Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 172 of 173
Found at i:51906152 original size:21 final size:22
Alignment explanation
Indices: 51906128--51906175 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
51906118 ATAATTTTTT
51906128 TTTAAAT-GTTAGT-TATAAATA
1 TTTAAATGGTTA-TATATAAATA
*
51906149 TTT-AATGGTTATATTTAAATA
1 TTTAAATGGTTATATATAAATA
51906170 TTTAAA
1 TTTAAA
51906176 ATATCGTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
20 4 0.17
21 17 0.74
22 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (22 bp):
TTTAAATGGTTATATATAAATA
Found at i:51907690 original size:17 final size:17
Alignment explanation
Indices: 51907668--51907701 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
51907658 ATTAGAGAGT
* *
51907668 TTCACGTGTATAATTAC
1 TTCACGTATACAATTAC
51907685 TTCACGTATACAATTAC
1 TTCACGTATACAATTAC
51907702 ATATTAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.21, G:0.09, T:0.38
Consensus pattern (17 bp):
TTCACGTATACAATTAC
Found at i:51926014 original size:16 final size:16
Alignment explanation
Indices: 51925986--51926036 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
51925976 CTAATAATAC
*
51925986 TATTATTTTTATATAT
1 TATTATCTTTATATAT
51926002 TATGTA-CTTTATAT-T
1 TAT-TATCTTTATATAT
*
51926017 ATATTATTTTTATATAT
1 -TATTATCTTTATATAT
51926034 TAT
1 TAT
51926037 ATATTTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TATTATCTTTATATAT
Found at i:51926043 original size:16 final size:16
Alignment explanation
Indices: 51925992--51926043 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
51925982 ATACTATTAT
*
51925992 TTTTATATATTATGTA
1 TTTTATATATTATATA
*
51926008 -CTT-TATATTATATTA
1 TTTTATATATTATA-TA
51926023 TTTTTATATATTATATA
1 -TTTTATATATTATATA
51926040 TTTT
1 TTTT
51926044 TTTATAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 8
0.73 0.08 0.20
Matches are distributed among these distances:
14 8 0.28
15 4 0.14
16 4 0.14
17 4 0.14
18 9 0.31
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTTATATATTATATA
Found at i:51926128 original size:16 final size:16
Alignment explanation
Indices: 51926097--51926126 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51926087 TGATTATAGA
51926097 AAAAAATTTAATAAAT
1 AAAAAATTTAATAAAT
51926113 AAAAAATTT-ATAAA
1 AAAAAATTTAATAAA
51926127 ATTATTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AAAAAATTTAATAAAT
Found at i:51933335 original size:378 final size:377
Alignment explanation
Indices: 51932635--51933357 Score: 940
Period size: 378 Copynumber: 1.9 Consensus size: 377
51932625 CATCATCTTC
* * *
51932635 ACAAAGCTTCTCCAAATGATGACTCGTTTCAATTTGTCCGTTAAAGTGTTGACTTTTTTCTCGAA
1 ACAAAGCTTCTCCAAATGAAGACTCGTTTCAATTTGTCCATTAAAGTGTTGACTTTCTTCTCGAA
*
51932700 CGTCATTAATCGATTCCCTTCTGCCTTCCATTTGTTCTTCAAACCCTTCCGTTCTTCCATCACAA
66 CCTCATTAATCGATTCCCTTCTGCCTTCCATTTGTTCTTCAAACCCTTCCGTTCTTCCATCACAA
*
51932765 GCTCTATCCTGGCCTTTCACTTCAACACTTTGTCTTTCAACTTCACACCGAGTTTCAGATTCTGC
131 GCTCTATCCTGGCCATTCACTTCAACACTTTGTCTTTCAACTTCACACCGAGTTTCAGATTC-GC
* ** ** * * *
51932830 AGCTTGACCACTGTTTACCCCGTTACAGACATCAAAAGCCTCGACTTCACTCCACTTCCCTTGGA
195 AGCTCGACCACCATTTACCCCACTACAGACATCAAAAGCCTCAACTTCACTCCACTTCCCTCGAA
** * * * * * * *
51932895 TTAAAGTTTGATCTTCCTTCTCAACGCTATTTGAAACGTTCAACCTATGACTCATTTCCTCCTCA
260 CCAAAGCTCGATCTTCCTTCTCAACACAATTTGAAACGTTCAACCCAAGACTCATCTCCTCCTCA
51932960 TT-CTGCAAATCACCATCATCTTCATTATTAACGCATACGATCTCTCCATTCCT
325 TTCCTG-AAATCACCATCATCTTCATTATTAACGCATACGATCTCTCCATTCCT
*
51933013 ACAAAGCTTCTCCAAATGAAGACTCAG-TTCAATTTGTTCATTAAAGTGTTGACTTTCTTCTCGA
1 ACAAAGCTTCTCCAAATGAAGACTC-GTTTCAATTTGTCCATTAAAGTGTTGACTTTCTTCTCGA
* *
51933077 ACCTCATTAATGGATTCCCTTCTGCCTTCCATTTGTTCTTCAAACCCTTCACG-TCTTTCATCAC
65 ACCTCATTAATCGATTCCCTTCTGCCTTCCATTTGTTCTTCAAACCCTTC-CGTTCTTCCATCAC
* *
51933141 AAGCTCTATTCC-GGCCATTCACTTCAACACTTTGTCTTTCAACTTCACATCG-TTTCTCAGATT
129 AAGCTCTA-TCCTGGCCATTCACTTCAACACTTTGTCTTTCAACTTCACACCGAGTT-TCAGATT
** * * ** * *
51933204 C-CAGAACTCGGTCACCATTTACTCCACTCCATCCATTGAAAA-CCTCAACTTCACTCCCCTTCC
192 CGCAG--CTCGACCACCATTTACCCCACTACAGACA-TCAAAAGCCTCAACTTCACTCCACTTCC
* * *
51933267 CTCGAACC-AAGACTCGATCTTCCTTCTCATCACAATTTGAAACTTTCAACCCAAGACTCGTCTC
254 CTCGAACCAAAG-CTCGATCTTCCTTCTCAACACAATTTGAAACGTTCAACCCAAGACTCATCTC
**
51933331 CTCCTTGTTCCTGAAATCACCATCATC
318 CTCCTCATTCCTGAAATCACCATCATC
51933358 CATACAAACC
Statistics
Matches: 296, Mismatches: 40, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
376 3 0.01
377 5 0.02
378 274 0.93
379 14 0.05
ACGTcount: A:0.24, C:0.32, G:0.10, T:0.35
Consensus pattern (377 bp):
ACAAAGCTTCTCCAAATGAAGACTCGTTTCAATTTGTCCATTAAAGTGTTGACTTTCTTCTCGAA
CCTCATTAATCGATTCCCTTCTGCCTTCCATTTGTTCTTCAAACCCTTCCGTTCTTCCATCACAA
GCTCTATCCTGGCCATTCACTTCAACACTTTGTCTTTCAACTTCACACCGAGTTTCAGATTCGCA
GCTCGACCACCATTTACCCCACTACAGACATCAAAAGCCTCAACTTCACTCCACTTCCCTCGAAC
CAAAGCTCGATCTTCCTTCTCAACACAATTTGAAACGTTCAACCCAAGACTCATCTCCTCCTCAT
TCCTGAAATCACCATCATCTTCATTATTAACGCATACGATCTCTCCATTCCT
Found at i:51934293 original size:20 final size:20
Alignment explanation
Indices: 51934249--51934301 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
51934239 TGATATTTTA
* *
51934249 AATTTTTTTAATTTTTTTTCC
1 AATTTTTTTTA-TTTTTTCCC
51934270 -ATTTTTTTTATTTTTTCCC
1 AATTTTTTTTATTTTTTCCC
*
51934289 AATTTATTTTATT
1 AATTTTTTTTATT
51934302 ATAATATTCT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.19, C:0.09, G:0.00, T:0.72
Consensus pattern (20 bp):
AATTTTTTTTATTTTTTCCC
Found at i:51934747 original size:19 final size:20
Alignment explanation
Indices: 51934723--51934761 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
51934713 TTTTGTTACG
*
51934723 ATAAATCTAAAAT-TTTAAC
1 ATAAATATAAAATATTTAAC
*
51934742 ATAAATATCAAATATTTAAC
1 ATAAATATAAAATATTTAAC
51934762 CTATATATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.54, C:0.10, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAAATATAAAATATTTAAC
Found at i:51942353 original size:10 final size:10
Alignment explanation
Indices: 51942338--51942385 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
51942328 AACTGTCAAA
51942338 ATTTAATATT
1 ATTTAATATT
51942348 ATTTAATATTT
1 ATTTAATA-TT
*
51942359 ATGTAA-ATT
1 ATTTAATATT
51942368 A--TAATATT
1 ATTTAATATT
51942376 ATTTAATATT
1 ATTTAATATT
51942386 TCTGTAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
7 3 0.09
8 4 0.12
9 3 0.09
10 16 0.48
11 7 0.21
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (10 bp):
ATTTAATATT
Found at i:51942375 original size:28 final size:27
Alignment explanation
Indices: 51942336--51942399 Score: 110
Period size: 28 Copynumber: 2.3 Consensus size: 27
51942326 TCAACTGTCA
51942336 AAATTTAATATTATTTAATATTTATGT
1 AAATTTAATATTATTTAATATTTATGT
*
51942363 AAATTATAATATTATTTAATATTTCTGT
1 AAATT-TAATATTATTTAATATTTATGT
51942391 AAATTTAAT
1 AAATTTAAT
51942400 TTACTAGGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 9 0.26
28 26 0.74
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (27 bp):
AAATTTAATATTATTTAATATTTATGT
Found at i:51943552 original size:36 final size:36
Alignment explanation
Indices: 51943512--51943597 Score: 118
Period size: 36 Copynumber: 2.4 Consensus size: 36
51943502 AACTTTGGAC
**
51943512 AGTTTGTTCCAGTCAGCGGTGCTGAGAGCTTCGGAT
1 AGTTTGTTCCAGTCAGCGGTGCCAAGAGCTTCGGAT
* * *
51943548 AGTTTGTCCCAGTCGGCGGTGCCAATAGCTTCGGAT
1 AGTTTGTTCCAGTCAGCGGTGCCAAGAGCTTCGGAT
*
51943584 AGTTTGCTCCAGTC
1 AGTTTGTTCCAGTC
51943598 CGAGGGGTCG
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.16, C:0.23, G:0.30, T:0.30
Consensus pattern (36 bp):
AGTTTGTTCCAGTCAGCGGTGCCAAGAGCTTCGGAT
Found at i:51948842 original size:21 final size:21
Alignment explanation
Indices: 51948803--51948842 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
51948793 TTTTTATTAT
*
51948803 TTTTTTAAGAATTTCAATACA
1 TTTTTTAAGAATTTAAATACA
51948824 TTTTTTAA-AATTTTAAATA
1 TTTTTTAAGAA-TTTAAATA
51948843 TCTTCAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 2 0.12
21 15 0.88
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (21 bp):
TTTTTTAAGAATTTAAATACA
Found at i:51948887 original size:17 final size:18
Alignment explanation
Indices: 51948849--51948922 Score: 71
Period size: 18 Copynumber: 4.1 Consensus size: 18
51948839 AATATCTTCA
*
51948849 ATAAATTT-TATTACTCTT
1 ATAAATTTATATTAAT-TT
*
51948867 ATAAATTTTTA-TAATTT
1 ATAAATTTATATTAATTT
51948884 ATAAATTTATATTAATTTT
1 ATAAATTTATATTAA-TTT
* *
51948903 AATAACTTTATATCAATTT
1 -ATAAATTTATATTAATTT
51948922 A
1 A
51948923 GTTTTTTCAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
17 12 0.25
18 15 0.31
19 8 0.17
20 13 0.27
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
ATAAATTTATATTAATTT
Found at i:51948912 original size:20 final size:20
Alignment explanation
Indices: 51948867--51948921 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 20
51948857 TATTACTCTT
*
51948867 ATAAATTTTTAT-AA-TTT-
1 ATAAATTTATATCAATTTTA
*
51948884 ATAAATTTATATTAATTTTA
1 ATAAATTTATATCAATTTTA
*
51948904 ATAACTTTATATCAATTT
1 ATAAATTTATATCAATTT
51948922 AGTTTTTTCA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
17 11 0.34
18 2 0.06
19 3 0.09
20 16 0.50
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.55
Consensus pattern (20 bp):
ATAAATTTATATCAATTTTA
Found at i:51949664 original size:19 final size:19
Alignment explanation
Indices: 51949623--51949665 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
51949613 AAAATAATCG
*
51949623 AAAATCCAACAACAAATTT
1 AAAATCCAACAACAAATTA
*
51949642 AAAATCCAATCAAGAAA-TA
1 AAAATCCAA-CAACAAATTA
51949661 AAAAT
1 AAAAT
51949666 TAAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.63, C:0.16, G:0.02, T:0.19
Consensus pattern (19 bp):
AAAATCCAACAACAAATTA
Found at i:51949969 original size:16 final size:17
Alignment explanation
Indices: 51949948--51949979 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
51949938 ACATTCCTAT
51949948 TAAATT-ATTTTTTAAC
1 TAAATTAATTTTTTAAC
51949964 TAAATTAATTTTTTAA
1 TAAATTAATTTTTTAA
51949980 AATAGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
TAAATTAATTTTTTAAC
Found at i:51952368 original size:22 final size:20
Alignment explanation
Indices: 51952343--51952385 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
51952333 AATATAAAAA
51952343 ATATACATTTAATTGATATTTT
1 ATATACATTTAATT-A-ATTTT
**
51952365 ATATATTTTTAATTAATTTT
1 ATATACATTTAATTAATTTT
51952385 A
1 A
51952386 AATTTTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 6 0.32
21 1 0.05
22 12 0.63
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
ATATACATTTAATTAATTTT
Found at i:51952805 original size:31 final size:31
Alignment explanation
Indices: 51952762--51952836 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
51952752 GAATGGGGCC
*
51952762 TTTTTATTTAAGT-ATTTGAACTATTCAAAAG
1 TTTTTATTTAAGTCA-CTGAACTATTCAAAAG
* *
51952793 TTTTTATCTAAGTCACTGAACTATTCGAAAG
1 TTTTTATTTAAGTCACTGAACTATTCAAAAG
51952824 TTTTTATTTAAGT
1 TTTTTATTTAAGT
51952837 TATTGGGTTG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
31 38 0.97
32 1 0.03
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (31 bp):
TTTTTATTTAAGTCACTGAACTATTCAAAAG
Found at i:51955782 original size:12 final size:11
Alignment explanation
Indices: 51955763--51955793 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
51955753 TGTATAAAAT
51955763 TTATTTTATTA
1 TTATTTTATTA
51955774 TTAATTTTATTA
1 TT-ATTTTATTA
51955786 TTATTTTA
1 TTATTTTA
51955794 AAGGCATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:51955809 original size:30 final size:30
Alignment explanation
Indices: 51955775--51955835 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
51955765 ATTTTATTAT
51955775 TAATTTTATTATTATTTTAAAGGCATTTGC
1 TAATTTTATTATTATTTTAAAGGCATTTGC
* * *
51955805 TAATTTTGTTATTTTTTTAGAGGCATTTGC
1 TAATTTTATTATTATTTTAAAGGCATTTGC
51955835 T
1 T
51955836 TGTTAAGTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.25, C:0.07, G:0.13, T:0.56
Consensus pattern (30 bp):
TAATTTTATTATTATTTTAAAGGCATTTGC
Found at i:51958426 original size:16 final size:16
Alignment explanation
Indices: 51958405--51958440 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
51958395 TTTTAAACAC
*
51958405 ATTTAAAGAACAAATA
1 ATTTAAAGAAAAAATA
51958421 ATTTAAAGAAAAAATA
1 ATTTAAAGAAAAAATA
51958437 ATTT
1 ATTT
51958441 GCTTTCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.06, T:0.31
Consensus pattern (16 bp):
ATTTAAAGAAAAAATA
Found at i:51959434 original size:28 final size:29
Alignment explanation
Indices: 51959385--51959439 Score: 67
Period size: 28 Copynumber: 1.9 Consensus size: 29
51959375 TCGTTTTTTT
* * *
51959385 ATTATTTAATTTTTTTATATAAATTTAAA
1 ATTATTTAATTATGTTAAATAAATTTAAA
*
51959414 ATTA-TTAATTATGTTAAATAATTTTA
1 ATTATTTAATTATGTTAAATAAATTTA
51959440 TGATAATACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 18 0.82
29 4 0.18
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
ATTATTTAATTATGTTAAATAAATTTAAA
Found at i:51968217 original size:132 final size:131
Alignment explanation
Indices: 51967980--51968247 Score: 425
Period size: 132 Copynumber: 2.0 Consensus size: 131
51967970 TCAGATCATA
*
51967980 GTTTCTGCTTTTGATTTTATAACTATAAGTTAAATGAAGCTTTCGATGGTTTATTTTATCGTAGT
1 GTTTCTGCTTTTGATTTTATAACTATAAGTTAAATAAAGCTTTCGATGGTTTATTTTATCGTAGT
*
51968045 TTTATATTTCTATATTTTCATGATTCTACAAATGTTTATTAATGGAAGCCAACCAGTATAATTTA
66 ATTATATTTC-ATATTTTCATGATTCTACAAATGTTTATTAATGGAAGCCAACCAGTATAATTTA
51968110 CT
130 CT
*
51968112 GTTTCTGCTTTTGATTTTAATAACTATATGTTAAATAAAGCTTTC-AGTGGTTTATTTTATCGTG
1 GTTTCTGCTTTTGATTTT-ATAACTATAAGTTAAATAAAGCTTTCGA-TGGTTTATTTTATC--G
**
51968176 TAGTATTATATTTC-TA-TTTCATGATTCTACAAATGTTTATTAATGGAAGCTGACCAGTATAAT
62 TAGTATTATATTTCATATTTTCATGATTCTACAAATGTTTATTAATGGAAGCCAACCAGTATAAT
51968239 TTACT
127 TTACT
51968244 GTTT
1 GTTT
51968248 TAATACTCTT
Statistics
Matches: 127, Mismatches: 5, Indels: 8
0.91 0.04 0.06
Matches are distributed among these distances:
132 73 0.57
133 40 0.31
135 14 0.11
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.47
Consensus pattern (131 bp):
GTTTCTGCTTTTGATTTTATAACTATAAGTTAAATAAAGCTTTCGATGGTTTATTTTATCGTAGT
ATTATATTTCATATTTTCATGATTCTACAAATGTTTATTAATGGAAGCCAACCAGTATAATTTAC
T
Found at i:51971033 original size:39 final size:40
Alignment explanation
Indices: 51970949--51971033 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
51970939 GAAGTTTACA
*
51970949 TTCTGGTATGCAGATTTTGCCTTTACACATTAGGACATAT
1 TTCTAGTATGCAGATTTTGCCTTTACACATTAGGACATAT
51970989 TTCTAGTATGCAGATTTTGCCTTTACACA-TAGGACATAT
1 TTCTAGTATGCAGATTTTGCCTTTACACATTAGGACATAT
51971028 TTCTAG
1 TTCTAG
51971034 CATATACCTA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 16 0.36
40 28 0.64
ACGTcount: A:0.26, C:0.18, G:0.16, T:0.40
Consensus pattern (40 bp):
TTCTAGTATGCAGATTTTGCCTTTACACATTAGGACATAT
Found at i:51974672 original size:3 final size:3
Alignment explanation
Indices: 51974664--51974721 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
51974654 GATCATTCAC
51974664 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
51974712 TCT TCT TCT T
1 TCT TCT TCT T
51974722 TTGTTTATAA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TCT
Found at i:51991911 original size:13 final size:13
Alignment explanation
Indices: 51991887--51991923 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
51991877 TAATTATGTC
51991887 AAAATT-TAAATA
1 AAAATTATAAATA
51991899 AAAATTATAAATA
1 AAAATTATAAATA
51991912 AAAATTATAAAT
1 AAAATTATAAAT
51991924 TATTAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 6 0.25
13 18 0.75
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAATTATAAATA
Found at i:51995819 original size:15 final size:15
Alignment explanation
Indices: 51995790--51995833 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
51995780 TGTCCAAAAA
*
51995790 TATTTAATTTTTATT
1 TATTTAATTTATATT
*
51995805 TATTTAATTGATATT
1 TATTTAATTTATATT
*
51995820 T-TTAAATTTATATT
1 TATTTAATTTATATT
51995834 CCGTTTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 11 0.44
15 14 0.56
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TATTTAATTTATATT
Found at i:52002475 original size:3 final size:3
Alignment explanation
Indices: 52002467--52002493 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
52002457 GTGGAATGGA
52002467 GAG GAG GAG GAG GAG GAG GAG GAG GAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG
52002494 AATTGGGAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
GAG
Found at i:52002828 original size:46 final size:45
Alignment explanation
Indices: 52002761--52002958 Score: 229
Period size: 46 Copynumber: 4.6 Consensus size: 45
52002751 TTTGAGTACT
*
52002761 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
52002807 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
52002843 TATGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAG-CTTAGCTACACTTA
* *
52002889 TCTGATCAAGTGAGAAAGTGATAAGTGGTAGCCTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* *
52002934 TCTGATC-AG-GGACAAGTGATAAGTG
1 TCTGATCAAGTGAAAAAGTGATAAGTG
52002959 ATCATATGTA
Statistics
Matches: 131, Mismatches: 11, Indels: 23
0.79 0.07 0.14
Matches are distributed among these distances:
36 27 0.21
38 1 0.01
39 1 0.01
40 3 0.02
41 1 0.01
42 4 0.03
43 15 0.11
44 3 0.02
45 20 0.15
46 56 0.43
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:52002843 original size:36 final size:36
Alignment explanation
Indices: 52002797--52002869 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
52002787 GGTAGCTTTA
*
52002797 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATATGATCAAGTGAAAAAGTGATAAGT
* *
52002833 GCTATACTTATATGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATATGATCAAGTGAAAAAGTGATAAGT
52002869 G
1 G
52002870 TTAGCCTTAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (36 bp):
GCTACACTTATATGATCAAGTGAAAAAGTGATAAGT
Found at i:52002857 original size:82 final size:82
Alignment explanation
Indices: 52002763--52002915 Score: 279
Period size: 82 Copynumber: 1.9 Consensus size: 82
52002753 TGAGTACTTC
*
52002763 TGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
52002828 TAAGTGCTATACTTATA
66 TAAGTGCTATACTTATA
* *
52002845 TGATCAAGTGACAAAGTGATAAGTGTTAGCCTTAGCTACACTTATCTGATCAAGTGAGAAAGTGA
1 TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
52002910 TAAGTG
66 TAAGTG
52002916 GTAGCCTAGC
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
82 68 1.00
ACGTcount: A:0.36, C:0.12, G:0.22, T:0.29
Consensus pattern (82 bp):
TGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAAAAAGTGA
TAAGTGCTATACTTATA
Found at i:52009129 original size:16 final size:16
Alignment explanation
Indices: 52009108--52009138 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
52009098 GTCTAAATTT
*
52009108 TCACCAACATACAATG
1 TCACCAACACACAATG
52009124 TCACCAACACACAAT
1 TCACCAACACACAAT
52009139 TGTTGCTGCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.35, G:0.03, T:0.16
Consensus pattern (16 bp):
TCACCAACACACAATG
Found at i:52012990 original size:24 final size:24
Alignment explanation
Indices: 52012963--52013024 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
52012953 TTCCTTTGTT
52012963 TTTTTTTTCTCTTGA-TTTTAATGA
1 TTTTTTTTCT-TTGATTTTTAATGA
** *
52012987 TTTTTTAGCTTTGATTTTTGATGA
1 TTTTTTTTCTTTGATTTTTAATGA
*
52013011 TTTCTTTTGCTTTG
1 TTT-TTTTTCTTTG
52013025 GGGTTTAGAG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 4 0.12
24 19 0.59
25 9 0.28
ACGTcount: A:0.13, C:0.08, G:0.13, T:0.66
Consensus pattern (24 bp):
TTTTTTTTCTTTGATTTTTAATGA
Found at i:52025407 original size:29 final size:29
Alignment explanation
Indices: 52025360--52025415 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
52025350 TATGATTTTT
* *
52025360 TTTAATAATACATGTACTAAATTGATCCA
1 TTTAATAATACAAGGACTAAATTGATCCA
*
52025389 TTTAATAATACAAGGACTAATTTGATC
1 TTTAATAATACAAGGACTAAATTGATC
52025416 AGGTCCTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.41, C:0.12, G:0.09, T:0.38
Consensus pattern (29 bp):
TTTAATAATACAAGGACTAAATTGATCCA
Found at i:52027334 original size:171 final size:170
Alignment explanation
Indices: 52026988--52027382 Score: 449
Period size: 171 Copynumber: 2.3 Consensus size: 170
52026978 TTTCTGCTGG
* * *
52026988 TACTTTTTACAAACACATTGACTACATTCCATTTTTGTATCTAATTCAAAATAACAACCTAAACA
1 TACTTTTTACAAACACATTGACTACATTGCATATTTGCA-CTAATTCAAAATAACAACCTAAACA
* * *
52027053 AAAGACTGACGGGTTCTTCACATACATCCAAGAGATAAAATTCATGAAACGGGCATGACAAAAAT
65 AAAGACTGAAGGGTTCTTAACATACATCCAAGAGATAAAATTCATAAAACGGGCATGACAAAAAT
* * * *
52027118 TGAGATTTTACACGTAAAATAATAGAACCACTGTCTGTTAA
130 TGACATTTTACACGTAAAATAAGAGAACCACTGTCCGTCAA
* * * *
52027159 TACTTTTAACAAACACATTGACTACATTGCATATCTGCACATAATTCAAAATAACGAGCTAAACA
1 TACTTTTTACAAACACATTGACTACATTGCATATTTGCAC-TAATTCAAAATAACAACCTAAACA
* * * * * *
52027224 AATA-ACT-AAGGGCTTCTTAACATACATTCAAGAGATCAAATTCATAAAATGGGTATTAGAGAA
65 AA-AGACTGAAGGG-TTCTTAACATACATCCAAGAGATAAAATTCATAAAACGGGCATGACA-AA
** * *
52027287 AA-TGACATTTTATGCGT-AAATGCAGAGCAA-CACTTTCCGTCAA
127 AATTGACATTTTACACGTAAAAT-AAGAG-AACCACTGTCCGTCAA
52027330 TACTTTTTTACAAACACATTGACTACATTGCATATTTGCACCTAATTCTAAAA
1 TAC-TTTTTACAAACACATTGACTACATTGCATATTTGCA-CTAATTC-AAAA
52027383 CAAATAACTA
Statistics
Matches: 189, Mismatches: 26, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
170 9 0.05
171 128 0.68
172 47 0.25
173 5 0.03
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (170 bp):
TACTTTTTACAAACACATTGACTACATTGCATATTTGCACTAATTCAAAATAACAACCTAAACAA
AAGACTGAAGGGTTCTTAACATACATCCAAGAGATAAAATTCATAAAACGGGCATGACAAAAATT
GACATTTTACACGTAAAATAAGAGAACCACTGTCCGTCAA
Found at i:52033760 original size:23 final size:22
Alignment explanation
Indices: 52033709--52033760 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
52033699 CCTCGTCTTT
*
52033709 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
52033731 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
52033754 TTCTTTT
1 TTCTTTT
52033761 TCAATTTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:52040573 original size:52 final size:52
Alignment explanation
Indices: 52040497--52040695 Score: 239
Period size: 52 Copynumber: 3.9 Consensus size: 52
52040487 CCATGGCAAC
* *
52040497 ATGTGAAATGTGATTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
*
52040550 ATGTGATTTGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * * *
52040602 ATGTGATATGTGCTACTGTATAAGACCATATCTGGGATATGGCATC--AG--
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
* * * *
52040650 -TGTGATATGTG-ATCCGTATAAGACCATGGCCGGGCTATGGCCTCGG
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGG
52040696 TATGTGATAT
Statistics
Matches: 127, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
46 25 0.20
47 11 0.09
50 2 0.02
52 79 0.62
53 10 0.08
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCTTCGGAGAA
Found at i:52042677 original size:2 final size:2
Alignment explanation
Indices: 52042670--52042726 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
52042660 CTTTAACATT
52042670 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
52042712 TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC T
52042727 AATCAATCAC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:52048530 original size:31 final size:31
Alignment explanation
Indices: 52048495--52048566 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
52048485 TTTGATGAAT
52048495 TTTGACTTAAGCAACTAATTATCTGATTTAA
1 TTTGACTTAAGCAACTAATTATCTGATTTAA
* *
52048526 TTTGACTTAAGTAACTAATTATTTGATTTAA
1 TTTGACTTAAGCAACTAATTATCTGATTTAA
52048557 TTTGACTTAA
1 TTTGACTTAA
52048567 TTATTCACTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (31 bp):
TTTGACTTAAGCAACTAATTATCTGATTTAA
Found at i:52058276 original size:22 final size:22
Alignment explanation
Indices: 52058250--52058350 Score: 75
Period size: 22 Copynumber: 4.4 Consensus size: 22
52058240 AGATTAATTA
52058250 TTTAATTTAAAATATTTTAAAG
1 TTTAATTTAAAATATTTTAAAG
*
52058272 TTTAATATAAAATTTAGTATTT-AA-
1 TTTAATTTAAAA--TA-T-TTTAAAG
* *
52058296 -TTAATATAATAATGAATTTTAAAAA
1 TTTAATTTAA-AAT--ATTTT-AAAG
52058321 TTTAA-TTAAAATATTTTAAAG
1 TTTAATTTAAAATATTTTAAAG
52058342 TTTAATTTA
1 TTTAATTTA
52058351 GACCAAGGGC
Statistics
Matches: 64, Mismatches: 3, Indels: 24
0.70 0.03 0.26
Matches are distributed among these distances:
21 8 0.12
22 23 0.36
23 10 0.16
24 10 0.16
25 6 0.09
26 7 0.11
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.49
Consensus pattern (22 bp):
TTTAATTTAAAATATTTTAAAG
Found at i:52061391 original size:30 final size:30
Alignment explanation
Indices: 52061357--52061420 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 30
52061347 TTTGGACTTG
** *
52061357 TTGATTCTTTTTAATAGTACAGGGACTAAA
1 TTGATTCCATTTAATAATACAGGGACTAAA
* *
52061387 TTGA-TCCATTTAATAATAGAGGGACTAAT
1 TTGATTCCATTTAATAATACAGGGACTAAA
52061416 TTGAT
1 TTGAT
52061421 CCAGTCACTA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
29 24 0.86
30 4 0.14
ACGTcount: A:0.34, C:0.09, G:0.17, T:0.39
Consensus pattern (30 bp):
TTGATTCCATTTAATAATACAGGGACTAAA
Found at i:52061398 original size:29 final size:29
Alignment explanation
Indices: 52061366--52061441 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
52061356 GTTGATTCTT
*
52061366 TTTAATAGTACAGGGACTAAATTGATCCA
1 TTTAATAATACAGGGACTAAATTGATCCA
* *
52061395 TTTAATAATAGAGGGACTAATTTGATCCA
1 TTTAATAATACAGGGACTAAATTGATCCA
* *
52061424 GTCACTATAATACAGGGA
1 TTTA--ATAATACAGGGA
52061442 TTTCCCAGAT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 28 0.72
31 11 0.28
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (29 bp):
TTTAATAATACAGGGACTAAATTGATCCA
Found at i:52071872 original size:24 final size:26
Alignment explanation
Indices: 52071835--52071882 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
52071825 AAATAGGTCA
52071835 TTTTGTTAAAAAATT-CTCCATTTTT
1 TTTTGTTAAAAAATTGCTCCATTTTT
*
52071860 TTTTGTT-AAAAATTGGTCCATTT
1 TTTTGTTAAAAAATTGCTCCATTT
52071883 ACTTCAGCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.27, C:0.10, G:0.08, T:0.54
Consensus pattern (26 bp):
TTTTGTTAAAAAATTGCTCCATTTTT
Found at i:52079387 original size:11 final size:11
Alignment explanation
Indices: 52079373--52079427 Score: 51
Period size: 11 Copynumber: 5.0 Consensus size: 11
52079363 TAAAAAAATC
52079373 AAAATTATTAA
1 AAAATTATTAA
*
52079384 AAAAGTA-T-A
1 AAAATTATTAA
*
52079393 AAAATTATAAA
1 AAAATTATTAA
*
52079404 AAATATTTTTAA
1 AAA-ATTATTAA
52079416 AAAATTAATTAA
1 AAAATT-ATTAA
52079428 TTGCTAATGT
Statistics
Matches: 34, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
9 7 0.21
10 1 0.03
11 13 0.38
12 13 0.38
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (11 bp):
AAAATTATTAA
Found at i:52079395 original size:26 final size:25
Alignment explanation
Indices: 52079349--52079397 Score: 71
Period size: 26 Copynumber: 1.9 Consensus size: 25
52079339 ATAATCTTTT
52079349 AAATTTTAAAAAAATAAAAAAATCA
1 AAATTTTAAAAAAATAAAAAAATCA
* *
52079374 AAATTATTAAAAAAGTATAAAAAT
1 AAATT-TTAAAAAAATAAAAAAAT
52079398 TATAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (25 bp):
AAATTTTAAAAAAATAAAAAAATCA
Found at i:52079842 original size:28 final size:26
Alignment explanation
Indices: 52079767--52079843 Score: 75
Period size: 28 Copynumber: 2.8 Consensus size: 26
52079757 TATTTTTAAA
* *
52079767 TTTT-AAATTTTAATAATTTGTACAT
1 TTTTAAAATTTTAATTATTTATACAT
* *
52079792 TTTTAAAATTTAAAATTATTTTATATAT
1 TTTTAAAATTT-TAATTA-TTTATACAT
52079820 TTTTACAAATTTTAATGTATTTAT
1 TTTTA-AAATTTTAAT-TATTTAT
52079844 TTTTATAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
25 4 0.10
26 6 0.14
27 4 0.10
28 20 0.48
29 8 0.19
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.57
Consensus pattern (26 bp):
TTTTAAAATTTTAATTATTTATACAT
Found at i:52083848 original size:31 final size:31
Alignment explanation
Indices: 52083813--52083875 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
52083803 AAAAATTGTT
52083813 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
** *
52083844 ATTGAACTATTTGAAAGTTTTTATTTAAGTC
1 ATTGAACTATTCAAAAGTTTTCATTTAAGTC
52083875 A
1 A
52083876 CCGGGCCGTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.35, C:0.10, G:0.11, T:0.44
Consensus pattern (31 bp):
ATTGAACTATTCAAAAGTTTTCATTTAAGTC
Found at i:52088030 original size:24 final size:23
Alignment explanation
Indices: 52087978--52088033 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
52087968 GCCCGGCCCG
*
52087978 ATTTTTAATAAACACAAAAAAAAT
1 ATTTTTAA-AAACAAAAAAAAAAT
*
52088002 A-TTTTAAAAATAAAAATAAAAAT
1 ATTTTTAAAAACAAAAA-AAAAAT
52088025 ATTTTTAAA
1 ATTTTTAAA
52088034 GTATTTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 7 0.25
23 13 0.46
24 8 0.29
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (23 bp):
ATTTTTAAAAACAAAAAAAAAAT
Found at i:52095079 original size:30 final size:27
Alignment explanation
Indices: 52095018--52095081 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 27
52095008 AAAAGTATTC
* *
52095018 AAAAAATAAAAAAAATTCAAAATTCAA
1 AAAAAATAAAAAAAAATAAAAATTCAA
52095045 AAAAAATAAAAATAAAAATAAAAAGTTCATA
1 AAAAAAT-AAAA-AAAAATAAAAA-TTCA-A
52095076 AAAAAA
1 AAAAAA
52095082 GCATGAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 7 0.23
28 4 0.13
29 9 0.29
30 4 0.13
31 7 0.23
ACGTcount: A:0.77, C:0.05, G:0.02, T:0.17
Consensus pattern (27 bp):
AAAAAATAAAAAAAAATAAAAATTCAA
Found at i:52097533 original size:2 final size:2
Alignment explanation
Indices: 52097526--52097558 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
52097516 CACACGCCCT
52097526 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
52097559 TTGTTTCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:52098536 original size:234 final size:236
Alignment explanation
Indices: 52098126--52098575 Score: 661
Period size: 234 Copynumber: 1.9 Consensus size: 236
52098116 CAAGATATTA
*
52098126 AAAAAGGTTAAATTACTAAAGAAGCCCTTAAACTAGTTTTTTTAAAAAATAAGCCTCTAAACTTT
1 AAAAAGGTCAAATTACTAAAGAAGCCCTTAAACTAGTTTTTTTAAAAAATAAGCCTCTAAACTTT
* * *
52098191 TGTTGCAACTCAAATAAACCCTTATGTTTTGATTTGTATTTAAATTAGCTCTTAAATAATGATTT
66 TGTTGCAACTCAAATAAACCCGTATATTTTGATTTGTATTTAAATTAGCCCTTAAATAATGATTT
*
52098256 ATATTAAGAATTTTATTTAAGTTTAAACTAAAGGATAGAGGCTTATTTAGATACAAGTT-AAAGA
131 ATATTAAGAATTTTATTTAAGTATAAACTAAAGGATAGAGGCTTATTTAGATACAAGTTAAAAGA
52098320 TTAAGAGCTTATTTGGTTTTTAAGGGTTTATACAAATCATT
196 TTAAGAGCTTATTTGGTTTTTAAGGGTTTATACAAATCATT
* * *
52098361 AAAAAGGTCAAATTACTACAGAAGCCCTTAAACTAGTTTTTTT-AAAAATATGCTTCTAAACTTT
1 AAAAAGGTCAAATTACTAAAGAAGCCCTTAAACTAGTTTTTTTAAAAAATAAGCCTCTAAACTTT
* * * *
52098425 TTTTGTAACTCAAATAAACCCGTATATTTTGTTTTGTTTTTAAATTAGCCCTTAAATAATGATTT
66 TGTTGCAACTCAAATAAACCCGTATATTTTGATTTGTATTTAAATTAGCCCTTAAATAATGATTT
* * ** ** * * *
52098490 ATATTGAGAATTTTATTTAGGTATAAGTTGCAGTATAGATGCTTATTTGGATACAAGTTAAAAAA
131 ATATTAAGAATTTTATTTAAGTATAAACTAAAGGATAGAGGCTTATTTAGATACAAGTT---AAA
*
52098555 AGATTAAGAGCTTCTTTGGTT
193 AGATTAAGAGCTTATTTGGTT
52098576 ACCAATTAAA
Statistics
Matches: 189, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
234 126 0.67
235 41 0.22
238 22 0.12
ACGTcount: A:0.37, C:0.10, G:0.13, T:0.40
Consensus pattern (236 bp):
AAAAAGGTCAAATTACTAAAGAAGCCCTTAAACTAGTTTTTTTAAAAAATAAGCCTCTAAACTTT
TGTTGCAACTCAAATAAACCCGTATATTTTGATTTGTATTTAAATTAGCCCTTAAATAATGATTT
ATATTAAGAATTTTATTTAAGTATAAACTAAAGGATAGAGGCTTATTTAGATACAAGTTAAAAGA
TTAAGAGCTTATTTGGTTTTTAAGGGTTTATACAAATCATT
Found at i:52100492 original size:16 final size:17
Alignment explanation
Indices: 52100454--52100494 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
52100444 TGCCCAACAC
*
52100454 TAATTTT-TTTTCTTTT
1 TAATTTTATTTTCTATT
52100470 TAA-TTTATTTT-TATT
1 TAATTTTATTTTCTATT
52100485 TAATTTTATT
1 TAATTTTATT
52100495 GCTAAATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (17 bp):
TAATTTTATTTTCTATT
Found at i:52110373 original size:16 final size:15
Alignment explanation
Indices: 52110348--52110378 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
52110338 GAATTTTTTT
52110348 ATTTAATTAATTTAA
1 ATTTAATTAATTTAA
52110363 ATTTAAATTAATTTAA
1 ATTT-AATTAATTTAA
52110379 CCATAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
ATTTAATTAATTTAA
Found at i:52110463 original size:16 final size:16
Alignment explanation
Indices: 52110444--52110485 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
52110434 AAATTAAATA
52110444 AAATTTAAAATAATCC
1 AAATTTAAAATAATCC
* *
52110460 AAATTTATAATAATTC
1 AAATTTAAAATAATCC
*
52110476 GAATTTAAAA
1 AAATTTAAAA
52110486 ATTAAATTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (16 bp):
AAATTTAAAATAATCC
Found at i:52110591 original size:3 final size:3
Alignment explanation
Indices: 52110583--52110620 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
52110573 GACAAATACA
52110583 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
52110621 GTTAATTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:52116726 original size:33 final size:34
Alignment explanation
Indices: 52116631--52116727 Score: 87
Period size: 33 Copynumber: 2.9 Consensus size: 34
52116621 TTAATATTTT
*
52116631 AATATATGAAATATAAATTTTAAATATTT-TTAAGC
1 AATATAT-AAAT-TATATTTTAAATATTTATTAAGC
* *
52116666 AATAAATATTAATTAT-TTATAAA-ATTTAATT-AG-
1 AAT--ATATAAATTATATTTTAAATATTT-ATTAAGC
52116699 AATATATAAATTATATTTTAAATATTTAT
1 AATATATAAATTATATTTTAAATATTTAT
52116728 ATATAACCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 15
0.72 0.07 0.21
Matches are distributed among these distances:
31 10 0.20
32 8 0.16
33 11 0.22
34 8 0.16
35 7 0.14
36 3 0.06
37 4 0.08
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (34 bp):
AATATATAAATTATATTTTAAATATTTATTAAGC
Found at i:52122335 original size:14 final size:15
Alignment explanation
Indices: 52122313--52122345 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
52122303 GTTTTAGTTG
*
52122313 AAATGTTAAAA-TTA
1 AAATATTAAAATTTA
52122327 AAATATTAAAATTTA
1 AAATATTAAAATTTA
52122342 AAAT
1 AAAT
52122346 GACAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (15 bp):
AAATATTAAAATTTA
Found at i:52123576 original size:23 final size:25
Alignment explanation
Indices: 52123542--52123608 Score: 102
Period size: 23 Copynumber: 2.7 Consensus size: 25
52123532 TTTGCCCTCA
*
52123542 TCTCTGCCCTCTGCCGGTTCTTTGT
1 TCTCTGCCCTCTGCCGGTCCTTTGT
52123567 T-T-TGCCCTCTGCCGGTCCTTTGT
1 TCTCTGCCCTCTGCCGGTCCTTTGT
52123590 TCCTCTGCCCTCTGCCGGT
1 T-CTCTGCCCTCTGCCGGT
52123609 GAGTTTATCT
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
23 21 0.55
24 1 0.03
25 2 0.05
26 14 0.37
ACGTcount: A:0.00, C:0.39, G:0.21, T:0.40
Consensus pattern (25 bp):
TCTCTGCCCTCTGCCGGTCCTTTGT
Found at i:52128344 original size:93 final size:93
Alignment explanation
Indices: 52128210--52128391 Score: 240
Period size: 93 Copynumber: 2.0 Consensus size: 93
52128200 TTCTGCCTAT
* * * *
52128210 GAGGTTTCCCATAAGAAATCAATTCTCCACTCTCGATTTTAACTTCTAGGGATTCAAAATCTTGT
1 GAGGTTTCCCATAAGAAATCAATCCTCCACTCTCGACTTTAACTTCTAGGGATTCAAAATATTGC
* *
52128275 GAAGACTTTTTCCTAATTTTCTCCACAC
66 GAAGACTTTTCCCTAAATTTCTCCACAC
* * * * * *
52128303 GAGGTTTCTCATCAGAAATCAACTCCT-CATTCTTGACTTTAATTTCTAGGGATTCAGAATATTG
1 GAGGTTTCCCATAAGAAATCAA-TCCTCCACTCTCGACTTTAACTTCTAGGGATTCAAAATATTG
52128367 CGAAGACTTTTCCCTAAATTTCTCC
65 CGAAGACTTTTCCCTAAATTTCTCC
52128392 CTCTTAATTT
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
93 73 0.96
94 3 0.04
ACGTcount: A:0.27, C:0.23, G:0.13, T:0.37
Consensus pattern (93 bp):
GAGGTTTCCCATAAGAAATCAATCCTCCACTCTCGACTTTAACTTCTAGGGATTCAAAATATTGC
GAAGACTTTTCCCTAAATTTCTCCACAC
Found at i:52137005 original size:8 final size:8
Alignment explanation
Indices: 52136992--52137016 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
52136982 TACATGTACA
52136992 TATATATT
1 TATATATT
52137000 TATATATT
1 TATATATT
52137008 TATATATT
1 TATATATT
52137016 T
1 T
52137017 TTTCTAACAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (8 bp):
TATATATT
Found at i:52139687 original size:14 final size:15
Alignment explanation
Indices: 52139668--52139700 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
52139658 GTTTTAGTTG
52139668 AAATATTAAAA-TTA
1 AAATATTAAAATTTA
52139682 AAATATTAAAATTTA
1 AAATATTAAAATTTA
52139697 AAAT
1 AAAT
52139701 GACAAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATATTAAAATTTA
Found at i:52140385 original size:19 final size:19
Alignment explanation
Indices: 52140353--52140390 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
52140343 AATTTTTTAA
52140353 AATTATTTTATAATGATTT
1 AATTATTTTATAATGATTT
*
52140372 AATTGATTTT-TAATTATTT
1 AATT-ATTTTATAATGATTT
52140391 TACGAAGGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
AATTATTTTATAATGATTT
Found at i:52149083 original size:15 final size:16
Alignment explanation
Indices: 52149051--52149083 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
52149041 CCACAATGAG
*
52149051 TTTTTTTTTTTAATAA
1 TTTTATTTTTTAATAA
52149067 TTTTATTTTTTAA-AA
1 TTTTATTTTTTAATAA
52149082 TT
1 TT
52149084 GTAATAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 4 0.25
16 12 0.75
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (16 bp):
TTTTATTTTTTAATAA
Found at i:52161466 original size:9 final size:9
Alignment explanation
Indices: 52161452--52161483 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
52161442 TTTTGGTTAA
52161452 GAATTAACC
1 GAATTAACC
*
52161461 GAATTACCC
1 GAATTAACC
52161470 GAATTAACC
1 GAATTAACC
52161479 GAATT
1 GAATT
52161484 GAATCACTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.25
Consensus pattern (9 bp):
GAATTAACC
Found at i:52163973 original size:24 final size:25
Alignment explanation
Indices: 52163933--52163989 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
52163923 ACATAGGTAA
52163933 ATTA-AATAATTTTTAAAT-TAAAT
1 ATTATAATAATTTTTAAATGTAAAT
*
52163956 ATTATAATTATTTTTAAATGTAAAT
1 ATTATAATAATTTTTAAATGTAAAT
52163981 -TTAGTAATA
1 ATTA-TAATA
52163990 CGAGTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
23 4 0.14
24 16 0.55
25 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (25 bp):
ATTATAATAATTTTTAAATGTAAAT
Found at i:52167971 original size:274 final size:276
Alignment explanation
Indices: 52167497--52168011 Score: 757
Period size: 274 Copynumber: 1.9 Consensus size: 276
52167487 ATGATTTATT
* * ** *
52167497 TATTTTAAACAAATCAGTTTAATATAATGCCATTGGGGAAAATAATTAAATGATTTATTTGTTTG
1 TATTTTAAACAAATCAGTTTAATATAATACCACTGCAGAAAATAATTAAATGA--TATTTGTTTA
* * *
52167562 TTTCTATTTTAGGTACGACAACAGATTCGGAGGAAAAACGTAATGAAGAATCGAAAGGTAAAAAC
64 TTTCTATTTTAGGTACGACAACAGATTCGGAGAAAAAACGTAATGAAGAACCAAAAGGTAAAAAC
* * *
52167627 TCTAATCTATATGTCTAAAAAATAAATTATTTTAGCCGAATTTACATTGTTAAAAATTTGAATTA
129 TCTAATCTACACGTCTAAAAAATAAATTATTTTAGCCGAATATACATTGTTAAAAATTTGAATTA
*
52167692 AAATTCTCATATCATATTACATATTAAATAAAAAATAAAAATTGTTTAACCAGGTGAAGATGAAA
194 AAATTCTCATATCATATTACATATTAAATAAAAAAGAAAAA-TGTTTAACCAGGTGAAGATGAAA
52167757 TTATTTATAAAAAAAAACA
258 TTATTTATAAAAAAAAACA
* * *
52167776 TATTTTAGACAAATCAGTTTAATATGATATCACTGCAGAAAATAATTAAAT-A-ATTT-TTTATT
1 TATTTTAAACAAATCAGTTTAATATAATACCACTGCAGAAAATAATTAAATGATATTTGTTTATT
* * * * * * *
52167838 TTTATTTTAGGTATGACTACAGGTTTGGAGAAAAAACGTAATGAAGAACCAAAAGGTAAATACTT
66 TCTATTTTAGGTACGACAACAGATTCGGAGAAAAAACGTAATGAAGAACCAAAAGGTAAAAACTC
52167903 TAATCTACACGTCTAAAAAATAAATTATTTTAGCCGAATATACATTGTTAAAAATTTGAATTAAA
131 TAATCTACACGTCTAAAAAATAAATTATTTTAGCCGAATATACATTGTTAAAAATTTGAATTAAA
* * *
52167968 ATTCTGATATCATATTGCATATTAAATCAAAAAGAAAAATGTTT
196 ATTCTCATATCATATTACATATTAAATAAAAAAGAAAAATGTTT
52168012 TAAATCAAAA
Statistics
Matches: 211, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
273 5 0.02
274 157 0.74
275 4 0.02
278 1 0.00
279 44 0.21
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (276 bp):
TATTTTAAACAAATCAGTTTAATATAATACCACTGCAGAAAATAATTAAATGATATTTGTTTATT
TCTATTTTAGGTACGACAACAGATTCGGAGAAAAAACGTAATGAAGAACCAAAAGGTAAAAACTC
TAATCTACACGTCTAAAAAATAAATTATTTTAGCCGAATATACATTGTTAAAAATTTGAATTAAA
ATTCTCATATCATATTACATATTAAATAAAAAAGAAAAATGTTTAACCAGGTGAAGATGAAATTA
TTTATAAAAAAAAACA
Found at i:52168665 original size:155 final size:155
Alignment explanation
Indices: 52168058--52168675 Score: 744
Period size: 155 Copynumber: 4.0 Consensus size: 155
52168048 ATGGTATCAC
* * ** * *
52168058 TAGAGAAAATAATTGAATGATTTATTTATTTATTTATCCATTTTTATTTCAGACAAGACTACAGG
1 TAGAGAAAATAATTGAATGATTTATTTATTTATTCATCCGTTTTTATTTCAGGTACGACTACAAG
* * ** * * *
52168123 TTCGGAAGAAAAATGTAATGAGGAACCGAAAGGTAAAGACCTTAATCTACAAGTATAAAAAATAA
66 TTCGGAAGAAAAACGTAATGAAGAACTAAAAGGTAAAGACCTTAATCTACACGTCTAAAGAATAA
*
52168188 TTTATTTTAGCC-AATTTTACATTGT
131 ATTATTTTAGCCGAA-TTTACATTGT
* * * *
52168213 TAGAGAAAATAATTGAATGATTTATTTA---GTT-GTCCGTTTTTATTTTAGGTACAACTACAAG
1 TAGAGAAAATAATTGAATGATTTATTTATTTATTCATCCGTTTTTATTTCAGGTACGACTACAAG
* * * * * * * *
52168274 TTCGGAAGGAAAACGCAACGAAGAACAAAAAGGTAAAGAACTTAATCTACATGTCCAATA-ATTA
66 TTCGGAAGAAAAACGTAATGAAGAACTAAAAGGTAAAGACCTTAATCTACACGTCTAA-AGAATA
*
52168338 AATTATTTTAGCCAAATTTACATTGT
130 AATTATTTTAGCCGAATTTACATTGT
* * * * *
52168364 TAGAGAAAATAATTGAATGATTTACTTATTTATTTATCCGTTTTTATTTTAGGTACGACTATAGG
1 TAGAGAAAATAATTGAATGATTTATTTATTTATTCATCCGTTTTTATTTCAGGTACGACTACAAG
* * * * *
52168429 TTCGGAAGAAAAACGTAATCAAGAACTAAAAGGTAAAGGCTTTAATCTACACATCTAAAGAATAC
66 TTCGGAAGAAAAACGTAATGAAGAACTAAAAGGTAAAGACCTTAATCTACACGTCTAAAGAATAA
52168494 ATTATTTTAGCCGAATTTACATTGT
131 ATTATTTTAGCCGAATTTACATTGT
* * * *
52168519 TAGAGAAAATATTTGAATGATTTATTTATTTATCCATTCGTTTTTATTTCAGGTATGACTACAAG
1 TAGAGAAAATAATTGAATGATTTATTTATTTATTCATCCGTTTTTATTTCAGGTACGACTACAAG
* * * *
52168584 TTCGGAAGAAAAACGTAATGAGGAATTGAAAGGTAAAGACCTTAATCTACGCGTCTAAAGAATAA
66 TTCGGAAGAAAAACGTAATGAAGAACTAAAAGGTAAAGACCTTAATCTACACGTCTAAAGAATAA
** *
52168649 ATTATTTTAGTTGAATTTAGATTGT
131 ATTATTTTAGCCGAATTTACATTGT
52168674 TA
1 TA
52168676 AAAAATTGAA
Statistics
Matches: 393, Mismatches: 63, Indels: 14
0.84 0.13 0.03
Matches are distributed among these distances:
151 121 0.31
152 5 0.01
154 3 0.01
155 264 0.67
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.35
Consensus pattern (155 bp):
TAGAGAAAATAATTGAATGATTTATTTATTTATTCATCCGTTTTTATTTCAGGTACGACTACAAG
TTCGGAAGAAAAACGTAATGAAGAACTAAAAGGTAAAGACCTTAATCTACACGTCTAAAGAATAA
ATTATTTTAGCCGAATTTACATTGT
Found at i:52170668 original size:277 final size:274
Alignment explanation
Indices: 52169715--52170897 Score: 1120
Period size: 278 Copynumber: 4.3 Consensus size: 274
52169705 ACTGGAGAAA
* * * *
52169715 ATTTATCTTTTTTTATTTTAGGTACGACTACAGGTTCAAAGGAAAAACGTAATGATGAACCGAAA
1 ATTTATC-TTTATTATTTTAGGTACGACAACAGGTTCGAAGGAAAAAC-TAATGAAGAACCGAAA
* * *
52169780 GGTAAAAACTTTAACCTACACGTCTAAAAAATAAATTATTTTA-CTCGAATTTACATTGTTAAAG
64 GGTAAAAACCTTAACCTACACGTATAAAAAATAAATTATTTTAGC-CGAATTTACATTGTTAAAA
* * *
52169844 ATTTGAATTAAAATTCTCATCACATCATATTGCATATTAAATCAAAAATAAAAACAAAAATG-GT
128 ATTTGAATTAAAATTCTCAT---ATCATATTGCATATTAAAACAAAAACAAAAACAAAAATGTTT
* * * * * * * *
52169908 ---TA----AA-AT-AAA-CA-T--T-TTTTGAACAAATCAATCTAATTTGATATCATTGGATAA
190 AACTAGGTGAAGATGAAATTATTAATATTTTAAACAAATCAGTTTAATATGATATCACTAGAGAA
* *
52169959 AGTAATTAAATGATTTATTT
255 AATAATTAAATAATTTATTT
* * * *
52169979 -GTT-TGTTT-TTATTTTAGGTACTG-CAACAGATTCGAAGAAAAAACTTAATGAAGAACCGAAA
1 ATTTATCTTTATTATTTTAGGTAC-GACAACAGGTTCGAAGGAAAAAC-TAATGAAGAACCGAAA
* * * * * *
52170040 GGTAAAGACCTTAACCTACATGTGTAAAAAATAAATTATTTTAGTCGAAGTTACATTGTTAAAAT
64 GGTAAAAACCTTAACCTACACGTATAAAAAATAAATTATTTTAGCCGAATTTACATTGTTAAAAA
* * * * * * *
52170105 TTTGAATTAAAATTCCCATCTCATATTGCATACTAAATC---AA-AAATA-AAAATTGTTTAACC
129 TTTGAATTAAAATTCTCATATCATATTGCATATTAAAACAAAAACAAAAACAAAAATGTTTAACT
* * * *
52170165 AGGTGAAGATGAAATTATTAAAAAAAACATGTTTTAAACAAATCAGTTTAATATGATATTAGTGG
194 AGGTGAAGATGAAATTATT-------A-ATATTTTAAACAAATCAGTTTAATATGATATCACTAG
52170230 AGAAAATAATTAAATAATTTATTT
251 AGAAAATAATTAAATAATTTATTT
* * * *
52170254 ATTTATCTGTTTTTATTTTAGGTGCGACAACAGGTTCAAAGGAAAAACGTAATGATGAACCGAAA
1 ATTTATCT-TTATTATTTTAGGTACGACAACAGGTTCGAAGGAAAAAC-TAATGAAGAACCGAAA
** * * * *
52170319 GGTAAAAATTTTAACCTACACG-ACTACAAAATAAATTATTTTAGTC-AGTTTTACTTTGTTAAA
64 GGTAAAAACCTTAACCTACACGTA-TAAAAAATAAATTATTTTAGCCGA-ATTTACATTGTTAAA
*
52170382 AATTTTGAATTAAAATTCTCTTATCATATTGCATATTAAAACAAAAACAAAAACAAAAATTGTTT
127 AA-TTTGAATTAAAATTCTCATATCATATTGCATATTAAAACAAAAACAAAAACAAAAA-TGTTT
*
52170447 AACTAGGTGAAGATGAAATTATT-ATATTTTCAACAAATCAGTTTAATATGATATCACTAGAGAA
190 AACTAGGTGAAGATGAAATTATTAATATTTTAAACAAATCAGTTTAATATGATATCACTAGAGAA
52170511 AATAATTAAATAATTTATTT
255 AATAATTAAATAATTTATTT
*
52170531 ATTTATCTATTATTATTTTTAGGTACGACGACAGGTTCGAAGGAAAAACTCAATGAAGAACCGAA
1 ATTTATCT-TTATTA-TTTTAGGTACGACAACAGGTTCGAAGGAAAAACT-AATGAAGAACCGAA
* * * * *
52170596 AGGTAAAGACCTTAATCAACACGTATAAAAAATAAATTATTGTAGCCGAATTTACATTGTCAAAA
63 AGGTAAAAACCTTAACCTACACGTATAAAAAATAAATTATTTTAGCCGAATTTACATTGTTAAAA
* * * *
52170661 ATTTGAATTAAAATTCTCATATCATATTACACATTAAATCAAAAA-ATAAAATTAAAAATGTTTT
128 ATTTGAATTAAAATTCTCATATCATATTGCATATTAAAACAAAAACA-AAAA-CAAAAATG-TTT
* * * *
52170725 AACTAGGTGAAGATGAAATTATTTAAAAATATTATATTTAACTAAT-TGTTTAATATGATATTAC
190 AACTAGGTGAAGATGAAATTA-TT---AATA-T-T-TTAAACAAATCAGTTTAATATGATATCAC
* **
52170789 TAGAGAAAATAATTGAACGATTTATTT
248 TAGAGAAAATAATTAAATAATTTATTT
* * * *
52170816 ATTTATC--CATT-TTTTAGGTACGACTACAGGTTCGGAA-GAAAAATGTAATGAAGAACTGAAA
1 ATTTATCTTTATTATTTTAGGTACGACAACAGGTTC-GAAGGAAAAA-CTAATGAAGAACCGAAA
*
52170877 GGTAAAAACCTTAATCTACAC
64 GGTAAAAACCTTAACCTACAC
52170898 TTTACATTGT
Statistics
Matches: 764, Mismatches: 99, Indels: 96
0.80 0.10 0.10
Matches are distributed among these distances:
252 6 0.01
253 5 0.01
254 2 0.00
256 1 0.00
257 18 0.02
260 121 0.16
261 6 0.01
262 4 0.01
263 3 0.00
264 1 0.00
274 1 0.00
275 49 0.06
276 3 0.00
277 118 0.15
278 127 0.17
279 101 0.13
280 94 0.12
281 4 0.01
282 3 0.00
283 5 0.01
284 5 0.01
285 52 0.07
286 35 0.05
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (274 bp):
ATTTATCTTTATTATTTTAGGTACGACAACAGGTTCGAAGGAAAAACTAATGAAGAACCGAAAGG
TAAAAACCTTAACCTACACGTATAAAAAATAAATTATTTTAGCCGAATTTACATTGTTAAAAATT
TGAATTAAAATTCTCATATCATATTGCATATTAAAACAAAAACAAAAACAAAAATGTTTAACTAG
GTGAAGATGAAATTATTAATATTTTAAACAAATCAGTTTAATATGATATCACTAGAGAAAATAAT
TAAATAATTTATTT
Found at i:52171172 original size:151 final size:149
Alignment explanation
Indices: 52170898--52171939 Score: 862
Period size: 147 Copynumber: 7.1 Consensus size: 149
52170888 TAATCTACAC
* * *
52170898 TTTACATTGTTAGAGAAAATAATTGAATGA--TTTATTTACCCGTTTTTATTTTTGATACGACTA
1 TTTACATTGTTAGAGAAAATAATTGAATGATTTTTATTTATCCATTTTTATTTTAGATACGACTA
* * *
52170961 CAGGTACAAAAGAAAAACGTAATGAAGAACTGAAAGGTAAAGACCTTAACCTACACGTCTAAAAA
66 CAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAA
52171026 ATAAATTATTTTAGCCGAA
131 ATAAATTATTTTAGCCGAA
*
52171045 TTTACATTGTTAGAGAAAATAATTGAATGATTTGTTTATTTATCTATTTTTATTTTAGATACGAC
1 TTTACATTGTTAGAGAAAATAATTGAATGA-TT-TTTATTTATCCATTTTTATTTTAGATACGAC
* * *
52171110 TACAGGTTCAAAAGAAAAACCTAATGAGGAACCGAAAGGTAAAGACCTTAATCTACATGTCTAAA
64 TACAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAA
52171175 AAATAAATTATTTTAGCCGAA
129 AAATAAATTATTTTAGCCGAA
* * * * * * ** * *
52171196 TTTATATTGTCA-A-AAATTTGAATT-AA-AATTCTCA--TAT-CATGTTACATATTAAAT-C-A
1 TTTACATTGTTAGAGAAA-AT-AATTGAATGATTTTTATTTATCCAT-TTTTATTTTAGATACGA
** * ** * * * ** * * * * ***
52171252 --A-A-AATGAAATTAAAAATGT-TTTAACTA-GGTAAAGCTGAA-A--TT-ATTTA-AAAAC-A
63 CTACAGGTTCAAAAGAAAAACGTAATGAAGAACCG-AAAGGTAAAGACCTTAATCTACACGTCTA
* * * *
52171305 ACATATTTAATTGATTATT----TAA
127 A-AAAATAAATT-ATT-TTAGCCGAA
* * *** * * * *
52171327 TATGATATCACTAGAGAAAATAATTGAACGATTTATTTATTTATCTA-TTTT-CTTTAGGTACGA
1 T-TTACATTGTTAGAGAAAATAATTGAATGA-TT-TTTATTTATCCATTTTTATTTTAGATACGA
* ** * * **
52171390 CTACAAGTTCGGAAGAAAAACGTAATGAAGAACTGAAAGGTAAAAATATTAATCTACACGTCTAA
63 CTACAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAA
*
52171455 AAAATAAATTATTTTAGCCAAA
128 AAAATAAATTATTTTAGCCGAA
* * *
52171477 TTTACATTGTTAGAGAAAATAATTGAATGA--TTTATTTATCCGTTTTTATTTTAGGTTCGACTA
1 TTTACATTGTTAGAGAAAATAATTGAATGATTTTTATTTATCCATTTTTATTTTAGATACGACTA
* * *
52171540 CAAGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGCAAATG-CCTTAAACTACACGTCTAAAA
66 CAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAA-GACCTTAATCTACACGTCTAAAA
52171604 AATAAATTATTTTAGCCGAA
130 AATAAATTATTTTAGCCGAA
* * * *
52171624 TTTACATTGTTAAAGAAAATAATTGAATGA--TTTATTTATCCGTTTTTATTTTAGGTGCGACTA
1 TTTACATTGTTAGAGAAAATAATTGAATGATTTTTATTTATCCATTTTTATTTTAGATACGACTA
* * *
52171687 CAGATACAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAATG--CTTAACCTACACGTCTAAAA
66 CAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAA-GACCTTAATCTACACGTCTAAAA
* *
52171750 AATAAATTATTTTAGACAAA
130 AATAAATTATTTTAGCCGAA
** *
52171770 TTTACATTGTTAGAGAAAACGATTGAATGATTTATTAATTTATTTACTTATTCGTTTTTATTTTA
1 TTTACATTGTTAGAGAAAATAATTGAATGATTT-TT-ATTTA--T-C-----CATTTTTATTTTA
* * * * * * *
52171835 GATATGGCTATAGGTTTAGAAGAAAAACGTAATGAGGAACCAAAAGGTAAAGACCTTAATCTACA
56 GATACGACTACAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACA
52171900 CGTCT-AAAAATAAATTATTTTAGCCGAA
121 CGTCTAAAAAATAAATTATTTTAGCCGAA
52171928 TTTACATTGTTA
1 TTTACATTGTTA
52171940 AAATTTTGAA
Statistics
Matches: 711, Mismatches: 128, Indels: 101
0.76 0.14 0.11
Matches are distributed among these distances:
131 3 0.00
132 12 0.02
133 13 0.02
134 11 0.02
135 6 0.01
136 6 0.01
137 5 0.01
138 14 0.02
139 11 0.02
140 2 0.00
141 2 0.00
142 9 0.01
143 12 0.02
144 5 0.01
145 22 0.03
146 72 0.10
147 226 0.32
148 12 0.02
149 31 0.04
150 12 0.02
151 121 0.17
152 1 0.00
153 1 0.00
157 1 0.00
158 86 0.12
159 15 0.02
ACGTcount: A:0.42, C:0.11, G:0.13, T:0.34
Consensus pattern (149 bp):
TTTACATTGTTAGAGAAAATAATTGAATGATTTTTATTTATCCATTTTTATTTTAGATACGACTA
CAGGTTCAAAAGAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAA
ATAAATTATTTTAGCCGAA
Found at i:52171194 original size:550 final size:561
Alignment explanation
Indices: 52170504--52171779 Score: 1755
Period size: 579 Copynumber: 2.3 Consensus size: 561
52170494 ATGATATCAC
* * * *
52170504 TAGAGAAAATAATTAAATAATTTATTTATTTATCTATTATTATTTTTAGGTACGACGACAGGTTC
1 TAGAGAAAATAATTGAATGATTT-TTTATTTATCTATTTTTA-TTTTAGGTACGACTACAGGTTC
* * * *
52170569 GAAGGAAAAA-CTCAATGAAGAACCGAAAGGTAAAGACCTTAATCAACACGTATAAAAAATAAAT
64 AAAAGAAAAACCT-AATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAAATAAAT
*
52170633 TATTGTAGCCGAATTTACATTGTCAAAAATTTGAATTAAAATTCTCATATCATATTACACATTAA
128 TATTTTAGCCGAATTTACATTGTCAAAAATTTGAATTAAAATTCTCATATCATATTACACATTAA
* * **
52170698 ATCAAAAAATAAAATTAAAAATGTTTTAACTAGGTGAAGATGAAATTATTTAAAAATATTATATT
193 ATC-AAAAATAAAATTAAAAATGTTTTAACTAGGTAAAGATGAAATTATTTAAAAACAACATATT
* *
52170763 TAACTAATTGTTTAATATGATATTACTAGAGAAAATAATTGAACGATTTATTTATTTATCCA-TT
257 TAACTAATTATTTAATATGATATCACTAGAGAAAATAATTGAACGATTTATTTATTTATCCATTT
* *
52170827 T-TTTAGGTACGACTACAGGTTCGGAAGAAAAATGTAATGAAGAACTGAAAGG-TA-AA-A-AC-
322 TCTTTAGGTACGACTACAAGTTCGGAAGAAAAACGTAATGAAGAACTGAAAGGATATAATACACG
*
52170886 CT-T-A-A-TCTA-C-ACTTTACATTGTTAGAGAAAATAATTGAATGATTTATTTACCCGTTTTT
387 CTATAATATTCTACCAAATTTACATTGTTAGAGAAAATAATTGAATGATTTATTTACCCGTTTTT
* * * *
52170945 ATTTTTGATACGACTACAGGTACAAAAGAAAAACGTAATGAAGAACTGAAAGGTAAA-GACCTTA
452 ATTTTAGATACGACTACAAGTACAAAAGAAAAACGTAATGAAGAACCGAAAGGCAAATG-CCTTA
*
52171009 ACCTACACGTCTAAAAAATAAATTATTTTAGCCGAATTTACATTGT
516 AACTACACGTCTAAAAAATAAATTATTTTAGCCGAATTTACATTGT
*
52171055 TAGAGAAAATAATTGAATGATTTGTTTATTTATCTATTTTTATTTTAGATACGACTACAGGTTCA
1 TAGAGAAAATAATTGAATGATTT-TTTATTTATCTATTTTTATTTTAGGTACGACTACAGGTTCA
* *
52171120 AAAGAAAAACCTAATGAGGAACCGAAAGGTAAAGACCTTAATCTACATGTCTAAAAAATAAATTA
65 AAAGAAAAACCTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAAATAAATTA
* * *
52171185 TTTTAGCCGAATTTATATTGTCAAAAATTTGAATTAAAATTCTCATATCATGTTACATATTAAAT
130 TTTTAGCCGAATTTACATTGTCAAAAATTTGAATTAAAATTCTCATATCATATTACACATTAAAT
* *
52171250 CAAAAATGAAATTAAAAATGTTTTAACTAGGTAAAGCTGAAATTATTTAAAAACAACATATTTAA
195 CAAAAATAAAATTAAAAATGTTTTAACTAGGTAAAGATGAAATTATTTAAAAACAACATATTTAA
* * *
52171315 TTGATTATTTAATATGATATCACTAGAGAAAATAATTGAACGATTTATTTATTTATCTATTTTCT
260 CTAATTATTTAATATGATATCACTAGAGAAAATAATTGAACGATTTATTTATTTATCCATTTTCT
52171380 TTAGGTACGACTACAAGTTCGGAAGAAAAACGTAATGAAGAACTGAAAGGTAAAAATATTAATCT
325 TTAGGTACGACTACAAGTTCGGAAGAAAAACGTAATGAAGAACTGAAAGG-----ATA-TAA--T
*
52171445 ACACGTCTAAAAAATAAATTATTTTAGCCAAATTTACATTGTTAGAGAAAATAATTGAATGATTT
382 ACACG-CT-----AT-AA-TATTCTA-CCAAATTTACATTGTTAGAGAAAATAATTGAATGATTT
* * * *
52171510 ATTTATCCGTTTTTATTTTAGGTTCGACTACAAGTTCAAAAGAAAAACGTAATGAAGAACCGAAA
438 ATTTACCCGTTTTTATTTTAGATACGACTACAAGTACAAAAGAAAAACGTAATGAAGAACCGAAA
52171575 GGCAAATGCCTTAAACTACACGTCTAAAAAATAAATTATTTTAGCCGAATTTACATTGT
503 GGCAAATGCCTTAAACTACACGTCTAAAAAATAAATTATTTTAGCCGAATTTACATTGT
* ** * * *
52171634 TAAAGAAAATAATTGAATGA---TTTATTTATCCGTTTTTATTTTAGGTGCGACTACAGATACAA
1 TAGAGAAAATAATTGAATGATTTTTTATTTATCTATTTTTATTTTAGGTACGACTACAGGTTCAA
* *
52171696 AAGAAAAACGTAATGAAGAACCGAAAGGTAAATG--CTTAACCTACACGTCTAAAAAATAAATTA
66 AAGAAAAACCTAATGAAGAACCGAAAGGTAAA-GACCTTAATCTACACGTCTAAAAAATAAATTA
* *
52171759 TTTTAGACAAATTTACATTGT
130 TTTTAGCCGAATTTACATTGT
52171780 TAGAGAAAAC
Statistics
Matches: 638, Mismatches: 54, Indels: 43
0.87 0.07 0.06
Matches are distributed among these distances:
549 112 0.18
550 142 0.22
551 89 0.14
557 2 0.00
559 2 0.00
562 1 0.00
563 2 0.00
565 2 0.00
571 1 0.00
573 1 0.00
574 45 0.07
575 67 0.11
576 4 0.01
578 1 0.00
579 166 0.26
580 1 0.00
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.33
Consensus pattern (561 bp):
TAGAGAAAATAATTGAATGATTTTTTATTTATCTATTTTTATTTTAGGTACGACTACAGGTTCAA
AAGAAAAACCTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAAATAAATTAT
TTTAGCCGAATTTACATTGTCAAAAATTTGAATTAAAATTCTCATATCATATTACACATTAAATC
AAAAATAAAATTAAAAATGTTTTAACTAGGTAAAGATGAAATTATTTAAAAACAACATATTTAAC
TAATTATTTAATATGATATCACTAGAGAAAATAATTGAACGATTTATTTATTTATCCATTTTCTT
TAGGTACGACTACAAGTTCGGAAGAAAAACGTAATGAAGAACTGAAAGGATATAATACACGCTAT
AATATTCTACCAAATTTACATTGTTAGAGAAAATAATTGAATGATTTATTTACCCGTTTTTATTT
TAGATACGACTACAAGTACAAAAGAAAAACGTAATGAAGAACCGAAAGGCAAATGCCTTAAACTA
CACGTCTAAAAAATAAATTATTTTAGCCGAATTTACATTGT
Found at i:52172645 original size:277 final size:276
Alignment explanation
Indices: 52171856--52172730 Score: 967
Period size: 277 Copynumber: 3.2 Consensus size: 276
52171846 AGGTTTAGAA
* * *
52171856 GAAAAACGTAATGAGGAACCAAAAGGTAAAGACCTTAATCTACACGTCT-AAAAATAAATTATTT
1 GAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAAATAAATAATTT
* * *
52171920 TAGCCGAATTTACATTGTTAAAATTTTGAATTAAAATTCTCATATC-ATTGCATATAA-AATAAA
66 TAGTCGAATTTACATTATTAAAATTTTGAATTAAAATTCTCATATCAATTGCATATAATAAAAAA
* * * *
52171983 A-AAAAAAAGCTTTAACCAGGTGAAGATGAAATTATTAGAAAAAAAAAGCATATTCTAAACAAAT
131 ATAAAAAAAGGTTTAACTAGGTGAAGATGAAATTATT---AAAATAAA-CATATTTTAAACAAAT
* *
52172047 CAGTTTAATATGATATCACTCGAGAAAATAATTAAATGATTTATTTATTTATTTATCTATTTTTA
192 CAGTTTAATATGATATCACTAGAGAAAATAATTAAAT-A---GTTTATTTA-TTA-CTATTTTTA
*
52172112 TTTTAGGTATGACAACAGGTTCGGAG
251 TTTTAGGTACGACAACAGGTTCGGAG
* * * * *
52172138 GAAAAACTTAAAGAAGAATCGAAAGGTAAAGACCTTAATCTACACATCTAAAAAATAAATCATTT
1 GAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAAATAAATAATTT
* *
52172203 TAGTCGAA--TACACTGA-TAAAATTTTGAATTAAAATTCTCATACCACATTGC--ATAAT--AA
66 TAGTCGAATTTACA-TTATTAAAATTTTGAATTAAAATTCTCATATCA-ATTGCATATAATAAAA
* * *
52172261 AAAT-AAAAATGGTTTAAGTAGGTGAAGATGAAATTATTAAAATAAACATATTTTAAACAAATCG
129 AAATAAAAAAAGGTTTAACTAGGTGAAGATGAAATTATTAAAATAAACATATTTTAAACAAATCA
* * *
52172325 GTTTAATATGATATGACTGGAGAAAATAATTAAAT-GATTTATTTA-TA-TGTTTTTATTTTAGG
194 GTTTAATATGATATCACTAGAGAAAATAATTAAATAG-TTTATTTATTACTATTTTTATTTTAGG
**
52172387 TACGACTTCAGGTTCGGAG
258 TACGACAACAGGTTCGGAG
* * * * * *
52172406 GAAAAACGTAATGATGAACCGAAAGGTAAAAACTTTTA-CATACACGTTTAAAAAATAAAAAATT
1 GAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATC-TACACGTCTAAAAAATAAATAATT
*
52172470 TTAATCGAATTTACATTATTAATAA-TTTGAATTAAAATTCTCATATCATATTGCATATTAAATA
65 TTAGTCGAATTTACATTATTAA-AATTTTGAATTAAAATTCTCATATCA-ATTGCATA-T-AATA
* * *
52172534 AAAAAATAAAAAAAGGTTTAACTAGGTGAAGATGAAATTATTAAAATAAATATTTTTTAAACGAA
126 AAAAAATAAAAAAAGGTTTAACTAGGTGAAGATGAAATTATTAAAATAAACATATTTTAAACAAA
* * * *
52172599 TCAGTTTAATATAATATCACTAGATAAAATAATTAAATAGTTTATTTTTTTATCTGTTTTTATTT
191 TCAGTTTAATATGATATCACTAGAGAAAATAATTAAATAGTTTA-TTTATTA-CTATTTTTATTT
* * * * *
52172664 CAGATACAACAACAAGTTCAGAG
254 TAGGTACGACAACAGGTTCGGAG
* * * * *
52172687 GACAAATGGAATGCAA-AACCGAAAGGTAAATACTTTAATCTACA
1 GAAAAACGTAATG-AAGAACCGAAAGGTAAAGACCTTAATCTACA
52172731 TATATATATA
Statistics
Matches: 502, Mismatches: 65, Indels: 53
0.81 0.10 0.09
Matches are distributed among these distances:
267 1 0.00
268 89 0.18
269 2 0.00
270 36 0.07
271 2 0.00
272 9 0.02
273 1 0.00
274 3 0.01
276 55 0.11
277 96 0.19
278 4 0.01
279 2 0.00
280 34 0.07
281 96 0.19
282 46 0.09
283 26 0.05
ACGTcount: A:0.45, C:0.10, G:0.12, T:0.33
Consensus pattern (276 bp):
GAAAAACGTAATGAAGAACCGAAAGGTAAAGACCTTAATCTACACGTCTAAAAAATAAATAATTT
TAGTCGAATTTACATTATTAAAATTTTGAATTAAAATTCTCATATCAATTGCATATAATAAAAAA
ATAAAAAAAGGTTTAACTAGGTGAAGATGAAATTATTAAAATAAACATATTTTAAACAAATCAGT
TTAATATGATATCACTAGAGAAAATAATTAAATAGTTTATTTATTACTATTTTTATTTTAGGTAC
GACAACAGGTTCGGAG
Found at i:52190067 original size:16 final size:18
Alignment explanation
Indices: 52190048--52190089 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
52190038 TAAAAAAATG
*
52190048 TAAATTTTATAAT-TAT-
1 TAAATATTATAATATATA
*
52190064 TAAAAATTATAATATATA
1 TAAATATTATAATATATA
52190082 TAAATATT
1 TAAATATT
52190090 TGTTAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 11 0.52
17 3 0.14
18 7 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TAAATATTATAATATATA
Found at i:52190280 original size:26 final size:29
Alignment explanation
Indices: 52190237--52190291 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 29
52190227 CATAAAACCC
52190237 AATTACAACCCAAACCC-AAGACCCAACA
1 AATTACAACCCAAACCCAAAGACCCAACA
* *
52190265 AATTA-AA-CCAAGCCCAAATACCCAACA
1 AATTACAACCCAAACCCAAAGACCCAACA
52190292 GGCCCAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.29
27 12 0.50
28 5 0.21
ACGTcount: A:0.51, C:0.36, G:0.04, T:0.09
Consensus pattern (29 bp):
AATTACAACCCAAACCCAAAGACCCAACA
Found at i:52191722 original size:15 final size:14
Alignment explanation
Indices: 52191698--52191731 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
52191688 TACCTACGTA
*
52191698 TATATGTACATATTT
1 TATATATACATA-TT
52191713 TATATATACATATT
1 TATATATACATATT
52191727 TATAT
1 TATAT
52191732 GTTCTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.38, C:0.06, G:0.03, T:0.53
Consensus pattern (14 bp):
TATATATACATATT
Found at i:52192539 original size:108 final size:108
Alignment explanation
Indices: 52192415--52192616 Score: 298
Period size: 108 Copynumber: 1.9 Consensus size: 108
52192405 ATAATAAAGG
* * *
52192415 TAATGTTTTGCGTTTGGAGATTCG-AGAAAACGTGCCCTAATGTGCTGGGTTTCGATTTTTCTCG
1 TAATATTTTGCGTTTGGAAATTCGAAG-AAACGTGCCCTAATGTGCTGGGTTCCGATTTTTCTCG
* * *
52192479 TTCGATCAAATAGCCAAATATCCTTTTAAAATTTCAAGTTAAGA
65 TTCAACCAAATAGCCAAATATCCTCTTAAAATTTCAAGTTAAGA
*
52192523 TAATATTTTGCGTTTGGAAATTCGAAGAAACGTGCCCTAATGTGCTGGGTTCCGATTTTTTTCGT
1 TAATATTTTGCGTTTGGAAATTCGAAGAAACGTGCCCTAATGTGCTGGGTTCCGATTTTTCTCGT
* * *
52192588 TTAACCAAATTGCCAAATATTCTCTTAAA
66 TCAACCAAATAGCCAAATATCCTCTTAAA
52192617 TCTTAATCCA
Statistics
Matches: 83, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
108 81 0.98
109 2 0.02
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (108 bp):
TAATATTTTGCGTTTGGAAATTCGAAGAAACGTGCCCTAATGTGCTGGGTTCCGATTTTTCTCGT
TCAACCAAATAGCCAAATATCCTCTTAAAATTTCAAGTTAAGA
Found at i:52196940 original size:29 final size:29
Alignment explanation
Indices: 52196907--52196971 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
52196897 ATAGGGAATT
* * * *
52196907 GATCAAATTAGTCTCTCTATTATTAAATA
1 GATCAAATTAGTCCCTATACTATTAAAAA
*
52196936 GATCAATTTAGTCCCTATACTATTAAAAA
1 GATCAAATTAGTCCCTATACTATTAAAAA
52196965 GAATCAA
1 G-ATCAA
52196972 GTGAGGCCAA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 25 0.83
30 5 0.17
ACGTcount: A:0.42, C:0.15, G:0.08, T:0.35
Consensus pattern (29 bp):
GATCAAATTAGTCCCTATACTATTAAAAA
Found at i:52202285 original size:54 final size:54
Alignment explanation
Indices: 52202203--52202310 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
52202193 TCATCCTGAG
52202203 TGATGGAATAACTAGACAGTTACATGTGGCGTGCCACGTGTACCTATAGTTGAC
1 TGATGGAATAACTAGACAGTTACATGTGGCGTGCCACGTGTACCTATAGTTGAC
52202257 TGATGGAATAACTAGACAGTTACATGTGGCGTGCCACGTGTACCTATAGTTGAC
1 TGATGGAATAACTAGACAGTTACATGTGGCGTGCCACGTGTACCTATAGTTGAC
52202311 GTGCAGGGAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.28
Consensus pattern (54 bp):
TGATGGAATAACTAGACAGTTACATGTGGCGTGCCACGTGTACCTATAGTTGAC
Found at i:52216147 original size:35 final size:35
Alignment explanation
Indices: 52216076--52216147 Score: 83
Period size: 35 Copynumber: 2.1 Consensus size: 35
52216066 AATCTTACCC
* * * *
52216076 TTTAATTTTGGAATCAATTCTATGTTTGTTTGTTT
1 TTTAATTTTGGAATAAATTCTATGTTGGTATATTT
*
52216111 TTTAGTTTTGGAATAAATTCTAT-TTAGGTATATTT
1 TTTAATTTTGGAATAAATTCTATGTT-GGTATATTT
52216146 TT
1 TT
52216148 GTGCATCTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 2 0.06
35 29 0.94
ACGTcount: A:0.24, C:0.04, G:0.14, T:0.58
Consensus pattern (35 bp):
TTTAATTTTGGAATAAATTCTATGTTGGTATATTT
Found at i:52223283 original size:4 final size:4
Alignment explanation
Indices: 52223276--52223300 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
52223266 TCTTAAATAA
52223276 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
52223301 TTTAGCCCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:52224098 original size:31 final size:31
Alignment explanation
Indices: 52224030--52224103 Score: 78
Period size: 31 Copynumber: 2.4 Consensus size: 31
52224020 TTTGGGTCAA
* * * *
52224030 GACTAAAATCTCA-AAATTCGAAAAGTATAGG
1 GACTAAAAT-TGACAAATTCAAAAAGTACAAG
* *
52224061 GGCTAAAGTTGACAAATTCAAAAAGTACAAG
1 GACTAAAATTGACAAATTCAAAAAGTACAAG
52224092 GACTAAAATTGA
1 GACTAAAATTGA
52224104 TATTAAAGTA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
30 2 0.06
31 32 0.94
ACGTcount: A:0.49, C:0.12, G:0.18, T:0.22
Consensus pattern (31 bp):
GACTAAAATTGACAAATTCAAAAAGTACAAG
Found at i:52228439 original size:8 final size:8
Alignment explanation
Indices: 52228426--52228451 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
52228416 AAATATCTCA
52228426 AAAATTTT
1 AAAATTTT
52228434 AAAATTTT
1 AAAATTTT
52228442 AAAATTTT
1 AAAATTTT
52228450 AA
1 AA
52228452 TTAGCTCAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
AAAATTTT
Found at i:52230785 original size:15 final size:15
Alignment explanation
Indices: 52230761--52230792 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
52230751 ACGAAGTAGC
*
52230761 TCGTCTTTGTCGTTG
1 TCGTCGTTGTCGTTG
52230776 TCGTCGTTGTCGTTG
1 TCGTCGTTGTCGTTG
52230791 TC
1 TC
52230793 TTTGTCGCAG
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:0.00, C:0.22, G:0.28, T:0.50
Consensus pattern (15 bp):
TCGTCGTTGTCGTTG
Found at i:52235422 original size:31 final size:31
Alignment explanation
Indices: 52235356--52235422 Score: 80
Period size: 31 Copynumber: 2.2 Consensus size: 31
52235346 TTAGCCCTTC
* * * *
52235356 AACTTAACAATTGTTCTCATATCGGGGTTTG
1 AACTTAACAATTATTCTCACATCGGGGCTTA
* *
52235387 AACTTGACAATTATTCTCACATTGGGGCTTA
1 AACTTAACAATTATTCTCACATCGGGGCTTA
52235418 AACTT
1 AACTT
52235423 TAAGGTTTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.37
Consensus pattern (31 bp):
AACTTAACAATTATTCTCACATCGGGGCTTA
Found at i:52248248 original size:16 final size:17
Alignment explanation
Indices: 52248195--52248251 Score: 55
Period size: 16 Copynumber: 3.5 Consensus size: 17
52248185 ACTAAACTTA
* *
52248195 AAAATCCATTAAAATTT
1 AAAACCCATTAAAAGTT
* *
52248212 AATACCC-TTAAAAGTC
1 AAAACCCATTAAAAGTT
*
52248228 CAAACCCATTAAAA-TT
1 AAAACCCATTAAAAGTT
52248244 AAAACCCA
1 AAAACCCA
52248252 ATATCCATTA
Statistics
Matches: 31, Mismatches: 8, Indels: 3
0.74 0.19 0.07
Matches are distributed among these distances:
16 20 0.65
17 11 0.35
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.25
Consensus pattern (17 bp):
AAAACCCATTAAAAGTT
Found at i:52252004 original size:56 final size:56
Alignment explanation
Indices: 52251875--52252043 Score: 266
Period size: 56 Copynumber: 3.0 Consensus size: 56
52251865 AGTTCTTAAG
* * *
52251875 CAAACATGCTAACATAGTGTCTTTAACATATATAACCATGAAAAAATAATAATAATAAT
1 CAAACATTCTAACATAGCGTCTTTAACATATATAACCATG---AAATAACAATAATAAT
52251934 CAAACATTCTAACATAGCGTCTTTAACATATATAACCATGAAATAACAATAATAAT
1 CAAACATTCTAACATAGCGTCTTTAACATATATAACCATGAAATAACAATAATAAT
* *
52251990 CAAACATTCTAACATAGCGCCTTTAACATATATAACCATGAAATAACGATAATA
1 CAAACATTCTAACATAGCGTCTTTAACATATATAACCATGAAATAACAATAATA
52252044 GTAGTTACCA
Statistics
Matches: 105, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
56 67 0.64
59 38 0.36
ACGTcount: A:0.49, C:0.17, G:0.07, T:0.28
Consensus pattern (56 bp):
CAAACATTCTAACATAGCGTCTTTAACATATATAACCATGAAATAACAATAATAAT
Found at i:52264527 original size:12 final size:12
Alignment explanation
Indices: 52264510--52264540 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
52264500 CCTCACACGC
52264510 CCGTGTGCTAGG
1 CCGTGTGCTAGG
52264522 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
52264534 TCGTGTG
1 CCGTGTG
52264541 AACACTAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.06, C:0.23, G:0.42, T:0.29
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:52267634 original size:51 final size:51
Alignment explanation
Indices: 52267573--52267726 Score: 258
Period size: 51 Copynumber: 3.0 Consensus size: 51
52267563 AAATTAAAAG
52267573 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
*
52267624 ATTATACATACACTAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
*
52267675 ATTATACATACACCAACAA-GTAATTTTAGGG-ACAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGT-TTTTTAGGGTA-AATAACATTAAACCAACA
52267726 A
1 A
52267727 GTAATTTTAG
Statistics
Matches: 98, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
50 3 0.03
51 95 0.97
ACGTcount: A:0.47, C:0.18, G:0.08, T:0.28
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Found at i:52267723 original size:33 final size:34
Alignment explanation
Indices: 52267672--52267782 Score: 140
Period size: 33 Copynumber: 3.4 Consensus size: 34
52267662 CATTAAACCA
*
52267672 ACAATTATACATACACCAACAAGTAATTTTAGGG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
52267706 ACAA-TA-ACATTAAACCAACAAGTAATTTTA-GG
1 ACAATTATACA-TAAACCAACAAGTAATTTTAGGG
* * *
52267738 TCAATTATACATACACCAACAATTAATTTTA-GG
1 ACAATTATACATAAACCAACAAGTAATTTTAGGG
*
52267771 TCAATTATACAT
1 ACAATTATACAT
52267783 GCTTTATAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 7
0.86 0.05 0.09
Matches are distributed among these distances:
32 8 0.11
33 55 0.79
34 7 0.10
ACGTcount: A:0.45, C:0.17, G:0.08, T:0.30
Consensus pattern (34 bp):
ACAATTATACATAAACCAACAAGTAATTTTAGGG
Found at i:52270865 original size:29 final size:28
Alignment explanation
Indices: 52270832--52270918 Score: 74
Period size: 28 Copynumber: 3.1 Consensus size: 28
52270822 TCATAAGAAC
52270832 ATTTTATGAAATTATATTTAATAATAATT
1 ATTTTAT-AAATTATATTTAATAATAATT
* * *
52270861 A-TTT-TAAATTGTATTAAATCAT-A-T
1 ATTTTATAAATTATATTTAATAATAATT
* *
52270885 ATTTTAATTAAAATATATTTAATATTAATT
1 ATTTT-A-TAAATTATATTTAATAATAATT
52270915 ATTT
1 ATTT
52270919 CAAATTTTCA
Statistics
Matches: 44, Mismatches: 8, Indels: 11
0.70 0.13 0.17
Matches are distributed among these distances:
24 2 0.05
25 4 0.09
26 14 0.32
27 1 0.02
28 16 0.36
29 2 0.05
30 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATAAATTATATTTAATAATAATT
Found at i:52271094 original size:67 final size:66
Alignment explanation
Indices: 52271019--52271231 Score: 150
Period size: 67 Copynumber: 3.2 Consensus size: 66
52271009 ATTATAATGT
52271019 ATTT-AATAATAATTATGTTTAAATACGATTAAATTATTTATTATTGATATTAATAATCTTATTA
1 ATTTAAATAATAATTATGTTTAAATACGATTAAA-TATTTATTATTGATATTAATAATCTTATTA
52271083 AA
65 AA
* * ** * * * * * * *
52271085 ATTTAAATAACAATAACAAATTT--CTGCTAATTATAAGAATT-TTATT-AAATT-ATATATTTT
1 ATTTAAATAATAAT--TATGTTTAAATAC-GATTA-AATATTTATTATTGATATTAATA-ATCTT
52271145 AATTAAAA
61 -ATT-AAA
* * * *
52271153 TATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAT
1 -AT-TTAAATAATAATTATGTTTAAATACGATT-AAATATTTATTATTGATATTAATAATCTTAT
52271218 TAAA
63 TAAA
52271222 ATTTAAATAA
1 ATTTAAATAA
52271232 CATTAACAAT
Statistics
Matches: 104, Mismatches: 27, Indels: 31
0.64 0.17 0.19
Matches are distributed among these distances:
65 3 0.03
66 12 0.12
67 25 0.24
68 16 0.15
69 19 0.18
70 19 0.18
71 7 0.07
72 3 0.03
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (66 bp):
ATTTAAATAATAATTATGTTTAAATACGATTAAATATTTATTATTGATATTAATAATCTTATTAA
A
Found at i:52271129 original size:137 final size:138
Alignment explanation
Indices: 52270975--52271396 Score: 427
Period size: 137 Copynumber: 2.9 Consensus size: 138
52270965 TAAGAATATG
* *
52270975 AATTATTAAGAATTTTATTAAATTATATACCAAAATTATAATGTATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* * *
52271040 AATACGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAAA
66 AATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
52271105 TTTCTGCT
131 TTTCTGCT
****
52271113 AATTA-TAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
* *
52271177 AATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACATTAACAAT
66 AATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAAC-A-
*
52271242 AATCATT-TACCAAAAT
129 AAT--TTCT-GC----T
** * ** * * ** * *
52271258 AATT-TTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATTAT
1 AATTATTAAG--AATTTTATTAA-ATTA-TATACCA-A-A-ATTAA----AATATATTTAATAAT
*
52271322 AATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATA
55 AATTATGTTTAAATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATA
52271387 ACAATAACAA
120 ACAATAACAA
52271397 TAATCATTTA
Statistics
Matches: 239, Mismatches: 24, Indels: 26
0.83 0.08 0.09
Matches are distributed among these distances:
137 110 0.46
138 6 0.03
139 3 0.01
140 1 0.00
141 3 0.01
145 7 0.03
147 8 0.03
148 3 0.01
149 5 0.02
151 1 0.00
152 4 0.02
154 1 0.00
155 1 0.00
156 86 0.36
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (138 bp):
AATTATTAAGAATTTTATTAAATTATATACCAAAATTAAAATATATTTAATAATAATTATGTTTA
AATACGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAAA
TTTCTGCT
Found at i:52271151 original size:18 final size:17
Alignment explanation
Indices: 52271123--52271157 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
52271113 AATTATAAGA
*
52271123 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
52271140 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
52271158 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:52271222 original size:70 final size:69
Alignment explanation
Indices: 52271009--52271223 Score: 167
Period size: 70 Copynumber: 3.1 Consensus size: 69
52270999 ATATACCAAA
* * * * *
52271009 ATTATAATGTATTTAATAATAATTATGTTTAAATACGATTAAATTATTTATTATTGATATTAATA
1 ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAATA
52271074 ATCTT
65 ATCTT
* ** * ** * * *
52271079 ATTAAAATTTAAATAACAATAACAAAT-TTCTGCTAAT-T-A-TAAGAAT-TTTATTA-AATTAT
1 ATTAAAATATATTTAATAATAA-TTATGTT-T--AAATATGATTAA-AATATTTATTATGATAAT
*
52271138 -AT-ATTTT
61 AATAATCTT
52271145 AATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAAT
1 -ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTA-TGATAATAAT
52271210 AATCTT
64 AATCTT
52271216 ATTAAAAT
1 ATTAAAAT
52271224 TTAAATAACA
Statistics
Matches: 106, Mismatches: 24, Indels: 30
0.66 0.15 0.19
Matches are distributed among these distances:
64 3 0.03
65 1 0.01
66 11 0.10
67 32 0.30
68 3 0.03
69 4 0.04
70 39 0.37
71 10 0.09
73 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (69 bp):
ATTAAAATATATTTAATAATAATTATGTTTAAATATGATTAAAATATTTATTATGATAATAATAA
TCTT
Found at i:52271229 original size:50 final size:51
Alignment explanation
Indices: 52271173--52271386 Score: 122
Period size: 50 Copynumber: 4.2 Consensus size: 51
52271163 AATAATTATG
52271173 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
** * * * * ** *
52271223 TTTAAATAACATTAACAATAATCATTTAC-CAAAATAATTTTCTGCTAATTATAA
1 TTTAAATATGATTAA-AATATTTA-TTACTGATAATAATAATCT--TAATTAAAA
* * * * * * *
52271277 ---GAATTTTATTAAATTATATATT-TTAATTAA-AATATAT-TTAATTATAATTA
1 TTTAAATATGATTAAAATATTTATTACTGA-TAATAATA-ATCTTAATTA-AA--A
52271327 TGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTT-ATTAAAA
1 --TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
52271379 TTTAAATA
1 TTTAAATA
52271387 ACAATAACAA
Statistics
Matches: 115, Mismatches: 30, Indels: 38
0.63 0.16 0.21
Matches are distributed among these distances:
47 6 0.05
48 1 0.01
49 7 0.06
50 29 0.25
51 24 0.21
52 5 0.04
53 1 0.01
54 8 0.07
55 26 0.23
56 8 0.07
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (51 bp):
TTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTAATTAAAA
Found at i:52271281 original size:156 final size:156
Alignment explanation
Indices: 52271099--52271426 Score: 611
Period size: 156 Copynumber: 2.1 Consensus size: 156
52271089 AAATAACAAT
*
52271099 AACAAATTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
52271164 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
*
52271229 TAACATTAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
* *
52271255 AATAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATT
1 AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
52271320 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
66 ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
52271385 TAACAATAACAATAATCATTTACCAA
131 TAACAATAACAATAATCATTTACCAA
*
52271411 AACAATTTTATGCTAA
1 AACAATTTTCTGCTAA
52271427 GGGTATTCTA
Statistics
Matches: 166, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
156 166 1.00
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.43
Consensus pattern (156 bp):
AACAATTTTCTGCTAATTATAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
ATAATTATGTTTAAATATGATTAAAATATTTATTACTGATAATAATAATCTTATTAAAATTTAAA
TAACAATAACAATAATCATTTACCAA
Found at i:52271307 original size:18 final size:18
Alignment explanation
Indices: 52271279--52271327 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
52271269 AATTATAAGA
52271279 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
52271296 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
52271312 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
52271328 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:52271313 original size:16 final size:16
Alignment explanation
Indices: 52271279--52271333 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
52271269 AATTATAAGA
52271279 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
52271296 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
52271312 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
52271326 ATGTTTAA
1 AT-TTTAA
52271334 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:52271543 original size:44 final size:45
Alignment explanation
Indices: 52271478--52271568 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
52271468 ACCTCTATTC
* * *
52271478 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
52271522 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
52271567 CA
1 CA
52271569 CATCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:52271574 original size:16 final size:16
Alignment explanation
Indices: 52271549--52271600 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
52271539 GATTAGCTAT
52271549 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
52271565 TACACATCTAATCCAA
1 TACACCTCTAATCCAA
52271581 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
52271597 TACA
1 TACA
52271601 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.40, C:0.35, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:52278823 original size:101 final size:101
Alignment explanation
Indices: 52278686--52278908 Score: 304
Period size: 101 Copynumber: 2.2 Consensus size: 101
52278676 CATGCATTTC
* * ** *
52278686 CATGGCCCAGCCATGGTCTTACATTCGTAGTGTCATAACCCAGTTATGGCCTTATCA-TCAGAAT
1 CATGGTCCAACCATGGTCTTACATTCAAAGTGTCATAACCCAGTTATGGCCTTATCACT-AAAAT
* * *
52278750 GCCACAGCCCAGCTGTGGTCTTACTTATAAATACTGT
65 GCCACAGCCCAGCTATGGTCTTACATATAAACACTGT
* * * *
52278787 CATGGTCCAACCATGGTCTTACGTTCAAAGTGTCATAACTCAGTTATGGTCTTTTCACTAAAATG
1 CATGGTCCAACCATGGTCTTACATTCAAAGTGTCATAACCCAGTTATGGCCTTATCACTAAAATG
* *
52278852 CCATAGCCCAGCTATGGTCTTACATATAAACATTGT
66 CCACAGCCCAGCTATGGTCTTACATATAAACACTGT
52278888 CATGGTCCAACCATGGTCTTA
1 CATGGTCCAACCATGGTCTTA
52278909 TCCGTCAATT
Statistics
Matches: 107, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
101 106 0.99
102 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (101 bp):
CATGGTCCAACCATGGTCTTACATTCAAAGTGTCATAACCCAGTTATGGCCTTATCACTAAAATG
CCACAGCCCAGCTATGGTCTTACATATAAACACTGT
Found at i:52298032 original size:28 final size:31
Alignment explanation
Indices: 52298001--52298069 Score: 90
Period size: 31 Copynumber: 2.3 Consensus size: 31
52297991 TGTACTTAAA
* *
52298001 ATTTAA-AATTTAAAT-GTTTGTA-TTTTTT
1 ATTTAATAATTAAAATCGTTAGTACTTTTTT
52298029 ATTTAATAATTAAAATCGTTAGTACTTTTTT
1 ATTTAATAATTAAAATCGTTAGTACTTTTTT
*
52298060 ATTAAATAAT
1 ATTTAATAAT
52298070 ATTTTGTGGC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
28 6 0.17
29 8 0.23
30 6 0.17
31 15 0.43
ACGTcount: A:0.38, C:0.03, G:0.06, T:0.54
Consensus pattern (31 bp):
ATTTAATAATTAAAATCGTTAGTACTTTTTT
Found at i:52302571 original size:21 final size:21
Alignment explanation
Indices: 52302547--52302591 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
52302537 CGGATTCGAG
*
52302547 TGTGAATGTTCGATATATGTA
1 TGTGAATGTTCGATATATATA
52302568 TGTGAATGTTCGATATATATA
1 TGTGAATGTTCGATATATATA
52302589 TGT
1 TGT
52302592 TTTCAATAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.29, C:0.04, G:0.22, T:0.44
Consensus pattern (21 bp):
TGTGAATGTTCGATATATATA
Found at i:52306825 original size:2 final size:2
Alignment explanation
Indices: 52306818--52306842 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
52306808 ATATAATATT
52306818 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
52306843 TATAAAGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:52308900 original size:22 final size:24
Alignment explanation
Indices: 52308854--52308903 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
52308844 TTAACTTTAA
*
52308854 AAAAAGCTTAATGTCAAGAAATTG
1 AAAAAGATTAATGTCAAGAAATTG
*
52308878 AAAAAGATTAAT-TTAA-AAATTG
1 AAAAAGATTAATGTCAAGAAATTG
52308900 AAAA
1 AAAA
52308904 TTTTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 10 0.42
23 3 0.12
24 11 0.46
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.26
Consensus pattern (24 bp):
AAAAAGATTAATGTCAAGAAATTG
Found at i:52308919 original size:16 final size:17
Alignment explanation
Indices: 52308889--52308927 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
52308879 AAAAGATTAA
*
52308889 TTTAAAAATTGAAAATT
1 TTTAAAAATTCAAAATT
52308906 TTTAAAAA-TCAAAATT
1 TTTAAAAATTCAAAATT
*
52308922 TATAAA
1 TTTAAA
52308928 TTTTATAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 12 0.60
17 8 0.40
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
TTTAAAAATTCAAAATT
Found at i:52310820 original size:16 final size:16
Alignment explanation
Indices: 52310801--52310842 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
52310791 ATTAAATTGC
52310801 ATTATATTTTAACATA-
1 ATTATATTTTAA-ATAT
*
52310817 ATTATATATTAAATAT
1 ATTATATTTTAAATAT
*
52310833 AATATATTTT
1 ATTATATTTT
52310843 TTCAAATTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
15 3 0.14
16 19 0.86
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (16 bp):
ATTATATTTTAAATAT
Found at i:52322760 original size:15 final size:16
Alignment explanation
Indices: 52322718--52322768 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
52322708 GTAAAAATAT
*
52322718 AATTTTTATTATTTTA
1 AATTTTTATTATTATA
*
52322734 ATAGTTTATATT-TTATA
1 A-A-TTTTTATTATTATA
*
52322751 AATTTTTATTATTTTA
1 AATTTTTATTATTATA
52322767 AA
1 AA
52322769 AAAAATTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 7 0.25
16 8 0.29
17 6 0.21
18 7 0.25
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
AATTTTTATTATTATA
Found at i:52322763 original size:18 final size:17
Alignment explanation
Indices: 52322718--52322769 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
52322708 GTAAAAATAT
52322718 AATTTTTATTATTTTAA
1 AATTTTTATTATTTTAA
* *
52322735 TA-GTTTA-TATTTTATA
1 AATTTTTATTATTTTA-A
52322751 AATTTTTATTATTTTAA
1 AATTTTTATTATTTTAA
52322768 AA
1 AA
52322770 AAAATTAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 7 0.25
16 6 0.21
17 8 0.29
18 7 0.25
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (17 bp):
AATTTTTATTATTTTAA
Found at i:52324389 original size:34 final size:34
Alignment explanation
Indices: 52324334--52324399 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
52324324 CAAACATCAG
*
52324334 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTAC-GAAAAGT
*
52324369 AAAACATTTTCCCG-AAATCATTTTACGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACGAAAA
52324400 ATATTTTACT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 5 0.17
34 12 0.41
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (34 bp):
AAAACATTTTCCAGTAAATCATTTTACGAAAAGT
Found at i:52357993 original size:3 final size:3
Alignment explanation
Indices: 52357985--52358011 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
52357975 TTATTCAAGG
52357985 AGC AGC AGC AGC AGC AGC AGC AGC AGC
1 AGC AGC AGC AGC AGC AGC AGC AGC AGC
52358012 TTGGTATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.33, T:0.00
Consensus pattern (3 bp):
AGC
Found at i:52362930 original size:45 final size:45
Alignment explanation
Indices: 52362853--52362940 Score: 122
Period size: 45 Copynumber: 2.0 Consensus size: 45
52362843 TTCATCTTTT
*
52362853 ATCTTTGGCTCCTCAACATGATCAACGTTAGTTTCTTCATTGGCC
1 ATCTTTGGCTCCTCAACATGATCAACGGTAGTTTCTTCATTGGCC
* *** *
52362898 ATCTTTGGCTCCTCAACTTGATCTGTGGTAGTTTCTTCCTTGG
1 ATCTTTGGCTCCTCAACATGATCAACGGTAGTTTCTTCATTGG
52362941 TCACAATCAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.16, C:0.25, G:0.18, T:0.41
Consensus pattern (45 bp):
ATCTTTGGCTCCTCAACATGATCAACGGTAGTTTCTTCATTGGCC
Found at i:52366503 original size:15 final size:15
Alignment explanation
Indices: 52366485--52366513 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
52366475 ATATCCTTAT
52366485 AGTGTAGATAATAAC
1 AGTGTAGATAATAAC
52366500 AGTGTAGATAATAA
1 AGTGTAGATAATAA
52366514 AAGGAAACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.21, T:0.28
Consensus pattern (15 bp):
AGTGTAGATAATAAC
Found at i:52368701 original size:18 final size:18
Alignment explanation
Indices: 52368674--52368708 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
52368664 GCGCTCTCGT
52368674 TCTCTCTCCTTCTCCCGC
1 TCTCTCTCCTTCTCCCGC
*
52368692 TCTCTTTCCTTCTCCCG
1 TCTCTCTCCTTCTCCCG
52368709 TCGCTCCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.00, C:0.51, G:0.06, T:0.43
Consensus pattern (18 bp):
TCTCTCTCCTTCTCCCGC
Found at i:52377575 original size:13 final size:13
Alignment explanation
Indices: 52377557--52377581 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
52377547 TCTACCATCT
52377557 CCATCCTTATCAG
1 CCATCCTTATCAG
52377570 CCATCCTTATCA
1 CCATCCTTATCA
52377582 TCCTCTTACA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.40, G:0.04, T:0.32
Consensus pattern (13 bp):
CCATCCTTATCAG
Found at i:52378771 original size:154 final size:154
Alignment explanation
Indices: 52378558--52378932 Score: 381
Period size: 154 Copynumber: 2.5 Consensus size: 154
52378548 TTCATTATAA
* * * * * *
52378558 ATTAATTTCATTTGATAACTCGTATTGATTAATTGAGTTTGTTAAATTTATTAACTTTATAATTT
1 ATTAATTTAATTTGATAACTCATATTGATTAATTGAGCTTATTAAATTTATAAACTTTATAATTA
* * ** * * * *
52378623 ATCATATTAAAAAATATATTCTACTATGAGTTTGAAACGTTATAAACTTAAAAATTGATCACTTG
66 ATCATATGAAAAAATATATTCTAATACAAATTTAAAACATTATAAACTTAAAAATTGATCACTTA
52378688 AATTTAATAACTCGTGATTAATTG
131 AATTTAATAACTCGTGATTAATTG
* * * *
52378712 ATTAATTTAATTTGGTAGCTCATATTGATTAATTGAGCTTATTAGATTTATAAATTTTATAATTA
1 ATTAATTTAATTTGATAACTCATATTGATTAATTGAGCTTATTAAATTTATAAACTTTATAATTA
* * * * * *
52378777 ATCATCTGAAAGAATGTATTCTAATACAAATTTAAAACATTATAAACTTATAAATTGGTTACTTA
66 ATCATATGAAAAAATATATTCTAATACAAATTTAAAACATTATAAACTTAAAAATTGATCACTTA
*
52378842 AATTTAAT-A-GC-T--TT-A---
131 AATTTAATAACTCGTGATTAATTG
* * * * * * * *
52378857 ATTCATTTAATGTGATAACTCATACTGATTAATTAAGCTTGTTAGATTTATGAACGTTATAATTA
1 ATTAATTTAATTTGATAACTCATATTGATTAATTGAGCTTATTAAATTTATAAACTTTATAATTA
*
52378922 ATCATGTGAAA
66 ATCATATGAAA
52378933 TAATGTAACC
Statistics
Matches: 185, Mismatches: 36, Indels: 9
0.80 0.16 0.04
Matches are distributed among these distances:
145 65 0.35
148 1 0.01
149 2 0.01
151 1 0.01
152 1 0.01
153 1 0.01
154 114 0.62
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.43
Consensus pattern (154 bp):
ATTAATTTAATTTGATAACTCATATTGATTAATTGAGCTTATTAAATTTATAAACTTTATAATTA
ATCATATGAAAAAATATATTCTAATACAAATTTAAAACATTATAAACTTAAAAATTGATCACTTA
AATTTAATAACTCGTGATTAATTG
Found at i:52389172 original size:20 final size:20
Alignment explanation
Indices: 52389131--52389172 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
52389121 ACTAATTTTG
* *
52389131 ATATTTAAATTTACGAATTA
1 ATATTTAAATTTACCAAGTA
52389151 ATATTTAAATTT-CTCAAGTA
1 ATATTTAAATTTAC-CAAGTA
52389171 AT
1 AT
52389173 GCAATATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 1 0.05
20 18 0.95
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (20 bp):
ATATTTAAATTTACCAAGTA
Found at i:52389317 original size:24 final size:22
Alignment explanation
Indices: 52389285--52389330 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
52389275 CGACTTTTTG
*
52389285 CATTAAATATTAATTTAAATTTAA
1 CATTAAATA-T-ATTTAAAATTAA
52389309 CATTAAATATATTTAAAATTAA
1 CATTAAATATATTTAAAATTAA
52389331 TTTTTATCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 11 0.52
23 1 0.05
24 9 0.43
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
CATTAAATATATTTAAAATTAA
Found at i:52392917 original size:16 final size:16
Alignment explanation
Indices: 52392896--52392928 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
52392886 TAAATTTAAT
52392896 TATAAAAAATAGTAAA
1 TATAAAAAATAGTAAA
*
52392912 TATAAAAAATATTAAA
1 TATAAAAAATAGTAAA
52392928 T
1 T
52392929 TTTAGTTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
TATAAAAAATAGTAAA
Found at i:52429160 original size:22 final size:22
Alignment explanation
Indices: 52429135--52429177 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
52429125 ATATAATGCT
52429135 TTCTCACGTTCAAAAATTCTCC
1 TTCTCACGTTCAAAAATTCTCC
52429157 TTCTCACGTTCAAAAATTCTC
1 TTCTCACGTTCAAAAATTCTC
52429178 AAGATAATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.30, G:0.05, T:0.37
Consensus pattern (22 bp):
TTCTCACGTTCAAAAATTCTCC
Found at i:52429248 original size:21 final size:21
Alignment explanation
Indices: 52429224--52429277 Score: 90
Period size: 21 Copynumber: 2.5 Consensus size: 21
52429214 AGCAAGTATC
52429224 GTACACAAACTAATTATTGAA
1 GTACACAAACTAATTATTGAA
52429245 GTACACAAACTAATTATTGAA
1 GTACACAAACTAATTATTGAA
*
52429266 GTAGCACCAACT
1 GTA-CACAAACT
52429278 TCATGCGAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 24 0.77
22 7 0.23
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (21 bp):
GTACACAAACTAATTATTGAA
Done.