Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 ID=Chr08-JGI_221_v2.0
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: 57128820
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 677448 characters in sequence are not A, C, G, or T
File 177 of 190
Found at i:51504883 original size:19 final size:18
Alignment explanation
Indices: 51504821--51504892 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 18
51504811 AAAAATTACA
*
51504821 AAAAAATCAAAATAATTTT
1 AAAAATTCAAAAT-ATTTT
*
51504840 AAAAAATTCAAAGTAAATTTT
1 -AAAAATTCAAA--ATATTTT
51504861 -AAAATTCAAAATATTTAT
1 AAAAATTCAAAATATTT-T
51504879 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
51504893 TTATATTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
17 5 0.11
18 1 0.02
19 16 0.36
20 16 0.36
21 5 0.11
22 1 0.02
ACGTcount: A:0.60, C:0.07, G:0.01, T:0.32
Consensus pattern (18 bp):
AAAAATTCAAAATATTTT
Found at i:51541432 original size:20 final size:20
Alignment explanation
Indices: 51541407--51541444 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
51541397 TATATTTTTA
51541407 TTTTTTAATTTTAAAATACT
1 TTTTTTAATTTTAAAATACT
*
51541427 TTTTTTATTTTTAAAATA
1 TTTTTTAATTTTAAAATA
51541445 AATTTTTGGT
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:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTTTAATTTTAAAATACT
Found at i:51541450 original size:20 final size:20
Alignment explanation
Indices: 51541406--51541451 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
51541396 ATATATTTTT
*
51541406 ATTTTTTAATTTTAAAATAC
1 ATTTTTTAATTTTAAAATAA
* *
51541426 TTTTTTTATTTTTAAAATAA
1 ATTTTTTAATTTTAAAATAA
51541446 ATTTTT
1 ATTTTT
51541452 GGTGTTTATT
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:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTTTAATTTTAAAATAA
Found at i:51543482 original size:22 final size:23
Alignment explanation
Indices: 51543456--51543504 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
51543446 TATTTTTTGA
*
51543456 TTTTATTGA-AAATTTTAGAAGT
1 TTTTATTGATAAATATTAGAAGT
* *
51543478 TTTTATTGATGAATATTAGATGT
1 TTTTATTGATAAATATTAGAAGT
51543501 TTTT
1 TTTT
51543505 TATGAATAAC
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 9 0.39
23 14 0.61
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (23 bp):
TTTTATTGATAAATATTAGAAGT
Found at i:51544208 original size:21 final size:21
Alignment explanation
Indices: 51544174--51544283 Score: 96
Period size: 21 Copynumber: 5.2 Consensus size: 21
51544164 GTGATTTACT
*
51544174 TTCTGTTCAGCTCTTATGAGC
1 TTCTGTTCAACTCTTATGAGC
*
51544195 TTCTGCTT-AACTCTTATGAGT
1 TTCTG-TTCAACTCTTATGAGC
* * *
51544216 TTCCGTTCAGCTCTTTTGAGC
1 TTCTGTTCAACTCTTATGAGC
* * * *
51544237 TTCTGTTCAACCCTTAAGGGT
1 TTCTGTTCAACTCTTATGAGC
* * *
51544258 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTCAACTCTTATGAGC
51544279 TTCTG
1 TTCTG
51544284 ATAAGCTTTC
Statistics
Matches: 67, Mismatches: 20, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
20 2 0.03
21 63 0.94
22 2 0.03
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (21 bp):
TTCTGTTCAACTCTTATGAGC
Found at i:51544225 original size:42 final size:42
Alignment explanation
Indices: 51544173--51544283 Score: 143
Period size: 42 Copynumber: 2.6 Consensus size: 42
51544163 CGTGATTTAC
* *
51544173 TTTCTGTTCAGCTCTTATGAGCTTCTGCTT-AACTCTTATGAG
1 TTTCTGTTCAGCTCTTATGAGCTTCTG-TTCAACCCTTAAGAG
* * *
51544215 TTTCCGTTCAGCTCTTTTGAGCTTCTGTTCAACCCTTAAGGG
1 TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTAAGAG
* *
51544257 TTTCTGTTTAGCTCTCATGAGCTTCTG
1 TTTCTGTTCAGCTCTTATGAGCTTCTG
51544284 ATAAGCTTTC
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
41 2 0.03
42 57 0.97
ACGTcount: A:0.14, C:0.23, G:0.18, T:0.44
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTATGAGCTTCTGTTCAACCCTTAAGAG
Found at i:51545734 original size:50 final size:50
Alignment explanation
Indices: 51545659--51545910 Score: 297
Period size: 50 Copynumber: 4.8 Consensus size: 50
51545649 ATTTGGGTAA
* * *
51545659 AGAGGTCCCATGTAAGACCGTGTCTGGGACATGGTGTTGGCACTAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* *
51545709 AGAGGTCCCATATAAGACCATGTCTGGGACATGGCGTTGACACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
*
51545759 AGAGGTCCCATGTAAGACATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGT-CC--------CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
* * * *
51545818 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
** *
51545868 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
51545911 TGTTATTATC
Statistics
Matches: 177, Mismatches: 15, Indels: 19
0.84 0.07 0.09
Matches are distributed among these distances:
50 92 0.52
51 38 0.21
58 2 0.01
59 45 0.25
ACGTcount: A:0.27, C:0.21, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
Found at i:51545817 original size:59 final size:60
Alignment explanation
Indices: 51545716--51545840 Score: 216
Period size: 59 Copynumber: 2.1 Consensus size: 60
51545706 ATGAGAGGTC
*
51545716 CCATATAAGACCATGTCTGGGACATGGCGTTGACACCAAGATGAGAGGTCCCATGTAAGA
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGACACCAAGATGAGAGGTCCCATGTAAGA
* *
51545776 -CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGA
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGACACCAAGATGAGAGGTCCCATGTAAGA
51545835 CCATGT
1 CCATGT
51545841 CTGGGACATG
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
59 56 0.92
60 5 0.08
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.21
Consensus pattern (60 bp):
CCATGTAAGACCATGTCTGGGACATGGCGTTGACACCAAGATGAGAGGTCCCATGTAAGA
Found at i:51545869 original size:109 final size:111
Alignment explanation
Indices: 51545666--51545891 Score: 330
Period size: 109 Copynumber: 2.1 Consensus size: 111
51545656 TAAAGAGGTC
* * *
51545666 CCATGTAAGACCGTGTCTGGGACATGGTGTTGGCACTAAGATGAGAGGTCCCATATAAGACCATG
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCATATAAGACCATG
* * **
51545731 TCTGGGACATGGCGTTGACACCAAGATGAG-AGGTCCCATGTAAGA
66 TCTGGGACATGGCATGGACACCAAGATGAGAACATCCCATGTAAGA
* *
51545776 -CATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCATGTAAGACCATG
1 CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCATATAAGACCATG
* * *
51545840 TCTGGGACATGGCATGGGCACCGATATGAGAACATCCCATGTAAGA
66 TCTGGGACATGGCATGGACACCAAGATGAGAACATCCCATGTAAGA
51545886 CCATGT
1 CCATGT
51545892 CTGGGACATG
Statistics
Matches: 102, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
109 84 0.82
110 13 0.13
111 5 0.05
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.21
Consensus pattern (111 bp):
CCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCATATAAGACCATG
TCTGGGACATGGCATGGACACCAAGATGAGAACATCCCATGTAAGA
Found at i:51550542 original size:16 final size:17
Alignment explanation
Indices: 51550521--51550555 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
51550511 TTTCCTACTA
*
51550521 ATTTTATT-AAAATTAT
1 ATTTTATTGAAAAATAT
51550537 ATTTTATTGAAAAATAT
1 ATTTTATTGAAAAATAT
51550554 AT
1 AT
51550556 AATATTTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (17 bp):
ATTTTATTGAAAAATAT
Found at i:51551834 original size:17 final size:18
Alignment explanation
Indices: 51551794--51551834 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
51551784 AGGGCAGTAG
* *
51551794 ACAAGTACTTATATAACT
1 ACAATTACTTATATAAAT
51551812 AC-ATTACTTATA-AAAT
1 ACAATTACTTATATAAAT
51551828 ACAATTA
1 ACAATTA
51551835 AATTTTTTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
16 5 0.25
17 13 0.65
18 2 0.10
ACGTcount: A:0.49, C:0.15, G:0.02, T:0.34
Consensus pattern (18 bp):
ACAATTACTTATATAAAT
Found at i:51561581 original size:6 final size:6
Alignment explanation
Indices: 51561570--51561613 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
51561560 CTTCCTTGGC
51561570 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TT
1 TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TTATAT TT
51561614 GAAGGACTCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TTATAT
Found at i:51565092 original size:12 final size:12
Alignment explanation
Indices: 51565075--51565128 Score: 62
Period size: 11 Copynumber: 4.8 Consensus size: 12
51565065 AACTAATCCT
51565075 CTCTCAAATTTC
1 CTCTCAAATTTC
*
51565087 CTCTC-AATTTG
1 CTCTCAAATTTC
51565098 CTCTC-AATTTC
1 CTCTCAAATTTC
51565109 CT-TCCAAATTT-
1 CTCT-CAAATTTC
51565120 CTCTCAAAT
1 CTCTCAAAT
51565129 CCATATTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
10 1 0.03
11 25 0.68
12 11 0.30
ACGTcount: A:0.24, C:0.31, G:0.02, T:0.43
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:51566943 original size:21 final size:21
Alignment explanation
Indices: 51566919--51566965 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
51566909 AGATGCCCTA
* *
51566919 CCGGATGAACCAGAATCC-CCG
1 CCGGAGGAACCACAA-CCGCCG
51566940 CCGGAGGAACCACAACCGCCG
1 CCGGAGGAACCACAACCGCCG
51566961 CCGGA
1 CCGGA
51566966 AGCTGGACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.28, C:0.40, G:0.28, T:0.04
Consensus pattern (21 bp):
CCGGAGGAACCACAACCGCCG
Found at i:51567224 original size:21 final size:22
Alignment explanation
Indices: 51567200--51567244 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
51567190 GACAAACCCT
51567200 AAATCCT-AACCCTTAACTTAA
1 AAATCCTAAACCCTTAACTTAA
*
51567221 AAATCCTAAACCCTTAATTTAA
1 AAATCCTAAACCCTTAACTTAA
51567243 AA
1 AA
51567245 CCCATAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (22 bp):
AAATCCTAAACCCTTAACTTAA
Found at i:51567252 original size:22 final size:22
Alignment explanation
Indices: 51567207--51567256 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
51567197 CCTAAATCCT
*
51567207 AACCCTTAACTTAAAAATCCTA
1 AACCCTTAACTTAAAAACCCTA
*
51567229 AACCCTTAA-TTTAAAACCCATA
1 AACCCTTAACTTAAAAACCC-TA
51567251 AACCCT
1 AACCCT
51567257 AAACCCTAGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 8 0.32
22 17 0.68
ACGTcount: A:0.44, C:0.30, G:0.00, T:0.26
Consensus pattern (22 bp):
AACCCTTAACTTAAAAACCCTA
Found at i:51567259 original size:57 final size:55
Alignment explanation
Indices: 51567193--51567370 Score: 230
Period size: 57 Copynumber: 3.1 Consensus size: 55
51567183 TTTAATTGAC
*
51567193 AAACCCTAAATCCTAACCCTTAACTTAAAAATCCTAAACCCTTAATTTAAAACCCAT
1 AAACCCTAAATCCTAACCCTTAACTTAAAAA-CCTAAACCCTTAATTAAAAACCC-T
* * * * *
51567250 AAACCCTAAACCCTAGCCATTGACTTAAAAACACTAAACTCTTAAATTAAAAACCCT
1 AAACCCTAAATCCTAACCCTTAACTTAAAAAC-CTAAACCCTT-AATTAAAAACCCT
* *
51567307 AAACCCTAAATCCTAACCCTTAACTTAAAAACCCTAAACCATCAACTTAAAAACCCT
1 AAACCCTAAATCCTAACCCTTAACTTAAAAA-CCTAAACCCTTAA-TTAAAAACCCT
51567364 AAACCCT
1 AAACCCT
51567371 TAACTTAACT
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
56 3 0.03
57 89 0.86
58 12 0.12
ACGTcount: A:0.45, C:0.31, G:0.01, T:0.23
Consensus pattern (55 bp):
AAACCCTAAATCCTAACCCTTAACTTAAAAACCTAAACCCTTAATTAAAAACCCT
Found at i:51567353 original size:22 final size:22
Alignment explanation
Indices: 51567328--51567378 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
51567318 CCTAACCCTT
51567328 AACTTAAAAACCCTAAACCATC
1 AACTTAAAAACCCTAAACCATC
* *
51567350 AACTTAAAAACCCTAAACCCTT
1 AACTTAAAAACCCTAAACCATC
51567372 AACTTAA
1 AACTTAA
51567379 CTTAAAAACC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.22
Consensus pattern (22 bp):
AACTTAAAAACCCTAAACCATC
Found at i:51567402 original size:92 final size:92
Alignment explanation
Indices: 51567301--51567470 Score: 211
Period size: 92 Copynumber: 1.8 Consensus size: 92
51567291 TTAAATTAAA
* * ** *
51567301 AACCCTAAACC-CTAAATCCTAACCCT-TAA-CTTAAAAACCCTAAACCATCAACTTAAAAACCC
1 AACCCTAAACCTCT-AACCCTAAACCTATAACCTT--AAACCCTAAAAAATCAACTTAAAAACAC
51567363 TAAACCCTTAACTTAACTTAAAAACCACAT
63 TAAACCCTTAACTTAACTTAAAAACCACAT
* * * *
51567393 AACCTTAAACCTCTAACCCTAAATCTATAACCTTAAACCCTAAAAAATTAACTTAAAAATACTAA
1 AACCCTAAACCTCTAACCCTAAACCTATAACCTTAAACCCTAAAAAATCAACTTAAAAACACTAA
51567458 ACCCTTAACTTAA
66 ACCCTTAACTTAA
51567471 AAACCCTAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
92 58 0.88
93 5 0.08
94 3 0.05
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.24
Consensus pattern (92 bp):
AACCCTAAACCTCTAACCCTAAACCTATAACCTTAAACCCTAAAAAATCAACTTAAAAACACTAA
ACCCTTAACTTAACTTAAAAACCACAT
Found at i:51567415 original size:14 final size:14
Alignment explanation
Indices: 51567392--51567435 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
51567382 AAAAACCACA
51567392 TAACCTTAAACCTC
1 TAACCTTAAACCTC
* * *
51567406 TAACCCTAAATCTA
1 TAACCTTAAACCTC
51567420 TAACCTTAAACC-C
1 TAACCTTAAACCTC
51567433 TAA
1 TAA
51567436 AAAATTAACT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
13 3 0.12
14 21 0.88
ACGTcount: A:0.41, C:0.32, G:0.00, T:0.27
Consensus pattern (14 bp):
TAACCTTAAACCTC
Found at i:51567479 original size:22 final size:21
Alignment explanation
Indices: 51567440--51567483 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
51567430 CCCTAAAAAA
*
51567440 TTAACTTAAAAATACTAAACCC
1 TTAACTTAAAAACACT-AACCC
*
51567462 TTAACTTAAAAACCCTAACCC
1 TTAACTTAAAAACACTAACCC
51567483 T
1 T
51567484 AATCCTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.45, C:0.27, G:0.00, T:0.27
Consensus pattern (21 bp):
TTAACTTAAAAACACTAACCC
Found at i:51571011 original size:125 final size:125
Alignment explanation
Indices: 51570582--51571021 Score: 605
Period size: 125 Copynumber: 3.5 Consensus size: 125
51570572 AACATGCTAT
* * *
51570582 TGTAGCAAAAGCGCGTCCACGTGTGCGCGATTTCACAAATTCTTCTGATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* *
51570647 AGCG-TTTTTATACTATTTGCTCAAAAACGTCAAGTCAAAATTATTTTTTCCAGGACCTAC
66 AGCGTTTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTA-TTTTTCCAGGACCTAC
* *
51570707 TATAGCAAAAGCGCGTCCACGAGGGCGCGGTTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* * * *
51570772 AGCGTTTTTTTAAACTATATGCTCAGAAACGTTAAGTCGAAATTATTTCTTCCACGACCTAC
66 AGCG-TTTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTT-TTCCAGGACCTAC
** * * *
51570834 TGTAGCAAAAGCGTATCCACGAGGGCTCGATTTCACAAATTCTTCTCATAAAGCATCCTTCCTGA
1 TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
* * *
51570899 AGCGTTTTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTTTACAGGACCTAC
66 AGCGTTTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACCTAC
* * * * * *
51570959 TGTAGCAAAAGCGTGTACAC-ATGGGCGTGACTTCAGAAATTCTTCTGATAAAGCATCCTGCTT
1 TGTAGCAAAAGCGCGTCCACGA-GGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTT
51571022 TGATTTTATC
Statistics
Matches: 277, Mismatches: 34, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
124 1 0.00
125 127 0.46
126 41 0.15
127 108 0.39
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (125 bp):
TGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCTTGA
AGCGTTTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGACCTAC
Found at i:51574542 original size:17 final size:17
Alignment explanation
Indices: 51574515--51574576 Score: 56
Period size: 17 Copynumber: 3.5 Consensus size: 17
51574505 TACTCCCATA
51574515 TTTACTTTCCCTCAAACT
1 TTTACTTTCCC-CAAACT
*
51574533 TTTA-TTTCCCAAAACTT
1 TTTACTTTCCCCAAAC-T
*
51574550 TTTATTTTCCCCCTAAACT
1 TTTACTTT-CCCC-AAACT
51574569 TTTA-TTTC
1 TTTACTTTC
51574577 TCACCATTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
16 4 0.11
17 12 0.32
18 10 0.26
19 8 0.21
20 4 0.11
ACGTcount: A:0.23, C:0.27, G:0.00, T:0.50
Consensus pattern (17 bp):
TTTACTTTCCCCAAACT
Found at i:51585926 original size:125 final size:125
Alignment explanation
Indices: 51585644--51586058 Score: 661
Period size: 125 Copynumber: 3.3 Consensus size: 125
51585634 ATTTATTAAG
* * * *
51585644 GAAATCGCTCCTACGTGGACGCGCTTTTGCTACAGTAGGTCTTAAAAAAATAATTTTGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
*
51585709 GTTTCTGAGCAAATAGTATAAAAAAACACTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAGCAAATAGTAT-AAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
*
51585770 GAAATCGCTCCCACCGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCAAGTTGA
1 GAAATCGCTCCCA-CGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGA
** *
51585835 CAATTCTGAGCAAATAGTAT-AAAAATGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
65 CGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
* *
51585895 GAAATCACTCCCACCGTGGACGCGCTTTTGCTACAATAGGTCCTGAAAAAATAATTTCGAGTTGA
1 GAAATCGCTCCCA-CGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGA
* *
51585960 CGTTTCTAAGCAAATAGTATAAAAAACGCTTCAAGCAGGATACTTTATCAGAAGAATTTCT
65 CGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
* *
51586021 GAAATCGCTCCCACGTGGACGTGTTTTTGCTACAGTAG
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAG
51586059 CATATTTGGG
Statistics
Matches: 266, Mismatches: 21, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
125 139 0.52
126 62 0.23
127 65 0.24
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (125 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAGTAGGTCCTGAAAAAATAATTTCGAGTTGAC
GTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
Found at i:51589294 original size:49 final size:49
Alignment explanation
Indices: 51589229--51589386 Score: 262
Period size: 49 Copynumber: 3.2 Consensus size: 49
51589219 AAAATATTCA
*
51589229 GTATTTTATTAAATGAAATAATATCAAAATATTAAAAATAAACTATTTT
1 GTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTT
* *
51589278 ATATTTTATTAGATGAAATAATATCAAAATATTCAAAATAAACTATTTT
1 GTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTT
* * *
51589327 GTATTTTATTATATCAAATAATATCAAAATATTCAAAATAAAATATTTT
1 GTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTT
51589376 GTATTTTATTA
1 GTATTTTATTA
51589387 CATTAATATA
Statistics
Matches: 102, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 102 1.00
ACGTcount: A:0.48, C:0.05, G:0.04, T:0.43
Consensus pattern (49 bp):
GTATTTTATTAAATGAAATAATATCAAAATATTCAAAATAAACTATTTT
Found at i:51589842 original size:18 final size:18
Alignment explanation
Indices: 51589815--51589852 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
51589805 GAAAAAGGAA
*
51589815 ACATATAAGGGTTAAGAT
1 ACATAAAAGGGTTAAGAT
*
51589833 ACATAAAAGGGTTAGGAT
1 ACATAAAAGGGTTAAGAT
51589851 AC
1 AC
51589853 GCACCTGGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.08, G:0.24, T:0.24
Consensus pattern (18 bp):
ACATAAAAGGGTTAAGAT
Found at i:51591689 original size:11 final size:11
Alignment explanation
Indices: 51591645--51591703 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
51591635 TAGGGATGTA
*
51591645 AGAGAAAATTA
1 AGAGAAAATTG
51591656 AGAGAAAATTG
1 AGAGAAAATTG
* *
51591667 AGAGCAATTTG
1 AGAGAAAATTG
*
51591678 AGAGGAAATTG
1 AGAGAAAATTG
* *
51591689 ATAAAATAATTG
1 AGAGAA-AATTG
51591701 AGA
1 AGA
51591704 AAGGATTAAT
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
11 31 0.82
12 7 0.18
ACGTcount: A:0.53, C:0.02, G:0.24, T:0.22
Consensus pattern (11 bp):
AGAGAAAATTG
Found at i:51598345 original size:6 final size:6
Alignment explanation
Indices: 51598300--51598329 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
51598290 CAACACTTGC
51598300 ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA
1 ACCAAA ACCAAA ACCAAA ACCAAA ACCAAA
51598330 GTTATGAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.67, C:0.33, G:0.00, T:0.00
Consensus pattern (6 bp):
ACCAAA
Found at i:51606703 original size:37 final size:37
Alignment explanation
Indices: 51606653--51606727 Score: 132
Period size: 37 Copynumber: 2.0 Consensus size: 37
51606643 GTTAGGTTAC
*
51606653 TAGTCTGGGCTAAACCTTTAATGACACGCTCAATTGT
1 TAGTCTAGGCTAAACCTTTAATGACACGCTCAATTGT
*
51606690 TAGTCTAGGCTAAACCTTTAATGACACGTTCAATTGT
1 TAGTCTAGGCTAAACCTTTAATGACACGCTCAATTGT
51606727 T
1 T
51606728 TGGCCAATCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (37 bp):
TAGTCTAGGCTAAACCTTTAATGACACGCTCAATTGT
Found at i:51606793 original size:37 final size:36
Alignment explanation
Indices: 51606752--51606847 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 36
51606742 ATATACTGCA
* *
51606752 AGGTTATCAGCCTAGGCTAAACCTATAATATAACATC
1 AGGTTA-CAGTCTAGGCTAAACCTATAAAATAACATC
* * *
51606789 AGGTTACCAGTCTAGGCTAAATCTATAAAATGACATT
1 AGGTTA-CAGTCTAGGCTAAACCTATAAAATAACATC
*
51606826 AAGTTACAAGTCTAGGCTAAAC
1 AGGTTAC-AGTCTAGGCTAAAC
51606848 ATGTGTCACA
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
36 1 0.02
37 49 0.98
ACGTcount: A:0.39, C:0.19, G:0.16, T:0.27
Consensus pattern (36 bp):
AGGTTACAGTCTAGGCTAAACCTATAAAATAACATC
Found at i:51606968 original size:2 final size:2
Alignment explanation
Indices: 51606961--51606995 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
51606951 GACATTTTCA
51606961 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
51606996 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:51608651 original size:2 final size:2
Alignment explanation
Indices: 51608644--51608674 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
51608634 TCTTTAAGAC
51608644 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51608675 TGTATTTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51611201 original size:34 final size:34
Alignment explanation
Indices: 51611128--51611209 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
51611118 AAGTTTTTTT
* *
51611128 TAAATGAACTAAATTAGGTTTTTGGGGTTTTAAA
1 TAAATTAACTAAATTAGGGTTTTGGGGTTTTAAA
*
51611162 TAAATTAACTAAATTAGGGTTTTGGGTTTTTAAGA
1 TAAATTAACTAAATTAGGGTTTTGGGGTTTTAA-A
*
51611197 -AAATTAATTAAAT
1 TAAATTAACTAAAT
51611210 AATGGTTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
34 42 0.98
35 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.17, T:0.41
Consensus pattern (34 bp):
TAAATTAACTAAATTAGGGTTTTGGGGTTTTAAA
Found at i:51611510 original size:126 final size:126
Alignment explanation
Indices: 51611285--51611680 Score: 544
Period size: 126 Copynumber: 3.2 Consensus size: 126
51611275 AATTTTGTTT
* * * * * * *
51611285 TTTTTCTACAGTAGTTTCTAAAAAAATAATTTTGAGAAGGCGATTCTGAATAGACAATGTAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAA
* * * *
51611350 ACGTTTCAAGCAGGATGCCCTGTCAACAAAATTACTGAAAAAAGTTCCCACGTGGATGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGTTCCCACGTGGACGCTC
* *
51611411 TTTTTCTACAGTTGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCAGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAA
* *
51611476 ACGCTTCAAGCATGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGTTCCCACGTGGACGCTC
* * *
51611537 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGACAGTTCTGAACAAATAGTGT-AAAA
1 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAA
* * * * **
51611601 ACGCTTCAAACAGGATGCACTGTCAGCAAAATTATTGCAAAAA-TCTCTCACGTCTACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGT-TCCCACGTGGACGCTC
*
51611662 TTTTTCTACAGTAGCTCCT
1 TTTTTCTACAGTAGTTCCT
51611681 GTTTGGCCTT
Statistics
Matches: 239, Mismatches: 30, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
125 73 0.31
126 166 0.69
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTAAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGTTCCCACGTGGACGCTC
Found at i:51618160 original size:26 final size:26
Alignment explanation
Indices: 51618131--51618182 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
51618121 ATCAAACATT
51618131 TTGAAACCTTAAGAGCTTTATTTTAA
1 TTGAAACCTTAAGAGCTTTATTTTAA
51618157 TTGAAACCTTAAGAGCTTTATTTTAA
1 TTGAAACCTTAAGAGCTTTATTTTAA
51618183 CTCTTGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.42
Consensus pattern (26 bp):
TTGAAACCTTAAGAGCTTTATTTTAA
Found at i:51618617 original size:12 final size:13
Alignment explanation
Indices: 51618600--51618632 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
51618590 AAATGCAAGG
51618600 AAATAAATAAA-T
1 AAATAAATAAAGT
51618612 AAATAAATAAAGT
1 AAATAAATAAAGT
51618625 AAGATAAA
1 AA-ATAAA
51618633 ATTAAATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 11 0.58
13 3 0.16
14 5 0.26
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (13 bp):
AAATAAATAAAGT
Found at i:51618920 original size:19 final size:21
Alignment explanation
Indices: 51618879--51618924 Score: 69
Period size: 19 Copynumber: 2.3 Consensus size: 21
51618869 ATGCATTTAT
*
51618879 ATAAAAACATAAAGTATAAAA
1 ATAAAAACATAAAGTACAAAA
51618900 ATAAAAA-ATAAA-TACAAAA
1 ATAAAAACATAAAGTACAAAA
51618919 ATAAAA
1 ATAAAA
51618925 GTAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 12 0.50
20 5 0.21
21 7 0.29
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.17
Consensus pattern (21 bp):
ATAAAAACATAAAGTACAAAA
Found at i:51619618 original size:22 final size:23
Alignment explanation
Indices: 51619583--51619645 Score: 65
Period size: 23 Copynumber: 2.7 Consensus size: 23
51619573 ATTAACAATT
*
51619583 AATAATTTGATAATTTTACT-AACA
1 AATAATTT--TAATTTTACTAAAAA
* * *
51619607 ATTAGTTTTAATTTTATTAAAAA
1 AATAATTTTAATTTTACTAAAAA
51619630 AATAATTTTAATTTTA
1 AATAATTTTAATTTTA
51619646 ATTTAAAACG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
22 9 0.28
23 17 0.53
24 6 0.19
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.49
Consensus pattern (23 bp):
AATAATTTTAATTTTACTAAAAA
Found at i:51622858 original size:25 final size:24
Alignment explanation
Indices: 51622809--51622860 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
51622799 ACTGTTATAA
* *
51622809 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAAATAATT
51622833 AAAATTACATAAATAAAAAA-ATATT
1 AAAATTACA-AAATAAAAAATA-ATT
51622858 AAA
1 AAA
51622861 TAATATTAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 9 0.38
25 15 0.62
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (24 bp):
AAAATTACAAAATAAAAAATAATT
Found at i:51624126 original size:30 final size:30
Alignment explanation
Indices: 51624092--51624154 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
51624082 ACTTAACAAG
51624092 CAAATGTCTCTAAAAGAATAACAAAATTAA
1 CAAATGTCTCTAAAAGAATAACAAAATTAA
*
51624122 CAAATGTCTCTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAAGAATAACAAAATTAA
51624152 CAA
1 CAA
51624155 TAAAACTAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.14, G:0.05, T:0.24
Consensus pattern (30 bp):
CAAATGTCTCTAAAAGAATAACAAAATTAA
Found at i:51624955 original size:6 final size:6
Alignment explanation
Indices: 51624944--51624978 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
51624934 GTATTTGTTT
51624944 AAATAA AAATAA AAATAA AAATAA AAATAA AAATA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATA
51624979 TTAGAAGAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:51628554 original size:97 final size:98
Alignment explanation
Indices: 51628397--51628598 Score: 248
Period size: 97 Copynumber: 2.1 Consensus size: 98
51628387 TTTTTAATTC
* *
51628397 ATATTTTTAATTAATAACTTTTTATTTATATAAATAAAATAATAAACATGTAATTATATAAT-AA
1 ATATTTTTAATTAATAACTATTTATTTATATAAACAAAATAATAAACATGTAATTATATAATGAA
*
51628461 A-AATATATTTTATATATATCATTAAGTTAAAA
66 ATAATATATTATATATATATCATTAAGTTAAAA
* * * * *
51628493 ATATTTTTAATTAATAACTCATTTATTTATACT-TACAAATTAATAAATATGTCATTCTATAATG
1 ATATTTTTAATTAATAACT-ATTTATTTATA-TAAACAAAATAATAAACATGTAATTATATAATG
* * * * *
51628557 AAATTATATATTATATATTTATTATTATGTTAAAT
64 AAATAATATATTATATATATATCATTAAGTTAAAA
51628592 ATATTTT
1 ATATTTT
51628599 ATTGTAACTA
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
96 19 0.21
97 34 0.38
98 4 0.04
99 32 0.36
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.48
Consensus pattern (98 bp):
ATATTTTTAATTAATAACTATTTATTTATATAAACAAAATAATAAACATGTAATTATATAATGAA
ATAATATATTATATATATATCATTAAGTTAAAA
Found at i:51635653 original size:156 final size:157
Alignment explanation
Indices: 51635408--51635716 Score: 530
Period size: 158 Copynumber: 2.0 Consensus size: 157
51635398 ATGAGTCTCA
* *
51635408 AGATGAACGCTCCAGATCCAGTTCGGCACAGGTTAGTTTGGATTTCTTCTTCTCATCTTTTGATT
1 AGATGAACACTCCAGATCCAGTTCGGCACAGGTTAGTTTGGATTTCTTCCTCTCATCTTTTGATT
* *
51635473 CTTATGTTATATCTTGGTTAAAAAAG-AAAAAAATTGCTGATTGAGTTTGATAATGTTCGCAGGC
66 CTTATGTTATATCATAGTTAAAAAAGAAAAAAAATTGCTGATTGAGTTTGATAATGTTCGCAGGC
51635537 GGTGTCAGGGGATCAGGATCACCAACG
131 GGTGTCAGGGGATCAGGATCACCAACG
* * *
51635564 AGATGAACACTCCAGATCCAGTTGGGCGCAGGTTAGTTTGGATTTCTTCCTCTGATCTTTTGATT
1 AGATGAACACTCCAGATCCAGTTCGGCACAGGTTAGTTTGGATTTCTTCCTCTCATCTTTTGA-T
51635629 TCTTATGTTATATCATAGTTAAAAAAGAAAAAAAATTGCTGATTGAGTTTGATAATGTTCGCAGG
65 TCTTATGTTATATCATAGTTAAAAAAGAAAAAAAATTGCTGATTGAGTTTGATAATGTTCGCAGG
*
51635694 TGGTGTCAGGGGATCAGGATCAC
130 CGGTGTCAGGGGATCAGGATCAC
51635717 GAAAAACAGG
Statistics
Matches: 143, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
156 58 0.41
157 26 0.18
158 59 0.41
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.34
Consensus pattern (157 bp):
AGATGAACACTCCAGATCCAGTTCGGCACAGGTTAGTTTGGATTTCTTCCTCTCATCTTTTGATT
CTTATGTTATATCATAGTTAAAAAAGAAAAAAAATTGCTGATTGAGTTTGATAATGTTCGCAGGC
GGTGTCAGGGGATCAGGATCACCAACG
Found at i:51638421 original size:3 final size:3
Alignment explanation
Indices: 51638413--51638440 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
51638403 GCTCTGTGTG
51638413 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
51638441 CCAGAAGCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:51638893 original size:3 final size:3
Alignment explanation
Indices: 51638885--51638929 Score: 81
Period size: 3 Copynumber: 14.7 Consensus size: 3
51638875 ACCTGTTTGT
51638885 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC ATTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC -TTC TTC TT
51638930 TATTGTTGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 38 0.93
4 3 0.07
ACGTcount: A:0.02, C:0.31, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:51660278 original size:5 final size:5
Alignment explanation
Indices: 51660278--51660312 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
51660268 TTATGTTATG
*
51660278 TATAT TATTT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
51660313 AAAGTAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TATAT
Found at i:51660293 original size:10 final size:10
Alignment explanation
Indices: 51660265--51660312 Score: 53
Period size: 10 Copynumber: 4.9 Consensus size: 10
51660255 AAATATGAGA
*
51660265 ATTTTATGTT
1 ATTTTATATT
*
51660275 A-TGTATATT
1 ATTTTATATT
51660284 ATTTTATATT
1 ATTTTATATT
*
51660294 ATATTATATT
1 ATTTTATATT
*
51660304 ATATTATAT
1 ATTTTATAT
51660313 AAAGTAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
9 7 0.21
10 26 0.79
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (10 bp):
ATTTTATATT
Found at i:51673943 original size:22 final size:24
Alignment explanation
Indices: 51673916--51674066 Score: 145
Period size: 25 Copynumber: 6.3 Consensus size: 24
51673906 CACTAATGAA
51673916 CAGAGAGCACTGAAGTGCTAT-A-
1 CAGAGAGCACTGAAGTGCTATAAT
*
51673938 CAGAGAGCA-TAGACGTGCTAGTAAT
1 CAGAGAGCACT-GAAGTGCTA-TAAT
51673963 CAGAGAGCAC--AACGTGCTAATAAT
1 CAGAGAGCACTGAA-GTGCT-ATAAT
*
51673987 CAGAGAGCACTGATGTGCTAATAAT
1 CAGAGAGCACTGAAGTGCT-ATAAT
* *
51674012 CAGAGAGCACAGATGTGCTA-AA-
1 CAGAGAGCACTGAAGTGCTATAAT
* *
51674034 CAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACTGAAGTGCTATA-AT
51674059 CAGAGAGC
1 CAGAGAGC
51674067 GCGCTAGAGT
Statistics
Matches: 111, Mismatches: 6, Indels: 21
0.80 0.04 0.15
Matches are distributed among these distances:
21 1 0.01
22 35 0.32
23 5 0.05
24 22 0.20
25 47 0.42
26 1 0.01
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.18
Consensus pattern (24 bp):
CAGAGAGCACTGAAGTGCTATAAT
Found at i:51674005 original size:49 final size:46
Alignment explanation
Indices: 51673916--51674066 Score: 171
Period size: 47 Copynumber: 3.2 Consensus size: 46
51673906 CACTAATGAA
* * *
51673916 CAGAGAGCACTGAAGTGCTATACAGAGAGCA-TAGACGTGCTAGTAAT
1 CAGAGAGCACAGACGTGCTAAACAGAGAGCACT-GACGTGCTA-TAAT
*
51673963 CAGAGAGCACA-ACGTGCTAATAATCAGAGAGCACTGATGTGCTAATAAT
1 CAGAGAGCACAGACGTGCT-A-AA-CAGAGAGCACTGACGTGCT-ATAAT
* *
51674012 CAGAGAGCACAGATGTGCTAAACAGAGAGCACTGACGTGCTAAATAT
1 CAGAGAGCACAGACGTGCTAAACAGAGAGCACTGACGTGCTATA-AT
51674059 CAGAGAGC
1 CAGAGAGC
51674067 GCGCTAGAGT
Statistics
Matches: 90, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
46 8 0.09
47 39 0.43
48 3 0.03
49 32 0.36
50 8 0.09
ACGTcount: A:0.38, C:0.19, G:0.26, T:0.18
Consensus pattern (46 bp):
CAGAGAGCACAGACGTGCTAAACAGAGAGCACTGACGTGCTATAAT
Found at i:51676335 original size:52 final size:52
Alignment explanation
Indices: 51676264--51676363 Score: 155
Period size: 52 Copynumber: 1.9 Consensus size: 52
51676254 ATCAAGTGAC
** *
51676264 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGG
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
* *
51676316 AAAGTGATAAGTAATAGCTTCGGCTATACTTATCTGATCAAGTGACAA
1 AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAA
51676364 AGTGATAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (52 bp):
AAAGTGATAAGTAATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGG
Found at i:51676384 original size:37 final size:37
Alignment explanation
Indices: 51676337--51676446 Score: 170
Period size: 37 Copynumber: 3.0 Consensus size: 37
51676327 TAATAGCTTC
* *
51676337 GGCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
51676374 GGCTACACTTATCTGATCAAGAAACAAAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
*
51676411 GGCTACACTTATCTGATC-AGGGAC-AAGTGATAAGT
1 GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
51676446 G
1 G
51676447 ATCATACGTA
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
35 12 0.18
36 4 0.06
37 52 0.76
ACGTcount: A:0.35, C:0.15, G:0.23, T:0.26
Consensus pattern (37 bp):
GGCTACACTTATCTGATCAAGAGACAAAGTGATAAGT
Found at i:51677791 original size:13 final size:13
Alignment explanation
Indices: 51677773--51677805 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
51677763 CAAAAATTCC
51677773 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
51677786 CTTTTCTTTCTTT
1 CTTTTCTTTCTTT
*
51677799 CCTTTCT
1 CTTTTCT
51677806 CCTCCTCTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (13 bp):
CTTTTCTTTCTTT
Found at i:51679473 original size:12 final size:12
Alignment explanation
Indices: 51679456--51679481 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
51679446 TCCCTTTTTA
51679456 AAAAAATAAAAG
1 AAAAAATAAAAG
51679468 AAAAAATAAAAG
1 AAAAAATAAAAG
51679480 AA
1 AA
51679482 TCTCCTAGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAAATAAAAG
Found at i:51682898 original size:42 final size:41
Alignment explanation
Indices: 51682746--51682899 Score: 127
Period size: 42 Copynumber: 3.6 Consensus size: 41
51682736 TGTTATCGTA
* *
51682746 TAAGACCACGTCTGGGACGTTGGCTTCGAT-TTGAGATTTATG
1 TAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCATG
* * * * *
51682788 TATAAGACCATGTCTGGGACATCGGCAT-TATATTTGATTTCGTG
1 --TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCATG
51682832 TAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACATG
1 TAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CATG
*
51682874 TAAGACCACGTCTGGCACGTTGGCAT
1 TAAGACCACGTCTGGGACGTTGGCAT
51682900 TGTACGAGTT
Statistics
Matches: 88, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
41 3 0.03
42 49 0.56
43 8 0.09
44 26 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (41 bp):
TAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCATG
Found at i:51683242 original size:17 final size:18
Alignment explanation
Indices: 51683198--51683242 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
51683188 TATGAAATTT
51683198 TGATATGAAATGTGAGTA
1 TGATATGAAATGTGAGTA
*
51683216 TGAT-TAAAATGATGA-TA
1 TGATATGAAATG-TGAGTA
51683233 T-ATATGAAAT
1 TGATATGAAAT
51683243 ATATGATAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 14 0.61
18 7 0.30
ACGTcount: A:0.44, C:0.00, G:0.20, T:0.36
Consensus pattern (18 bp):
TGATATGAAATGTGAGTA
Found at i:51686371 original size:41 final size:40
Alignment explanation
Indices: 51686326--51686427 Score: 150
Period size: 41 Copynumber: 2.5 Consensus size: 40
51686316 TGATTCAGTA
51686326 CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATATTT
1 CACCGGCA-TTAGCCTGCTAGACATATAGTCTGAAATATTT
* *
51686367 CACCGGCATTAAGCCTGCTAGACATATAGTCTGAAGTGTTT
1 CACCGGCATT-AGCCTGCTAGACATATAGTCTGAAATATTT
*
51686408 CACCGGCAATAAGCCTGCTA
1 CACCGGC-ATTAGCCTGCTA
51686428 AGCGCTATGC
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
40 2 0.04
41 52 0.93
42 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (40 bp):
CACCGGCATTAGCCTGCTAGACATATAGTCTGAAATATTT
Found at i:51711214 original size:86 final size:86
Alignment explanation
Indices: 51711094--51711267 Score: 296
Period size: 86 Copynumber: 2.0 Consensus size: 86
51711084 ATATCGGACA
*
51711094 CAAACATTTATAACAGAAGAGAGTCCAAATATAGATAAGCATATTTAGCAGTAACAAACTCTTCA
1 CAAACATTTATAACAGAAAAGAGTCCAAATATAGATAAGCATATTTAGCAGTAACAAACTCTTCA
51711159 AATTAGTAGACACAACTTTCT
66 AATTAGTAGACACAACTTTCT
* * *
51711180 CAAACATTTATAATA-ATAAAGGGTCCAAATATAGATGAGCATATTTAGCAGTAACAAACTCTTC
1 CAAACATTTATAACAGA-AAAGAGTCCAAATATAGATAAGCATATTTAGCAGTAACAAACTCTTC
51711244 AAATTAGTAGACACAACTTTCT
65 AAATTAGTAGACACAACTTTCT
51711266 CA
1 CA
51711268 GAGTCTCATG
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
85 1 0.01
86 82 0.99
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (86 bp):
CAAACATTTATAACAGAAAAGAGTCCAAATATAGATAAGCATATTTAGCAGTAACAAACTCTTCA
AATTAGTAGACACAACTTTCT
Found at i:51716823 original size:19 final size:21
Alignment explanation
Indices: 51716786--51716830 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
51716776 TTTAATTGTA
*
51716786 TAAAAATTAATTTATTATT-T
1 TAAAAATTAATATATTATTAT
51716806 TAAAAATTAATATA-TATTAT
1 TAAAAATTAATATATTATTAT
51716826 TAAAA
1 TAAAA
51716831 CTAAACGTCG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 4 0.17
20 19 0.83
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TAAAAATTAATATATTATTAT
Found at i:51719028 original size:2 final size:2
Alignment explanation
Indices: 51719021--51719058 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
51719011 AAAGTAAACC
51719021 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51719059 TTAAGAAAGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51731122 original size:61 final size:60
Alignment explanation
Indices: 51731040--51731161 Score: 181
Period size: 61 Copynumber: 2.0 Consensus size: 60
51731030 CTTCTGTATA
* *
51731040 TGCATGAATTATGGGTGTTGGTGTTTGTGTAAGGGTGTATTTATTGTGCATATGTGTTGT
1 TGCATGAATTATGGGTGTTGGTGTTAGTGTAAGGGTGTACTTATTGTGCATATGTGTTGT
* * * *
51731100 TGCATGAATTTATGGGTTTTGGTGTTAGTGTAAGGGTGTGCTTGTTGTGCATGTGTGTTGT
1 TGCATGAA-TTATGGGTGTTGGTGTTAGTGTAAGGGTGTACTTATTGTGCATATGTGTTGT
51731161 T
1 T
51731162 TTTGTATGTG
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
60 8 0.15
61 47 0.85
ACGTcount: A:0.15, C:0.04, G:0.34, T:0.47
Consensus pattern (60 bp):
TGCATGAATTATGGGTGTTGGTGTTAGTGTAAGGGTGTACTTATTGTGCATATGTGTTGT
Found at i:51744690 original size:100 final size:103
Alignment explanation
Indices: 51744578--51744767 Score: 289
Period size: 100 Copynumber: 1.9 Consensus size: 103
51744568 TTATTACACA
* * *
51744578 TGTAATTTTTAAAATTTT-AAAGGTAAATTATTTAAAAGATAATGTTAAAAAATAAAAT-AATAA
1 TGTAAGTTTTAAAATTTTAAAAAGTAAATTATTTAAAAGATAACGTT-AAAAATAAAATAAATAA
51744641 -AAAATTT-AAAAATCAACATTAAGCGATAAGTAATATG
65 TAAAATTTAAAAAATCAACATTAAGCGATAAGTAATATG
*
51744678 TGTAAGTTTTAAAATTTTAAAAAGTAAATTATTTTAAAGATAACGTTAAAAATAAAATAAAATAA
1 TGTAAGTTTTAAAATTTTAAAAAGTAAATTATTTAAAAGATAACGTTAAAAATAAAAT-AAATAA
51744743 TAAAATTTAAAAAAATCAACATTAA
65 TAAAATTT-AAAAAATCAACATTAA
51744768 ACCCTTATCT
Statistics
Matches: 80, Mismatches: 4, Indels: 7
0.88 0.04 0.08
Matches are distributed among these distances:
100 28 0.35
101 25 0.31
102 5 0.06
103 7 0.09
105 15 0.19
ACGTcount: A:0.56, C:0.03, G:0.07, T:0.34
Consensus pattern (103 bp):
TGTAAGTTTTAAAATTTTAAAAAGTAAATTATTTAAAAGATAACGTTAAAAATAAAATAAATAAT
AAAATTTAAAAAATCAACATTAAGCGATAAGTAATATG
Found at i:51763434 original size:13 final size:11
Alignment explanation
Indices: 51763406--51763448 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
51763396 AGTTAACAAT
51763406 TATTTTATTAA
1 TATTTTATTAA
51763417 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
51763430 TA-TTTATTAT
1 TATTTTATTAA
51763440 TATTTTATT
1 TATTTTATT
51763449 TAGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:51763435 original size:23 final size:23
Alignment explanation
Indices: 51763409--51763452 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
51763399 TAACAATTAT
51763409 TTTATTAATATTTTACTTAGATA
1 TTTATTAATATTTTACTTAGATA
* *
51763432 TTTATTATTATTTTATTTAGA
1 TTTATTAATATTTTACTTAGA
51763453 AAATGGTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (23 bp):
TTTATTAATATTTTACTTAGATA
Found at i:51765935 original size:15 final size:17
Alignment explanation
Indices: 51765905--51765936 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
51765895 CATCGACTAT
51765905 TTTTTGTTTTTGTTGTA
1 TTTTTGTTTTTGTTGTA
51765922 TTTTT-TTTTT-TTGTA
1 TTTTTGTTTTTGTTGTA
51765937 AACCACACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 5 0.33
17 5 0.33
ACGTcount: A:0.06, C:0.00, G:0.12, T:0.81
Consensus pattern (17 bp):
TTTTTGTTTTTGTTGTA
Found at i:51766328 original size:30 final size:27
Alignment explanation
Indices: 51766260--51766328 Score: 77
Period size: 30 Copynumber: 2.5 Consensus size: 27
51766250 AGTGACAATA
* *
51766260 AATAATAATATATAAAATTTAAAATAT
1 AATAATAATAAATAAAATTTAAAAAAT
*
51766287 -ATAAAAATAAATAAATAATTTAAAAAAAT
1 AATAATAATAAAT-AA-AATTT-AAAAAAT
51766316 AATAATAATAAAT
1 AATAATAATAAAT
51766329 TTAGATTTTA
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
26 10 0.29
27 2 0.06
28 5 0.15
29 6 0.18
30 11 0.32
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (27 bp):
AATAATAATAAATAAAATTTAAAAAAT
Found at i:51769361 original size:16 final size:17
Alignment explanation
Indices: 51769340--51769374 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
51769330 TGAATATATA
*
51769340 TGTGTAAATGTGA-AAT
1 TGTGTAAATATGATAAT
51769356 TGTGTAAATATGATAAT
1 TGTGTAAATATGATAAT
51769373 TG
1 TG
51769375 AATTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (17 bp):
TGTGTAAATATGATAAT
Found at i:51770252 original size:60 final size:62
Alignment explanation
Indices: 51770162--51770289 Score: 147
Period size: 60 Copynumber: 2.1 Consensus size: 62
51770152 TTTAGGGGAA
* * * *
51770162 TTTTAGAATTATAATTAAATTGATCAATTTTGTAAATGTTGA-TGA-CTAAATTTATTAAAT
1 TTTTAGAATTATAACTAAAATGATCAATTTTATAAATATTGATTGAGCTAAATTTATTAAAT
*
51770222 TTTTAGAATTCA-AACTAAAATGA-CAAATTTTATAAATATTGATTGAGGGCTAAATTTATTGAA
1 TTTTAGAATT-ATAACTAAAATGATC-AATTTTATAAATATTGATTGA--GCTAAATTTATTAAA
51770285 T
62 T
51770286 TTTT
1 TTTT
51770290 TTAAAAATTT
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
59 1 0.02
60 34 0.60
61 4 0.07
64 18 0.32
ACGTcount: A:0.40, C:0.05, G:0.11, T:0.45
Consensus pattern (62 bp):
TTTTAGAATTATAACTAAAATGATCAATTTTATAAATATTGATTGAGCTAAATTTATTAAAT
Found at i:51770580 original size:18 final size:18
Alignment explanation
Indices: 51770557--51770594 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
51770547 AATATATAAA
51770557 ATAAATA-AAAATATAATT
1 ATAAATATAAAA-ATAATT
*
51770575 ATAAATATGAAAATAATT
1 ATAAATATAAAAATAATT
51770593 AT
1 AT
51770595 TTTGATGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
ATAAATATAAAAATAATT
Found at i:51775603 original size:180 final size:180
Alignment explanation
Indices: 51775368--51775723 Score: 658
Period size: 180 Copynumber: 2.0 Consensus size: 180
51775358 GGAGATTTCG
*
51775368 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATCT
1 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATAT
* *
51775433 TGATCTTTCCGAGTGTTAATGGTAAAATTTTATAATATTAGAGTTCAAAAACCACACTGTCTACA
66 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTCAAAAACCACACTGTCTACA
*
51775498 CTGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
131 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
51775548 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATAT
1 AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATAT
*
51775613 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTGAAAAACCACACTGTCTACA
66 TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTCAAAAACCACACTGTCTACA
*
51775678 CCGATACTAGTTTCATACTAGCAGGTTATGTTACAATTTGTAAAAC
131 CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAAC
51775724 ATTATACTGA
Statistics
Matches: 170, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
180 170 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (180 bp):
AGCTTAATTCCACATGTAGTGTGGTTGTAGGATACATGCCATCTTTACTCCCACAAATTTTATAT
TGATCTTTCCAAGTGTTAATGGTAAAATTTTATAATATCAGAGTTCAAAAACCACACTGTCTACA
CCGATACTAGTTTCATACTAGCAGATTATGTTACAATTTGTAAAACTTCA
Found at i:51783178 original size:25 final size:26
Alignment explanation
Indices: 51783140--51783189 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
51783130 TACTGTATAC
51783140 TAATTAAAATTAATATTTAA-CATTA
1 TAATTAAAATTAATATTTAAGCATTA
51783165 TAATTATAAA-TAATATTTAAGCATT
1 TAATTA-AAATTAATATTTAAGCATT
51783190 TCCAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 16 0.70
26 7 0.30
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (26 bp):
TAATTAAAATTAATATTTAAGCATTA
Found at i:51784474 original size:15 final size:16
Alignment explanation
Indices: 51784448--51784477 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
51784438 ATCGGTCCGA
51784448 TTAAAAATAATTAAAT
1 TTAAAAATAATTAAAT
51784464 TTAAAAA-AATTAAA
1 TTAAAAATAATTAAA
51784478 AATACTGGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TTAAAAATAATTAAAT
Found at i:51790302 original size:20 final size:21
Alignment explanation
Indices: 51790267--51790308 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
51790257 CATGAATAAC
*
51790267 AAATCTATAATATATACCAAT
1 AAATCTATAATATATAACAAT
*
51790288 AAATCTAT-TTATATAACAAT
1 AAATCTATAATATATAACAAT
51790308 A
1 A
51790309 TCTCTATTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (21 bp):
AAATCTATAATATATAACAAT
Found at i:51790311 original size:18 final size:18
Alignment explanation
Indices: 51790231--51790311 Score: 58
Period size: 18 Copynumber: 4.3 Consensus size: 18
51790221 AGTGTTCACC
*
51790231 ATATCTATTTATATAACA
1 ATATCTATATATATAACA
* *
51790249 ACATCT-TACATGAATAACA
1 ATATCTATATAT--ATAACA
*
51790268 A-ATCTATAATATATACCA
1 ATATCTAT-ATATATAACA
*
51790286 ATAAATCTATTTATATAACA
1 AT--ATCTATATATATAACA
51790306 ATATCT
1 ATATCT
51790312 CTATTGGTCC
Statistics
Matches: 49, Mismatches: 7, Indels: 14
0.70 0.10 0.20
Matches are distributed among these distances:
17 3 0.06
18 19 0.39
19 8 0.16
20 13 0.27
21 6 0.12
ACGTcount: A:0.47, C:0.15, G:0.01, T:0.37
Consensus pattern (18 bp):
ATATCTATATATATAACA
Found at i:51790314 original size:20 final size:20
Alignment explanation
Indices: 51790234--51790316 Score: 57
Period size: 20 Copynumber: 4.3 Consensus size: 20
51790224 GTTCACCATA
*
51790234 TCTATTTATATAACAACATC
1 TCTATTTATATAACAATATC
* *
51790254 T-TACATGA-ATAACAA-ATC
1 TCTA-TTTATATAACAATATC
* * * **
51790272 TATA-ATATATACCAATAAA
1 TCTATTTATATAACAATATC
51790291 TCTATTTATATAACAATATC
1 TCTATTTATATAACAATATC
51790311 TCTATT
1 TCTATT
51790317 GGTCCTACAC
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
17 1 0.02
18 10 0.22
19 15 0.33
20 20 0.43
ACGTcount: A:0.45, C:0.16, G:0.01, T:0.39
Consensus pattern (20 bp):
TCTATTTATATAACAATATC
Found at i:51805841 original size:20 final size:20
Alignment explanation
Indices: 51805807--51805848 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
51805797 AACTATTTAA
** *
51805807 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAATT
51805827 ATAATATTAAATGAATAATT
1 ATAATATTAAATGAATAATT
51805847 AT
1 AT
51805849 GTGTTTATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAATT
Found at i:51808308 original size:43 final size:42
Alignment explanation
Indices: 51808242--51808370 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 42
51808232 ATGGGATTTC
* * * *
51808242 CGATATGTGTTATCGTGTAAGACCACATCTGGGATGTTGGCAT
1 CGATATGTATTA-CATGTAAGACCACGTCTGGGAAGTTGGCAT
*
51808285 CGACTTATGT-TTACATGTAAGACC-CTGTCTGAGACAG-TGGCAT
1 CGA--TATGTATTACATGTAAGACCAC-GTCTGGGA-AGTTGGCAT
**
51808328 CGATATGTGATTACATGTAAGACCACGTCTGGGGCGTTGGCAT
1 CGATATGT-ATTACATGTAAGACCACGTCTGGGAAGTTGGCAT
51808371 TGTACGAGCT
Statistics
Matches: 71, Mismatches: 7, Indels: 16
0.76 0.07 0.17
Matches are distributed among these distances:
41 5 0.07
42 2 0.03
43 54 0.76
44 5 0.07
45 5 0.07
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (42 bp):
CGATATGTATTACATGTAAGACCACGTCTGGGAAGTTGGCAT
Found at i:51812621 original size:27 final size:27
Alignment explanation
Indices: 51812583--51812634 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
51812573 TGAAATGAAG
51812583 TTGGTGTGGTTTATTAATGTTTGAGGT
1 TTGGTGTGGTTTATTAATGTTTGAGGT
51812610 TTGGTGTGGTTTATTAATGTTTGAG
1 TTGGTGTGGTTTATTAATGTTTGAG
51812635 ATTCGGTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.33, T:0.52
Consensus pattern (27 bp):
TTGGTGTGGTTTATTAATGTTTGAGGT
Found at i:51814403 original size:21 final size:21
Alignment explanation
Indices: 51814379--51814443 Score: 85
Period size: 21 Copynumber: 3.1 Consensus size: 21
51814369 GCTCGTAAAA
51814379 GTTGAACGAAAACCCATAAGG
1 GTTGAACGAAAACCCATAAGG
* * * *
51814400 GTTGAACGAAAGCTCGTAAGA
1 GTTGAACGAAAACCCATAAGG
*
51814421 GTTGAACAAAAACCCATAAGG
1 GTTGAACGAAAACCCATAAGG
51814442 GT
1 GT
51814444 GAAACTAAAG
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.17
Consensus pattern (21 bp):
GTTGAACGAAAACCCATAAGG
Found at i:51814424 original size:42 final size:42
Alignment explanation
Indices: 51814347--51814486 Score: 142
Period size: 42 Copynumber: 3.4 Consensus size: 42
51814337 TGCTAAACAG
* * * * *
51814347 AAACCCATAA-GGCTGAATGGAGGCTCGTAAAAGTTGAACGA
1 AAACCCATAAGGGTTGAACGAAAGCTCGTAAGAGTTGAACGA
*
51814388 AAACCCATAAGGGTTGAACGAAAGCTCGTAAGAGTTGAACAA
1 AAACCCATAAGGGTTGAACGAAAGCTCGTAAGAGTTGAACGA
* ** *
51814430 AAACCCATAAGGG-TGAAACTAAAGCTCAAAAGAGCTT-AACGG
1 AAACCCATAAGGGTTG-AACGAAAGCTCGTAAGAG-TTGAACGA
*
51814472 AAACTCATAAGGGTT
1 AAACCCATAAGGGTT
51814487 AAAATGAAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
41 12 0.14
42 68 0.82
43 3 0.04
ACGTcount: A:0.42, C:0.17, G:0.24, T:0.17
Consensus pattern (42 bp):
AAACCCATAAGGGTTGAACGAAAGCTCGTAAGAGTTGAACGA
Found at i:51814621 original size:24 final size:24
Alignment explanation
Indices: 51814586--51814633 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
51814576 TACTTGGGTA
51814586 ATTTGCCATCAATTCATCCTTTGC
1 ATTTGCCATCAATTCATCCTTTGC
*
51814610 ATTTGCCGTCAATTCATCCTTTGC
1 ATTTGCCATCAATTCATCCTTTGC
51814634 CACAGAACGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.19, C:0.29, G:0.10, T:0.42
Consensus pattern (24 bp):
ATTTGCCATCAATTCATCCTTTGC
Found at i:51814776 original size:45 final size:46
Alignment explanation
Indices: 51814691--51814778 Score: 124
Period size: 45 Copynumber: 1.9 Consensus size: 46
51814681 TTTTCAATTC
* * * *
51814691 ATAATTTAACAATATTTCATTTTTTTAACAATATGCTAAATACATA
1 ATAATTTAACAACATTCCATTTTTTCAACAATATACTAAATACATA
*
51814737 ATAATTTAACAACATTCCA-TTTTTCAACAATATATTAAATAC
1 ATAATTTAACAACATTCCATTTTTTCAACAATATACTAAATAC
51814779 GTAACATCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
45 20 0.54
46 17 0.46
ACGTcount: A:0.44, C:0.14, G:0.01, T:0.41
Consensus pattern (46 bp):
ATAATTTAACAACATTCCATTTTTTCAACAATATACTAAATACATA
Found at i:51817912 original size:17 final size:18
Alignment explanation
Indices: 51817890--51817926 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
51817880 TTTTTTTTAG
*
51817890 ATTTTAATTTTTTATATT
1 ATTTAAATTTTTTATATT
51817908 ATTTAGAATTTTTTATATT
1 ATTTA-AATTTTTTATATT
51817927 TTCCATATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
ATTTAAATTTTTTATATT
Found at i:51817958 original size:8 final size:8
Alignment explanation
Indices: 51817936--51817969 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
51817926 TTTCCATATT
51817936 TTTTAAAA
1 TTTTAAAA
* *
51817944 ATATAAAA
1 TTTTAAAA
51817952 TTTTAAAA
1 TTTTAAAA
51817960 TTTTAAAA
1 TTTTAAAA
51817968 TT
1 TT
51817970 ACCCTTGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
TTTTAAAA
Found at i:51824086 original size:21 final size:21
Alignment explanation
Indices: 51824061--51824116 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 21
51824051 AATCTTCGAG
51824061 GATATGCAATCTTAGATATAAT
1 GATATGCAATCTTAGATAT-AT
*
51824083 -ATATACAATCTT--ATATAT
1 GATATGCAATCTTAGATATAT
*
51824101 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
51824117 GATTTAATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
18 2 0.07
19 14 0.50
21 12 0.43
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (21 bp):
GATATGCAATCTTAGATATAT
Found at i:51825823 original size:43 final size:43
Alignment explanation
Indices: 51825776--51825905 Score: 210
Period size: 43 Copynumber: 3.0 Consensus size: 43
51825766 CATTTAATCG
*
51825776 CAAATCGATGCCA-CTGTCCCAGACAG-GGTCTTACTCGAAAATA
1 CAAATCGATGCCATC-GTCCCAGAC-GTGGTCTTACACGAAAATA
*
51825819 CAAATCGATGTCATCGTCCCAGACGTGGTCTTACACGAAAATA
1 CAAATCGATGCCATCGTCCCAGACGTGGTCTTACACGAAAATA
51825862 CAAATCGATGCCATCGTCCCAGACGTGGTCTTACACGAAAATA
1 CAAATCGATGCCATCGTCCCAGACGTGGTCTTACACGAAAATA
51825905 C
1 C
51825906 TTATCAAAAA
Statistics
Matches: 82, Mismatches: 3, Indels: 4
0.92 0.03 0.04
Matches are distributed among these distances:
42 1 0.01
43 80 0.98
44 1 0.01
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.22
Consensus pattern (43 bp):
CAAATCGATGCCATCGTCCCAGACGTGGTCTTACACGAAAATA
Found at i:51825846 original size:86 final size:86
Alignment explanation
Indices: 51825747--51825905 Score: 216
Period size: 86 Copynumber: 1.8 Consensus size: 86
51825737 ACAACGCCAA
*** *
51825747 CGTCCCAAACGTGGTCTTACA-TTTAATCGCAAATCGATGCCA-CTGTCCCAGACAG-GGTCTTA
1 CGTCCCAAACGTGGTCTTACACGAAAAT-ACAAATCGATGCCATC-GTCCCAGAC-GTGGTCTTA
*
51825809 CTCGAAAATACAAATCGATGTCAT
63 CACGAAAATACAAATCGATGTCAT
*
51825833 CGTCCCAGACGTGGTCTTACACGAAAATACAAATCGATGCCATCGTCCCAGACGTGGTCTTACAC
1 CGTCCCAAACGTGGTCTTACACGAAAATACAAATCGATGCCATCGTCCCAGACGTGGTCTTACAC
51825898 GAAAATAC
66 GAAAATAC
51825906 TTATCAAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
85 1 0.02
86 59 0.92
87 4 0.06
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (86 bp):
CGTCCCAAACGTGGTCTTACACGAAAATACAAATCGATGCCATCGTCCCAGACGTGGTCTTACAC
GAAAATACAAATCGATGTCAT
Found at i:51827342 original size:24 final size:24
Alignment explanation
Indices: 51827310--51827360 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
51827300 TACTTGGGTA
51827310 ATTTACCGTCAATCCATCCTTTAC
1 ATTTACCGTCAATCCATCCTTTAC
* *
51827334 ATTTTCCGTCAATTCATCCTTTAC
1 ATTTACCGTCAATCCATCCTTTAC
51827358 ATT
1 ATT
51827361 CTAGTGCCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.29, G:0.04, T:0.43
Consensus pattern (24 bp):
ATTTACCGTCAATCCATCCTTTAC
Found at i:51827416 original size:33 final size:33
Alignment explanation
Indices: 51827365--51827522 Score: 90
Period size: 33 Copynumber: 4.7 Consensus size: 33
51827355 TACATTCTAG
* *
51827365 TGCCATAACACAGTTATGGTCTTATCATCAAAA
1 TGCCATAGCACAGCTATGGTCTTATCATCAAAA
* * *
51827398 TGCCATAGCCCAGCTATGGTGTTA-CATATAAACA
1 TGCCATAGCACAGCTATGGTCTTATCAT-CAAA-A
* * * * *
51827432 CTGCTATGGTC-CAACTATGGTCTTGAGT--TCATAG
1 -TGCCATAG-CACAGCTATGGTCTT-A-TCATCAAAA
* * * * *
51827466 TGTCATAACATAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCACAGCTATGGTCTTATCATCAAAA
*
51827499 TGCCATAGCTCAGCTATGGTCTTA
1 TGCCATAGCACAGCTATGGTCTTA
51827523 CATATAAACA
Statistics
Matches: 89, Mismatches: 26, Indels: 20
0.66 0.19 0.15
Matches are distributed among these distances:
31 1 0.01
32 5 0.06
33 60 0.67
34 1 0.01
35 19 0.21
36 3 0.03
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (33 bp):
TGCCATAGCACAGCTATGGTCTTATCATCAAAA
Found at i:51827542 original size:101 final size:101
Alignment explanation
Indices: 51827354--51827592 Score: 356
Period size: 101 Copynumber: 2.4 Consensus size: 101
51827344 AATTCATCCT
* *
51827354 TTACATTC-TAGTGCCATAACACAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACATAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGT
* * *
51827418 GTTACATATAAACACTGCTATGGTCCAACTATGGTC
66 CTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * *
51827454 TTGA-GTTCATAGTGTCATAACATAGTTATGGTCTTATCATCAGAATGCCATAGCTCAGCTATGG
1 TT-ACGTTCATAGTGCCATAACATAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGG
51827518 TCTTACATATAAACACTGCCATGGTCCAACCATGGTC
65 TCTTACATATAAACACTGCCATGGTCCAACCATGGTC
* * *
51827555 TTACGTTCATAGTGCCATAACCTAGTTGTGGTATTATC
1 TTACGTTCATAGTGCCATAACATAGTTATGGTCTTATC
51827593 CGTCAATTCA
Statistics
Matches: 124, Mismatches: 12, Indels: 5
0.88 0.09 0.04
Matches are distributed among these distances:
100 6 0.05
101 118 0.95
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACATAGTTATGGTCTTATCATCAAAATGCCATAGCCCAGCTATGGT
CTTACATATAAACACTGCCATGGTCCAACCATGGTC
Found at i:51828545 original size:16 final size:17
Alignment explanation
Indices: 51828521--51828553 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
51828511 TATGCGGCCT
*
51828521 CATATTTTC-ATTTAGG
1 CATAATTTCTATTTAGG
51828537 CATAATTTCTATTTAGG
1 CATAATTTCTATTTAGG
51828554 TCCTTCTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.48
Consensus pattern (17 bp):
CATAATTTCTATTTAGG
Found at i:51829022 original size:21 final size:21
Alignment explanation
Indices: 51828981--51829022 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
51828971 TAGTATGAAT
**
51828981 AATAAAATAAGACAATTAATA
1 AATAAAATAAGACAAAAAATA
51829002 AATAAAATAAAGA-AAAAAATA
1 AATAAAAT-AAGACAAAAAATA
51829023 TGAGAAAGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.74, C:0.02, G:0.05, T:0.19
Consensus pattern (21 bp):
AATAAAATAAGACAAAAAATA
Found at i:51830369 original size:125 final size:125
Alignment explanation
Indices: 51830177--51830433 Score: 401
Period size: 125 Copynumber: 2.1 Consensus size: 125
51830167 AAATAGTGGG
** * * *
51830177 AAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCGTGGCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
51830242 TCGCTACAG-TGGTCATGCAAGAAAT-AATTTTTTTTTAACGTTTTCTGAGCAAATAGTATA
66 TCGCTACAGTTGGTCATGCAAGAAATAAATTTTTTTTT-ACG-TTTCTGAGCAAATAGTATA
51830302 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
* * * *
51830367 TCGCTACAGTTGGTCATGTAGGAAATAAATTTTTTTTTACGTTTCTGAGCAAATAGTGTC
66 TCGCTACAGTTGGTCATGCAAGAAATAAATTTTTTTTTACGTTTCTGAGCAAATAGTATA
51830427 AAATCGC
1 AAATCGC
51830434 GCCCTTGTGG
Statistics
Matches: 121, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
125 93 0.77
126 17 0.14
127 11 0.09
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.32
Consensus pattern (125 bp):
AAATCGCTGATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
TCGCTACAGTTGGTCATGCAAGAAATAAATTTTTTTTTACGTTTCTGAGCAAATAGTATA
Found at i:51833667 original size:28 final size:27
Alignment explanation
Indices: 51833635--51833937 Score: 293
Period size: 28 Copynumber: 11.6 Consensus size: 27
51833625 GCTGAGTTAT
51833635 GTTAGGGTTTTTACATTAATTAAATTAG
1 GTTAGGGTTTTTA-ATTAATTAAATTAG
51833663 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATT-AATTAAATTAG
*
51833691 GTTAGGG---TT--TTAATTAAGTTAG
1 GTTAGGGTTTTTAATTAATTAAATTAG
*
51833713 GTTAGGG-TTTTAATT-A---AATTAC
1 GTTAGGGTTTTTAATTAATTAAATTAG
51833735 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATT-AATTAAATTAG
51833763 GTTAGGGTTTTTAATTAAGTT--A--A-
1 GTTAGGGTTTTTAATTAA-TTAAATTAG
* *
51833786 GTTAGGATTTTTAATTAAATTAAGTTAG
1 GTTAGGGTTTTTAATT-AATTAAATTAG
*
51833814 TTTAGGG--TTT--TTAATTAAATTAG
1 GTTAGGGTTTTTAATTAATTAAATTAG
51833837 GTTAGGGTTTTTAATTAAATTAAATTAG
1 GTTAGGGTTTTTAATT-AATTAAATTAG
**
51833865 GTTAGGGTTTTTAATTAAATTAGGTTAGG
1 GTTAGGGTTTTTAATT-AATTAAATTA-G
* **
51833894 GTTAGGGTTTTTAACTAAATTAGGTTAGG
1 GTTAGGGTTTTTAA-TTAATTAAATTA-G
51833923 GTTAGGGTTTTTAAT
1 GTTAGGGTTTTTAAT
51833938 CAAATAATGT
Statistics
Matches: 237, Mismatches: 13, Indels: 50
0.79 0.04 0.17
Matches are distributed among these distances:
22 28 0.12
23 43 0.18
24 7 0.03
25 7 0.03
26 6 0.03
27 8 0.03
28 96 0.41
29 41 0.17
30 1 0.00
ACGTcount: A:0.31, C:0.01, G:0.21, T:0.47
Consensus pattern (27 bp):
GTTAGGGTTTTTAATTAATTAAATTAG
Found at i:51833797 original size:51 final size:51
Alignment explanation
Indices: 51833635--51833942 Score: 361
Period size: 51 Copynumber: 5.9 Consensus size: 51
51833625 GCTGAGTTAT
51833635 GTTAGGGTTTTTACATT-AATTAAATTAGGTTAGGGTTTTTAATTAAATTAA
1 GTTAGGGTTTTTA-ATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAA
* ***** * * *
51833686 ATTA-GGTTAGGGTTTTAATTAAGTTAGGTTAGGG-TTTTAATTAAATTAC
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAA
*
51833735 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAGTTAA
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAA
* * * *
51833786 GTTAGGATTTTTAATTAAATTAAGTTAGTTTAGGGTTTTTAATTAAATTAG
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAA
51833837 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAGGTTA
1 GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTA----A
* ** *
51833892 GGGTTAGGGTTTTTAACTAAATTAGGTTAGGGTTAGGGTTTTTAATCAAAT
1 --GTTAGGGTTTTTAATTAAATTAAATTA-GGTTAGGGTTTTTAATTAAAT
51833943 AATGTCAAAA
Statistics
Matches: 216, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
49 19 0.09
50 44 0.20
51 109 0.50
57 24 0.11
58 20 0.09
ACGTcount: A:0.32, C:0.01, G:0.21, T:0.46
Consensus pattern (51 bp):
GTTAGGGTTTTTAATTAAATTAAATTAGGTTAGGGTTTTTAATTAAATTAA
Found at i:51836359 original size:52 final size:51
Alignment explanation
Indices: 51836288--51836390 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
51836278 TTAATATGGA
* * *
51836288 TTTGGAGATTTTTTGAAGGAAATTGAAAGGA-TTTTGAAAGGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAAAGAATTTTTGAAAGGAA-TTGAGAG
* *
51836339 TTTGAGAGAATTTTGGAAGGAAATTGAGAGAATTTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAAAGAATTTTTGAAAGGAATTGAGAG
51836391 AATTTTTGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
51 4 0.09
52 30 0.67
53 11 0.24
ACGTcount: A:0.36, C:0.00, G:0.31, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAAAGAATTTTTGAAAGGAATTGAGAG
Found at i:51836365 original size:22 final size:22
Alignment explanation
Indices: 51836340--51836409 Score: 122
Period size: 22 Copynumber: 3.2 Consensus size: 22
51836330 ATTTGAGAGT
*
51836340 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
*
51836362 TTGAGAGAATTTTTGAAGGGAA
1 TTGAGAGAATTTTTGAAGGAAA
51836384 TTGAGAGAATTTTTGAAGGAAA
1 TTGAGAGAATTTTTGAAGGAAA
51836406 TTGA
1 TTGA
51836410 TATTGAATTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 45 1.00
ACGTcount: A:0.39, C:0.00, G:0.30, T:0.31
Consensus pattern (22 bp):
TTGAGAGAATTTTTGAAGGAAA
Found at i:51839772 original size:10 final size:10
Alignment explanation
Indices: 51839757--51839781 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
51839747 TATGTAATTA
51839757 ATATAAATAT
1 ATATAAATAT
51839767 ATATAAATAT
1 ATATAAATAT
51839777 ATATA
1 ATATA
51839782 TGAAGGGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATATAAATAT
Found at i:51866911 original size:3 final size:3
Alignment explanation
Indices: 51866903--51866927 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
51866893 CCATTGGAGG
51866903 TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC T
51866928 CTCTGTCTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:51867409 original size:2 final size:2
Alignment explanation
Indices: 51867402--51867438 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
51867392 GATGGTACAT
51867402 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
51867439 GTGTGTGCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:51871472 original size:6 final size:6
Alignment explanation
Indices: 51871461--51871489 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
51871451 AACACATTTA
51871461 CAAATC CAAATC CAAATC CAAATC CAAAT
1 CAAATC CAAATC CAAATC CAAATC CAAAT
51871490 TTATTTCAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.52, C:0.31, G:0.00, T:0.17
Consensus pattern (6 bp):
CAAATC
Found at i:51877982 original size:31 final size:30
Alignment explanation
Indices: 51877933--51878012 Score: 76
Period size: 29 Copynumber: 2.7 Consensus size: 30
51877923 AGATTCTAGG
**
51877933 TAAA-AAAAATTACCAAAATTATGTATT-AA
1 TAAATAAAAATTATTAAAATTAT-TATTAAA
51877962 TAACATAAAAATTATTAAAA-TATTATTAAA
1 TAA-ATAAAAATTATTAAAATTATTATTAAA
* *
51877992 TAATTAAAAAATATATAAAAT
1 TAAATAAAAATTAT-TAAAAT
51878013 GACATGACGC
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
29 16 0.38
30 14 0.33
31 12 0.29
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (30 bp):
TAAATAAAAATTATTAAAATTATTATTAAA
Found at i:51879910 original size:15 final size:17
Alignment explanation
Indices: 51879890--51879924 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
51879880 AGGTATAATA
51879890 AAATA-TTAAA-AAAAC
1 AAATATTTAAATAAAAC
51879905 AAATATTTAAATAAAAC
1 AAATATTTAAATAAAAC
51879922 AAA
1 AAA
51879925 CACATAACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 5 0.28
17 8 0.44
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATATTTAAATAAAAC
Found at i:51885739 original size:16 final size:16
Alignment explanation
Indices: 51885718--51885748 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51885708 TATTAAAATT
*
51885718 TATATTTTTGTATAAA
1 TATATTTATGTATAAA
51885734 TATATTTATGTATAA
1 TATATTTATGTATAA
51885749 TTGAGGTATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (16 bp):
TATATTTATGTATAAA
Found at i:51886750 original size:58 final size:61
Alignment explanation
Indices: 51886635--51886765 Score: 144
Period size: 58 Copynumber: 2.2 Consensus size: 61
51886625 TTTTATTGGC
* * * * * *
51886635 ATAATAACAAATTTAGCCCTCCAATGTTTACAGATTCTATCAAATTGGTCTTAATTC-TAAA
1 ATAATAA-AAAATTAGCCCTCCAATCTTTACACATTCTATCAAATTAGCCATAATTCTTAAA
* *
51886696 ATAATAAAAAATTAGCCCT-CAA-CTTTACACATTCTATCAATTTAGCCATGATTCTTAAA
1 ATAATAAAAAATTAGCCCTCCAATCTTTACACATTCTATCAAATTAGCCATAATTCTTAAA
51886755 ATTAA-AAAAAA
1 A-TAATAAAAAA
51886766 CATATTTAAA
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
58 25 0.42
59 14 0.23
60 14 0.23
61 7 0.12
ACGTcount: A:0.43, C:0.18, G:0.06, T:0.34
Consensus pattern (61 bp):
ATAATAAAAAATTAGCCCTCCAATCTTTACACATTCTATCAAATTAGCCATAATTCTTAAA
Found at i:51886829 original size:20 final size:20
Alignment explanation
Indices: 51886787--51886834 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
51886777 ATTCATTTTC
* **
51886787 TATAAAAATACACACTATTT
1 TATAAAAATACACACAAAAT
*
51886807 TATAAAAATACATACAAAAT
1 TATAAAAATACACACAAAAT
51886827 TATAAAAA
1 TATAAAAA
51886835 AATGAATATC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.29
Consensus pattern (20 bp):
TATAAAAATACACACAAAAT
Found at i:51888142 original size:12 final size:12
Alignment explanation
Indices: 51888125--51888149 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
51888115 TTATATCTAC
51888125 ATTTTTAATTTT
1 ATTTTTAATTTT
51888137 ATTTTTAATTTT
1 ATTTTTAATTTT
51888149 A
1 A
51888150 AAGAGATTAT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTTTAATTTT
Found at i:51896187 original size:25 final size:24
Alignment explanation
Indices: 51896159--51896254 Score: 88
Period size: 25 Copynumber: 3.9 Consensus size: 24
51896149 TCTCGTTTAA
*
51896159 TGGCTCTCACGAGCTTCCCGATATT
1 TGGCTCTCATGAGCTTCCCGAT-TT
* ** *
51896184 TGGCTCTTATGAGCTTTTCGATTAG
1 TGGCTCTCATGAGCTTCCCGATT-T
*
51896209 TGGCTCTCTTGAGCTTCCCG-TTT
1 TGGCTCTCATGAGCTTCCCGATTT
51896232 ATGGCTCGT-ATGAGCTTCCCGAT
1 -TGGCTC-TCATGAGCTTCCCGAT
51896255 AATTAGCTCG
Statistics
Matches: 56, Mismatches: 11, Indels: 8
0.75 0.15 0.11
Matches are distributed among these distances:
24 20 0.36
25 36 0.64
ACGTcount: A:0.14, C:0.26, G:0.23, T:0.38
Consensus pattern (24 bp):
TGGCTCTCATGAGCTTCCCGATTT
Found at i:51896190 original size:50 final size:49
Alignment explanation
Indices: 51896130--51896276 Score: 138
Period size: 50 Copynumber: 3.0 Consensus size: 49
51896120 AGTGTTCCAT
* *
51896130 TATTTAGCTCTTATGAG-TATCTCGTTTAATGGCTCTCACGAGCTTCCCG
1 TATTTGGCTCTTATGAGCT-TCTCGATTAATGGCTCTCACGAGCTTCCCG
* * **
51896179 ATATTTGGCTCTTATGAGCTTTTCGATTAGTGGCTCTCTTGAGCTTCCCG
1 -TATTTGGCTCTTATGAGCTTCTCGATTAATGGCTCTCACGAGCTTCCCG
* * * * *
51896229 T-TTATGGCTCGTATGAGCTTCCCGA-TAATTAGCTCGCAAGAGCTTCCC
1 TATT-TGGCTCTTATGAGCTTCTCGATTAA-TGGCTCTCACGAGCTTCCC
51896277 ATTACATGGC
Statistics
Matches: 80, Mismatches: 14, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
48 4 0.05
49 34 0.43
50 41 0.51
51 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.37
Consensus pattern (49 bp):
TATTTGGCTCTTATGAGCTTCTCGATTAATGGCTCTCACGAGCTTCCCG
Found at i:51896271 original size:25 final size:25
Alignment explanation
Indices: 51896258--51896314 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
51896248 TCCCGATAAT
*
51896258 TAGCTCGCAAGAGCTTCCCATTACA
1 TAGCTCGAAAGAGCTTCCCATTACA
*
51896283 TGGCTCGAAAGAGCTTCCCATTTACA
1 TAGCTCGAAAGAGCTTCCCA-TTACA
51896309 T-GCTCG
1 TAGCTCG
51896315 TATGGACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 23 0.79
26 6 0.21
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.26
Consensus pattern (25 bp):
TAGCTCGAAAGAGCTTCCCATTACA
Found at i:51897917 original size:24 final size:25
Alignment explanation
Indices: 51897891--51898036 Score: 118
Period size: 27 Copynumber: 5.7 Consensus size: 25
51897881 TATGTAACGG
*
51897891 GAAGCTCCGAAGAGCCATTAA-CGG
1 GAAGCTCCGAAGAGCCATTAATCGA
** * *
51897915 GAAGCTCATACGAGCCAAT-ATCGA
1 GAAGCTCCGAAGAGCCATTAATCGA
*
51897939 GAAGCTCC-AGAGAGCCAATTAATCGG
1 GAAGCTCCGA-AGAGCC-ATTAATCGA
* *
51897965 GAAGCTCATGAAAGAGCCTTTAATCGA
1 GAAGCTC-CG-AAGAGCCATTAATCGA
* *
51897992 GAAGCTCATGAAAGAGCCTTTAATCGA
1 GAAGCTC-CG-AAGAGCCATTAATCGA
*
51898019 GAAGCTCCAAAGAGCCAT
1 GAAGCTCCGAAGAGCCAT
51898037 ATATCAGGAC
Statistics
Matches: 100, Mismatches: 15, Indels: 13
0.78 0.12 0.10
Matches are distributed among these distances:
23 2 0.02
24 29 0.29
25 10 0.10
26 11 0.11
27 41 0.41
28 6 0.06
29 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (25 bp):
GAAGCTCCGAAGAGCCATTAATCGA
Found at i:51897990 original size:27 final size:27
Alignment explanation
Indices: 51897957--51898025 Score: 129
Period size: 27 Copynumber: 2.6 Consensus size: 27
51897947 AGAGAGCCAA
*
51897957 TTAATCGGGAAGCTCATGAAAGAGCCT
1 TTAATCGAGAAGCTCATGAAAGAGCCT
51897984 TTAATCGAGAAGCTCATGAAAGAGCCT
1 TTAATCGAGAAGCTCATGAAAGAGCCT
51898011 TTAATCGAGAAGCTC
1 TTAATCGAGAAGCTC
51898026 CAAAGAGCCA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (27 bp):
TTAATCGAGAAGCTCATGAAAGAGCCT
Found at i:51898130 original size:24 final size:24
Alignment explanation
Indices: 51898097--51898174 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
51898087 CACAACCAAT
*
51898097 CGGGATGCTCCAAAGAGCTATTAA
1 CGGGAAGCTCCAAAGAGCTATTAA
* *
51898121 CGGGAAGCTCGC-AAGAACCATATAA
1 CGGGAAGCTC-CAAAGAGCTAT-TAA
* * *
51898146 TGGGAAGCT-CATGAGAGCTAATAA
1 CGGGAAGCTCCA-AAGAGCTATTAA
51898170 CGGGA
1 CGGGA
51898175 CACTCTTTTG
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
23 1 0.02
24 23 0.56
25 17 0.41
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.17
Consensus pattern (24 bp):
CGGGAAGCTCCAAAGAGCTATTAA
Found at i:51909363 original size:41 final size:41
Alignment explanation
Indices: 51909318--51909490 Score: 231
Period size: 41 Copynumber: 4.2 Consensus size: 41
51909308 ACTGGCACTT
* *
51909318 AGCCTGCTAGACATAAAGTCTGAAATGTTTTACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
* **
51909359 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACAGGC-TTG
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
* *
51909399 AGCCTGCTAGAGTTAAAGTCTGAAATGTTTCACCAGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
** * * *
51909440 AGCCTGCTAGACTTAAAGTCTGAAACATATCACTGGCATCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
51909481 AGCCTGCTAG
1 AGCCTGCTAG
51909491 GCACCGAGCC
Statistics
Matches: 114, Mismatches: 17, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
40 35 0.31
41 79 0.69
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:51910419 original size:2 final size:2
Alignment explanation
Indices: 51910412--51910445 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
51910402 AATACAATAG
51910412 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
51910446 TAATTAATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:51914784 original size:5 final size:5
Alignment explanation
Indices: 51914776--51914823 Score: 89
Period size: 5 Copynumber: 9.8 Consensus size: 5
51914766 AGTTAAGTTA
51914776 TATAT TATA- TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATA
51914824 AAAGAAATAA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
4 4 0.10
5 38 0.90
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:51915837 original size:25 final size:23
Alignment explanation
Indices: 51915805--51915885 Score: 112
Period size: 22 Copynumber: 3.5 Consensus size: 23
51915795 TAGCACGTTG
* *
51915805 GTGCTCTCTGATTACTAGCACGTCA
1 GTGCTCTCTG-TTA-TAGCACATCT
51915830 GTGCTCTCTGTT-TAGCACATCT
1 GTGCTCTCTGTTATAGCACATCT
51915852 GTGCTCTCTG-TATAGCACATCT
1 GTGCTCTCTGTTATAGCACATCT
51915874 GTGCTCTCTGTT
1 GTGCTCTCTGTT
51915886 CATTAATGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.02
22 38 0.73
23 1 0.02
24 2 0.04
25 10 0.19
ACGTcount: A:0.15, C:0.27, G:0.20, T:0.38
Consensus pattern (23 bp):
GTGCTCTCTGTTATAGCACATCT
Found at i:51915838 original size:27 final size:25
Alignment explanation
Indices: 51915782--51915836 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
51915772 ACTTTAGCGC
* **
51915782 GCTCTATGATTATTAGCACGTTGGT
1 GCTCTATGATTACTAGCACGTCAGT
*
51915807 GCTCTCTGATTACTAGCACGTCAGT
1 GCTCTATGATTACTAGCACGTCAGT
51915832 GCTCT
1 GCTCT
51915837 CTGTTTAGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (25 bp):
GCTCTATGATTACTAGCACGTCAGT
Found at i:51917950 original size:42 final size:42
Alignment explanation
Indices: 51917891--51917979 Score: 169
Period size: 42 Copynumber: 2.1 Consensus size: 42
51917881 CTATTTCGTC
51917891 CACACGGGCAGAGACACAGGCATGTGTCTCAGCTGTGTGTGA
1 CACACGGGCAGAGACACAGGCATGTGTCTCAGCTGTGTGTGA
*
51917933 CACACGGGCAGAGACACAGGCGTGTGTCTCAGCTGTGTGTGA
1 CACACGGGCAGAGACACAGGCATGTGTCTCAGCTGTGTGTGA
51917975 CACAC
1 CACAC
51917980 AGCTAGGCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.24, C:0.26, G:0.33, T:0.18
Consensus pattern (42 bp):
CACACGGGCAGAGACACAGGCATGTGTCTCAGCTGTGTGTGA
Found at i:51938248 original size:5 final size:5
Alignment explanation
Indices: 51938229--51938264 Score: 54
Period size: 5 Copynumber: 7.0 Consensus size: 5
51938219 TTCTTATATA
*
51938229 AAAAA AAAAG CAAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAAG
51938265 CACCAAGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 24 0.83
6 5 0.17
ACGTcount: A:0.81, C:0.03, G:0.17, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:51940774 original size:21 final size:21
Alignment explanation
Indices: 51940742--51940782 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
51940732 TAATTATGTT
51940742 AATAATTAATATTTATTATTAA
1 AATAATTAATATTTA-TATTAA
51940764 AATAA-TAATATTTATATTA
1 AATAATTAATATTTATATTA
51940783 TATATGTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 9 0.47
22 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATAATTAATATTTATATTAA
Done.