52398348 CTA
1 CTA
52398351 TAAAGGTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (26 bp):
CTAGGGGTAAATCAGTAATTTTACAC
Found at i:52426177 original size:15 final size:15
Alignment explanation
Indices: 52426144--52426189 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
52426134 AAAGAGATTG
* *
52426144 AAAAAGAAATGAAAGA
1 AAAAAAAAAAGAAA-A
52426160 AAACAAAAAAAGAAAA
1 AAA-AAAAAAAGAAAA
52426176 AAAAAAAAAAGAAA
1 AAAAAAAAAAGAAA
52426190 TTGCAAAGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 11 0.41
16 7 0.26
17 9 0.33
ACGTcount: A:0.85, C:0.02, G:0.11, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAAGAAAA
Found at i:52426214 original size:17 final size:17
Alignment explanation
Indices: 52426176--52426214 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
52426166 AAAAAGAAAA
* *
52426176 AAAAAAAAAAGAAATTG
1 AAAAGAAAAAGAAATCG
*
52426193 CAAAGAAAAAGAAATCG
1 AAAAGAAAAAGAAATCG
52426210 AAAAG
1 AAAAG
52426215 TGAGAGAAAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.15, T:0.08
Consensus pattern (17 bp):
AAAAGAAAAAGAAATCG
Found at i:52426241 original size:14 final size:13
Alignment explanation
Indices: 52426220--52426257 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
52426210 AAAAGTGAGA
52426220 GAAAAAGAAAA-T
1 GAAAAAGAAAATT
52426232 GAAGAAAAGAAAATT
1 G-A-AAAAGAAAATT
52426247 GAAAAAGAAAA
1 GAAAAAGAAAA
52426258 AGCGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 1 0.04
13 10 0.43
14 10 0.43
15 2 0.09
ACGTcount: A:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (13 bp):
GAAAAAGAAAATT
Found at i:52426271 original size:21 final size:21
Alignment explanation
Indices: 52426221--52426271 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
52426211 AAAGTGAGAG
*
52426221 AAAAAGAAAATGAAGAAAAGA
1 AAAAAGAAAAAGAAGAAAAGA
** *
52426242 AAATTGAAAAAGAA-AAAGCGA
1 AAAAAGAAAAAGAAGAAA-AGA
52426263 AAAAAGAAA
1 AAAAAGAAA
52426272 TTGAAAGAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.06
Consensus pattern (21 bp):
AAAAAGAAAAAGAAGAAAAGA
Found at i:52432832 original size:20 final size:20
Alignment explanation
Indices: 52432809--52432854 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
52432799 CCAGCTCGAA
*
52432809 TTAGCTCACATGAGCTTAAT
1 TTAGCTCACATGAGCTCAAT
***
52432829 TTAGCTCGTTTGAGCTCAAT
1 TTAGCTCACATGAGCTCAAT
52432849 TTAGCT
1 TTAGCT
52432855 TACTTTAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.24, C:0.20, G:0.17, T:0.39
Consensus pattern (20 bp):
TTAGCTCACATGAGCTCAAT
Found at i:52432836 original size:30 final size:30
Alignment explanation
Indices: 52432801--52432871 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 30
52432791 AGTTTTTCCC
52432801 AGCTCGAATT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-ATTGAGCTCA-ATTGAGCTTAATTT
* * *
52432831 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGATTGAGCTCAATTGAGCTTAATTT
*
52432861 AGCTCGTTTGA
1 AGCTCGATTGA
52432872 ACTTGGCTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 3 0.08
30 33 0.92
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (30 bp):
AGCTCGATTGAGCTCAATTGAGCTTAATTT
Found at i:52439408 original size:48 final size:48
Alignment explanation
Indices: 52439353--52439459 Score: 139
Period size: 48 Copynumber: 2.2 Consensus size: 48
52439343 TTGTCTTTTC
*
52439353 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
52439401 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
52439449 TTTCTTTTTCA
1 TTTCTTTTTCA
52439460 TGACACTCAT
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.15, C:0.24, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:52439455 original size:18 final size:17
Alignment explanation
Indices: 52439434--52439546 Score: 77
Period size: 18 Copynumber: 6.4 Consensus size: 17
52439424 TTTTCACATC
52439434 CTTTTTCAATCTCAATTT
1 CTTTTTCAATCTC-ATTT
*
52439452 CTTTTTCATGACACTCATTT
1 CTTTTTCA--A-TCTCATTT
* * *
52439472 CTTTTACACTCTCGTTT
1 CTTTTTCAATCTCATTT
*
52439489 CTTTCTTCAATCTCACTCT
1 CTTT-TTCAATCTCA-TTT
* *
52439508 CTTTTTCAATTTCTTGTT
1 CTTTTTCAATCTCAT-TT
*
52439526 CTTTTTC--TTTCATTT
1 CTTTTTCAATCTCATTT
52439541 CTTTTT
1 CTTTTT
52439547 TTTCGTCTCT
Statistics
Matches: 76, Mismatches: 13, Indels: 15
0.73 0.12 0.14
Matches are distributed among these distances:
15 8 0.11
16 5 0.07
17 11 0.14
18 31 0.41
19 6 0.08
20 12 0.16
21 3 0.04
ACGTcount: A:0.14, C:0.25, G:0.03, T:0.58
Consensus pattern (17 bp):
CTTTTTCAATCTCATTT
Found at i:52440523 original size:12 final size:11
Alignment explanation
Indices: 52440487--52440517 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
52440477 ATATACTTCG
52440487 ATTTTTTTTGA
1 ATTTTTTTTGA
52440498 ATTTTTTTTGA
1 ATTTTTTTTGA
52440509 ATTTTTTTT
1 ATTTTTTTT
52440518 CAAATTCCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.77
Consensus pattern (11 bp):
ATTTTTTTTGA
Found at i:52442087 original size:20 final size:20
Alignment explanation
Indices: 52442040--52442087 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
52442030 AGTAAGCTTG
52442040 GTTGAGCTCAAACGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
**** *
52442060 AACAAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
52442080 GTTGAGCT
1 GTTGAGCT
52442088 GGACGGTGCT
Statistics
Matches: 19, Mismatches: 9, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.19, G:0.27, T:0.21
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:52444735 original size:29 final size:29
Alignment explanation
Indices: 52444700--52444757 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
52444690 TTAAGCTAAG
* * *
52444700 TATGAATAAGGTAGGTTCGGTTACGAAGA
1 TATGAATAAGGTAAGTCCGGTTACAAAGA
52444729 TATGAATAAGGTAAGTCCGGTTACAAAGA
1 TATGAATAAGGTAAGTCCGGTTACAAAGA
52444758 AATAAAGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.38, C:0.09, G:0.28, T:0.26
Consensus pattern (29 bp):
TATGAATAAGGTAAGTCCGGTTACAAAGA
Found at i:52448212 original size:12 final size:12
Alignment explanation
Indices: 52448195--52448228 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
52448185 AAACCGTATG
52448195 CAATTTTTTTTT
1 CAATTTTTTTTT
52448207 CAA-TTTTTTTT
1 CAATTTTTTTTT
52448218 CAATTTTTTTT
1 CAATTTTTTTT
52448229 CTTTTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (12 bp):
CAATTTTTTTTT
Found at i:52448215 original size:11 final size:11
Alignment explanation
Indices: 52448199--52448238 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
52448189 CGTATGCAAT
52448199 TTTTTTTTCAA
1 TTTTTTTTCAA
52448210 TTTTTTTTCAA
1 TTTTTTTTCAA
52448221 TTTTTTTTC--
1 TTTTTTTTCAA
52448230 TTTTTTTTC
1 TTTTTTTTC
52448239 GAACTCCTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 9 0.31
11 20 0.69
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (11 bp):
TTTTTTTTCAA
Found at i:52448227 original size:22 final size:20
Alignment explanation
Indices: 52448199--52448238 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
52448189 CGTATGCAAT
52448199 TTTTTTTTCAATTTTTTTTCAA
1 TTTTTTTTC--TTTTTTTTCAA
52448221 TTTTTTTTCTTTTTTTTC
1 TTTTTTTTCTTTTTTTTC
52448239 GAACTCCTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (20 bp):
TTTTTTTTCTTTTTTTTCAA
Found at i:52448578 original size:21 final size:21
Alignment explanation
Indices: 52448552--52448614 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
52448542 TTGGTATTTG
52448552 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
52448573 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
52448594 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
52448615 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:52450314 original size:12 final size:12
Alignment explanation
Indices: 52450297--52450351 Score: 58
Period size: 12 Copynumber: 4.6 Consensus size: 12
52450287 ACGGTATTGT
52450297 AAAAAAAATTAA
1 AAAAAAAATTAA
* *
52450309 AAAAAAACTT-G
1 AAAAAAAATTAA
**
52450320 AAAAAAAATTCG
1 AAAAAAAATTAA
52450332 AAAAAAAATTCAA
1 AAAAAAAATT-AA
52450345 AAAAAAA
1 AAAAAAA
52450352 GTTTGTATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.25
12 20 0.56
13 7 0.19
ACGTcount: A:0.76, C:0.05, G:0.04, T:0.15
Consensus pattern (12 bp):
AAAAAAAATTAA
Found at i:52450327 original size:23 final size:23
Alignment explanation
Indices: 52450297--52450350 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
52450287 ACGGTATTGT
*
52450297 AAAAAAAATT-AAAAAAAAACTTG
1 AAAAAAAATTCAAAAAAAAA-TTC
*
52450320 AAAAAAAATTCGAAAAAAAATTC
1 AAAAAAAATTCAAAAAAAAATTC
52450343 AAAAAAAA
1 AAAAAAAA
52450351 AGTTTGTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
23 20 0.71
24 8 0.29
ACGTcount: A:0.76, C:0.06, G:0.04, T:0.15
Consensus pattern (23 bp):
AAAAAAAATTCAAAAAAAAATTC
Found at i:52450427 original size:25 final size:26
Alignment explanation
Indices: 52450393--52450445 Score: 81
Period size: 25 Copynumber: 2.1 Consensus size: 26
52450383 TTTAGTATTG
* *
52450393 AAGAAAAAAATTCGGAATT-AAAAAA
1 AAGAAAAAAAATCGAAATTGAAAAAA
52450418 AAGAAAAAAAATCGAAATTGAAAAAA
1 AAGAAAAAAAATCGAAATTGAAAAAA
52450444 AA
1 AA
52450446 AAGAGTGATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 17 0.68
26 8 0.32
ACGTcount: A:0.72, C:0.04, G:0.11, T:0.13
Consensus pattern (26 bp):
AAGAAAAAAAATCGAAATTGAAAAAA
Found at i:52454347 original size:20 final size:20
Alignment explanation
Indices: 52454322--52454394 Score: 76
Period size: 20 Copynumber: 3.7 Consensus size: 20
52454312 TGTGGTTCAA
*
52454322 CTCATTTGAGCTCAAGTTAG
1 CTCATTCGAGCTCAAGTTAG
* *
52454342 CTCATTCGTGCTCAAGTCAG
1 CTCATTCGAGCTCAAGTTAG
* * *
52454362 CTCATTCAAGCTCAATTTAA
1 CTCATTCGAGCTCAAGTTAG
*
52454382 CTCGTT-GAGCTCA
1 CTCATTCGAGCTCA
52454395 TTATTAGCTC
Statistics
Matches: 43, Mismatches: 10, Indels: 1
0.80 0.19 0.02
Matches are distributed among these distances:
19 6 0.14
20 37 0.86
ACGTcount: A:0.25, C:0.26, G:0.16, T:0.33
Consensus pattern (20 bp):
CTCATTCGAGCTCAAGTTAG
Found at i:52456700 original size:12 final size:11
Alignment explanation
Indices: 52456684--52456723 Score: 55
Period size: 11 Copynumber: 3.6 Consensus size: 11
52456674 ATACAAGTTA
52456684 AAAAAAATTCG
1 AAAAAAATTCG
*
52456695 AAAAAAATTTG
1 AAAAAAATTCG
52456706 AAAAAAA-TCTG
1 AAAAAAATTC-G
52456717 AAAAAAA
1 AAAAAAA
52456724 ATTGAAGTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 1 0.04
11 25 0.96
ACGTcount: A:0.70, C:0.05, G:0.07, T:0.17
Consensus pattern (11 bp):
AAAAAAATTCG
Found at i:52456709 original size:22 final size:22
Alignment explanation
Indices: 52456684--52456729 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
52456674 ATACAAGTTA
*
52456684 AAAAAAAT-TCGAAAAAAATTTG
1 AAAAAAATCT-GAAAAAAAATTG
52456706 AAAAAAATCTGAAAAAAAATTG
1 AAAAAAATCTGAAAAAAAATTG
52456728 AA
1 AA
52456730 GTGAAAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 21 0.95
23 1 0.05
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (22 bp):
AAAAAAATCTGAAAAAAAATTG
Found at i:52456729 original size:11 final size:11
Alignment explanation
Indices: 52456683--52456729 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 11
52456673 TATACAAGTT
52456683 AAAAAAAATTCG
1 AAAAAAAATT-G
*
52456695 AAAAAAATTTG
1 AAAAAAAATTG
52456706 -AAAAAAATCTG
1 AAAAAAAAT-TG
52456717 AAAAAAAATTG
1 AAAAAAAATTG
52456728 AA
1 AA
52456730 GTGAAAACTT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
10 7 0.23
11 7 0.23
12 17 0.55
ACGTcount: A:0.68, C:0.04, G:0.09, T:0.19
Consensus pattern (11 bp):
AAAAAAAATTG
Found at i:52461208 original size:30 final size:30
Alignment explanation
Indices: 52461174--52461270 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
52461164 TAAACTAAAA
*
52461174 TGAGCTAAGTTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
* * * * * * *
52461204 TGAGCTGAGGCTAAACTCCTAAGCTGAAGT
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
52461234 TGAGCTAAGGTTTAGCTCGTGAGCTAAA-T
1 TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
52461263 ATGAGCTA
1 -TGAGCTA
52461271 GGAGTGAGCT
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (30 bp):
TGAGCTAAGGTTTAGCTCGTGAGCTAAAGT
Found at i:52463544 original size:6 final size:6
Alignment explanation
Indices: 52463528--52463577 Score: 50
Period size: 6 Copynumber: 8.2 Consensus size: 6
52463518 TTTCTTTTTA
*
52463528 TTTCAT TTTCTT TTTCTT CTCTTGCTT TTTCTT TTTC-T TTTC-T TTTCTT
1 TTTCTT TTTCTT TTTCTT -T-TT-CTT TTTCTT TTTCTT TTTCTT TTTCTT
52463577 T
1 T
52463578 GTTTTCTCTT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
5 10 0.26
6 20 0.51
7 3 0.08
8 3 0.08
9 3 0.08
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (6 bp):
TTTCTT
Found at i:52463560 original size:37 final size:37
Alignment explanation
Indices: 52463517--52463587 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
52463507 CTTGCCTCTC
52463517 TTTTCTTTTT-ATTTCATTTTCTTT-TTCTTCTCTTGCT
1 TTTTCTTTTTCATTTC-TTTTCTTTGTT-TTCTCTTGCT
*
52463554 TTTTCTTTTTCTTTTCTTTTCTTTGTTTTCTCTT
1 TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTT
52463588 TACAAGAATG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 25 0.81
38 6 0.19
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (37 bp):
TTTTCTTTTTCATTTCTTTTCTTTGTTTTCTCTTGCT
Found at i:52463588 original size:16 final size:16
Alignment explanation
Indices: 52463513--52463573 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 16
52463503 GCCTCTTGCC
*
52463513 TCTCTTTTCTTTTTAT
1 TCTCTTTTCTTTTTCT
52463529 T-TCATTTTCTTTTTCT
1 TCTC-TTTTCTTTTTCT
*
52463545 TCTC-TTGCTTTTTCTT
1 TCTCTTTTCTTTTTC-T
*
52463561 TTTCTTTTCTTTT
1 TCTCTTTTCTTTT
52463574 CTTTGTTTTC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
15 11 0.30
16 17 0.46
17 9 0.24
ACGTcount: A:0.03, C:0.20, G:0.02, T:0.75
Consensus pattern (16 bp):
TCTCTTTTCTTTTTCT
Found at i:52464525 original size:10 final size:11
Alignment explanation
Indices: 52464501--52464552 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 11
52464491 TTAACTCGAT
52464501 TTTTTTTGTCAC
1 TTTTTTT-TCAC
52464513 TTTTTTTTC-C
1 TTTTTTTTCAC
*
52464523 TTTTTTTTCGAT
1 TTTTTTTTC-AC
* *
52464535 TTTTTTTTTAA
1 TTTTTTTTCAC
52464546 TTTTTTT
1 TTTTTTT
52464553 CTGAATTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 10 0.29
11 10 0.29
12 15 0.43
ACGTcount: A:0.08, C:0.10, G:0.04, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCAC
Found at i:52466388 original size:30 final size:29
Alignment explanation
Indices: 52466286--52466388 Score: 89
Period size: 30 Copynumber: 3.4 Consensus size: 29
52466276 CGAGTTTAAA
* *
52466286 CTAAAATGAGCTAAGTTTTAGCTCGTGAG
1 CTAAATTGAGCTAAGGTTTAGCTCGTGAG
* * * * * * *
52466315 CTAAAGTTGAGTTGAGGCTAAACTCCTAAG
1 CTAAA-TTGAGCTAAGGTTTAGCTCGTGAG
*
52466345 CTGAAGTTGAGCTAAGGTTTAGCTCGTGAG
1 CT-AAATTGAGCTAAGGTTTAGCTCGTGAG
52466375 CTAAATATGAGCTA
1 CTAAAT-TGAGCTA
52466389 GGAGTGAGCT
Statistics
Matches: 53, Mismatches: 18, Indels: 5
0.70 0.24 0.07
Matches are distributed among these distances:
29 8 0.15
30 43 0.81
31 2 0.04
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (29 bp):
CTAAATTGAGCTAAGGTTTAGCTCGTGAG
Found at i:52468814 original size:30 final size:30
Alignment explanation
Indices: 52468780--52468840 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
52468770 TCCTTAACTC
52468780 AAACTTTGGAAAAATTACAATTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
* * * * *
52468810 AAACTTTTGCATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
52468840 A
1 A
52468841 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTTCCCCT
Found at i:52472244 original size:20 final size:20
Alignment explanation
Indices: 52472221--52472274 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
52472211 AGTTTTTCCC
*
52472221 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
52472241 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
52472261 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
52472275 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:52472256 original size:30 final size:30
Alignment explanation
Indices: 52472221--52472294 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
52472211 AGTTTTTCCC
52472221 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
52472251 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
52472281 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
52472295 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:52472284 original size:20 final size:20
Alignment explanation
Indices: 52472221--52472285 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
52472211 AGTTTTTCCC
* * * *
52472221 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
52472241 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
52472260 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
52472281 AGCTC
1 AGCTC
52472286 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:52473977 original size:22 final size:22
Alignment explanation
Indices: 52473952--52473996 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
52473942 AGAAGTGAGC
*
52473952 AAAAAAAGAAAAAAAAGTAAAA
1 AAAAAAACAAAAAAAAGTAAAA
* *
52473974 AAAAGAACAAAAAAAAGTGAAA
1 AAAAAAACAAAAAAAAGTAAAA
52473996 A
1 A
52473997 GTCTTGTGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.82, C:0.02, G:0.11, T:0.04
Consensus pattern (22 bp):
AAAAAAACAAAAAAAAGTAAAA
Found at i:52473996 original size:10 final size:9
Alignment explanation
Indices: 52473952--52473987 Score: 54
Period size: 10 Copynumber: 3.8 Consensus size: 9
52473942 AGAAGTGAGC
52473952 AAAAAAAGA
1 AAAAAAAGA
52473961 AAAAAAAGTA
1 AAAAAAAG-A
52473971 AAAAAAAGA
1 AAAAAAAGA
52473980 ACAAAAAA
1 A-AAAAAA
52473988 AAGTGAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.40
10 15 0.60
ACGTcount: A:0.86, C:0.03, G:0.08, T:0.03
Consensus pattern (9 bp):
AAAAAAAGA
Found at i:52475043 original size:17 final size:18
Alignment explanation
Indices: 52475011--52475044 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
52475001 AAAAGAGAGT
*
52475011 GAGATTGAAGGAAGAAAC
1 GAGAGTGAAGGAAGAAAC
52475029 GAGAGTGAA-GAAGAAA
1 GAGAGTGAAGGAAGAAA
52475045 GGAGTGTTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.53, C:0.03, G:0.35, T:0.09
Consensus pattern (18 bp):
GAGAGTGAAGGAAGAAAC
Found at i:52476331 original size:20 final size:20
Alignment explanation
Indices: 52476308--52476361 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
52476298 AGTTTTTCCC
*
52476308 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
52476328 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
52476348 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
52476362 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:52476343 original size:30 final size:30
Alignment explanation
Indices: 52476308--52476381 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
52476298 AGTTTTTCCC
52476308 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
52476338 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
52476368 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
52476382 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:52476371 original size:20 final size:20
Alignment explanation
Indices: 52476308--52476372 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
52476298 AGTTTTTCCC
* * * *
52476308 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
52476328 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
52476347 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
52476368 AGCTC
1 AGCTC
52476373 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:52479872 original size:20 final size:20
Alignment explanation
Indices: 52479826--52479872 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
52479816 AGCTTGTTTC
*
52479826 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
52479846 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
52479866 CAGCTCA
1 CAGCTCA
52479873 ATCTTAACCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:52482535 original size:48 final size:47
Alignment explanation
Indices: 52482456--52482561 Score: 135
Period size: 48 Copynumber: 2.2 Consensus size: 47
52482446 GAGTGTCATG
*
52482456 GAAAAAGAAATTGAGATTGAAAAAGGATGTGA-AAAAGAGAAAGAAATC
1 GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAA-AGAAA-AAATC
* *
52482504 GAAAAAGAAATTGAGATTGAACAAAAG-TGTGAGGAAAAAGAGAAAATT
1 GAAAAAGAAATTGAGATTGAA-AAAAGATGTGA-GAAAAAGAAAAAATC
52482552 GAAAAAGAAA
1 GAAAAAGAAA
52482562 GAAAAGACAA
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.59, C:0.02, G:0.25, T:0.14
Consensus pattern (47 bp):
GAAAAAGAAATTGAGATTGAAAAAAGATGTGAGAAAAAGAAAAAATC
Found at i:52484277 original size:20 final size:20
Alignment explanation
Indices: 52484231--52484277 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
52484221 AGCTTGTTTC
*
52484231 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* * *
52484251 CAACTCATTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
52484271 CAGCTCA
1 CAGCTCA
52484278 ATATTAACCT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:52487292 original size:18 final size:19
Alignment explanation
Indices: 52487261--52487302 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
52487251 TTTTTTTAAA
*
52487261 TTTTTATTGAATTTCGTCTT
1 TTTTTATT-AATTTCGACTT
*
52487281 TTTTTATT-ATTTTGACTT
1 TTTTTATTAATTTCGACTT
52487299 TTTT
1 TTTT
52487303 GACTGATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 12 0.60
20 8 0.40
ACGTcount: A:0.14, C:0.07, G:0.07, T:0.71
Consensus pattern (19 bp):
TTTTTATTAATTTCGACTT
Found at i:52490933 original size:26 final size:21
Alignment explanation
Indices: 52490881--52490933 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
52490871 TTGATATTCT
52490881 TTGGAGGGGAGATTAGAGCCG
1 TTGGAGGGGAGATTAGAGCCG
52490902 TTGGAGGGGAGATTAGAGCCG
1 TTGGAGGGGAGATTAGAGCCG
* *
52490923 TTTGAAGGGAG
1 TTGGAGGGGAG
52490934 TTGTGAGATC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.08, G:0.47, T:0.21
Consensus pattern (21 bp):
TTGGAGGGGAGATTAGAGCCG
Found at i:52491671 original size:21 final size:20
Alignment explanation
Indices: 52491637--52491708 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 20
52491627 ACATTCTTGT
52491637 AAAGAGAAAACAAAGAAAAG-A
1 AAAGA-AAAACAAA-AAAAGAA
*
52491658 AAAGAAAAATCAAAAGAAGAA
1 AAAGAAAAA-CAAAAAAAGAA
* *
52491679 AAAGAAAAAGAAAACGAAATAA
1 AAAGAAAAACAAAA--AAAGAA
52491701 AAAGAAAA
1 AAAGAAAA
52491709 GAGAGGCAAG
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
20 12 0.28
21 19 0.44
22 12 0.28
ACGTcount: A:0.78, C:0.04, G:0.15, T:0.03
Consensus pattern (20 bp):
AAAGAAAAACAAAAAAAGAA
Found at i:52491687 original size:15 final size:15
Alignment explanation
Indices: 52491648--52491690 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
52491638 AAGAGAAAAC
*
52491648 AAAGAAAAGAAAAGAA
1 AAAGAAAA-AGAAGAA
**
52491664 AAATCAAAAGAAGAA
1 AAAGAAAAAGAAGAA
52491679 AAAGAAAAAGAA
1 AAAGAAAAAGAA
52491691 AACGAAATAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.02
Consensus pattern (15 bp):
AAAGAAAAAGAAGAA
Found at i:52491704 original size:31 final size:30
Alignment explanation
Indices: 52491648--52491706 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
52491638 AAGAGAAAAC
*
52491648 AAAGAAAAGAAAAGAAAAATCAAAAGAAGAA
1 AAAGAAAAGAAAAG-AAAATAAAAAGAAGAA
52491679 AAAGAAAAAGAAAACG-AAATAAAAAGAA
1 AAAG-AAAAGAAAA-GAAAATAAAAAGAA
52491707 AAGAGAGGCA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 15 0.60
32 9 0.36
33 1 0.04
ACGTcount: A:0.78, C:0.03, G:0.15, T:0.03
Consensus pattern (30 bp):
AAAGAAAAGAAAAGAAAATAAAAAGAAGAA
Found at i:52491765 original size:27 final size:27
Alignment explanation
Indices: 52491733--52491791 Score: 118
Period size: 27 Copynumber: 2.2 Consensus size: 27
52491723 AAGTAAGAGA
52491733 GAAAATGAGTGAATCTTGAGAGAACTT
1 GAAAATGAGTGAATCTTGAGAGAACTT
52491760 GAAAATGAGTGAATCTTGAGAGAACTT
1 GAAAATGAGTGAATCTTGAGAGAACTT
52491787 GAAAA
1 GAAAA
52491792 AGCCTTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.44, C:0.07, G:0.25, T:0.24
Consensus pattern (27 bp):
GAAAATGAGTGAATCTTGAGAGAACTT
Found at i:52491816 original size:13 final size:12
Alignment explanation
Indices: 52491785--52491816 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
52491775 TTGAGAGAAC
52491785 TTGAAAAAGCCT
1 TTGAAAAAGCCT
52491797 TTGAAAAAGCCT
1 TTGAAAAAGCCT
52491809 TTGAAAAA
1 TTGAAAAA
52491817 CAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.47, C:0.12, G:0.16, T:0.25
Consensus pattern (12 bp):
TTGAAAAAGCCT
Found at i:52491827 original size:6 final size:6
Alignment explanation
Indices: 52491811--52491845 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
52491801 AAAAGCCTTT
*
52491811 GAAAAA CAAAAA GAAAAA GAAAAA GAAAAA GAAAA
1 GAAAAA GAAAAA GAAAAA GAAAAA GAAAAA GAAAA
52491846 TGAGATTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.83, C:0.03, G:0.14, T:0.00
Consensus pattern (6 bp):
GAAAAA
Done.