Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 124041150
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: 124041150
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 335 characters in sequence are not A, C, G, or T
File 61 of 410
Found at i:16614050 original size:53 final size:54
Alignment explanation
Indices: 16613979--16614095 Score: 184
Period size: 54 Copynumber: 2.2 Consensus size: 54
16613969 TTTGCTGAAT
* *
16613979 TTTTATGGAAGAAAATGAATCATGGTTGTT-AA-ACAAGGGAAATGTTTGAGTGG
1 TTTTATGGAAGAAAATGAATCATAGTT-TTAAAGACAAGGGAAATGTTTGAGTCG
*
16614032 TTTTATGGAAGAACATGAATCATAGTTTTAAAGACAAGGGAAATGTTTGAGTCG
1 TTTTATGGAAGAAAATGAATCATAGTTTTAAAGACAAGGGAAATGTTTGAGTCG
16614086 TTTTATGGAA
1 TTTTATGGAA
16614096 AATTACCTAT
Statistics
Matches: 59, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
52 2 0.03
53 27 0.46
54 30 0.51
ACGTcount: A:0.36, C:0.05, G:0.26, T:0.33
Consensus pattern (54 bp):
TTTTATGGAAGAAAATGAATCATAGTTTTAAAGACAAGGGAAATGTTTGAGTCG
Found at i:16615448 original size:48 final size:48
Alignment explanation
Indices: 16615370--16615696 Score: 232
Period size: 48 Copynumber: 6.8 Consensus size: 48
16615360 GGTGATATGA
* *
16615370 GTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGACGTGT
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGACGTGT
* * * *
16615418 GTGCTAGTGTAAGACCATGCCTGGGGCATGGCATCAACATTGATGTGT
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGACGTGT
** * * ** * *
16615466 GTATTAGTGTAAAACCATGTCTGGGACATGGGATCGACCA-CAACATGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGA-CATTGACGTGT
* * * * * * *
16615514 GAGCCAGTGTTAGACCATGTCTGAGAAATGGCATCAGCCACCTT-A--TGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATC-G--ACATTGACGTGT
* * * * * *
16615562 GAGCCAGTGGAAGACCATGTCTGGGACATGGCATCGACAATGA-GACGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGACG-TGT
* * * * * * *
16615610 GAGCTAGTGTAAGACCATGTCTAGGACATGGCATGGGCCTCGACATGT
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGACGTGT
* * * *
16615658 GAGCTAGTGTAAGACCATGTTTGGAACATGGCATTGACA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACA
16615697 ATTCACCCTC
Statistics
Matches: 217, Mismatches: 53, Indels: 18
0.75 0.18 0.06
Matches are distributed among these distances:
45 3 0.01
46 1 0.00
47 1 0.00
48 206 0.95
49 3 0.01
50 2 0.01
51 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.30, T:0.23
Consensus pattern (48 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGACATTGACGTGT
Found at i:16615641 original size:96 final size:95
Alignment explanation
Indices: 16615365--16615698 Score: 273
Period size: 96 Copynumber: 3.5 Consensus size: 95
16615355 ATTTGGGTGA
* * * * *
16615365 TATGAGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGACG-TGTGTGCTAGTGTA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAATGA-GATGAGAGCTAGTGTA
* *
16615429 AGACCATGCCTGGGGCATGGCATCA---ACAT
65 AGACCATGTCT-GGACATGGCATCAGCCACAT
* * ** * * * ** * *
16615458 TGATGTGTGTATTAGTGTAAAACCATGTCTGGGACATGGGATCGACCACAACATGAGAGCCAGTG
1 T-ATGAGAG--CCAGTGTAAGACCATGTCTGGGACATGGCATCGACAATGAGATGAGAGCTAGTG
* * *
16615523 TTAGACCATGTCTGAGAAATGGCATCAGCCACCT
63 TAAGACCATGTCTG-GACATGGCATCAGCCACAT
* *
16615557 TATGAGAGCCAGTGGAAGACCATGTCTGGGACATGGCATCGACAATGAGACGAGAGCTAGTGTAA
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAATGAGATGAGAGCTAGTGTAA
** *
16615622 GACCATGTCTAGGACATGGCATGGGCCTCGA-
66 GACCATGTCT-GGACATGGCATCAGCCAC-AT
* * * * * *
16615653 CATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATTGACAAT
1 TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAAT
16615699 TCACCCTCTT
Statistics
Matches: 186, Mismatches: 45, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
93 1 0.01
94 6 0.03
95 1 0.01
96 168 0.90
97 1 0.01
98 5 0.03
99 4 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (95 bp):
TATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAATGAGATGAGAGCTAGTGTAA
GACCATGTCTGGACATGGCATCAGCCACAT
Found at i:16619585 original size:25 final size:25
Alignment explanation
Indices: 16619557--16619626 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
16619547 CTCTTTTAAT
*
16619557 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* * *
16619582 AACTGGGGTAAAGCTCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
16619607 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
16619627 AGCACTTTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:16619686 original size:10 final size:10
Alignment explanation
Indices: 16619673--16619711 Score: 69
Period size: 10 Copynumber: 3.8 Consensus size: 10
16619663 ATATGTGAAT
16619673 ATATCATGGC
1 ATATCATGGC
16619683 ATATCATGTGC
1 ATATCATG-GC
16619694 ATATCATGGC
1 ATATCATGGC
16619704 ATATCATG
1 ATATCATG
16619712 TACAAAAGCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (10 bp):
ATATCATGGC
Found at i:16619699 original size:21 final size:21
Alignment explanation
Indices: 16619673--16619712 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
16619663 ATATGTGAAT
16619673 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATCATGTGC
16619694 ATATCATGGCATATCATGT
1 ATATCATGGCATATCATGT
16619713 ACAAAAGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATCATGTGC
Found at i:16627470 original size:24 final size:25
Alignment explanation
Indices: 16627443--16627519 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
16627433 TCCTAGCCTC
*
16627443 TTTTAAT-AGCTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* *
16627467 TTTTGATAAACTTGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*** * *
16627492 TTTCGGTAAACTAGGGCAAAACCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
16627517 TTT
1 TTT
16627520 AGAACTTCCT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
24 6 0.13
25 39 0.87
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:16627487 original size:25 final size:25
Alignment explanation
Indices: 16627455--16627519 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
16627445 TTAATAGCTG
* *
16627455 GGGCAAAGCCCTTTTTGATAAACTT
1 GGGCAAAGCCCTTTTCGATAAACTA
*
16627480 GGGCAAAGCCCTTTTCGGTAAACTA
1 GGGCAAAGCCCTTTTCGATAAACTA
*
16627505 GGGCAAAACCCTTTT
1 GGGCAAAGCCCTTTT
16627520 AGAACTTCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.28
Consensus pattern (25 bp):
GGGCAAAGCCCTTTTCGATAAACTA
Found at i:16627579 original size:10 final size:10
Alignment explanation
Indices: 16627566--16627600 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
16627556 ATATGTGAAT
16627566 ATATCATGGC
1 ATATCATGGC
16627576 ATATCATGTGC
1 ATATCATG-GC
16627587 ATATCATGGC
1 ATATCATGGC
16627597 ATAT
1 ATAT
16627601 AATGTACAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (10 bp):
ATATCATGGC
Found at i:16627592 original size:21 final size:21
Alignment explanation
Indices: 16627566--16627605 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
16627556 ATATGTGAAT
*
16627566 ATATCATGGCATATCATGTGC
1 ATATCATGGCATATAATGTGC
16627587 ATATCATGGCATATAATGT
1 ATATCATGGCATATAATGT
16627606 ACAAAAGCAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.15, G:0.17, T:0.35
Consensus pattern (21 bp):
ATATCATGGCATATAATGTGC
Found at i:16641508 original size:40 final size:40
Alignment explanation
Indices: 16641420--16641527 Score: 108
Period size: 40 Copynumber: 2.7 Consensus size: 40
16641410 ATAACCACAA
* * * ** *
16641420 GCACAATTGCCTTCGGGTCTTAACCCGGATTTGGTAACTT
1 GCACAAATGCCTTCGAGTCTTAACCCGGATATAATAACTC
* *
16641460 GCACAAATGCCTTCGAGTCTTAGCCCGGATATAATCACTC
1 GCACAAATGCCTTCGAGTCTTAACCCGGATATAATAACTC
* * * *
16641500 GCATAAATGTCTTCGGGACTTAACCCGG
1 GCACAAATGCCTTCGAGTCTTAACCCGG
16641528 GTATCATTCA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 55 1.00
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (40 bp):
GCACAAATGCCTTCGAGTCTTAACCCGGATATAATAACTC
Found at i:16649408 original size:40 final size:40
Alignment explanation
Indices: 16649360--16649527 Score: 196
Period size: 40 Copynumber: 4.2 Consensus size: 40
16649350 TTCTTCGAAT
* * *
16649360 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* * *** *
16649399 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
16649439 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
* *
16649479 TTAGCCCGGATATAATC-ACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCACAAATGCCTTCGGGTC
16649519 TTAGCCCGG
1 TTAGCCCGG
16649528 GTATCATTCA
Statistics
Matches: 107, Mismatches: 20, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 103 0.96
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAACAACTAGCACAAATGCCTTCGGGTC
Found at i:16654227 original size:28 final size:27
Alignment explanation
Indices: 16654149--16654253 Score: 78
Period size: 28 Copynumber: 4.0 Consensus size: 27
16654139 TTTTGAATTA
*
16654149 TTTAGATTT-TATGTTTTA-TTTATTT
1 TTTACATTTATATGTTTTATTTTATTT
* * * *
16654174 TTT--ATTTCTAT-TTGTACTTTAATT
1 TTTACATTTATATGTTTTATTTTATTT
* *
16654198 TTT-CTTGTTATTTGTTTTTATTTTATTT
1 TTTACAT-TTATATG-TTTTATTTTATTT
*
16654226 TTTAGATTTATATGTTTTATTTTATTT
1 TTTACATTTATATGTTTTATTTTATTT
16654253 T
1 T
16654254 ATCATATATT
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
23 8 0.13
24 12 0.19
25 4 0.06
26 4 0.06
27 14 0.23
28 19 0.31
29 1 0.02
ACGTcount: A:0.18, C:0.03, G:0.07, T:0.72
Consensus pattern (27 bp):
TTTACATTTATATGTTTTATTTTATTT
Found at i:16659181 original size:43 final size:43
Alignment explanation
Indices: 16659120--16659307 Score: 241
Period size: 43 Copynumber: 4.4 Consensus size: 43
16659110 TATGCAGTGC
* *
16659120 TAAAAAACGCCGCTAAAGACCAGGACATTTAGCGGGGCTCTTA
1 TAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGGGCTTTTA
* * * *
16659163 TAAAAAATGCCGCTAAAGACCAAGACCTTTAGTGGGGCTATTA
1 TAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGGGCTTTTA
**
16659206 TAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCACTTTTA
1 TAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGGGCTTTTA
* * * * * *
16659249 TAAAAAGCGCCGCTACAGACCAGTACTTTTAGCGGTGCTTTTT
1 TAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGGGCTTTTA
*
16659292 TAAAAAATGCCGCTAA
1 TAAAAAACGCCGCTAA
16659308 TTTGCCCAGT
Statistics
Matches: 124, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 124 1.00
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (43 bp):
TAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGGGCTTTTA
Found at i:16659628 original size:21 final size:21
Alignment explanation
Indices: 16659602--16659649 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
16659592 TCCTGTTCTG
16659602 CTCCGCCTCCCTCACTGCTAC
1 CTCCGCCTCCCTCACTGCTAC
* *
16659623 CTCCGCCTCCCTCGCTGCTGC
1 CTCCGCCTCCCTCACTGCTAC
16659644 CTCCGC
1 CTCCGC
16659650 TCTAAGTTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.04, C:0.58, G:0.15, T:0.23
Consensus pattern (21 bp):
CTCCGCCTCCCTCACTGCTAC
Found at i:16660237 original size:18 final size:18
Alignment explanation
Indices: 16660205--16660242 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
16660195 TACAATATAG
16660205 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
16660224 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
16660241 TA
1 TA
16660243 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:16661348 original size:25 final size:28
Alignment explanation
Indices: 16661314--16661364 Score: 72
Period size: 25 Copynumber: 1.9 Consensus size: 28
16661304 TATAAATAAA
16661314 AAATCATAAA-ATCTT-A-CTACATCAT
1 AAATCATAAATATCTTCATCTACATCAT
*
16661339 AAATCGTAAATATCTTCATCTACATC
1 AAATCATAAATATCTTCATCTACATC
16661365 CTGACGAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 5 0.23
27 1 0.05
28 7 0.32
ACGTcount: A:0.43, C:0.22, G:0.02, T:0.33
Consensus pattern (28 bp):
AAATCATAAATATCTTCATCTACATCAT
Found at i:16678207 original size:476 final size:477
Alignment explanation
Indices: 16676304--16678850 Score: 4857
Period size: 477 Copynumber: 5.3 Consensus size: 477
16676294 GGATGTTACA
*
16676304 AATAGTGATAGAACTTTTTTCAATTC-TTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
1 AATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
*
16676368 ACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAAGTTTCTAGCCT
66 ACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAAGTTTCCAGCCT
16676433 ATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAAT
131 ATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAAT
16676498 AAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATAT
196 AAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATAT
16676563 AAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTT
261 AAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTT
*
16676628 ATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAAAAAATA
326 ATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATA
* *
16676693 GTAATTTGAATTTAATAACATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATA
391 GTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATA
*
16676758 AATTAACGTTATATAAATATTC
456 AATTAAGGTTATATAAATATTC
16676780 AATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
1 AATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
*
16676845 ACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAAGTTTCTAGCCT
66 ACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAAGTTTCCAGCCT
16676910 ATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAAT
131 ATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAAT
16676975 AAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATAT
196 AAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATAT
16677040 AAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTT
261 AAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTT
*
16677105 ATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAAAAAAATA
326 ATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATA
* *
16677170 GTAATTTGAATTTAATAACATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATA
391 GTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATA
*
16677235 AATTAACGTTATATAAATATTC
456 AATTAAGGTTATATAAATATTC
16677257 AATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
1 AATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
*
16677322 ACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAAATTTCCAGCCT
66 ACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAAGTTTCCAGCCT
16677387 ATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAAT
131 ATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAAT
16677452 AAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATAT
196 AAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATAT
16677517 AAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTT
261 AAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTT
* *
16677582 ATAACGTCTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATA
326 ATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATA
16677647 GTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATA
391 GTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATA
16677712 AATTAAGGTTATATAAATATTC
456 AATTAAGGTTATATAAATATTC
16677734 AATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
1 AATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
* *
16677799 ACACCTAGGGAGGATCCATTATATCTTGTAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCT
66 ACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAAGTTTCCAGCCT
16677864 ATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAAT
131 ATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAAT
16677929 AAAATTAATTCATACTTATTCATACTTAAGTTG-ATCAAATAATAATTAAGTTGAACCAAAATAT
196 AAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATAT
*
16677993 AAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTGTTTTGATAAAAATTAGTT
261 AAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTT
*
16678058 ATAACTTTTAAAGACATTGAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATA
326 ATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATA
16678123 GTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATA
391 GTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATA
16678188 AATTAAGGTTATATAAATATTC
456 AATTAAGGTTATATAAATATTC
16678210 AATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
1 AATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
* *
16678275 ACACCTAGGGAGGATCCATTATATCTTGTAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCT
66 ACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAAGTTTCCAGCCT
16678340 ATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAAT
131 ATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAAT
16678405 AAAATTAATTCATACTTATTCATACTTAAGTTG-ATCAAATAATAATTAAGTTGAACCAAAATAT
196 AAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATAT
*
16678469 AAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTGTTTTGATAAAAATTAGTT
261 AAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTT
*
16678534 ATAACTTTTAAAGACATTGAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATA
326 ATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATA
16678599 GTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATA
391 GTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATA
16678664 AATTAAGGTTATATAAATATTC
456 AATTAAGGTTATATAAATATTC
*
16678686 AATAGCGATAGAACTTTTTTCAATTCTTCTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
1 AATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
*
16678751 ACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAGGTTTCCAGCCT
66 ACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAAGTTTCCAGCCT
16678816 ATATACTTTGAATCTTTAAAATATTTAAAATAAGG
131 ATATACTTTGAATCTTTAAAATATTTAAAATAAGG
16678851 TTGGAGAGAA
Statistics
Matches: 2052, Mismatches: 18, Indels: 2
0.99 0.01 0.00
Matches are distributed among these distances:
476 908 0.44
477 1144 0.56
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (477 bp):
AATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTTTAAGATTCATCATACGTGGCGTTGTT
ACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATATAAGGCAACCCGTCAAGTTTCCAGCCT
ATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATGGACAAGCAAGCTACATATATGGTAAT
AAAATTAATTCATACTTATTCATACTTAAGTTGAATCAAATAATAATTAAGTTGAACCAAAATAT
AAAAACTTATTCATACTTATTCATACTTCAAATAATAATTAATACTATTTTGATAAAAATTAGTT
ATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAAAATA
GTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATA
AATTAAGGTTATATAAATATTC
Found at i:16681558 original size:29 final size:28
Alignment explanation
Indices: 16681526--16681628 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
16681516 GTGACGAGAT
* *
16681526 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
16681555 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
16681584 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
16681613 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
16681629 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:16686022 original size:2 final size:2
Alignment explanation
Indices: 16686015--16686040 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
16686005 ACCACTTTTC
16686015 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
16686041 TTTAAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:16686075 original size:15 final size:15
Alignment explanation
Indices: 16686055--16686086 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
16686045 AAATAATAAT
*
16686055 TTATATATATTTATC
1 TTATATACATTTATC
16686070 TTATATACATTTATC
1 TTATATACATTTATC
16686085 TT
1 TT
16686087 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:16687142 original size:41 final size:40
Alignment explanation
Indices: 16687085--16687263 Score: 211
Period size: 41 Copynumber: 4.4 Consensus size: 40
16687075 GTTATATGAC
16687085 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCT-GT
*
16687126 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCT-GT
** * *
16687167 TTTTAGCGGCGTTTTAAGAAAAGCGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTGT
* *
16687207 TTTTAGCGGCATTTTTTACTAAAACGCCGCAG-T--TGCTCTGT
1 TTTTAGCGGC--GTTTTACCAAAA-G-CGCAGCTAATGCTCTGT
*
16687248 TTTTAGTGGCGTTTTA
1 TTTTAGCGGCGTTTTA
16687264 AGAACTTAAA
Statistics
Matches: 123, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
39 5 0.04
40 12 0.10
41 91 0.74
42 9 0.07
43 2 0.02
44 4 0.03
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTGT
Found at i:16687263 original size:81 final size:82
Alignment explanation
Indices: 16687085--16687267 Score: 239
Period size: 82 Copynumber: 2.2 Consensus size: 82
16687075 GTTATATGAC
**
16687085 TTTTAGCGGCGTTTTACCAAAAGCGCAGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAGC
1 TTTTAGCGGCGTTTTAAGAAAAGCGCAGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAGC
16687150 GCCGCTAATGCTCTGGT
66 GCCGCTAATGCTCTGGT
* * * *
16687167 TTTTAGCGGCGTTTTAAGAAAAGCGCCGCTATTGCTCT-GTTTTTAGCGGCATTTTTTACTAAAA
1 TTTTAGCGGCGTTTTAAGAAAAGCGCAGCTAATGCTCTAGTTTTTAGCGGC--GTTTTACCAAAA
*
16687231 -CGCCGC-AGTTGCTCT-GT
64 GCGCCGCTA-ATGCTCTGGT
*
16687248 TTTTAGTGGCGTTTTAAGAA
1 TTTTAGCGGCGTTTTAAGAA
16687268 CTTAAAACGC
Statistics
Matches: 90, Mismatches: 8, Indels: 7
0.86 0.08 0.07
Matches are distributed among these distances:
81 34 0.38
82 46 0.51
83 10 0.11
ACGTcount: A:0.21, C:0.20, G:0.23, T:0.36
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTAAGAAAAGCGCAGCTAATGCTCTAGTTTTTAGCGGCGTTTTACCAAAAGC
GCCGCTAATGCTCTGGT
Found at i:16687288 original size:44 final size:42
Alignment explanation
Indices: 16687085--16687297 Score: 185
Period size: 41 Copynumber: 5.1 Consensus size: 42
16687075 GTTATATGAC
* * *
16687085 TTTTAGCGGCGTTTT---ACCAAAAGCGCAGCTAATGCTCTAGT
1 TTTTAGCGGCGTTTTAAGACTAAAA-CGCCGCTATTGCTCT-GT
* *
16687126 TTTTAGCGGCGTTTT---ACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTAAGACTAAAA-CGCCGCTATTGCTCT-GT
*
16687167 TTTTAGCGGCGTTTTAAGA--AAAGCGCCGCTATTGCTCTGT
1 TTTTAGCGGCGTTTTAAGACTAAAACGCCGCTATTGCTCTGT
* **
16687207 TTTTAGCGGCATTTT-TTACTAAAACGCCGC-AGTTGCTCTGT
1 TTTTAGCGGCGTTTTAAGACTAAAACGCCGCTA-TTGCTCTGT
* *
16687248 TTTTAGTGGCGTTTTAAGAACTTAAAACGCCTCTATTGCTCTGT
1 TTTTAGCGGCGTTTTAAG-AC-TAAAACGCCGCTATTGCTCTGT
16687292 ATTTTA
1 -TTTTA
16687298 AAATTTTTGC
Statistics
Matches: 148, Mismatches: 13, Indels: 18
0.83 0.07 0.10
Matches are distributed among these distances:
39 1 0.01
40 17 0.11
41 99 0.67
42 3 0.02
43 2 0.01
44 20 0.14
45 6 0.04
ACGTcount: A:0.22, C:0.21, G:0.21, T:0.37
Consensus pattern (42 bp):
TTTTAGCGGCGTTTTAAGACTAAAACGCCGCTATTGCTCTGT
Found at i:16698444 original size:61 final size:61
Alignment explanation
Indices: 16698369--16698488 Score: 177
Period size: 61 Copynumber: 2.0 Consensus size: 61
16698359 GCTTATAAAA
* *** *
16698369 CTTTCCTATCTAGAGTTTTGCCTTAAAGGCATTCCTTAACATTCAATACTCACCACAAAGG
1 CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAAGG
* *
16698430 CTTTCCTGTCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAGTACTCACCACAAA
1 CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAA
16698489 TGATTCCTTC
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.31
Consensus pattern (61 bp):
CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAAGG
Found at i:16698488 original size:32 final size:32
Alignment explanation
Indices: 16698393--16698497 Score: 85
Period size: 32 Copynumber: 3.4 Consensus size: 32
16698383 GTTTTGCCTT
*
16698393 AAAGGCATTCCTTAACATTCAATACTCACCAC
1 AAAGGCATTCCTTAACATTCAGTACTCACCAC
* ** * * *
16698425 AAAGGCTTTCCTGT--C-TAGAGT-TTTACAAC
1 AAAGGCATTCCT-TAACATTCAGTACTCACCAC
*
16698454 AAAGGCAATCCTTAACATTCAGTACTCACCAC
1 AAAGGCATTCCTTAACATTCAGTACTCACCAC
*
16698486 AAATG-ATTCCTT
1 AAAGGCATTCCTT
16698498 CTCCTGGTGA
Statistics
Matches: 52, Mismatches: 16, Indels: 11
0.66 0.20 0.14
Matches are distributed among these distances:
28 1 0.02
29 15 0.29
30 4 0.08
31 11 0.21
32 20 0.38
33 1 0.02
ACGTcount: A:0.34, C:0.27, G:0.10, T:0.29
Consensus pattern (32 bp):
AAAGGCATTCCTTAACATTCAGTACTCACCAC
Found at i:16705741 original size:19 final size:19
Alignment explanation
Indices: 16705713--16705749 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16705703 GGAATAGTAT
*
16705713 ATATAGTAAAATATATAAC
1 ATATAATAAAATATATAAC
*
16705732 ATATAATAAAATTTATAA
1 ATATAATAAAATATATAA
16705750 ATAAAATGTA
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:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:16705769 original size:21 final size:23
Alignment explanation
Indices: 16705745--16705799 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
16705735 TAATAAAATT
16705745 TATAAATAAAATG-T--ATAATAA
1 TATAAATAAAATGATAAATAAT-A
*
16705766 TATAAATAATATGATAAATAATA
1 TATAAATAAAATGATAAATAATA
16705789 TATAAATAAAA
1 TATAAATAAAA
16705800 ATAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.41
22 1 0.03
23 11 0.38
24 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TATAAATAAAATGATAAATAATA
Found at i:16705774 original size:12 final size:11
Alignment explanation
Indices: 16705759--16705797 Score: 60
Period size: 12 Copynumber: 3.4 Consensus size: 11
16705749 AATAAAATGT
16705759 ATAATAATATAA
1 ATAAT-ATATAA
16705771 ATAATATGATAA
1 ATAATAT-ATAA
16705783 ATAATATATAA
1 ATAATATATAA
16705794 ATAA
1 ATAA
16705798 AAATAATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
11 10 0.38
12 16 0.62
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (11 bp):
ATAATATATAA
Found at i:16705782 original size:17 final size:16
Alignment explanation
Indices: 16705762--16705809 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 16
16705752 AAAATGTATA
16705762 ATAATATAAATAATAT
1 ATAATATAAATAATAT
16705778 GATAA-AT-AAT-ATAT
1 -ATAATATAAATAATAT
*
16705792 A-AATAAAAATAATAT
1 ATAATATAAATAATAT
16705807 ATA
1 ATA
16705810 TATTATTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 9
0.72 0.03 0.25
Matches are distributed among these distances:
12 2 0.08
13 2 0.08
14 7 0.27
15 8 0.31
16 3 0.12
17 4 0.15
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (16 bp):
ATAATATAAATAATAT
Found at i:16705803 original size:21 final size:20
Alignment explanation
Indices: 16705722--16705811 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 20
16705712 TATATAGTAA
*
16705722 AATATATAACAT-ATAATAA-
1 AATATATAA-ATAAAAATAAT
* *
16705741 AATTTATAAAT-AAAATGTAT
1 AATATATAAATAAAAAT-AAT
*
16705761 AATAATATAAATAATATGATAAAT
1 AAT-ATATAAATAA-A-AAT-AAT
16705785 AATATATAAATAAAAATAAT
1 AATATATAAATAAAAATAAT
16705805 -ATATATA
1 AATATATA
16705812 TTATTTTTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
18 6 0.11
19 16 0.28
20 6 0.11
21 9 0.16
22 2 0.04
23 11 0.19
24 7 0.12
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (20 bp):
AATATATAAATAAAAATAAT
Found at i:16705871 original size:25 final size:25
Alignment explanation
Indices: 16705836--16705893 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
16705826 AACTAATGTT
16705836 TATA-AAAATAAATA-ATACATATA
1 TATATAAAATAAATATATACATATA
* *
16705859 GTATTTAAAATAAATATATATATATA
1 -TATATAAAATAAATATATACATATA
16705885 TATATAAAA
1 TATATAAAA
16705894 GGATTAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 3 0.10
25 18 0.62
26 8 0.28
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (25 bp):
TATATAAAATAAATATATACATATA
Found at i:16707561 original size:44 final size:44
Alignment explanation
Indices: 16707479--16707961 Score: 592
Period size: 44 Copynumber: 11.0 Consensus size: 44
16707469 CAGATCTGCT
* * * * *
16707479 ATCTTCGATCTGCTCCCCGTCTAATATAGAGACACCAAATCTATC
1 ATCTTCGATCTGCTCTCTGTC-AATACAGAGACGCCAAATCTGTC
* * * * *
16707524 AAC-TCTAACCTGCCCTCTGTCAATACAGAGACGCCAAATCTGTT
1 ATCTTC-GATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* *
16707568 ATCTTCGATCTGCTCTTTGTCAATACGGAGACGCCAAATCTG-C
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* *
16707611 TATCTTCGATCTGCTCTCTGTCACTACAGAGACGCCAAATCTGTT
1 -ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* *
16707656 ATCTTTGATCTGCTCTCTGTCAATACAGAGAAGCCAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * * * *
16707700 ATCTTTGATCTGCTCTCTTTCAATACATAGACGCCAAATCTATT
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * *
16707744 ATCTTCAATCTGCTCTCTGTCATTACAGAGATGCCAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * *
16707788 ATCTTTGATCTGCTCTCTATCAATACTGAGACGCCAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * * *
16707832 ATCTTGGATCTGCTCTCTGTAAATACAGAGACACCAAATCTGTT
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * * * *
16707876 ATCTTCGATCTACTCTATGTCAATACCGAGACACTAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
*
16707920 ATCTTCGATCTGCTCTCTGTCAATACAGAGATGCCAAATCTG
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG
16707962 CTATCGGTGA
Statistics
Matches: 371, Mismatches: 63, Indels: 9
0.84 0.14 0.02
Matches are distributed among these distances:
44 357 0.96
45 14 0.04
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (44 bp):
ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
Found at i:16713433 original size:39 final size:40
Alignment explanation
Indices: 16713388--16713525 Score: 138
Period size: 40 Copynumber: 3.5 Consensus size: 40
16713378 AGACTAGGAT
*
16713388 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
* * *
16713427 CCGAAGGCATT-GTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
* *** **
16713466 CTGAAGGCATTCGTGCGAGTCGCTATAA-CCGGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTAATA-AACCCGGGCTAAGTC
* *
16713506 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
16713526 CGTTATATCT
Statistics
Matches: 82, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
38 22 0.27
39 22 0.27
40 36 0.44
41 2 0.02
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
Found at i:16730374 original size:61 final size:61
Alignment explanation
Indices: 16730299--16730420 Score: 172
Period size: 61 Copynumber: 2.0 Consensus size: 61
16730289 GCTTATAAAA
* *** * *
16730299 CTTTCCTATCTAGAGTTTTGCCTTAAAGGCATTCCTTAACATTCAATACTCGCCACAAAGG
1 CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAAGG
* *
16730360 CTTTCCTGTCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAGTACTCACCACAAAGG
1 CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAAGG
16730421 ATTCATTCTC
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.30, C:0.26, G:0.13, T:0.30
Consensus pattern (61 bp):
CTTTCCTATCTAGAGTTTTACAACAAAGGCAATCCTTAACATTCAATACTCACCACAAAGG
Found at i:16737653 original size:19 final size:19
Alignment explanation
Indices: 16737631--16737667 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16737621 GGAATAATAT
*
16737631 ATATAGTAAAATATATAAC
1 ATATAATAAAATATATAAC
*
16737650 ATATAATAAAATTTATAA
1 ATATAATAAAATATATAA
16737668 ATAAAATGTA
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:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (19 bp):
ATATAATAAAATATATAAC
Found at i:16737687 original size:21 final size:23
Alignment explanation
Indices: 16737663--16737717 Score: 71
Period size: 21 Copynumber: 2.5 Consensus size: 23
16737653 TAATAAAATT
16737663 TATAAATAAAATG-T--ATAATAA
1 TATAAATAAAATGATAAATAAT-A
*
16737684 TATAAATAATATGATAAATAATA
1 TATAAATAAAATGATAAATAATA
16737707 TATAAATAAAA
1 TATAAATAAAA
16737718 ATAATATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 12 0.41
22 1 0.03
23 11 0.38
24 5 0.17
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.33
Consensus pattern (23 bp):
TATAAATAAAATGATAAATAATA
Found at i:16737692 original size:12 final size:12
Alignment explanation
Indices: 16737577--16737720 Score: 58
Period size: 12 Copynumber: 12.6 Consensus size: 12
16737567 GCAATTAATG
16737577 AATAATA-AAAT
1 AATAATATAAAT
*
16737588 AAT-ATATAATT
1 AATAATATAAAT
*
16737599 TATAATA-AAAT
1 AATAATATAAAT
* * **
16737610 AAAAAATGTAAGG
1 -AATAATATAAAT
*
16737623 AATAATATATAT
1 AATAATATAAAT
* * *
16737635 AGTAAAATATAT
1 AATAATATAAAT
*
16737647 AA-CATAT-AAT
1 AATAATATAAAT
16737657 AA-AATTTATAAAT
1 AATAA--TATAAAT
*
16737670 AA-AATGT--AT
1 AATAATATAAAT
16737679 AATAATATAAAT
1 AATAATATAAAT
16737691 AAT-ATGATAAAT
1 AATAAT-ATAAAT
16737703 AAT-ATATAAAT
1 AATAATATAAAT
*
16737714 AAAAATA
1 AATAATA
16737721 ATATATATAC
Statistics
Matches: 98, Mismatches: 23, Indels: 23
0.68 0.16 0.16
Matches are distributed among these distances:
9 4 0.04
10 12 0.12
11 26 0.27
12 47 0.48
13 9 0.09
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.33
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:16737700 original size:17 final size:16
Alignment explanation
Indices: 16737626--16737727 Score: 51
Period size: 15 Copynumber: 6.7 Consensus size: 16
16737616 TGTAAGGAAT
*
16737626 AATATATATAGTAAAATA
1 AATA-ATATA-TAATATA
* *
16737644 TATAACATATAATA-A
1 AATAATATATAATATA
*
16737659 AAT-TTATA-AATA-A
1 AATAATATATAATATA
*
16737672 AAT-GTATAATAATATA
1 AATAATAT-ATAATATA
16737688 AATAATATGATAA-AT-
1 AATAATAT-ATAATATA
*
16737703 AAT-ATATA-AATAAA
1 AATAATATATAATATA
16737717 AATAATATATA
1 AATAATATATA
16737728 TACTATTTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
12 2 0.03
13 13 0.20
14 11 0.17
15 15 0.23
16 11 0.17
17 11 0.17
18 3 0.05
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (16 bp):
AATAATATATAATATA
Found at i:16737721 original size:21 final size:20
Alignment explanation
Indices: 16737640--16737729 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 20
16737630 TATATAGTAA
*
16737640 AATATATAACAT-ATAATAA-
1 AATATATAA-ATAAAAATAAT
* *
16737659 AATTTATAAAT-AAAATGTAT
1 AATATATAAATAAAAAT-AAT
*
16737679 AATAATATAAATAATATGATAAAT
1 AAT-ATATAAATAA-A-AAT-AAT
16737703 AATATATAAATAAAAATAAT
1 AATATATAAATAAAAATAAT
16737723 -ATATATA
1 AATATATA
16737730 CTATTTTTAC
Statistics
Matches: 57, Mismatches: 8, Indels: 12
0.74 0.10 0.16
Matches are distributed among these distances:
18 6 0.11
19 16 0.28
20 6 0.11
21 9 0.16
22 2 0.04
23 11 0.19
24 7 0.12
ACGTcount: A:0.62, C:0.01, G:0.02, T:0.34
Consensus pattern (20 bp):
AATATATAAATAAAAATAAT
Found at i:16737800 original size:25 final size:24
Alignment explanation
Indices: 16737754--16737810 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
16737744 AACTAATGTT
16737754 TATA-AAAATAAATAATACATATA
1 TATATAAAATAAATAATACATATA
* *
16737777 GTATTTAAAATAAATTAA-ATATATA
1 -TATATAAAATAAA-TAATACATATA
16737802 TATATAAAA
1 TATATAAAA
16737811 GGATTAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
24 11 0.39
25 14 0.50
26 3 0.11
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (24 bp):
TATATAAAATAAATAATACATATA
Found at i:16739058 original size:17 final size:18
Alignment explanation
Indices: 16739022--16739065 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
16739012 CTGTAAAAAC
16739022 TTTTATTATTTCTTCAAT
1 TTTTATTATTTCTTCAAT
* * *
16739040 TTTTATTTTTTTTTCATT
1 TTTTATTATTTCTTCAAT
16739058 TATTTATT
1 T-TTTATT
16739066 TTATGGGCCG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.18, C:0.07, G:0.00, T:0.75
Consensus pattern (18 bp):
TTTTATTATTTCTTCAAT
Found at i:16739470 original size:44 final size:44
Alignment explanation
Indices: 16739388--16739828 Score: 634
Period size: 44 Copynumber: 10.0 Consensus size: 44
16739378 CAGATCTGCT
* * * * *
16739388 ATCTTCAATCTGCTCCCCGTCTAATACAGAGGCACCAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTC-AATACAGAGACGCCAAATCTGTC
* * * * *
16739433 ATCTTCGACCTGCCCTTTGTCAATACAGAGACGCCAAATCTATT
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* *
16739477 ATCTTCGATCTGCTCTTTTTCAATACAGAGACGCCAAATCTG-C
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* * * *
16739520 TATCTTCGATCTGCTCTCTGTCACTACAAAGACGCCAAATTTGTT
1 -ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
*
16739565 ATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
16739609 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG-C
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
* *
16739652 TATCTTCGATCTGCTCTCTGTCAATACAGAGAGACGCCAAATGTGTT
1 -ATCTTCGATCTGCTCTCTGTCAATAC--AGAGACGCCAAATCTGTC
*
16739699 ATCTTTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
16739743 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
*
16739787 ATCTTCGATCTGCTCTCTATCAATACAGAGACGCCAAATCTG
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG
16739829 CTATCAGTGA
Statistics
Matches: 356, Mismatches: 34, Indels: 13
0.88 0.08 0.03
Matches are distributed among these distances:
43 1 0.00
44 300 0.84
45 15 0.04
46 40 0.11
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (44 bp):
ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
Found at i:16739775 original size:178 final size:176
Alignment explanation
Indices: 16739388--16739833 Score: 676
Period size: 178 Copynumber: 2.5 Consensus size: 176
16739378 CAGATCTGCT
* * * * * * * *
16739388 ATCTTCAATCTGCTCCCCGTCTAATACAGAGGCACCAAATCTGTCATCTTCGACCTGCCCTTTGT
1 ATCTTCGATCTGCTCTCTGTC-AATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGT
** * *
16739453 CAATACAGAGACGCCAAATCTATTATCTTCGATCTGCTCTTTTTCAATACAGAGACGCCAAATCT
65 CAATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCT
* * *
16739518 GCTATCTTCGATCTGCTCTCTGTCACTACAAAGACGCCAAATTTGTT
130 GCTATCTTCGATCTGCTCTCTGTCAATACAAAGACGCCAAATCTGTC
*
16739565 ATCTTCGATCTGCTCTTTGTCAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
*
16739630 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGAGACGCCAAATG
66 AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTCAATAC--AGAGACGCCAAATC
* * *
16739695 TGTTATCTTTGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTC
129 TGCTATCTTCGATCTGCTCTCTGTCAATACAAAGACGCCAAATCTGTC
*
16739743 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTATC
1 ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
16739808 AATACAGAGACGCCAAATCTGCTATC
66 AATACAGAGACGCCAAATCTGCTATC
16739834 AGTGATCTAC
Statistics
Matches: 245, Mismatches: 22, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
176 84 0.34
177 17 0.07
178 144 0.59
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (176 bp):
ATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTGTCATCTTCGATCTGCTCTCTGTC
AATACAGAGACGCCAAATCTGCTATCTTCGATCTGCTCTCTGTCAATACAGAGACGCCAAATCTG
CTATCTTCGATCTGCTCTCTGTCAATACAAAGACGCCAAATCTGTC
Found at i:16751999 original size:21 final size:23
Alignment explanation
Indices: 16751974--16752027 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 23
16751964 AATAAAATTA
16751974 ATAAATAAAATG-T--ATAATAAT
1 ATAAATAAAATGATAAATAAT-AT
*
16751995 ATAAATAATATGATAAATAATAT
1 ATAAATAAAATGATAAATAATAT
16752018 ATAAATAAAA
1 ATAAATAAAA
16752028 ATAATATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 11 0.39
22 1 0.04
23 11 0.39
24 5 0.18
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (23 bp):
ATAAATAAAATGATAAATAATAT
Found at i:16752002 original size:12 final size:12
Alignment explanation
Indices: 16751887--16752030 Score: 58
Period size: 12 Copynumber: 12.6 Consensus size: 12
16751877 GCAATTAATG
16751887 AATAATA-AAAT
1 AATAATATAAAT
*
16751898 AAT-ATATAATT
1 AATAATATAAAT
*
16751909 TATAATA-AAAT
1 AATAATATAAAT
* * **
16751920 AAAAAATGTAAGG
1 -AATAATATAAAT
*
16751933 AATAATATATAT
1 AATAATATAAAT
* * *
16751945 AGTAAAATATAT
1 AATAATATAAAT
*
16751957 AA-CATAT-AAT
1 AATAATATAAAT
16751967 AA-AATTAATAAAT
1 AATAA-T-ATAAAT
*
16751980 AA-AATGT--AT
1 AATAATATAAAT
16751989 AATAATATAAAT
1 AATAATATAAAT
16752001 AAT-ATGATAAAT
1 AATAAT-ATAAAT
16752013 AAT-ATATAAAT
1 AATAATATAAAT
*
16752024 AAAAATA
1 AATAATA
16752031 ATATATATAC
Statistics
Matches: 98, Mismatches: 23, Indels: 23
0.68 0.16 0.16
Matches are distributed among these distances:
9 4 0.04
10 12 0.12
11 26 0.27
12 47 0.48
13 9 0.09
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:16752010 original size:17 final size:16
Alignment explanation
Indices: 16751936--16752037 Score: 51
Period size: 15 Copynumber: 6.7 Consensus size: 16
16751926 TGTAAGGAAT
*
16751936 AATATATATAGTAAAATA
1 AATA-ATATA-TAATATA
* *
16751954 TATAACATATAATA-A
1 AATAATATATAATATA
*
16751969 AATTA-ATA-AATA-A
1 AATAATATATAATATA
*
16751982 AAT-GTATAATAATATA
1 AATAATAT-ATAATATA
16751998 AATAATATGATAA-AT-
1 AATAATAT-ATAATATA
*
16752013 AAT-ATATA-AATAAA
1 AATAATATATAATATA
16752027 AATAATATATA
1 AATAATATATA
16752038 TACTATTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 20
0.69 0.09 0.21
Matches are distributed among these distances:
12 2 0.03
13 12 0.18
14 11 0.17
15 16 0.24
16 11 0.17
17 11 0.17
18 3 0.05
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (16 bp):
AATAATATATAATATA
Found at i:16752031 original size:21 final size:20
Alignment explanation
Indices: 16751950--16752039 Score: 62
Period size: 19 Copynumber: 4.4 Consensus size: 20
16751940 TATATAGTAA
*
16751950 AATATATAACATATAATAAA-
1 AATATATAA-ATAAAATAAAT
* **
16751970 ATTA-ATAAATAAAATGTAT
1 AATATATAAATAAAATAAAT
16751989 AATAATATAAATAATATGATAAAT
1 AAT-ATATAAATAA-A--ATAAAT
16752013 AATATATAAATAAAA-ATAAT
1 AATATATAAATAAAATA-AAT
16752033 -ATATATA
1 AATATATA
16752040 CTATTTTTAC
Statistics
Matches: 56, Mismatches: 7, Indels: 15
0.72 0.09 0.19
Matches are distributed among these distances:
18 7 0.12
19 14 0.25
20 8 0.14
21 8 0.14
22 2 0.04
23 10 0.18
24 7 0.12
ACGTcount: A:0.63, C:0.01, G:0.02, T:0.33
Consensus pattern (20 bp):
AATATATAAATAAAATAAAT
Found at i:16752110 original size:25 final size:24
Alignment explanation
Indices: 16752068--16752120 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
16752058 AATGTTTACA
*
16752068 AAAATAAATAATACATATAGTATTT
1 AAAATAAATAATACATATA-TATAT
*
16752093 AAAATAAATTAA-ATATATATATAT
1 AAAATAAA-TAATACATATATATAT
16752117 AAAA
1 AAAA
16752121 GGATTAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.32
25 14 0.56
26 3 0.12
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (24 bp):
AAAATAAATAATACATATATATAT
Found at i:16754526 original size:23 final size:22
Alignment explanation
Indices: 16754495--16754538 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
16754485 CAATTACAAG
16754495 ATATCACCA-TTTCGATTTCATGC
1 ATATCACCACTTT--ATTTCATGC
*
16754518 ATATTACCACTTTATTTCATG
1 ATATCACCACTTTATTTCATG
16754539 TTATGTTCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 8 0.42
24 3 0.16
ACGTcount: A:0.27, C:0.23, G:0.07, T:0.43
Consensus pattern (22 bp):
ATATCACCACTTTATTTCATGC
Found at i:16766730 original size:77 final size:77
Alignment explanation
Indices: 16766581--16766733 Score: 182
Period size: 77 Copynumber: 2.0 Consensus size: 77
16766571 GTGGCCGACC
* * * * * * *
16766581 ATGTGGGTGGCCGTGTGTGAGACACAACCGTGTGTCTGACGAAGGTGTGGCTGTGCACAAGACAC
1 ATGTGAGTGGCCGTATGCGAGACACAACCGTGTGGCTAACGAAGATGTGGCTGTACACAAGACAC
***
16766646 GTGGGCTAGGCA
66 ACAGGCTAGGCA
* *
16766658 ATGTGAGTGGCCGTATGCGAGACACGACCGTGTGGCTAACGAAGATGTGGAC-GTACGCAAGACA
1 ATGTGAGTGGCCGTATGCGAGACACAACCGTGTGGCTAACGAAGATGTGG-CTGTACACAAGACA
16766722 CACAGGCTAGGC
65 CACAGGCTAGGC
16766734 CAAGTTGGAC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
77 62 0.98
78 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.37, T:0.18
Consensus pattern (77 bp):
ATGTGAGTGGCCGTATGCGAGACACAACCGTGTGGCTAACGAAGATGTGGCTGTACACAAGACAC
ACAGGCTAGGCA
Found at i:16767082 original size:23 final size:23
Alignment explanation
Indices: 16767047--16767108 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 23
16767037 AAGTATCAAC
* *
16767047 ATGTAAGCATGATAACTCTGATT
1 ATGTATGCCTGATAACTCTGATT
16767070 ATGTATGCCTGATGATAACTCTGATT
1 ATGTATGCC---TGATAACTCTGATT
*
16767096 ATGTATGACTGAT
1 ATGTATGCCTGAT
16767109 TGGGTGGGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 11 0.33
26 22 0.67
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (23 bp):
ATGTATGCCTGATAACTCTGATT
Found at i:16767089 original size:26 final size:26
Alignment explanation
Indices: 16767055--16767108 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
16767045 ACATGTAAGC
*
16767055 ATGATAACTCTGATTATGTATGCCTG
1 ATGATAACTCTGATTATGTATGACTG
16767081 ATGATAACTCTGATTATGTATGACTG
1 ATGATAACTCTGATTATGTATGACTG
16767107 AT
1 AT
16767109 TGGGTGGGAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.39
Consensus pattern (26 bp):
ATGATAACTCTGATTATGTATGACTG
Found at i:16767948 original size:43 final size:43
Alignment explanation
Indices: 16767882--16767963 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
16767872 GACATCTCCA
* * *
16767882 GATTCGGCCATAACGTCTAGGCCAGGTTTTGGGTTTTACTCTG
1 GATTCGGCCATAACATCTAGGCCAGGTTTGGGGTGTTACTCTG
* *
16767925 GATTTGGCCATAATATCTAGGCCAGGTTTGGGGTGTTAC
1 GATTCGGCCATAACATCTAGGCCAGGTTTGGGGTGTTAC
16767964 AAGAAAAGGA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 34 1.00
ACGTcount: A:0.18, C:0.18, G:0.29, T:0.34
Consensus pattern (43 bp):
GATTCGGCCATAACATCTAGGCCAGGTTTGGGGTGTTACTCTG
Found at i:16776203 original size:16 final size:16
Alignment explanation
Indices: 16776182--16776226 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 16
16776172 ATGTCTAAAA
16776182 GCATGATAGAGTCTCT
1 GCATGATAGAGTCTCT
16776198 GCATGAATA-AGTCTCT
1 GCATG-ATAGAGTCTCT
*
16776214 ACATGA-AGAGTCT
1 GCATGATAGAGTCT
16776227 GCGCATAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.04
15 6 0.23
16 16 0.62
17 3 0.12
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (16 bp):
GCATGATAGAGTCTCT
Found at i:16776405 original size:54 final size:54
Alignment explanation
Indices: 16776340--16776498 Score: 192
Period size: 54 Copynumber: 2.9 Consensus size: 54
16776330 TGACAAGAAT
* * * *
16776340 ACCATAAAGTGTAAGATCTAGTTTGGGACTATAGCATCATATGGGGAAAAAAAG
1 ACCATATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATGGGGAAAAAAAG
* * * * *
16776394 ACCATATAGTGTTAGACCTAGTCTCGGACTATGGCATAATATGGGGATATAAAG
1 ACCATATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATGGGGAAAAAAAG
* * * * *
16776448 ACCACATAGTGTAAAACCTAGTCTGGGACTATGGCGTCATGTGAGGAAAAA
1 ACCATATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATGGGGAAAAA
16776499 GATAAATGAT
Statistics
Matches: 86, Mismatches: 19, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 86 1.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.25
Consensus pattern (54 bp):
ACCATATAGTGTAAGACCTAGTCTGGGACTATGGCATCATATGGGGAAAAAAAG
Found at i:16780142 original size:40 final size:39
Alignment explanation
Indices: 16780058--16780242 Score: 185
Period size: 40 Copynumber: 4.6 Consensus size: 39
16780048 TCGAACGATG
* * * *
16780058 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
16780098 TCCGGACTAAGATCCGAAGGCATTTGTGTGAGTTACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
16780138 TCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
16780177 TCTGGGTTAAGTCCCGAAGGCATTTGTACGAGTTACTATAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
*
16780218 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
16780243 AACGAGTAGC
Statistics
Matches: 121, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 9 0.07
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:16780264 original size:79 final size:79
Alignment explanation
Indices: 16780111--16780265 Score: 181
Period size: 79 Copynumber: 2.0 Consensus size: 79
16780101 GGACTAAGAT
** * **
16780111 CCGAAGGCATTTGTGTGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
16780176 ATCTGGGTTAAGTC
66 ATCTCGGTTAAGTC
* *
16780190 CCGAAGGCATTTGTACGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTACGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
*
16780253 TATATC-CGGTTAA
63 TAAATCTCGGTTAA
16780266 ATTTTGAAGG
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.03
79 39 0.61
80 23 0.36
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCTCGGTTAAGTC
Found at i:16781816 original size:93 final size:93
Alignment explanation
Indices: 16781657--16781827 Score: 245
Period size: 93 Copynumber: 1.8 Consensus size: 93
16781647 GGATGGTTGA
* *
16781657 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTACGAATGCGAATGTTCAAACTCGTTGAGT
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGAATGCGAATGCTCAAACTCGTTGAGT
16781722 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * * * * *
16781750 GCATCCGAACTCATTGAGTTGAGTCTGTGTTCATTTATGGATGCGAATGC-CTGAGCTCGTTGAG
1 GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGAATGCGAATGCTC-AAACTCGTTGAG
16781814 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
16781828 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
92 1 0.01
93 67 0.99
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (93 bp):
GCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTACGAATGCGAATGCTCAAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:16785564 original size:26 final size:26
Alignment explanation
Indices: 16785528--16785580 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
16785518 AAGTTGAATG
16785528 AATAAATCGTCCGATTCGAAGCCAGA
1 AATAAATCGTCCGATTCGAAGCCAGA
*
16785554 AATAAATCGTCCGATTCGGAGCCAGA
1 AATAAATCGTCCGATTCGAAGCCAGA
16785580 A
1 A
16785581 TAAGAAGTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (26 bp):
AATAAATCGTCCGATTCGAAGCCAGA
Found at i:16791730 original size:27 final size:26
Alignment explanation
Indices: 16791674--16791784 Score: 150
Period size: 27 Copynumber: 4.2 Consensus size: 26
16791664 AGCATGGCTG
* *
16791674 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
16791700 CCAGAACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
16791727 CCAGAACAGATATATGTTGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
16791754 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
16791781 CCAG
1 CCAG
16791785 GACGCTTCCT
Statistics
Matches: 76, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 15 0.20
27 59 0.78
28 2 0.03
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.16
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:16793235 original size:24 final size:24
Alignment explanation
Indices: 16793206--16793300 Score: 145
Period size: 24 Copynumber: 4.0 Consensus size: 24
16793196 CCAACACCAT
* *
16793206 TCTCCCTAATCAGCTCCTAAATTC
1 TCTCCCTTATCAGCTCCTAAATCC
*
16793230 TCTCCCTTATCAGCTCCTACATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
16793254 TCTCCCTTACCAGCTCTTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
16793278 TCTCCCTTATCAGCTCCTAAATC
1 TCTCCCTTATCAGCTCCTAAATC
16793301 TTTTCCTGAC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 63 1.00
ACGTcount: A:0.21, C:0.41, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:16799585 original size:27 final size:26
Alignment explanation
Indices: 16799528--16799638 Score: 132
Period size: 27 Copynumber: 4.2 Consensus size: 26
16799518 AGCATGGCTG
* * *
16799528 CCAGAACAGATAATGTGACAAAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
16799554 CCAGAATAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATAAT-GTGGCAGAGCCA
*
16799581 CCAGAACAGATATATGTGGCAGATCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
16799608 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
16799635 CCAG
1 CCAG
16799639 GACTCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 14 0.19
27 57 0.78
28 2 0.03
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:16799591 original size:53 final size:54
Alignment explanation
Indices: 16799528--16799638 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
16799518 AGCATGGCTG
16799528 CCAGAACAGATA-ATGTGACAAAGT-CACCAGAAT-AGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAAA-TCCACCAG-ATCAGATAATCGTGGCAGAGCCA
* * * *
16799581 CCAGAACAGATATATGTGGCAGATCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAAATCCACCAGATCAGATAATCGTGGCAGAGCCA
16799635 CCAG
1 CCAG
16799639 GACTCTTCCT
Statistics
Matches: 51, Mismatches: 4, Indels: 5
0.85 0.07 0.08
Matches are distributed among these distances:
53 15 0.29
54 36 0.71
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAAATCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:16801086 original size:24 final size:24
Alignment explanation
Indices: 16801058--16801158 Score: 175
Period size: 24 Copynumber: 4.2 Consensus size: 24
16801048 CCAACACCAT
*
16801058 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
16801082 TCTCCCTTATCAGCTCCTACATCC
1 TCTCCCTTATCAGCTCCTAAATCC
16801106 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
16801130 TCTCCCTTATCAGCTCCTAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
16801154 TCTCC
1 TCTCC
16801159 TGGTAGCCTT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 73 1.00
ACGTcount: A:0.20, C:0.43, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:16801535 original size:10 final size:9
Alignment explanation
Indices: 16801512--16801536 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
16801502 TTGAAAACCA
16801512 CAAAAATCC
1 CAAAAATCC
16801521 CAAAAATCC
1 CAAAAATCC
16801530 CAAAAAT
1 CAAAAAT
16801537 TGGGGCGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.60, C:0.28, G:0.00, T:0.12
Consensus pattern (9 bp):
CAAAAATCC
Found at i:16806851 original size:32 final size:32
Alignment explanation
Indices: 16806805--16806871 Score: 116
Period size: 32 Copynumber: 2.1 Consensus size: 32
16806795 AATAAGTATG
**
16806805 AAATTATTGTGAGATGGTATAGGTATGTACAC
1 AAATTATTACGAGATGGTATAGGTATGTACAC
16806837 AAATTATTACGAGATGGTATAGGTATGTACAC
1 AAATTATTACGAGATGGTATAGGTATGTACAC
16806869 AAA
1 AAA
16806872 ACTTATGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.31
Consensus pattern (32 bp):
AAATTATTACGAGATGGTATAGGTATGTACAC
Found at i:16815969 original size:40 final size:39
Alignment explanation
Indices: 16815921--16816091 Score: 229
Period size: 39 Copynumber: 4.3 Consensus size: 39
16815911 ACGACTAGCT
*
16815921 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAA-CCCGGATT-TAGTAACTCGCA
* *
16815961 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGG-CTTAACCCGGATTTAGTAACTCGCA
*
16816001 CAAATGCCTTCGGGCTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
*
16816040 CAAATGCCTTCGGGCTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
* *
16816079 CGAACGCCTTCGG
1 CAAATGCCTTCGG
16816092 ATCTTAGTCC
Statistics
Matches: 122, Mismatches: 7, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
39 73 0.60
40 45 0.37
41 4 0.03
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCA
Found at i:16816035 original size:39 final size:40
Alignment explanation
Indices: 16815921--16816144 Score: 235
Period size: 40 Copynumber: 5.7 Consensus size: 40
16815911 ACGACTAGCT
*
16815921 CAAATGCCTTCGGGAC-AAACCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAA-CCCGGATT-TAGTAACTCGCA
* *
16815961 CGAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
16816001 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
16816040 CAAATGCCTTCGGG-CTTAACCCGGATTTATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * ** * * * **
16816079 CGAACGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAACA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
16816120 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
16816145 CATCATTCAA
Statistics
Matches: 161, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 71 0.44
40 75 0.47
41 13 0.08
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:16819647 original size:40 final size:40
Alignment explanation
Indices: 16819602--16819785 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
16819592 CTTGCACAAG
* *
16819602 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
16819642 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
16819682 GCCTTC-GGTCTTAGCCCGGATATAG-CAACTCGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
16819721 GCCTTCGGATCTTAGTCCGGTTATAGTCACCTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCA-CTAGCACAAAT
*
16819762 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
16819786 CATTTGAATA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 33 0.27
40 59 0.48
41 29 0.24
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:16819723 original size:79 final size:81
Alignment explanation
Indices: 16819602--16819785 Score: 243
Period size: 79 Copynumber: 2.3 Consensus size: 81
16819592 CTTGCACAAG
*
16819602 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGCCTTCGGGA-CTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAGATGCCTTC-GGATCTTAGCCCGGATAT
* *
16819666 AGTC-GCTAGCACAAAT
65 AGTCACCTAGCACAAAA
* * *
16819682 GCCTTC-GGTCTTAGCCCGGATATAG-CAACTCGCAC-GAATGCCTTCGGATCTTAGTCCGGTTA
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAG-ATGCCTTCGGATCTTAGCCCGGATA
16819744 TAGTCACCTAGCACAAAA
64 TAGTCACCTAGCACAAAA
*
16819762 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
16819786 CATTTGAATA
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
78 5 0.05
79 49 0.53
80 22 0.24
81 16 0.17
ACGTcount: A:0.23, C:0.28, G:0.24, T:0.24
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAGATGCCTTCGGATCTTAGCCCGGATATA
GTCACCTAGCACAAAA
Found at i:16827839 original size:40 final size:40
Alignment explanation
Indices: 16827749--16827969 Score: 234
Period size: 40 Copynumber: 5.5 Consensus size: 40
16827739 CTCAAGTAAT
* * * *
16827749 CTTCGGGATTTAG-CCGGATATA-ACTACTTGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * *
16827787 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCACAGATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
16827827 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* ** * *
16827867 CTTCGGGTCTTAGCCCGGATATAGAAACTCGCACGAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
16827907 CTTC-GGATCTTAGTCCGGTTATAGTCACCTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCA-CTAGCACAAATGC
*
16827948 CTTCGGGACTTAGCCCAGATAT
1 CTTCGGGACTTAGCCCGGATAT
16827970 CATTCGAATA
Statistics
Matches: 149, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
38 11 0.07
39 17 0.11
40 93 0.62
41 25 0.17
42 3 0.02
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:16828160 original size:19 final size:19
Alignment explanation
Indices: 16828136--16828174 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
16828126 AAGCGAATCA
16828136 ATCTAAGTTCCATTACTCG
1 ATCTAAGTTCCATTACTCG
16828155 ATCTAAGTTCCATTACTCG
1 ATCTAAGTTCCATTACTCG
16828174 A
1 A
16828175 AAACTTACCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.26, G:0.10, T:0.36
Consensus pattern (19 bp):
ATCTAAGTTCCATTACTCG
Found at i:16837636 original size:43 final size:43
Alignment explanation
Indices: 16837579--16837670 Score: 148
Period size: 43 Copynumber: 2.1 Consensus size: 43
16837569 ATAATTCTTA
*
16837579 ATATGTGCATATATGTTTAGGTAGATTCGCCCACCTAACTAAT
1 ATATGTGCATATATGTCTAGGTAGATTCGCCCACCTAACTAAT
* * *
16837622 ATATGTGCATATATGTCTAGGTATATTCGGCCACCTAATTAAT
1 ATATGTGCATATATGTCTAGGTAGATTCGCCCACCTAACTAAT
16837665 ATATGT
1 ATATGT
16837671 ATATGTAGCT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.37
Consensus pattern (43 bp):
ATATGTGCATATATGTCTAGGTAGATTCGCCCACCTAACTAAT
Found at i:16841026 original size:17 final size:17
Alignment explanation
Indices: 16841004--16841038 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16840994 GTCTCAGTCG
16841004 TGTGTGACACACGACCA
1 TGTGTGACACACGACCA
16841021 TGTGTGACACACGACCA
1 TGTGTGACACACGACCA
16841038 T
1 T
16841039 ATGCCACCTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.23, T:0.20
Consensus pattern (17 bp):
TGTGTGACACACGACCA
Found at i:16843272 original size:49 final size:49
Alignment explanation
Indices: 16843144--16843548 Score: 647
Period size: 49 Copynumber: 8.3 Consensus size: 49
16843134 CCCTTCGGGA
* * * * * *
16843144 CTTATCACAT-T-TATACACTTCCACATCCATCACTTTGGCCACTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16843191 CCTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
16843238 CTTATCACATATATATACACCTTCTCATTTATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16843287 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16843336 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
16843385 CTTATCACATATATATACACTTTCACATTCATCACATCAGCCATTAAGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16843434 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
16843483 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
16843532 CTTATCACATATATATA
1 CTTATCACATATATATA
16843549 TATCTCATAC
Statistics
Matches: 332, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 45 0.14
49 286 0.86
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:16848116 original size:41 final size:41
Alignment explanation
Indices: 16848071--16848188 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
16848061 TGAAAGATAA
16848071 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
16848112 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
16848142 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
16848183 ATGTAG
1 ATGTAG
16848189 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:16848127 original size:71 final size:71
Alignment explanation
Indices: 16848039--16848202 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
16848029 GAGATGTATC
16848039 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16848104 AGGACA
66 AGGACA
16848110 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16848175 AGGACA
66 AGGACA
16848181 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
16848203 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:16855692 original size:41 final size:41
Alignment explanation
Indices: 16855647--16855764 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
16855637 TGAAAGATAA
16855647 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
16855688 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
16855718 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
16855759 ATGTAG
1 ATGTAG
16855765 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:16855703 original size:71 final size:71
Alignment explanation
Indices: 16855615--16855778 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
16855605 GAGATGTATC
16855615 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16855680 AGGACA
66 AGGACA
16855686 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
16855751 AGGACA
66 AGGACA
16855757 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
16855779 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:16867459 original size:43 final size:43
Alignment explanation
Indices: 16867365--16867460 Score: 147
Period size: 43 Copynumber: 2.2 Consensus size: 43
16867355 GGATCACATA
* * *
16867365 TATCGATGCCGATAGCCCAACTATGGTATTACACGATATCTCG
1 TATCGATGTCGATAGCCCAACTATGGTATTAAACAATATCTCG
* *
16867408 TATCGATGTCGATAGCCCAGCTATGGTTTTAAACAATATCTCG
1 TATCGATGTCGATAGCCCAACTATGGTATTAAACAATATCTCG
16867451 TATCGATGTC
1 TATCGATGTC
16867461 ATGTCTCAGA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (43 bp):
TATCGATGTCGATAGCCCAACTATGGTATTAAACAATATCTCG
Found at i:16867498 original size:42 final size:42
Alignment explanation
Indices: 16867472--16867658 Score: 311
Period size: 42 Copynumber: 4.5 Consensus size: 42
16867462 TGTCTCAGAC
*
16867472 ATGGTCTTACATGAAATCAAATATCGATGCCATATCCTAGAT
1 ATGGTCTTACACGAAATCAAATATCGATGCCATATCCTAGAT
**
16867514 ATGGTCTTACAAAAAATCAAATATCGATGCCATATCCTAGAT
1 ATGGTCTTACACGAAATCAAATATCGATGCCATATCCTAGAT
*
16867556 ATGGTCTTACACGAAATCAAATATCGATGCCATATCCTAGAC
1 ATGGTCTTACACGAAATCAAATATCGATGCCATATCCTAGAT
* *
16867598 ATGGTCTTACACGAAATCAAATATCGATGTCATATCCCAGAT
1 ATGGTCTTACACGAAATCAAATATCGATGCCATATCCTAGAT
*
16867640 ATGGTTTTACACGAAATCA
1 ATGGTCTTACACGAAATCA
16867659 TACATAACCC
Statistics
Matches: 136, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 136 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACACGAAATCAAATATCGATGCCATATCCTAGAT
Found at i:16867560 original size:84 final size:84
Alignment explanation
Indices: 16867451--16867658 Score: 317
Period size: 84 Copynumber: 2.5 Consensus size: 84
16867441 CAATATCTCG
* * * * * *
16867451 TATCGATGTCATGTCTCAGACATGGTCTTACATGAAATCAAATATCGATGCCATATCCTAGATAT
1 TATCGATGCCATATCCCAGATATGGTCTTACACGAAATCAAATATCGATGCCATATCCTAGACAT
16867516 GGTCTTACAAAAAATCAAA
66 GGTCTTACAAAAAATCAAA
*
16867535 TATCGATGCCATATCCTAGATATGGTCTTACACGAAATCAAATATCGATGCCATATCCTAGACAT
1 TATCGATGCCATATCCCAGATATGGTCTTACACGAAATCAAATATCGATGCCATATCCTAGACAT
**
16867600 GGTCTTACACGAAATCAAA
66 GGTCTTACAAAAAATCAAA
* *
16867619 TATCGATGTCATATCCCAGATATGGTTTTACACGAAATCA
1 TATCGATGCCATATCCCAGATATGGTCTTACACGAAATCA
16867659 TACATAACCC
Statistics
Matches: 112, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
84 112 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (84 bp):
TATCGATGCCATATCCCAGATATGGTCTTACACGAAATCAAATATCGATGCCATATCCTAGACAT
GGTCTTACAAAAAATCAAA
Found at i:16873538 original size:43 final size:43
Alignment explanation
Indices: 16873490--16873571 Score: 130
Period size: 43 Copynumber: 1.9 Consensus size: 43
16873480 CATGTATCGC
* *
16873490 ATCCATTATGAACTCGGACCA-CTCAACGAGCTCGGATGCTAGT
1 ATCCATAATGAACTCAGACCACCT-AACGAGCTCGGATGCTAGT
16873533 ATCCATAATGAACTCAGACCACCTAACGAGCTCGGATGC
1 ATCCATAATGAACTCAGACCACCTAACGAGCTCGGATGC
16873572 CACATATATC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
43 34 0.94
44 2 0.06
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (43 bp):
ATCCATAATGAACTCAGACCACCTAACGAGCTCGGATGCTAGT
Found at i:16873647 original size:22 final size:22
Alignment explanation
Indices: 16873622--16873677 Score: 94
Period size: 22 Copynumber: 2.5 Consensus size: 22
16873612 TTCTTAATTC
16873622 CTAGTTTCCTAGTGACATGTCA
1 CTAGTTTCCTAGTGACATGTCA
16873644 CTAGTTTCCTAGTGACATGTCA
1 CTAGTTTCCTAGTGACATGTCA
* *
16873666 CTTGTATCCTAG
1 CTAGTTTCCTAG
16873678 ACTATTCCTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (22 bp):
CTAGTTTCCTAGTGACATGTCA
Found at i:16879886 original size:30 final size:30
Alignment explanation
Indices: 16879850--16879957 Score: 105
Period size: 30 Copynumber: 3.6 Consensus size: 30
16879840 ATCATAGAGA
16879850 AGCCTTTGTGGCTGATTCTGATGTAAGAAG
1 AGCCTTTGTGGCTGATTCTGATGTAAGAAG
* *
16879880 AGCCTTTTTGGCTGATTCTGATATGAA-AAG
1 AGCCTTTGTGGCTGATTCTGATGT-AAGAAG
** * * *
16879910 AGAGTTTTTGGCTAATTCTTTATG--AGAAG
1 AGCCTTTGTGGCTGATTC-TGATGTAAGAAG
*
16879939 AGCCTTTGTGGTTGATTCT
1 AGCCTTTGTGGCTGATTCT
16879958 ATTAAAGGCG
Statistics
Matches: 63, Mismatches: 12, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
28 2 0.03
29 16 0.25
30 40 0.63
31 5 0.08
ACGTcount: A:0.23, C:0.12, G:0.26, T:0.39
Consensus pattern (30 bp):
AGCCTTTGTGGCTGATTCTGATGTAAGAAG
Found at i:16884880 original size:20 final size:20
Alignment explanation
Indices: 16884855--16884895 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
16884845 CATAGCGATA
16884855 TAGTGTGAAGACCAAAGAAT
1 TAGTGTGAAGACCAAAGAAT
16884875 TAGTGTGAAGACCAAAGAAT
1 TAGTGTGAAGACCAAAGAAT
16884895 T
1 T
16884896 TGACTCCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.44, C:0.10, G:0.24, T:0.22
Consensus pattern (20 bp):
TAGTGTGAAGACCAAAGAAT
Found at i:16894778 original size:16 final size:15
Alignment explanation
Indices: 16894732--16894779 Score: 60
Period size: 17 Copynumber: 2.9 Consensus size: 15
16894722 TAATTTCAAA
16894732 TAATATATTTCATTATT
1 TAATATATTT-ATT-TT
16894749 TAATATATTCTATTTT
1 TAATATATT-TATTTT
16894765 TAAATATATTTATTT
1 T-AATATATTTATTT
16894780 CTACATTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.28
17 20 0.69
18 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.60
Consensus pattern (15 bp):
TAATATATTTATTTT
Found at i:16895062 original size:7 final size:7
Alignment explanation
Indices: 16895050--16895077 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
16895040 TATAATATAA
16895050 ATATTTT
1 ATATTTT
16895057 ATATTTT
1 ATATTTT
16895064 ATATTTT
1 ATATTTT
16895071 ATATTTT
1 ATATTTT
16895078 TTTTAACTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (7 bp):
ATATTTT
Found at i:16900043 original size:22 final size:22
Alignment explanation
Indices: 16900004--16900062 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
16899994 GTTTTAAGAA
*
16900004 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
16900025 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
16900047 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
16900063 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:16900079 original size:26 final size:24
Alignment explanation
Indices: 16900033--16900092 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
16900023 ATTTGTTTTA
*
16900033 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
16900057 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
16900083 TTTTTTATTT
1 ATATTTATTT
16900093 AATGAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:16901409 original size:33 final size:33
Alignment explanation
Indices: 16901371--16901433 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
16901361 ATTTTGAAAC
16901371 TTTGTT-AAATA-ATATTAAAAAACTATAAAATAT
1 TTTGTTAAAATACAT-TTAAAAAA-TATAAAATAT
*
16901404 TTTGTTAAAATACATTTTAAAAATATAAAA
1 TTTGTTAAAATACATTTAAAAAATATAAAA
16901434 CAAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
33 13 0.48
34 12 0.44
35 2 0.07
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.40
Consensus pattern (33 bp):
TTTGTTAAAATACATTTAAAAAATATAAAATAT
Found at i:16906617 original size:43 final size:43
Alignment explanation
Indices: 16906549--16906705 Score: 185
Period size: 43 Copynumber: 3.7 Consensus size: 43
16906539 AGCTCATACA
*
16906549 ATGCCAATGTCCCAGACGTGGTCTTACATGTAAAC-AAATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAACAAAATA-TG
* * ** *
16906592 ATGGCATTGTCCCAGACAAGGTCTTACACG-AAATAAAATATG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAACAAAATATG
* *
16906634 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCATAAGT-CG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAA-CA-AAATATG
*
16906678 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
16906706 TGAAAATACA
Statistics
Matches: 96, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
42 31 0.32
43 33 0.34
44 29 0.30
45 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAAACAAAATATG
Found at i:16906692 original size:44 final size:43
Alignment explanation
Indices: 16906549--16906705 Score: 194
Period size: 42 Copynumber: 3.7 Consensus size: 43
16906539 AGCTCATACA
*
16906549 ATGCCAATGTCCCAGACGTGGTCTTACATGTAAA-CAAATATTG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAA-ATTG
* * **
16906592 ATGGCATTGTCCCAGACAAGGTCTTACACG-AAAT-AAAATATG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAAAT-TG
* *
16906634 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCATAAGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCA-AAATTG
*
16906678 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCAATGTCCCAGACGTGGTCTTACA
16906706 TGAAAATACA
Statistics
Matches: 97, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.02
42 34 0.35
43 29 0.30
44 29 0.30
45 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.25
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAAATCAAAATTG
Found at i:16918594 original size:14 final size:14
Alignment explanation
Indices: 16918575--16918611 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
16918565 TTAACAATGT
16918575 TAAAGAAAGAAATA
1 TAAAGAAAGAAATA
16918589 TAAAGAATAG-AATA
1 TAAAGAA-AGAAATA
16918603 -AAAGAAAGA
1 TAAAGAAAGA
16918612 GATGTTAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 2 0.10
13 6 0.29
14 11 0.52
15 2 0.10
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (14 bp):
TAAAGAAAGAAATA
Found at i:16918943 original size:18 final size:18
Alignment explanation
Indices: 16918920--16918956 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
16918910 GACACCTTCT
16918920 ACCCTGTGTCATGACATC
1 ACCCTGTGTCATGACATC
16918938 ACCCTGTGTCATGACATC
1 ACCCTGTGTCATGACATC
16918956 A
1 A
16918957 AAGGTAGGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.27
Consensus pattern (18 bp):
ACCCTGTGTCATGACATC
Found at i:16923546 original size:29 final size:29
Alignment explanation
Indices: 16923514--16923600 Score: 131
Period size: 29 Copynumber: 3.0 Consensus size: 29
16923504 CAGATAGTTT
*
16923514 CGACTATCGACTATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
*
16923543 CGACCATCAACTATGAAAAGGGATGGTGA
1 CGACCATCGACTATGAAAAGGGATGGTGA
*
16923572 CGACCATCGTA-TATGAAAAGGGATTGTGA
1 CGACCATCG-ACTATGAAAAGGGATGGTGA
16923601 TAGCCCTAAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
29 52 0.98
30 1 0.02
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.21
Consensus pattern (29 bp):
CGACCATCGACTATGAAAAGGGATGGTGA
Found at i:16925392 original size:40 final size:40
Alignment explanation
Indices: 16925332--16925515 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
16925322 TATTCGAATG
* *
16925332 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGGGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
** * *
16925372 ATATCCGAACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
16925412 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
*
16925452 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
*
16925492 ATATCTGGGCTAAGA-CCTGAAGGC
1 ATATCCGGGCTAAGATCC-GAAGGC
16925516 CTTGTGCGAG
Statistics
Matches: 122, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 3 0.02
40 117 0.96
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:16925465 original size:80 final size:80
Alignment explanation
Indices: 16925332--16925515 Score: 237
Period size: 80 Copynumber: 2.3 Consensus size: 80
16925322 TATTCGAATG
* * *
16925332 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGGGACTATATCCGAACTAAGAT-CCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGAACTAAG-TCCCGAAGGC
* *
16925396 ATTTGTGCGAGTTG-CT
65 ATTTATGCGAG-TGACC
* **
16925412 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGAACTAAGTCCCGAAGGCA
*
16925477 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
* *
16925492 ATATCTGGGCTAAGACCTGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
16925516 CTTGTGCGAG
Statistics
Matches: 91, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
79 3 0.03
80 88 0.97
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGAACTAAGTCCCGAAGGCA
TTTATGCGAGTGACC
Found at i:16926989 original size:30 final size:29
Alignment explanation
Indices: 16926927--16927047 Score: 145
Period size: 29 Copynumber: 4.1 Consensus size: 29
16926917 ATAGACTATA
*
16926927 AAAAGGGATGGTGACGACCATC-AACTATG
1 AAAAGGGATGGTAACGACCATCGAA-TATG
* * *
16926956 AAAAGGGATTGTAACTACCATCGATTAATG
1 AAAAGGGATGGTAACGACCATCGAAT-ATG
**
16926986 AAAAGGGATGGTTTCGACCATCGAATATG
1 AAAAGGGATGGTAACGACCATCGAATATG
* *
16927015 AAAAGGGATGGTGATGACCATCGAATATG
1 AAAAGGGATGGTAACGACCATCGAATATG
16927044 AAAA
1 AAAA
16927048 TGTATGTTTA
Statistics
Matches: 78, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
29 53 0.68
30 25 0.32
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (29 bp):
AAAAGGGATGGTAACGACCATCGAATATG
Found at i:16927035 original size:59 final size:58
Alignment explanation
Indices: 16926927--16927047 Score: 156
Period size: 59 Copynumber: 2.1 Consensus size: 58
16926917 ATAGACTATA
* *
16926927 AAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATTGTAACTACCATCGATTAATG
1 AAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTAACTACCATCGAAT-ATG
** *
16926986 AAAAGGGATGGTTTCGACCATCGAA-TATGAAAAGGGATGGTGA-TGACCATCGAATATG
1 AAAAGGGATGGTGACGACCATC-AACTATGAAAAGGGATGGTAACT-ACCATCGAATATG
16927044 AAAA
1 AAAA
16927048 TGTATGTTTA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
58 8 0.15
59 45 0.82
60 2 0.04
ACGTcount: A:0.40, C:0.13, G:0.26, T:0.21
Consensus pattern (58 bp):
AAAAGGGATGGTGACGACCATCAACTATGAAAAGGGATGGTAACTACCATCGAATATG
Found at i:16927065 original size:29 final size:29
Alignment explanation
Indices: 16926901--16927066 Score: 124
Period size: 29 Copynumber: 5.7 Consensus size: 29
16926891 GGGGCGCTAC
* * * *
16926901 AGGGATAGTTT-CGACTATAGACTATAAAA
1 AGGGAT-GTTTACGACCATCGAATATGAAA
* *
16926930 AGGGATGGTGACGACCATC-AACTATGAAA
1 AGGGATGTTTACGACCATCGAA-TATGAAA
* * *
16926959 AGGGAT-TGTAACTACCATCGATTAATGAAA
1 AGGGATGT-TTACGACCATCGAAT-ATGAAA
16926989 AGGGATGGTTT-CGACCATCGAATATGAAA
1 AGGGAT-GTTTACGACCATCGAATATGAAA
* * *
16927018 AGGGATGGTGATGACCATCGAATATGAAA
1 AGGGATGTTTACGACCATCGAATATGAAA
* * *
16927047 ATGTATGTTTACGAACATCG
1 AGGGATGTTTACGACCATCG
16927067 TTTAGCACAC
Statistics
Matches: 107, Mismatches: 22, Indels: 16
0.74 0.15 0.11
Matches are distributed among these distances:
28 5 0.05
29 77 0.72
30 23 0.21
31 1 0.01
32 1 0.01
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (29 bp):
AGGGATGTTTACGACCATCGAATATGAAA
Found at i:16941947 original size:17 final size:18
Alignment explanation
Indices: 16941905--16941953 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
16941895 AGTTGAAAAG
16941905 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
16941924 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
16941941 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
16941954 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:16942838 original size:40 final size:40
Alignment explanation
Indices: 16942772--16942938 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
16942762 AAATTGAATG
* * *
16942772 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
16942811 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
16942851 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
16942891 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
16942931 ATATCCGG
1 ATATCCGG
16942939 TTATATTCCG
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
39 16 0.16
40 85 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:16949920 original size:17 final size:18
Alignment explanation
Indices: 16949878--16949926 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
16949868 AGTTGAAAAG
16949878 GAGCATGATTGTCATACTT
1 GAGCATGA-TGTCATACTT
*
16949897 G-GCCATGATG-CATTCTT
1 GAG-CATGATGTCATACTT
16949914 GAGCATGAT-TCAT
1 GAGCATGATGTCAT
16949927 GCTTCTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
17 16 0.62
18 4 0.15
19 6 0.23
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.35
Consensus pattern (18 bp):
GAGCATGATGTCATACTT
Found at i:16950811 original size:40 final size:40
Alignment explanation
Indices: 16950745--16950911 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
16950735 AAATTGAATG
* * *
16950745 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
16950784 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
16950824 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
16950864 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
16950904 ATATCCGG
1 ATATCCGG
16950912 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:16957436 original size:27 final size:28
Alignment explanation
Indices: 16957380--16957449 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
16957370 AAACTTGTAC
16957380 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
16957408 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
16957435 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
16957450 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:16957460 original size:27 final size:27
Alignment explanation
Indices: 16957380--16957461 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
16957370 AAACTTGTAC
* *
16957380 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
16957408 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
16957435 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
16957462 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:16964356 original size:27 final size:27
Alignment explanation
Indices: 16964318--16964382 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
16964308 ACCCTTAATA
*
16964318 GGTAAAAAGACCATAA-AGCCCCTGTAG
1 GGTAAAATGACCATAATA-CCCCTGTAG
* * * *
16964345 GGTAAAGTGACCGTAATACCCTTGTAT
1 GGTAAAATGACCATAATACCCCTGTAG
16964372 GGTAAAATGAC
1 GGTAAAATGAC
16964383 GAATACGCCC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCATAATACCCCTGTAG
Found at i:16965229 original size:25 final size:24
Alignment explanation
Indices: 16965191--16965260 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 24
16965181 AGGAAGTGCT
*
16965191 AAAAGGGCTCTGCCCCAGTTTAAC
1 AAAAGGGCTTTGCCCCAGTTTAAC
*
16965215 GAAAAGGGCTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTGCCCCAGTTTAAC
16965240 AGAAAGGGCTTTGCCCCAGTT
1 A-AAAGGGCTTTGCCCCAGTT
16965261 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (24 bp):
AAAAGGGCTTTGCCCCAGTTTAAC
Found at i:16965467 original size:42 final size:42
Alignment explanation
Indices: 16965408--16965541 Score: 214
Period size: 42 Copynumber: 3.2 Consensus size: 42
16965398 TAGTCTCCCC
*
16965408 AAATGGGCTTGCATACATTCGTTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCGTTGACATTACATGTGATATTG
* *
16965450 AAATGGGCTTGCATACATCCATTGACATGACATGTGATATTG
1 AAATGGGCTTGCATACATCCGTTGACATTACATGTGATATTG
* * *
16965492 AAATGGGTTTGCATACATCCGTTGACATTACATTTCATATTG
1 AAATGGGCTTGCATACATCCGTTGACATTACATGTGATATTG
16965534 AAATGGGC
1 AAATGGGC
16965542 CTAAGGGCCA
Statistics
Matches: 83, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 83 1.00
ACGTcount: A:0.30, C:0.16, G:0.21, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCGTTGACATTACATGTGATATTG
Found at i:16965604 original size:31 final size:31
Alignment explanation
Indices: 16965569--16965679 Score: 197
Period size: 31 Copynumber: 3.6 Consensus size: 31
16965559 TATAGTAAAT
16965569 GCTTCGGCCCAGTGATATGATTTATGAAAAG
1 GCTTCGGCCCAGTGATATGATTTATGAAAAG
*
16965600 GCTTCGACCCAGTGATATGATTTATGAAAAG
1 GCTTCGGCCCAGTGATATGATTTATGAAAAG
*
16965631 GCTTCGGCCCAGTGATATGATTTATGGAAAG
1 GCTTCGGCCCAGTGATATGATTTATGAAAAG
16965662 GCTTCGGCCCAGT-ATATG
1 GCTTCGGCCCAGTGATATG
16965680 TCAAGACTAA
Statistics
Matches: 77, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
30 5 0.06
31 72 0.94
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (31 bp):
GCTTCGGCCCAGTGATATGATTTATGAAAAG
Found at i:16967934 original size:27 final size:27
Alignment explanation
Indices: 16967904--16968143 Score: 304
Period size: 27 Copynumber: 8.9 Consensus size: 27
16967894 CTTGTAGGGC
*
16967904 AGAATTACCGTTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAT
16967931 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAT
16967958 AGAATTACCATTTTACCCTCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAT
*
16967985 AGAATTACCGTTTTA-CCTCTGATTTAT
1 AGAATTACCATTTTACCCTC-GATTTAT
* * *
16968012 AAAATTACCATTTTACCCTCAATTTAA
1 AGAATTACCATTTTACCCTCGATTTAT
*** *
16968039 AGAATTACCAAAGTACCATCGATTTAT
1 AGAATTACCATTTTACCCTCGATTTAT
* * *
16968066 AAAATTATCATTTTACCCTCGATTTAC
1 AGAATTACCATTTTACCCTCGATTTAT
* *
16968093 AAAATTACCATTTTACCCTC-AGTTTAC
1 AGAATTACCATTTTACCCTCGA-TTTAT
* *
16968120 AAAATTACCGTTTTACCCTCGATT
1 AGAATTACCATTTTACCCTCGATT
16968144 GTGAAATTAC
Statistics
Matches: 187, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 5 0.03
27 177 0.95
28 5 0.03
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (27 bp):
AGAATTACCATTTTACCCTCGATTTAT
Found at i:16968251 original size:27 final size:27
Alignment explanation
Indices: 16968175--16968260 Score: 102
Period size: 27 Copynumber: 3.2 Consensus size: 27
16968165 TGTAGGATAG
* * *
16968175 AATTACCAAAATACCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
*
16968202 AATTACCAAAATA-CCCTCAATTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
**
16968229 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
16968256 AATTA
1 AATTA
16968261 TAGAAATACC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 3 0.06
27 43 0.86
28 4 0.08
ACGTcount: A:0.43, C:0.21, G:0.07, T:0.29
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:16968267 original size:27 final size:27
Alignment explanation
Indices: 16968237--16968330 Score: 102
Period size: 27 Copynumber: 3.4 Consensus size: 27
16968227 AAAATTACCA
*
16968237 AAATACCCCTGATTTACAAAATTATAG
1 AAATACCCTTGATTTACAAAATTATAG
*
16968264 AAATACCTTTGACTTT-CTAAAAATTATAG
1 AAATACCCTTGA-TTTAC--AAAATTATAG
* *
16968293 AAATACCATTGGTTTACAAAATTACT-G
1 AAATACCCTTGATTTACAAAATTA-TAG
16968320 AAATACCCTTG
1 AAATACCCTTG
16968331 GTTTGTAGAT
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
27 29 0.51
28 7 0.12
29 21 0.37
ACGTcount: A:0.41, C:0.17, G:0.09, T:0.33
Consensus pattern (27 bp):
AAATACCCTTGATTTACAAAATTATAG
Found at i:16969342 original size:24 final size:24
Alignment explanation
Indices: 16969259--16969342 Score: 116
Period size: 25 Copynumber: 3.4 Consensus size: 24
16969249 GAGGAAGTGC
*
16969259 TAAAAGGGCTCTGCCCCAGTTTACT
1 TAAAAGGGCTTTGCCCCAGTTTA-T
16969284 TAAAAGGGCTTTGCCCCAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
*
16969308 CAGAAAGGGCTTTGCCCCAG-TTAT
1 TA-AAAGGGCTTTGCCCCAGTTTAT
16969332 TAAAAGAGGCT
1 TAAAAG-GGCT
16969343 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
23 4 0.07
24 11 0.20
25 39 0.72
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:16969536 original size:42 final size:42
Alignment explanation
Indices: 16969477--16969610 Score: 250
Period size: 42 Copynumber: 3.2 Consensus size: 42
16969467 TAGTCTCCCC
16969477 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
16969519 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
* *
16969561 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTA
1 AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
16969603 AAATGGGC
1 AAATGGGC
16969611 CTAAGGGCCA
Statistics
Matches: 90, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 90 1.00
ACGTcount: A:0.32, C:0.15, G:0.19, T:0.34
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGACATTACATGTGATATTG
Found at i:16969681 original size:31 final size:31
Alignment explanation
Indices: 16969634--16969779 Score: 195
Period size: 31 Copynumber: 4.7 Consensus size: 31
16969624 CATTTACAGT
* * *
16969634 AAAGGCTTTGGCCCAGTGATATGATCTACGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
16969665 AAATGCTTCGGCCCAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
16969696 AACGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* * *
16969727 AAAGGCTTCAGCCTAGTGATATGATTTATGG
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
16969758 AAAGGCTTCGGCCTAGT-ATATG
1 AAAGGCTTCGGCCCAGTGATATG
16969780 TCAAGACTAA
Statistics
Matches: 102, Mismatches: 13, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
30 5 0.05
31 97 0.95
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:16977498 original size:114 final size:114
Alignment explanation
Indices: 16977290--16977514 Score: 378
Period size: 114 Copynumber: 2.0 Consensus size: 114
16977280 AATGTTGAGA
** *
16977290 AAGCCAAGTTTTGGCTCGAGAATACTACATGGGTATTAGATGAATTGTCGTGCACACCTGAGTAG
1 AAGCCAAGTTTTGGCTCGAGAATACTACACAGGTATTAGATGAATTGTCGTGCACACCTGAGGAG
* * * *
16977355 TGCTTAAAGTTTGCTGTGTTTCTTTTGAAGGATATTGCATACCACTGGT
66 TGCTTAAAGTGTGCCGTGTTTCTTCTGAAGGATACTGCATACCACTGGT
*
16977404 AAGCTAAGTTTTGGCTCGAGAATACTACACAGGTATTAGATGAATTGTCGTGCACACCTGAGGAG
1 AAGCCAAGTTTTGGCTCGAGAATACTACACAGGTATTAGATGAATTGTCGTGCACACCTGAGGAG
16977469 TGCTTAAAGTGTGCCGTGTTTCTTCTGAAGGATACTGCATACCACT
66 TGCTTAAAGTGTGCCGTGTTTCTTCTGAAGGATACTGCATACCACT
16977515 AGTGGAAGAC
Statistics
Matches: 103, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
114 103 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.32
Consensus pattern (114 bp):
AAGCCAAGTTTTGGCTCGAGAATACTACACAGGTATTAGATGAATTGTCGTGCACACCTGAGGAG
TGCTTAAAGTGTGCCGTGTTTCTTCTGAAGGATACTGCATACCACTGGT
Found at i:16984298 original size:18 final size:18
Alignment explanation
Indices: 16984275--16984332 Score: 61
Period size: 18 Copynumber: 3.4 Consensus size: 18
16984265 GTGCCCCAAG
16984275 CCACACGGGCGTGTGCAA
1 CCACACGGGCGTGTGCAA
** *
16984293 CCACAC-GGC---CCCAC
1 CCACACGGGCGTGTGCAA
16984307 CCACACGGGCGTGTGCAA
1 CCACACGGGCGTGTGCAA
16984325 CCACACGG
1 CCACACGG
16984333 CCCCACCCAC
Statistics
Matches: 30, Mismatches: 6, Indels: 8
0.68 0.14 0.18
Matches are distributed among these distances:
14 8 0.27
15 3 0.10
17 3 0.10
18 16 0.53
ACGTcount: A:0.22, C:0.43, G:0.28, T:0.07
Consensus pattern (18 bp):
CCACACGGGCGTGTGCAA
Done.