Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 184 of 328
Found at i:54950957 original size:27 final size:27
Alignment explanation
Indices: 54950925--54951166 Score: 265
Period size: 27 Copynumber: 9.0 Consensus size: 27
54950915 TTTACAAAAT
54950925 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
54950952 TGCCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * * *
54950979 TACCAAAATGCCCCTGTAGGGTAAAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* *
54951006 TACTGAAATA-CCTCTGTAGGGTAGAAT
1 TACCGAAATACCCT-TGTAGGGTAGAAA
** * * *
54951033 TACTAAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
54951060 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
54951087 -ACCGAAATACCCTTGTAAGGTTGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
*** * *
54951113 TATTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
54951140 TACCGAGATACCCTTGTAGGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
54951166 T
1 T
54951167 TACCATTTTC
Statistics
Matches: 177, Mismatches: 35, Indels: 7
0.81 0.16 0.03
Matches are distributed among these distances:
26 28 0.16
27 147 0.83
28 2 0.01
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:54951126 original size:80 final size:81
Alignment explanation
Indices: 54950920--54951170 Score: 292
Period size: 81 Copynumber: 3.1 Consensus size: 81
54950910 CTCGATTTAC
* * * * ** * * *
54950920 AAAATTACCGAAATACC-CTTGTAGGGTAGAAATGCCGAAATACCCTTGTAGGGTAGAAATACCA
1 AAAAATACCGAAATACCTC-TGTAAGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCG
* *
54950984 AAATGCCCCTGTAGGGT
65 AAATACCCTTGTAGGGT
* * *
54951001 AAAAATACTGAAATACCTCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACCGA
1 AAAAATACCGAAATACCTCTGTAAGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
54951066 AATACCCTTGTAGGGT
66 AATACCCTTGTAGGGT
* * *
54951082 AGAAA-ACCGAAATACC-CTTGTAAGGTTGAATTATTAAAATACCCCTGTAGGGTAGAATTACCG
1 AAAAATACCGAAATACCTC-TGTAAGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCG
*
54951145 AGATACCCTTGTAGGGT
65 AAATACCCTTGTAGGGT
*
54951162 AAAATTACC
1 AAAAATACC
54951171 ATTTTCCCTC
Statistics
Matches: 146, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
79 1 0.01
80 70 0.48
81 74 0.51
82 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (81 bp):
AAAAATACCGAAATACCTCTGTAAGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
AATACCCTTGTAGGGT
Found at i:54951692 original size:6 final size:6
Alignment explanation
Indices: 54951683--54951876 Score: 137
Period size: 6 Copynumber: 31.3 Consensus size: 6
54951673 TTGCATTCAC
* * * *
54951683 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTT ATTACCTA ATTCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * * *
54951734 ATTTTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * *
54951783 ATTCTG -TTACCTA ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
54951833 ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
54951877 AATGTTTCTT
Statistics
Matches: 151, Mismatches: 21, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
5 8 0.05
6 121 0.80
7 12 0.08
8 10 0.07
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:54951718 original size:31 final size:31
Alignment explanation
Indices: 54951683--54951850 Score: 140
Period size: 31 Copynumber: 5.6 Consensus size: 31
54951673 TTGCATTCAC
54951683 ATTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * **
54951714 ATTCTTATTACCTAATTC---TA----ATTTTG
1 ATTCTGATT--CTGATTCTGTTACCTGATACTG
*
54951740 GTTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
54951771 ATACTGATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
54951802 ATTCTGATTCTGATTTTGATT--CTG-TCACCTG
1 ATTCTGATTCTGATTCTG-TTACCTGAT-A-CTG
54951833 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
54951851 ATTCTCATTT
Statistics
Matches: 107, Mismatches: 18, Indels: 24
0.72 0.12 0.16
Matches are distributed among these distances:
24 6 0.06
26 11 0.10
27 2 0.02
29 1 0.01
30 4 0.04
31 75 0.70
32 2 0.02
33 6 0.06
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:54951782 original size:37 final size:37
Alignment explanation
Indices: 54951686--54951855 Score: 174
Period size: 37 Copynumber: 4.7 Consensus size: 37
54951676 CATTCACATT
* *
54951686 CTGATTCTGATTCTG-TTACCTGATACTGATTCTTATTAC
1 CTGATTCTGATTCTGATT--CTGATTCTGATTC-TGTTAC
* * * *
54951725 CTAATTCTAATTTTGGTTCTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGATTCTGATTCTGTTAC
*
54951762 CTGA---T-A--CTGATACTGATTCTGATTCTGTTAC
1 CTGATTCTGATTCTGATTCTGATTCTGATTCTGTTAC
* * *
54951793 CTAATTCTGATTCTGATTCTGATTTTGATTCTGTCAC
1 CTGATTCTGATTCTGATTCTGATTCTGATTCTGTTAC
54951830 CTGATTCTGATTCTGATTCTGATTCT
1 CTGATTCTGATTCTGATTCTGATTCT
54951856 CATTTTGATT
Statistics
Matches: 109, Mismatches: 15, Indels: 16
0.78 0.11 0.11
Matches are distributed among these distances:
31 25 0.23
33 1 0.01
34 2 0.02
35 1 0.01
37 54 0.50
38 12 0.11
39 12 0.11
40 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGATTCTGATTCTGTTAC
Found at i:54953862 original size:27 final size:27
Alignment explanation
Indices: 54953832--54954007 Score: 212
Period size: 27 Copynumber: 6.5 Consensus size: 27
54953822 GTTTACCAAT
*
54953832 TTACCAAAATACCCCTGGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
* * * *
54953859 TTACTAAAATA-CCCTTGGTTGATTAAA
1 TTACCAAAATACCCCTAGTTTG-TAAAA
*
54953886 TTACCAAAATACCCTTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
*
54953913 TTACCAAAGTACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
*
54953940 TTATCAAAATACCCCTAGTTTGTAAAA
1 TTACCAAAATACCCCTAGTTTGTAAAA
* *
54953967 TTAACAAAATACCCCT-GATTTGTGAAA
1 TTACCAAAATACCCCTAG-TTTGTAAAA
**
54953994 TTACTGAAATACCC
1 TTACCAAAATACCC
54954008 TCGACCTGTA
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.07
27 112 0.88
28 7 0.05
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.32
Consensus pattern (27 bp):
TTACCAAAATACCCCTAGTTTGTAAAA
Found at i:54953968 original size:81 final size:79
Alignment explanation
Indices: 54953832--54954068 Score: 228
Period size: 81 Copynumber: 2.9 Consensus size: 79
54953822 GTTTACCAAT
* * * *
54953832 TTACCAAAATACCCCTGGTTTGTAAAATTA-CTAAAATACCCTTGGTTGATTAAATTACCAAAAT
1 TTACC-AAATACCCCTAGTTTGTAAAATTATC-AAAATACCCTAGCTTG-TAAAATTACCAAAAT
54953896 ACCCTT-AGTTTGTAAAA
63 ACCCTTGA-TTTGTAAAA
* *
54953913 TTACCAAAGTACCCCTAGTTTGTAAAATTATCAAAATACCCCTAGTTTGTAAAATTAACAAAATA
1 TTACCAAA-TACCCCTAGTTTGTAAAATTATCAAAATA-CCCTAGCTTGTAAAATTACCAAAATA
* *
54953978 CCCCTGATTTGTGAAA
64 CCCTTGATTTGTAAAA
* * ** ** * *
54953994 TTACTGAAATA-CCCTCGACCTGTAAAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGT
1 TTAC-CAAATACCCCTAG-TTTGTAAAATTATCAAAATACCCTAG-CTTGTAAAATTACCAAAAT
54954058 ACCCTTGATTT
63 ACCCTTGATTT
54954069 ACAGAATTAC
Statistics
Matches: 131, Mismatches: 18, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
80 13 0.10
81 105 0.80
82 13 0.10
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.32
Consensus pattern (79 bp):
TTACCAAATACCCCTAGTTTGTAAAATTATCAAAATACCCTAGCTTGTAAAATTACCAAAATACC
CTTGATTTGTAAAA
Found at i:54954060 original size:27 final size:27
Alignment explanation
Indices: 54953832--54954116 Score: 186
Period size: 27 Copynumber: 10.6 Consensus size: 27
54953822 GTTTACCAAT
*
54953832 TTACCAAAATACCC-CTGGTTTGTAAAA
1 TTACCAAAATACCCTC-GATTTGTAAAA
* * * *
54953859 TTACTAAAATACCCTTG-GTTGATTAAA
1 TTACCAAAATACCCTCGATTTG-TAAAA
*
54953886 TTACCAAAATACCCT-TAGTTTGTAAAA
1 TTACCAAAATACCCTCGA-TTTGTAAAA
* *
54953913 TTACCAAAGTACCC-CTAGTTTGTAAAA
1 TTACCAAAATACCCTCGA-TTTGTAAAA
* *
54953940 TTATCAAAATACCC-CTAGTTTGTAAAA
1 TTACCAAAATACCCTCGA-TTTGTAAAA
* *
54953967 TTAACAAAATACCC-CTGATTTGTGAAA
1 TTACCAAAATACCCTC-GATTTGTAAAA
** **
54953994 TTACTGAAATACCCTCGACCTGTAAAA
1 TTACCAAAATACCCTCGATTTGTAAAA
*** *
54954021 TTATTGAAATACCCTCGACTTGTAAAA
1 TTACCAAAATACCCTCGATTTGTAAAA
* * ** *
54954048 TTACCAAAGTACCCTTGATTTACAGAA
1 TTACCAAAATACCCTCGATTTGTAAAA
**** **
54954075 TTACCGTTTTACCCTCGATTTACAAAA
1 TTACCAAAATACCCTCGATTTGTAAAA
*
54954102 TTACCGAAATACCCT
1 TTACCAAAATACCCT
54954117 TGTAGGGTAG
Statistics
Matches: 211, Mismatches: 40, Indels: 14
0.80 0.15 0.05
Matches are distributed among these distances:
26 3 0.01
27 203 0.96
28 5 0.02
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (27 bp):
TTACCAAAATACCCTCGATTTGTAAAA
Found at i:54954135 original size:27 final size:27
Alignment explanation
Indices: 54954103--54954343 Score: 263
Period size: 27 Copynumber: 9.0 Consensus size: 27
54954093 TTTACAAAAT
54954103 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
54954130 TGCCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
54954157 TACCAAAATGCCC-TGTAGGGTAAAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
54954183 TACTGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
** * * *
54954210 TACTAAAATACCCCTATAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
54954237 TACCGAAATACCCTTATAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
* * *
54954264 -ACCGAAATACCCTTGTAAGGTTGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
*** * *
54954290 TATTAAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
54954317 TACCGAGATACCCTTGTAGGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
54954343 T
1 T
54954344 TACCATTTTA
Statistics
Matches: 180, Mismatches: 32, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
26 47 0.26
27 133 0.74
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.24
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:54954203 original size:80 final size:81
Alignment explanation
Indices: 54954098--54954347 Score: 315
Period size: 80 Copynumber: 3.1 Consensus size: 81
54954088 CTCGATTTAC
* * * ** * * *
54954098 AAAATTACCGAAATACCCTTGTAGGGTAGAAATGCCGAAATACCCTTGTAGGGTAGAAATACCAA
1 AAAAATACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
*
54954163 AATGCCC-TGTAGGGT
66 AATACCCTTGTAGGGT
* * *
54954178 AAAAATACTGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACCGA
1 AAAAATACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
*
54954243 AATACCCTTATAGGGT
66 AATACCCTTGTAGGGT
* * * *
54954259 AGAAA-ACCGAAATACCCTTGTAAGGTTGAATTATTAAAATACCCCTGTAGGGTAGAATTACCGA
1 AAAAATACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
*
54954323 GATACCCTTGTAGGGT
66 AATACCCTTGTAGGGT
*
54954339 AAAATTACC
1 AAAAATACC
54954348 ATTTTACCTC
Statistics
Matches: 144, Mismatches: 24, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 130 0.90
81 14 0.10
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (81 bp):
AAAAATACCGAAATACCCTTGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGA
AATACCCTTGTAGGGT
Found at i:54954328 original size:107 final size:107
Alignment explanation
Indices: 54954100--54954347 Score: 327
Period size: 107 Copynumber: 2.3 Consensus size: 107
54954090 CGATTTACAA
* * *
54954100 AATTACCGAAATACCCTTGTAGGGTAGAAATGCCGAAATACCCTTGTAGGGTAGAAATACCAAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACCAAAA
* * *
54954165 TGCCCTGTAGGGTAAAAATACTGAAATACCCCTGTAGGGTAG
66 TACCCTGTAAGGTAAAAATACTAAAATACCCCTGTAGGGTAG
** * * *
54954207 AATTACTAAAATACCCCTATAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAA-ACCGAAA
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACCAAAA
** * *
54954271 TACCCTTGTAAGGTTGAATTATTAAAATACCCCTGTAGGGTAG
66 TACCC-TGTAAGGTAAAAATACTAAAATACCCCTGTAGGGTAG
* *
54954314 AATTACCGAGATACCCTTGTAGGGTAAAATTACC
1 AATTACCGAAATACCCTTGTAGGGTAGAATTACC
54954348 ATTTTACCTC
Statistics
Matches: 119, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
106 10 0.08
107 109 0.92
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.25
Consensus pattern (107 bp):
AATTACCGAAATACCCTTGTAGGGTAGAATTACCGAAATACCCTTATAGGGTAGAAATACCAAAA
TACCCTGTAAGGTAAAAATACTAAAATACCCCTGTAGGGTAG
Found at i:54954622 original size:27 final size:26
Alignment explanation
Indices: 54954592--54954643 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
54954582 CTCGCTGCAA
*
54954592 TCTGGTGGCCTCGGCACATATATCTGT
1 TCTGGTGACCTCGGCACA-ATATCTGT
* *
54954619 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGGCACAATATCTG
54954644 GCAGCCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGGCACAATATCTGT
Found at i:54954871 original size:6 final size:6
Alignment explanation
Indices: 54954862--54955055 Score: 164
Period size: 6 Copynumber: 31.3 Consensus size: 6
54954852 TTGCATTCAC
* *
54954862 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTACCTA ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATT--CTG ATTCTG
* * *
54954913 ATTCTG GTTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATACTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG
* * *
54954962 ATTCTG -TTACCTA ATTCTG ATTCTG ATTCTG ATTTTG ATTCTG -TCACCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG
* *
54955012 ATTCTG ATTCTG ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
54955056 AATGTTTCTT
Statistics
Matches: 154, Mismatches: 18, Indels: 32
0.75 0.09 0.16
Matches are distributed among these distances:
5 8 0.05
6 124 0.81
7 12 0.08
8 10 0.06
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (6 bp):
ATTCTG
Found at i:54954897 original size:31 final size:31
Alignment explanation
Indices: 54954862--54955029 Score: 167
Period size: 31 Copynumber: 5.6 Consensus size: 31
54954852 TTGCATTCAC
54954862 ATTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
54954893 ATTCTGATTACCTAATTCTG--A--T--T-CTG
1 ATTCTGATT--CTGATTCTGTTACCTGATACTG
*
54954919 GTTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
* * *
54954950 ATACTGATTCTGATTCTGTTACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACCTGATACTG
*
54954981 ATTCTGATTCTGATTTTGATT--CTG-TCACCTG
1 ATTCTGATTCTGATTCTG-TTACCTGAT-A-CTG
54955012 ATTCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTG
54955030 ATTCTCATTT
Statistics
Matches: 113, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
24 8 0.07
26 12 0.11
27 1 0.01
28 1 0.01
29 2 0.02
30 3 0.03
31 76 0.67
32 2 0.02
33 8 0.07
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.46
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATACTG
Found at i:54954961 original size:37 final size:37
Alignment explanation
Indices: 54954868--54955034 Score: 177
Period size: 37 Copynumber: 4.6 Consensus size: 37
54954858 TCACATTCTG
* *
54954868 ATTCTGATTCTG-TTACCTGATACTGATTCTGATTACCTA
1 ATTCTGATTCTGATT--CTGATTCTGATTCTG-TCACCTA
*
54954907 ATTCTGATTCTGGTTCTGATTCTGATTCTGT----T-
1 ATTCTGATTCTGATTCTGATTCTGATTCTGTCACCTA
* * * *
54954939 A-CCTGATACTGATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGATTCTGATTCTGTCACCTA
* *
54954975 ATTCTGATTCTGATTCTGATTTTGATTCTGTCACCTG
1 ATTCTGATTCTGATTCTGATTCTGATTCTGTCACCTA
54955012 ATTCTGATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCTGATTCT
54955035 CATTTTGATT
Statistics
Matches: 109, Mismatches: 12, Indels: 16
0.80 0.09 0.12
Matches are distributed among these distances:
31 25 0.23
32 1 0.01
33 1 0.01
35 1 0.01
36 1 0.01
37 52 0.48
38 14 0.13
39 12 0.11
40 2 0.02
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.47
Consensus pattern (37 bp):
ATTCTGATTCTGATTCTGATTCTGATTCTGTCACCTA
Found at i:54957038 original size:27 final size:27
Alignment explanation
Indices: 54957008--54957321 Score: 342
Period size: 27 Copynumber: 11.6 Consensus size: 27
54956998 TTAGTTTACC
54957008 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
54957035 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
54957062 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** **
54957089 AAATTACTAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
54957116 AAATTACCAAAATACCCCTAGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
** *
54957143 AAATTACCAAAATACCATTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
54957170 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
54957197 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
54957224 AAATTACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** * **
54957251 AAATTACTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*** **
54957278 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GGTTTGTA
*
54957305 AAATTACCAAAGTACCC
1 AAATTACCAAAATACCC
54957322 ATGATTTACA
Statistics
Matches: 246, Mismatches: 39, Indels: 3
0.85 0.14 0.01
Matches are distributed among these distances:
26 3 0.01
27 241 0.98
28 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:54957073 original size:54 final size:54
Alignment explanation
Indices: 54957008--54957270 Score: 377
Period size: 54 Copynumber: 4.9 Consensus size: 54
54956998 TTAGTTTACC
*
54957008 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
54957062 AAATCACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCATTGGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * * * *
54957116 AAATTACCAAAATACCCCTAGTTTATAAAATTACCAAAATACCATTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
* * *
54957170 AAATTACCAAAATACCCCTAGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACT-AAAATACCCTTGGTTTATA
*
54957224 AAATTACCAAAATACCCCT-GATTTGTAAAATTACTGAAATACCCTTG
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCTTG
54957271 ACTTGTAAAA
Statistics
Matches: 189, Mismatches: 17, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
53 1 0.01
54 187 0.99
55 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
Found at i:54957396 original size:27 final size:27
Alignment explanation
Indices: 54957377--54957520 Score: 207
Period size: 27 Copynumber: 5.3 Consensus size: 27
54957367 GAAATACTTT
*
54957377 TGTAAGGTAGAAATACCGAAATACCCC
1 TGTAGGGTAGAAATACCGAAATACCCC
54957404 TGTAGGGTAGAAATACCGAAATACCCC
1 TGTAGGGTAGAAATACCGAAATACCCC
54957431 TGTAGGGTAGAAATACCGAAATACCCC
1 TGTAGGGTAGAAATACCGAAATACCCC
* **
54957458 TGTAGGGTAGAATTATTGAAATACCCC
1 TGTAGGGTAGAAATACCGAAATACCCC
* * * *
54957485 TGTAGCGTAGAATTACCGAGATACCCT
1 TGTAGGGTAGAAATACCGAAATACCCC
*
54957512 TGTGGGGTA
1 TGTAGGGTA
54957521 TAATTGCTAT
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 106 1.00
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (27 bp):
TGTAGGGTAGAAATACCGAAATACCCC
Found at i:54958004 original size:6 final size:6
Alignment explanation
Indices: 54957947--54958114 Score: 110
Period size: 6 Copynumber: 27.2 Consensus size: 6
54957937 ATTCACATTT
* * * *
54957947 TGATTC TAATTC TG-TTACC TGATAC TGATTT TGATTC TG-TTACC TAATTC
1 TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC TGATT--C TGATTC
* * * *
54957997 TGATTC TGGTTC TGATTC TGATTC TG-TTACC AGATAC TGATTT TGATTC
1 TGATTC TGATTC TGATTC TGATTC TGATT--C TGATTC TGATTC TGATTC
** * * *
54958046 TGTAAAC TAATTC TGATTC TGATTC TGATTT TGATTC TG-TCACC TGATTC
1 TG-ATTC TGATTC TGATTC TGATTC TGATTC TGATTC TGAT--TC TGATTC
54958096 TGATTC TGATTC TGATTC T
1 TGATTC TGATTC TGATTC T
54958115 CATTTTGATC
Statistics
Matches: 123, Mismatches: 26, Indels: 26
0.70 0.15 0.15
Matches are distributed among these distances:
5 7 0.06
6 98 0.80
7 13 0.11
8 5 0.04
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.48
Consensus pattern (6 bp):
TGATTC
Found at i:54958009 original size:25 final size:25
Alignment explanation
Indices: 54957947--54958010 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
54957937 ATTCACATTT
* *
54957947 TGATTCTAATTCTGTTACCTGATAC
1 TGATTCTGATTCTGTTACCTAATAC
* *
54957972 TGATTTTGATTCTGTTACCTAATTC
1 TGATTCTGATTCTGTTACCTAATAC
*
54957997 TGATTCTGGTTCTG
1 TGATTCTGATTCTG
54958011 ATTCTGATTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.19, C:0.17, G:0.16, T:0.48
Consensus pattern (25 bp):
TGATTCTGATTCTGTTACCTAATAC
Found at i:54958037 original size:37 final size:37
Alignment explanation
Indices: 54957965--54958047 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 37
54957955 ATTCTGTTAC
* * *
54957965 CTGATACTGATTTTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
*
54958002 CTGGTTCTGATTCTGATTCTGTTACC-AGATACTGATT
1 CTGATTCTGATTCTGATTCTGTTACCTA-ATACTGATT
*
54958039 TTGATTCTG
1 CTGATTCTG
54958048 TAAACTAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
36 1 0.03
37 38 0.97
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTTACCTAATACTGATT
Found at i:54958038 original size:25 final size:25
Alignment explanation
Indices: 54958008--54958072 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
54957998 GATTCTGGTT
*
54958008 CTGATTCTGATTCTGT-TACCAGATA
1 CTGATTCTGATTCTGTAAACCA-ATA
* * *
54958033 CTGATTTTGATTCTGTAAACTAATT
1 CTGATTCTGATTCTGTAAACCAATA
54958058 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
54958073 ATTTTGATTC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 31 0.91
26 3 0.09
ACGTcount: A:0.23, C:0.17, G:0.15, T:0.45
Consensus pattern (25 bp):
CTGATTCTGATTCTGTAAACCAATA
Found at i:54958044 original size:62 final size:62
Alignment explanation
Indices: 54957947--54958109 Score: 245
Period size: 62 Copynumber: 2.6 Consensus size: 62
54957937 ATTCACATTT
* * * *
54957947 TGATTCTAATTCTGTTACCTGATACTGATTTTGATTCTGTTACCTAATTCTGATTCTGGTTC
1 TGATTCTGATTCTGTTACCTGATACTGATTTTGATTCTGTAAACTAATTCTGATTCTGATTC
*
54958009 TGATTCTGATTCTGTTACCAGATACTGATTTTGATTCTGTAAACTAATTCTGATTCTGATTC
1 TGATTCTGATTCTGTTACCTGATACTGATTTTGATTCTGTAAACTAATTCTGATTCTGATTC
* * * *
54958071 TGATTTTGATTCTGTCACCTGATTCTGATTCTGATTCTG
1 TGATTCTGATTCTGTTACCTGATACTGATTTTGATTCTG
54958110 ATTCTCATTT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 91 1.00
ACGTcount: A:0.20, C:0.17, G:0.15, T:0.47
Consensus pattern (62 bp):
TGATTCTGATTCTGTTACCTGATACTGATTTTGATTCTGTAAACTAATTCTGATTCTGATTC
Found at i:54958074 original size:37 final size:37
Alignment explanation
Indices: 54958033--54958112 Score: 133
Period size: 37 Copynumber: 2.2 Consensus size: 37
54958023 TTACCAGATA
54958033 CTGATTTTGATTCTGTAAACTAATTCTGATTCTGATT
1 CTGATTTTGATTCTGTAAACTAATTCTGATTCTGATT
* * *
54958070 CTGATTTTGATTCTGTCACCTGATTCTGATTCTGATT
1 CTGATTTTGATTCTGTAAACTAATTCTGATTCTGATT
54958107 CTGATT
1 CTGATT
54958113 CTCATTTTGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.20, C:0.16, G:0.15, T:0.49
Consensus pattern (37 bp):
CTGATTTTGATTCTGTAAACTAATTCTGATTCTGATT
Found at i:54958123 original size:12 final size:12
Alignment explanation
Indices: 54958055--54958123 Score: 50
Period size: 12 Copynumber: 5.7 Consensus size: 12
54958045 CTGTAAACTA
*
54958055 ATTCTGATTCTG
1 ATTCTGATTCTC
* *
54958067 ATTCTGATTTTG
1 ATTCTGATTCTC
* *
54958079 ATTCTG-TCACCTG
1 ATTCTGAT--TCTC
*
54958092 ATTCTGATTCTG
1 ATTCTGATTCTC
54958104 ATTCTGATTCTC
1 ATTCTGATTCTC
*
54958116 ATTTTGAT
1 ATTCTGAT
54958124 CCTAGTTCTG
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
11 1 0.02
12 38 0.79
13 8 0.17
14 1 0.02
ACGTcount: A:0.17, C:0.17, G:0.14, T:0.51
Consensus pattern (12 bp):
ATTCTGATTCTC
Found at i:54958123 original size:18 final size:18
Alignment explanation
Indices: 54957993--54958114 Score: 61
Period size: 19 Copynumber: 6.6 Consensus size: 18
54957983 CTGTTACCTA
* *
54957993 ATTCTGATTCTGGTTCTG
1 ATTCTGATTCTGATTCTC
54958011 ATTCTGATTCTG-TTAC-C
1 ATTCTGATTCTGATT-CTC
* * *
54958028 AGATACTGATTTTGATTCTGT
1 --ATTCTGATTCTGATTCT-C
** * *
54958049 AAACTAATTCTGATTCTG
1 ATTCTGATTCTGATTCTC
*
54958067 ATTCTGATTTTGATTCTGTC
1 ATTCTGATTCTGATTC--TC
* *
54958087 A-CCTGATTCTGATTCTG
1 ATTCTGATTCTGATTCTC
54958104 ATTCTGATTCT
1 ATTCTGATTCT
54958115 CATTTTGATC
Statistics
Matches: 78, Mismatches: 17, Indels: 18
0.69 0.15 0.16
Matches are distributed among these distances:
17 4 0.05
18 33 0.42
19 37 0.47
20 4 0.05
ACGTcount: A:0.20, C:0.17, G:0.16, T:0.48
Consensus pattern (18 bp):
ATTCTGATTCTGATTCTC
Found at i:54959106 original size:40 final size:38
Alignment explanation
Indices: 54959062--54959184 Score: 97
Period size: 38 Copynumber: 3.2 Consensus size: 38
54959052 GAATCCAGTC
* *
54959062 ACCAGCACAAAACCCGCGGGACTTTAAGCTCGAATATAAT
1 ACCAGCACAAAACCCGCAGGA-TTTAA-CCCGAATATAAT
* * * *
54959102 ACCAGCACTAAGCCTGCAGGATTTAACCCGGATATAAT
1 ACCAGCACAAAACCCGCAGGATTTAACCCGAATATAAT
* * * * * *
54959140 ACCAGCTCGAAGCCTGC-GAGA-TAAACCCGGATATAAT
1 ACCAGCACAAAACCCGCAG-GATTTAACCCGAATATAAT
54959177 ACCAGCAC
1 ACCAGCAC
54959185 GAAGCCTGCG
Statistics
Matches: 72, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
37 23 0.32
38 27 0.38
39 5 0.07
40 17 0.24
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (38 bp):
ACCAGCACAAAACCCGCAGGATTTAACCCGAATATAAT
Found at i:54959176 original size:37 final size:37
Alignment explanation
Indices: 54959095--54959211 Score: 164
Period size: 37 Copynumber: 3.1 Consensus size: 37
54959085 TTAAGCTCGA
* *
54959095 ATATAATACCAGCACTAAGCCTGC-AGGATTTAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGA-GA-TAAACCCGG
*
54959133 ATATAATACCAGCTCGAAGCCTGCGAGATAAACCCGG
1 ATATAATACCAGCACGAAGCCTGCGAGATAAACCCGG
* *
54959170 ATATAATACCAGCACGAAGCCTGCGGGATAAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGAGATAAACCCGG
54959207 ATATA
1 ATATA
54959212 CATCAAATAT
Statistics
Matches: 72, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
37 47 0.65
38 24 0.33
39 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.20, T:0.18
Consensus pattern (37 bp):
ATATAATACCAGCACGAAGCCTGCGAGATAAACCCGG
Found at i:54960267 original size:42 final size:42
Alignment explanation
Indices: 54960208--54960293 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
54960198 TCTCTTTAAT
*
54960208 CCCACGAGTAAGATTATGATCTGTCTTCCGCTATACATCATA
1 CCCACGAGTAAGATTATGATCTGTCTTCCACTATACATCATA
54960250 CCCACGAGTAAGATTATGATCTGTCTTCCACTATACATCATA
1 CCCACGAGTAAGATTATGATCTGTCTTCCACTATACATCATA
54960292 CC
1 CC
54960294 AACCTGAATC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.29, C:0.28, G:0.13, T:0.30
Consensus pattern (42 bp):
CCCACGAGTAAGATTATGATCTGTCTTCCACTATACATCATA
Found at i:54964195 original size:38 final size:38
Alignment explanation
Indices: 54964150--54964267 Score: 175
Period size: 38 Copynumber: 3.1 Consensus size: 38
54964140 TTAAGCTCGA
* * *
54964150 ATATAATACCAGCACTAAGCCTGTGGGATTTAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTAAACCCAG
* * *
54964188 ATATAATACCAGCGCGAAGCCTGCGTGATAAAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTAAACCCAG
54964226 ATATAATACCAGCACGAAGCCTGCGGGA-TAAACCCAG
1 ATATAATACCAGCACGAAGCCTGCGGGATTAAACCCAG
54964263 ATATA
1 ATATA
54964268 CATCAAATAT
Statistics
Matches: 71, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
37 13 0.18
38 58 0.82
ACGTcount: A:0.37, C:0.25, G:0.19, T:0.19
Consensus pattern (38 bp):
ATATAATACCAGCACGAAGCCTGCGGGATTAAACCCAG
Found at i:54967014 original size:16 final size:16
Alignment explanation
Indices: 54966993--54967035 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
54966983 GTAGATCGGC
54966993 AAAAGCCGAAAAT-CCG
1 AAAAGCC-AAAATGCCG
54967009 AAAAGCCAAAATGCCG
1 AAAAGCCAAAATGCCG
*
54967025 AAAAGTCAAAA
1 AAAAGCCAAAA
54967036 AGAAGAAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 5 0.20
16 20 0.80
ACGTcount: A:0.56, C:0.21, G:0.16, T:0.07
Consensus pattern (16 bp):
AAAAGCCAAAATGCCG
Found at i:54967036 original size:24 final size:23
Alignment explanation
Indices: 54966992--54967037 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
54966982 AGTAGATCGG
*
54966992 CAAAAGCCGAAAATCCGAAAAGC
1 CAAAAGCCGAAAATCCAAAAAGC
54967015 CAAAATGCCGAAAAGT-CAAAAAG
1 CAAAA-GCCGAAAA-TCCAAAAAG
54967038 AAGAAAGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 5 0.25
24 14 0.70
25 1 0.05
ACGTcount: A:0.54, C:0.22, G:0.17, T:0.07
Consensus pattern (23 bp):
CAAAAGCCGAAAATCCAAAAAGC
Found at i:54967278 original size:29 final size:29
Alignment explanation
Indices: 54967246--54967324 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
54967236 GTGAGTATGA
* * *
54967246 ATATAAAGGTGATTTGGGCCTAATGGGTC
1 ATATAAAGATGAATTGGGCCTAATGGGCC
* * *
54967275 ATATGAATATGAATTGGGCCTAGTGGGCC
1 ATATAAAGATGAATTGGGCCTAATGGGCC
* *
54967304 ATATGAATATGAATTGGGCCT
1 ATATAAAGATGAATTGGGCCT
54967325 GATAGGTTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.11, G:0.29, T:0.30
Consensus pattern (29 bp):
ATATAAAGATGAATTGGGCCTAATGGGCC
Found at i:54967336 original size:29 final size:28
Alignment explanation
Indices: 54967259--54967365 Score: 110
Period size: 29 Copynumber: 3.7 Consensus size: 28
54967249 TAAAGGTGAT
54967259 TTGGGCCTAATGGGTCATATGAATATGAA
1 TTGGGCCT-ATGGGTCATATGAATATGAA
*
54967288 TTGGGCCTAGTGGGCCATATGAATATGAA
1 TTGGGCCTA-TGGGTCATATGAATATGAA
* *
54967317 TTGGGCCTGATAGGTTATATG-A-ATGAGA
1 TTGGGCCT-ATGGGTCATATGAATATGA-A
* *
54967345 TTGGGCCAAGTGGGCCATATG
1 TTGGGCCTA-TGGGTCATATG
54967366 CATGTATGCA
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
27 5 0.08
28 18 0.27
29 42 0.64
30 1 0.02
ACGTcount: A:0.27, C:0.12, G:0.32, T:0.29
Consensus pattern (28 bp):
TTGGGCCTATGGGTCATATGAATATGAA
Found at i:54968093 original size:27 final size:27
Alignment explanation
Indices: 54967954--54968106 Score: 98
Period size: 27 Copynumber: 5.6 Consensus size: 27
54967944 AAAATTTACT
* * * *
54967954 GAAATACCCTCGATTTGTAAAATTACC
1 GAAATACCCTTGGTTTGCAAAATTATC
* **
54967981 AAAATACCCTTAATTTAG-AAAATTA-C
1 GAAATACCCTTGGTTT-GCAAAATTATC
* * * *
54968007 AAAAATA-CCTCTGCTTTACAAAATTATA
1 -GAAATACCCT-TGGTTTGCAAAATTATC
** *
54968035 GAAATACCCTTGACTTCCAAAAATTA-C
1 GAAATACCCTTGGTTTGC-AAAATTATC
*
54968062 AGAAATACCATTGGTTTGCAAAATTATC
1 -GAAATACCCTTGGTTTGCAAAATTATC
54968090 GAAATACCCTTGGTTTG
1 GAAATACCCTTGGTTTG
54968107 TAGATTTACC
Statistics
Matches: 100, Mismatches: 17, Indels: 18
0.74 0.13 0.13
Matches are distributed among these distances:
26 4 0.04
27 70 0.70
28 26 0.26
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
GAAATACCCTTGGTTTGCAAAATTATC
Found at i:54968641 original size:22 final size:22
Alignment explanation
Indices: 54968589--54968653 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
54968579 GCCAATCATT
*
54968589 CTGATTATGGCTTTGTGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
54968611 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
* *
54968633 CTGATTATGGTTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
54968654 ACATATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.23, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:54968903 original size:22 final size:22
Alignment explanation
Indices: 54968856--54968903 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
54968846 GTTGCTAAGA
* * *
54968856 TGTTTACGGCTATGTGCTGTCT
1 TGTTTACGGCTATGAGCTATCC
54968878 TGTTTACGGCCT-TGAGCTATCC
1 TGTTTACGG-CTATGAGCTATCC
54968900 TGTT
1 TGTT
54968904 GAGGTAGTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.10, C:0.21, G:0.25, T:0.44
Consensus pattern (22 bp):
TGTTTACGGCTATGAGCTATCC
Found at i:54969839 original size:9 final size:9
Alignment explanation
Indices: 54969825--54969855 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
54969815 TTCTGAAAAG
*
54969825 ATTTGAAGT
1 ATTTGAAAT
54969834 ATTTGAAAT
1 ATTTGAAAT
54969843 ATTTGAAAT
1 ATTTGAAAT
54969852 ATTT
1 ATTT
54969856 ACTCAGTGTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (9 bp):
ATTTGAAAT
Found at i:54971645 original size:27 final size:27
Alignment explanation
Indices: 54971615--54971711 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
54971605 TAATAAAGAG
*
54971615 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCAATTTGTA
* * *
54971642 AAATTACCAAAATACCCTTAATTTGGA
1 AAATTACTAAAATACCCTCAATTTGTA
*
54971669 AAATTAC-AAAACTACCC-CTAATTTATA
1 AAATTACTAAAA-TACCCTC-AATTTGTA
54971696 AAATTA-TAGAAATACC
1 AAATTACTA-AAATACC
54971712 ATTGACTTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.07
27 52 0.88
28 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCAATTTGTA
Found at i:54971725 original size:27 final size:28
Alignment explanation
Indices: 54971695--54971766 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
54971685 CCTAATTTAT
*
54971695 AAAATTATAGAAATACCATTGAC-TTTCA
1 AAAATTACAGAAATACCATTG-CTTTTCA
* *
54971723 AAAATTACAAAAATACTATTGCTTTTC-
1 AAAATTACAGAAATACCATTGCTTTTCA
*
54971750 AAAATTACCGAAATACC
1 AAAATTACAGAAATACC
54971767 CTTGGTTTGT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 15 0.41
28 22 0.59
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.31
Consensus pattern (28 bp):
AAAATTACAGAAATACCATTGCTTTTCA
Found at i:54973066 original size:27 final size:27
Alignment explanation
Indices: 54973036--54973132 Score: 101
Period size: 27 Copynumber: 3.6 Consensus size: 27
54973026 TAATAAAGAG
*
54973036 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTAAAATACCCTCAATTTGTA
* * *
54973063 AAATTACCAAAATACCCTTAATTTGGA
1 AAATTACTAAAATACCCTCAATTTGTA
*
54973090 AAATTAC-AAAACTACCC-CTAATTTATA
1 AAATTACTAAAA-TACCCTC-AATTTGTA
54973117 AAATTA-TAGAAATACC
1 AAATTACTA-AAATACC
54973133 ATTGACTTTC
Statistics
Matches: 59, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.07
27 52 0.88
28 3 0.05
ACGTcount: A:0.46, C:0.19, G:0.05, T:0.30
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCAATTTGTA
Found at i:54973146 original size:27 final size:28
Alignment explanation
Indices: 54973116--54973187 Score: 76
Period size: 28 Copynumber: 2.6 Consensus size: 28
54973106 CCTAATTTAT
*
54973116 AAAATTATAGAAATACCATTGAC-TTTCA
1 AAAATTACAGAAATACCATT-ACTTTTCA
* * *
54973144 AAAATTACAAAAATACTATTTCTTTTC-
1 AAAATTACAGAAATACCATTACTTTTCA
*
54973171 AAAATTACCGAAATACC
1 AAAATTACAGAAATACC
54973188 CTTGGTTTGT
Statistics
Matches: 36, Mismatches: 7, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
27 15 0.42
28 21 0.58
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (28 bp):
AAAATTACAGAAATACCATTACTTTTCA
Found at i:54973690 original size:22 final size:22
Alignment explanation
Indices: 54973638--54973702 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
54973628 GCCAATCATT
* *
54973638 CTGATTATGGCTTTGCGCCAAC
1 CTGATTATGGCTCTGTGCCAAC
*
54973660 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-TTATGGCTCTGTGCCAAC
*
54973682 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTCTGTGCCAA
54973703 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.26, G:0.23, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAC
Found at i:54976345 original size:47 final size:47
Alignment explanation
Indices: 54976286--54977391 Score: 1672
Period size: 47 Copynumber: 23.4 Consensus size: 47
54976276 GATGTACAAG
* * **
54976286 GTGTGTATATGTGATAAGGCCTAATGGCTGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
54976333 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
54976380 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
54976427 GTGTATATATGTGATAAGGCCGAGTGGCCAACGCGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
54976474 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * *
54976521 GTGTCTATATATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
54976568 GTGTCTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
54976615 GTGTATATATGTGATAAGGCCGAATGGGCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
54976662 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
54976709 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
54976756 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
54976803 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
54976850 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
54976897 GTGTATATATGTGATAAGGCCGAGTGGCCAACGCGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
54976944 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
54976991 GTGTCTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
54977038 GTGTCTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
54977085 GTGTATATATGTGATAAGGCCGAATGGGCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
54977132 GTGTATATATGTGATAAGGCCTAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTG---A----TAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
54977186 GTGTATATATGCGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
54977233 GTGTATATATGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * * *
54977280 GTGTATATATGAGATAAGACCTAATAGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
54977327 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
54977374 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
54977392 TCCCGAAGGG
Statistics
Matches: 982, Mismatches: 70, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
47 938 0.96
50 1 0.00
51 1 0.00
54 42 0.04
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:54977027 original size:22 final size:22
Alignment explanation
Indices: 54976999--54977074 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
54976989 AAGTGTCTAT
54976999 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
* *** * **
54977021 ATGTGATGAATGTGAAAGTGTCTAT
1 ATGTGAT-AAGGCCTAA-TGGC-CG
54977046 ATGTGATAAGGCCTAATGGCCG
1 ATGTGATAAGGCCTAATGGCCG
54977068 ATGTGAT
1 ATGTGAT
54977075 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.29, C:0.12, G:0.30, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCG
Found at i:54978721 original size:22 final size:22
Alignment explanation
Indices: 54978696--54978738 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
54978686 TGCTGCGATG
*
54978696 TTTACGG-CTATGTGTTGTCCTA
1 TTTACGGCCT-TGAGTTGTCCTA
*
54978718 TTTATGGCCTTGAGTTGTCCT
1 TTTACGGCCTTGAGTTGTCCT
54978739 GTTGAGGTAG
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 16 0.89
23 2 0.11
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.47
Consensus pattern (22 bp):
TTTACGGCCTTGAGTTGTCCTA
Found at i:54980174 original size:26 final size:22
Alignment explanation
Indices: 54980122--54980167 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
54980112 TAGTAAGTCC
54980122 ATATGAAAATAATAACCAATTT
1 ATATGAAAATAATAACCAATTT
54980144 ATATGAAAATAATAACCAATTT
1 ATATGAAAATAATAACCAATTT
54980166 AT
1 AT
54980168 CGATATGCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (22 bp):
ATATGAAAATAATAACCAATTT
Found at i:54982129 original size:20 final size:20
Alignment explanation
Indices: 54982104--54982142 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
54982094 ACGATCTCAA
54982104 TTATTTCAC-ACATTTACAAC
1 TTATTTCACAAC-TTTACAAC
*
54982124 TTATTTTACAACTTTACAA
1 TTATTTCACAACTTTACAA
54982143 AATAGCCCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 15 0.88
21 2 0.12
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.44
Consensus pattern (20 bp):
TTATTTCACAACTTTACAAC
Found at i:54984077 original size:46 final size:45
Alignment explanation
Indices: 54983959--54984077 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 45
54983949 CTCGAGGCCA
* * * *
54983959 ATGCATGTCCCAGACATGTCTTACACGGGCTCTCGTCTCAGTGTCG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTC-TATAAGTGGCG
*
54984005 ATGCATGTCCTAGACATGTCTTACACTGGCTCT-TATAATGTGGCTG
1 ATGCATGTCCCAGACATGTCTTACACTGGCTCTCTATAA-GTGGC-G
54984051 ATGCATGTCCCAGACATGTCTTACACT
1 ATGCATGTCCCAGACATGTCTTACACT
54984078 AGCACACATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
44 3 0.05
45 4 0.06
46 58 0.89
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.31
Consensus pattern (45 bp):
ATGCATGTCCCAGACATGTCTTACACTGGCTCTCTATAAGTGGCG
Found at i:54986623 original size:16 final size:16
Alignment explanation
Indices: 54986602--54986640 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
54986592 GTAGATCGGC
*
54986602 AAAAGCCGACATGCCG
1 AAAAGCCGAAATGCCG
* *
54986618 AAAAGCTGAAATGTCG
1 AAAAGCCGAAATGCCG
54986634 AAAAGCC
1 AAAAGCC
54986641 AAAAGTTTGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.10
Consensus pattern (16 bp):
AAAAGCCGAAATGCCG
Found at i:54986884 original size:29 final size:28
Alignment explanation
Indices: 54986851--54986957 Score: 92
Period size: 29 Copynumber: 3.7 Consensus size: 28
54986841 TAAAGGTAAT
54986851 TTGGGCTTAATGGGCCATATGAATATGAA
1 TTGGGC-TAATGGGCCATATGAATATGAA
* *
54986880 TTGGGCATGATGGGCCATATGAATGTGAA
1 TTGGGC-TAATGGGCCATATGAATATGAA
* * * *
54986909 TTAGGCCTGATTGGCCATGT-AA-ATGAGA
1 TT-GGGCTAATGGGCCATATGAATATGA-A
*
54986937 TTGGGCCAAGTGGGCCATATG
1 TTGGGCTAA-TGGGCCATATG
54986958 CATGTATGTA
Statistics
Matches: 62, Mismatches: 12, Indels: 8
0.76 0.15 0.10
Matches are distributed among these distances:
27 7 0.11
28 13 0.21
29 39 0.63
30 3 0.05
ACGTcount: A:0.27, C:0.13, G:0.32, T:0.28
Consensus pattern (28 bp):
TTGGGCTAATGGGCCATATGAATATGAA
Found at i:54991132 original size:29 final size:29
Alignment explanation
Indices: 54991100--54991192 Score: 102
Period size: 29 Copynumber: 3.2 Consensus size: 29
54991090 TAAAGGTGAT
*
54991100 TTGGGCCT-ACTAGGCTATATGAATATGAA
1 TTGGGCCTGA-TAGGCCATATGAATATGAA
* * *
54991129 TTGGGCTTGATGGGCCATATGAATGTGAA
1 TTGGGCCTGATAGGCCATATGAATATGAA
*
54991158 TTGGGCCTGATAGGCCTTAT-AA-ATGAGA
1 TTGGGCCTGATAGGCCATATGAATATGA-A
54991186 TTGGGCC
1 TTGGGCC
54991193 AAGTGGGGCA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
27 3 0.06
28 10 0.19
29 40 0.74
30 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (29 bp):
TTGGGCCTGATAGGCCATATGAATATGAA
Found at i:55001326 original size:22 final size:22
Alignment explanation
Indices: 55001265--55001328 Score: 83
Period size: 22 Copynumber: 2.9 Consensus size: 22
55001255 AACAGGATGG
*
55001265 CTCAACGCCGTAGACAGGACAA
1 CTCAACGTCGTAGACAGGACAA
* *
55001287 CTCAACGTCGTACACAGGACTA
1 CTCAACGTCGTAGACAGGACAA
* *
55001309 CTCAACGTCATAGGCAGGAC
1 CTCAACGTCGTAGACAGGAC
55001329 GGCTAAAGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 36 1.00
ACGTcount: A:0.33, C:0.31, G:0.22, T:0.14
Consensus pattern (22 bp):
CTCAACGTCGTAGACAGGACAA
Found at i:55001604 original size:27 final size:27
Alignment explanation
Indices: 55001574--55001638 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
55001564 GGGCATAATC
*
55001574 GTCATTCTAC-CATACAGGGGTATTACG
1 GTCATTCTACAC-TACAAGGGTATTACG
* *
55001601 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTCTACACTACAAGGGTATTACG
* *
55001628 GTGATTTTACA
1 GTCATTCTACA
55001639 AATCGGGTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
27 32 0.97
28 1 0.03
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.35
Consensus pattern (27 bp):
GTCATTCTACACTACAAGGGTATTACG
Found at i:55004549 original size:23 final size:23
Alignment explanation
Indices: 55004518--55004729 Score: 198
Period size: 23 Copynumber: 9.2 Consensus size: 23
55004508 GGAATCTGTA
* *
55004518 GGCTACATCTTAGTGGTAGCTTT
1 GGCTACATCTCAGTGGTAGCTTC
* *
55004541 GGCTGCATCTCAGTGCTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTC
* * *
55004564 AGCTACAAT-ACAATGGTAGCTTC
1 GGCTAC-ATCTCAGTGGTAGCTTC
* * *
55004587 GACTACTTCTCATTGGTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTC
* *
55004610 GGCTACAAT-ACAGTGGTAGCTTT
1 GGCTAC-ATCTCAGTGGTAGCTTC
*
55004633 GGCTACATCTCAGTTGTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTC
*
55004656 AGCTACATCTCAGTGGTAGCTTC
1 GGCTACATCTCAGTGGTAGCTTC
* *
55004679 GGCTACAAT-ACAGTGGTAGCTTT
1 GGCTAC-ATCTCAGTGGTAGCTTC
* *
55004702 GGCTACGT-TACAGTGATAGCTTC
1 GGCTACATCT-CAGTGGTAGCTTC
55004725 GGCTA
1 GGCTA
55004730 TATTACAATG
Statistics
Matches: 152, Mismatches: 31, Indels: 12
0.78 0.16 0.06
Matches are distributed among these distances:
22 4 0.03
23 143 0.94
24 5 0.03
ACGTcount: A:0.22, C:0.23, G:0.24, T:0.32
Consensus pattern (23 bp):
GGCTACATCTCAGTGGTAGCTTC
Found at i:55004722 original size:69 final size:67
Alignment explanation
Indices: 55004519--55004725 Score: 229
Period size: 69 Copynumber: 3.0 Consensus size: 67
55004509 GAATCTGTAG
* * * * * ** * *
55004519 GCTACATCTTAGTGGTAGCTTTGGCTGC-ATCTCAGTGCTAGCTTCAGCTACAATACAATGGTAG
1 GCTACATCTCAGTGGTAGCTTCGGCTACAAT-ACAGTGGTAGCTTTGGCTACATTACAGT-GTAG
55004583 CTTC
64 CTTC
* *
55004587 GACTACTTCTCATTGGTAGCTTCGGCTACAATACAGTGGTAGCTTTGGCTACATCT-CAGTTGTA
1 G-CTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTTGGCTACAT-TACAG-TGTA
55004651 GCTTC
63 GCTTC
*
55004656 AGCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTTGGCTACGTTACAGTGATAG
1 -GCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTTGGCTACATTACAGTG-TAG
55004721 CTTC
64 CTTC
55004725 G
1 G
55004726 GCTATATTAC
Statistics
Matches: 118, Mismatches: 14, Indels: 14
0.81 0.10 0.10
Matches are distributed among these distances:
68 5 0.04
69 108 0.92
70 5 0.04
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (67 bp):
GCTACATCTCAGTGGTAGCTTCGGCTACAATACAGTGGTAGCTTTGGCTACATTACAGTGTAGCT
TC
Found at i:55008381 original size:27 final size:26
Alignment explanation
Indices: 55008333--55008392 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
55008323 GTGAGGCTGC
*
55008333 CAGATATTGTGACGAAGTCACCAAATA
1 CAGATATTGTGACGAAGCCACCAAA-A
* * * *
55008360 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAAAA
55008386 CAGATAT
1 CAGATAT
55008393 ATATATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 8 0.29
27 20 0.71
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAAAA
Found at i:55011345 original size:46 final size:46
Alignment explanation
Indices: 55011292--55011467 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
55011282 TATTTGGGCA
55011292 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55011338 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
55011385 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
55011431 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55011468 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:55011447 original size:93 final size:93
Alignment explanation
Indices: 55011288--55011459 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55011278 GGGATATTTG
* *
55011288 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55011353 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55011381 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55011446 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55011460 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55014435 original size:15 final size:15
Alignment explanation
Indices: 55014415--55014483 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
55014405 GTATCTTGGG
55014415 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
55014430 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
55014445 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
55014460 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
55014475 TTTCTTTAT
1 TTTCTTTAT
55014484 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:55014484 original size:30 final size:30
Alignment explanation
Indices: 55014406--55014493 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
55014396 CATAGTATCG
* * * *
55014406 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
55014436 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
55014466 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
55014494 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:55018077 original size:40 final size:39
Alignment explanation
Indices: 55017912--55018095 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
55017902 GAAATTGATG
* * *
55017912 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
55017952 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
55017992 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
55018032 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
55018071 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
55018096 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:55018120 original size:80 final size:81
Alignment explanation
Indices: 55017952--55018140 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
55017942 GCTGGAAATT
* * * *
55017952 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
55018017 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
55018033 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
55018096 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
55018112 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
55018141 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:55020147 original size:46 final size:46
Alignment explanation
Indices: 55020094--55020269 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
55020084 TATTTGGGCA
55020094 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
55020140 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
55020187 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
55020233 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55020270 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:55020249 original size:93 final size:93
Alignment explanation
Indices: 55020090--55020261 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55020080 GGGATATTTG
* *
55020090 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55020155 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
55020183 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
55020248 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
55020262 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:55024008 original size:37 final size:37
Alignment explanation
Indices: 55023966--55024040 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
55023956 AGATTATATT
55023966 TATGAATAGTGAAAGGTCAGGTAAGAAAGAAGGTAAG
1 TATGAATAGTGAAAGGTCAGGTAAGAAAGAAGGTAAG
55024003 TATGAATAGTGAAAGGTCAGGTAAGAAAGAAGGTAAG
1 TATGAATAGTGAAAGGTCAGGTAAGAAAGAAGGTAAG
55024040 T
1 T
55024041 GAGTAAAGAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.45, C:0.03, G:0.32, T:0.20
Consensus pattern (37 bp):
TATGAATAGTGAAAGGTCAGGTAAGAAAGAAGGTAAG
Found at i:55029057 original size:80 final size:80
Alignment explanation
Indices: 55028973--55029121 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
55028963 TATGGTAACC
* * * *
55028973 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55029037 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55029053 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55029118 CCGG
66 CCGG
55029122 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:55029063 original size:40 final size:38
Alignment explanation
Indices: 55029014--55029121 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
55029004 ATCACGATTT
*
55029014 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55029054 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55029094 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55029122 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55037025 original size:80 final size:80
Alignment explanation
Indices: 55036941--55037089 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
55036931 TATGGTAACC
* * * *
55036941 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
55037005 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
55037021 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
55037086 CCGG
66 CCGG
55037090 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:55037031 original size:40 final size:38
Alignment explanation
Indices: 55036982--55037089 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
55036972 ATCACGATTT
*
55036982 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
55037022 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
55037062 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
55037090 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:55041254 original size:27 final size:26
Alignment explanation
Indices: 55041206--55041262 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 26
55041196 GCGAGGCTGC
*
55041206 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
55041233 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
55041259 CAGA
1 CAGA
55041263 CATATATATG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:55045581 original size:33 final size:34
Alignment explanation
Indices: 55045543--55045623 Score: 87
Period size: 33 Copynumber: 2.4 Consensus size: 34
55045533 GCCTAAGCCC
* *
55045543 ATTCAGATAACAGTGATACT-GGGC-TAGAGCCCTT
1 ATTCAGATAACAGTGA-ACTCGGCCTTAG-CCCCTT
* *
55045577 -TTCAGATTACATTGAACTCGGCCTTAGCCCCTT
1 ATTCAGATAACAGTGAACTCGGCCTTAGCCCCTT
55045610 ATTCAGATAACAGT
1 ATTCAGATAACAGT
55045624 ATGGCCCATA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
32 3 0.08
33 21 0.55
34 14 0.37
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (34 bp):
ATTCAGATAACAGTGAACTCGGCCTTAGCCCCTT
Found at i:55045963 original size:26 final size:26
Alignment explanation
Indices: 55045934--55045986 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
55045924 TCCAACATGC
55045934 ATTTAGGTCAATTTA-CTCCTAGGGGT
1 ATTTAGGT-AATTTATCTCCTAGGGGT
* *
55045960 ATTTCGGTACTTTATCTCCTAGGGGT
1 ATTTAGGTAATTTATCTCCTAGGGGT
55045986 A
1 A
55045987 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 19 0.79
ACGTcount: A:0.21, C:0.17, G:0.23, T:0.40
Consensus pattern (26 bp):
ATTTAGGTAATTTATCTCCTAGGGGT
Found at i:55047274 original size:24 final size:24
Alignment explanation
Indices: 55047242--55047363 Score: 190
Period size: 24 Copynumber: 5.0 Consensus size: 24
55047232 AATTCCTGCT
*
55047242 CCTTGATCAGCTCCTAAATCTTCTC
1 CCTT-ATCAGCTCCTAAATCCTCTC
* *
55047267 CTTTATCAGTTCCTAAATCCTCTC
1 CCTTATCAGCTCCTAAATCCTCTC
55047291 CCTTATCAGCTCCTAAATCCTCTC
1 CCTTATCAGCTCCTAAATCCTCTC
*
55047315 CCTTATCAGCTCCTAAGTCCTCTC
1 CCTTATCAGCTCCTAAATCCTCTC
*
55047339 CCTTATCAGCTCCTAAATCTTCTC
1 CCTTATCAGCTCCTAAATCCTCTC
55047363 C
1 C
55047364 TAACAGCCTT
Statistics
Matches: 89, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 86 0.97
25 3 0.03
ACGTcount: A:0.20, C:0.39, G:0.06, T:0.36
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCCTCTC
Found at i:55052461 original size:18 final size:18
Alignment explanation
Indices: 55052440--55052475 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
55052430 TACTTTAGCC
55052440 ATTTACTTTTACTGCAAT
1 ATTTACTTTTACTGCAAT
55052458 ATTTACTTTTACTGCAAT
1 ATTTACTTTTACTGCAAT
55052476 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.06, T:0.50
Consensus pattern (18 bp):
ATTTACTTTTACTGCAAT
Found at i:55052486 original size:17 final size:18
Alignment explanation
Indices: 55052446--55052487 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
55052436 AGCCATTTAC
* *
55052446 TTTTACTGCAATATTTAC
1 TTTTACTGCAATATTAAA
55052464 TTTTACTGCAAT-TTAAA
1 TTTTACTGCAATATTAAA
55052481 TTTTACT
1 TTTTACT
55052488 CTAATTTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 10 0.45
18 12 0.55
ACGTcount: A:0.29, C:0.14, G:0.05, T:0.52
Consensus pattern (18 bp):
TTTTACTGCAATATTAAA
Found at i:55055349 original size:6 final size:6
Alignment explanation
Indices: 55055340--55055425 Score: 52
Period size: 6 Copynumber: 14.0 Consensus size: 6
55055330 AATCAGGTGA
* ** * *
55055340 CAGAAT CAGAAT CAAAAT CAGAAT CAGAAT TTG-GT GACAGAAT TAGAAT
1 CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT CAGAAT --CAGAAT CAGAAT
*
55055389 CAGAAT CAGTAT CAGGTAAT -AGAAT CA-ATAT CAGAAT
1 CAGAAT CAGAAT CA-G-AAT CAGAAT CAGA-AT CAGAAT
55055426 GTGAATGCAA
Statistics
Matches: 60, Mismatches: 12, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
5 5 0.08
6 48 0.80
7 4 0.07
8 3 0.05
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.23
Consensus pattern (6 bp):
CAGAAT
Found at i:55055367 original size:37 final size:37
Alignment explanation
Indices: 55055326--55055403 Score: 111
Period size: 37 Copynumber: 2.1 Consensus size: 37
55055316 AGAATTAAAT
55055326 TCAGAATCAGGTGACAGAATCAGAATCAAAATCAGAA
1 TCAGAATCAGGTGACAGAATCAGAATCAAAATCAGAA
** * * *
55055363 TCAGAATTTGGTGACAGAATTAGAATCAGAATCAGTA
1 TCAGAATCAGGTGACAGAATCAGAATCAAAATCAGAA
55055400 TCAG
1 TCAG
55055404 GTAATAGAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.44, C:0.14, G:0.21, T:0.22
Consensus pattern (37 bp):
TCAGAATCAGGTGACAGAATCAGAATCAAAATCAGAA
Found at i:55055381 original size:31 final size:31
Alignment explanation
Indices: 55055346--55055425 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 31
55055336 GTGACAGAAT
** *
55055346 CAGAATCAAAATCAGAATCAGAATTTGGTGA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
* * *
55055377 CAGAATTAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCAGAATCAGAATCAGGTAA
* *
55055408 TAGAATCAATATCAGAAT
1 CAGAATCAAAATCAGAAT
55055426 GTGAATGCAA
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.46, C:0.12, G:0.17, T:0.24
Consensus pattern (31 bp):
CAGAATCAAAATCAGAATCAGAATCAGGTAA
Found at i:55055592 original size:27 final size:28
Alignment explanation
Indices: 55055544--55055598 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
55055534 GCGAAGCTGC
*
55055544 CAGATATTGTGACGAAGTCACCA-AATA
1 CAGATATTGTGACGAAGCCACCAGAATA
* * *
55055571 CAGATATTGTGGCTAGGCCACCAGAATA
1 CAGATATTGTGACGAAGCCACCAGAATA
55055599 GATATATATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (28 bp):
CAGATATTGTGACGAAGCCACCAGAATA
Found at i:55055897 original size:27 final size:27
Alignment explanation
Indices: 55055867--55056051 Score: 228
Period size: 27 Copynumber: 6.9 Consensus size: 27
55055857 ACACCCTAGA
* * *
55055867 GGTAAAATGGTAATTTTTTAAATCGAG
1 GGTAAAATAGTAATTCTGTAAATCGAG
* *
55055894 GGTAAAAT-GATAATTTTGTATATCGAG
1 GGTAAAATAG-TAATTCTGTAAATCGAG
* *
55055921 GGTAAAATAGTAATTCTATAAATTGAG
1 GGTAAAATAGTAATTCTGTAAATCGAG
* *
55055948 GGTAAAATGGTAATTCTGTAAATTGAG
1 GGTAAAATAGTAATTCTGTAAATCGAG
* *
55055975 GATAAAATAGTAATTTTGTAAATCGAG
1 GGTAAAATAGTAATTCTGTAAATCGAG
* *
55056002 GGTAAAACAGTAATTCTATAAATCGAG
1 GGTAAAATAGTAATTCTGTAAATCGAG
*
55056029 GGTAAAACAGTAATTCTGTAAAT
1 GGTAAAATAGTAATTCTGTAAAT
55056052 TAAGAATAGT
Statistics
Matches: 139, Mismatches: 17, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
26 1 0.01
27 137 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTAAAATAGTAATTCTGTAAATCGAG
Found at i:55055981 original size:81 final size:81
Alignment explanation
Indices: 55055867--55056052 Score: 275
Period size: 81 Copynumber: 2.3 Consensus size: 81
55055857 ACACCCTAGA
* * * * * *
55055867 GGTAAAATGGTAATTTTTTAAATCGAGGGTAAAAT-GATAATTTTGTATATCGAGGGTAAAATAG
1 GGTAAAATGGTAATTCTGTAAATTGAGGATAAAATAG-TAATTTTGTAAATCGAGGGTAAAACAG
*
55055931 TAATTCTATAAATTGAG
65 TAATTCTATAAATCGAG
55055948 GGTAAAATGGTAATTCTGTAAATTGAGGATAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGT
1 GGTAAAATGGTAATTCTGTAAATTGAGGATAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGT
55056013 AATTCTATAAATCGAG
66 AATTCTATAAATCGAG
**
55056029 GGTAAAACAGTAATTCTGTAAATT
1 GGTAAAATGGTAATTCTGTAAATT
55056053 AAGAATAGTT
Statistics
Matches: 95, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 94 0.99
82 1 0.01
ACGTcount: A:0.41, C:0.05, G:0.20, T:0.33
Consensus pattern (81 bp):
GGTAAAATGGTAATTCTGTAAATTGAGGATAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGT
AATTCTATAAATCGAG
Found at i:55056097 original size:81 final size:81
Alignment explanation
Indices: 55055915--55056086 Score: 227
Period size: 81 Copynumber: 2.1 Consensus size: 81
55055905 AATTTTGTAT
* * ** * *
55055915 ATCGAGGGTAAAATAGTAATTCTATAAATTGAGGGTAAAATGGTAATTCTGTAAATTGAGGATAA
1 ATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATTAAGAATAA
**
55055980 AATAGTAATTTTGTAA
66 AATAGTAATTTTACAA
*
55055996 ATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATTAAGAATAG
1 ATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATTAAGAATAA
** *
55056061 TTTGGTAATTTTACAA
66 AATAGTAATTTTACAA
*
55056077 GTCGAGGGTA
1 ATCGAGGGTA
55056087 TTTCAGTAAT
Statistics
Matches: 78, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (81 bp):
ATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAATTCTGTAAATTAAGAATAA
AATAGTAATTTTACAA
Found at i:55056146 original size:81 final size:81
Alignment explanation
Indices: 55056061--55056259 Score: 197
Period size: 81 Copynumber: 2.5 Consensus size: 81
55056051 TTAAGAATAG
* ** *
55056061 TTTGGTAATTTTACAAGTCGA-GGGTATTTCAGTAATTTTACAGGTCGAG-GGTATTTCAGTAAT
1 TTTGGTAATTTTACAA-ACGAGGGGTATTTCAGTAATTTTACA-AACCAGTGGTATTTCAGTAAT
*
55056124 TTCACAAATCAAAGGTAT
64 TTCACAAACCAAAGGTAT
* ** **
55056142 TTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTGGTAATTT
1 TTTGGTAATTTTACAAACGAGGGGTATTTCAGTAATTTTACAAACCAGTGGTATTTCAGTAATTT
* * *
55056207 TATAAACCAAGGGTAT
66 CACAAACCAAAGGTAT
* ** *
55056223 TTTGGTAATTCTACCTTAC-AGGGGCATTTCAGTAATT
1 TTTGGTAATTTTA-CAAACGAGGGGTATTTCAGTAATT
55056260 CTACCCTACA
Statistics
Matches: 96, Mismatches: 19, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
80 5 0.05
81 88 0.92
82 3 0.03
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (81 bp):
TTTGGTAATTTTACAAACGAGGGGTATTTCAGTAATTTTACAAACCAGTGGTATTTCAGTAATTT
CACAAACCAAAGGTAT
Found at i:55056185 original size:27 final size:27
Alignment explanation
Indices: 55056061--55056232 Score: 159
Period size: 27 Copynumber: 6.4 Consensus size: 27
55056051 TTAAGAATAG
**
55056061 TTTGGTAATTTTACAAGTC-GAGGGTAT
1 TTTGGTAATTTTACAAACCAG-GGGTAT
** ***
55056088 TTCAGTAATTTTACAGGTC-GAGGGTAT
1 TTTGGTAATTTTACAAACCAG-GGGTAT
** * * **
55056115 TTCAGTAATTTCACAAATCAAAGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTAT
*
55056142 TTTGGTAATTTTACAAACTAGGGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTAT
*
55056169 TTTGGTAATTTTACAAACCAGTGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTAT
* *
55056196 TTTGGTAATTTTATAAACCAAGGGTAT
1 TTTGGTAATTTTACAAACCAGGGGTAT
55056223 TTTGGTAATT
1 TTTGGTAATT
55056233 CTACCTTACA
Statistics
Matches: 124, Mismatches: 20, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
TTTGGTAATTTTACAAACCAGGGGTAT
Found at i:55056258 original size:54 final size:54
Alignment explanation
Indices: 55056146--55056259 Score: 122
Period size: 54 Copynumber: 2.1 Consensus size: 54
55056136 AGGTATTTTG
* * * * * **
55056146 GTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACCAGTGGTATTTTG
1 GTAATTTTACAAACCAAGGGTATTTTGGTAATTCTACAAACCAGGGGCATTTCA
* **
55056200 GTAATTTTATAAACCAAGGGTATTTTGGTAATTCTACCTTA-CAGGGGCATTTCA
1 GTAATTTTACAAACCAAGGGTATTTTGGTAATTCTA-CAAACCAGGGGCATTTCA
55056254 GTAATT
1 GTAATT
55056260 CTACCCTACA
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
54 47 0.96
55 2 0.04
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAACCAAGGGTATTTTGGTAATTCTACAAACCAGGGGCATTTCA
Found at i:55056282 original size:27 final size:27
Alignment explanation
Indices: 55056227--55056294 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
55056217 GGGTATTTTG
* * * *
55056227 GTAATTCTACCTTACAGGGGCATTTCA
1 GTAATTCTACCCTACAAGGGCAGTCCA
*
55056254 GTAATTCTACCCTACAAGGGTAGTCCA
1 GTAATTCTACCCTACAAGGGCAGTCCA
* *
55056281 GTAATGCTAGCCTA
1 GTAATTCTACCCTA
55056295 TAGATATGAG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.29
Consensus pattern (27 bp):
GTAATTCTACCCTACAAGGGCAGTCCA
Found at i:55058185 original size:6 final size:6
Alignment explanation
Indices: 55058155--55058229 Score: 73
Period size: 6 Copynumber: 12.3 Consensus size: 6
55058145 AAGAAACATT
* * *
55058155 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
*
55058204 ATCAGA ATCAAA ATCAGA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCAGA AT
55058230 TAGGTGACAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
5 2 0.04
6 49 0.88
7 4 0.07
8 1 0.02
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (6 bp):
ATCAGA
Found at i:55058219 original size:37 final size:37
Alignment explanation
Indices: 55058164--55058257 Score: 134
Period size: 37 Copynumber: 2.5 Consensus size: 37
55058154 TATCAGAACT
* *
55058164 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
55058201 AGAATCAGAATCAAAATCAGAATCAGAATTAGGTGAC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
* *
55058238 AGATTTAGAATCAGAATCAG
1 AGAATCAGAATCAGAATCAG
55058258 TATGAGGTAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:55058281 original size:31 final size:31
Alignment explanation
Indices: 55058206--55058281 Score: 98
Period size: 31 Copynumber: 2.5 Consensus size: 31
55058196 GTGACAGAAT
* * *
55058206 CAGAATCAAAATCAGAATCAGAATTAGGTGA
1 CAGATTCAAAATCAGAATCAGAATGAGGTAA
* * *
55058237 CAGATTTAGAATCAGAATCAGTATGAGGTAA
1 CAGATTCAAAATCAGAATCAGAATGAGGTAA
55058268 CAGATTCAAAATCA
1 CAGATTCAAAATCA
55058282 AAATATGAAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.22
Consensus pattern (31 bp):
CAGATTCAAAATCAGAATCAGAATGAGGTAA
Found at i:55058452 original size:27 final size:28
Alignment explanation
Indices: 55058404--55058465 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
55058394 GCGAAGCTGC
*
55058404 CAGATATTGTGCCGAAGTCACCA-AATA
1 CAGATATTGTGCCGAAGCCACCAGAATA
* * *
55058431 CAGATATTGTGGCTAGGCCACCAGAATA
1 CAGATATTGTGCCGAAGCCACCAGAATA
*
55058459 GAGATAT
1 CAGATAT
55058466 ATATATATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 19 0.66
28 10 0.34
ACGTcount: A:0.35, C:0.19, G:0.23, T:0.23
Consensus pattern (28 bp):
CAGATATTGTGCCGAAGCCACCAGAATA
Found at i:55058756 original size:27 final size:27
Alignment explanation
Indices: 55058726--55058892 Score: 253
Period size: 27 Copynumber: 6.2 Consensus size: 27
55058716 AACACCCTAG
* * *
55058726 GGGTAAAACGGTAATTTTTTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
*
55058753 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
55058780 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* * *
55058807 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
55058834 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
* *
55058861 GGATAAAACAGTTATTCTGTAAATCGA
1 GGGTAAAACAGTAATTCTGTAAATCGA
55058888 GGGTA
1 GGGTA
55058893 GTTTGGTAAT
Statistics
Matches: 127, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 127 1.00
ACGTcount: A:0.41, C:0.09, G:0.22, T:0.29
Consensus pattern (27 bp):
GGGTAAAACAGTAATTCTGTAAATCGA
Found at i:55058902 original size:81 final size:81
Alignment explanation
Indices: 55058729--55058919 Score: 265
Period size: 81 Copynumber: 2.4 Consensus size: 81
55058719 ACCCTAGGGG
* * *
55058729 TAAAACGGTAATTTTTTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAACAGTAA
1 TAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGATAAAACAGTAA
55058794 TTCTGTAAATCGAGGA
66 TTCTGTAAATCGAGGA
* * * *
55058810 TAAAATAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCGAGGATAAAACAGTTA
1 TAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGATAAAACAGTAA
*
55058875 TTCTGTAAATCGAGGG
66 TTCTGTAAATCGAGGA
*** * *
55058891 TAGTTTGGTAATTTTACAAGTCGAGGGTA
1 TAAAATGGTAATTTTATAAATCGAGGGTA
55058920 TTTCAGTAAT
Statistics
Matches: 96, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 96 1.00
ACGTcount: A:0.39, C:0.09, G:0.21, T:0.30
Consensus pattern (81 bp):
TAAAATGGTAATTTTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGATAAAACAGTAA
TTCTGTAAATCGAGGA
Found at i:55058914 original size:27 final size:26
Alignment explanation
Indices: 55058882--55059064 Score: 168
Period size: 27 Copynumber: 6.8 Consensus size: 26
55058872 TTATTCTGTA
*
55058882 AATCGAGGGTAGTTTGGTAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTAC
**
55058908 AAGTCGAGGGTATTTCAGTAATTTTAC
1 AA-TCGAGGGTATTTTGGTAATTTTAC
* * ** *
55058935 AGGTCGATGGTATTTCAGTAATTTCAC
1 A-ATCGAGGGTATTTTGGTAATTTTAC
* *
55058962 AAATCAAAGGTATTTTGGTAATTTTAC
1 -AATCGAGGGTATTTTGGTAATTTTAC
* *
55058989 AAACTAGGGTATTTTGGTAATTTTAC
1 AATCGAGGGTATTTTGGTAATTTTAC
* * *
55059015 AAACCAGTGGTATTTTGGTAATTTTATA
1 AATCGAG-GGTATTTTGGTAATTTTA-C
* *
55059043 AACCAAGGGTATTTTGGTAATT
1 AATCGAGGGTATTTTGGTAATT
55059065 CTACCCTATA
Statistics
Matches: 133, Mismatches: 19, Indels: 9
0.83 0.12 0.06
Matches are distributed among these distances:
26 31 0.23
27 96 0.72
28 6 0.05
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (26 bp):
AATCGAGGGTATTTTGGTAATTTTAC
Found at i:55059026 original size:80 final size:81
Alignment explanation
Indices: 55058889--55059064 Score: 203
Period size: 80 Copynumber: 2.2 Consensus size: 81
55058879 GTAAATCGAG
* * ***
55058889 GGTAGTTTGGTAATTTTACAAGTCGAGGGTATTTCAGTAATTTTACAGGTCGATGGTATTTCAGT
1 GGTATTTTGGTAATTTTACAAGACGAGGGTATTTCAGTAATTTTACAAACCGATGGTATTTCAGT
*
55058954 AATTTCACAAATCAAA
66 AATTTCACAAACCAAA
* ** **
55058970 GGTATTTTGGTAATTTTACAA-ACTAGGGTATTTTGGTAATTTTACAAACC-AGTGGTATTTTGG
1 GGTATTTTGGTAATTTTACAAGACGAGGGTATTTCAGTAATTTTACAAACCGA-TGGTATTTCAG
* * *
55059033 TAATTTTATAAACCAAG
65 TAATTTCACAAACCAAA
55059050 GGTATTTTGGTAATT
1 GGTATTTTGGTAATT
55059065 CTACCCTATA
Statistics
Matches: 80, Mismatches: 14, Indels: 3
0.82 0.14 0.03
Matches are distributed among these distances:
79 1 0.01
80 59 0.74
81 20 0.25
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.40
Consensus pattern (81 bp):
GGTATTTTGGTAATTTTACAAGACGAGGGTATTTCAGTAATTTTACAAACCGATGGTATTTCAGT
AATTTCACAAACCAAA
Found at i:55059115 original size:27 final size:27
Alignment explanation
Indices: 55059046--55059128 Score: 87
Period size: 27 Copynumber: 3.1 Consensus size: 27
55059036 TTTTATAAAC
**
55059046 CAAGGGTATTTTGGTAATTCTACCCTA
1 CAAGGGTATTTAAGTAATTCTACCCTA
* *
55059073 TAGGGGCT-TTTAAGTAATTCTACCCTA
1 CAAGGG-TATTTAAGTAATTCTACCCTA
* * *
55059100 CAAGGGTATTTCAGTAATGCTAGCCTA
1 CAAGGGTATTTAAGTAATTCTACCCTA
55059127 CA
1 CA
55059129 GATATGAGAT
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
26 1 0.02
27 43 0.96
28 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (27 bp):
CAAGGGTATTTAAGTAATTCTACCCTA
Found at i:55061360 original size:39 final size:39
Alignment explanation
Indices: 55061347--55061509 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
55061337 TTATGTAACC
* *
55061347 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
55061387 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
55061426 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
55061465 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
55061504 CGCACA
1 CGCACA
55061510 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:55069356 original size:39 final size:39
Alignment explanation
Indices: 55069275--55069437 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
55069265 TATGGTAACC
* *
55069275 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
55069315 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
55069354 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
55069393 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
55069432 CGCACA
1 CGCACA
55069438 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:55078265 original size:29 final size:29
Alignment explanation
Indices: 55078233--55078297 Score: 121
Period size: 29 Copynumber: 2.2 Consensus size: 29
55078223 GTTTGTACTA
55078233 ATAAATGGCCTACAAAGTTCAAAAGAAAT
1 ATAAATGGCCTACAAAGTTCAAAAGAAAT
*
55078262 ATAAATGGCCTACAAAGTTCGAAAGAAAT
1 ATAAATGGCCTACAAAGTTCAAAAGAAAT
55078291 ATAAATG
1 ATAAATG
55078298 AGGATCTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.51, C:0.12, G:0.15, T:0.22
Consensus pattern (29 bp):
ATAAATGGCCTACAAAGTTCAAAAGAAAT
Found at i:55083503 original size:49 final size:50
Alignment explanation
Indices: 55083430--55083665 Score: 228
Period size: 49 Copynumber: 4.9 Consensus size: 50
55083420 AGCTATTGTG
* *
55083430 AGGTCACGTGTATAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*** *
55083480 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATACGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TT
* * * **
55083530 CGATCAC--GTGT-G---T-A--G-AGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
*
55083570 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-GAATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAATT
* * *
55083620 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
55083666 GCTTCGGCTA
Statistics
Matches: 149, Mismatches: 23, Indels: 29
0.74 0.11 0.14
Matches are distributed among these distances:
40 7 0.05
41 16 0.11
42 5 0.03
43 1 0.01
44 1 0.01
45 1 0.01
46 1 0.01
47 1 0.01
48 1 0.01
49 87 0.58
50 23 0.15
51 5 0.03
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:55086759 original size:29 final size:29
Alignment explanation
Indices: 55086725--55086885 Score: 234
Period size: 29 Copynumber: 5.6 Consensus size: 29
55086715 TAATTGATCA
*
55086725 CGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATATGATTTAAGCT
*
55086754 CGCACACTTAGTGCCATATGATTTAAACT
1 CGCACACTTAGTGCCATATGATTTAAGCT
* *
55086783 TGCACACTTAGTGCCATGTGATTTAAGCT
1 CGCACACTTAGTGCCATATGATTTAAGCT
**
55086812 CGCACACTTAGTGCCATATGATTTAAATT
1 CGCACACTTAGTGCCATATGATTTAAGCT
*
55086841 CGCACACTTAGTGCCATA-CATTTCAAGCT
1 CGCACACTTAGTGCCATATGATTT-AAGCT
*
55086870 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
55086886 ATCTCATCAC
Statistics
Matches: 118, Mismatches: 13, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
28 4 0.03
29 114 0.97
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATGATTTAAGCT
Found at i:55086797 original size:58 final size:58
Alignment explanation
Indices: 55086725--55086885 Score: 263
Period size: 58 Copynumber: 2.8 Consensus size: 58
55086715 TAATTGATCA
55086725 CGCACACTTAGTGCCATGTGATTTAAGCTCGCACACTTAGTGCCATATGATTTAAACTT
1 CGCACACTTAGTGCCATGTGATTTAAGCTCGCACACTTAGTGCCATATGATTTAAA-TT
55086784 -GCACACTTAGTGCCATGTGATTTAAGCTCGCACACTTAGTGCCATATGATTTAAATT
1 CGCACACTTAGTGCCATGTGATTTAAGCTCGCACACTTAGTGCCATATGATTTAAATT
** *
55086841 CGCACACTTAGTGCCAT-ACATTTCAAGCTTGCACACTTAGTGCCA
1 CGCACACTTAGTGCCATGTGATTT-AAGCTCGCACACTTAGTGCCA
55086886 ATCTCATCAC
Statistics
Matches: 97, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
57 6 0.06
58 91 0.94
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (58 bp):
CGCACACTTAGTGCCATGTGATTTAAGCTCGCACACTTAGTGCCATATGATTTAAATT
Found at i:55086844 original size:87 final size:87
Alignment explanation
Indices: 55086725--55086885 Score: 261
Period size: 87 Copynumber: 1.9 Consensus size: 87
55086715 TAATTGATCA
* * *
55086725 CGCACACTTAGTGCCATGTGATTTAAGCTCGCACACTTAGTGCCATATGATTT-AAACTTGCACA
1 CGCACACTTAGTGCCATATGATTTAAACTCGCACACTTAGTGCCATA-CATTTCAAACTTGCACA
55086789 CTTAGTGCCATGTGATTTAAGCT
65 CTTAGTGCCATGTGATTTAAGCT
* *
55086812 CGCACACTTAGTGCCATATGATTTAAATTCGCACACTTAGTGCCATACATTTCAAGCTTGCACAC
1 CGCACACTTAGTGCCATATGATTTAAACTCGCACACTTAGTGCCATACATTTCAAACTTGCACAC
55086877 TTAGTGCCA
66 TTAGTGCCA
55086886 ATCTCATCAC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
86 4 0.06
87 64 0.94
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (87 bp):
CGCACACTTAGTGCCATATGATTTAAACTCGCACACTTAGTGCCATACATTTCAAACTTGCACAC
TTAGTGCCATGTGATTTAAGCT
Found at i:55087611 original size:37 final size:37
Alignment explanation
Indices: 55087552--55087697 Score: 247
Period size: 37 Copynumber: 3.9 Consensus size: 37
55087542 AGCTCAGATG
* * *
55087552 AAATCTCCACACGAAGTTATCGGGTCTTACCCAGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
55087589 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
55087626 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
55087663 AAATCTCCACACGTAGTTATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
55087698 ATATATTTCC
Statistics
Matches: 103, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 103 1.00
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:55087899 original size:48 final size:48
Alignment explanation
Indices: 55087844--55088136 Score: 523
Period size: 48 Copynumber: 6.1 Consensus size: 48
55087834 ACACATCGCC
*
55087844 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
55087892 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
55087940 TTCATATTTCACATTAGCCATTCAGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
* *
55087988 TACATATTTCACATTAGCCATTCGACTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55088036 TACATATTTCACATTAGCCATTCGGCTTTGCCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55088084 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
55088132 TACAT
1 TACAT
55088137 CAATTTCCGC
Statistics
Matches: 233, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 233 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:55091457 original size:40 final size:40
Alignment explanation
Indices: 55091413--55091884 Score: 647
Period size: 40 Copynumber: 11.8 Consensus size: 40
55091403 GAATACACAT
* * * *
55091413 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGCTATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
55091453 CACCAGCGCGAATACTCTTCAGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
55091493 CTCTAGCACTAATGCTCTTTGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
55091533 CACCAGCACAAATGCTCTTCGGGACTTAGCCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55091573 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATACAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * * *
55091613 CACTAGCACGAATACTCTTCGGGACTTAGCCTGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
55091653 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
55091693 CACCAGCACGAATGCTCTTCGGGACTTAGCCCAGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
55091733 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGAATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
55091773 CACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
55091813 CACCAGCACGAATGCTCTTCGGGGCTTAGCCCGGCTATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGG--ATATAA
*
55091855 CACGAGCACGAATGCTCTTCGGGACTTAGC
1 CACCAGCACGAATGCTCTTCGGGACTTAGC
55091885 TCAGCTATAT
Statistics
Matches: 383, Mismatches: 47, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
40 350 0.91
42 33 0.09
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:55093219 original size:37 final size:37
Alignment explanation
Indices: 55093157--55093263 Score: 173
Period size: 37 Copynumber: 2.9 Consensus size: 37
55093147 TAGCTCAATG
*
55093157 AAATCT-C-CACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTTATCGGGTCTTACCCGGACA
*
55093192 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTTATCGGGTCTTACCCGGACA
*
55093229 TAATCTCCACACGTAGTTATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTTATCGGGTCTTACCCGGA
55093264 ATATATTTCT
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
35 6 0.09
36 1 0.02
37 59 0.89
ACGTcount: A:0.26, C:0.30, G:0.20, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTTATCGGGTCTTACCCGGACA
Found at i:55093465 original size:48 final size:48
Alignment explanation
Indices: 55093410--55093652 Score: 454
Period size: 48 Copynumber: 5.1 Consensus size: 48
55093400 ACACATCGTC
*
55093410 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
55093458 TACATATTTCACA-TAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
55093505 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
55093553 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55093601 TACATATTTCACATTAGCCATTC-GCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
55093648 TACAT
1 TACAT
55093653 CAATTTCCGC
Statistics
Matches: 193, Mismatches: 1, Indels: 3
0.98 0.01 0.02
Matches are distributed among these distances:
47 75 0.39
48 118 0.61
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:55093525 original size:95 final size:96
Alignment explanation
Indices: 55093410--55093652 Score: 454
Period size: 95 Copynumber: 2.6 Consensus size: 96
55093400 ACACATCGTC
*
55093410 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACA-TAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
55093474 CCATTCGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
55093505 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
55093570 CCATTCGGCTTTACCACATATACATATCTCA
66 CCATTCGGCTTTACCACATATACATATCTCA
*
55093601 TACATATTTCACATTAGCCATTC-GCTTTACCACATATACTTATCTCATACAT
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACAT
55093653 CAATTTCCGC
Statistics
Matches: 145, Mismatches: 2, Indels: 2
0.97 0.01 0.01
Matches are distributed among these distances:
95 88 0.61
96 57 0.39
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (96 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAG
CCATTCGGCTTTACCACATATACATATCTCA
Found at i:55096970 original size:40 final size:40
Alignment explanation
Indices: 55096938--55097277 Score: 419
Period size: 40 Copynumber: 8.4 Consensus size: 40
55096928 CCAGCATGAT
* * * *
55096938 TGCTCTTCGGGACCTAGCCCGGCTATAACACCAGCGCGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
** * * * *
55096978 TGCTCTTCAAGACTTAACCCTGATATAACTCTAGCACTAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * * * * *
55097018 TGCTCTTTGAGTCTTTGCCCGGATATAACACCAGCACAAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * *
55097058 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
*
55097098 TGCTCTTCGGGACTTAGCCCGGATACAACACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* * *
55097138 TACTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
*
55097178 TGCTCTTCGGGACTTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
* *
55097218 TGCTCTTCGGGGCTTAGCCCGGCTATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGG--ATATAACACTAGCACGAA
*
55097260 TGTTCTTCGGGACTTAGC
1 TGCTCTTCGGGACTTAGC
55097278 TCAGCTATAT
Statistics
Matches: 259, Mismatches: 39, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 227 0.88
42 32 0.12
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATAACACTAGCACGAA
Found at i:55097163 original size:23 final size:23
Alignment explanation
Indices: 55097137--55097202 Score: 54
Period size: 23 Copynumber: 3.1 Consensus size: 23
55097127 ACTAGCACGA
55097137 ATACTCTTCGGGACTTAGCCCGG
1 ATACTCTTCGGGACTTAGCCCGG
* * *
55097160 ATA--CATC---AC-TAGCACGA
1 ATACTCTTCGGGACTTAGCCCGG
*
55097177 ATGCTCTTCGGGACTTAGCCCGG
1 ATACTCTTCGGGACTTAGCCCGG
55097200 ATA
1 ATA
55097203 TAACACCAGC
Statistics
Matches: 29, Mismatches: 8, Indels: 12
0.59 0.16 0.24
Matches are distributed among these distances:
17 8 0.28
18 2 0.07
19 3 0.10
21 3 0.10
22 2 0.07
23 11 0.38
ACGTcount: A:0.24, C:0.29, G:0.23, T:0.24
Consensus pattern (23 bp):
ATACTCTTCGGGACTTAGCCCGG
Found at i:55098579 original size:37 final size:37
Alignment explanation
Indices: 55098520--55098628 Score: 164
Period size: 37 Copynumber: 2.9 Consensus size: 37
55098510 AGCTCAAATG
* * * *
55098520 AAATCTCTACATGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTTATCGGGTCTTATCCGGACA
*
55098557 AAATCTCCACACGTAGTCATCGGGTCTTATCCGGACA
1 AAATCTCCACACGTAGTTATCGGGTCTTATCCGGACA
*
55098594 TAATCTCCACACGTAGTTATCGGGTCTTATCCGGA
1 AAATCTCCACACGTAGTTATCGGGTCTTATCCGGA
55098629 ATATATTTCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (37 bp):
AAATCTCCACACGTAGTTATCGGGTCTTATCCGGACA
Found at i:55098830 original size:48 final size:48
Alignment explanation
Indices: 55098775--55099067 Score: 550
Period size: 48 Copynumber: 6.1 Consensus size: 48
55098765 ACACATCGCC
*
55098775 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55098823 TACATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
55098871 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55098919 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
55098967 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
*
55099015 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACTTATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
55099063 TACAT
1 TACAT
55099068 CAATTTCCGC
Statistics
Matches: 240, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 240 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:55106462 original size:19 final size:20
Alignment explanation
Indices: 55106433--55106470 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
55106423 CAATGATTCA
*
55106433 ATGGACATGAAACTCTTGAC
1 ATGGACATGAAAATCTTGAC
55106453 ATGG-CATGAAAATCTTGA
1 ATGGACATGAAAATCTTGA
55106471 TGTGATATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (20 bp):
ATGGACATGAAAATCTTGAC
Found at i:55108046 original size:540 final size:540
Alignment explanation
Indices: 55107026--55108098 Score: 2047
Period size: 540 Copynumber: 2.0 Consensus size: 540
55107016 ATGTAATGGT
* *
55107026 ATGCTATGATGAATGATAGAGTTGTCTATTTTGAATGCTTGGATTGTTTAGTATTGGATGTGTGT
1 ATGCTATGATGAATGATAGAATTGTCTATTTTGAATGCTTGGATTGTTTAGTATTGGACGTGTGT
*
55107091 TTCATGTGCAAGTCTTGGGTGAAAATTTGGGTGAGAAATGGTGTAACACCCCTTACCCGTACTCG
66 TTCATGTGCAAGTCTTGGGTGAAAATTTGGGTGAGAAATGGTGTAACACCCCGTACCCGTACTCG
55107156 AGGCCAGGATAGGATATGAGGCATTACCAAACACATACACAGTCATTTACGCAAAAAGTCAGGCT
131 AGGCCAGGATAGGATATGAGGCATTACCAAACACATACACAGTCATTTACGCAAAAAGTCAGGCT
*
55107221 ATAAAATTTTTTCTTTAAAACAACTTCATTCATACATACACAAATTGCCTCTAATATGGGCCTAC
196 ATAAAATTTTTTCTTTAAAACAACTTCATTCATACATACACAAACTGCCTCTAATATGGGCCTAC
*
55107286 GAGGCCCCAAACAGCCATGGAAAAGGGTCGGGACTAAATCGGGAACTTTTAGTAAAGTTTGGAAA
261 GAGGCCCCAAACAGCCATGGAAAAAGGTCGGGACTAAATCGGGAACTTTTAGTAAAGTTTGGAAA
55107351 ATTTCCCTAATACAGAGCCACATGCCTATGTGAGACAGGGGACACCCCCATGTCATCCGGCCATG
326 ATTTCCCTAATACAGAGCCACATGCCTATGTGAGACAGGGGACACCCCCATGTCATCCGGCCATG
55107416 TAACTCTCTGACTATGACGTCAGCATCAATTTAGTGTCATACGACCGTGTGGCCAGATCATGTGG
391 TAACTCTCTGACTATGACGTCAGCATCAATTTAGTGTCATACGACCGTGTGGCCAGATCATGTGG
*
55107481 TCAATTAAAATTAAGTGAATTTTTCATAAAAAGGTGCGAACTTCGCATAGTCAGAGTACACGCCC
456 TCAATTAAAATTAAGTGAATTTTTCATAAAAAGGTGCGAACTTCGCATAGCCAGAGTACACGCCC
55107546 ATGTGGGTAGGTCATTTTGA
521 ATGTGGGTAGGTCATTTTGA
55107566 ATGCTATGATGAATGATAGAATTGTCTATTTTGAATGCTTGGATTGTTTAGTATTGGACGTGTGT
1 ATGCTATGATGAATGATAGAATTGTCTATTTTGAATGCTTGGATTGTTTAGTATTGGACGTGTGT
55107631 TTCATGTGCAAGTCTTGGGTGAAAATTTGGGTGAGAAATGGTGTAACACCCCGTACCCGTACTCG
66 TTCATGTGCAAGTCTTGGGTGAAAATTTGGGTGAGAAATGGTGTAACACCCCGTACCCGTACTCG
55107696 AGGCCAGGATAGGATATGAGGCATTACCAAACACATACACAGTCATTTACGCAAAAAGTCAGGCT
131 AGGCCAGGATAGGATATGAGGCATTACCAAACACATACACAGTCATTTACGCAAAAAGTCAGGCT
55107761 ATAAAATTTTTTCTTTAAAACAACTTCATTCATACATACACAAACTGCCTCTAATATGGGCCTAC
196 ATAAAATTTTTTCTTTAAAACAACTTCATTCATACATACACAAACTGCCTCTAATATGGGCCTAC
55107826 GAGGCCCCAAACAGCCATGGAAAAAGGTCGGGACTAAATCGGGAACTTTTAGTAAAGTTTGGAAA
261 GAGGCCCCAAACAGCCATGGAAAAAGGTCGGGACTAAATCGGGAACTTTTAGTAAAGTTTGGAAA
** *
55107891 ATTTCCCTAATACAGAGCCACATGCCTATGTGAGACAGGGGACACCCCTGTGTCATCCGGCCGTG
326 ATTTCCCTAATACAGAGCCACATGCCTATGTGAGACAGGGGACACCCCCATGTCATCCGGCCATG
*
55107956 TAACTCTCTGACTATGACGTCAGCATCAATTTAGTGTCATACGACCGTGTGGCCGGATCATGTGG
391 TAACTCTCTGACTATGACGTCAGCATCAATTTAGTGTCATACGACCGTGTGGCCAGATCATGTGG
*
55108021 TCAATTAAAATTAAGTGATTTTTTCATAAAAAGGTGCGAACTTCGCATAGCCAGAGTACACGCCC
456 TCAATTAAAATTAAGTGAATTTTTCATAAAAAGGTGCGAACTTCGCATAGCCAGAGTACACGCCC
55108086 ATGTGGGTAGGTC
521 ATGTGGGTAGGTC
55108099 GTGTCCCTCA
Statistics
Matches: 522, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
540 522 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (540 bp):
ATGCTATGATGAATGATAGAATTGTCTATTTTGAATGCTTGGATTGTTTAGTATTGGACGTGTGT
TTCATGTGCAAGTCTTGGGTGAAAATTTGGGTGAGAAATGGTGTAACACCCCGTACCCGTACTCG
AGGCCAGGATAGGATATGAGGCATTACCAAACACATACACAGTCATTTACGCAAAAAGTCAGGCT
ATAAAATTTTTTCTTTAAAACAACTTCATTCATACATACACAAACTGCCTCTAATATGGGCCTAC
GAGGCCCCAAACAGCCATGGAAAAAGGTCGGGACTAAATCGGGAACTTTTAGTAAAGTTTGGAAA
ATTTCCCTAATACAGAGCCACATGCCTATGTGAGACAGGGGACACCCCCATGTCATCCGGCCATG
TAACTCTCTGACTATGACGTCAGCATCAATTTAGTGTCATACGACCGTGTGGCCAGATCATGTGG
TCAATTAAAATTAAGTGAATTTTTCATAAAAAGGTGCGAACTTCGCATAGCCAGAGTACACGCCC
ATGTGGGTAGGTCATTTTGA
Found at i:55114652 original size:33 final size:33
Alignment explanation
Indices: 55114610--55114676 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
55114600 AACTAGTACA
55114610 GAAAATTTTGAATGAAGCTCATAGTGGTAACAT
1 GAAAATTTTGAATGAAGCTCATAGTGGTAACAT
55114643 GAAAATTTTGAATGAAGCTCATAGTGGTAACAT
1 GAAAATTTTGAATGAAGCTCATAGTGGTAACAT
55114676 G
1 G
55114677 TCTATTCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.39, C:0.09, G:0.22, T:0.30
Consensus pattern (33 bp):
GAAAATTTTGAATGAAGCTCATAGTGGTAACAT
Found at i:55117903 original size:27 final size:27
Alignment explanation
Indices: 55117873--55118094 Score: 254
Period size: 27 Copynumber: 8.3 Consensus size: 27
55117863 TACTGAAATG
* *
55117873 CCCTCGATTTGTAAAATTACCATTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* *
55117900 CCCTCGATTTATAGAATTACCGTTTCA
1 CCCTCGATTTATAAAATTACCGTTTTA
* *
55117927 CCCTCGATTTACAAAATTACCGTTTCA
1 CCCTCGATTTATAAAATTACCGTTTTA
*
55117954 CCCTTGATTTATAAAATTACCG-TTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* * *
55117980 CCCTCGATTTAT-CAATTACCATTTCA
1 CCCTCGATTTATAAAATTACCGTTTTA
* *
55118006 -CCTCGATTTATAGAATTACTGTTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* * *
55118032 CCCTCGATTTACAAAATTATCATTTTA
1 CCCTCGATTTATAAAATTACCGTTTTA
* *
55118059 CCCTC-AGTTTACAAAATTATCGTTTTA
1 CCCTCGA-TTTATAAAATTACCGTTTTA
55118086 CCCTCGATT
1 CCCTCGATT
55118095 GTGAAATTAC
Statistics
Matches: 167, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
25 18 0.11
26 28 0.17
27 120 0.72
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.08, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAAAATTACCGTTTTA
Found at i:55118256 original size:27 final size:27
Alignment explanation
Indices: 55118125--55118290 Score: 136
Period size: 27 Copynumber: 6.1 Consensus size: 27
55118115 TGTAGGATAG
*
55118125 AATTACCAAAATATCCCCAG-TTTGTAA
1 AATTACCAAAATA-CCCCTGATTTGTAA
*
55118152 AATTACCAAAATACCCCTAGTTTTGTAA
1 AATTACCAAAATACCCCT-GATTTGTAA
** * * * *
55118180 AATTACTGAAATGCCACTGGTTTGTGA
1 AATTACCAAAATACCCCTGATTTGTAA
* ** *
55118207 AATTACCGAAATACCTTTAATTTGTAA
1 AATTACCAAAATACCCCTGATTTGTAA
**
55118234 AATTACCAAAATACCCCTGATTTACAA
1 AATTACCAAAATACCCCTGATTTGTAA
** * *
55118261 AATTATAAAAATACCCTTGACTTTCTAA
1 AATTACCAAAATACCCCTGA-TTTGTAA
55118289 AA
1 AA
55118291 ATTATGGAAA
Statistics
Matches: 111, Mismatches: 25, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
26 4 0.04
27 79 0.71
28 28 0.25
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAA
Found at i:55118327 original size:27 final size:27
Alignment explanation
Indices: 55118288--55118339 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
55118278 TGACTTTCTA
55118288 AAAATTATGGAAATACCATTGGTTTAC
1 AAAATTATGGAAATACCATTGGTTTAC
*
55118315 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TGGAAATACCATTGGTTT
55118340 GTAGATTTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.35
Consensus pattern (27 bp):
AAAATTATGGAAATACCATTGGTTTAC
Found at i:55118423 original size:27 final size:27
Alignment explanation
Indices: 55118393--55118453 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
55118383 ACCCCTAATA
*
55118393 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAAAGACCGTAAAACCCCTGTAG
** * *
55118420 GGTAAAGTGACCGTAAAACCCTTGTAT
1 GGTAAAAAGACCGTAAAACCCCTGTAG
55118447 GGTAAAA
1 GGTAAAA
55118454 TAACAAATAT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAAAGACCGTAAAACCCCTGTAG
Done.