Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr9
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: 91122320
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2661692 characters in sequence are not A, C, G, or T
File 158 of 279
Found at i:51861760 original size:21 final size:21
Alignment explanation
Indices: 51861728--51861768 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51861718 AGGCTCGAGG
51861728 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
51861749 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
51861769 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:51868584 original size:98 final size:97
Alignment explanation
Indices: 51868466--51868728 Score: 392
Period size: 92 Copynumber: 2.7 Consensus size: 97
51868456 TTTGAGTACT
* ** *
51868466 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAGT-
* *
51868531 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTAATAGCTTCAGCTACACTTA
51868564 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-----
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAGTG
* *
51868624 AAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAGTGATAAGTAATAGCTTCAGCTACACTTA
51868656 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACA-AGT
51868721 GATAAGTG
65 GA-AAGTG
51868729 GCTACACTTA
Statistics
Matches: 150, Mismatches: 8, Indels: 13
0.88 0.05 0.08
Matches are distributed among these distances:
92 88 0.59
98 57 0.38
99 5 0.03
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (97 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAGTG
AAAGTGATAAGTAATAGCTTCAGCTACACTTA
Found at i:51868609 original size:46 final size:46
Alignment explanation
Indices: 51868532--51868728 Score: 349
Period size: 46 Copynumber: 4.3 Consensus size: 46
51868522 TGACAAGTGG
* ** *
51868532 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
51868578 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
51868624 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
51868670 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
*
51868716 AGAGTGATAAGTG
1 AAAGTGATAAGTG
51868729 GCTACACTTA
Statistics
Matches: 146, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 146 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
Found at i:51868735 original size:37 final size:36
Alignment explanation
Indices: 51868692--51868800 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 36
51868682 GATAGCTTTA
51868692 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACA-AGTGATAAGTG
* *
51868729 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGAC-AAGTGATAAGTG
*
51868766 GCTACACTTATCTGATC-AGGGACAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAGTGATAAGTG
51868801 ATCATACGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 11 0.17
36 4 0.06
37 50 0.76
38 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAGACAAGTGATAAGTG
Found at i:51873896 original size:46 final size:45
Alignment explanation
Indices: 51873838--51873926 Score: 101
Period size: 47 Copynumber: 2.0 Consensus size: 45
51873828 TAAACACCAT
51873838 TAAAAATAATAGA-AAATAAAAATTT-TAAAAATATAATATATATAA
1 TAAAAATAATAGATAAATAAAAATTTGT-AAAATAT-ATATATATAA
* * * *
51873883 TAAAATTATATAGATAATTTAATATTTGTAAAATATATATATAT
1 TAAAAATA-ATAGATAAATAAAAATTTGTAAAATATATATATAT
51873927 TTTTTACTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
45 7 0.19
46 13 0.35
47 16 0.43
48 1 0.03
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.38
Consensus pattern (45 bp):
TAAAAATAATAGATAAATAAAAATTTGTAAAATATATATATATAA
Found at i:51905857 original size:18 final size:18
Alignment explanation
Indices: 51905823--51905871 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
51905813 ACACATAAAG
51905823 TTAGATAAAAAAACACT-T
1 TTAGAT-AAAAAACACTAT
* *
51905841 TTGAGGTAAAAAGCACTAT
1 TT-AGATAAAAAACACTAT
51905860 TTAGATAAAAAA
1 TTAGATAAAAAA
51905872 ATATTGTTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
18 19 0.76
19 6 0.24
ACGTcount: A:0.53, C:0.08, G:0.12, T:0.27
Consensus pattern (18 bp):
TTAGATAAAAAACACTAT
Found at i:51907244 original size:18 final size:19
Alignment explanation
Indices: 51907216--51907258 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
51907206 TAGATATTGT
51907216 TTTTAATAATT-TTAA-AATA
1 TTTT-ATAATTCTTAATAA-A
51907235 TTTTATAATTCTTAATAAA
1 TTTTATAATTCTTAATAAA
51907254 TTTTA
1 TTTTA
51907259 ATCAATTCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.27
19 14 0.64
20 2 0.09
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTATAATTCTTAATAAA
Found at i:51913937 original size:27 final size:27
Alignment explanation
Indices: 51913886--51913937 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
51913876 TTAAAATTTA
* *
51913886 ATTTTAAATGTTAAATTTATTAATGGT
1 ATTTTAAATGTTAAATTGATGAATGGT
51913913 ATTTTAAATGTTAAATTGATGAATG
1 ATTTTAAATGTTAAATTGATGAATG
51913938 TAATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.48
Consensus pattern (27 bp):
ATTTTAAATGTTAAATTGATGAATGGT
Found at i:51914189 original size:21 final size:21
Alignment explanation
Indices: 51914165--51914230 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
51914155 ACTCATATGA
*
51914165 GTTTCAGTTTAACCCTTCTGG
1 GTTTCAATTTAACCCTTCTGG
* *
51914186 GTTTCAATTTAGCTCTTCTGAG
1 GTTTCAATTTAACCCTTCTG-G
* * *
51914208 CTTT-AAATTAA-CCTTATGG
1 GTTTCAATTTAACCCTTCTGG
51914227 GTTT
1 GTTT
51914231 TTGTTCAGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 4 0.11
20 5 0.14
21 22 0.63
22 4 0.11
ACGTcount: A:0.20, C:0.18, G:0.17, T:0.45
Consensus pattern (21 bp):
GTTTCAATTTAACCCTTCTGG
Found at i:51918332 original size:49 final size:50
Alignment explanation
Indices: 51918277--51918396 Score: 163
Period size: 49 Copynumber: 2.4 Consensus size: 50
51918267 ATCTAGTACG
* **
51918277 CATAGTAGCCTGCACTTAGTACTACACATGCGACC-AATTATCCAG-TACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCAT-CAGATACA
* * *
51918326 CGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCAGATACA
51918376 CATAGTAGCCTGCACTTAGTA
1 CATAGTAGCCTGCACTTAGTA
51918397 GTAGTCTGCA
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
49 34 0.55
50 28 0.45
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (50 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACCTAACCATCAGATACA
Found at i:51918400 original size:17 final size:17
Alignment explanation
Indices: 51918378--51918413 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
51918368 CTGATACACA
51918378 TAGTAGCCTGCACTTAG
1 TAGTAGCCTGCACTTAG
*
51918395 TAGTAGTCTGCACTTAG
1 TAGTAGCCTGCACTTAG
51918412 TA
1 TA
51918414 CTACACACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (17 bp):
TAGTAGCCTGCACTTAG
Found at i:51919998 original size:23 final size:23
Alignment explanation
Indices: 51919972--51920069 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
51919962 ATAAGTGCCA
51919972 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
51919995 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
51920018 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
51920040 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
51920063 CACTGAT
1 CACTGAT
51920070 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:51920037 original size:45 final size:45
Alignment explanation
Indices: 51919979--51920067 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
51919969 CCACACTGAT
* *
51919979 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
51920024 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
51920068 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Found at i:51924254 original size:102 final size:102
Alignment explanation
Indices: 51924078--51924279 Score: 386
Period size: 102 Copynumber: 2.0 Consensus size: 102
51924068 TGGTCATTCC
* *
51924078 AATGGCTAATCATTTACAAACCCTTTTCTTTCCAAACCATAGACATATCATAAGATCATTTACAC
1 AATGGCCAATCATGTACAAACCCTTTTCTTTCCAAACCATAGACATATCATAAGATCATTTACAC
51924143 AAAGTGAGCATTTTGCCATACATGCCACATTCAAAGG
66 AAAGTGAGCATTTTGCCATACATGCCACATTCAAAGG
51924180 AATGGCCAATCATGTACAAACCCTTTTCTTTCCAAACCATAGACATATCATAAGATCATTTACAC
1 AATGGCCAATCATGTACAAACCCTTTTCTTTCCAAACCATAGACATATCATAAGATCATTTACAC
51924245 AAAGTGAGCATTTTGCCATACATGCCACATTCAAA
66 AAAGTGAGCATTTTGCCATACATGCCACATTCAAA
51924280 ACACACAAGC
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
102 98 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (102 bp):
AATGGCCAATCATGTACAAACCCTTTTCTTTCCAAACCATAGACATATCATAAGATCATTTACAC
AAAGTGAGCATTTTGCCATACATGCCACATTCAAAGG
Found at i:51924861 original size:47 final size:49
Alignment explanation
Indices: 51924739--51925106 Score: 388
Period size: 47 Copynumber: 7.8 Consensus size: 49
51924729 TGTAACCCGC
* * * *
51924739 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
*
51924785 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
51924835 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
51924879 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
51924929 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
51924973 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACAT
*
51925023 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCCACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATT-CACAT
*
51925067 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
51925107 TCAACCATTC
Statistics
Matches: 274, Mismatches: 15, Indels: 62
0.78 0.04 0.18
Matches are distributed among these distances:
42 6 0.02
43 3 0.01
44 15 0.05
45 3 0.01
46 41 0.15
47 174 0.64
48 7 0.03
49 4 0.01
50 13 0.05
51 4 0.01
52 4 0.01
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (49 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACAT
Found at i:51924907 original size:94 final size:94
Alignment explanation
Indices: 51924747--51925106 Score: 677
Period size: 94 Copynumber: 3.8 Consensus size: 94
51924737 GCCCATAAGT
* * * *
51924747 GAACTCGGACTCAACTCAACGAGCTCGGGCGTT-CGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
51924811 ACGAGTTCGGATGCCTAGTTACATCTCAC
66 ACGAGTTCGGATGCCTAGTTACATCTCAC
51924840 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
51924905 ACGAGTTCGGATGCCTAGTTACATCTCAC
66 ACGAGTTCGGATGCCTAGTTACATCTCAC
51924934 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
51924999 ACGAGTTCGGATGCCTAGTTACATCTCAC
66 ACGAGTTCGGATGCCTAGTTACATCTCAC
51925028 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
51925093 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
51925107 TCAACCATTC
Statistics
Matches: 262, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
93 30 0.11
94 232 0.89
ACGTcount: A:0.29, C:0.30, G:0.19, T:0.22
Consensus pattern (94 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCCACATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:51925559 original size:30 final size:30
Alignment explanation
Indices: 51925525--51925584 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
51925515 CCTTAATACG
51925525 AACTTTGGCAAAATTAC-CATTTTACCCCTA
1 AACTTTGGCAAAATTACAC-TTTTACCCCTA
* * *
51925555 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTACCCCTA
51925585 GGCTCAGGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
30 25 0.96
31 1 0.04
ACGTcount: A:0.30, C:0.27, G:0.07, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTACCCCTA
Found at i:51927751 original size:13 final size:13
Alignment explanation
Indices: 51927735--51927764 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
51927725 ATATAACTGA
51927735 TTCATATAGCCAT
1 TTCATATAGCCAT
*
51927748 TTCATATAGTCAT
1 TTCATATAGCCAT
51927761 TTCA
1 TTCA
51927765 AAGTGTTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.43
Consensus pattern (13 bp):
TTCATATAGCCAT
Found at i:51935627 original size:201 final size:198
Alignment explanation
Indices: 51935227--51935627 Score: 748
Period size: 198 Copynumber: 2.0 Consensus size: 198
51935217 CATAAGCAAA
*
51935227 AAGTTAGTTAATATTGGAGAACAAGGGTAGAGAAGATACAGACACAGATATCTAGCAGATATCTT
1 AAGTTAGTTAATATTGGAGAACAAGGGTAGAGAAGATACAGACACAGAGATCTAGCAGATATCTT
*
51935292 AAAGCTAAGATATCAAAAAGGGTAGAGATGATACCCATAAGTATGGTTGAAGAATCAACATCTAA
66 AAAGCTAAGATATCAAAAAGGGTAGAGATGATACCAATAAGTATGGTTGAAGAATCAACATCTAA
51935357 AAGGATGCTTTTACAATTATAATGCATGTACTATAAAACTAGCAACTGAAGCTTACAAGTGGTGG
131 AAGGATGCTTTTACAATTATAATGCATGTACTATAAAACTAGCAACTGAAGCTTACAAGTGGTGG
51935422 TCG
196 TCG
51935425 AAGTTAGTTAATATTGGAGAACAAGGGTAGAGAAGATACAGACACAGAGATCTAGCAGATATCTT
1 AAGTTAGTTAATATTGGAGAACAAGGGTAGAGAAGATACAGACACAGAGATCTAGCAGATATCTT
*
51935490 AAAGCTAAGATATCAAAAAGGGTAGAGATGATACTCATAATAAGTATGGTTGAAGAATCACCATC
66 AAAGCTAAGATATCAAAAAGGGTAGAGATGATAC-C--AATAAGTATGGTTGAAGAATCAACATC
51935555 TAAAAGGATGCTTTTACAATTATAATGCATGTACTATAAAACTAGCAACTGAAGCTTACAAGTGG
128 TAAAAGGATGCTTTTACAATTATAATGCATGTACTATAAAACTAGCAACTGAAGCTTACAAGTGG
51935620 TGGTCG
193 TGGTCG
51935626 AA
1 AA
51935628 TTCGAGCAGT
Statistics
Matches: 197, Mismatches: 3, Indels: 3
0.97 0.01 0.01
Matches are distributed among these distances:
198 98 0.50
199 1 0.01
201 98 0.50
ACGTcount: A:0.41, C:0.12, G:0.21, T:0.25
Consensus pattern (198 bp):
AAGTTAGTTAATATTGGAGAACAAGGGTAGAGAAGATACAGACACAGAGATCTAGCAGATATCTT
AAAGCTAAGATATCAAAAAGGGTAGAGATGATACCAATAAGTATGGTTGAAGAATCAACATCTAA
AAGGATGCTTTTACAATTATAATGCATGTACTATAAAACTAGCAACTGAAGCTTACAAGTGGTGG
TCG
Found at i:51944440 original size:47 final size:47
Alignment explanation
Indices: 51944331--51944441 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
51944321 CCGGGATAAG
*
51944331 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACATTATAGTA
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
* * *
51944378 CACAAAGTACTTCATCGGAACAAATCCGGAACTTTAACAGTAGTCG-A
1 CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTA-TAGTA
51944425 CACATAGTG-TCTCATCG
1 CACATAGTGCT-TCATCG
51944442 ACTCAATGTC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
46 1 0.02
47 53 0.95
48 2 0.04
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.25
Consensus pattern (47 bp):
CACATAGTGCTTCATCGGAACAAATCCGGAACTTTAACAGTATAGTA
Found at i:51952179 original size:22 final size:22
Alignment explanation
Indices: 51952151--51952195 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
51952141 TGGGCTGGTG
*
51952151 TAAGTCACATTTCATTGTTCAT
1 TAAGTCACATTTCATTGCTCAT
51952173 TAAGTCACATTTCATTGCTCAT
1 TAAGTCACATTTCATTGCTCAT
51952195 T
1 T
51952196 CGTGTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.09, T:0.44
Consensus pattern (22 bp):
TAAGTCACATTTCATTGCTCAT
Found at i:51967104 original size:21 final size:21
Alignment explanation
Indices: 51967078--51967118 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
51967068 AGACGAGCAA
* *
51967078 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
51967099 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
51967119 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:51982370 original size:18 final size:16
Alignment explanation
Indices: 51982347--51982391 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 16
51982337 AGTATAAATG
51982347 ATATACAAAACAATATAT
1 ATATACAAAA-AATA-AT
51982365 ATATACAAATAAATAAT
1 ATATACAAA-AAATAAT
*
51982382 ATACACAAAA
1 ATATACAAAA
51982392 TACAAATAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 1 0.04
17 10 0.40
18 13 0.52
19 1 0.04
ACGTcount: A:0.64, C:0.11, G:0.00, T:0.24
Consensus pattern (16 bp):
ATATACAAAAAATAAT
Found at i:51982437 original size:23 final size:20
Alignment explanation
Indices: 51982407--51982448 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
51982397 ATAACTTAAT
51982407 ATAAATAATATATATAAAAATA
1 ATAAATAATAT-T-TAAAAATA
51982429 ATAATATAATATTTAAAAAT
1 ATAA-ATAATATTTAAAAAT
51982449 GTTCATAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.37
22 5 0.26
23 7 0.37
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAATAATATTTAAAAATA
Found at i:51982987 original size:13 final size:13
Alignment explanation
Indices: 51982969--51982994 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
51982959 GGTAATGGGG
51982969 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
51982982 TTAGTGGGGTGAT
1 TTAGTGGGGTGAT
51982995 GGAATTAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.46, T:0.38
Consensus pattern (13 bp):
TTAGTGGGGTGAT
Found at i:51987597 original size:23 final size:22
Alignment explanation
Indices: 51987536--51987601 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 22
51987526 ACCTGATCAG
51987536 AATACGACACATAAGTGCCTG-
1 AATACGACACATAAGTGCCTGA
* * *
51987557 AA-ACGATACACGAGGTGCCTGA
1 AATACGACACA-TAAGTGCCTGA
51987579 AATACGACACATAAAGTGCCTGA
1 AATACGACACAT-AAGTGCCTGA
51987602 TCAGTAAAGC
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 7 0.20
21 10 0.29
22 2 0.06
23 16 0.46
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (22 bp):
AATACGACACATAAGTGCCTGA
Found at i:51987861 original size:23 final size:23
Alignment explanation
Indices: 51987793--51987862 Score: 68
Period size: 28 Copynumber: 2.8 Consensus size: 23
51987783 AATGTCCAAC
*
51987793 CAAAACACACCAGTATAATCCTA
1 CAAAACACACCAGAATAATCCTA
*
51987816 CAAAACACACCAGTATCATATAATCCTC
1 CAAAACACACCAG----A-ATAATCCTA
*
51987844 CCAAACACACCAGAATAAT
1 CAAAACACACCAGAATAAT
51987863 ATAATCCATC
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
23 18 0.46
24 1 0.03
28 20 0.51
ACGTcount: A:0.47, C:0.31, G:0.04, T:0.17
Consensus pattern (23 bp):
CAAAACACACCAGAATAATCCTA
Found at i:51987888 original size:29 final size:28
Alignment explanation
Indices: 51987806--51987889 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
51987796 AACACACCAG
* * *
51987806 TATAATCCTACAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
51987834 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
51987862 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
51987890 GCACAAAGTG
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
28 32 0.64
29 18 0.36
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:51989571 original size:50 final size:51
Alignment explanation
Indices: 51989446--51989694 Score: 265
Period size: 50 Copynumber: 4.8 Consensus size: 51
51989436 GATAATAACA
* * ** *
51989446 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGT-TC-TCGTGATGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCGTCA--G
* *
51989497 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATC-TCAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCGTCAG
* * * *
51989547 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTC-TCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCGTCAG
*
51989597 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCAT-GATCTTAAAG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCG-TC----AG
* *
51989652 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
51989695 TTACCCAAAT
Statistics
Matches: 168, Mismatches: 21, Indels: 13
0.83 0.10 0.06
Matches are distributed among these distances:
50 86 0.51
51 36 0.21
52 4 0.02
53 2 0.01
55 1 0.01
56 39 0.23
ACGTcount: A:0.21, C:0.29, G:0.23, T:0.26
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCGTCAG
Found at i:51989624 original size:100 final size:104
Alignment explanation
Indices: 51989445--51989694 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
51989435 TGATAATAAC
**
51989445 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
51989510 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CAG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAAG
* *
51989547 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
51989610 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAAG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAAG
* *
51989652 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
51989695 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.22, C:0.29, G:0.23, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAAG
Found at i:51989810 original size:13 final size:13
Alignment explanation
Indices: 51989789--51989820 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
51989779 GCTTGGATCA
*
51989789 TCATCAAATAAAT
1 TCATAAAATAAAT
51989802 TCATAAAATAAAT
1 TCATAAAATAAAT
51989815 TCATAA
1 TCATAA
51989821 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:51990067 original size:30 final size:30
Alignment explanation
Indices: 51990032--51990089 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
51990022 CCTCGACTCT
*
51990032 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
51990062 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
51990090 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:52000249 original size:31 final size:29
Alignment explanation
Indices: 52000214--52000284 Score: 72
Period size: 31 Copynumber: 2.3 Consensus size: 29
52000204 TTAATAAAGG
*
52000214 TAAAATTATACTTTAATCCTCCCTAAAATTA
1 TAAAATTATA-TTTAATCCTCCAT-AAATTA
*
52000245 TAAAAATTCA-ATTTAATCCTTCATAAATTA
1 T-AAAATT-ATATTTAATCCTCCATAAATTA
*
52000275 TAAAAATATA
1 TAAAATTATA
52000285 AACTATAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
28 1 0.03
29 6 0.18
30 7 0.21
31 12 0.35
32 7 0.21
33 1 0.03
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (29 bp):
TAAAATTATATTTAATCCTCCATAAATTA
Found at i:52001565 original size:6 final size:6
Alignment explanation
Indices: 52001554--52001581 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
52001544 TGAATTATTC
52001554 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTT
52001582 CTCACAATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (6 bp):
TTTTAT
Found at i:52002451 original size:19 final size:19
Alignment explanation
Indices: 52002415--52002453 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
52002405 AAAATATTTA
*
52002415 TTTTGATGTTTTTAATATT
1 TTTTGATGTTTATAATATT
52002434 TTTTGATGTATTATATATAT
1 TTTTGATGT-TTATA-ATAT
52002454 AAATTAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 4 0.24
21 4 0.24
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (19 bp):
TTTTGATGTTTATAATATT
Found at i:52002638 original size:25 final size:23
Alignment explanation
Indices: 52002610--52002662 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
52002600 CTATAAACAG
*
52002610 AATAATTATCCTTTGTTTTTAAATA
1 AATAATTAT-ATTT-TTTTTAAATA
*
52002635 AATAAATTATATTTTTTTTAAATG
1 AAT-AATTATATTTTTTTTAAATA
52002659 AATA
1 AATA
52002663 TATTTTCTTC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
23 1 0.04
24 12 0.48
25 6 0.24
26 6 0.24
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (23 bp):
AATAATTATATTTTTTTTAAATA
Found at i:52005084 original size:10 final size:11
Alignment explanation
Indices: 52005037--52005107 Score: 56
Period size: 11 Copynumber: 6.2 Consensus size: 11
52005027 TTTAAAGAAG
*
52005037 ATATATTAATA
1 ATATATTAAAA
52005048 ATA-ATTCAAAA
1 ATATATT-AAAA
*
52005059 AAAT-TTAAAA
1 ATATATTAAAA
*
52005069 GTAATACTTAAAA
1 AT-ATA-TTAAAA
52005082 ATATATTAAAA
1 ATATATTAAAA
52005093 ATTATATTTAAAA
1 A-TATA-TTAAAA
52005106 AT
1 AT
52005108 TAAGAATAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 13
0.73 0.08 0.20
Matches are distributed among these distances:
10 7 0.15
11 19 0.40
12 8 0.17
13 14 0.29
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (11 bp):
ATATATTAAAA
Found at i:52005090 original size:24 final size:23
Alignment explanation
Indices: 52005044--52005107 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
52005034 AAGATATATT
*
52005044 AATAATAATTCAAAAAAATTTAAA
1 AATAATAATT-AAAAATATTTAAA
* *
52005068 AGTAATACTTAAAAATATATTAAA
1 AATAATAATTAAAAATAT-TTAAA
* *
52005092 AATTATATTTAAAAAT
1 AATAATAATTAAAAAT
52005108 TAAGAATAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 7 0.21
24 26 0.79
ACGTcount: A:0.61, C:0.03, G:0.02, T:0.34
Consensus pattern (23 bp):
AATAATAATTAAAAATATTTAAA
Found at i:52005105 original size:13 final size:13
Alignment explanation
Indices: 52005061--52005109 Score: 57
Period size: 13 Copynumber: 3.9 Consensus size: 13
52005051 ATTCAAAAAA
* *
52005061 ATTTAAAAGTAAT
1 ATTTAAAAATTAT
*
52005074 ACTTAAAAA-TAT
1 ATTTAAAAATTAT
52005086 A-TTAAAAATTAT
1 ATTTAAAAATTAT
52005098 ATTTAAAAATTA
1 ATTTAAAAATTA
52005110 AGAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
11 7 0.23
12 7 0.23
13 17 0.55
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (13 bp):
ATTTAAAAATTAT
Found at i:52012466 original size:6 final size:6
Alignment explanation
Indices: 52012457--52012492 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
52012447 TCTTTTTCTT
*
52012457 TTTATA TTTATA TTTATA TTTATA TTTATA TATATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
52012493 ATTTCAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (6 bp):
TTTATA
Found at i:52044555 original size:22 final size:22
Alignment explanation
Indices: 52044527--52044569 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
52044517 CATTTTCTAA
52044527 TAGATTTAATGAATAAATTCAC
1 TAGATTTAATGAATAAATTCAC
52044549 TAGATTTAATGAATAAATTCA
1 TAGATTTAATGAATAAATTCA
52044570 ATATTTCAAT
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:0.07, G:0.09, T:0.37
Consensus pattern (22 bp):
TAGATTTAATGAATAAATTCAC
Found at i:52045186 original size:33 final size:33
Alignment explanation
Indices: 52045144--52045206 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
52045134 AAAAAAAAAT
*
52045144 TAACCATGGATTACAAATTTAATTATGGTAAAC
1 TAACCATGGATTACAAATTCAATTATGGTAAAC
52045177 TAACCATGGATTACAAATTCAATTATGGTA
1 TAACCATGGATTACAAATTCAATTATGGTA
52045207 CTATAGCTTA
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:0.41, C:0.13, G:0.13, T:0.33
Consensus pattern (33 bp):
TAACCATGGATTACAAATTCAATTATGGTAAAC
Found at i:52051991 original size:18 final size:18
Alignment explanation
Indices: 52051970--52052160 Score: 167
Period size: 18 Copynumber: 10.6 Consensus size: 18
52051960 TAACTGATTA
*
52051970 TTACTGAATAATTTACTG
1 TTACTGAATAATTGACTG
* *
52051988 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
* *
52052006 TTACTGGAT-ATTAAACTG
1 TTACTGAATAATT-GACTG
* * *
52052024 TTACTAAATAATTGAATA
1 TTACTGAATAATTGACTG
*
52052042 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
*
52052060 TTACTGAATAATTGATTG
1 TTACTGAATAATTGACTG
*
52052078 TCACTGAATGAATT-ACTG
1 TTACTGAAT-AATTGACTG
* *
52052096 TTACTGAATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
52052115 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
52052132 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
52052150 TTACTGGATAA
1 TTACTGAATAA
52052161 CCGATCAATT
Statistics
Matches: 143, Mismatches: 20, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
17 20 0.14
18 103 0.72
19 20 0.14
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:52052074 original size:72 final size:73
Alignment explanation
Indices: 52051957--52052159 Score: 204
Period size: 72 Copynumber: 2.8 Consensus size: 73
52051947 TAAAGGTATA
* * * * * * *
52051957 AAATAACTGATTATTACTGAATAATTTA-CTGTTACCGGATAATTGACTGTTACTGGATATTAA-
1 AAATAATTGAATATTACTGAATAATTGATC-ATTACTGAATAATTGACTGTTACTGGATATGAAT
52052020 ACTGTTACT
65 ACTGTTACT
* *
52052029 AAATAATTGAATATTACTGAATAATTGATCATTACTGAATAATTGATTGTCACT-GA-ATGAATT
1 AAATAATTGAATATTACTGAATAATTGATCATTACTGAATAATTGACTGTTACTGGATATGAA-T
52052092 ACTGTTACT
65 ACTGTTACT
* * *
52052101 GAATAACTT-AATTGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACTGTTACTGGATA
1 AAATAA-TTGAA-TATTACTGAATAAT-TGATCATTACTGAATAATTGACTGTTACTGGATA
52052160 ACCGATCAAT
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
70 4 0.04
71 2 0.02
72 83 0.76
73 19 0.17
74 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (73 bp):
AAATAATTGAATATTACTGAATAATTGATCATTACTGAATAATTGACTGTTACTGGATATGAATA
CTGTTACT
Found at i:52052207 original size:36 final size:36
Alignment explanation
Indices: 52052167--52052240 Score: 94
Period size: 36 Copynumber: 2.1 Consensus size: 36
52052157 ATAACCGATC
* **
52052167 AATTGATCGATACTGAATAACTGGTTATTATTGAAT
1 AATTGATCGATACCGAATAACTGACTATTATTGAAT
* * *
52052203 AATTGATTGTTACCGAATAATTGACTATTATTGAAT
1 AATTGATCGATACCGAATAACTGACTATTATTGAAT
52052239 AA
1 AA
52052241 ATAATTGTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.39
Consensus pattern (36 bp):
AATTGATCGATACCGAATAACTGACTATTATTGAAT
Found at i:52052238 original size:18 final size:18
Alignment explanation
Indices: 52052192--52052240 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
52052182 AATAACTGGT
*
52052192 TATTATTGAATAATTGAT
1 TATTATTGAATAATTGAC
* **
52052210 TGTTACCGAATAATTGAC
1 TATTATTGAATAATTGAC
52052228 TATTATTGAATAA
1 TATTATTGAATAA
52052241 ATAATTGTTC
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.12, T:0.43
Consensus pattern (18 bp):
TATTATTGAATAATTGAC
Found at i:52065983 original size:30 final size:30
Alignment explanation
Indices: 52065949--52066008 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
52065939 ATAATTAGAG
52065949 ATAGTTTAAAATTTTTGAGATTTTTTCTTC
1 ATAGTTTAAAATTTTTGAGATTTTTTCTTC
52065979 ATAGTTTAAAATTTTTGAGATTTTTTCTTC
1 ATAGTTTAAAATTTTTGAGATTTTTTCTTC
52066009 TTTTTTTCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.10, T:0.57
Consensus pattern (30 bp):
ATAGTTTAAAATTTTTGAGATTTTTTCTTC
Found at i:52079511 original size:17 final size:15
Alignment explanation
Indices: 52079484--52079517 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 15
52079474 CAGATAATTT
52079484 AATATTTAAAAAAATA
1 AATATTT-AAAAAATA
52079500 AATATGTTAAAAAATA
1 AATAT-TTAAAAAATA
52079516 AA
1 AA
52079518 AGTATAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.88
17 2 0.12
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (15 bp):
AATATTTAAAAAATA
Found at i:52081072 original size:13 final size:13
Alignment explanation
Indices: 52081054--52081079 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
52081044 TCTTTTTTTC
52081054 CTCGTTTATAGTT
1 CTCGTTTATAGTT
52081067 CTCGTTTATAGTT
1 CTCGTTTATAGTT
52081080 AGACTTCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (13 bp):
CTCGTTTATAGTT
Found at i:52084704 original size:1 final size:1
Alignment explanation
Indices: 52084698--52084731 Score: 50
Period size: 1 Copynumber: 34.0 Consensus size: 1
52084688 TTCTCCCTAA
* *
52084698 CCCCCCCCCCCCACCCCCCCCCCCCCCCACCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
52084732 ATTAAAGAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
1 29 1.00
ACGTcount: A:0.06, C:0.94, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:52084719 original size:16 final size:16
Alignment explanation
Indices: 52084698--52084731 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
52084688 TTCTCCCTAA
52084698 CCCCCCCCCCCCACCC
1 CCCCCCCCCCCCACCC
52084714 CCCCCCCCCCCCACCC
1 CCCCCCCCCCCCACCC
52084730 CC
1 CC
52084732 ATTAAAGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.94, G:0.00, T:0.00
Consensus pattern (16 bp):
CCCCCCCCCCCCACCC
Found at i:52085742 original size:4 final size:4
Alignment explanation
Indices: 52085727--52085770 Score: 70
Period size: 4 Copynumber: 10.8 Consensus size: 4
52085717 TATGTCAAGA
*
52085727 TATG TCATG TATG TATG TATG TATG TATA TATG TATG TATG TAT
1 TATG T-ATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
52085771 AATTTGAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
4 33 0.89
5 4 0.11
ACGTcount: A:0.27, C:0.02, G:0.20, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:52090493 original size:19 final size:19
Alignment explanation
Indices: 52090469--52090505 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52090459 TTATTATTGT
*
52090469 GTTTGTTTTATAAAAAATA
1 GTTTGTTTAATAAAAAATA
*
52090488 GTTTGTTTAATAGAAAAT
1 GTTTGTTTAATAAAAAAT
52090506 TACTTATAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (19 bp):
GTTTGTTTAATAAAAAATA
Found at i:52090710 original size:13 final size:14
Alignment explanation
Indices: 52090694--52090735 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
52090684 TTTTAATTTT
52090694 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
52090707 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
52090722 ATTTTAATTAATAT
1 ATTTTAA-TAATAT
52090736 TCTTTACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 10 0.42
16 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:52090726 original size:15 final size:16
Alignment explanation
Indices: 52090699--52090728 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
52090689 ATTTTATTTT
52090699 AATAATAAATTTTAAA
1 AATAATAAATTTTAAA
52090715 AATAAT-AATTTTAA
1 AATAATAAATTTTAA
52090729 TTAATATTCT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATAAATTTTAAA
Found at i:52090734 original size:16 final size:16
Alignment explanation
Indices: 52090687--52090734 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
52090677 TTTAATATTT
*
52090687 TAATTTTATTTTAATAA
1 TAATTTTA-ATTAATAA
*
52090704 TAAATTTTAA-AAATAA
1 T-AATTTTAATTAATAA
52090720 TAATTTTAATTAATA
1 TAATTTTAATTAATA
52090735 TTCTTTACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 8 0.31
16 10 0.38
17 1 0.04
18 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TAATTTTAATTAATAA
Found at i:52090787 original size:15 final size:15
Alignment explanation
Indices: 52090767--52090823 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
52090757 ATTCAATATT
52090767 AATATTTTAATAATA
1 AATATTTTAATAATA
*
52090782 AATATTTATTTCAATTATA
1 AATA--T-TTT-AATAATA
*
52090801 AATATATTAATAATA
1 AATATTTTAATAATA
*
52090816 AATGTTTT
1 AATATTTT
52090824 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 2 0.06
18 3 0.09
19 10 0.30
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:52090801 original size:19 final size:19
Alignment explanation
Indices: 52090769--52090805 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
52090759 TCAATATTAA
*
52090769 TATTTTAATAATAAATATT
1 TATTTCAATAATAAATATT
*
52090788 TATTTCAATTATAAATAT
1 TATTTCAATAATAAATAT
52090806 ATTAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TATTTCAATAATAAATATT
Found at i:52125761 original size:20 final size:20
Alignment explanation
Indices: 52125736--52125777 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
52125726 AACTAAAAAG
52125736 TTAATTCAAACCATGGTATC
1 TTAATTCAAACCATGGTATC
52125756 TTAATTCAAACCATGGTATC
1 TTAATTCAAACCATGGTATC
52125776 TT
1 TT
52125778 TGAAAATGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (20 bp):
TTAATTCAAACCATGGTATC
Found at i:52146273 original size:121 final size:121
Alignment explanation
Indices: 52146059--52146294 Score: 445
Period size: 121 Copynumber: 2.0 Consensus size: 121
52146049 GACGTTCATA
52146059 AGAATTGGATTACCTTGAAATCGCCCTCTTGCGTACTGATTCCTACATGTCAGCTAGGTTTGGCA
1 AGAATTGGATTACCTTGAAATCGCCCTCTTGCGTACTGATTCCTACATGTCAGCTAGGTTTGGCA
52146124 TGACATAGTACTGAGACAAATTAGATTTACCCTGAAATCAGTCCAAATATACCATG
66 TGACATAGTACTGAGACAAATTAGATTTACCCTGAAATCAGTCCAAATATACCATG
* *
52146180 AGAATTGGATTACCTTGAAATCGCCCTCTTGTGTACTGATTCCTACATGTTAGCTAGGTTTGGCA
1 AGAATTGGATTACCTTGAAATCGCCCTCTTGCGTACTGATTCCTACATGTCAGCTAGGTTTGGCA
*
52146245 TGACATAGTACTGTGACAAATTAGATTTACCCTGAAATCAGTCCAAATAT
66 TGACATAGTACTGAGACAAATTAGATTTACCCTGAAATCAGTCCAAATAT
52146295 GTGACGTAAA
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 112 1.00
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.31
Consensus pattern (121 bp):
AGAATTGGATTACCTTGAAATCGCCCTCTTGCGTACTGATTCCTACATGTCAGCTAGGTTTGGCA
TGACATAGTACTGAGACAAATTAGATTTACCCTGAAATCAGTCCAAATATACCATG
Found at i:52158926 original size:103 final size:102
Alignment explanation
Indices: 52158738--52158950 Score: 345
Period size: 103 Copynumber: 2.1 Consensus size: 102
52158728 GTAAAATTAT
* * *
52158738 GGAAAATGATTAAATAGCTTAAATGATAAAAGAAAGAGGGTTTAAAAGGCAAATAGACCCAATGT
1 GGAAAATTATTAAATAGCTTAAATGATAAAAGAAAGAGGGTTTAAAAGGAAAATAGACCCAAGGT
* *
52158803 CTTTTTGGGCTAGACAGCAAGGTGCATGAAATCAGCA
66 CTATTTGGGCTAGACAGCAAGGGGCATGAAATCAGCA
52158840 GGGAAAATTATTAAATAGCTTAAATGATAAAAGAAAGAGGGTTTAAAAGGAAAATAGACCCAAGG
1 -GGAAAATTATTAAATAGCTTAAATGATAAAAGAAAGAGGGTTTAAAAGGAAAATAGACCCAAGG
* * *
52158905 TCTATTTGGGCTGGACGGCAAGGGGCATGAAATCAGTA
65 TCTATTTGGGCTAGACAGCAAGGGGCATGAAATCAGCA
52158943 GGAAAATT
1 GGAAAATT
52158951 GATGAATTAA
Statistics
Matches: 102, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
102 8 0.08
103 94 0.92
ACGTcount: A:0.42, C:0.10, G:0.25, T:0.22
Consensus pattern (102 bp):
GGAAAATTATTAAATAGCTTAAATGATAAAAGAAAGAGGGTTTAAAAGGAAAATAGACCCAAGGT
CTATTTGGGCTAGACAGCAAGGGGCATGAAATCAGCA
Found at i:52160418 original size:14 final size:14
Alignment explanation
Indices: 52160399--52160425 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
52160389 AGTGATAAGT
52160399 GACAAGCGACAAGC
1 GACAAGCGACAAGC
52160413 GACAAGCGACAAG
1 GACAAGCGACAAG
52160426 TGATAAGTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.26, G:0.30, T:0.00
Consensus pattern (14 bp):
GACAAGCGACAAGC
Found at i:52160489 original size:51 final size:51
Alignment explanation
Indices: 52160413--52160526 Score: 192
Period size: 51 Copynumber: 2.2 Consensus size: 51
52160403 AGCGACAAGC
* * *
52160413 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACATTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
*
52160464 GACAAGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
52160515 GACAAGTGATAA
1 GACAAGTGATAA
52160527 ATGTGATCAG
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (51 bp):
GACAAGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
Found at i:52161844 original size:49 final size:49
Alignment explanation
Indices: 52161783--52162046 Score: 202
Period size: 49 Copynumber: 5.6 Consensus size: 49
52161773 ACATTAAAGT
*
52161783 CGATGCCGTGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * *
52161832 CGATGCCATGTCCCAGACAGGTCTTACACTG-GTTCTCATCTATCG-GTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTT-TCATATATCGAG-GC
* * *
52161881 CGATGCCATGTCCCAGACAGGTCTTACACTGAC--GC-----GC-AAGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
* * * * * *
52161922 TGACGCCATGTCTCAGATAGGTCTTACACT-AGC-TTCTATATCTCAAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGA-CTTTC-ATATATCGAGGC
* * *
52161971 CGATG-CATGTCCCAGACATGTCTTACACTAACTCTT-ATA-AT-GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTGACT-TTCATATATCGAGGC
* *
52162017 CGATG-CATGTCTCAGACATGTCTTACACTG
1 CGATGCCATGTCCCAGACAGGTCTTACACTG
52162047 GCTCACATAC
Statistics
Matches: 173, Mismatches: 26, Indels: 35
0.74 0.11 0.15
Matches are distributed among these distances:
40 1 0.01
41 28 0.16
42 2 0.01
46 31 0.18
47 2 0.01
48 29 0.17
49 78 0.45
50 2 0.01
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTGACTTTCATATATCGAGGC
Found at i:52161999 original size:48 final size:46
Alignment explanation
Indices: 52161928--52162045 Score: 141
Period size: 46 Copynumber: 2.5 Consensus size: 46
52161918 AAGCTGACGC
* * *
52161928 CATGTCTCAGATAGGTCTTACACTAGCT-TCTAT-ATCTCAAGGCCGATG
1 CATGTCTCAGACATGTCTTACACTAACTCT-TATAATCT---GGCCGATG
* *
52161976 CATGTCCCAGACATGTCTTACACTAACTCTTATAATGTGGCCGATG
1 CATGTCTCAGACATGTCTTACACTAACTCTTATAATCTGGCCGATG
52162022 CATGTCTCAGACATGTCTTACACT
1 CATGTCTCAGACATGTCTTACACT
52162046 GGCTCACATA
Statistics
Matches: 62, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 31 0.50
48 27 0.44
49 4 0.06
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (46 bp):
CATGTCTCAGACATGTCTTACACTAACTCTTATAATCTGGCCGATG
Found at i:52172141 original size:12 final size:12
Alignment explanation
Indices: 52172126--52172187 Score: 58
Period size: 12 Copynumber: 5.3 Consensus size: 12
52172116 TGTTATCAAT
52172126 TTATTATTATAA
1 TTATTATTATAA
**
52172138 TTATTATTATGG
1 TTATTATTATAA
*
52172150 TTTTTATT-TAA
1 TTATTATTATAA
*
52172161 ATATTATTATTAA
1 TTATTATTA-TAA
52172174 -TATTATTAT-A
1 TTATTATTATAA
52172184 TTAT
1 TTAT
52172188 GAAATAAAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
10 1 0.03
11 11 0.28
12 25 0.62
13 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.61
Consensus pattern (12 bp):
TTATTATTATAA
Found at i:52172460 original size:24 final size:23
Alignment explanation
Indices: 52172433--52172489 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 23
52172423 TATGTATTTG
52172433 TTATTAAATAGATATT-TATTATAA
1 TTATTAAATAG-TATTATATTA-AA
* *
52172457 TTATTATTATAGTTTTATATTAAA
1 TTATTA-AATAGTATTATATTAAA
52172481 TTATTAAAT
1 TTATTAAAT
52172490 TATGATTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 2 0.07
24 17 0.61
25 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
TTATTAAATAGTATTATATTAAA
Found at i:52172594 original size:3 final size:3
Alignment explanation
Indices: 52172580--52172646 Score: 63
Period size: 3 Copynumber: 23.3 Consensus size: 3
52172570 ATATTTATGA
52172580 ATT ATAT ATT ATT A-T ATT A-T ATT A-T ATT A-T ATT A-T ATT ATT
1 ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* *
52172621 ATA ATGT ATT ATT ATT ATT AAT ATT A
1 ATT AT-T ATT ATT ATT ATT ATT ATT A
52172647 GTAAGTAACA
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
2 10 0.19
3 38 0.72
4 5 0.09
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:52172595 original size:10 final size:10
Alignment explanation
Indices: 52172580--52172646 Score: 58
Period size: 10 Copynumber: 7.1 Consensus size: 10
52172570 ATATTTATGA
52172580 ATTATATATT
1 ATTATATATT
52172590 A-T-TATATT
1 ATTATATATT
52172598 A-TATTATATT
1 ATTA-TATATT
52172608 A-TATTATATT
1 ATTA-TATATT
52172618 ATTATA-ATGT
1 ATTATATAT-T
52172628 ATTAT-TATT
1 ATTATATATT
52172637 ATTA-ATATT
1 ATTATATATT
52172646 A
1 A
52172647 GTAAGTAACA
Statistics
Matches: 51, Mismatches: 0, Indels: 13
0.80 0.00 0.20
Matches are distributed among these distances:
8 8 0.16
9 13 0.25
10 28 0.55
11 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (10 bp):
ATTATATATT
Found at i:52172599 original size:5 final size:5
Alignment explanation
Indices: 52172580--52172619 Score: 64
Period size: 5 Copynumber: 8.0 Consensus size: 5
52172570 ATATTTATGA
52172580 ATTAT A-TATT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
1 ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT
52172620 TATAATGTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 2 0.06
5 29 0.88
6 2 0.06
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTAT
Found at i:52172600 original size:13 final size:13
Alignment explanation
Indices: 52172584--52172646 Score: 72
Period size: 13 Copynumber: 4.5 Consensus size: 13
52172574 TTATGAATTA
52172584 TATATTATTATAT
1 TATATTATTATAT
52172597 TATATTATATTATAT
1 TATA-T-TATTATAT
*
52172612 TATATTATTATAA
1 TATATTATTATAT
*
52172625 TGTATTATTATTAT
1 TATATTATTA-TAT
52172639 TAATATTA
1 T-ATATTA
52172647 GTAAGTAACA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
13 20 0.48
14 5 0.12
15 17 0.40
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
TATATTATTATAT
Found at i:52173569 original size:70 final size:75
Alignment explanation
Indices: 52173482--52173657 Score: 193
Period size: 70 Copynumber: 2.3 Consensus size: 75
52173472 ATGTGAAGAA
* *
52173482 ATTGGAAATTAAAAGTGATTTGAATT-AAGT-AATTGAATT-AT-G-AATTATGTGAATATTTGA
1 ATTGGAAACTAAAAGTGATTTGAATTGAA-TAAATTGAATTAATAGAAAATATGTGAATATTTGA
52173542 AA-GTATATTG
65 AATGTATATTG
* *
52173552 ATTGGAAACTAAGAGTGATTTGAATTGAATCAAATTGAATTGAATGAAGAAAATATGTGAGTATT
1 ATTGGAAACTAAAAGTGATTTGAATTGAAT-AAATTGAATT-AAT--AGAAAATATGTGAATATT
52173617 TGAAATGTATATTG
62 TGAAATGTATATTG
* * *
52173631 ATTGAAAAGTAATTAGTGATTTGAATT
1 ATTGGAAACTAA-AAGTGATTTGAATT
52173658 TGATTGGAAA
Statistics
Matches: 88, Mismatches: 7, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
70 25 0.28
71 2 0.02
72 9 0.10
74 2 0.02
77 1 0.01
78 18 0.20
79 18 0.20
80 13 0.15
ACGTcount: A:0.41, C:0.01, G:0.20, T:0.38
Consensus pattern (75 bp):
ATTGGAAACTAAAAGTGATTTGAATTGAATAAATTGAATTAATAGAAAATATGTGAATATTTGAA
ATGTATATTG
Found at i:52180898 original size:19 final size:19
Alignment explanation
Indices: 52180855--52180898 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
52180845 TGTTATTTAA
*
52180855 TAAAGAATAATGTTTCTTTC
1 TAAA-AATAATATTTCTTTC
* *
52180875 AAAAAATAATATTTCTTTT
1 TAAAAATAATATTTCTTTC
52180894 TAAAA
1 TAAAA
52180899 TCAAGGTAGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (19 bp):
TAAAAATAATATTTCTTTC
Found at i:52181058 original size:71 final size:71
Alignment explanation
Indices: 52180964--52181104 Score: 273
Period size: 71 Copynumber: 2.0 Consensus size: 71
52180954 AATTAATTCT
52180964 TTTAGAATTGTGATTGACTCTCGTAATACCGTGATCTCCAAAATTCAAATTTGAATTCTCCCCTA
1 TTTAGAATTGTGATTGACTCTCGTAATACCGTGATCTCCAAAATTCAAATTTGAATTCTCCCCTA
*
52181029 CCTAGC
66 ACTAGC
52181035 TTTAGAATTGTGATTGACTCTCGTAATACCGTGATCTCCAAAATTCAAATTTGAATTCTCCCCTA
1 TTTAGAATTGTGATTGACTCTCGTAATACCGTGATCTCCAAAATTCAAATTTGAATTCTCCCCTA
52181100 ACTAG
66 ACTAG
52181105 TATAATATAT
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
71 69 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (71 bp):
TTTAGAATTGTGATTGACTCTCGTAATACCGTGATCTCCAAAATTCAAATTTGAATTCTCCCCTA
ACTAGC
Found at i:52181247 original size:21 final size:21
Alignment explanation
Indices: 52181209--52181248 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
52181199 TTTACGGAGC
*
52181209 ATTTATTTTCTTTATTTAATT
1 ATTTATTTTCATTATTTAATT
52181230 ATTTATTTTACATT-TTTAA
1 ATTTATTTT-CATTATTTAA
52181249 GCTAATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTTATTTTCATTATTTAATT
Found at i:52182818 original size:14 final size:15
Alignment explanation
Indices: 52182785--52182819 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
52182775 AATTTTAAAG
*
52182785 AAAAATAGATATTAT
1 AAAAATAGATAATAT
*
52182800 AAAAATAGATAATGT
1 AAAAATAGATAATAT
52182815 AAAAA
1 AAAAA
52182820 AATCTTGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (15 bp):
AAAAATAGATAATAT
Found at i:52191826 original size:23 final size:24
Alignment explanation
Indices: 52191800--52191864 Score: 71
Period size: 24 Copynumber: 2.8 Consensus size: 24
52191790 AATATTGAAA
52191800 TTGATATTTGAGTTTTTTT-TAAT
1 TTGATATTTGAGTTTTTTTGTAAT
* *
52191823 TTGATA-TTAATTTTTTATTGTAAT
1 TTGATATTTGAGTTTTT-TTGTAAT
**
52191847 TAAATATTTGAGTTTTTT
1 TTGATATTTGAGTTTTTT
52191865 AATATTTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
22 8 0.24
23 8 0.24
24 9 0.27
25 8 0.24
ACGTcount: A:0.26, C:0.00, G:0.11, T:0.63
Consensus pattern (24 bp):
TTGATATTTGAGTTTTTTTGTAAT
Found at i:52206609 original size:15 final size:15
Alignment explanation
Indices: 52206589--52206620 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
52206579 TCTGCTGGGT
52206589 CTCTTCAGCTTTCTG
1 CTCTTCAGCTTTCTG
52206604 CTCTTCAGCTTTCTG
1 CTCTTCAGCTTTCTG
52206619 CT
1 CT
52206621 TCTTGGTCAG
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:0.06, C:0.34, G:0.12, T:0.47
Consensus pattern (15 bp):
CTCTTCAGCTTTCTG
Found at i:52210182 original size:33 final size:37
Alignment explanation
Indices: 52210145--52210225 Score: 84
Period size: 33 Copynumber: 2.3 Consensus size: 37
52210135 TATTTTCAAG
52210145 CAATAAATATTAAT-TATTTATAAA-ATTT-AAT-T-A
1 CAATAAATATTAATATATTT-TAAATATTTAAATATAA
* *
52210178 CAATATATA-AAATATATTTTAAATATTTAAATATAA
1 CAATAAATATTAATATATTTTAAATATTTAAATATAA
52210214 CAATTAAATATT
1 CAA-TAAATATT
52210226 TGTAATTAGT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
32 7 0.19
33 17 0.46
34 3 0.08
35 1 0.03
36 4 0.11
37 5 0.14
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (37 bp):
CAATAAATATTAATATATTTTAAATATTTAAATATAA
Found at i:52213124 original size:20 final size:20
Alignment explanation
Indices: 52213087--52213124 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
52213077 TGTGGATTCC
**
52213087 ACACGCCTGTGTGGCTTGGG
1 ACACGCCTGTGTCCCTTGGG
52213107 ACACGCCTGTGTCCCTTG
1 ACACGCCTGTGTCCCTTG
52213125 TCTGTGGAGC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.32, G:0.32, T:0.26
Consensus pattern (20 bp):
ACACGCCTGTGTCCCTTGGG
Found at i:52215984 original size:37 final size:37
Alignment explanation
Indices: 52215929--52216027 Score: 173
Period size: 37 Copynumber: 2.7 Consensus size: 37
52215919 CACTTATCTC
52215929 TTGTC-CTTGATCAGATAAGTGTAGCCACCTATCACT
1 TTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACT
* *
52215965 TTGTTTCTTGATCAGATAAGTGTAGCCACTTATCACT
1 TTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACT
52216002 TTGTCTCTTGATCAGATAAGTGTAGC
1 TTGTCTCTTGATCAGATAAGTGTAGC
52216028 TAAAGCTATC
Statistics
Matches: 59, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
36 4 0.07
37 55 0.93
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (37 bp):
TTGTCTCTTGATCAGATAAGTGTAGCCACCTATCACT
Found at i:52216070 original size:52 final size:52
Alignment explanation
Indices: 52215991--52216109 Score: 184
Period size: 52 Copynumber: 2.2 Consensus size: 52
52215981 TAAGTGTAGC
* * *
52215991 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTATCACTTAT
1 CACTTTTCAC-TTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
*
52216044 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTAT
1 CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
52216096 CACTTTGTCACTTG
1 CACTTT-TCACTTG
52216110 ATCAGAAGTA
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
52 45 0.74
53 16 0.26
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (52 bp):
CACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCAAAGCTATCACTTAT
Found at i:52219157 original size:24 final size:24
Alignment explanation
Indices: 52219129--52219176 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
52219119 GATAATCATA
52219129 TATGTACATGTCATGAAACATATC
1 TATGTACATGTCATGAAACATATC
52219153 TATGTACATGTCATGAAACATATC
1 TATGTACATGTCATGAAACATATC
52219177 ATTCTCTTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (24 bp):
TATGTACATGTCATGAAACATATC
Found at i:52219581 original size:46 final size:46
Alignment explanation
Indices: 52219531--52219640 Score: 132
Period size: 46 Copynumber: 2.4 Consensus size: 46
52219521 GCCATAGTGC
*
52219531 CTTTCAACTATGGTCTTACTCATTTTC-TGTCAGATTGCCATGGTAT
1 CTTTCAACCATGGTCTTACTCA-TTTCATGTCAGATTGCCATGGTAT
* ** * * *
52219577 CTTTCAACCATTGTCTTGTTTATTTCATGTTATATTGCCATGGTAT
1 CTTTCAACCATGGTCTTACTCATTTCATGTCAGATTGCCATGGTAT
*
52219623 CTTTCAACGATGGTCTTA
1 CTTTCAACCATGGTCTTA
52219641 TTAATTCCCG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
45 4 0.08
46 49 0.92
ACGTcount: A:0.20, C:0.20, G:0.15, T:0.45
Consensus pattern (46 bp):
CTTTCAACCATGGTCTTACTCATTTCATGTCAGATTGCCATGGTAT
Found at i:52219812 original size:46 final size:46
Alignment explanation
Indices: 52219745--52219938 Score: 343
Period size: 46 Copynumber: 4.2 Consensus size: 46
52219735 AATTTGGCTG
52219745 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTC
1 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTC
*
52219791 TTACACATTTCATATCATGTTGCAATGGTATCTTTCAACCATGGTC
1 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTC
* * *
52219837 TTACACATTTTATATCCTGTTGCCATGGTATTTTTCAACCATGGTC
1 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTC
*
52219883 TTACACATTTCATATAATGTTGCCATGGTATCTTTCAACCATGGTC
1 TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTC
52219929 TTACACATTT
1 TTACACATTT
52219939 TGTAATACCC
Statistics
Matches: 139, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 139 1.00
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.41
Consensus pattern (46 bp):
TTACACATTTCATATCATGTTGCCATGGTATCTTTCAACCATGGTC
Found at i:52221519 original size:51 final size:51
Alignment explanation
Indices: 52221459--52221559 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
52221449 AAGAATTGAA
** *
52221459 CTCACATATGTCAAAGTATGAAAAACCAGCAACTTTCAGACCTCCCATGGC
1 CTCACATATGTCAAAGTATGAAAAAAAAGCAACTTCCAGACCTCCCATGGC
*
52221510 CTCACATATGTCAAAGTATGAAAAAAAAGCAGCTTCCAGACCTCCCATGG
1 CTCACATATGTCAAAGTATGAAAAAAAAGCAACTTCCAGACCTCCCATGG
52221560 TGTTTTTGCT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.37, C:0.28, G:0.15, T:0.21
Consensus pattern (51 bp):
CTCACATATGTCAAAGTATGAAAAAAAAGCAACTTCCAGACCTCCCATGGC
Found at i:52223385 original size:58 final size:58
Alignment explanation
Indices: 52223315--52223431 Score: 225
Period size: 58 Copynumber: 2.0 Consensus size: 58
52223305 TCTAGAGATA
*
52223315 TAGAACTCCAAATTAAGATTAGATAATTTTCGCTGAACCTAGACTCATATATCTTCTT
1 TAGAACTCCAAATTAAGATTAGATAATTTTCCCTGAACCTAGACTCATATATCTTCTT
52223373 TAGAACTCCAAATTAAGATTAGATAATTTTCCCTGAACCTAGACTCATATATCTTCTT
1 TAGAACTCCAAATTAAGATTAGATAATTTTCCCTGAACCTAGACTCATATATCTTCTT
52223431 T
1 T
52223432 CCATAAAATT
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (58 bp):
TAGAACTCCAAATTAAGATTAGATAATTTTCCCTGAACCTAGACTCATATATCTTCTT
Found at i:52250337 original size:29 final size:29
Alignment explanation
Indices: 52250305--52250366 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
52250295 TTAACTTTTT
* *
52250305 ATATTAATGGTTTTATATGCTAACGTAAG
1 ATATGAATGGATTTATATGCTAACGTAAG
* * * *
52250334 ATATGGATGGATTTATATTCTAATGTCAG
1 ATATGAATGGATTTATATGCTAACGTAAG
52250363 ATAT
1 ATAT
52250367 ATGCTTTCAC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.06, G:0.18, T:0.42
Consensus pattern (29 bp):
ATATGAATGGATTTATATGCTAACGTAAG
Found at i:52258047 original size:15 final size:16
Alignment explanation
Indices: 52258017--52258049 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
52258007 ATTTAGAATT
*
52258017 TATTTAATCTTTAAAA
1 TATTTAATCATTAAAA
52258033 TATTTAAT-ATTAAAA
1 TATTTAATCATTAAAA
52258048 TA
1 TA
52258050 ATACAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTAATCATTAAAA
Found at i:52258207 original size:21 final size:22
Alignment explanation
Indices: 52258183--52258223 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
52258173 TAGTTAATAT
*
52258183 TAAACT-TTTTTTAAAATTTTA
1 TAAACTATTTTTGAAAATTTTA
52258204 TAAACTATTTTTGAAAATTT
1 TAAACTATTTTTGAAAATTT
52258224 GCTTATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (22 bp):
TAAACTATTTTTGAAAATTTTA
Found at i:52276381 original size:9 final size:9
Alignment explanation
Indices: 52276367--52276395 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
52276357 TGATCTAAGA
52276367 TTTCAATTC
1 TTTCAATTC
52276376 TTTCAATTC
1 TTTCAATTC
52276385 TTTCAATTC
1 TTTCAATTC
52276394 TT
1 TT
52276396 CCATATTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTCAATTC
Found at i:52276568 original size:33 final size:33
Alignment explanation
Indices: 52276526--52276591 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
52276516 AAAGCCATCT
52276526 TTTTTCTCAAAAATGTCTTTGCCATTTGATCCA
1 TTTTTCTCAAAAATGTCTTTGCCATTTGATCCA
* *
52276559 TTTTTCTCAACAATGTCTTTTCCATTTGATCCA
1 TTTTTCTCAAAAATGTCTTTGCCATTTGATCCA
52276592 ATAGTCTTCC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.23, C:0.23, G:0.08, T:0.47
Consensus pattern (33 bp):
TTTTTCTCAAAAATGTCTTTGCCATTTGATCCA
Found at i:52276687 original size:12 final size:12
Alignment explanation
Indices: 52276670--52276694 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52276660 AAAAATCCAT
52276670 TAGATAATGAAC
1 TAGATAATGAAC
52276682 TAGATAATGAAC
1 TAGATAATGAAC
52276694 T
1 T
52276695 GTTGGTTCTA
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:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (12 bp):
TAGATAATGAAC
Found at i:52285692 original size:23 final size:23
Alignment explanation
Indices: 52285612--52285696 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 23
52285602 TGATCAGTAG
52285612 ACGACACATAAAGTGCCT-AAA-
1 ACGACACATAAAGTGCCTGAAAT
** *
52285633 ACGACACACGAGGTGCCTG--AT
1 ACGACACATAAAGTGCCTGAAAT
*
52285654 ACGACACA-AGAGGTGCCTGAAAT
1 ACGACACATA-AAGTGCCTGAAAT
52285677 ACGACACATAAAGTGCCTGA
1 ACGACACATAAAGTGCCTGA
52285697 TCAGTAAAGC
Statistics
Matches: 53, Mismatches: 5, Indels: 10
0.78 0.07 0.15
Matches are distributed among these distances:
20 1 0.02
21 32 0.60
23 19 0.36
24 1 0.02
ACGTcount: A:0.39, C:0.25, G:0.22, T:0.14
Consensus pattern (23 bp):
ACGACACATAAAGTGCCTGAAAT
Found at i:52286248 original size:114 final size:114
Alignment explanation
Indices: 52286048--52286392 Score: 690
Period size: 114 Copynumber: 3.0 Consensus size: 114
52286038 TCCTTTCCTT
52286048 TGTGCGCCGATGTCTTGGGTTCTTTGTTAACAATTAAACTCCAAGCTTCAAAAACCCTATTTCCC
1 TGTGCGCCGATGTCTTGGGTTCTTTGTTAACAATTAAACTCCAAGCTTCAAAAACCCTATTTCCC
52286113 TTTTTCTCTCTTTTATTTTCTTCTTTCCTTCCCCTGCTCGAATGCTTTC
66 TTTTTCTCTCTTTTATTTTCTTCTTTCCTTCCCCTGCTCGAATGCTTTC
52286162 TGTGCGCCGATGTCTTGGGTTCTTTGTTAACAATTAAACTCCAAGCTTCAAAAACCCTATTTCCC
1 TGTGCGCCGATGTCTTGGGTTCTTTGTTAACAATTAAACTCCAAGCTTCAAAAACCCTATTTCCC
52286227 TTTTTCTCTCTTTTATTTTCTTCTTTCCTTCCCCTGCTCGAATGCTTTC
66 TTTTTCTCTCTTTTATTTTCTTCTTTCCTTCCCCTGCTCGAATGCTTTC
52286276 TGTGCGCCGATGTCTTGGGTTCTTTGTTAACAATTAAACTCCAAGCTTCAAAAACCCTATTTCCC
1 TGTGCGCCGATGTCTTGGGTTCTTTGTTAACAATTAAACTCCAAGCTTCAAAAACCCTATTTCCC
52286341 TTTTTCTCTCTTTTATTTTCTTCTTTCCTTCCCCTGCTCGAATGCTTTC
66 TTTTTCTCTCTTTTATTTTCTTCTTTCCTTCCCCTGCTCGAATGCTTTC
52286390 TGT
1 TGT
52286393 TCTTTTTTCT
Statistics
Matches: 231, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 231 1.00
ACGTcount: A:0.17, C:0.28, G:0.12, T:0.44
Consensus pattern (114 bp):
TGTGCGCCGATGTCTTGGGTTCTTTGTTAACAATTAAACTCCAAGCTTCAAAAACCCTATTTCCC
TTTTTCTCTCTTTTATTTTCTTCTTTCCTTCCCCTGCTCGAATGCTTTC
Found at i:52288816 original size:28 final size:28
Alignment explanation
Indices: 52288776--52288838 Score: 108
Period size: 28 Copynumber: 2.2 Consensus size: 28
52288766 GTCATTATCA
52288776 ACCCCATAAGTTATAAAACTCTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
* *
52288804 ACCCCATAAGTTATGAAACTTTTCCTAT
1 ACCCCATAAGTTATAAAACTCTTCCTAT
52288832 ACCCCAT
1 ACCCCAT
52288839 TAATATGGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.32
Consensus pattern (28 bp):
ACCCCATAAGTTATAAAACTCTTCCTAT
Found at i:52288996 original size:29 final size:29
Alignment explanation
Indices: 52288963--52289020 Score: 98
Period size: 29 Copynumber: 2.0 Consensus size: 29
52288953 AAGAAGATAG
52288963 ACTCTCTCTTCCATATTATCTCTACACTC
1 ACTCTCTCTTCCATATTATCTCTACACTC
* *
52288992 ACTCTCTCTTCTATATTCTCTCTACACTC
1 ACTCTCTCTTCCATATTATCTCTACACTC
52289021 TTTCTTCTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.19, C:0.38, G:0.00, T:0.43
Consensus pattern (29 bp):
ACTCTCTCTTCCATATTATCTCTACACTC
Found at i:52289019 original size:25 final size:27
Alignment explanation
Indices: 52288963--52289030 Score: 77
Period size: 29 Copynumber: 2.5 Consensus size: 27
52288953 AAGAAGATAG
*
52288963 ACTCTCTCTTCCATATTATCTCTACACTC
1 ACTCTCTCTTCTATATTATCTCTA-AC-C
*
52288992 ACTCTCTCTTCTATATTCTCTCT-A-C
1 ACTCTCTCTTCTATATTATCTCTAACC
*
52289017 ACTCTTTCTTCTAT
1 ACTCTCTCTTCTAT
52289031 CACATTTTAG
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
25 14 0.39
27 1 0.03
29 21 0.58
ACGTcount: A:0.18, C:0.35, G:0.00, T:0.47
Consensus pattern (27 bp):
ACTCTCTCTTCTATATTATCTCTAACC
Found at i:52290949 original size:30 final size:30
Alignment explanation
Indices: 52290904--52290962 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
52290894 ATTAATAAGT
*
52290904 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATACCTCTAAAATAATAACAAAATTAAC
* *
52290934 AAATACCTTTAAAATAATAATAAAATTAA
1 AAATACCTCTAAAATAATAACAAAATTAA
52290963 TAATAAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (30 bp):
AAATACCTCTAAAATAATAACAAAATTAAC
Found at i:52290965 original size:12 final size:12
Alignment explanation
Indices: 52290943--52290971 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
52290933 CAAATACCTT
52290943 TAAAA-TAATAA
1 TAAAATTAATAA
52290954 TAAAATTAATAA
1 TAAAATTAATAA
52290966 TAAAAT
1 TAAAAT
52290972 AAATTTTATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
TAAAATTAATAA
Found at i:52295723 original size:14 final size:14
Alignment explanation
Indices: 52295704--52295734 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
52295694 TTAATTAAAA
52295704 ATATTTTTAAATAT
1 ATATTTTTAAATAT
*
52295718 ATATTTTTAAATCT
1 ATATTTTTAAATAT
52295732 ATA
1 ATA
52295735 AGAGTGTAGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
ATATTTTTAAATAT
Found at i:52296479 original size:12 final size:12
Alignment explanation
Indices: 52296464--52296488 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
52296454 TTTGTTTTAA
52296464 TTTATATTTTGG
1 TTTATATTTTGG
52296476 TTTATATTTTGG
1 TTTATATTTTGG
52296488 T
1 T
52296489 GTGTAAAAGA
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:0.16, C:0.00, G:0.16, T:0.68
Consensus pattern (12 bp):
TTTATATTTTGG
Found at i:52296908 original size:23 final size:24
Alignment explanation
Indices: 52296871--52296918 Score: 64
Period size: 22 Copynumber: 2.0 Consensus size: 24
52296861 AAGGATAATC
52296871 ATTTAAAAATATTT-ATG-ATAAA
1 ATTTAAAAATATTTAATGTATAAA
*
52296893 ATTTAAATAATTTTTAATGTATAAA
1 ATTTAAA-AATATTTAATGTATAAA
52296918 A
1 A
52296919 ATATATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 7 0.32
23 6 0.27
24 3 0.14
25 6 0.27
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (24 bp):
ATTTAAAAATATTTAATGTATAAA
Found at i:52309292 original size:50 final size:51
Alignment explanation
Indices: 52309214--52309314 Score: 177
Period size: 50 Copynumber: 2.0 Consensus size: 51
52309204 TCTTTTCTCA
*
52309214 ACTTATTTGAACAAACTGCCCCTATAGAGGCTTCCTTGGATTGAAGAGCGT
1 ACTTATTTGAACAAACTGCCCCTATAGAGACTTCCTTGGATTGAAGAGCGT
*
52309265 ACTTATTTGAACAAACTG-CCCTATAGAGACTTGCTTGGATTGAAGAGCGT
1 ACTTATTTGAACAAACTGCCCCTATAGAGACTTCCTTGGATTGAAGAGCGT
52309315 CTTGGCAACT
Statistics
Matches: 48, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
50 30 0.62
51 18 0.38
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (51 bp):
ACTTATTTGAACAAACTGCCCCTATAGAGACTTCCTTGGATTGAAGAGCGT
Found at i:52315218 original size:14 final size:15
Alignment explanation
Indices: 52315186--52315231 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
52315176 ATTGTTTACT
*
52315186 TATTATTTA-AGTAAA
1 TATTATTTATA-TTAA
52315201 TATTA-TTATATTAA
1 TATTATTTATATTAA
52315215 TATTATTTTATATTAA
1 TATTA-TTTATATTAA
52315231 T
1 T
52315232 TAAATAGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 11 0.41
15 6 0.22
16 10 0.37
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (15 bp):
TATTATTTATATTAA
Found at i:52316013 original size:4 final size:4
Alignment explanation
Indices: 52316004--52316033 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
52315994 GAGCAAACGT
52316004 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA AA
52316034 TAGAAAAGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:52316860 original size:47 final size:47
Alignment explanation
Indices: 52316796--52316906 Score: 154
Period size: 47 Copynumber: 2.4 Consensus size: 47
52316786 GACATTGAGT
*
52316796 CGATG-AGACACTATGTGT-CGACTACTGTTAAAGTTCCGGATTTGTTC
1 CGATGAAG-CACTATGTGTACGA-TAATGTTAAAGTTCCGGATTTGTTC
* * *
52316843 CGATGAAGTACTTTGTGTACTATAATGTTAAAGTTCCGGATTTGTTC
1 CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
52316890 CGATGAAGCACTATGTG
1 CGATGAAGCACTATGTG
52316907 CTTATCCCGG
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
47 52 0.93
48 4 0.07
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.35
Consensus pattern (47 bp):
CGATGAAGCACTATGTGTACGATAATGTTAAAGTTCCGGATTTGTTC
Found at i:52322805 original size:21 final size:23
Alignment explanation
Indices: 52322763--52322816 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
52322753 TTTAAAAATG
52322763 TTTTAAATTTTAATCAATTAT-A
1 TTTTAAATTTTAATCAATTATAA
*
52322785 TTTTGAATTTTAATC-ATTATAA
1 TTTTAAATTTTAATCAATTATAA
*
52322807 TTTTTAATTT
1 TTTTAAATTT
52322817 ATTCTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (23 bp):
TTTTAAATTTTAATCAATTATAA
Found at i:52327587 original size:75 final size:75
Alignment explanation
Indices: 52327506--52327681 Score: 235
Period size: 75 Copynumber: 2.3 Consensus size: 75
52327496 TTGTGCCAGT
* * * *
52327506 CTCCCCCTCCCCCACCACCACTCCCTCCATCCTCAGCTACATCTCCATCTTCTTCTGTAAAGAAT
1 CTCCCCCTCCCCCTCCACCACTCCCTCCATCCTCAGCCACATCTCCATCTTCTACCGTAAAGAAT
* *
52327571 TCGTTTTCAG
66 TCATCTTCAG
* * * *
52327581 CTCCCCCTCCCCCTCCCCCACTCCCTCCATTCTCAGCCATATCTCCATCTTCTACCGTAAATAAT
1 CTCCCCCTCCCCCTCCACCACTCCCTCCATCCTCAGCCACATCTCCATCTTCTACCGTAAAGAAT
52327646 TCATCTTCAG
66 TCATCTTCAG
* * *
52327656 CTTCCCCTCCTCCTCCGCCACTCCCT
1 CTCCCCCTCCCCCTCCACCACTCCCT
52327682 AACGTGGCTT
Statistics
Matches: 88, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
75 88 1.00
ACGTcount: A:0.16, C:0.49, G:0.05, T:0.29
Consensus pattern (75 bp):
CTCCCCCTCCCCCTCCACCACTCCCTCCATCCTCAGCCACATCTCCATCTTCTACCGTAAAGAAT
TCATCTTCAG
Found at i:52330245 original size:17 final size:18
Alignment explanation
Indices: 52330223--52330260 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
52330213 AAAAAAAAGG
*
52330223 TAATACCATGAA-CAAAA
1 TAATACCATCAATCAAAA
*
52330240 TAATACCCTCAATCAAAA
1 TAATACCATCAATCAAAA
52330258 TAA
1 TAA
52330261 AAGAATGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.55, C:0.21, G:0.03, T:0.21
Consensus pattern (18 bp):
TAATACCATCAATCAAAA
Found at i:52338967 original size:21 final size:21
Alignment explanation
Indices: 52338921--52338968 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
52338911 TTATTTAAAT
*
52338921 AAATTTTTTTAAATAATTTGA
1 AAATTATTTTAAATAATTTGA
* *
52338942 TAATTATTTTATAAT-ATTTTA
1 AAATTATTTTA-AATAATTTGA
52338963 AAATTA
1 AAATTA
52338969 AATAATCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 19 0.86
22 3 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (21 bp):
AAATTATTTTAAATAATTTGA
Found at i:52339589 original size:21 final size:21
Alignment explanation
Indices: 52339546--52339589 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
52339536 ACATCAAAAC
* * * *
52339546 AGGCTTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCAGCGCTTCTT
52339567 AGGCCTTTAGCAGCGCTTCTT
1 AGGCCTTTAGCAGCGCTTCTT
52339588 AG
1 AG
52339590 CGCCGCTAAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.20, G:0.27, T:0.39
Consensus pattern (21 bp):
AGGCCTTTAGCAGCGCTTCTT
Found at i:52339729 original size:43 final size:43
Alignment explanation
Indices: 52339681--52339889 Score: 319
Period size: 43 Copynumber: 4.9 Consensus size: 43
52339671 TTATGAGGCA
* * *
52339681 AAACGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
52339724 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCCTTACCCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
52339767 AAACGCTGCTAAAGAACATGATCTTTAGCGGCGCTTTAAACAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
52339810 AAATGCCGCTAAAGAACATGATCTTTAGCGACGCTTTAACCAC
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
* *
52339853 AAACGCCGCTAAAAAACATGATCTTTAGCGACGCTTT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTT
52339890 TGATAAAAGC
Statistics
Matches: 153, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 153 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCGCTTTAACCAC
Found at i:52344293 original size:16 final size:16
Alignment explanation
Indices: 52344260--52344299 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
52344250 TTTCGGGTAT
52344260 GGGAA-AAA-TTGAAG
1 GGGAATAAATTTGAAG
*
52344274 GGGAATAAATTTGGAG
1 GGGAATAAATTTGAAG
52344290 GGGAATAAAT
1 GGGAATAAAT
52344300 ATTTCAACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.22
15 3 0.13
16 15 0.65
ACGTcount: A:0.45, C:0.00, G:0.35, T:0.20
Consensus pattern (16 bp):
GGGAATAAATTTGAAG
Found at i:52344677 original size:47 final size:48
Alignment explanation
Indices: 52344619--52344717 Score: 182
Period size: 47 Copynumber: 2.1 Consensus size: 48
52344609 CATAGTTTTG
*
52344619 TTTAAGTAATATTTATAAAAATTAGATAAAATTATAAATTTTAGT-TT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
52344666 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
1 TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
52344714 TTTA
1 TTTA
52344718 TTTCATTTTT
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 44 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (48 bp):
TTTAAGTAATATTTATAAAAATTAGATAAAATTAAAAATTTTAGTGTT
Found at i:52344731 original size:25 final size:26
Alignment explanation
Indices: 52344703--52344755 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 26
52344693 AAAATTAAAA
* *
52344703 ATTTTAGTGTTTTTATTTCATTT-TT
1 ATTTTAGTATTTTAATTTCATTTCTT
* *
52344728 ATTTTTGTATTTTAATTTTATTTCTT
1 ATTTTAGTATTTTAATTTCATTTCTT
52344754 AT
1 AT
52344756 AATTTGGTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.19, C:0.04, G:0.06, T:0.72
Consensus pattern (26 bp):
ATTTTAGTATTTTAATTTCATTTCTT
Found at i:52344738 original size:19 final size:18
Alignment explanation
Indices: 52344702--52344755 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
52344692 TAAAATTAAA
52344702 AATTTTAGTGTTTTTATTTC
1 AATTTTA-T-TTTTTATTTC
* *
52344722 ATTTTTATTTTTGTATTTT
1 AATTTTATTTTT-TATTTC
*
52344741 AATTTTATTTCTTAT
1 AATTTTATTTTTTAT
52344756 AATTTGGTCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.20, C:0.04, G:0.06, T:0.70
Consensus pattern (18 bp):
AATTTTATTTTTTATTTC
Found at i:52345086 original size:22 final size:22
Alignment explanation
Indices: 52345061--52345127 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 22
52345051 CCGACCCTTG
* *
52345061 AATCCTTAAGTCATAACCCCTA
1 AATCCCTAACTCATAACCCCTA
*
52345083 AATCCCTAACTCTTAACCCCT-
1 AATCCCTAACTCATAACCCCTA
*
52345104 AACCCCTAAC-CACTAACCCCTA
1 AATCCCTAACTCA-TAACCCCTA
52345126 AA
1 AA
52345128 CCTTAAATCC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 1 0.03
21 17 0.45
22 20 0.53
ACGTcount: A:0.36, C:0.40, G:0.01, T:0.22
Consensus pattern (22 bp):
AATCCCTAACTCATAACCCCTA
Found at i:52345106 original size:7 final size:7
Alignment explanation
Indices: 52345074--52345126 Score: 61
Period size: 7 Copynumber: 7.4 Consensus size: 7
52345064 CCTTAAGTCA
52345074 TAACCCC
1 TAACCCC
*
52345081 TAAATCCC
1 T-AACCCC
* *
52345089 TAACTCT
1 TAACCCC
52345096 TAACCCC
1 TAACCCC
52345103 TAACCCC
1 TAACCCC
*
52345110 TAACCAC
1 TAACCCC
52345117 TAACCCC
1 TAACCCC
52345124 TAA
1 TAA
52345127 ACCTTAAATC
Statistics
Matches: 37, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
7 31 0.84
8 6 0.16
ACGTcount: A:0.34, C:0.45, G:0.00, T:0.21
Consensus pattern (7 bp):
TAACCCC
Found at i:52345140 original size:21 final size:21
Alignment explanation
Indices: 52345074--52345151 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
52345064 CCTTAAGTCA
* *
52345074 TAACCCCTAAATCCCTAACTCT
1 TAACCCCTAAA-CCCTAAATCC
* *
52345096 TAACCCCTAACCCCT-AACCAC
1 TAACCCCTAAACCCTAAATC-C
*
52345117 TAACCCCTAAACCTTAAATCC
1 TAACCCCTAAACCCTAAATCC
**
52345138 TAACCTTTAAACCC
1 TAACCCCTAAACCC
52345152 ATAATCCATA
Statistics
Matches: 44, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.05
21 29 0.66
22 13 0.30
ACGTcount: A:0.35, C:0.42, G:0.00, T:0.23
Consensus pattern (21 bp):
TAACCCCTAAACCCTAAATCC
Done.