Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 16 of 141
Found at i:4826518 original size:18 final size:18
Alignment explanation
Indices: 4826491--4826526 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
4826481 CAGGTGCGTT
*
4826491 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
4826509 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
4826527 CCCTTTTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:4826987 original size:25 final size:25
Alignment explanation
Indices: 4826959--4827006 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
4826949 TATTTTGATA
4826959 TTATTTGATGTAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
4826984 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
4827007 ATTTTTGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:4827082 original size:23 final size:22
Alignment explanation
Indices: 4827052--4827788 Score: 458
Period size: 23 Copynumber: 33.1 Consensus size: 22
4827042 AATACCCTTA
4827052 AATTAAAAACCCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA-TT
*
4827075 AATTAAAAACCTTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
* ***
4827097 ACTTAAAAACCCTAACCCCCTT
1 AATTAAAAACCCTAACCTAATT
4827119 AACTTAAAAACCCTAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
*
4827142 AACGTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAA-TT
*
4827166 AATTAAAAACCTTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
* ***
4827188 ACTTAAAAACCCTAACCCCCTT
1 AATTAAAAACCCTAACCTAATT
4827210 AACTTAAAAACCCTAACC----T
1 AA-TTAAAAACCCTAACCTAATT
* *
4827229 AATTAAAAATCCTAAACTTAA--
1 AATTAAAAACCCT-AACCTAATT
* *** **
4827250 AAATCCTAA-CCTAATTTAA-T
1 AATTAAAAACCCTAACCTAATT
*
4827270 --T-AAAAACTCTAAACCTTAA--
1 AATTAAAAACCCT-AACC-TAATT
*
4827289 ACTTAAAAACCCTAACCTAATT
1 AATTAAAAACCCTAACCTAATT
*
4827311 AAATTTAAAACCCTAAACCTTAA--
1 -AATTAAAAACCCT-AACC-TAATT
* *
4827334 ACTTAAAAACCCTAATCTAATTT
1 AATTAAAAACCCTAACCTAA-TT
*
4827357 AATTAAAAACTCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA-TT
*
4827380 AATTAAAAACCCTGACCTAATT
1 AATTAAAAACCCTAACCTAATT
4827402 AAATTAAAAACCCTAAACCCTAA--
1 -AATTAAAAACCCT-AA-CCTAATT
* * ***
4827425 ACTTAAAAACGCTAACCCCCTT
1 AATTAAAAACCCTAACCTAATT
4827447 AACTTAAAAACCCTAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
*
4827470 AACGTAAAAACCCTAACCTAATTT
1 AA-TTAAAAACCCTAACCTAA-TT
*
4827494 AATTAAAAACTCTAAACCCTAA--
1 AATTAAAAACCCT-AA-CCTAATT
*
4827516 ACTTAAAAACCCTAACCTAATT
1 AATTAAAAACCCTAACCTAATT
4827538 AAATTAAAAACCCTAAACTCTAA--
1 -AATTAAAAACCCT-AAC-CTAATT
* *
4827561 ACTTAAAAACTCTAACCTAATTT
1 AATTAAAAACCCTAACCTAA-TT
** *
4827584 AATTAAAAACTTTAAACC--CTT
1 AATTAAAAACCCT-AACCTAATT
***
4827605 AACTTAAAAACCCTAACCCCCTT
1 AA-TTAAAAACCCTAACCTAATT
4827628 AACTTAAAAACCC--ACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
*
4827649 AACTTAAAAACCCTAACCTAAGTA
1 AA-TTAAAAACCCTAACCTAA-TT
*
4827673 AATTAAAAACCTTAGACCCTAA--
1 AATTAAAAACCCTA-A-CCTAATT
* **
4827695 ACTT-AAAACCCTAACCCCATT
1 AATTAAAAACCCTAACCTAATT
4827716 AACTTAAAAACCCTAACCTAATT
1 AA-TTAAAAACCCTAACCTAATT
4827739 AAATTAAAAACCCTAACCTAATTT
1 -AATTAAAAACCCTAACCTAA-TT
*
4827763 AATTAAAAACCCTAAACTAAATT
1 AATTAAAAACCCTAACCT-AATT
4827786 AAT
1 AAT
4827789 AATTTTACTT
Statistics
Matches: 570, Mismatches: 81, Indels: 126
0.73 0.10 0.16
Matches are distributed among these distances:
17 2 0.00
18 12 0.02
19 17 0.03
20 28 0.05
21 59 0.10
22 93 0.16
23 291 0.51
24 36 0.06
25 32 0.06
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (22 bp):
AATTAAAAACCCTAACCTAATT
Found at i:4827202 original size:91 final size:90
Alignment explanation
Indices: 4827054--4827779 Score: 553
Period size: 91 Copynumber: 7.9 Consensus size: 90
4827044 TACCCTTAAA
**
4827054 TTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCCTAACCCCCTT
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCCTAACCCAATT
*
4827119 AACTTAAAAACCCT-AACCTAATTAAC
66 AAATTAAAAACCCTAAACCT-A-TAAC
* **
4827145 GTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCCTAACCCCCTT
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCCTAACCCAATT
*
4827210 AACTTAAAAACCCT-AACCTAATTAAAAATCCTAAAC
66 AAATTAAAAACCCTAAACC----T----A---T-AAC
* * *
4827246 TTAAAAATCCTAACCTAATTTAATTAAAAA-CTCTAAACCTTAAACTTAAAAACCCTAACCTAAT
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCT-TAAACCCTAAACTTAAAAACCCTAACCCAAT
*
4827310 TAAATTTAAAACCCTAAACCT-TAAAC
65 TAAATTAAAAACCCTAAACCTAT-AAC
* * * *
4827336 TTAAAAACCCTAATCTAATTTAATTAAAAA-CTCT-AA-CCTAATTTAATTAAAAACCCTGACCT
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCT-TAAACCCTAA---ACTTAAAAACCCTAACCC
4827398 AATTAAATTAAAAACCCTAAACCCTA-AAC
62 AATTAAATTAAAAACCCTAAA-CCTATAAC
* *** * * *
4827427 TTAAAAACGCTAACC-CCCTTAACTTAAAAACCCT-AA-CCTAATTAACGTAAAAACCCTAACCT
1 TTAAAAACCCTAACCTAATTTAA-TTAAAAACCTTAAACCCT-A--AACTTAAAAACCCTAACCC
* *
4827489 AATTTAATTAAAAACTCTAAACCCTA-AAC
62 AATTAAATTAAAAACCCTAAA-CCTATAAC
* * * * *
4827518 TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACTCTAAACTTAAAAACTCTAACCTAATT
1 TTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCCTAACCCAATT
* **
4827583 TAATTAAAAACTTTAAACCCT-TAAC
66 AAATTAAAAACCCTAAA-CCTATAAC
*** * *
4827608 TTAAAAACCCTAACC-CCCTTAACTTAAAAACC---CA-CCTAATTAACTTAAAAACCCTAACCT
1 TTAAAAACCCTAACCTAATTTAA-TTAAAAACCTTAAACCCT-A--AACTTAAAAACCCTAACCC
* * *
4827668 AAGTAAATTAAAAACCTTAGACCCTA-AAC
62 AATTAAATTAAAAACCCTA-AACCTATAAC
** * * *
4827697 TT-AAAACCCTAACCCCA-TTAACTTAAAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCT
1 TTAAAAACCCTAACCTAATTTAA-TTAAAAACCTTAAACCCT-A--AACTTAAAAACCCTAACCC
*
4827758 AATTTAATTAAAAACCCTAAAC
62 AATTAAATTAAAAACCCTAAAC
4827780 TAAATTAATA
Statistics
Matches: 546, Mismatches: 54, Indels: 72
0.81 0.08 0.11
Matches are distributed among these distances:
86 2 0.00
87 2 0.00
88 30 0.05
89 50 0.09
90 152 0.28
91 214 0.39
92 11 0.02
93 2 0.00
94 1 0.00
95 1 0.00
98 3 0.01
100 3 0.01
101 71 0.13
102 4 0.01
ACGTcount: A:0.48, C:0.26, G:0.01, T:0.26
Consensus pattern (90 bp):
TTAAAAACCCTAACCTAATTTAATTAAAAACCTTAAACCCTAAACTTAAAAACCCTAACCCAATT
AAATTAAAAACCCTAAACCTATAAC
Found at i:4827305 original size:45 final size:45
Alignment explanation
Indices: 4827241--4827779 Score: 548
Period size: 45 Copynumber: 12.0 Consensus size: 45
4827231 TTAAAAATCC
* *
4827241 TAAACTTAAAAATCCTAACCTAATTTAATTAAAAACTCTAAACCT
1 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCT
* *
4827286 TAAACTTAAAAACCCTAACCTAATTAAATTTAAAACCCTAAACCT
1 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCT
* *
4827331 TAAACTTAAAAACCCTAATCTAATTTAATTAAAAACTCT-AACC-
1 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCT
* * * *
4827374 TAATTTAATTAAAAACCCTGACCTAATTAAATTAAAAACCCTAAACCC
1 TAA---ACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCT
* ***
4827422 TAAACTTAAAAACGCTAACC-CCCTTAACTTAAAAACCCT-AACCT
1 TAAACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCT
* * * *
4827466 AATTAACGTAAAAACCCTAACCTAATTTAATTAAAAACTCTAAACCC
1 --TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCT
*
4827513 TAAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAA-CT
1 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCT
* **
4827557 CTAAACTTAAAAACTCTAACCTAATTTAATTAAAAACTTTAAACCCT
1 -TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAA-CCT
***
4827604 T-AACTTAAAAACCCTAACC-CCCTTAACTTAAAAACCC---ACCT
1 TAAACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACCT
* * * * * *
4827645 AATTAACTTAAAAACCCTAACCTAAGTAAATTAAAAACCTTAGACCC
1 --TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCT
**
4827692 TAAACTT-AAAACCCTAACCCCA-TTAACTTAAAAACCCT-AACCTAAT
1 TAAACTTAAAAACCCTAACCTAATTTAA-TTAAAAACCCTAAACC---T
4827738 TAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
1 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAAC
4827780 TAAATTAATA
Statistics
Matches: 407, Mismatches: 59, Indels: 54
0.78 0.11 0.10
Matches are distributed among these distances:
41 3 0.01
42 1 0.00
43 10 0.02
44 66 0.16
45 213 0.52
46 87 0.21
47 24 0.06
48 3 0.01
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (45 bp):
TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCT
Found at i:4827354 original size:90 final size:91
Alignment explanation
Indices: 4827239--4827779 Score: 629
Period size: 90 Copynumber: 6.0 Consensus size: 91
4827229 AATTAAAAAT
* * *
4827239 CCTAAACTTAAAAATCCTAACCTAATTTAA-TTAAAAACTCTAAACCT-TAAACTTAAAAACCCT
1 CCTAAACTTAAAAACCCTAACCCAATTTAACTTAAAAACCCT-AACCTATAAACTTAAAAACCCT
*
4827302 AACCTAATTAAATTTAAAACCCTAAAC
65 AACCTAATTAAATTAAAAACCCTAAAC
* * * * *
4827329 CTTAAACTTAAAAACCCTAATCTAATTTAA-TTAAAAACTCTAACCTAATTTAA-TTAAAAACCC
1 CCTAAACTTAAAAACCCTAACCCAATTTAACTTAAAAACCCTAACCT-A-TAAACTTAAAAACCC
*
4827392 TGACCTAATTAAATTAAAAACCCTAAAC
64 TAACCTAATTAAATTAAAAACCCTAAAC
* ** * *
4827420 CCTAAACTTAAAAACGCTAACCC-CCTTAACTTAAAAACCCTAACCTAATTAACGTAAAAACCCT
1 CCTAAACTTAAAAACCCTAACCCAATTTAACTTAAAAACCCTAACCT-ATAAACTTAAAAACCCT
* *
4827484 AACCTAATTTAATTAAAAACTCTAAAC
65 AACCTAATTAAATTAAAAACCCTAAAC
* * * * *
4827511 CCTAAACTTAAAAACCCTAACCTAA-TTAAATTAAAAACCCTAAACTCTAAACTTAAAAACTCTA
1 CCTAAACTTAAAAACCCTAACCCAATTTAACTTAAAAACCCTAACCTATAAACTTAAAAACCCTA
* **
4827575 ACCTAATTTAATTAAAAACTTTAAAC
66 ACCTAATTAAATTAAAAACCCTAAAC
* ** *
4827601 CCTTAACTTAAAAACCCTAACCC-CCTTAACTTAAAAACCC--ACCTAATTAACTTAAAAACCCT
1 CCTAAACTTAAAAACCCTAACCCAATTTAACTTAAAAACCCTAACCT-ATAAACTTAAAAACCCT
* * *
4827663 AACCTAAGTAAATTAAAAACCTTAGAC
65 AACCTAATTAAATTAAAAACCCTAAAC
*
4827690 CCTAAACTT-AAAACCCTAACCCCA-TTAACTTAAAAACCCTAACCTAATTAAA-TTAAAAACCC
1 CCTAAACTTAAAAACCCTAACCCAATTTAACTTAAAAACCCTAACCT-A-TAAACTTAAAAACCC
*
4827752 TAACCTAATTTAATTAAAAACCCTAAAC
64 TAACCTAATTAAATTAAAAACCCTAAAC
4827780 TAAATTAATA
Statistics
Matches: 393, Mismatches: 46, Indels: 24
0.85 0.10 0.05
Matches are distributed among these distances:
88 31 0.08
89 50 0.13
90 160 0.41
91 149 0.38
92 3 0.01
ACGTcount: A:0.48, C:0.25, G:0.01, T:0.26
Consensus pattern (91 bp):
CCTAAACTTAAAAACCCTAACCCAATTTAACTTAAAAACCCTAACCTATAAACTTAAAAACCCTA
ACCTAATTAAATTAAAAACCCTAAAC
Found at i:4827938 original size:116 final size:116
Alignment explanation
Indices: 4827782--4828025 Score: 409
Period size: 116 Copynumber: 2.1 Consensus size: 116
4827772 CCCTAAACTA
* ** *
4827782 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCCTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATG-TTTTGACTGATACTAACAAT
*
4827847 TAATAATTTTATAAAATTTGATAA-TTGTACTAATCATTAATACAATTTATC
65 TAATAATTTTATAAAATTTGATAATTTGTACTAACCATTAATACAATTTATC
4827898 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGATACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGATACTAACAATT
* *
4827963 AATAATTTTATATAATTTGATAATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATAAAATTTGATAATTTGTACTAACCATTAATACAATTTATC
4828014 AATTAATAATTT
1 AATTAATAATTT
4828026 CACAAACTTA
Statistics
Matches: 120, Mismatches: 7, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
115 40 0.33
116 80 0.67
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (116 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTGACTGATACTAACAATT
AATAATTTTATAAAATTTGATAATTTGTACTAACCATTAATACAATTTATC
Found at i:4831281 original size:124 final size:124
Alignment explanation
Indices: 4831034--4831409 Score: 513
Period size: 124 Copynumber: 3.0 Consensus size: 124
4831024 CCCAAACATG
*
4831034 CTACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCATG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTT-ACAAATTCTTCTCAAATAGCATCATG
* * * *
4831099 CTAGAAGCGATTTTATACTATTTTCTCAAAAACAT-AAAAAAATTTATTTCTTCCATGA-
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
** * * *
4831157 CTGACTGTAGCAAAAGTACGTCCACGAGGGTGCGATTTTACAAATTCTTCTCAAATAGCATCCTA
1 CT-ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATG
* * *
4831222 CTAGAAGTGCTTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCGATGAC
65 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
* * * *
4831282 CTACTGTAGCCAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTTTTCTCAAATAGCATCTTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGC
* *** *
4831347 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACTCGAAATTATTTCTTCCAAGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAAATTATTTCTTCCATGAC
4831407 CTA
1 CTA
4831410 AAAACCCTAA
Statistics
Matches: 220, Mismatches: 29, Indels: 6
0.86 0.11 0.02
Matches are distributed among these distances:
123 56 0.25
124 142 0.65
125 22 0.10
ACGTcount: A:0.33, C:0.22, G:0.15, T:0.31
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCATGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTCCATGAC
Found at i:4833195 original size:27 final size:26
Alignment explanation
Indices: 4833165--4833215 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
4833155 ATTAATTATG
4833165 TTAAATAATATTAAAACCTAAGTAATA
1 TTAAATAATATT-AAACCTAAGTAATA
*
4833192 TTAAATAATATTAAACTTAAGTAA
1 TTAAATAATATTAAACCTAAGTAA
4833216 CAAAAAGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.55, C:0.06, G:0.04, T:0.35
Consensus pattern (26 bp):
TTAAATAATATTAAACCTAAGTAATA
Found at i:4854794 original size:24 final size:24
Alignment explanation
Indices: 4854765--4854833 Score: 95
Period size: 24 Copynumber: 2.9 Consensus size: 24
4854755 TTTCTAGAAG
4854765 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGTATTTATTAGTATAATAT
* * *
4854789 ATTTAGCATATATTAGCATAATAT
1 ATTTAGTATTTATTAGTATAATAT
4854813 ATTT-GTCATTTATTAGTATAA
1 ATTTAGT-ATTTATTAGTATAA
4854834 AAATCTTTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 1 0.03
24 37 0.97
ACGTcount: A:0.38, C:0.04, G:0.09, T:0.49
Consensus pattern (24 bp):
ATTTAGTATTTATTAGTATAATAT
Found at i:4867124 original size:447 final size:447
Alignment explanation
Indices: 4866290--4867187 Score: 1589
Period size: 447 Copynumber: 2.0 Consensus size: 447
4866280 GCTGATTTCA
* *
4866290 AACTATCTCGGATCACTTTTACTTTTTCTTCAGTCTCACGTATCAAATTAACCATGTGTATCTTT
1 AACTATCTCGGATCACTTTTACTTTTTCTTCAGTCTCACGAATCAAATTAACCACGTGTATCTTT
*
4866355 TTCTCACTGATCTCAGTCTAGTGTAACAGATTTTGGCATTTACGACCATATAGAGCTTCATACGG
66 TTCTCACTGATCTCAGTCTAGTGTAACAGATTTTGGCATTTACGACCATACAGAGCTTCATACGG
*
4866420 TGCCATCTTTACGCTCAACTAATAACTGTTATTTTATGTGAATTCAACCAACGGAAAATATTTCT
131 TGCCATCTTTACGCTCAACTAATAACTGTTATTTTACGTGAATTCAACCAACGGAAAATATTTCT
* *
4866485 CCGAGCTGCGTTTGAACTCTAATACAAAACAAAAAAGCATATCCTCGAGTATCTAAATTACTCGC
196 CCCAGCTGCGTTCGAACTCTAATACAAAACAAAAAAGCATATCCTCGAGTATCTAAATTACTCGC
*
4866550 TCAGACTGATCGTCAGTCTGAGGACGAAATGCAGTTCTAAAATGCAACCGCATACCAAGAGCTTC
261 TCAGACTAATCGTCAGTCTGAGGACGAAATGCAGTTCTAAAATGCAACCGCATACCAAGAGCTTC
**
4866615 CTGTAACTTTTTCCAAAATCTTGACACAAATCACGGTTCTCTATTCAAAATGATGGAAACTGGTA
326 CTGTAACTTTTTCCAAAATCTTGACACAAATCACGAATCTCTATTCAAAATGATGGAAACTGGTA
*
4866680 CTCCGTGCAATCTGACAATCTAATAAATGTATAATTCATCTAATCTCTCAAGGGAGT
391 CTCCGTGCAATCTGACAATCTAAGAAATGTATAATTCATCTAATCTCTCAAGGGAGT
**
4866737 AACTATCTCGTCTCACTTTTACTTTTTCTTCAGTCTCACGAATCAAATTAACCACGTGTATCTTT
1 AACTATCTCGGATCACTTTTACTTTTTCTTCAGTCTCACGAATCAAATTAACCACGTGTATCTTT
* *
4866802 TTCTCACTGATCTTAGTCTAGTGTAACAGATTTTGGCATTTACGACCATACAGAGCTTCATATGG
66 TTCTCACTGATCTCAGTCTAGTGTAACAGATTTTGGCATTTACGACCATACAGAGCTTCATACGG
* * *
4866867 TGCCATCTTTACGCTCGACTGATAACTGTTATTTTACGTGAATTCAACCAATGGAAAATATTTCT
131 TGCCATCTTTACGCTCAACTAATAACTGTTATTTTACGTGAATTCAACCAACGGAAAATATTTCT
* *
4866932 CCCAGCTGCGTTCGAACTCTAATACATAACAACAAAGCATATCCTCGAGTATCTAAATTACTCGC
196 CCCAGCTGCGTTCGAACTCTAATACAAAACAAAAAAGCATATCCTCGAGTATCTAAATTACTCGC
* * *
4866997 TCAGACTAATCGTCGGTCTGAGGATGAAATTCAGTTCTAAAATGCAACCGCATACCAAGAGCTTC
261 TCAGACTAATCGTCAGTCTGAGGACGAAATGCAGTTCTAAAATGCAACCGCATACCAAGAGCTTC
*
4867062 CTGTAACTTTTTCCAAAATCTTGACACAAATCGCGAATCTCTATTCAAAATGATGGAAACTGGTA
326 CTGTAACTTTTTCCAAAATCTTGACACAAATCACGAATCTCTATTCAAAATGATGGAAACTGGTA
4867127 CTCCGTGCAATCTGACAATCTAAGAAATGTATAATTCATCTAATCTCTCAAGGGAGT
391 CTCCGTGCAATCTGACAATCTAAGAAATGTATAATTCATCTAATCTCTCAAGGGAGT
4867184 AACT
1 AACT
4867188 TGTCCGTACC
Statistics
Matches: 428, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
447 428 1.00
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.32
Consensus pattern (447 bp):
AACTATCTCGGATCACTTTTACTTTTTCTTCAGTCTCACGAATCAAATTAACCACGTGTATCTTT
TTCTCACTGATCTCAGTCTAGTGTAACAGATTTTGGCATTTACGACCATACAGAGCTTCATACGG
TGCCATCTTTACGCTCAACTAATAACTGTTATTTTACGTGAATTCAACCAACGGAAAATATTTCT
CCCAGCTGCGTTCGAACTCTAATACAAAACAAAAAAGCATATCCTCGAGTATCTAAATTACTCGC
TCAGACTAATCGTCAGTCTGAGGACGAAATGCAGTTCTAAAATGCAACCGCATACCAAGAGCTTC
CTGTAACTTTTTCCAAAATCTTGACACAAATCACGAATCTCTATTCAAAATGATGGAAACTGGTA
CTCCGTGCAATCTGACAATCTAAGAAATGTATAATTCATCTAATCTCTCAAGGGAGT
Found at i:4873287 original size:21 final size:21
Alignment explanation
Indices: 4873251--4873306 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
4873241 GCACACTCAA
* *
4873251 ATGCATCCAAAACAAAGCCAG
1 ATGCATCCACAACAAAACCAG
* *
4873272 ATGCATCCACACCAAAATCAG
1 ATGCATCCACAACAAAACCAG
*
4873293 ATGCAGCCACAACA
1 ATGCATCCACAACA
4873307 CTTTTCAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.45, C:0.32, G:0.12, T:0.11
Consensus pattern (21 bp):
ATGCATCCACAACAAAACCAG
Found at i:4877615 original size:5 final size:5
Alignment explanation
Indices: 4877605--4877629 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
4877595 TCATTATGTG
4877605 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
4877630 TTGTTTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:4880946 original size:30 final size:30
Alignment explanation
Indices: 4880912--4881106 Score: 139
Period size: 30 Copynumber: 6.5 Consensus size: 30
4880902 AGCCAAAGCT
*
4880912 ATCCCTTTTCATAATTTGATGGTTGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
* ** *
4880942 ATCCCTTGTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACC
** *** *
4880972 ATCCCTTTTCATAATTTGAT-AACCAAAGCT
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
* * *** *
4881002 ATCCCTTTTCATAGTTCGATAACCG-AAGCC
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CC
*
4881032 ATCCCTTTTCAT-ATTTCGATGGTCGTCAGC
1 ATCCCTTTTCATAATTT-GATGGTCGTCACC
*
4881062 ATCCCTTTTCAT--TGTTGATGGTCATCACC
1 ATCCCTTTTCATAAT-TTGATGGTCGTCACC
*
4881091 ATCCCTTCTCATAATT
1 ATCCCTTTTCATAATT
4881107 GTTAGCTGGA
Statistics
Matches: 128, Mismatches: 30, Indels: 14
0.74 0.17 0.08
Matches are distributed among these distances:
29 27 0.21
30 97 0.76
31 4 0.03
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACC
Found at i:4880976 original size:60 final size:60
Alignment explanation
Indices: 4880912--4881106 Score: 191
Period size: 60 Copynumber: 3.3 Consensus size: 60
4880902 AGCCAAAGCT
* *
4880912 ATCCCTTTTCATAATTTGATGGTTGTCACCATCCCTTGTCATTGTTCGATGGTCGTCACC
1 ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATTGTTCGATGGTCGTCACC
** *** * * *** *
4880972 ATCCCTTTTCATAATTTGAT-AACCAAAGCTATCCCTTTTCATAGTTCGATAACCG-AAGCC
1 ATCCCTTTTCATAATTTGATGGTCGTCA-CCATCCCTTTTCATTGTTCGATGGTCGTCA-CC
* *
4881032 ATCCCTTTTCAT-ATTTCGATGGTCGTCAGCATCCCTTTTCATTGTT-GATGGTCATCACC
1 ATCCCTTTTCATAATTT-GATGGTCGTCACCATCCCTTTTCATTGTTCGATGGTCGTCACC
*
4881091 ATCCCTTCTCATAATT
1 ATCCCTTTTCATAATT
4881107 GTTAGCTGGA
Statistics
Matches: 102, Mismatches: 27, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
59 23 0.23
60 77 0.75
61 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.13, T:0.38
Consensus pattern (60 bp):
ATCCCTTTTCATAATTTGATGGTCGTCACCATCCCTTTTCATTGTTCGATGGTCGTCACC
Found at i:4881003 original size:90 final size:90
Alignment explanation
Indices: 4880904--4881073 Score: 227
Period size: 90 Copynumber: 1.9 Consensus size: 90
4880894 AGTTCAAAAG
* **** *
4880904 CCAAAGCTATCCCTTTTCATAATTTGATGGTTGTCA-CCATCCCTTGTCAT-TGTTCGATGGTCG
1 CCAAAGCTATCCCTTTTCATAATTCGATAACCG-AAGCCATCCCTTGTCATAT-TTCGATGGTCG
4880967 TCACCATCCCTTTTCATAATTTGATAA
64 TCACCATCCCTTTTCATAATTTGATAA
* *
4880994 CCAAAGCTATCCCTTTTCATAGTTCGATAACCGAAGCCATCCCTTTTCATATTTCGATGGTCGTC
1 CCAAAGCTATCCCTTTTCATAATTCGATAACCGAAGCCATCCCTTGTCATATTTCGATGGTCGTC
*
4881059 AGCATCCCTTTTCAT
66 ACCATCCCTTTTCAT
4881074 TGTTGATGGT
Statistics
Matches: 69, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
89 1 0.01
90 67 0.97
91 1 0.01
ACGTcount: A:0.22, C:0.28, G:0.13, T:0.37
Consensus pattern (90 bp):
CCAAAGCTATCCCTTTTCATAATTCGATAACCGAAGCCATCCCTTGTCATATTTCGATGGTCGTC
ACCATCCCTTTTCATAATTTGATAA
Found at i:4883434 original size:27 final size:27
Alignment explanation
Indices: 4883395--4883651 Score: 239
Period size: 27 Copynumber: 9.5 Consensus size: 27
4883385 GATTCATGGG
* * *
4883395 AAAATGACAGAAATGCCCTTGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* *
4883422 AAAATGACTGAAATACCCTTGAATGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
*
4883449 AAAATGATTGAAATACCCTCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* * *
4883476 AAAATGA-TCGAAATGCCCCCAAAGGGT
1 AAAATGACT-GAAATACCCTCGAAGGGT
** *
4883503 AAAATGACCAAAATACCCTTGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
** *
4883530 AAAATGACCAAAATACCCCCGAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* *
4883557 AAAATTA-TCGAAATACCCTCGAAAGGT
1 AAAATGACT-GAAATACCCTCGAAGGGT
* ** * **
4883584 AAAATTACCAAAATATCCTTAAAGGGT
1 AAAATGACTGAAATACCCTCGAAGGGT
* * *
4883611 AAAATGACTAAAATACCCCCGAAGGAT
1 AAAATGACTGAAATACCCTCGAAGGGT
*
4883638 AAAATGACCGAAAT
1 AAAATGACTGAAAT
4883652 GATCAAAATG
Statistics
Matches: 189, Mismatches: 37, Indels: 8
0.81 0.16 0.03
Matches are distributed among these distances:
26 1 0.01
27 188 0.99
ACGTcount: A:0.44, C:0.18, G:0.18, T:0.19
Consensus pattern (27 bp):
AAAATGACTGAAATACCCTCGAAGGGT
Found at i:4883477 original size:54 final size:54
Alignment explanation
Indices: 4883395--4883708 Score: 277
Period size: 54 Copynumber: 5.6 Consensus size: 54
4883385 GATTCATGGG
* * * * *** *
4883395 AAAATGACAGAAATGCCCTTGAAGGGTAAAATGACTGAAATACCCTTGAATGGT
1 AAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAAGGGT
** * *
4883449 AAAATGATTGAAATACCCTCGAAGGGTAAAATGATCGAAATGCCCCCAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAAGGGT
* * * *
4883503 AAAATGACCAAAATACCCTTGAAGGGTAAAATGACCAAAATACCCCCGAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAAGGGT
* * * * * * **
4883557 AAAATTATCGAAATACCCTCGAAAGGTAAAATTACCAAAATATCCTTAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAAGGGT
** * *
4883611 AAAATGACTAAAATACCCCCGAAGGATAAAATGACCGAAATGATCAAAATGCCCTCAAAGGGT
1 AAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAAT-A-C------CCC-CAAAGGGT
* *
4883674 AAAATGATCGAAATACCCTCGTAGGGTAAAATGAC
1 AAAATGACCGAAATACCCTCGAAGGGTAAAATGAC
4883709 AGTTATAACC
Statistics
Matches: 204, Mismatches: 47, Indels: 9
0.78 0.18 0.03
Matches are distributed among these distances:
54 165 0.81
55 1 0.00
62 2 0.01
63 36 0.18
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (54 bp):
AAAATGACCGAAATACCCTCGAAGGGTAAAATGACCGAAATACCCCCAAAGGGT
Found at i:4883531 original size:81 final size:82
Alignment explanation
Indices: 4883395--4883652 Score: 326
Period size: 81 Copynumber: 3.2 Consensus size: 82
4883385 GATTCATGGG
** ** * *
4883395 AAAATGA-CAGAAATGCCCT-TGAAGGGTAAAATGACTGAAATACCCTTGAATGGTAAAATGATT
1 AAAATGATC-GAAATGCCCTCCAAAGGGTAAAATGACCAAAATACCCTTGAAGGGTAAAATGACT
* *
4883458 GAAATACCCTCGAAGGGT
65 AAAATACCCCCGAAGGGT
*
4883476 AAAATGATCGAAATGCCC-CCAAAGGGTAAAATGACCAAAATACCCTTGAAGGGTAAAATGACCA
1 AAAATGATCGAAATGCCCTCCAAAGGGTAAAATGACCAAAATACCCTTGAAGGGTAAAATGACTA
4883540 AAATACCCCCGAAGGGT
66 AAATACCCCCGAAGGGT
* * * * * *
4883557 AAAATTATCGAAATACCCTCGAAA-GGTAAAATTACCAAAATATCCTTAAAGGGTAAAATGACTA
1 AAAATGATCGAAATGCCCTCCAAAGGGTAAAATGACCAAAATACCCTTGAAGGGTAAAATGACTA
*
4883621 AAATACCCCCGAAGGAT
66 AAATACCCCCGAAGGGT
*
4883638 AAAATGACCGAAATG
1 AAAATGATCGAAATG
4883653 ATCAAAATGC
Statistics
Matches: 154, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
81 149 0.97
82 5 0.03
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (82 bp):
AAAATGATCGAAATGCCCTCCAAAGGGTAAAATGACCAAAATACCCTTGAAGGGTAAAATGACTA
AAATACCCCCGAAGGGT
Found at i:4883652 original size:36 final size:36
Alignment explanation
Indices: 4883612--4883687 Score: 91
Period size: 36 Copynumber: 2.1 Consensus size: 36
4883602 TTAAAGGGTA
*
4883612 AAATGA-CTAAAATACCCCCGAAGGATAAAATGACCG
1 AAATGATC-AAAATACCCCCAAAGGATAAAATGACCG
* * * *
4883648 AAATGATCAAAATGCCCTCAAAGGGTAAAATGATCG
1 AAATGATCAAAATACCCCCAAAGGATAAAATGACCG
4883684 AAAT
1 AAAT
4883688 ACCCTCGTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 33 0.97
37 1 0.03
ACGTcount: A:0.47, C:0.18, G:0.17, T:0.17
Consensus pattern (36 bp):
AAATGATCAAAATACCCCCAAAGGATAAAATGACCG
Found at i:4883687 original size:27 final size:27
Alignment explanation
Indices: 4883648--4883707 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
4883638 AAAATGACCG
*
4883648 AAATGATCAAAATGCCCTCAAAGGGTA
1 AAATGATCAAAATACCCTCAAAGGGTA
* **
4883675 AAATGATCGAAATACCCTCGTAGGGTA
1 AAATGATCAAAATACCCTCAAAGGGTA
4883702 AAATGA
1 AAATGA
4883708 CAGTTATAAC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.43, C:0.17, G:0.20, T:0.20
Consensus pattern (27 bp):
AAATGATCAAAATACCCTCAAAGGGTA
Found at i:4894410 original size:22 final size:21
Alignment explanation
Indices: 4894385--4894428 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
4894375 TGATAAAATT
4894385 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
4894407 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
4894428 T
1 T
4894429 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:4904314 original size:27 final size:26
Alignment explanation
Indices: 4904265--4904541 Score: 243
Period size: 27 Copynumber: 10.3 Consensus size: 26
4904255 ATTCATGGGC
* * *
4904265 AAATGACTGAAATGCCCTTGAAGGGTA
1 AAATGACCGAAAT-ACCTCGAAGGGTA
*
4904292 AAATGACCGGAATACACTCGAAGGGTA
1 AAATGACCGAAATAC-CTCGAAGGGTA
* *
4904319 AAATGATCGAAATACCCCTGAAGGGTA
1 AAATGACCGAAATACCTC-GAAGGGTA
* **
4904346 AAATGATCGAAATACCCTTTAAGGGTA
1 AAATGACCGAAATA-CCTCGAAGGGTA
* *
4904373 AAATGAACGAAATACCCTCGAAGAGTA
1 AAATGACCGAAATA-CCTCGAAGGGTA
**
4904400 AAATGATTGAAATATCCTCGAAGGGT-
1 AAATGACCGAAATA-CCTCGAAGGGTA
*
4904426 AAATGACCGAAATA-CTCCTAAAGGGTAA
1 AAATGACCGAAATACCT-C-GAAGGGT-A
* *
4904454 AAATGACCAAAATGCCTTCGAAGGGTA
1 AAATGACCGAAATACC-TCGAAGGGTA
* *
4904481 AAATGAACGAAATACCACTGAAGGGTA
1 AAATGACCGAAATACCTC-GAAGGGTA
* * *
4904508 AAATGATCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCTCGA-AGGGTA
4904535 AAATGAC
1 AAATGAC
4904542 TGTTATACCC
Statistics
Matches: 207, Mismatches: 32, Indels: 22
0.79 0.12 0.08
Matches are distributed among these distances:
24 2 0.01
25 1 0.00
26 23 0.11
27 158 0.76
28 20 0.10
29 2 0.01
30 1 0.00
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (26 bp):
AAATGACCGAAATACCTCGAAGGGTA
Found at i:4904331 original size:54 final size:52
Alignment explanation
Indices: 4904265--4904540 Score: 295
Period size: 54 Copynumber: 5.1 Consensus size: 52
4904255 ATTCATGGGC
* * *
4904265 AAATG-ACTGAAATGCCCTTGAAGGGTAAAATGACCGGAATACACTCGAAGGGTA
1 AAATGAAC-GAAATACCC-TGAAGGGTAAAATGATCGAAATAC-CTCGAAGGGTA
* **
4904319 AAATGATCGAAATACCCCTGAAGGGTAAAATGATCGAAATACCCTTTAAGGGTA
1 AAATGAACGAAATA-CCCTGAAGGGTAAAATGATCGAAATA-CCTCGAAGGGTA
* *
4904373 AAATGAACGAAATACCCTCGAAGAGTAAAATGATTGAAATATCCTCGAAGGGT-
1 AAATGAACGAAATACCCT-GAAGGGTAAAATGATCGAAATA-CCTCGAAGGGTA
* * * * *
4904426 AAATGACCGAAATACTCCTAAAGGGTAAAAATGACCAAAATGCCTTCGAAGGGTA
1 AAATGAACGAAATAC-CCTGAAGGGT-AAAATGATCGAAATACC-TCGAAGGGTA
* *
4904481 AAATGAACGAAATACCACTGAAGGGTAAAATGATCGAAATACCCCCATAGGGTA
1 AAATGAACGAAATACC-CTGAAGGGTAAAATGATCGAAATACCTCGA-AGGGTA
4904535 AAATGA
1 AAATGA
4904541 CTGTTATACC
Statistics
Matches: 186, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
53 27 0.15
54 132 0.71
55 27 0.15
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (52 bp):
AAATGAACGAAATACCCTGAAGGGTAAAATGATCGAAATACCTCGAAGGGTA
Found at i:4904401 original size:81 final size:81
Alignment explanation
Indices: 4904265--4904541 Score: 328
Period size: 81 Copynumber: 3.4 Consensus size: 81
4904255 ATTCATGGGC
* * * *
4904265 AAATGA-CTGAAATGCCCTTGAAGGGTAAAATGACCGGAATACACTCGAAGGGTAAAATGATCGA
1 AAATGATC-GAAATACCCTTAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGA
4904329 AATACCCCTGAAGGGTA
65 AATACCCCTGAAGGGTA
* * * *
4904346 AAATGATCGAAATACCCTTTAAGGGTAAAATGAACGAAATACCCTCGAAGAGTAAAATGATTGAA
1 AAATGATCGAAATACCCTTAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAA
*
4904411 ATA-TCCTCGAAGGGT-
66 ATACCCCT-GAAGGGTA
* * * * *
4904426 AAATGACCGAAATACTCC-TAAAGGGTAAAAATGACCAAAATGCCTTCGAAGGGTAAAATGAACG
1 AAATGATCGAAATAC-CCTTAAAGGGT-AAAATGACCGAAATACCCTCGAAGGGTAAAATGATCG
*
4904490 AAATACCACTGAAGGGTA
64 AAATACCCCTGAAGGGTA
** *
4904508 AAATGATCGAAATACCCCCATAGGGTAAAATGAC
1 AAATGATCGAAATACCCTTAAAGGGTAAAATGAC
4904542 TGTTATACCC
Statistics
Matches: 167, Mismatches: 22, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
80 24 0.14
81 120 0.72
82 23 0.14
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.19
Consensus pattern (81 bp):
AAATGATCGAAATACCCTTAAAGGGTAAAATGACCGAAATACCCTCGAAGGGTAAAATGATCGAA
ATACCCCTGAAGGGTA
Found at i:4904966 original size:28 final size:28
Alignment explanation
Indices: 4904934--4905000 Score: 116
Period size: 28 Copynumber: 2.4 Consensus size: 28
4904924 CTCACATTAC
*
4904934 ACTGTTACTGCTTAGGGCTAAGGCTCAG
1 ACTGTTACTGCTTAGGGCTAAGGCTCAA
*
4904962 ACTGTTACTACTTAGGGCTAAGGCTCAA
1 ACTGTTACTGCTTAGGGCTAAGGCTCAA
4904990 ACTGTTACTGC
1 ACTGTTACTGC
4905001 ATGTCGTATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (28 bp):
ACTGTTACTGCTTAGGGCTAAGGCTCAA
Found at i:4907302 original size:10 final size:10
Alignment explanation
Indices: 4907287--4907314 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
4907277 CCGTTTAAGT
4907287 TTTAATTTCC
1 TTTAATTTCC
4907297 TTTAATTTCC
1 TTTAATTTCC
4907307 TTTAATTT
1 TTTAATTT
4907315 GATATATGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTAATTTCC
Found at i:4908353 original size:40 final size:40
Alignment explanation
Indices: 4908297--4908547 Score: 286
Period size: 40 Copynumber: 6.3 Consensus size: 40
4908287 ATACTCTCTA
* *
4908297 TTTGGCGTGTTCTGGTTGGATCAACTCTCATGAGCTTCTG
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
*
4908337 TTTGGCGTGTTTTGGTTGGATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
* * *
4908377 TTTAGCGTGTTTTGGTTGAATCAGCTCTTATGAGCTTCTG
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
* * * * * * *
4908417 TTTAGTGTGTTTCGATCGGATCAACTCTTATGAGCTTTTA
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
* * *
4908457 TTTGGCATTTTTTGGTTGGATCAACTCTTATGAGCTTTTG
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
* ** * * *
4908497 TTTGGTGTGTTTCAGCTGGATCAACTCTTACGAGCCTCTG
1 TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
* *
4908537 TCTGGTGTGTT
1 TTTGGCGTGTT
4908548 CGATTTATCT
Statistics
Matches: 180, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 180 1.00
ACGTcount: A:0.14, C:0.16, G:0.25, T:0.44
Consensus pattern (40 bp):
TTTGGCGTGTTTTGGTTGGATCAACTCTTATGAGCTTCTG
Found at i:4921156 original size:51 final size:51
Alignment explanation
Indices: 4921080--4921300 Score: 200
Period size: 51 Copynumber: 4.4 Consensus size: 51
4921070 TATGAACACG
* * *
4921080 TGTGTAGTACTAAGTGCAGGCTACTACATGTATC-GATAGATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT-GACAATGGTCACA
* * * ** *
4921131 TGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATGACCTTGGTCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGACAATGGTCACA
* * * * * * *
4921182 TGTGTAGTACTATGTGCAGGCTAATATGTG-AACTAGA-AAGC-TTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATC-AGATGA-CAATGGTCACA
* *
4921232 TCTGTAGTACTATGTGTAGGCTACTACGTGTATCAGATGACAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGACAATGGTCACA
*
4921283 TCG-GTGGTACTATGTGCA
1 T-GTGTAGTACTATGTGCA
4921301 AACCACTAAA
Statistics
Matches: 138, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
50 41 0.30
51 94 0.68
52 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGATGACAATGGTCACA
Found at i:4921253 original size:50 final size:51
Alignment explanation
Indices: 4921133--4921254 Score: 156
Period size: 50 Copynumber: 2.4 Consensus size: 51
4921123 TGGTCACATG
* * * * * *
4921133 TGTAGTACTATGTGCAGGCTACTATGTGTACCGGATGACCTTGGTCACGTG
1 TGTAGTACTATGTGCAGGCTAATATGTGAACCAGATAACCTTGATCACGTC
* *
4921184 TGTAGTACTATGTGCAGGCTAATATGTGAACTAGA-AAGCTTGATCACGTC
1 TGTAGTACTATGTGCAGGCTAATATGTGAACCAGATAACCTTGATCACGTC
*
4921234 TGTAGTACTATGTGTAGGCTA
1 TGTAGTACTATGTGCAGGCTA
4921255 CTACGTGTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
50 31 0.50
51 31 0.50
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (51 bp):
TGTAGTACTATGTGCAGGCTAATATGTGAACCAGATAACCTTGATCACGTC
Found at i:4925132 original size:16 final size:15
Alignment explanation
Indices: 4925105--4925138 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
4925095 ATAACAAGTA
*
4925105 TATAATTATATTTAT
1 TATAATTATATTAAT
4925120 TATAATATATATTAAT
1 TATAAT-TATATTAAT
4925136 TAT
1 TAT
4925139 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:4931142 original size:5 final size:5
Alignment explanation
Indices: 4931132--4931162 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
4931122 GTAGTTGAAA
*
4931132 CTTTT CTTTT CTTTC CTTTT CTTTT CTTTT C
1 CTTTT CTTTT CTTTT CTTTT CTTTT CTTTT C
4931163 AGGGTCACAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (5 bp):
CTTTT
Found at i:4934703 original size:16 final size:16
Alignment explanation
Indices: 4934682--4934713 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4934672 TGATTGAAAG
*
4934682 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
4934698 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
4934714 GCAACGAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:4935412 original size:16 final size:16
Alignment explanation
Indices: 4935391--4935431 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
4935381 GAATGAATTT
4935391 TGTATAATTGGTTAAA
1 TGTATAATTGGTTAAA
4935407 TGTATAATTGGTTAAA
1 TGTATAATTGGTTAAA
*
4935423 TGTCTAATT
1 TGTATAATT
4935432 ATAATCGATA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TGTATAATTGGTTAAA
Found at i:4942078 original size:74 final size:73
Alignment explanation
Indices: 4941877--4942125 Score: 254
Period size: 76 Copynumber: 3.4 Consensus size: 73
4941867 ATAAATATAC
* * * * * ** *
4941877 ATATTATTGATGTAAAATATAGTATAATACAATATAAACAATTTTTTCA-TTTCTCGTAGATTGT
1 ATATTATTGATATAAAATACAATAGAATACAATACAAACAATTTTTAAATTTTTTCGTAGATTGT
4941941 AAATAAGT
66 AAATAAGT
* ** * *
4941949 ATATTATT--TAAAAAGCATATGATAGAATACAATACAAAC-ATTTATTAATTTTTTTTTGTAGA
1 ATATTATTGATATAAA--ATACAATAGAATACAATACAAACAATTT-TTAA-ATTTTTTCGTAGA
4942011 TTGTAAATAAGTAT
62 TTGTAAATAAG--T
* * *
4942025 ATATTATTGATATAAAATACAAAAGAATGCAATACAAACAATTTTTAAATTTTTTTCTTAGATTG
1 ATATTATTGATATAAAATACAATAGAATACAATACAAACAATTTTTAAA-TTTTTTCGTAGATTG
4942090 TAAATAAGT
65 TAAATAAGT
*
4942099 ATATTATTGATGTAAAATACAATAGAA
1 ATATTATTGATATAAAATACAATAGAA
4942126 AGACTTTTTT
Statistics
Matches: 145, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
70 4 0.03
71 4 0.03
72 29 0.20
74 46 0.32
76 53 0.37
77 4 0.03
78 5 0.03
ACGTcount: A:0.45, C:0.06, G:0.09, T:0.40
Consensus pattern (73 bp):
ATATTATTGATATAAAATACAATAGAATACAATACAAACAATTTTTAAATTTTTTCGTAGATTGT
AAATAAGT
Found at i:4943162 original size:25 final size:25
Alignment explanation
Indices: 4943117--4943289 Score: 181
Period size: 25 Copynumber: 7.0 Consensus size: 25
4943107 GTCATTAGGG
* * *
4943117 TTACCGAT-TTCAGCTCTTATGAGC
1 TTACCGTTATTCAGCTCGTAGGAGC
* * *
4943141 TTACCGATACTCAGCTCGTATGAGC
1 TTACCGTTATTCAGCTCGTAGGAGC
* * *
4943166 TTACCGTTATTCAGCTTGGAGGAGT
1 TTACCGTTATTCAGCTCGTAGGAGC
*
4943191 TTACCGTTATTCAGCTCGAAGGAGC
1 TTACCGTTATTCAGCTCGTAGGAGC
*
4943216 TTACCGTTATTCAGCTCGAAGGAGC
1 TTACCGTTATTCAGCTCGTAGGAGC
* *
4943241 TTACCGTTATTTAGCTCAG-AAGAGC
1 TTACCGTTATTCAGCTC-GTAGGAGC
* *
4943266 TTACCGTT-TACAGCTCGTATGAGC
1 TTACCGTTATTCAGCTCGTAGGAGC
4943290 ATACATGTAC
Statistics
Matches: 130, Mismatches: 16, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
23 1 0.01
24 19 0.15
25 109 0.84
26 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.22, T:0.32
Consensus pattern (25 bp):
TTACCGTTATTCAGCTCGTAGGAGC
Found at i:4945081 original size:26 final size:25
Alignment explanation
Indices: 4945039--4945089 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
4945029 TTTCTCATCC
*
4945039 CAATTTTATCCCGGTAAAATTTTGA
1 CAATTTTACCCCGGTAAAATTTTGA
4945064 CAATTTTACCCCCGGTAAAATTTTGA
1 CAATTTTA-CCCCGGTAAAATTTTGA
4945090 GAAAATTAGT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (25 bp):
CAATTTTACCCCGGTAAAATTTTGA
Found at i:4950237 original size:23 final size:23
Alignment explanation
Indices: 4950211--4950332 Score: 190
Period size: 23 Copynumber: 5.3 Consensus size: 23
4950201 ATAAGTGCCA
4950211 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
4950234 CACTGATACGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* * *
4950257 CACTAAAATGTAGCTGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
4950280 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
4950303 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
4950326 CACTGAT
1 CACTGAT
4950333 CAATAACACT
Statistics
Matches: 87, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 87 1.00
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:4950584 original size:18 final size:17
Alignment explanation
Indices: 4950558--4950596 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
4950548 ATTTTCCTTC
4950558 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
4950575 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
4950593 CACA
1 CACA
4950597 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:4952931 original size:21 final size:22
Alignment explanation
Indices: 4952897--4952937 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
4952887 AGTGAAATAG
4952897 ATTTTAGTAAAATTA-AACACA
1 ATTTTAGTAAAATTATAACACA
4952918 ATTTT-GTAACAATTATAACA
1 ATTTTAGTAA-AATTATAACA
4952938 TAAATAAACT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.37
Consensus pattern (22 bp):
ATTTTAGTAAAATTATAACACA
Found at i:4953754 original size:34 final size:34
Alignment explanation
Indices: 4953709--4953778 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
4953699 GAGGGGGAAA
* *
4953709 GATAGCTAAGAGATTTGAGAGATGAGAGAATGAT
1 GATAGCAAAGAGATTTGAGAGAGGAGAGAATGAT
4953743 GATAGCAAAGAGATTTGAGAGAGGAGAGAATGAT
1 GATAGCAAAGAGATTTGAGAGAGGAGAGAATGAT
4953777 GA
1 GA
4953779 ATGAGTGAGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.43, C:0.03, G:0.34, T:0.20
Consensus pattern (34 bp):
GATAGCAAAGAGATTTGAGAGAGGAGAGAATGAT
Found at i:4957625 original size:5 final size:5
Alignment explanation
Indices: 4957617--4957642 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
4957607 GAGATGGAAT
4957617 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
4957643 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:4957642 original size:26 final size:26
Alignment explanation
Indices: 4957591--4957642 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
4957581 TGAAGTTTTC
* * *
4957591 TCGAATCGAGTCGAGTGAGATGGAAT
1 TCGAATCGAATCGAATGAGATCGAAT
4957617 TCGAATCGAATCGAATCGA-ATCGAAT
1 TCGAATCGAATCGAAT-GAGATCGAAT
4957643 ATATTTGTTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.23
Consensus pattern (26 bp):
TCGAATCGAATCGAATGAGATCGAAT
Found at i:4958545 original size:9 final size:9
Alignment explanation
Indices: 4958531--4958567 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4958521 TATAGTTTAA
4958531 TATTCGAAT
1 TATTCGAAT
4958540 TATTCGAAT
1 TATTCGAAT
*
4958549 TATTCGAGT
1 TATTCGAAT
4958558 TATTCGAAT
1 TATTCGAAT
4958567 T
1 T
4958568 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:4966297 original size:68 final size:70
Alignment explanation
Indices: 4966217--4966358 Score: 252
Period size: 70 Copynumber: 2.1 Consensus size: 70
4966207 TGATGATATG
*
4966217 GAATTTTATATATACATATCTATAATACTC-G-AAAAAGAAAGCATATAAATGACTACATGAACC
1 GAATTTTATATATACATATCTATAATACTCGGAAAAAAAAAAGCATATAAATGACTACATGAACC
4966280 TATTA
66 TATTA
*
4966285 GAATTTTATATATACATATCTATAATACTCGGAAAAAAAAAAGCATATTAATGACTACATGAACC
1 GAATTTTATATATACATATCTATAATACTCGGAAAAAAAAAAGCATATAAATGACTACATGAACC
4966350 TATTA
66 TATTA
4966355 GAAT
1 GAAT
4966359 CGAGGCCTGA
Statistics
Matches: 70, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
68 30 0.43
69 1 0.01
70 39 0.56
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (70 bp):
GAATTTTATATATACATATCTATAATACTCGGAAAAAAAAAAGCATATAAATGACTACATGAACC
TATTA
Found at i:4969929 original size:17 final size:17
Alignment explanation
Indices: 4969907--4969942 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
4969897 ATTAGAACAT
4969907 TCTTTCTTAATCATTAA
1 TCTTTCTTAATCATTAA
4969924 TCTTTCTTAATCATTAA
1 TCTTTCTTAATCATTAA
4969941 TC
1 TC
4969943 ATTAGAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.19, G:0.00, T:0.53
Consensus pattern (17 bp):
TCTTTCTTAATCATTAA
Found at i:4971365 original size:27 final size:27
Alignment explanation
Indices: 4971335--4971457 Score: 95
Period size: 27 Copynumber: 4.5 Consensus size: 27
4971325 TTTCCATTCT
*
4971335 AAATATGCCACAAAAGCTTTCTATTTA
1 AAATACGCCACAAAAGCTTTCTATTTA
*
4971362 AAATACGCCAC-AAAGCCTTTCCATTTA
1 AAATACGCCACAAAAG-CTTTCTATTTA
* * * * **
4971389 GAATACACCATAAAGGCTTTCTATTCC
1 AAATACGCCACAAAAGCTTTCTATTTA
* * * * *
4971416 AAATACACCACAAAGGATTTTTCATTCA
1 AAATACGCCACAAAAGCTTTCT-ATTTA
*
4971444 GAATACGCCACAAA
1 AAATACGCCACAAA
4971458 GACTTTCCAT
Statistics
Matches: 77, Mismatches: 16, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.05
27 54 0.70
28 19 0.25
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (27 bp):
AAATACGCCACAAAAGCTTTCTATTTA
Found at i:4971410 original size:54 final size:54
Alignment explanation
Indices: 4971324--4971430 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 54
4971314 GTATTACAGG
** * *
4971324 CTTTCCATTCTAAATATGCCACAAAAGCTTTCTATTTAAAATACGCCACAAAGC
1 CTTTCCATTCTAAATACACCACAAAAGCTTTCTATTCAAAATACACCACAAAGC
* * *
4971378 CTTTCCATT-TAGAATACACCATAAAGGCTTTCTATTCCAAATACACCACAAAG
1 CTTTCCATTCTA-AATACACCACAAAAGCTTTCTATTCAAAATACACCACAAAG
4971431 GATTTTTCAT
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
53 2 0.04
54 43 0.96
ACGTcount: A:0.37, C:0.26, G:0.07, T:0.29
Consensus pattern (54 bp):
CTTTCCATTCTAAATACACCACAAAAGCTTTCTATTCAAAATACACCACAAAGC
Found at i:4979991 original size:7 final size:7
Alignment explanation
Indices: 4979981--4980015 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
4979971 ACCTGTAACT
4979981 CTCGACC
1 CTCGACC
4979988 CTCGACC
1 CTCGACC
4979995 CTCGACC
1 CTCGACC
*
4980002 CTTGACC
1 CTCGACC
*
4980009 CTAGACC
1 CTCGACC
4980016 TTGAAACTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.17, C:0.51, G:0.14, T:0.17
Consensus pattern (7 bp):
CTCGACC
Found at i:4980030 original size:20 final size:21
Alignment explanation
Indices: 4980002--4980041 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
4979992 ACCCTCGACC
4980002 CTTGACCCT-AGACCTTGAAA
1 CTTGACCCTCAGACCTTGAAA
*
4980022 CTTGGCCCTCAGACCTTGAA
1 CTTGACCCTCAGACCTTGAA
4980042 CCATGAACCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.25, C:0.33, G:0.17, T:0.25
Consensus pattern (21 bp):
CTTGACCCTCAGACCTTGAAA
Found at i:4980057 original size:7 final size:7
Alignment explanation
Indices: 4980048--4980136 Score: 81
Period size: 7 Copynumber: 12.7 Consensus size: 7
4980038 TGAACCATGA
*
4980048 ACCTTAA
1 ACCTTAG
* *
4980055 ACCCTAA
1 ACCTTAG
4980062 ACCTTAG
1 ACCTTAG
* *
4980069 GCCTTAA
1 ACCTTAG
*
4980076 ACCTTGG
1 ACCTTAG
*
4980083 ACCCT-G
1 ACCTTAG
4980089 AACCTTAG
1 -ACCTTAG
4980097 ACCTTAG
1 ACCTTAG
4980104 ACCTTAG
1 ACCTTAG
4980111 ACCTTAG
1 ACCTTAG
*
4980118 ACTTTAG
1 ACCTTAG
*
4980125 ACCTTAA
1 ACCTTAG
4980132 ACCTT
1 ACCTT
4980137 GGACACTAGA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
6 1 0.01
7 65 0.97
8 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.28
Consensus pattern (7 bp):
ACCTTAG
Found at i:4980146 original size:21 final size:21
Alignment explanation
Indices: 4980089--4980148 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
4980079 TTGGACCCTG
4980089 AACCTTAGAC-CTTAGACCTTA
1 AACCTTAGACAC-TAGACCTTA
* **
4980110 GACCTTAGACTTTAGACCTTA
1 AACCTTAGACACTAGACCTTA
*
4980131 AACCTTGGACACTAGACC
1 AACCTTAGACACTAGACC
4980149 ATGGGCTATG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.28, G:0.13, T:0.27
Consensus pattern (21 bp):
AACCTTAGACACTAGACCTTA
Found at i:4982551 original size:106 final size:106
Alignment explanation
Indices: 4982417--4982733 Score: 607
Period size: 106 Copynumber: 3.0 Consensus size: 106
4982407 AATGATCCTC
* *
4982417 TGTGTCCTAGATGCTATCAAGCTGCTGAAGATGTGAACCATGTCCTATGTTTTTGTGCTTTTGCC
1 TGTGTCCTAGATCCTATCAAGCTGCTGAAGATGTGAATCATGTCCTATGTTTTTGTGCTTTTGCC
4982482 AAGGAAGTGTGGCTTGCTTTGAACCATGAAAGTCCAGGAAG
66 AAGGAAGTGTGGCTTGCTTTGAACCATGAAAGTCCAGGAAG
4982523 TGTGTCCTAGATCCTATCAAGCTGCTGAAGATGTGAATCATGTCCTATGTTTTTGTGCTTTTGCC
1 TGTGTCCTAGATCCTATCAAGCTGCTGAAGATGTGAATCATGTCCTATGTTTTTGTGCTTTTGCC
4982588 AAGGAAGTGTGGCTTGCTTTGAACCATGAAAGTCCAGGAAG
66 AAGGAAGTGTGGCTTGCTTTGAACCATGAAAGTCCAGGAAG
4982629 TGTGTCCTAGATCCTATCAAGCTGCTGAAGATGTGAATCATGTCCTATGTTTTTGTGCTTTTGCC
1 TGTGTCCTAGATCCTATCAAGCTGCTGAAGATGTGAATCATGTCCTATGTTTTTGTGCTTTTGCC
*
4982694 AAGGAAGTGTGGCTTGCTTTGAACCATGATAGTCCAGGAA
66 AAGGAAGTGTGGCTTGCTTTGAACCATGAAAGTCCAGGAA
4982734 ATAATGACCA
Statistics
Matches: 208, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 208 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (106 bp):
TGTGTCCTAGATCCTATCAAGCTGCTGAAGATGTGAATCATGTCCTATGTTTTTGTGCTTTTGCC
AAGGAAGTGTGGCTTGCTTTGAACCATGAAAGTCCAGGAAG
Found at i:4985423 original size:18 final size:17
Alignment explanation
Indices: 4985395--4985462 Score: 75
Period size: 18 Copynumber: 3.9 Consensus size: 17
4985385 GTCATCTTTC
4985395 ATTATT-TATTATTACT
1 ATTATTATATTATTACT
*
4985411 ATTATTATTATTATTATT
1 ATTATTA-TATTATTACT
*
4985429 ATTACTTATATTATTGCT
1 ATTA-TTATATTATTACT
*
4985447 ACTTATCATATTATTA
1 A-TTATTATATTATTA
4985463 TATAATAGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
16 6 0.14
18 31 0.72
19 6 0.14
ACGTcount: A:0.32, C:0.07, G:0.01, T:0.59
Consensus pattern (17 bp):
ATTATTATATTATTACT
Found at i:4985440 original size:15 final size:15
Alignment explanation
Indices: 4985410--4985462 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
4985400 TTATTATTAC
4985410 TATTATTA-TTATTAT
1 TATTATTACTTA-TAT
4985425 TATTATTACTTATAT
1 TATTATTACTTATAT
**
4985440 TATTGCTACTTATCA-
1 TATTATTACTTAT-AT
4985455 TATTATTA
1 TATTATTA
4985463 TATAATAGCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
15 28 0.88
16 4 0.12
ACGTcount: A:0.32, C:0.08, G:0.02, T:0.58
Consensus pattern (15 bp):
TATTATTACTTATAT
Found at i:4985463 original size:3 final size:3
Alignment explanation
Indices: 4985395--4985443 Score: 64
Period size: 3 Copynumber: 16.0 Consensus size: 3
4985385 GTCATCTTTC
*
4985395 ATT ATTT ATT ATT ACT ATT ATT ATT ATT ATT ATT ATT ACTT A-T ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT
4985441 ATT
1 ATT
4985444 GCTACTTATC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
2 2 0.05
3 33 0.80
4 6 0.15
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:4988806 original size:12 final size:12
Alignment explanation
Indices: 4988789--4988814 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
4988779 TGAATCACTA
4988789 TATAGTAAAGTT
1 TATAGTAAAGTT
4988801 TATAGTAAAGTT
1 TATAGTAAAGTT
4988813 TA
1 TA
4988815 ACAGAATCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (12 bp):
TATAGTAAAGTT
Found at i:4990538 original size:9 final size:9
Alignment explanation
Indices: 4990524--4990560 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
4990514 TATAGTTTAA
4990524 TATTCGAAT
1 TATTCGAAT
4990533 TATTCGAAT
1 TATTCGAAT
*
4990542 TATTCGAGT
1 TATTCGAAT
4990551 TATTCGAAT
1 TATTCGAAT
4990560 T
1 T
4990561 TGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:4991422 original size:3 final size:3
Alignment explanation
Indices: 4991416--4991451 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
4991406 ATGTGCATGT
4991416 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
4991452 AAATACGACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:4991638 original size:21 final size:22
Alignment explanation
Indices: 4991614--4991655 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 22
4991604 CTTATTATAT
4991614 TAAA-TATATATGATT-AAATAC
1 TAAAGTAT-TATGATTCAAATAC
*
4991635 TAAAGTATTATTATTCAAATA
1 TAAAGTATTATGATTCAAATA
4991656 ATTACTGTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.40
Consensus pattern (22 bp):
TAAAGTATTATGATTCAAATAC
Found at i:5012357 original size:35 final size:35
Alignment explanation
Indices: 5012306--5012466 Score: 171
Period size: 35 Copynumber: 4.6 Consensus size: 35
5012296 GTACATCGAC
* *
5012306 AATCCAACCAAAACACACCAGATGCTCATAAGAGCC
1 AATCCAACCGAAACACACCA-ATGCTCATAAGAGCT
* * *
5012342 AATTCAACCG-AACACACCAATGCTCGTAAGATCT
1 AATCCAACCGAAACACACCAATGCTCATAAGAGCT
*** *
5012376 AATCCCTTCGAAACACACCAATGCTTATAAGAGCT
1 AATCCAACCGAAACACACCAATGCTCATAAGAGCT
** * * *
5012411 AATCCCTCTGAAACACACTAGTGCTCATAAGAGCT
1 AATCCAACCGAAACACACCAATGCTCATAAGAGCT
*
5012446 AGTCCAACCGAAACACACCAA
1 AATCCAACCGAAACACACCAA
5012467 AGTAAAGAGT
Statistics
Matches: 101, Mismatches: 23, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
34 18 0.18
35 75 0.74
36 8 0.08
ACGTcount: A:0.40, C:0.31, G:0.12, T:0.17
Consensus pattern (35 bp):
AATCCAACCGAAACACACCAATGCTCATAAGAGCT
Found at i:5021319 original size:15 final size:15
Alignment explanation
Indices: 5021299--5021328 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5021289 CTCTTTTTTC
*
5021299 TTCTCTTCTCTTCTT
1 TTCTCTTCTCCTCTT
5021314 TTCTCTTCTCCTCTT
1 TTCTCTTCTCCTCTT
5021329 CATTCCAGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (15 bp):
TTCTCTTCTCCTCTT
Found at i:5022050 original size:27 final size:26
Alignment explanation
Indices: 5022012--5022287 Score: 254
Period size: 27 Copynumber: 10.3 Consensus size: 26
5022002 ATTTGTGGGC
5022012 AAATGA-TCGAAATATCCCTAGAGGGTA
1 AAATGACT-GAAATA-CCCTAGAGGGTA
* *
5022039 AAATGACTGAAATACCCTTAAAAGGTA
1 AAATGACTGAAATACCC-TAGAGGGTA
** *
5022066 AAATGACCAAAATACCCCAGAGGGTA
1 AAATGACTGAAATACCCTAGAGGGTA
**
5022092 AAATGACCAAAATACCCCTAGAGGGTA
1 AAATGACTGAAATA-CCCTAGAGGGTA
*
5022119 AAATGACTGAAATACCCTCAGAGGATA
1 AAATGACTGAAATACCCT-AGAGGGTA
* *
5022146 AAATAACTGAAATACCCCTAAAGGGTA
1 AAATGACTGAAATA-CCCTAGAGGGTA
*
5022173 AAATGA-TCGAAATACCCCTGGAGGGTA
1 AAATGACT-GAAATA-CCCTAGAGGGTA
*
5022200 AAATGA-TCGAAATACCCTCGGAGGGTA
1 AAATGACT-GAAATACCCT-AGAGGGTA
* * * *
5022227 AAAT-AATCGAATTACCCCAAAGGGTA
1 AAATGACT-GAAATACCCTAGAGGGTA
* *
5022253 AAATGACTGAAATACCTCAATAGGGTA
1 AAATGACTGAAATACC-CTAGAGGGTA
5022280 AAATGACT
1 AAATGACT
5022288 ATTATACCCC
Statistics
Matches: 214, Mismatches: 25, Indels: 20
0.83 0.10 0.08
Matches are distributed among these distances:
26 50 0.23
27 159 0.74
28 5 0.02
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (26 bp):
AAATGACTGAAATACCCTAGAGGGTA
Found at i:5022148 original size:80 final size:79
Alignment explanation
Indices: 5022012--5022287 Score: 338
Period size: 80 Copynumber: 3.4 Consensus size: 79
5022002 ATTTGTGGGC
* * * * * *
5022012 AAATGATCGAAATATCCCTAGAGGGTAAAATGACTGAAATACCCTTAAAAGGTAAAATGACCAAA
1 AAATGACCGAAATACCCCTAGAGGGTAAAATGACTGAAATACCC-TCAGAGGTAAAATAACCGAA
*
5022077 ATACCCCAGAGGGTA
65 ATACCCCAAAGGGTA
* *
5022092 AAATGACCAAAATACCCCTAGAGGGTAAAATGACTGAAATACCCTCAGAGGATAAAATAACTGAA
1 AAATGACCGAAATACCCCTAGAGGGTAAAATGACTGAAATACCCTCAGAGG-TAAAATAACCGAA
5022157 ATACCCCTAAAGGGTA
65 ATACCCC-AAAGGGTA
* * * *
5022173 AAATGATCGAAATACCCCTGGAGGGTAAAATGA-TCGAAATACCCTCGGAGGGTAAAATAATCGA
1 AAATGACCGAAATACCCCTAGAGGGTAAAATGACT-GAAATACCCTCAGA-GGTAAAATAACCGA
*
5022237 ATTACCCCAAAGGGTA
64 AATACCCCAAAGGGTA
* * * *
5022253 AAATGACTGAAATACCTCAATAGGGTAAAATGACT
1 AAATGACCGAAATACCCCTAGAGGGTAAAATGACT
5022288 ATTATACCCC
Statistics
Matches: 169, Mismatches: 22, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
79 5 0.03
80 94 0.56
81 68 0.40
82 2 0.01
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (79 bp):
AAATGACCGAAATACCCCTAGAGGGTAAAATGACTGAAATACCCTCAGAGGTAAAATAACCGAAA
TACCCCAAAGGGTA
Found at i:5022161 original size:54 final size:54
Alignment explanation
Indices: 5022012--5022287 Score: 298
Period size: 54 Copynumber: 5.1 Consensus size: 54
5022002 ATTTGTGGGC
* * *
5022012 AAATGA-TCGAAATATCCCTAGAGGGTAAAATGACTGAAATACCCTTAAAAGGTA
1 AAATGACTCGAAATA-CCCCAGAGGGTAAAATGACTGAAATACCCCTAAAGGGTA
* ** *
5022066 AAATGAC-CAAAATACCCCAGAGGGTAAAATGACCAAAATACCCCTAGAGGGTA
1 AAATGACTCGAAATACCCCAGAGGGTAAAATGACTGAAATACCCCTAAAGGGTA
* *
5022119 AAATGACT-GAAATACCCTCAGAGGATAAAATAACTGAAATACCCCTAAAGGGTA
1 AAATGACTCGAAATACCC-CAGAGGGTAAAATGACTGAAATACCCCTAAAGGGTA
* **
5022173 AAATGA-TCGAAATACCCCTGGAGGGTAAAATGA-TCGAAATA-CCCTCGGAGGGTA
1 AAATGACTCGAAATACCCC-AGAGGGTAAAATGACT-GAAATACCCCT-AAAGGGTA
* * * *
5022227 AAAT-AATCGAATTACCCCAAAGGGTAAAATGACTGAAATACCTC-AATAGGGTA
1 AAATGACTCGAAATACCCCAGAGGGTAAAATGACTGAAATACCCCTAA-AGGGTA
5022280 AAATGACT
1 AAATGACT
5022288 ATTATACCCC
Statistics
Matches: 185, Mismatches: 25, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
53 84 0.45
54 101 0.55
ACGTcount: A:0.44, C:0.18, G:0.19, T:0.19
Consensus pattern (54 bp):
AAATGACTCGAAATACCCCAGAGGGTAAAATGACTGAAATACCCCTAAAGGGTA
Found at i:5022313 original size:107 final size:107
Alignment explanation
Indices: 5022020--5022303 Score: 303
Period size: 107 Copynumber: 2.6 Consensus size: 107
5022010 GCAAATGATC
* * *
5022020 GAAATATCCCT-AGAGGGTAAAATGACTGAAATACCCTTAAAAGGTAAAATGACCAAAATACCCC
1 GAAATA-CCCTCAAAGGGTAAAATGACTGAAATA-CCTCAAAGGGTAAAATGACC-AAATACCCC
* *
5022084 -A-GAGGGTAAAATGACCAAAATACCCCTAGAGGGTAAAATGACT
63 TAGGAGGGTAAAATGATCAAAATACCCCTAGAGGGTAAAATAACT
* * * * *
5022127 GAAATACCCTCAGAGGATAAAATAACTGAAATACCCCTAAAGGGTAAAATGATCGAAATACCCCT
1 GAAATACCCTCAAAGGGTAAAATGACTGAAATACCTC-AAAGGGTAAAATGA-CCAAATACCCCT
* *
5022192 -GGAGGGTAAAATGATCGAAATA-CCCTCGGAGGGTAAAATAA-T
64 AGGAGGGTAAAATGATCAAAATACCCCT-AGAGGGTAAAATAACT
* * *
5022234 CGAATTACCC-CAAAGGGTAAAATGACTGAAATACCTCAATAGGGTAAAATGACTATTATACCCC
1 -GAAATACCCTCAAAGGGTAAAATGACTGAAATACCTCAA-AGGGTAAAATGACCA-AATACCCC
5022298 TAGGAG
63 TAGGAG
5022304 ATGAGATGAT
Statistics
Matches: 150, Mismatches: 17, Indels: 19
0.81 0.09 0.10
Matches are distributed among these distances:
106 10 0.07
107 96 0.64
108 44 0.29
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (107 bp):
GAAATACCCTCAAAGGGTAAAATGACTGAAATACCTCAAAGGGTAAAATGACCAAATACCCCTAG
GAGGGTAAAATGATCAAAATACCCCTAGAGGGTAAAATAACT
Found at i:5022676 original size:28 final size:28
Alignment explanation
Indices: 5022635--5022757 Score: 185
Period size: 28 Copynumber: 4.4 Consensus size: 28
5022625 ATTGCACTAT
*
5022635 ACTAGTTACTGTATTGGGCTAAGGCACAC
1 ACTA-TTACTGTATTGGGCTAAGGCCCAC
5022664 ACTATTACTGTATTGGGCTAAGGCCCAC
1 ACTATTACTGTATTGGGCTAAGGCCCAC
5022692 ACTATTACTGTATTGGGCTAAGGCCCAC
1 ACTATTACTGTATTGGGCTAAGGCCCAC
* * * *
5022720 ATTGTTACTGTTTTGGGCTAAGACCCAC
1 ACTATTACTGTATTGGGCTAAGGCCCAC
5022748 ACTA-TACTGT
1 ACTATTACTGT
5022758 TACTGTATAG
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 6 0.07
28 77 0.89
29 4 0.05
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (28 bp):
ACTATTACTGTATTGGGCTAAGGCCCAC
Found at i:5027466 original size:57 final size:57
Alignment explanation
Indices: 5027397--5027513 Score: 225
Period size: 57 Copynumber: 2.1 Consensus size: 57
5027387 GTCAATCGGA
5027397 AAGAGGGATTCAAGTACTGGAGGATATGTTGAGGTGTTGTGTATTGGATTTTTGAGG
1 AAGAGGGATTCAAGTACTGGAGGATATGTTGAGGTGTTGTGTATTGGATTTTTGAGG
*
5027454 AAGAGTGATTCAAGTACTGGAGGATATGTTGAGGTGTTGTGTATTGGATTTTTGAGG
1 AAGAGGGATTCAAGTACTGGAGGATATGTTGAGGTGTTGTGTATTGGATTTTTGAGG
5027511 AAG
1 AAG
5027514 TTGGGAAGAC
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.26, C:0.03, G:0.36, T:0.35
Consensus pattern (57 bp):
AAGAGGGATTCAAGTACTGGAGGATATGTTGAGGTGTTGTGTATTGGATTTTTGAGG
Found at i:5028987 original size:21 final size:21
Alignment explanation
Indices: 5028946--5028987 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
5028936 GCCGAACCTT
*
5028946 CTTTTTTCTTTTCTCTTCTCTG
1 CTTTTCTCTTTTCTC-TCTCTG
5028968 CTTTTCTCTTATTCTC-CTCT
1 CTTTTCTCTT-TTCTCTCTCT
5028988 ACATTCTAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 4 0.22
22 9 0.50
23 5 0.28
ACGTcount: A:0.02, C:0.31, G:0.02, T:0.64
Consensus pattern (21 bp):
CTTTTCTCTTTTCTCTCTCTG
Found at i:5029709 original size:27 final size:27
Alignment explanation
Indices: 5029671--5029819 Score: 185
Period size: 27 Copynumber: 5.5 Consensus size: 27
5029661 AATCGTGGGC
5029671 AAATGACCGAAATACCCTCAGAGGGTA
1 AAATGACCGAAATACCCTCAGAGGGTA
* * *
5029698 AAATGACCGAAATAGCCTCAAACGGTA
1 AAATGACCGAAATACCCTCAGAGGGTA
**
5029725 AAATGACTAAAATACCCTC-GTAGGGTA
1 AAATGACCGAAATACCCTCAG-AGGGTA
*
5029752 AAATGACTGAAATACCC-CTAGAGGGTA
1 AAATGACCGAAATACCCTC-AGAGGGTA
* *
5029779 AAATGACCGAAATACCTTCGGAGGGTA
1 AAATGACCGAAATACCCTCAGAGGGTA
*
5029806 AAATGACTGAAATA
1 AAATGACCGAAATA
5029820 GCCCCAACCC
Statistics
Matches: 105, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 102 0.97
28 2 0.02
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (27 bp):
AAATGACCGAAATACCCTCAGAGGGTA
Found at i:5029806 original size:81 final size:81
Alignment explanation
Indices: 5029671--5029819 Score: 221
Period size: 81 Copynumber: 1.8 Consensus size: 81
5029661 AATCGTGGGC
5029671 AAATGACCGAAATACCCTCAGAGGGTAAAATGACCGAAATAGCCTCAAACGGTAAAATGACTAAA
1 AAATGACCGAAATACCCTCAGAGGGTAAAATGACCGAAATAGCCTCAAACGGTAAAATGACTAAA
5029736 ATACCCTCGTAGGGTA
66 ATACCCTCGTAGGGTA
* ** * *
5029752 AAATGACTGAAATACCC-CTAGAGGGTAAAATGACCGAAATA-CCTTCGGAGGGTAAAATGACTG
1 AAATGACCGAAATACCCTC-AGAGGGTAAAATGACCGAAATAGCC-TCAAACGGTAAAATGACTA
5029815 AAATA
64 AAATA
5029820 GCCCCAACCC
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
80 3 0.05
81 58 0.95
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.18
Consensus pattern (81 bp):
AAATGACCGAAATACCCTCAGAGGGTAAAATGACCGAAATAGCCTCAAACGGTAAAATGACTAAA
ATACCCTCGTAGGGTA
Found at i:5029891 original size:27 final size:26
Alignment explanation
Indices: 5029847--5029897 Score: 50
Period size: 27 Copynumber: 1.9 Consensus size: 26
5029837 AAAATAACTA
* *
5029847 AAATACCCTGA-AAGGTAAAATGACCA
1 AAATACCCT-ACAGGGTAAAATGACCG
*
5029873 AAATACCCCTACAGTGTAAAATGAC
1 AAATA-CCCTACAGGGTAAAATGAC
5029898 TATTATACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.47, C:0.22, G:0.14, T:0.18
Consensus pattern (26 bp):
AAATACCCTACAGGGTAAAATGACCG
Found at i:5030278 original size:28 final size:28
Alignment explanation
Indices: 5030238--5030321 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
5030228 CACTATACTG
5030238 ATTACTGTATTGGGCTAAGGCCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
*
5030266 ATTACTGTATTGGGCTAAGGCCCACATT
1 ATTACTGTATTGGGCTAAGGCCCACACT
* * * *
5030294 GTTACTGTTTTGGGTTAAGACCCACACT
1 ATTACTGTATTGGGCTAAGGCCCACACT
5030322 GTACTGTTAC
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 50 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (28 bp):
ATTACTGTATTGGGCTAAGGCCCACACT
Found at i:5031979 original size:53 final size:53
Alignment explanation
Indices: 5031885--5031990 Score: 146
Period size: 53 Copynumber: 2.0 Consensus size: 53
5031875 GAAATTCAGG
**
5031885 GAAAGAGCATTGTAAAGCATTGACATTGAGAAGCGGAAAGACATTAGAGCCCA
1 GAAAGAGCATTGTAAAGCATTGACATTGAGAAGAAGAAAGACATTAGAGCCCA
5031938 GAAAGAGCATTGTAAAGCATTGAC-TCTGA-AGAGAA-AGAAGACATTAGAGCCCA
1 GAAAGAGCATTGTAAAGCATTGACAT-TGAGA-AGAAGA-AAGACATTAGAGCCCA
5031991 ACATTGTCAT
Statistics
Matches: 48, Mismatches: 2, Indels: 6
0.86 0.04 0.11
Matches are distributed among these distances:
52 3 0.06
53 45 0.94
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.17
Consensus pattern (53 bp):
GAAAGAGCATTGTAAAGCATTGACATTGAGAAGAAGAAAGACATTAGAGCCCA
Found at i:5041677 original size:16 final size:17
Alignment explanation
Indices: 5041644--5041677 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
5041634 CGCATTCAAT
*
5041644 ATACAAAAAATTCGAGG
1 ATACAAAAAATTCAAGG
5041661 ATACAAAAAA-TCAAGG
1 ATACAAAAAATTCAAGG
5041677 A
1 A
5041678 AAGAAAAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (17 bp):
ATACAAAAAATTCAAGG
Found at i:5045128 original size:19 final size:19
Alignment explanation
Indices: 5045104--5045143 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
5045094 AAGGATATGC
5045104 AAGAGCGGGTACAAGTGCA
1 AAGAGCGGGTACAAGTGCA
*
5045123 AAGAGCGGTTACAAGTGCA
1 AAGAGCGGGTACAAGTGCA
5045142 AA
1 AA
5045144 TGCAAGACCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.33, T:0.12
Consensus pattern (19 bp):
AAGAGCGGGTACAAGTGCA
Found at i:5047698 original size:13 final size:13
Alignment explanation
Indices: 5047682--5047712 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
5047672 CAAAAAAATC
5047682 AAAATCAAAATAA
1 AAAATCAAAATAA
5047695 AAAATCAAAATAA
1 AAAATCAAAATAA
5047708 AAAAT
1 AAAAT
5047713 TAGAGAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAATCAAAATAA
Found at i:5047710 original size:19 final size:19
Alignment explanation
Indices: 5047674--5047710 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5047664 GATCCTTTCA
*
5047674 AAAAAATCAAAATCAAAAT
1 AAAAAATCAAAATAAAAAT
5047693 AAAAAATCAAAATAAAAA
1 AAAAAATCAAAATAAAAA
5047711 ATTAGAGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.78, C:0.08, G:0.00, T:0.14
Consensus pattern (19 bp):
AAAAAATCAAAATAAAAAT
Found at i:5047750 original size:8 final size:7
Alignment explanation
Indices: 5047718--5047751 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
5047708 AAAATTAGAG
5047718 AAAAAGA
1 AAAAAGA
*
5047725 AAGAAGA
1 AAAAAGA
5047732 AAAGAAGA
1 AAA-AAGA
5047740 AAAAAGA
1 AAAAAGA
5047747 AAAAA
1 AAAAA
5047752 TCTAGATGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (7 bp):
AAAAAGA
Found at i:5049983 original size:43 final size:43
Alignment explanation
Indices: 5049935--5050577 Score: 212
Period size: 43 Copynumber: 14.9 Consensus size: 43
5049925 AAGATTACGG
* *
5049935 ATCTTATCTTCCTCAAGAGTAGGGAAGCAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGACGA
* * * * * *
5049978 ATCTTATCTTCCCCAGGAGTAGGGAAACATATTTAAGCCACTA
1 ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGACGA
* * ** *
5050021 GTCCTATC-TCCCTGGTC-AGCAGT-GGGATAG--G-T-TAAAGTTACGG
1 ATCTTATCTTCCC----CAAG-AGTAGGGA-AGCAGATCT-AAGCGACGA
* *
5050064 ATCTTATCTTCCCCAAGAGTAGGGAAGCAAATCTAAGCGGCGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGACGA
* * * * * * *
5050107 ATCTTATCTTCCCTAGGAGTAGGGAAACAAATTTAAGCCACTA
1 ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGACGA
* * ** ** *
5050150 GTCCTATCTCTCTGGTC-AGTAGT-GGGATAG--G-T-TGAAGATTACGG
1 ATCTTATCT-TC--CCCAAG-AGTAGGGA-AGCAGATCT-AAG-CGACGA
* * *
5050194 ATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGACGA
* * * * *
5050237 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTA
1 ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGACGA
* * ** ** * * * ** *
5050280 GTCCTA--TAGCCCTGGTCAGTAGTGGGA-TAGGT-TGAAGATTACGG
1 ATCTTATCTTCCCCAAG--AGTAG-GGAAGCAGATCT-AAG-CGACGA
* * *
5050324 ATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGACGA
* * * * *
5050367 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTA
1 ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGACGA
* * ** ** * * * ** *
5050410 GTCCTA--TAGCCCTGGTCAGTAGTGGGA-TAGGT-TGAAGATTACGG
1 ATCTTATCTTCCCCAAG--AGTAG-GGAAGCAGATCT-AAG-CGACGA
* * *
5050454 ATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGACGA
* * **
5050497 ATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCGGGGA
1 ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGACGA
* * *
5050540 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGC
1 ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGC
5050578 CACTAGTCCT
Statistics
Matches: 431, Mismatches: 124, Indels: 90
0.67 0.19 0.14
Matches are distributed among these distances:
40 6 0.01
41 24 0.06
42 14 0.03
43 296 0.69
44 61 0.14
45 13 0.03
46 17 0.04
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (43 bp):
ATCTTATCTTCCCCAAGAGTAGGGAAGCAGATCTAAGCGACGA
Found at i:5050255 original size:130 final size:130
Alignment explanation
Indices: 5049923--5050534 Score: 1064
Period size: 130 Copynumber: 4.7 Consensus size: 130
5049913 AACAGATCAA
* * *
5049923 TGAAGATTACGGATCTTATCTTCCTCAAGAGTAGGGAAGCAGATCTAAGCGGCGAATCTTATCTT
1 TGAAGATTACGGATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTT
* ** *
5049988 CCCCAGGAGTAGGGAAACATATTTAAGCCACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGT
66 CCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGT
* * * *
5050053 TAAAG-TTACGGATCTTATCTTCCCCAAGAGTAGGGAAGCAAATCTAAGCGGCGAATCTTATCTT
1 TGAAGATTACGGATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTT
* * ** *
5050117 CCCTAGGAGTAGGGAAACAAATTTAAGCCACTAGTCCTATCTCTCTGGTCAGTAGTGGGATAGGT
66 CCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGT
5050182 TGAAGATTACGGATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTT
1 TGAAGATTACGGATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTT
5050247 CCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGT
66 CCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGT
5050312 TGAAGATTACGGATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTT
1 TGAAGATTACGGATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTT
5050377 CCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGT
66 CCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGT
5050442 TGAAGATTACGGATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTT
1 TGAAGATTACGGATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTT
*
5050507 CCCCAGGAGTAGGGAAGCAGATTTAAGC
66 CCCCAGGAGTAGGGAAACAGATTTAAGC
5050535 GGGGAATCTT
Statistics
Matches: 464, Mismatches: 17, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
129 122 0.26
130 342 0.74
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (130 bp):
TGAAGATTACGGATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTT
CCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGT
Found at i:5050544 original size:173 final size:173
Alignment explanation
Indices: 5050324--5050707 Score: 660
Period size: 173 Copynumber: 2.2 Consensus size: 173
5050314 AAGATTACGG
* * * *
5050324 ATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTTCCCCAGGAGTAG
1 ATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCGGCGAATCTTATCTTCCCCAGGAGTAG
5050389 GGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGG
66 GGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGG
* *
5050454 ATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGA
131 ATCTTATCCTCCCCAAGAGTAGGGAAGCAGATCTAAGCAGCGA
*
5050497 ATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCGGGGAATCTTATCTTCCCCAGGAGTAG
1 ATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCGGCGAATCTTATCTTCCCCAGGAGTAG
5050562 GGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGG
66 GGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGG
* * * *
5050627 ATCTTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGA
131 ATCTTATCCTCCCCAAGAGTAGGGAAGCAGATCTAAGCAGCGA
*
5050670 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGC
1 ATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGC
5050708 CAGTAGTCCT
Statistics
Matches: 199, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
173 199 1.00
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (173 bp):
ATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCGGCGAATCTTATCTTCCCCAGGAGTAG
GGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGG
ATCTTATCCTCCCCAAGAGTAGGGAAGCAGATCTAAGCAGCGA
Found at i:5050611 original size:303 final size:302
Alignment explanation
Indices: 5050194--5051119 Score: 1306
Period size: 303 Copynumber: 3.1 Consensus size: 302
5050184 AAGATTACGG
* * ** *
5050194 ATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTTCCCCAGGAGTAG
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCGG-GAATCTTATCTTCCCCAGGAGTAG
5050259 GGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGG
65 GGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGG
* * * * * *
5050324 ATCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGCGAATCTTATCTTCCCCAGGAGTAG
130 ATCTTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAG
* ** * *
5050389 GGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGG
195 GGAAACAGATTTAAGCCAGTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAG
* * * *
5050454 ATCTTATCCTCCCCAAG-AGTAG-GGAAGTAGATCTAAGCGGCGA
260 ATCTTAT-CTCCCTAAGCAATAGTGG-AGCAGATCGAAGCGGCGA
*
5050497 ATCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCGGGGAATCTTATCTTCCCCAGGAGTAG
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGC-GGGAATCTTATCTTCCCCAGGAGTAG
5050562 GGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGG
65 GGAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGG
5050627 ATCTTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAG
130 ATCTTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAG
5050692 GGAAACAGATTTAAGCCAGTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAG
195 GGAAACAGATTTAAGCCAGTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAG
* * *
5050757 ATCTTGTCTCCCTAAGCAATAGTGGAGCAAATCGAAGACGGAGA
260 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAG-CGGCGA
5050801 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGC------C--A-C-T-------AGT---
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCGGGAATCTTATCTTCCCCAGGAGTAGG
* * ** * *
5050846 -CAACAGATTTAAGCCAGTAGTCCTATCTCCTTGGTCAGCAGTGGGATAGGTTGAAGATTACGGA
66 GAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGGA
5050910 TCTTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAGG
131 TCTTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAGG
* *
5050975 GAAACAGATTTAAGCCAGTAGTCCTATCTCCTTGGTCAGCAGTGGGATAGGTTGAAGATTATAGA
196 GAAACAGATTTAAGCCAGTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGA
* *
5051040 TCTTATCTCCCTAAGCAACAGTGGAGCAGATCGAAGGCGGCAA
261 TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAA-GCGGCGA
* *
5051083 ATCTTAT-TTTCCCAGGAGTAGGGAAACAAATTTAAGC
1 ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGC
5051120 CACTAGTCCT
Statistics
Matches: 580, Mismatches: 38, Indels: 32
0.89 0.06 0.05
Matches are distributed among these distances:
281 28 0.05
282 229 0.39
283 1 0.00
286 3 0.01
293 1 0.00
294 1 0.00
295 1 0.00
297 1 0.00
302 8 0.01
303 261 0.45
304 46 0.08
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.25
Consensus pattern (302 bp):
ATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCGGGAATCTTATCTTCCCCAGGAGTAGG
GAAACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGGA
TCTTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAGG
GAAACAGATTTAAGCCAGTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGA
TCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGCGGCGA
Found at i:5050631 original size:130 final size:130
Alignment explanation
Indices: 5050522--5051445 Score: 1065
Period size: 131 Copynumber: 6.9 Consensus size: 130
5050512 GGAGTAGGGA
** *
5050522 AGCAGATTTAAGCGGGGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTCC
1 AGCAGATCGAAGCGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTCC
** * * * *
5050587 TATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGGATCTTATCTTTCCC--AGGAGTAG-
66 TATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTATC--TCCCTAAGCAATAGT
5050649 GG
129 GG
* * * *
5050651 AAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAGTAGTC
1 -AGCAGATCGAAGCGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTC
*
5050716 CTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTGTCTCCCTAAGCAATAGTG
65 CTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTG
5050781 G
130 G
* *
5050782 AGCAAATCGAAGACGGAGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTC
1 AGCAGATCGAAG-CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTC
* * * * * ** * * *
5050847 AACAGATTTAAGCCAGTAGTCCTATCTCCTTGG-TCAGCAGTGGGATAGGTTGA-AGATTACGGA
65 --C-TATCT---CC-CTGGT-C-AGC-AGTGGGAT-AG--GT-TGA-AGATT-ACAG-------A
* *
5050910 TCTTATCTTTCCC--AGGAGTAG-GG
107 TCTTATC--TCCCTAAGCAATAGTGG
* * * *
5050933 AAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAGTAGTC
1 -AGCAGATCGAAGCGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTC
* * *
5050998 CTATCTCCTTGGTCAGCAGTGGGATAGGTTGAAGATTATAGATCTTATCTCCCTAAGCAACAGTG
65 CTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTG
5051063 G
130 G
* * *
5051064 AGCAGATCGAAGGCGGCAAATCTTAT-TTTCCCAGGAGTAGGGAAACAAATTTAAGCCACTAGTC
1 AGCAGATCGAA-GCGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTC
*
5051128 CTATCTCCCTGGTTAGCAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTG
65 CTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTG
5051193 G
130 G
5051194 AGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTC
1 AGCAGATCGAAG-CGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTC
*
5051259 CTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAAATCTTATCTCCCTAAGCAATAGTG
65 CTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTG
5051324 G
130 G
* * * *
5051325 AGCAGATCGAAGGCGACGAATCTTATTTTCCCCAGGAGTAAGGAAACAGATTTAAGCGACTAGTC
1 AGCAGATCGAA-GCGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTC
* *
5051390 CTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACGGAACTTATCTTCCCTA
65 CTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTATC-TCCCTA
5051446 GGAGTAGGGA
Statistics
Matches: 684, Mismatches: 70, Indels: 78
0.82 0.08 0.09
Matches are distributed among these distances:
128 8 0.01
129 1 0.00
130 263 0.38
131 269 0.39
132 7 0.01
133 1 0.00
134 3 0.00
136 1 0.00
137 8 0.01
138 5 0.01
139 3 0.00
140 3 0.00
141 10 0.01
142 3 0.00
143 3 0.00
144 5 0.01
145 8 0.01
146 1 0.00
148 3 0.00
149 1 0.00
151 51 0.07
152 23 0.03
154 4 0.01
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (130 bp):
AGCAGATCGAAGCGGCGAATCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAGTCC
TATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTATCTCCCTAAGCAATAGTGG
Found at i:5050721 original size:43 final size:43
Alignment explanation
Indices: 5050455--5050721 Score: 163
Period size: 43 Copynumber: 6.2 Consensus size: 43
5050445 AGATTACGGA
* * ** * *
5050455 TCTTATCCTCCCCAAGAGTAGGGAAGTAGATCTAAGCGGC-G-AA
1 TCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGC--CAGTAG
* ** * *
5050498 TCTTATCTTCCCCAGGAGTAGGGAAGCAGATTTAAGCGGGGAA
1 TCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAGTAG
*
5050541 TCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCACTAG
1 TCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAGTAG
* ** * * * * * *
5050584 TCCTA--TAGCCCTGGTCAGTAGTGG-GATAGGTTGAAG--ATTACGG
1 TCTTATCTTCCCCAGG--AGTAG-GGAAACAGATTTAAGCCAGTA--G
* * * *
5050627 ATCTTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAG-CAGTGAA
1 -TCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAGT-AG
5050671 TCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAGTAG
1 TCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAGTAG
*
5050714 TCCTATCT
1 TCTTATCT
5050722 CCCTGGTCAG
Statistics
Matches: 173, Mismatches: 37, Indels: 28
0.73 0.16 0.12
Matches are distributed among these distances:
41 9 0.05
42 1 0.01
43 133 0.77
44 21 0.12
45 2 0.01
46 7 0.04
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.25
Consensus pattern (43 bp):
TCTTATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAGTAG
Found at i:5050852 original size:21 final size:21
Alignment explanation
Indices: 5050826--5050867 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
5050816 GGAGTAGGGA
5050826 AACAGATTTAAGCCACTAGTC
1 AACAGATTTAAGCCACTAGTC
*
5050847 AACAGATTTAAGCCAGTAGTC
1 AACAGATTTAAGCCACTAGTC
5050868 CTATCTCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (21 bp):
AACAGATTTAAGCCACTAGTC
Found at i:5050935 original size:282 final size:278
Alignment explanation
Indices: 5050565--5051389 Score: 1183
Period size: 282 Copynumber: 3.0 Consensus size: 278
5050555 GGAGTAGGGA
*
5050565 AACAGATTTAAGCCACTAGTCCTATAGCCCTGGTCAGTAGTGGGATAGGTTGAAGATTACGGATC
1 AACAGATTTAAGCCA-TAGTCCTAT--CCCTGGTCAGCAGTGGGATAGGTTGAAGATTACGGATC
5050630 TTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAGGGA
63 TTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAGGGA
5050695 AACAGATTTAAGCCAGTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATC
128 AACAGATTTAAGCCAGTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATC
* * *
5050760 TTGTCTCCCTAAGCAATAGTGGAGCAAATCGAAGACGGAGAATCTTATCTTCCCCAGGAGTAGGG
193 TTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGGCGGAGAATCTTAT-TTCCCCAGGAGTAGGG
5050825 AAACAGATTTAAGCCACTAGTC
257 AAACAGATTTAAGCCACTAGTC
5050847 AACAGATTTAAGCCAGTAGTCCTATCTCCTTGGTCAGCAGTGGGATAGGTTGAAGATTACGGATC
1 AACAGATTTAAGCCA-TAGTCCTATC-CC-TGGTCAGCAGTGGGATAGGTTGAAGATTACGGATC
5050912 TTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAGGGA
63 TTATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAGGGA
* *
5050977 AACAGATTTAAGCCAGTAGTCCTATCTCCTTGGTCAGCAGTGGGATAGGTTGAAGATTATAGATC
128 AACAGATTTAAGCCAGTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATC
* *
5051042 TTATCTCCCTAAGCAACAGTGGAGCAGATCGAAGGCGGCA-AATCTTATTTTCCCAGGAGTAGGG
193 TTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGGCGG-AGAATCTTATTTCCCCAGGAGTAGGG
*
5051106 AAACAAATTTAAGCCAC---T-
257 AAACAGATTTAAGCCACTAGTC
* *
5051124 ---AG---T---CC-TA-T-C--TCCCTGGTTAGCAGTGGGATAGGTTGAAGATTACAGATCTTA
1 AACAGATTTAAGCCATAGTCCTATCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACGGATCTTA
* * * * *
5051175 TC--TCCCTAAGCAATAGTGG-AGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAGGG
66 TCTTTCCC--AGGAGTAG-GGAAGCAGATCTAAG-CAGTGAATCTTATCTTCCCCAGGAGTAGGG
* *
5051237 AAACAGATTTAAGCCACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAAAT
127 AAACAGATTTAAGCCAGTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGAT
*
5051302 CTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGGC-GACGAATCTTATTTTCCCCAGGAGTAA
192 CTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGGCGGA-GAATCTTA-TTTCCCCAGGAGTAG
*
5051366 GGAAACAGATTTAAGCGACTAGTC
255 GGAAACAGATTTAAGCCACTAGTC
5051390 CTATCTCCCT
Statistics
Matches: 503, Mismatches: 26, Indels: 44
0.88 0.05 0.08
Matches are distributed among these distances:
258 4 0.01
259 1 0.00
260 56 0.11
261 136 0.27
262 32 0.06
264 1 0.00
265 2 0.00
266 2 0.00
268 2 0.00
271 1 0.00
274 2 0.00
278 1 0.00
280 1 0.00
281 33 0.07
282 228 0.45
283 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (278 bp):
AACAGATTTAAGCCATAGTCCTATCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACGGATCTTA
TCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAGGGAAAC
AGATTTAAGCCAGTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAGATCTTA
TCTCCCTAAGCAATAGTGGAGCAGATCGAAGGCGGAGAATCTTATTTCCCCAGGAGTAGGGAAAC
AGATTTAAGCCACTAGTC
Found at i:5051003 original size:43 final size:43
Alignment explanation
Indices: 5050913--5051003 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
5050903 TTACGGATCT
* * *
5050913 TATCTTTCCCAGGAGTAGGGAAGCAGATCTAAGCAGTGAATCT
1 TATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCAGTGAATCC
* *
5050956 TATCTTCCCCAGGAGTAGGGAAACAGATTTAAGCCAGT-AGTCC
1 TATCTTCCCCAGGAGTAGGGAAACAGATCTAAG-CAGTGAATCC
5050999 TATCT
1 TATCT
5051004 CCTTGGTCAG
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
43 38 0.90
44 4 0.10
ACGTcount: A:0.30, C:0.21, G:0.23, T:0.26
Consensus pattern (43 bp):
TATCTTCCCCAGGAGTAGGGAAACAGATCTAAGCAGTGAATCC
Found at i:5051315 original size:261 final size:262
Alignment explanation
Indices: 5050847--5051462 Score: 965
Period size: 261 Copynumber: 2.4 Consensus size: 262
5050837 GCCACTAGTC
* *
5050847 AACAGATTTAAGCCAGTAGTCCTATCTCCTTGGTCAGCAGTGGGATAGGTTGAAGATTACGGATC
1 AACAGATTTAAGCCACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACGGATC
* * * *
5050912 TTATCTTTCCC--AGGAGTAGGGAAGCAGATCTAAGCAGTGAATCTTATCTTCCCCAGGAGTAGG
66 TTATC-TTCCCTAAGCAATAGGGAAGCAGATCGAAGCAGCGAATCTTATCTTCCCCAGGAGTAGG
* * * *
5050975 GAAACAGATTTAAGCCAGTAGTCCTATCTCCTTGGTCAGCAGTGGGATAGGTTGAAGATTATAGA
130 GAAACAGATTTAAGCCACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAAA
* *
5051040 TCTTATCTCCCTAAGCAACAGTGGAGCAGATCGAAGGCGGCAAATCTTATTTT-CCCAGGAGTAG
195 TCTTATCTCCCTAAGCAACAGTGGAGCAGATCGAAGGCGACAAATCTTATTTTCCCCAGGAGTAA
5051104 GGA
260 GGA
* * *
5051107 AACAAATTTAAGCCACTAGTCCTATCTCCCTGGTTAGCAGTGGGATAGGTTGAAGATTACAGATC
1 AACAGATTTAAGCCACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACGGATC
*
5051172 TTATC-TCCCTAAGCAATAGTGG-AGCAGATCGAAGACGGCGAATCTTATCTTCCCCAGGAGTAG
66 TTATCTTCCCTAAGCAATAG-GGAAGCAGATCGAAG-CAGCGAATCTTATCTTCCCCAGGAGTAG
5051235 GGAAACAGATTTAAGCCACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAA
129 GGAAACAGATTTAAGCCACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAA
* *
5051300 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCGAAGGCGACGAATCTTATTTTCCCCAGGAGTA
194 ATCTTATCTCCCTAAGCAACAGTGGAGCAGATCGAAGGCGACAAATCTTATTTTCCCCAGGAGTA
5051365 AGGA
259 AGGA
* *
5051369 AACAGATTTAAGCGACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACGGAAC
1 AACAGATTTAAGCCACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACGGATC
* *
5051434 TTATCTTCCCT-AGGAGTAGGGAAGCAGAT
66 TTATCTTCCCTAAGCAATAGGGAAGCAGAT
5051463 TTAAGTGACG
Statistics
Matches: 324, Mismatches: 25, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
258 4 0.01
260 82 0.25
261 142 0.44
262 91 0.28
263 5 0.02
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (262 bp):
AACAGATTTAAGCCACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACGGATC
TTATCTTCCCTAAGCAATAGGGAAGCAGATCGAAGCAGCGAATCTTATCTTCCCCAGGAGTAGGG
AAACAGATTTAAGCCACTAGTCCTATCTCCCTGGTCAGCAGTGGGATAGGTTGAAGATTACAAAT
CTTATCTCCCTAAGCAACAGTGGAGCAGATCGAAGGCGACAAATCTTATTTTCCCCAGGAGTAAG
GA
Found at i:5052636 original size:19 final size:19
Alignment explanation
Indices: 5052612--5052648 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
5052602 GACCCGATCT
5052612 GGGAAGGATCCGCGCATCC
1 GGGAAGGATCCGCGCATCC
*
5052631 GGGAAGGATCCGTGCATC
1 GGGAAGGATCCGCGCATC
5052649 AAGGATCCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.22, C:0.27, G:0.38, T:0.14
Consensus pattern (19 bp):
GGGAAGGATCCGCGCATCC
Found at i:5065404 original size:41 final size:41
Alignment explanation
Indices: 5065359--5065617 Score: 233
Period size: 41 Copynumber: 6.4 Consensus size: 41
5065349 ATTAATTATA
5065359 CCCTGAATTGCACAT-CTGTACCCCTATTTATACTTCGGTAC
1 CCCTGAATTGCACATAC-GTACCCCTATTTATACTTCGGTAC
* *
5065400 CCCTGAATTGCACATATGTGA-CCCTATTTATACTTCAGTAC
1 CCCTGAATTGCACATACGT-ACCCCTATTTATACTTCGGTAC
* * * * *
5065441 CCTTGAATTGCACATACGTGCCTCGT-TTTGTACTTCTGTAC
1 CCCTGAATTGCACATACGTACC-CCTATTTATACTTCGGTAC
* * * * **
5065482 CCCTGAATTGCACATATGT--GCCTTTTTTTA-TTTTGTAC
1 CCCTGAATTGCACATACGTACCCCTATTTATACTTCGGTAC
* * * *
5065520 CCCTAAATTACACATACATACCCTTATTTATACTTCGGTAC
1 CCCTGAATTGCACATACGTACCCCTATTTATACTTCGGTAC
* * * **
5065561 CCCTGAATTACACATACGTGCCCCTGTTTGCACTTCGGTAC
1 CCCTGAATTGCACATACGTACCCCTATTTATACTTCGGTAC
* *
5065602 CCCTAAATAGCACATA
1 CCCTGAATTGCACATA
5065618 TGTGCCCTTG
Statistics
Matches: 176, Mismatches: 34, Indels: 16
0.78 0.15 0.07
Matches are distributed among these distances:
38 24 0.14
39 5 0.03
40 7 0.04
41 137 0.78
42 3 0.02
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTACCCCTATTTATACTTCGGTAC
Found at i:5065549 original size:120 final size:120
Alignment explanation
Indices: 5065396--5065623 Score: 316
Period size: 120 Copynumber: 1.9 Consensus size: 120
5065386 TTATACTTCG
* * ** * *
5065396 GTACCCCTGAATTGCACATATGTGACCCTATTTATACTTCAGTACCCTTGAATTGCACATACGTG
1 GTACCCCTAAATTACACATACATGACCCTATTTATACTTCAGTACCCCTGAATTACACATACGTG
* * * * *
5065461 CCTC-GTTTTGTACTTCTGTACCCCTGAATTGCACATATGTGCCTTTTTTTATTTT
66 CCCCTG-TTTGCACTTCGGTACCCCTAAATAGCACATATGTGCCTTTTTTTATTTT
*
5065516 GTACCCCTAAATTACACATACAT-ACCCTTATTTATACTTCGGTACCCCTGAATTACACATACGT
1 GTACCCCTAAATTACACATACATGACCC-TATTTATACTTCAGTACCCCTGAATTACACATACGT
5065580 GCCCCTGTTTGCACTTCGGTACCCCTAAATAGCACATATGTGCC
65 GCCCCTGTTTGCACTTCGGTACCCCTAAATAGCACATATGTGCC
5065624 CTTGTTTACA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
119 4 0.04
120 89 0.95
121 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (120 bp):
GTACCCCTAAATTACACATACATGACCCTATTTATACTTCAGTACCCCTGAATTACACATACGTG
CCCCTGTTTGCACTTCGGTACCCCTAAATAGCACATATGTGCCTTTTTTTATTTT
Found at i:5072976 original size:41 final size:41
Alignment explanation
Indices: 5072923--5073370 Score: 488
Period size: 41 Copynumber: 11.0 Consensus size: 41
5072913 GTTAATTATA
* *
5072923 CCCTAAATTGCACATACGTGCCCCTGTTTGTTCTTCGATAC
1 CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* ** ** *
5072964 CCCTTAATTGCACATGTGTGCCTTTGTTTGTACTTTGGTAC
1 CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* * * * *
5073005 CACTGAATTGCACATACGTGCCCTTTTTTGTACTTTGGTAC
1 CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* * * * *
5073046 CCCTGAATTGCACATATGTACCCCTATTTTTACTTCGGTAC
1 CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* * *
5073087 CCCTAAATTGCACATATGTGCCCCTATTTGTACTTCGAT-C
1 CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* * *
5073127 CCTTGAATTGCACATACATGCCCCTGTTTGTACTTCGGTAC
1 CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* * * *
5073168 CCCTGAATTGCACATACATACCCCTCTTTGTACTTCGGTAC
1 CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* * * *
5073209 CCCTAAATTACACATACGTGGCCCTGTTTATACTTCGATA-
1 CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
* *
5073249 CCCTAAATTACACATACGTAG-CCCTGTTTGTACTTTGGTAC
1 CCCTAAATTGCACATACGT-GCCCCTGTTTGTACTTCGGTAC
* *
5073290 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTAC
1 CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
** * * **
5073331 CCCTAAATAACGCATATGTGCCCCTGTTTACACTTCGGTA
1 CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTA
5073371 ACTTCAAATT
Statistics
Matches: 346, Mismatches: 57, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
40 70 0.20
41 276 0.80
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (41 bp):
CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTAC
Found at i:5073066 original size:21 final size:20
Alignment explanation
Indices: 5073042--5073112 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 20
5073032 TTGTACTTTG
5073042 GTACCCCTGAATTGCACATAT
1 GTACCCCT-AATTGCACATAT
* ** * **
5073063 GTACCCCTATTTTTACTTCG
1 GTACCCCTAATTGCACATAT
5073083 GTACCCCTAAATTGCACATAT
1 GTACCCCT-AATTGCACATAT
*
5073104 GTGCCCCTA
1 GTACCCCTA
5073113 TTTGTACTTC
Statistics
Matches: 36, Mismatches: 13, Indels: 3
0.69 0.25 0.06
Matches are distributed among these distances:
20 15 0.42
21 21 0.58
ACGTcount: A:0.24, C:0.31, G:0.13, T:0.32
Consensus pattern (20 bp):
GTACCCCTAATTGCACATAT
Found at i:5073172 original size:20 final size:20
Alignment explanation
Indices: 5073147--5073212 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
5073137 CACATACATG
5073147 CCCCTGTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
* * * *
5073167 CCCCTGAATTGCACATAC-ATA
1 CCCCTG-TTTGTAC-TTCGGTA
*
5073188 CCCCTCTTTGTACTTCGGTA
1 CCCCTGTTTGTACTTCGGTA
5073208 CCCCT
1 CCCCT
5073213 AAATTACACA
Statistics
Matches: 34, Mismatches: 9, Indels: 6
0.69 0.18 0.12
Matches are distributed among these distances:
19 2 0.06
20 18 0.53
21 12 0.35
22 2 0.06
ACGTcount: A:0.17, C:0.36, G:0.14, T:0.33
Consensus pattern (20 bp):
CCCCTGTTTGTACTTCGGTA
Found at i:5073190 original size:122 final size:122
Alignment explanation
Indices: 5072923--5073359 Score: 563
Period size: 122 Copynumber: 3.6 Consensus size: 122
5072913 GTTAATTATA
* * * * * * * * **
5072923 CCCTAAATTGCACATACGTGCCCCTGTTTGTTCTTCGATACCCCTTAATTGCACATGTGTGCCTT
1 CCCTGAATTGCACATACGTACCCCTATTTGTACTTCGGTACCCCTAAATTACACATATGTGCCCC
* * * *
5072988 TGTTTGTACTTTGGTACCACTGAATTGCACATACGTGCCCTTTTTTGTACTTTGGTAC
66 TGTTTGTACTTCGATACC-CTGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* * *
5073046 CCCTGAATTGCACATATGTACCCCTATTTTTACTTCGGTACCCCTAAATTGCACATATGTGCCCC
1 CCCTGAATTGCACATACGTACCCCTATTTGTACTTCGGTACCCCTAAATTACACATATGTGCCCC
* * *
5073111 TATTTGTACTTCGAT-CCCTTGAATTGCACATACATGCCCCTGTTTGTACTTCGGTAC
66 TGTTTGTACTTCGATACCC-TGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC
* * * *
5073168 CCCTGAATTGCACATACATACCCCTCTTTGTACTTCGGTACCCCTAAATTACACATACGTGGCCC
1 CCCTGAATTGCACATACGTACCCCTATTTGTACTTCGGTACCCCTAAATTACACATATGTGCCCC
* * *
5073233 TGTTTATACTTCGATACCCTAAATTACACATACGTAG-CCCTGTTTGTACTTTGGTAC
66 TGTTTGTACTTCGATACCCTGAATTGCACATACGT-GCCCCTGTTTGTACTTTGGTAC
* * *
5073290 CCCTGAATTGCACATACGTGCCCCTATTTGTACTTCGGTACCCCTAAATAACGCATATGTGCCCC
1 CCCTGAATTGCACATACGTACCCCTATTTGTACTTCGGTACCCCTAAATTACACATATGTGCCCC
5073355 TGTTT
66 TGTTT
5073360 ACACTTCGGT
Statistics
Matches: 273, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
121 1 0.00
122 202 0.74
123 70 0.26
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (122 bp):
CCCTGAATTGCACATACGTACCCCTATTTGTACTTCGGTACCCCTAAATTACACATATGTGCCCC
TGTTTGTACTTCGATACCCTGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTAC
Found at i:5073191 original size:21 final size:21
Alignment explanation
Indices: 5073130--5073192 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
5073120 TTCGATCCCT
*
5073130 TGAATTGCACATACATGCCCC
1 TGAATTGCACATACATACCCC
* * * *
5073151 TG-TTTGTAC-TTCGGTACCCC
1 TGAATTGCACATAC-ATACCCC
5073171 TGAATTGCACATACATACCCC
1 TGAATTGCACATACATACCCC
5073192 T
1 T
5073193 CTTTGTACTT
Statistics
Matches: 30, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 2 0.07
20 12 0.40
21 14 0.47
22 2 0.07
ACGTcount: A:0.24, C:0.32, G:0.14, T:0.30
Consensus pattern (21 bp):
TGAATTGCACATACATACCCC
Found at i:5073273 original size:21 final size:21
Alignment explanation
Indices: 5073209--5073273 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 21
5073199 ACTTCGGTAC
*
5073209 CCCTAAATTACACATACGTGG
1 CCCTAAATTACACATACGTAG
** * *
5073230 CCCT-GTTTATAC-TTCGATA-
1 CCCTAAATTACACATACG-TAG
5073249 CCCTAAATTACACATACGTAG
1 CCCTAAATTACACATACGTAG
5073270 CCCT
1 CCCT
5073274 GTTTGTACTT
Statistics
Matches: 31, Mismatches: 9, Indels: 8
0.65 0.19 0.17
Matches are distributed among these distances:
19 7 0.23
20 13 0.42
21 11 0.35
ACGTcount: A:0.29, C:0.31, G:0.11, T:0.29
Consensus pattern (21 bp):
CCCTAAATTACACATACGTAG
Found at i:5073335 original size:20 final size:20
Alignment explanation
Indices: 5073270--5073335 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
5073260 ACATACGTAG
* *
5073270 CCCTGTTTGTACTTTGGTAC
1 CCCTATTTGTACTTCGGTAC
* * * *
5073290 CCCTGAATTGCACATAC-GTGC
1 CCCT-ATTTGTAC-TTCGGTAC
5073311 CCCTATTTGTACTTCGGTAC
1 CCCTATTTGTACTTCGGTAC
5073331 CCCTA
1 CCCTA
5073336 AATAACGCAT
Statistics
Matches: 33, Mismatches: 10, Indels: 6
0.67 0.20 0.12
Matches are distributed among these distances:
19 2 0.06
20 18 0.55
21 12 0.36
22 1 0.03
ACGTcount: A:0.17, C:0.32, G:0.17, T:0.35
Consensus pattern (20 bp):
CCCTATTTGTACTTCGGTAC
Found at i:5073368 original size:163 final size:163
Alignment explanation
Indices: 5072920--5073370 Score: 537
Period size: 163 Copynumber: 2.8 Consensus size: 163
5072910 ATAGTTAATT
* * **
5072920 ATACCCTAAATTGCACATACGTGCCCCTGTTTGTTCTTCGATACCCCTTAATTGCACATGTGTGC
1 ATACCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGAATTGCACATACGTGC
** * * * * *
5072985 CTTTGTTTGTACTTTGGTACCACTGAATTGCACATACGTGCCCTTTTTTGTACTTTGGTACCCCT
66 CCCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTCTTTGTACTTCGGTACCCCT
* * * *
5073050 GAATTGCACATATGTACCCCTATTTTTACTTCG
131 AAATTACACATACGTACCCCTATTTATACTTCG
* * * * *
5073083 GTACCCCTAAATTGCACATATGTGCCCCTATTTGTACTTCGAT-CCCTTGAATTGCACATACATG
1 ATA-CCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGAATTGCACATACGTG
* *
5073147 CCCCTGTTTGTACTTCGGTACCCCTGAATTGCACATACATACCCCTCTTTGTACTTCGGTACCCC
65 CCCCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTCTTTGTACTTCGGTACCCC
** *
5073212 TAAATTACACATACGTGGCCCTGTTTATACTTCG
130 TAAATTACACATACGTACCCCTATTTATACTTCG
* * *
5073246 ATACCCTAAATTACACATACGTAG-CCCTGTTTGTACTTTGGTACCCCTGAATTGCACATACGTG
1 ATACCCTAAATTGCACATACGT-GCCCCTGTTTGTACTTCGATACCCCTGAATTGCACATACGTG
* * ** * * * **
5073310 CCCCTATTTGTACTTCGGTACCCCTAAATAACGCATATGTGCCCCTGTTTACACTTCGGTA
65 CCCCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTCTTTGTACTTCGGTA
5073371 ACTTCAAATT
Statistics
Matches: 241, Mismatches: 44, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
162 32 0.13
163 173 0.72
164 36 0.15
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.35
Consensus pattern (163 bp):
ATACCCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGAATTGCACATACGTGC
CCCTGTTTGTACTTCGGTACCCCTGAATTGCACATACGTGCCCCTCTTTGTACTTCGGTACCCCT
AAATTACACATACGTACCCCTATTTATACTTCG
Found at i:5085565 original size:40 final size:40
Alignment explanation
Indices: 5085465--5085636 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
5085455 GCTCCTCGTT
* * *
5085465 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
5085505 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
5085544 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
5085584 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
5085624 CAAATGCCTTCGG
1 CAAATGCCTTCGG
5085637 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:5091082 original size:18 final size:17
Alignment explanation
Indices: 5091055--5091090 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
5091045 AAAATACAAT
*
5091055 TAAAAAACATTATTTAA
1 TAAAAAACATTAGTTAA
5091072 TAAACAAACATTAGTTAA
1 TAAA-AAACATTAGTTAA
5091090 T
1 T
5091091 CATGATATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (17 bp):
TAAAAAACATTAGTTAA
Found at i:5091220 original size:21 final size:21
Alignment explanation
Indices: 5091195--5091234 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5091185 ATCTTGAACA
5091195 AAGTATTGATATCTTTATAAT
1 AAGTATTGATATCTTTATAAT
*
5091216 AAGTATTGATATTTTTATA
1 AAGTATTGATATCTTTATA
5091235 TCTGGTATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.50
Consensus pattern (21 bp):
AAGTATTGATATCTTTATAAT
Found at i:5102820 original size:30 final size:29
Alignment explanation
Indices: 5102785--5102842 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
5102775 GAGTTTGTAA
5102785 ATAGTATT-TATTAATATTTATGAGTTGATT
1 ATAGTATTATATTAA-ATTT-TGAGTTGATT
*
5102815 ATAGTATTATATTAAATTTTGATTTGAT
1 ATAGTATTATATTAAATTTTGAGTTGAT
5102843 AATTTTTGCT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 8 0.31
30 12 0.46
31 6 0.23
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.53
Consensus pattern (29 bp):
ATAGTATTATATTAAATTTTGAGTTGATT
Found at i:5104482 original size:27 final size:26
Alignment explanation
Indices: 5104436--5104499 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
5104426 TATACAAAAA
* *
5104436 GGTTATATGAAATGGTTACATGAAAT
1 GGTTATATGAAATAGATACATGAAAT
*
5104462 GGTTATATGGAAATAGATACATGGAAT
1 GGTTATAT-GAAATAGATACATGAAAT
* *
5104489 GATTTTATGAA
1 GGTTATATGAA
5104500 TCGGTTATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 11 0.34
27 21 0.66
ACGTcount: A:0.39, C:0.03, G:0.23, T:0.34
Consensus pattern (26 bp):
GGTTATATGAAATAGATACATGAAAT
Found at i:5104515 original size:40 final size:40
Alignment explanation
Indices: 5104462--5104539 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
5104452 TACATGAAAT
*
5104462 GGTTATATGGAAATAGATACATGGAA-TGATTTTATGAATC
1 GGTTATATAGAAATAGATACAT-GAACTGATTTTATGAATC
* * *
5104502 GGTTATATAGAAATAGTTATATGAACTGCTTTTATGAA
1 GGTTATATAGAAATAGATACATGAACTGATTTTATGAA
5104540 ATGTTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.09
40 30 0.91
ACGTcount: A:0.37, C:0.05, G:0.21, T:0.37
Consensus pattern (40 bp):
GGTTATATAGAAATAGATACATGAACTGATTTTATGAATC
Found at i:5104550 original size:13 final size:13
Alignment explanation
Indices: 5104403--5104550 Score: 100
Period size: 13 Copynumber: 11.2 Consensus size: 13
5104393 AATGTAGAAA
* *
5104403 ATGAAATAGATAT
1 ATGAAATGGTTAT
*
5104416 AAGAAATGGTTAT
1 ATGAAATGGTTAT
** *
5104429 ACAAAAAGGTTAT
1 ATGAAATGGTTAT
*
5104442 ATGAAATGGTTAC
1 ATGAAATGGTTAT
5104455 ATGAAATGGTTAT
1 ATGAAATGGTTAT
* * *
5104468 ATGGAAATAGATAC
1 AT-GAAATGGTTAT
* * *
5104482 ATGGAATGATTTT
1 ATGAAATGGTTAT
5104495 ATG-AATCGGTTAT
1 ATGAAAT-GGTTAT
*
5104508 ATAGAAATAGTTAT
1 AT-GAAATGGTTAT
* * *
5104522 ATGAACTGCTTTT
1 ATGAAATGGTTAT
*
5104535 ATGAAATGTTTAT
1 ATGAAATGGTTAT
5104548 ATG
1 ATG
5104551 GATATAGATA
Statistics
Matches: 101, Mismatches: 30, Indels: 8
0.73 0.22 0.06
Matches are distributed among these distances:
12 3 0.03
13 77 0.76
14 18 0.18
15 3 0.03
ACGTcount: A:0.41, C:0.04, G:0.20, T:0.35
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:5104976 original size:134 final size:134
Alignment explanation
Indices: 5104736--5105005 Score: 504
Period size: 134 Copynumber: 2.0 Consensus size: 134
5104726 TGTGATGTGT
5104736 ATAGGCAATTAAATGAATTCATGACATACTAAGGTTTAAGCAAGCTTACCTCATTTTGGTTTTTC
1 ATAGGCAATTAAATGAATTCATGACATACTAAGGTTTAAGCAAGCTTACCTCATTTTGGTTTTTC
*
5104801 TTCCTTGTAGATCGTCGGATCGAGCTGTCGATTGGATTGCTTTTAGAGATAACACTAACTAGCAA
66 TTCCTTGTAGATCGTCGGATCGAGCTGCCGATTGGATTGCTTTTAGAGATAACACTAACTAGCAA
5104866 CTTA
131 CTTA
5104870 ATAGGCAATTAAATGAATTCATGACATACTAAGGTTTAAGCAAGCTTACCTCATTTTGGTTTTTC
1 ATAGGCAATTAAATGAATTCATGACATACTAAGGTTTAAGCAAGCTTACCTCATTTTGGTTTTTC
* * *
5104935 TTCCTTGTAGATCGTCGGATTGAGCTGCCGATTGGATTGCTTTTGGAGATAACACTATCTAGCAA
66 TTCCTTGTAGATCGTCGGATCGAGCTGCCGATTGGATTGCTTTTAGAGATAACACTAACTAGCAA
5105000 CTTA
131 CTTA
5105004 AT
1 AT
5105006 CGGTAACTAA
Statistics
Matches: 132, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 132 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (134 bp):
ATAGGCAATTAAATGAATTCATGACATACTAAGGTTTAAGCAAGCTTACCTCATTTTGGTTTTTC
TTCCTTGTAGATCGTCGGATCGAGCTGCCGATTGGATTGCTTTTAGAGATAACACTAACTAGCAA
CTTA
Found at i:5116827 original size:27 final size:27
Alignment explanation
Indices: 5116751--5116842 Score: 96
Period size: 27 Copynumber: 3.4 Consensus size: 27
5116741 GAGAGCCTCG
* * *
5116751 AAGTGCTAGTTAGAACGGAAAGCACCA
1 AAGTGCTAATTAGAACAGAGAGCACCA
* * *
5116778 AAATGCTAATCAAAACA-ACGAGCACCA
1 AAGTGCTAATTAGAACAGA-GAGCACCA
* *
5116805 AAGTGCTAATTAGAATAGAGAGCACCG
1 AAGTGCTAATTAGAACAGAGAGCACCA
5116832 AAGTGCTAATT
1 AAGTGCTAATT
5116843 TCCATTCATA
Statistics
Matches: 52, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.02
27 50 0.96
28 1 0.02
ACGTcount: A:0.43, C:0.18, G:0.21, T:0.17
Consensus pattern (27 bp):
AAGTGCTAATTAGAACAGAGAGCACCA
Found at i:5118126 original size:114 final size:113
Alignment explanation
Indices: 5117891--5118333 Score: 593
Period size: 114 Copynumber: 3.9 Consensus size: 113
5117881 CCATTCGGAG
* * * *
5117891 CTTTAGCGGCGATTTTGTGGAAGCGCCGCAAAAAAACTGAAGCCCAACGATGCCGTTTGCTGAG-
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGC-AAAAAACCGAAGCCCAACGATGCCGTTTTCTGAGC
* ** * *
5117955 ATTTGGGGATTTAGTAGCGTTTTCGGTGAAGCGCCGCTAATGTTCAAGA
65 ATTCGGGGATTTAGCGGCGTTTTCGGTGAAGCGCCGCTAATGCTCAGGA
* * * *
5118004 CTTTAGCGGCGTTTTTGAGTAAGCGCCGCAAATAAACCAAAGCCCAACGACGCCATTTTCTGAGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCAAA-AAACCGAAGCCCAACGATGCCGTTTTCTGAGC
* *
5118069 ATTCGGGGATTTAGCGGTGTTTTCGGTAAAGCGCCGCTAATGCTCAGGA
65 ATTCGGGGATTTAGCGGCGTTTTCGGTGAAGCGCCGCTAATGCTCAGGA
* * * *
5118118 CTTTAGCGGCTTTTTTTAGTAAGCGCCGCAAAGAAACCGAAGCCCAACGATGTCGTTTTCTGAGC
1 CTTTAGCGGCGTTTTTGAGGAAGCGCCGCAAA-AAACCGAAGCCCAACGATGCCGTTTTCTGAGC
*
5118183 ATTCGGGGATTTAGTGGCGTTTTCGGTGGAAGCGCCGCTAATGCTCAAGG-
65 ATTCGGGGATTTAGCGGCGTTTTCGGT-GAAGCGCCGCTAATGCTC-AGGA
* * *
5118233 CTTTAGCGGCGTTTTTTGTGGAAGCGCTGCAAAAAACCTAAGCCCAACGATGCCGTTTTCTGAGC
1 CTTTAGCGGCG-TTTTTGAGGAAGCGCCGCAAAAAACCGAAGCCCAACGATGCCGTTTTCTGAGC
* *
5118298 ATTCGGGGATTTAGCGGCGTTTTTGATGAAGCGCCG
65 ATTCGGGGATTTAGCGGCGTTTTCGGTGAAGCGCCG
5118334 TAAAATAATT
Statistics
Matches: 290, Mismatches: 35, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
112 3 0.01
113 52 0.18
114 134 0.46
115 81 0.28
116 20 0.07
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (113 bp):
CTTTAGCGGCGTTTTTGAGGAAGCGCCGCAAAAAACCGAAGCCCAACGATGCCGTTTTCTGAGCA
TTCGGGGATTTAGCGGCGTTTTCGGTGAAGCGCCGCTAATGCTCAGGA
Found at i:5118332 original size:229 final size:227
Alignment explanation
Indices: 5117911--5118333 Score: 650
Period size: 229 Copynumber: 1.9 Consensus size: 227
5117901 GATTTTGTGG
* *
5117911 AAGCGCCGCAAAAAAACTGAAGCCCAACGATGCCGTTTGCTGAGATTTGGGGATTTAGTAGCGTT
1 AAGCGCCGCAAAAAAACCGAAGCCCAACGATGCCGTTTGCTGAGATTCGGGGATTTAGTAGCGTT
* *
5117976 TTCGGTGAAGCGCCGCTAATGTTCAAGACTTTAGCGGCGTTTTTGAGTAAGCGCCGCAAATAAAC
66 TTCGGTGAAGCGCCGCTAATGCTCAAGACTTTAGCGGCGTTTTTGAGGAAGCGCCGCAAATAAAC
* *
5118041 CAAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTAGCGGTGTTTTCGGTAAAGCGCCGC
131 CAAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTCGATAAAGCGCCGC
5118106 TAATGCTCAGGACTTTAGCGGCTTTTTTTAGT
196 TAATGCTCAGGACTTTAGCGGCTTTTTTTAGT
* * * *
5118138 AAGCGCCGCAAAGAAACCGAAGCCCAACGATGTCGTTTTCTGAGCATTCGGGGATTTAGTGGCGT
1 AAGCGCCGCAAAAAAACCGAAGCCCAACGATGCCGTTTGCTGAG-ATTCGGGGATTTAGTAGCGT
* * *
5118203 TTTCGGTGGAAGCGCCGCTAATGCTCAAGGCTTTAGCGGCGTTTTTTGTGGAAGCGCTGCAAA-A
65 TTTCGGT-GAAGCGCCGCTAATGCTCAAGACTTTAGCGGCG-TTTTTGAGGAAGCGCCGCAAATA
* * * * *
5118267 AACCTAAGCCCAACGATGCCGTTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTTGATGAAGCGC
128 AACCAAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTCGATAAAGCGC
5118332 CG
193 CG
5118334 TAAAATAATT
Statistics
Matches: 175, Mismatches: 18, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
227 40 0.23
228 25 0.14
229 92 0.53
230 18 0.10
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (227 bp):
AAGCGCCGCAAAAAAACCGAAGCCCAACGATGCCGTTTGCTGAGATTCGGGGATTTAGTAGCGTT
TTCGGTGAAGCGCCGCTAATGCTCAAGACTTTAGCGGCGTTTTTGAGGAAGCGCCGCAAATAAAC
CAAAGCCCAACGACGCCATTTTCTGAGCATTCGGGGATTTAGCGGCGTTTTCGATAAAGCGCCGC
TAATGCTCAGGACTTTAGCGGCTTTTTTTAGT
Found at i:5120040 original size:21 final size:21
Alignment explanation
Indices: 5120016--5120055 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
5120006 ATTGTATATA
5120016 GTTTGGGGTTTAGGGTTTAAG
1 GTTTGGGGTTTAGGGTTTAAG
*
5120037 GTTTGGGGTTTGGGGTTTA
1 GTTTGGGGTTTAGGGTTTA
5120056 GGCCGCTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.00, G:0.45, T:0.45
Consensus pattern (21 bp):
GTTTGGGGTTTAGGGTTTAAG
Found at i:5120868 original size:15 final size:16
Alignment explanation
Indices: 5120831--5120874 Score: 54
Period size: 15 Copynumber: 2.8 Consensus size: 16
5120821 TATAAATATT
*
5120831 TATATACATTTTTAATA
1 TATATA-ATTTTTAAAA
5120848 TATAT-ATTTTTAAAA
1 TATATAATTTTTAAAA
*
5120863 TCTATAATTTTT
1 TATATAATTTTT
5120875 TCAAGATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 13 0.54
16 6 0.25
17 5 0.21
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATAATTTTTAAAA
Found at i:5120956 original size:12 final size:12
Alignment explanation
Indices: 5120939--5120995 Score: 53
Period size: 12 Copynumber: 4.6 Consensus size: 12
5120929 ATATTAATAA
5120939 TATATAATAACT
1 TATATAATAACT
5120951 TATATAATAACAT
1 TATATAATAAC-T
*
5120964 ACAATATAATAACT
1 --TATATAATAACT
*
5120978 TATA-CATAACT
1 TATATAATAACT
*
5120989 TAAATAA
1 TATATAA
5120996 CATACAATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
11 9 0.25
12 15 0.42
13 1 0.03
14 1 0.03
15 10 0.28
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.35
Consensus pattern (12 bp):
TATATAATAACT
Found at i:5121058 original size:9 final size:9
Alignment explanation
Indices: 5121009--5122084 Score: 395
Period size: 9 Copynumber: 122.8 Consensus size: 9
5120999 ACAATATATA
*
5121009 AACTTGCAT
1 AACTTACAT
*
5121018 AACTTATAT
1 AACTTACAT
*
5121027 AA-TAACAT
1 AACTTACAT
5121035 AA--TACAT
1 AACTTACAT
* *
5121042 AGCCTACAT
1 AACTTACAT
5121051 AACTTACAT
1 AACTTACAT
5121060 AACTTACAT
1 AACTTACAT
* *
5121069 AAATTAAAT
1 AACTTACAT
5121078 AACTTACAT
1 AACTTACAT
5121087 AACTTACAT
1 AACTTACAT
*
5121096 AACTTAAAT
1 AACTTACAT
5121105 AACTTACAT
1 AACTTACAT
5121114 AA--TACAT
1 AACTTACAT
*
5121121 AACCTT-CCT
1 AA-CTTACAT
5121130 AACTTACAT
1 AACTTACAT
* *
5121139 TATTTACAT
1 AACTTACAT
5121148 AA-TAGTACAT
1 AACT--TACAT
5121158 AACTTACAT
1 AACTTACAT
* *
5121167 AATTTTTTCTAAAT
1 AA----CT-TACAT
*
5121181 AACTTATAT
1 AACTTACAT
* *
5121190 AAATTAAAT
1 AACTTACAT
5121199 AACTTACAT
1 AACTTACAT
5121208 AACTTACAT
1 AACTTACAT
*
5121217 AA-ATA-AT
1 AACTTACAT
* *
5121224 TA--TAAAT
1 AACTTACAT
**
5121231 AAGATACAT
1 AACTTACAT
** *
5121240 AAAAGT-GAT
1 -AACTTACAT
5121249 ATACTTACAT
1 A-ACTTACAT
*
5121259 --CATACAT
1 AACTTACAT
*
5121266 ATCTTACAT
1 AACTTACAT
** *
5121275 AACCAAAATTT
1 AACTTACA--T
* *
5121286 GTA-TGTACAAG
1 -AACT-TAC-AT
5121297 AACTTACAT
1 AACTTACAT
*
5121306 AACTTA-TT
1 AACTTACAT
* *
5121314 AATATTTATAT
1 -A-ACTTACAT
5121325 AAACTTACAT
1 -AACTTACAT
5121335 AACTATCACAT
1 AACT-T-ACAT
*
5121346 AAACTTATATGT
1 -AACTTACA--T
5121358 AAACTTACAT
1 -AACTTACAT
5121368 AA--TACAT
1 AACTTACAT
* *
5121375 AAATT--TT
1 AACTTACAT
*
5121382 AACTTACGT
1 AACTTACAT
5121391 AA--TACAT
1 AACTTACAT
5121398 AACTT--AT
1 AACTTACAT
* *
5121405 AA---AAAA
1 AACTTACAT
* *
5121411 AATTTATAT
1 AACTTACAT
5121420 AAACTTACAT
1 -AACTTACAT
*
5121430 AA--TATAT
1 AACTTACAT
*
5121437 TACTTACATATT
1 AACTTAC--A-T
5121449 AACTTACAT
1 AACTTACAT
* *
5121458 AAGTTATCTAC
1 AACTTA-C-AT
*
5121469 AAGCTTATATAT
1 AA-C-T-TACAT
*
5121481 AAACTTGCAT
1 -AACTTACAT
*
5121491 AACTTATGTAAT
1 AACTTA---CAT
* *
5121503 AACATA-AC
1 AACTTACAT
5121511 AACTTACAT
1 AACTTACAT
5121520 AA--TACAT
1 AACTTACAT
* *
5121527 AGCATACAT
1 AACTTACAT
5121536 AACTTACAT
1 AACTTACAT
*
5121545 AA--TACAA
1 AACTTACAT
5121552 AACTTACAT
1 AACTTACAT
*
5121561 AACTTAAAT
1 AACTTACAT
* *
5121570 ATCTTACAC
1 AACTTACAT
5121579 AACTTACATTT
1 AACTTACA--T
*
5121590 AAATTACAT
1 AACTTACAT
5121599 AACTTACAT
1 AACTTACAT
* *
5121608 AA--TCCAA
1 AACTTACAT
5121615 AACTTACAT
1 AACTTACAT
5121624 AACTTACAT
1 AACTTACAT
* *
5121633 AA--TCCAA
1 AACTTACAT
5121640 AACTTACAT
1 AACTTACAT
5121649 AACTTACAT
1 AACTTACAT
* *
5121658 AA--TCCAA
1 AACTTACAT
5121665 AACTTACAT
1 AACTTACAT
5121674 AACTTACAT
1 AACTTACAT
* *
5121683 AA--TCCAA
1 AACTTACAT
5121690 AACTTACAT
1 AACTTACAT
5121699 AACTTACAT
1 AACTTACAT
* *
5121708 AA--TCCAA
1 AACTTACAT
5121715 AACTTACAT
1 AACTTACAT
5121724 AACTTACAT
1 AACTTACAT
* *
5121733 AA--TCCAA
1 AACTTACAT
5121740 AACTTACAT
1 AACTTACAT
5121749 AACTTACAT
1 AACTTACAT
* *
5121758 AA--TCCAA
1 AACTTACAT
5121765 AACTTACAT
1 AACTTACAT
5121774 AACTTACAT
1 AACTTACAT
* *
5121783 AA--TCCAA
1 AACTTACAT
5121790 AACTTACAT
1 AACTTACAT
5121799 AACTTACAT
1 AACTTACAT
* *
5121808 AA--TCCAA
1 AACTTACAT
5121815 AACTTACAT
1 AACTTACAT
5121824 AACTTACAT
1 AACTTACAT
* *
5121833 AA--TCCAA
1 AACTTACAT
5121840 AACTTACAT
1 AACTTACAT
5121849 AACTTACAT
1 AACTTACAT
* *
5121858 AA--TCCAA
1 AACTTACAT
5121865 AACTTACAT
1 AACTTACAT
5121874 AACTTACAT
1 AACTTACAT
* *
5121883 AA--TCCAA
1 AACTTACAT
5121890 AACTTACAT
1 AACTTACAT
5121899 AACTTACAT
1 AACTTACAT
*
5121908 AATACATA-AT
1 -A-ACTTACAT
5121918 AACTTAC--
1 AACTTACAT
5121925 AACTTACAT
1 AACTTACAT
*
5121934 AACATACAT
1 AACTTACAT
* **
5121943 TACTTTGAT
1 AACTTACAT
5121952 AACTTACAT
1 AACTTACAT
5121961 AACTTACAT
1 AACTTACAT
* *
5121970 AA--TGCAC
1 AACTTACAT
**
5121977 AACTGGCAT
1 AACTTACAT
*
5121986 AACTTACTT
1 AACTTACAT
5121995 AA--TACAT
1 AACTTACAT
5122002 AACTTACAT
1 AACTTACAT
*
5122011 AA--TACAC
1 AACTTACAT
5122018 AACTTACAT
1 AACTTACAT
* *
5122027 AGCTTACTT
1 AACTTACAT
5122036 AA--TACAT
1 AACTTACAT
5122043 AACTTACAT
1 AACTTACAT
5122052 AA--TACAT
1 AACTTACAT
* *
5122059 ACACGTACAC
1 A-ACTTACAT
5122069 AACTTACAT
1 AACTTACAT
*
5122078 AATTTAC
1 AACTTAC
5122085 TTAATACATA
Statistics
Matches: 786, Mismatches: 172, Indels: 218
0.67 0.15 0.19
Matches are distributed among these distances:
6 5 0.01
7 159 0.20
8 25 0.03
9 474 0.60
10 52 0.07
11 27 0.03
12 31 0.04
13 5 0.01
14 8 0.01
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:5121060 original size:18 final size:18
Alignment explanation
Indices: 5121009--5122084 Score: 395
Period size: 16 Copynumber: 61.4 Consensus size: 18
5120999 ACAATATATA
* *
5121009 AACTTGCATAACTTATAT
1 AACTTACATAACTTACAT
*
5121027 AA-TAACATAA--TACAT
1 AACTTACATAACTTACAT
* *
5121042 AGCCTACATAACTTACAT
1 AACTTACATAACTTACAT
* *
5121060 AACTTACATAAATTAAAT
1 AACTTACATAACTTACAT
5121078 AACTTACATAACTTACAT
1 AACTTACATAACTTACAT
*
5121096 AACTTAAATAACTTACAT
1 AACTTACATAACTTACAT
*
5121114 AA--TACATAACCTT-CCT
1 AACTTACATAA-CTTACAT
* *
5121130 AACTTACATTATTTACAT
1 AACTTACATAACTTACAT
5121148 AA-TAGTACATAACTTACAT
1 AACT--TACATAACTTACAT
* * *
5121167 AATTTTTTCTAAATAACTTATAT
1 AA----CT-TACATAACTTACAT
* *
5121190 AAATTAAATAACTTACAT
1 AACTTACATAACTTACAT
*
5121208 AACTTACATAA-ATA-AT
1 AACTTACATAACTTACAT
* * **
5121224 TA--TAAATAAGATACAT
1 AACTTACATAACTTACAT
** *
5121240 AAAAGT-GATATACTTACAT
1 -AACTTACATA-ACTTACAT
* *
5121259 --CATACATATCTTACAT
1 AACTTACATAACTTACAT
** * * *
5121275 AACCAAAATTTGTA-TGTACAAG
1 AACTTACA--T-AACT-TAC-AT
*
5121297 AACTTACATAACTTA-TT
1 AACTTACATAACTTACAT
* *
5121314 AATATTTATATAAACTTACAT
1 -A-ACTTACAT-AACTTACAT
*
5121335 AACTATCACATAAACTTATATGT
1 AACT-T-ACAT-AACTTACA--T
5121358 AAACTTACATAA--TACAT
1 -AACTTACATAACTTACAT
* * *
5121375 AAATT--TTAACTTACGT
1 AACTTACATAACTTACAT
5121391 AA--TACATAACTT--AT
1 AACTTACATAACTTACAT
* * * *
5121405 AA---AAAAAATTTATAT
1 AACTTACATAACTTACAT
*
5121420 AAACTTACATAA--TATAT
1 -AACTTACATAACTTACAT
*
5121437 TACTTACATATTAACTTACAT
1 AACTTAC--A-TAACTTACAT
* * *
5121458 AAGTTATCTACAAGCTTATATAT
1 AACTTA-C-ATAA-C-T-TACAT
* *
5121481 AAACTTGCATAACTTATGTAAT
1 -AACTTACATAACTTA---CAT
* *
5121503 AACATA-ACAACTTACAT
1 AACTTACATAACTTACAT
* *
5121520 AA--TACATAGCATACAT
1 AACTTACATAACTTACAT
*
5121536 AACTTACATAA--TACAA
1 AACTTACATAACTTACAT
*
5121552 AACTTACATAACTTAAAT
1 AACTTACATAACTTACAT
* *
5121570 ATCTTACACAACTTACATTT
1 AACTTACATAACTTACA--T
*
5121590 AAATTACATAACTTACAT
1 AACTTACATAACTTACAT
* *
5121608 AA--TCCAAAACTTACAT
1 AACTTACATAACTTACAT
* *
5121624 AACTTACATAA--TCCAA
1 AACTTACATAACTTACAT
5121640 AACTTACATAACTTACAT
1 AACTTACATAACTTACAT
* *
5121658 AA--TCCAAAACTTACAT
1 AACTTACATAACTTACAT
* *
5121674 AACTTACATAA--TCCAA
1 AACTTACATAACTTACAT
5121690 AACTTACATAACTTACAT
1 AACTTACATAACTTACAT
* *
5121708 AA--TCCAAAACTTACAT
1 AACTTACATAACTTACAT
* *
5121724 AACTTACATAA--TCCAA
1 AACTTACATAACTTACAT
5121740 AACTTACATAACTTACAT
1 AACTTACATAACTTACAT
* *
5121758 AA--TCCAAAACTTACAT
1 AACTTACATAACTTACAT
* *
5121774 AACTTACATAA--TCCAA
1 AACTTACATAACTTACAT
5121790 AACTTACATAACTTACAT
1 AACTTACATAACTTACAT
* *
5121808 AA--TCCAAAACTTACAT
1 AACTTACATAACTTACAT
* *
5121824 AACTTACATAA--TCCAA
1 AACTTACATAACTTACAT
5121840 AACTTACATAACTTACAT
1 AACTTACATAACTTACAT
* *
5121858 AA--TCCAAAACTTACAT
1 AACTTACATAACTTACAT
* *
5121874 AACTTACATAA--TCCAA
1 AACTTACATAACTTACAT
5121890 AACTTACATAACTTACAT
1 AACTTACATAACTTACAT
*
5121908 AATACATA-ATAACTTAC--
1 -A-ACTTACATAACTTACAT
*
5121925 AACTTACATAACATACAT
1 AACTTACATAACTTACAT
* **
5121943 TACTTTGATAACTTACAT
1 AACTTACATAACTTACAT
* *
5121961 AACTTACATAA--TGCAC
1 AACTTACATAACTTACAT
** *
5121977 AACTGGCATAACTTACTT
1 AACTTACATAACTTACAT
5121995 AA--TACATAACTTACAT
1 AACTTACATAACTTACAT
*
5122011 AA--TACACAACTTACAT
1 AACTTACATAACTTACAT
* *
5122027 AGCTTACTTAA--TACAT
1 AACTTACATAACTTACAT
5122043 AACTTACATAA--TACAT
1 AACTTACATAACTTACAT
* *
5122059 ACACGTACACAACTTACAT
1 A-ACTTACATAACTTACAT
*
5122078 AATTTAC
1 AACTTAC
5122085 TTAATACATA
Statistics
Matches: 782, Mismatches: 172, Indels: 208
0.67 0.15 0.18
Matches are distributed among these distances:
13 6 0.01
14 13 0.02
15 16 0.02
16 314 0.40
17 36 0.05
18 215 0.27
19 61 0.08
20 41 0.05
21 33 0.04
22 17 0.02
23 21 0.03
24 9 0.01
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (18 bp):
AACTTACATAACTTACAT
Found at i:5121542 original size:25 final size:25
Alignment explanation
Indices: 5121503--5121566 Score: 85
Period size: 25 Copynumber: 2.6 Consensus size: 25
5121493 CTTATGTAAT
* *
5121503 AACATA-ACAACTTACATAATACAT
1 AACATACATAACTTACATAATACAA
*
5121527 AGCATACATAACTTACATAATACAA
1 AACATACATAACTTACATAATACAA
*
5121552 AACTTACATAACTTA
1 AACATACATAACTTA
5121567 AATATCTTAC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 5 0.15
25 29 0.85
ACGTcount: A:0.52, C:0.20, G:0.02, T:0.27
Consensus pattern (25 bp):
AACATACATAACTTACATAATACAA
Found at i:5121627 original size:25 final size:25
Alignment explanation
Indices: 5121593--5121935 Score: 636
Period size: 25 Copynumber: 13.7 Consensus size: 25
5121583 TACATTTAAA
5121593 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
5121618 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
5121643 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
5121668 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
5121693 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
5121718 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
5121743 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
5121768 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
5121793 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
5121818 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
5121843 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
5121868 TTACATAACTTACATAATCCAAAAC
1 TTACATAACTTACATAATCCAAAAC
*
5121893 TTACATAACTTACATAATACATAATAAC
1 TTACATAACTTACATAAT-C-CAA-AAC
5121921 TTAC--AACTTACATAA
1 TTACATAACTTACATAA
5121936 CATACATTAC
Statistics
Matches: 314, Mismatches: 1, Indels: 5
0.98 0.00 0.02
Matches are distributed among these distances:
25 293 0.93
26 12 0.04
27 2 0.01
28 7 0.02
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (25 bp):
TTACATAACTTACATAATCCAAAAC
Found at i:5122011 original size:25 final size:25
Alignment explanation
Indices: 5121516--5122012 Score: 129
Period size: 25 Copynumber: 19.9 Consensus size: 25
5121506 ATAACAACTT
* *
5121516 ACATAATACATAGCATACATAACTT
1 ACATAATACATAACTTACATAACTT
*
5121541 ACATAATACAAAACTTACATAACTT
1 ACATAATACATAACTTACATAACTT
* * *
5121566 AAATATCTTACACAACTTACAT---TT
1 ACATA--ATACATAACTTACATAACTT
*
5121590 A-A-ATTACATAACTTACATAA--T
1 ACATAATACATAACTTACATAACTT
* *
5121611 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121636 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121661 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121686 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121711 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121736 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121761 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121786 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121811 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121836 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121861 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121886 CCAAAACTTACATAACTTACATAA--T
1 ACATAA--TACATAACTTACATAACTT
* *
5121911 ACATAATAACTTACAACTTACATAACAT
1 ACATAAT-AC--ATAACTTACATAACTT
* **
5121939 ACATTACTTTGATAACTTACATAACTT
1 ACA-TA-ATACATAACTTACATAACTT
* * **
5121966 ACATAATGCACAACTGGCATAACTT
1 ACATAATACATAACTTACATAACTT
*
5121991 ACTTAATACATAACTTACATAA
1 ACATAATACATAACTTACATAA
5122013 TACACAACTT
Statistics
Matches: 429, Mismatches: 28, Indels: 30
0.88 0.06 0.06
Matches are distributed among these distances:
20 14 0.03
21 1 0.00
22 2 0.00
23 3 0.01
24 5 0.01
25 353 0.82
26 14 0.03
27 30 0.07
28 4 0.01
29 2 0.00
30 1 0.00
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.29
Consensus pattern (25 bp):
ACATAATACATAACTTACATAACTT
Found at i:5124929 original size:21 final size:21
Alignment explanation
Indices: 5124905--5124973 Score: 75
Period size: 21 Copynumber: 3.3 Consensus size: 21
5124895 CTACAACTTA
*
5124905 AAGCAGAGGCGGCAACGAGGG
1 AAGCAGAGGCGGCAACGAGAG
* *
5124926 AAGCAGAGGCTGCAGCGAGAG
1 AAGCAGAGGCGGCAACGAGAG
* * * *
5124947 AAGTAGAGGCTGCAGCGCGAG
1 AAGCAGAGGCGGCAACGAGAG
5124968 AAGCAG
1 AAGCAG
5124974 CGAGAGAAGC
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.33, C:0.19, G:0.43, T:0.04
Consensus pattern (21 bp):
AAGCAGAGGCGGCAACGAGAG
Done.