Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 141 of 311
Found at i:47696694 original size:45 final size:43
Alignment explanation
Indices: 47696594--47696703 Score: 120
Period size: 45 Copynumber: 2.6 Consensus size: 43
47696584 TTTTCCATTA
47696594 TGCTATTACACCTCTATT-C---CATTCAACCAAACACAAGAT
1 TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
* * ***
47696633 TACTATTACGCCTCTATTCCATTACATTCAACCAAACAGTTGATT
1 TGCTATTACACCTCTATTCCA-TACATTCAACCAAACACAAGA-T
47696678 TGCTATTACACCTCTATTCCAATACA
1 TGCTATTACACCTCTATTCC-ATACA
47696704 CCTCTAATCC
Statistics
Matches: 57, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
39 16 0.28
40 1 0.02
44 16 0.28
45 23 0.40
46 1 0.02
ACGTcount: A:0.33, C:0.29, G:0.05, T:0.33
Consensus pattern (43 bp):
TGCTATTACACCTCTATTCCATACATTCAACCAAACACAAGAT
Found at i:47696705 original size:16 final size:16
Alignment explanation
Indices: 47696684--47696751 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
47696674 GATTTGCTAT
*
47696684 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
47696700 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
47696716 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47696732 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
47696748 TACA
1 TACA
47696752 GCGAACCAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:47696796 original size:27 final size:26
Alignment explanation
Indices: 47696766--47697090 Score: 206
Period size: 27 Copynumber: 12.1 Consensus size: 26
47696756 ACCAAACGTG
*
47696766 CCCTAAGTTTATAGAATTACCATTTTA
1 CCCT-AGTTTACAGAATTACCATTTTA
* *
47696793 CCCTCAGTTTATAGAATTACTATTTTA
1 CCCT-AGTTTACAGAATTACCATTTTA
* * *
47696820 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTAG-TTTACAGAATTACCATTTTA
* *
47696847 CCCTCGATTGGTA-A-AATTACCGTTTTA
1 CCCTAG-TT--TACAGAATTACCATTTTA
* * *
47696874 CCCTTAATTTACAGAATTTCCGTTTTA
1 CCC-TAGTTTACAGAATTACCATTTTA
*
47696901 CCCTCAGTTTACAGAATTACTATTTTA
1 CCCT-AGTTTACAGAATTACCATTTTA
* * *
47696928 -CCTTGATTTACAGAATTGCCGTTTTA
1 CCCTAG-TTTACAGAATTACCATTTTA
*
47696954 CCCTCAGTTTACAGAATTACTATTTTA
1 CCCT-AGTTTACAGAATTACCATTTTA
* **
47696981 CCCTCGATTTACAGAATTGTCATTTTA
1 CCCTAG-TTTACAGAATTACCATTTTA
* ** * * *
47697008 CCCTCGATTTGTAAAATCACCGTTTTA
1 CCCTAG-TTTACAGAATTACCATTTTA
* * ***
47697035 CCCTTGATTTACAAAATTACTGGTTTA
1 CCCTAG-TTTACAGAATTACCATTTTA
* * *
47697062 CCCTTAGTTTACAAAATTATCGTTTTA
1 CCC-TAGTTTACAGAATTACCATTTTA
47697089 CC
1 CC
47697091 AACAATTTAT
Statistics
Matches: 245, Mismatches: 41, Indels: 24
0.79 0.13 0.08
Matches are distributed among these distances:
25 3 0.01
26 24 0.10
27 211 0.86
28 5 0.02
29 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.41
Consensus pattern (26 bp):
CCCTAGTTTACAGAATTACCATTTTA
Found at i:47696865 original size:54 final size:53
Alignment explanation
Indices: 47696773--47697119 Score: 285
Period size: 54 Copynumber: 6.5 Consensus size: 53
47696763 GTGCCCTAAG
* *
47696773 TTTATAGAATTACCATTTTACCCTCAGTT-TATAGAATTACTATTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCAGTTGTA-A-AATTACTATTTTACCCTCGA
* ** **
47696827 TTTATAGAATTACCGTTTTACCCTC-GATTGGTAAAATTACCGTTTTACCCTTAA
1 TTTACAGAATTACCGTTTTACCCTCAG-TT-GTAAAATTACTATTTTACCCTCGA
* *
47696881 TTTACAGAATTTCCGTTTTACCCTCAGTT-TACAGAATTACTATTTTA-CCTTGA
1 TTTACAGAATTACCGTTTTACCCTCAGTTGTA-A-AATTACTATTTTACCCTCGA
*
47696934 TTTACAGAATTGCCGTTTTACCCTCAGTT-TACAGAATTACTATTTTACCCTCGA
1 TTTACAGAATTACCGTTTTACCCTCAGTTGTA-A-AATTACTATTTTACCCTCGA
** * * * ** *
47696988 TTTACAGAATTGTCATTTTACCCTCGATTTGTAAAATCACCGTTTTACCCTTGA
1 TTTACAGAATTACCGTTTTACCCTC-AGTTGTAAAATTACTATTTTACCCTCGA
* * * * * ** *
47697042 TTTACAAAATTACTGGTTTACCCTTAGTT-TACAAAATTA-TCGTTTTACCAACAA
1 TTTACAGAATTACCGTTTTACCCTCAGTTGT--AAAATTACT-ATTTTACCCTCGA
**
47697096 TTTATTGAATTACCGTTTTACCCT
1 TTTACAGAATTACCGTTTTACCCT
47697120 TGATTGTGAA
Statistics
Matches: 243, Mismatches: 38, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
52 3 0.01
53 56 0.23
54 174 0.72
55 6 0.02
56 4 0.02
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (53 bp):
TTTACAGAATTACCGTTTTACCCTCAGTTGTAAAATTACTATTTTACCCTCGA
Found at i:47697090 original size:161 final size:161
Alignment explanation
Indices: 47696773--47697080 Score: 463
Period size: 161 Copynumber: 1.9 Consensus size: 161
47696763 GTGCCCTAAG
* * *
47696773 TTTATAGAATTACCATTTTACCCTCAGTTTATAGAATTACTATTTTACCCTCGATTTATAGAATT
1 TTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATT
* * * * *
47696838 ACCGTTTTACCCTCGATTGGTAAAATTACCGTTTTACCCTTAATTTACAGAATTTCCGTTTTACC
66 ACCATTTTACCCTCGATTGGTAAAATCACCGTTTTACCCTTAATTTACAAAATTACCGGTTTACC
*
47696903 CTCAGTTTACAGAATTACTATTTTACCTTGA
131 CTCAGTTTACAAAATTACTATTTTACCTTGA
* *
47696934 TTTACAGAATTGCCGTTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATT
1 TTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATT
** * * *
47696999 GTCATTTTACCCTCGATTTGTAAAATCACCGTTTTACCCTTGATTTACAAAATTACTGGTTTACC
66 ACCATTTTACCCTCGATTGGTAAAATCACCGTTTTACCCTTAATTTACAAAATTACCGGTTTACC
*
47697064 CTTAGTTTACAAAATTA
131 CTCAGTTTACAAAATTA
47697081 TCGTTTTACC
Statistics
Matches: 130, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
161 130 1.00
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.41
Consensus pattern (161 bp):
TTTACAGAATTACCATTTTACCCTCAGTTTACAGAATTACTATTTTACCCTCGATTTACAGAATT
ACCATTTTACCCTCGATTGGTAAAATCACCGTTTTACCCTTAATTTACAAAATTACCGGTTTACC
CTCAGTTTACAAAATTACTATTTTACCTTGA
Found at i:47697111 original size:81 final size:80
Alignment explanation
Indices: 47696773--47697124 Score: 309
Period size: 81 Copynumber: 4.4 Consensus size: 80
47696763 GTGCCCTAAG
* * * * * *
47696773 TTTATAGAATTACCATTTTACCC-TCAGTTTATAGAATTACTATTTTACCC-TCGATTTATAGAA
1 TTTATAGAATTACCGTTTTACCCTTGA-TTTACAGAATTACTGTTTTACCCTTAG-TTTACAGAA
* *
47696836 TTACCGTTTTACCCTCGA
64 TTATCATTTTA-CCTCGA
** * * * * *
47696854 TTGGTAAAATTACCGTTTTACCCTTAATTTACAGAATTTCCGTTTTACCCTCAGTTTACAGAATT
1 TTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTTAGTTTACAGAATT
*
47696919 A-CTATTTTACCTTGA
66 ATC-ATTTTACCTCGA
* * * * *
47696934 TTTACAGAATTGCCGTTTTACCC-TCAGTTTACAGAATTACTATTTTACCC-TCGATTTACAGAA
1 TTTATAGAATTACCGTTTTACCCTTGA-TTTACAGAATTACTGTTTTACCCTTAG-TTTACAGAA
*
47696997 TTGTCATTTTACCCTCGA
64 TTATCATTTTA-CCTCGA
* * * * * *
47697015 TTTGTAAAATCACCGTTTTACCCTTGATTTACAAAATTACTGGTTTACCCTTAGTTTACAAAATT
1 TTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTTAGTTTACAGAATT
* * *
47697080 ATCGTTTTACCAACAA
66 ATCATTTTACC-TCGA
*
47697096 TTTATTGAATTACCGTTTTACCCTTGATT
1 TTTATAGAATTACCGTTTTACCCTTGATT
47697125 GTGAAATTAC
Statistics
Matches: 215, Mismatches: 46, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
79 3 0.01
80 63 0.29
81 142 0.66
82 7 0.03
ACGTcount: A:0.28, C:0.21, G:0.10, T:0.42
Consensus pattern (80 bp):
TTTATAGAATTACCGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTTAGTTTACAGAATT
ATCATTTTACCTCGA
Found at i:47697159 original size:27 final size:27
Alignment explanation
Indices: 47697129--47697323 Score: 205
Period size: 27 Copynumber: 7.2 Consensus size: 27
47697119 TTGATTGTGA
*
47697129 AATTACTTAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
47697156 AATTTCCGAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* ** * *
47697183 AATTACTAAAATACCATTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
47697210 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
47697237 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
47697264 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
47697291 AATTA-TCGAGATACCCTTGTAGGGTAA
1 AATTACT-GAAATACCCCTGTAGGGTAG
47697318 AATTAC
1 AATTAC
47697324 CATTTTGCCC
Statistics
Matches: 138, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
27 138 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:47697195 original size:54 final size:54
Alignment explanation
Indices: 47697137--47697324 Score: 261
Period size: 54 Copynumber: 3.5 Consensus size: 54
47697127 GAAATTACTT
* * * *
47697137 AAATACCCCTGTAGGGTAGAATTTCCGAAATACCCCTATAGGGTAGAATTA-CTA
1 AAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATC-G
* * * *
47697191 AAATACCATTATAGGATAGAATTACCAAAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCG
*
47697245 AAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTATCG
1 AAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCG
* *
47697299 AGATACCCTTGTAGGGTAAAATTACC
1 AAATACCCTTGTAGGGTAGAATTACC
47697325 ATTTTGCCCC
Statistics
Matches: 117, Mismatches: 16, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
54 116 0.99
55 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.26
Consensus pattern (54 bp):
AAATACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTATCG
Found at i:47697264 original size:81 final size:82
Alignment explanation
Indices: 47697137--47697322 Score: 232
Period size: 81 Copynumber: 2.3 Consensus size: 82
47697127 GAAATTACTT
* * *
47697137 AAATACCCCTGTAGGGTAGAATT-TCCGAAATACCCCTATAGGGTAGAATTACTAAAATACCATT
1 AAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCAAAATACCACT
47697201 ATAGGATAGAATTACCA
66 ATAGGATAGAATTACCA
* * * *
47697218 AAATACCCCTGTAGGGTAGAATTAT-CGAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCT
1 AAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCAAAATACCACT
* * * *
47697282 GTAGGGTAGAATTATCG
66 ATAGGATAGAATTACCA
* * *
47697299 AGATACCCTTGTAGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
47697323 CCATTTTGCC
Statistics
Matches: 90, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
81 89 0.99
82 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (82 bp):
AAATACCCCTGTAGGGTAGAATTATCCGAAATACCCCTATAGGGTAGAAATACCAAAATACCACT
ATAGGATAGAATTACCA
Found at i:47697561 original size:27 final size:26
Alignment explanation
Indices: 47697523--47697605 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
47697513 CGGAGGAAGC
*
47697523 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-AATATCT
47697550 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTCTGCCACAATATCT
* * *
47697576 GTATTTGGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTCTGCCACAATATCT
47697603 GTT
1 GTT
47697606 GACCGATCAT
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 10 0.20
27 41 0.80
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACAATATCT
Found at i:47697937 original size:27 final size:27
Alignment explanation
Indices: 47697915--47697988 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
47697905 TAGGTGGGTT
*
47697915 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
47697942 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
47697969 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
47697989 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:47698115 original size:6 final size:6
Alignment explanation
Indices: 47698106--47698292 Score: 165
Period size: 6 Copynumber: 30.8 Consensus size: 6
47698096 TTGCATTCAC
*
47698106 ATTCTG ATTCTG ATTCTG --TCATG TAATTCTA ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTC-TG --ATTCTG ATTCTG ATTCTG ATTCTG
* * *
47698155 -TTACTA ATACTC ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * *
47698203 ATTCTG -TCACCTA ATTCTG ATTCTG ATTCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
47698252 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
47698293 CATTTTGGTT
Statistics
Matches: 150, Mismatches: 13, Indels: 36
0.75 0.07 0.18
Matches are distributed among these distances:
4 2 0.01
5 12 0.08
6 123 0.82
7 8 0.05
8 3 0.02
9 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:47698173 original size:30 final size:30
Alignment explanation
Indices: 47698106--47698292 Score: 224
Period size: 30 Copynumber: 6.4 Consensus size: 30
47698096 TTGCATTCAC
* * * *
47698106 ATTCTGATTCTGATTCTGTCATGTAATTCTA
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
*
47698137 ATTCTGATTCTGATTCTGTTACTAATACTC
1 ATTCTGATTCTGATTCTGTTACTAATACTG
47698167 ATTCTGATTCTGATTCTG----T--TACTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
47698191 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATACTG
*
47698222 ATTCTGATTCTGATTCTGTTACTAATATTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
* *
47698252 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATACTG
47698282 ATTCTGATTCT
1 ATTCTGATTCT
47698293 CATTTTGGTT
Statistics
Matches: 137, Mismatches: 12, Indels: 15
0.84 0.07 0.09
Matches are distributed among these distances:
24 22 0.16
26 1 0.01
29 1 0.01
30 69 0.50
31 44 0.32
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATACTG
Found at i:47698246 original size:85 final size:85
Alignment explanation
Indices: 47698106--47698292 Score: 329
Period size: 85 Copynumber: 2.2 Consensus size: 85
47698096 TTGCATTCAC
**
47698106 ATTCTGATTCTGATTCTGTCATGTAATTCTAATTCTGATTCTGATTCTGTTACTAATACTCATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTAATTCTGATTCTGATTCTGTTACTAATACTCATTC
47698171 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
* * *
47698191 ATTCTGATTCTGATTCTGTCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTGTCACCTAATTCTAATTCTGATTCTGATTCTGTTACTAATACTCATTC
47698256 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
47698276 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
47698293 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTGTCACCTAATTCTAATTCTGATTCTGATTCTGTTACTAATACTCATTC
TGATTCTGATTCTGTTACTG
Found at i:47698310 original size:30 final size:30
Alignment explanation
Indices: 47698106--47698313 Score: 207
Period size: 30 Copynumber: 7.1 Consensus size: 30
47698096 TTGCATTCAC
* ** *
47698106 ATTCTGATTCTGATTCTGTCATGTAATTCTA
1 ATTCTGATTCTGATTCTGTTA-CCAATTCTG
* * *
47698137 ATTCTGATTCTGATTCTGTTACTAATACTC
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
47698167 ATTCTGATTCTGATTCTGTT----A--CTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
*
47698191 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTACC-AATTCTG
*
47698222 ATTCTGATTCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACCAAT-TCTG
**
47698252 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACCAATTCTG
* *
47698282 ATTCTGATTCTCATTTTGGTT-CCAATTCTG
1 ATTCTGATTCTGATTCT-GTTACCAATTCTG
47698312 AT
1 AT
47698314 AATGTTTCTT
Statistics
Matches: 154, Mismatches: 13, Indels: 21
0.82 0.07 0.11
Matches are distributed among these distances:
24 21 0.14
26 1 0.01
29 2 0.01
30 82 0.53
31 48 0.31
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACCAATTCTG
Found at i:47700315 original size:27 final size:27
Alignment explanation
Indices: 47700302--47700841 Score: 419
Period size: 27 Copynumber: 20.0 Consensus size: 27
47700292 AAAGTACTCC
47700302 CGATTTACAGAATTACCATTCTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
* *
47700329 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
* *
47700356 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
* *
47700383 C-AGTTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCATTCTACCCT
* * *
47700410 TGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
* ** *
47700437 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCATTCTACCCT
* *
47700464 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
** * * * *
47700491 CGATTTGTAAAATTACTATTTTATCCT
1 CGATTTACAGAATTACCATTCTACCCT
*
47700518 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
* * *
47700545 C-AGTTTATAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCATTCTACCCT
* * * *
47700572 C-AGTTTATAAAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCATTCTACCCT
* *
47700599 CGATTTATAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
** * ** *
47700626 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
*
47700653 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
* ** *
47700680 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCATTCTACCCT
* *
47700707 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
** * * * *
47700734 CGATTTGTAAAATCACCGTTTTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
* ** **
47700761 TGATTTACAGAATTACTGGTT-TAATCT
1 CGATTTACAGAATTAC-CATTCTACCCT
* * *
47700788 C-AGTTTACAAAATTATCATTTTACCCT
1 CGA-TTTACAGAATTACCATTCTACCCT
* * *
47700815 CGATTTATAGAATTACCTTTTTACCCT
1 CGATTTACAGAATTACCATTCTACCCT
47700842 TAATTGTGAA
Statistics
Matches: 442, Mismatches: 59, Indels: 24
0.84 0.11 0.05
Matches are distributed among these distances:
26 7 0.02
27 427 0.97
28 8 0.02
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCATTCTACCCT
Found at i:47700343 original size:54 final size:54
Alignment explanation
Indices: 47700302--47700841 Score: 597
Period size: 54 Copynumber: 10.0 Consensus size: 54
47700292 AAAGTACTCC
* * *
47700302 CGATTTACAGAATTACCATTCTACCCTCGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
*
47700356 CGATTTACAGAATTACCGTTTTACCCTC-AGTTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACCATTTTACCCT
* * **
47700410 TGATTTACAGAATTACCGTTTTACCCTC-AGTTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACCATTTTACCCT
* * ** * * *
47700464 CGATTTATAGAATTACCATTTTACCCTCGATTTGTAAAATTACTATTTTATCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
* * *
47700518 CGATTTACAGAATTACCATTTTACCCTC-AGTTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGA-TTTACAGAATTACCATTTTACCCT
* * *
47700572 C-AGTTTATAAAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
** * *
47700626 CGATTTGTAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
* * *
47700680 C-AGTTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTACCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
** * * * *** **
47700734 CGATTTGTAAAATCACCGTTTTACCCTTGATTTACAGAATTACTGGTTTAATCT
1 CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
* * * * *
47700788 C-AGTTTACAAAATTATCATTTTACCCTCGATTTATAGAATTACCTTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
47700842 TAATTGTGAA
Statistics
Matches: 428, Mismatches: 49, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
53 5 0.01
54 419 0.98
55 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.09, T:0.40
Consensus pattern (54 bp):
CGATTTACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCATTTTACCCT
Found at i:47701027 original size:81 final size:81
Alignment explanation
Indices: 47700851--47701028 Score: 239
Period size: 81 Copynumber: 2.2 Consensus size: 81
47700841 TTAATTGTGA
* * * * * *
47700851 AATTACTGAAATACCCCTGTAGGGTAGAATTTTTGAAATACCCCTATAGGGTTGAATTACTGAAA
1 AATTACAGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAA
47700916 TACCCTTATAGGATAG
66 TACCCTTATAGGATAG
* * *
47700932 AATTACAAAAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACCGAAA
1 AATTACAGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAA
* *
47700997 TACCCTTGTAGGGTAG
66 TACCCTTATAGGATAG
* *
47701013 AATTACCGAGATACCC
1 AATTACAGAAATACCC
47701029 TTATGGGGTA
Statistics
Matches: 83, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
81 83 1.00
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.27
Consensus pattern (81 bp):
AATTACAGAAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACCGAAA
TACCCTTATAGGATAG
Found at i:47701029 original size:27 final size:27
Alignment explanation
Indices: 47700851--47701046 Score: 212
Period size: 27 Copynumber: 7.3 Consensus size: 27
47700841 TTAATTGTGA
* *
47700851 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*** * * *
47700878 AATTTTTGAAATACCCCTATAGGGTTG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * *
47700905 AATTACTGAAATACCCTTATAGGATAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** *
47700932 AATTACAAAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
47700959 AATTATCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
*
47700986 AAATACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
47701013 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
47701040 AATTACC
1 AATTACC
47701047 ATTTTGCCCC
Statistics
Matches: 144, Mismatches: 25, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 144 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:47701283 original size:27 final size:26
Alignment explanation
Indices: 47701245--47701327 Score: 94
Period size: 27 Copynumber: 3.1 Consensus size: 26
47701235 CGGAGGAAGC
47701245 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
47701272 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* ** * *
47701298 GTATTTGGTTACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
47701325 GTT
1 GTT
47701328 GACCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.19, C:0.22, G:0.20, T:0.39
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:47701660 original size:27 final size:27
Alignment explanation
Indices: 47701638--47701711 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
47701628 TAGGTGGGTT
*
47701638 TGCCACATTATCTG-ATTCTGGTGGCTC
1 TGCCACAATATCTGTA-TCTGGTGGCTC
*
47701665 TGCCACAATATCTGTATCTGGTGACTC
1 TGCCACAATATCTGTATCTGGTGGCTC
* *
47701692 TGTCACGATATCTGT-TCTGG
1 TGCCACAATATCTGTATCTGG
47701712 CAGCCATGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 5 0.12
27 36 0.86
28 1 0.02
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
TGCCACAATATCTGTATCTGGTGGCTC
Found at i:47701838 original size:6 final size:6
Alignment explanation
Indices: 47701829--47702015 Score: 181
Period size: 6 Copynumber: 30.8 Consensus size: 6
47701819 TTGCATTCAC
*
47701829 ATTCTG ATTCTG ATTCTG -TTACGTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
* *
47701878 -TTACTA ATACTG ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG
1 ATT-CTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
* * * *
47701926 ATTCT- ATCACCTA ATTCTG ATTCTG ATCCTG ATTCTG -TTACTA ATAT-TG
1 ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG AT-TCTG
47701975 ATTCTG ATTCTG ATTCTG -TTACTG ATTCTG ATTCTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCT
47702016 CATTTTGGTT
Statistics
Matches: 152, Mismatches: 13, Indels: 32
0.77 0.07 0.16
Matches are distributed among these distances:
5 13 0.09
6 124 0.82
7 10 0.07
8 5 0.03
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (6 bp):
ATTCTG
Found at i:47701969 original size:85 final size:85
Alignment explanation
Indices: 47701829--47702015 Score: 329
Period size: 85 Copynumber: 2.2 Consensus size: 85
47701819 TTGCATTCAC
* * * *
47701829 ATTCTGATTCTGATTCTGTTACGTAATTCTGATTCTGATTCTGATTCTGTTACTAATACTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATCCTGATTCTGTTACTAATACTGATTC
47701894 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
*
47701914 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATCCTGATTCTGTTACTAATATTGATTC
1 ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATCCTGATTCTGTTACTAATACTGATTC
47701979 TGATTCTGATTCTGTTACTG
66 TGATTCTGATTCTGTTACTG
47701999 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
47702016 CATTTTGGTT
Statistics
Matches: 97, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 97 1.00
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (85 bp):
ATTCTGATTCTGATTCTATCACCTAATTCTGATTCTGATCCTGATTCTGTTACTAATACTGATTC
TGATTCTGATTCTGTTACTG
Found at i:47702036 original size:30 final size:30
Alignment explanation
Indices: 47701829--47702015 Score: 262
Period size: 30 Copynumber: 6.4 Consensus size: 30
47701819 TTGCATTCAC
47701829 ATTCTGATTCTGATTCTGTTACGTAATTCTG
1 ATTCTGATTCTGATTCTGTTAC-TAATTCTG
*
47701860 ATTCTGATTCTGATTCTGTTACTAATACTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
*
47701890 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
47701920 ATTCTGATTCT-A-TC----ACCTAATTCTG
1 ATTCTGATTCTGATTCTGTTA-CTAATTCTG
*
47701945 ATTCTGATCCTGATTCTGTTACTAATAT-TG
1 ATTCTGATTCTGATTCTGTTACTAAT-TCTG
*
47701975 ATTCTGATTCTGATTCTGTTACTGATTCTG
1 ATTCTGATTCTGATTCTGTTACTAATTCTG
47702005 ATTCTGATTCT
1 ATTCTGATTCT
47702016 CATTTTGGTT
Statistics
Matches: 140, Mismatches: 7, Indels: 19
0.84 0.04 0.11
Matches are distributed among these distances:
24 1 0.01
25 18 0.13
26 1 0.01
27 2 0.01
28 2 0.01
29 2 0.01
30 90 0.64
31 24 0.17
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (30 bp):
ATTCTGATTCTGATTCTGTTACTAATTCTG
Found at i:47704338 original size:13 final size:13
Alignment explanation
Indices: 47704322--47704346 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47704312 CAAACAAAAT
47704322 TTTCATGAAATCA
1 TTTCATGAAATCA
47704335 TTTCATGAAATC
1 TTTCATGAAATC
47704347 CTAGACCATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (13 bp):
TTTCATGAAATCA
Found at i:47709719 original size:40 final size:40
Alignment explanation
Indices: 47709625--47709929 Score: 316
Period size: 40 Copynumber: 7.6 Consensus size: 40
47709615 TATTCGAATG
* * *
47709625 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GCGATT
* * * * * *
47709666 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-CGATT
* *
47709706 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGATT
* *
47709746 ATATTCGGGCTAA-AACTCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGCGATT
*
47709786 ATATCCGGGCTAA-AACTCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGCGATT
*
47709826 ATATCCGGGCTAA-AACTCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGCGATT
* * **
47709866 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGCGATT
* *
47709906 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
47709930 CTTGTGCAAG
Statistics
Matches: 233, Mismatches: 24, Indels: 15
0.86 0.09 0.06
Matches are distributed among these distances:
39 2 0.01
40 200 0.86
41 30 0.13
42 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGATT
Found at i:47709912 original size:80 final size:80
Alignment explanation
Indices: 47709625--47709929 Score: 362
Period size: 80 Copynumber: 3.8 Consensus size: 80
47709615 TATTCGAATG
* * * * * *
47709625 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAGGTGACTATAACCGGACTAAGA-TCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTA-GCGACTATATCCGGGCTAAAACT-CGAAGG
* * * *
47709689 CATTCGTGCGAGTTG-CT
64 CATTTGTGCTAG-CGATT
* * *
47709706 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCAATTATATTCGGGCTAAAACTCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAAACTCGAAGGCA
47709771 TTTGTGCTAGCGATT
66 TTTGTGCTAGCGATT
* * *
47709786 ATATCCGGGCTAAAACTCGAAGGCATTTGTGCTAGCGATTATATCCGGGCTAAAACTCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAAACTCGAAGGCA
47709851 TTTGTGCTAGCGATT
66 TTTGTGCTAGCGATT
* * * * * * *
47709866 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACCACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAAACTCGAAGGC
47709930 CTTGTGCAAG
Statistics
Matches: 195, Mismatches: 27, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
79 1 0.01
80 161 0.83
81 33 0.17
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAAACTCGAAGGCA
TTTGTGCTAGCGATT
Found at i:47717616 original size:40 final size:40
Alignment explanation
Indices: 47717522--47717786 Score: 252
Period size: 40 Copynumber: 6.6 Consensus size: 40
47717512 TATTCGAATG
* * *
47717522 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAGGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTA-GCGATT
* * * * * *
47717563 ATAACCGGACTAAGATCCGAAGGCATTCGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAG-CGATT
*
47717603 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGATT
* * *
47717643 ATATCTGGGCTAA-AACTCGAAGGTATTTGTGCTAGCGATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGCGATT
* *
47717683 ATATCCGGGCTAA-AACTCGAAGGCATTTATGCTAGCGATT
1 ATATCCGGGCTAAGATC-CGAAGGCATTTGTGCTAGCGATT
* * **
47717723 ATATCCGGGCTAAG-TCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTGTGCTAGCGATT
* *
47717763 ACATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
47717787 CTTGTGCAAG
Statistics
Matches: 193, Mismatches: 24, Indels: 15
0.83 0.10 0.06
Matches are distributed among these distances:
39 3 0.02
40 159 0.82
41 30 0.16
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTGTGCTAGCGATT
Found at i:47720153 original size:23 final size:24
Alignment explanation
Indices: 47720127--47720203 Score: 57
Period size: 27 Copynumber: 3.1 Consensus size: 24
47720117 TCATCAATTC
* *
47720127 CTATAAAT-GTATGCTCACATGAG
1 CTATAAATAGAATGCTCACACGAG
*
47720150 CTATGAATCAGAATGCTCACACGAG
1 CTATAAAT-AGAATGCTCACACGAG
* **
47720175 CTGTGAAAATAGGCTTGCTCACACGAG
1 CTAT--AAATA-GAATGCTCACACGAG
47720202 CT
1 CT
47720204 GTGGGTTAGA
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
23 7 0.17
25 16 0.38
26 1 0.02
27 18 0.43
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (24 bp):
CTATAAATAGAATGCTCACACGAG
Found at i:47723999 original size:39 final size:39
Alignment explanation
Indices: 47723954--47724104 Score: 208
Period size: 39 Copynumber: 4.0 Consensus size: 39
47723944 AAGCAAGACA
* *
47723954 CTGGAAATGTATCCGGGCTAAAGACCCACAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
47723993 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
47724032 CTGGAAATGTATCCAGGACT----T---GCAGGCTTCGTG
1 CTGGAAATGTATCC-GGGCTAAAGTCCCGCAGGCTTCGTG
*
47724065 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
47724104 C
1 C
47724105 CGGTAACATA
Statistics
Matches: 99, Mismatches: 5, Indels: 16
0.82 0.04 0.13
Matches are distributed among these distances:
32 4 0.04
33 26 0.26
36 2 0.02
39 63 0.64
40 4 0.04
ACGTcount: A:0.22, C:0.25, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:47730772 original size:38 final size:39
Alignment explanation
Indices: 47730690--47730842 Score: 260
Period size: 39 Copynumber: 4.0 Consensus size: 39
47730680 AAGCAAGACA
*
47730690 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
47730729 CTGGAAATGTATCCGGGCTAAAGTCCCGCA-GCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
47730767 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
47730806 CTGGAAAT-T-TCCGGGCT-AAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
47730842 C
1 C
47730843 GGTAACATAA
Statistics
Matches: 111, Mismatches: 2, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
36 19 0.17
37 8 0.07
38 39 0.35
39 45 0.41
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:47730786 original size:77 final size:75
Alignment explanation
Indices: 47730690--47730842 Score: 254
Period size: 77 Copynumber: 2.0 Consensus size: 75
47730680 AAGCAAGACA
47730690 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTGGAAATGTATCCGGGCTAAAGTCC
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTGGAAAT-T-TCCGGGCT-AAGTCC
47730755 CGCA-GCTTCGTG
63 CGCAGGCTTCGTG
*
47730767 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTGCTGGAAATTTCCGGGCTAAGTCCCGC
1 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTGGAAATTTCCGGGCTAAGTCCCGC
*
47730832 AGGCTTTGTG
66 AGGCTTCGTG
47730842 C
1 C
47730843 GGTAACATAA
Statistics
Matches: 73, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
74 10 0.14
75 16 0.22
76 1 0.01
77 46 0.63
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (75 bp):
CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTGCTGGAAATTTCCGGGCTAAGTCCCGC
AGGCTTCGTG
Found at i:47734001 original size:27 final size:27
Alignment explanation
Indices: 47733971--47734188 Score: 222
Period size: 27 Copynumber: 8.0 Consensus size: 27
47733961 ACAGTCCATC
* *
47733971 CAAATTTCACCACAAAGGCTCTTCTTT
1 CAAAGTTCACCACAAAGGCTTTTCTTT
*
47733998 CAAAGTTCGCCACAAAGGCTTTTCTTT
1 CAAAGTTCACCACAAAGGCTTTTCTTT
* *
47734025 CAAAGTTCACCATAAAGGCTCTTCTTT
1 CAAAGTTCACCACAAAGGCTTTTCTTT
*
47734052 CAGAA-TTCAGCACAAAGGCTTTTCTTT
1 CA-AAGTTCACCACAAAGGCTTTTCTTT
* * *
47734079 TAAAGTTCATCAAAAAGGCTTTTCTTT
1 CAAAGTTCACCACAAAGGCTTTTCTTT
* * * *
47734106 TAGAGTTCGCCACAAAGACTTTTCTTT
1 CAAAGTTCACCACAAAGGCTTTTCTTT
* * ** *
47734133 TAGAGTTTGCCACAAAGGTTTTTCTTT
1 CAAAGTTCACCACAAAGGCTTTTCTTT
* * *
47734160 CAGAGTTCATCGCAAAGGCTTTTTCTTT
1 CAAAGTTCACCACAAAGGC-TTTTCTTT
47734188 C
1 C
47734189 TTGACATGTT
Statistics
Matches: 162, Mismatches: 26, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
26 2 0.01
27 149 0.92
28 11 0.07
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (27 bp):
CAAAGTTCACCACAAAGGCTTTTCTTT
Found at i:47739682 original size:40 final size:40
Alignment explanation
Indices: 47739584--47739845 Score: 307
Period size: 40 Copynumber: 6.6 Consensus size: 40
47739574 TCCTCGTTCA
* * * * *
47739584 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
47739623 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
47739663 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
47739703 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
47739743 AATGCCTTC-GGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
47739782 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
47739822 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47739846 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 22, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
39 72 0.37
40 117 0.59
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:47739761 original size:119 final size:119
Alignment explanation
Indices: 47739584--47739845 Score: 314
Period size: 119 Copynumber: 2.2 Consensus size: 119
47739574 TCCTCGTTCA
* * *
47739584 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
* ** * *
47739649 TAACAACTCGCACGACTGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCAC
66 TAACAACTCGCACAAAGGCCTTC-GGATCTTAACCCGGATATAATAACTTAGCAC
* * *
47739702 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTC-GGACTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACAC-AATGCCTTCGGGACATAACCCGGA
** * * * *
47739766 TTTAGTATCTCGCACAAAGGCCTTCGGATCTTAATCCGGATATATTCACTTAGCAC
64 TTTAACAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
*
47739822 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
47739846 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
118 3 0.02
119 104 0.86
120 14 0.12
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAATAACTCACACAATGCCTTCGGGACATAACCCGGATT
TAACAACTCGCACAAAGGCCTTCGGATCTTAACCCGGATATAATAACTTAGCAC
Found at i:47739799 original size:79 final size:79
Alignment explanation
Indices: 47739584--47739845 Score: 307
Period size: 79 Copynumber: 3.3 Consensus size: 79
47739574 TCCTCGTTCA
* * * * *
47739584 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
47739649 TAACAACTCGCACG
66 TAACAACTCGCACG
* *
47739663 ACTGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGACTTAACCCGGAT
*
47739728 TTAATAACTCGCACG
65 TTAACAACTCGCACG
* * *
47739743 AATGCCTTC-GGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC-AATGCCTTCGGGA-CTTAACCCGGA
* * *
47739806 TATATTC-ACTTAGCAC-
64 TTTA-ACAAC-TCGCACG
* *
47739822 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47739846 CAGCATTCAA
Statistics
Matches: 158, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
78 3 0.02
79 91 0.58
80 64 0.41
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (79 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAATGCCTTCGGGACTTAACCCGGATT
TAACAACTCGCACG
Found at i:47747454 original size:53 final size:53
Alignment explanation
Indices: 47747327--47747577 Score: 207
Period size: 53 Copynumber: 4.8 Consensus size: 53
47747317 ACACGGGTAC
** * * *
47747327 CTTACCATTGCCATGAATTGTCATGGTATTACGTGGTATCC-T---TT-TGAAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA
* *
47747376 CTTACCATTGCCATGTCTTGACATGGTCTTACATTGTATCCTTGCCTTATGAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
* * * * *
47747429 CTCACCACTGCCATGCCTTGGCATGGTCTTACATGGGA-CTTTGCC-TATAGTAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-G-AA
* * * * * *
47747482 CTTATCAATGCCATGTCTT-ACATGGTCATACATGATTTCCTTGCCTTA-GAA
1 CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
*
47747533 CCTTACCAATTGCCATGCCTT-AGCATGGTCTTACACGGTATCCTT
1 -CTTACC-ATTGCCATGCCTTGA-CATGGTCTTACATGGTATCCTT
47747578 AAACCCTAAT
Statistics
Matches: 160, Mismatches: 30, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
49 35 0.22
50 1 0.01
51 5 0.03
52 26 0.16
53 71 0.44
54 22 0.14
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (53 bp):
CTTACCATTGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAA
Found at i:47747559 original size:106 final size:106
Alignment explanation
Indices: 47747374--47747567 Score: 277
Period size: 106 Copynumber: 1.8 Consensus size: 106
47747364 ATCCTTTTGA
* *
47747374 AACTTACCATTGCCATGTCTTGACATGGTCTTACATTGTATCCTTGCCTTATGAACTCACCACTG
1 AACTTACCAATGCCATGTCTTGACATGGTCATACATTGTATCCTTGCCTTATGAACTCACCACTG
*
47747439 CCATGCCTTGGCATGGTCTTACATGGGACTTTGCCTATAGT
66 CCATGCCTTAGCATGGTCTTACATGGGACTTTGCCTATAGT
* * *
47747480 AACTTATCAATGCCATGTCTT-ACATGGTCATACA-TGATTTCCTTGCCTTA-GAACCTTACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCATACATTG-TATCCTTGCCTTATGAA-CTCACC-A
*
47747542 TTGCCATGCCTTAGCATGGTCTTACA
63 CTGCCATGCCTTAGCATGGTCTTACA
47747568 CGGTATCCTT
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
104 5 0.06
105 29 0.37
106 44 0.56
ACGTcount: A:0.23, C:0.26, G:0.16, T:0.35
Consensus pattern (106 bp):
AACTTACCAATGCCATGTCTTGACATGGTCATACATTGTATCCTTGCCTTATGAACTCACCACTG
CCATGCCTTAGCATGGTCTTACATGGGACTTTGCCTATAGT
Found at i:47748947 original size:43 final size:43
Alignment explanation
Indices: 47748886--47748973 Score: 108
Period size: 43 Copynumber: 2.0 Consensus size: 43
47748876 ATAAATTGTA
** * *
47748886 CAATGCCAACGTCCCAGACGTGGTCTTACAT-GTAACCACATAT
1 CAATGCCAACGTCCCAGACACGGCCTTAC-TCGTAAACACATAT
47748929 CAATGCC-ACTGTCCCAGACACGGCCTTACTCGTAAACACATAT
1 CAATGCCAAC-GTCCCAGACACGGCCTTACTCGTAAACACATAT
47748972 CA
1 CA
47748974 GAATCACAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
42 3 0.08
43 36 0.92
ACGTcount: A:0.31, C:0.33, G:0.15, T:0.22
Consensus pattern (43 bp):
CAATGCCAACGTCCCAGACACGGCCTTACTCGTAAACACATAT
Found at i:47751903 original size:21 final size:21
Alignment explanation
Indices: 47751879--47751922 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
47751869 TCTTGAAACT
47751879 AACTATTATCATGATGAAGGC
1 AACTATTATCATGATGAAGGC
47751900 AACTATTATCATGATGAAGGC
1 AACTATTATCATGATGAAGGC
47751921 AA
1 AA
47751923 GTTTACCTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (21 bp):
AACTATTATCATGATGAAGGC
Found at i:47752785 original size:7 final size:7
Alignment explanation
Indices: 47752773--47752799 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
47752763 ATTTATGGGG
47752773 TTTAGGC
1 TTTAGGC
47752780 TTTAGGC
1 TTTAGGC
47752787 TTTAGGC
1 TTTAGGC
47752794 TTTAGG
1 TTTAGG
47752800 ATGCATAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.15, C:0.11, G:0.30, T:0.44
Consensus pattern (7 bp):
TTTAGGC
Found at i:47760756 original size:42 final size:42
Alignment explanation
Indices: 47760697--47760789 Score: 168
Period size: 42 Copynumber: 2.2 Consensus size: 42
47760687 GTCACCCTAT
*
47760697 CTCTAGATGTGCAACCAACCCCGCTTAATTATGACAAATTTA
1 CTCTAGATGTGAAACCAACCCCGCTTAATTATGACAAATTTA
47760739 CTCTAGATGTGAAACCAACCCCGCTTAATTATGACAAATTTA
1 CTCTAGATGTGAAACCAACCCCGCTTAATTATGACAAATTTA
47760781 CTCTTAGAT
1 CTC-TAGAT
47760790 AGGGTCTATT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
42 44 0.90
43 5 0.10
ACGTcount: A:0.33, C:0.25, G:0.12, T:0.30
Consensus pattern (42 bp):
CTCTAGATGTGAAACCAACCCCGCTTAATTATGACAAATTTA
Found at i:47761048 original size:25 final size:25
Alignment explanation
Indices: 47761017--47761067 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
47761007 AAACATAAAG
47761017 AAAAACTCAAAACTCCTGAAGGGAA
1 AAAAACTCAAAACTCCTGAAGGGAA
47761042 AAAAACTCAAAACTCCTGAAGGGAA
1 AAAAACTCAAAACTCCTGAAGGGAA
47761067 A
1 A
47761068 TTGAGCGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.53, C:0.20, G:0.16, T:0.12
Consensus pattern (25 bp):
AAAAACTCAAAACTCCTGAAGGGAA
Found at i:47770134 original size:43 final size:42
Alignment explanation
Indices: 47770075--47770189 Score: 131
Period size: 43 Copynumber: 2.7 Consensus size: 42
47770065 GGTGTGATTT
* *
47770075 CATGTAACACCATGTCTGGGACATTGGCATCGATATGAGATTA
1 CATGTAAGACCATGTCTGGGACA-TGGCATCGATATGAGATAA
* * * * *
47770118 CGTGTAAGACCCTGTCTAGGACAGAGGCATCGATATGTGATAA
1 CATGTAAGACCATGTCTGGGACA-TGGCATCGATATGAGATAA
* *
47770161 CATGTAAGACCATATCTGGGATATGGCAT
1 CATGTAAGACCATGTCTGGGACATGGCAT
47770190 TGTATGTTAT
Statistics
Matches: 58, Mismatches: 14, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
42 5 0.09
43 53 0.91
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.26
Consensus pattern (42 bp):
CATGTAAGACCATGTCTGGGACATGGCATCGATATGAGATAA
Found at i:47790574 original size:40 final size:40
Alignment explanation
Indices: 47790385--47790609 Score: 271
Period size: 40 Copynumber: 5.7 Consensus size: 40
47790375 TTGAATGATG
* * * *
47790385 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
47790425 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * * *
47790465 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATATTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
47790505 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
47790545 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-TTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
47790585 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47790610 AACGAGGAGC
Statistics
Matches: 166, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 30 0.18
40 128 0.77
41 8 0.05
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:47790628 original size:79 final size:78
Alignment explanation
Indices: 47790424--47790642 Score: 207
Period size: 80 Copynumber: 2.8 Consensus size: 78
47790414 AAGTGACCAT
* ** *
47790424 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGC
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGAACGAG-TGACTAAATCCGG-TTAA-ATCCCGAAGGC
47790486 ATTTGTGCGAGATATTA
62 ATTTGTGCGAGATATTA
** * *
47790503 ATTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 A-TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCAT
*
47790568 TTGTGCGA-TTACTATA
64 TTGTGCGAGATA-T-TA
* * *
47790584 A-CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
47790643 TACGTGATTT
Statistics
Matches: 121, Mismatches: 11, Indels: 17
0.81 0.07 0.11
Matches are distributed among these distances:
78 15 0.12
79 41 0.34
80 60 0.50
81 5 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (78 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTT
GTGCGAGATATTA
Found at i:47798207 original size:39 final size:38
Alignment explanation
Indices: 47798129--47798347 Score: 221
Period size: 40 Copynumber: 5.6 Consensus size: 38
47798119 AATGATGTCC
* *
47798129 GGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCCG
1 GGCTAAGT-CCGAAGGCATTTGTGCGAGA-T-ACTA-ATCCG
*
47798169 GACTAAGATCCGAAGGCATTTGTGCGAGATACTAATCCG
1 GGCTAAG-TCCGAAGGCATTTGTGCGAGATACTAATCCG
*
47798208 GACT-AGATCCGAAGGCATTTGTGCGAGATTACT-ATCCG
1 GGCTAAG-TCCGAAGGCATTTGTGCGAGA-TACTAATCCG
*
47798246 GGCTAAGTCCCGAAGGCATTTTGTGCGAGTTACTAAATCCG
1 GGCTAAGT-CCGAAGGCA-TTTGTGCGAGATACT-AATCCG
* * *
47798287 GGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCG
1 GGCTAAGT-CCGAAGGCATTTGTGCGAGATACTA-ATCCG
*
47798327 GGCTATGTCCGAAGGCATTTG
1 GGCTAAGTCCGAAGGCATTTG
47798348 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 9, Indels: 21
0.84 0.05 0.11
Matches are distributed among these distances:
38 33 0.21
39 42 0.26
40 52 0.32
41 32 0.20
42 1 0.01
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (38 bp):
GGCTAAGTCCGAAGGCATTTGTGCGAGATACTAATCCG
Found at i:47798221 original size:38 final size:38
Alignment explanation
Indices: 47798164--47798347 Score: 196
Period size: 39 Copynumber: 4.7 Consensus size: 38
47798154 AAGTGACCAT
*
47798164 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTA
1 ATCCGGGCT-AGATCCGAAGGCATTTGTGCGAGATACTA
*
47798203 ATCCGGACTAGATCCGAAGGCATTTGTGCGAGATTACT-
1 ATCCGGGCTAGATCCGAAGGCATTTGTGCGAGA-TACTA
*
47798241 ATCCGGGCTA-AGTCCCGAAGGCATTTTGTGCGAGTTACTAA
1 ATCCGGGCTAGA-T-CCGAAGGCA-TTTGTGCGAGATACT-A
* *
47798282 ATCCGGGTTA-AGTCCCGAAGGCATTTGTGCGAGTTACTA
1 ATCCGGGCTAGA-T-CCGAAGGCATTTGTGCGAGATACTA
*
47798321 TAACCGGGCTATG-TCCGAAGGCATTTG
1 -ATCCGGGCTA-GATCCGAAGGCATTTG
47798348 AACGAGGAGC
Statistics
Matches: 131, Mismatches: 5, Indels: 18
0.85 0.03 0.12
Matches are distributed among these distances:
37 1 0.01
38 34 0.26
39 40 0.31
40 34 0.26
41 22 0.17
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (38 bp):
ATCCGGGCTAGATCCGAAGGCATTTGTGCGAGATACTA
Found at i:47806304 original size:36 final size:37
Alignment explanation
Indices: 47806249--47806374 Score: 145
Period size: 37 Copynumber: 3.4 Consensus size: 37
47806239 TGGATGTAAC
47806249 AACCAGCA-GAATGCCTTCGGGACTTAACCCGGTATAAT
1 AACC-GCACGAATGCCTTCGGGACTTAACCCGGT-TAAT
47806287 AACC-CACGAATG-CTTCGGGACTTAACCCGG-TAAT
1 AACCGCACGAATGCCTTCGGGACTTAACCCGGTTAAT
* *
47806321 AACCCGGCATGAAAGCCTTC-GGACTTAACCCGGTTATAT
1 AA-CC-GCACGAATGCCTTCGGGACTTAACCCGGTTA-AT
47806360 AAACCGCACGAATGC
1 -AACCGCACGAATGC
47806375 TATGCACATA
Statistics
Matches: 76, Mismatches: 4, Indels: 16
0.79 0.04 0.17
Matches are distributed among these distances:
34 6 0.08
35 2 0.03
36 20 0.26
37 24 0.32
38 18 0.24
39 4 0.05
40 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.20
Consensus pattern (37 bp):
AACCGCACGAATGCCTTCGGGACTTAACCCGGTTAAT
Found at i:47815773 original size:40 final size:40
Alignment explanation
Indices: 47815724--47815858 Score: 243
Period size: 40 Copynumber: 3.4 Consensus size: 40
47815714 TGGATGTAAC
*
47815724 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
47815764 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
47815804 AACCCGCATGAAAGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
47815844 AACCCGCACGAATGC
1 AACCCGCACGAATGC
47815859 TATGCACATA
Statistics
Matches: 90, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 90 1.00
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:47830984 original size:40 final size:40
Alignment explanation
Indices: 47830812--47830974 Score: 258
Period size: 40 Copynumber: 4.1 Consensus size: 40
47830802 AACCCAAGTA
* *
47830812 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
47830851 CCTTCGGGGCTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47830891 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
47830931 CCTTCGGGACTTAGCCCGGATGTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
47830971 CCTT
1 CCTT
47830975 TGGATCTTAG
Statistics
Matches: 115, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 12 0.10
40 102 0.89
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:47832370 original size:13 final size:13
Alignment explanation
Indices: 47832352--47832377 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47832342 ATTTTTATTT
47832352 TTAACATAAAATA
1 TTAACATAAAATA
47832365 TTAACATAAAATA
1 TTAACATAAAATA
47832378 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:47833797 original size:31 final size:31
Alignment explanation
Indices: 47833732--47833797 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 31
47833722 AGGCCTCGAG
* * **
47833732 ATATGCTGGTTTTTTTTGGAGGGTAATAGTT
1 ATATGCTGGTTGTGTTTGGAGGGTAATACCT
* *
47833763 ATATGTTGGTTGTGTTTGGAGGGTGATACCT
1 ATATGCTGGTTGTGTTTGGAGGGTAATACCT
47833794 ATAT
1 ATAT
47833798 ACGAGACTCT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.20, C:0.05, G:0.30, T:0.45
Consensus pattern (31 bp):
ATATGCTGGTTGTGTTTGGAGGGTAATACCT
Found at i:47841867 original size:62 final size:59
Alignment explanation
Indices: 47841794--47841908 Score: 167
Period size: 62 Copynumber: 1.9 Consensus size: 59
47841784 TATTTTATTA
* * * *
47841794 ATTTAATATTAAATTTAATTTAATTTTTATATTATAGATAAATATTCTATTAATTTGATAAG
1 ATTTAATATTAAATTTAATCTAATATTTAT-CT-TA-ATAAATATTATATTAATTTGATAAG
47841856 ATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTT
1 ATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTT
47841909 AATATTAAAG
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
59 18 0.37
60 2 0.04
61 1 0.02
62 28 0.57
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.52
Consensus pattern (59 bp):
ATTTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTGATAAG
Found at i:47846655 original size:16 final size:16
Alignment explanation
Indices: 47846636--47846666 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47846626 CTTCTTCACT
47846636 TACTCACTTACTTAAA
1 TACTCACTTACTTAAA
*
47846652 TACTTACTTACTTAA
1 TACTCACTTACTTAA
47846667 TCAAATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.23, G:0.00, T:0.42
Consensus pattern (16 bp):
TACTCACTTACTTAAA
Found at i:47846672 original size:20 final size:20
Alignment explanation
Indices: 47846633--47846672 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
47846623 AAACTTCTTC
* *
47846633 ACTTACTCACTTACTTAAAT
1 ACTTACTCACTTAATCAAAT
*
47846653 ACTTACTTACTTAATCAAAT
1 ACTTACTCACTTAATCAAAT
47846673 TTATTAATAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.40
Consensus pattern (20 bp):
ACTTACTCACTTAATCAAAT
Found at i:47846986 original size:53 final size:54
Alignment explanation
Indices: 47846897--47847112 Score: 276
Period size: 55 Copynumber: 4.0 Consensus size: 54
47846887 TATGTGGTAT
* * *
47846897 CCTTTTGAAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
* * *
47846951 CCTTATG-AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTG
1 CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTG
* * * * *
47847004 CCTTATAGTAACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTG
1 CCTTAT-GAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
47847059 CCTTA-GAAACCTTACCAATTGCCATGCCTTGACATGGTCTTACATGGTATCCTT
1 CCTTATGAAA-CTTACCAA-TGCCATGCCTTGACATGGTCTTACATGGTATCCTT
47847113 AAACCCTAAT
Statistics
Matches: 138, Mismatches: 18, Indels: 11
0.83 0.11 0.07
Matches are distributed among these distances:
52 2 0.01
53 47 0.34
54 14 0.10
55 73 0.53
56 2 0.01
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (54 bp):
CCTTATGAAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTG
Found at i:47847049 original size:108 final size:110
Alignment explanation
Indices: 47846905--47847105 Score: 318
Period size: 108 Copynumber: 1.8 Consensus size: 110
47846895 ATCCTTTTGA
* *
47846905 AACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATG-AA-CTCACCAA
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTA-GAAACCTCACCAA
*
47846968 -TGCCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTATAGT
65 TTGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTATAGT
* * *
47847013 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTAGAAACCTTACCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
47847078 TGCCATGCCTTGACATGGTCTTACATGG
66 TGCCATGCCTTGACATGGTCTTACATGG
47847106 TATCCTTAAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
107 1 0.01
108 49 0.58
109 7 0.08
110 27 0.32
ACGTcount: A:0.23, C:0.25, G:0.17, T:0.34
Consensus pattern (110 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAGAAACCTCACCAAT
TGCCATGCCTTGACATGGTCTTACATGGGACCTTTGCCTTATAGT
Found at i:47857625 original size:35 final size:35
Alignment explanation
Indices: 47857586--47857699 Score: 126
Period size: 35 Copynumber: 3.3 Consensus size: 35
47857576 CAAGATAACT
*
47857586 TCACATATAACTGAATATACAAGTTCAATATAAGC
1 TCACATGTAACTGAATATACAAGTTCAATATAAGC
* *
47857621 TCACATGTAA-TCAA-ATACTCAAGTTCAATATAACC
1 TCACATGTAACTGAATATA--CAAGTTCAATATAAGC
* *
47857656 TCACCTGTAGGC-GAATATACAAGTTCAATATAAGC
1 TCACATGTA-ACTGAATATACAAGTTCAATATAAGC
*
47857691 TCTCATGTA
1 TCACATGTA
47857700 CTTACTTATG
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
33 3 0.05
34 3 0.05
35 54 0.83
36 2 0.03
37 3 0.05
ACGTcount: A:0.40, C:0.20, G:0.11, T:0.29
Consensus pattern (35 bp):
TCACATGTAACTGAATATACAAGTTCAATATAAGC
Found at i:47859745 original size:20 final size:22
Alignment explanation
Indices: 47859722--47859772 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
47859712 AGTTAGTAAT
47859722 AAAG-AAATG-GAAAAAAAAAG
1 AAAGAAAATGAGAAAAAAAAAG
*
47859742 AAAGAAAATGATGAAAACAAAAG
1 AAAGAAAATGA-GAAAAAAAAAG
*
47859765 AAAAAAAA
1 AAAGAAAA
47859773 ATGTGTCCAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 4 0.15
21 5 0.19
23 17 0.65
ACGTcount: A:0.76, C:0.02, G:0.16, T:0.06
Consensus pattern (22 bp):
AAAGAAAATGAGAAAAAAAAAG
Found at i:47861124 original size:39 final size:40
Alignment explanation
Indices: 47861016--47861200 Score: 173
Period size: 40 Copynumber: 4.7 Consensus size: 40
47861006 TCGAATGATG
* * * * *
47861016 TCCGGGCTAAGCCCCGAAGAC-TTTGTGCTAAGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
* *
47861055 ATCCGGACTAAGAT-CCAAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
47861096 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* * *
47861135 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAATTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
47861174 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
47861201 AACGAGTGGC
Statistics
Matches: 120, Mismatches: 19, Indels: 12
0.79 0.13 0.08
Matches are distributed among these distances:
39 35 0.29
40 76 0.63
41 9 0.08
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:47861222 original size:79 final size:79
Alignment explanation
Indices: 47861072--47861233 Score: 184
Period size: 79 Copynumber: 2.1 Consensus size: 79
47861062 CTAAGATCCA
* * ** *
47861072 AAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAATC
1 AAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATC
*
47861137 CGGGTTAAGTCCCG
66 CGGGTTAAATCCCG
* * * * *
47861151 AAGGCATTTGTGCAATTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAGTGGCTATA
1 AAGGCATTTGTGCAAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTGACTAAA
*
47861215 TCC-GGTTAAATTCCG
64 TCCGGGTTAAATCCCG
47861230 AAGG
1 AAGG
47861234 TACGTGATTC
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
78 2 0.03
79 42 0.61
80 25 0.36
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
AAGGCATTTGTGCAAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTGACTAAATC
CGGGTTAAATCCCG
Found at i:47867788 original size:23 final size:24
Alignment explanation
Indices: 47867752--47867796 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
47867742 TAAAGAAATG
*
47867752 GAAAAAAAAGAGAAAGAAAATGAT
1 GAAAAAAAAGAGAAAAAAAATGAT
*
47867776 GAAAACAAA-AGAAAAAAAATG
1 GAAAAAAAAGAGAAAAAAAATG
47867797 TGTCCATCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.07
Consensus pattern (24 bp):
GAAAAAAAAGAGAAAAAAAATGAT
Found at i:47869135 original size:39 final size:41
Alignment explanation
Indices: 47869035--47869217 Score: 213
Period size: 39 Copynumber: 4.6 Consensus size: 41
47869025 TCGAATGATG
* * *
47869035 TCCGGGCTAAGTCCC-AAGGC-TTTGTGCTAAGTGAC-CATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
*
47869074 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
*
47869114 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
*
47869153 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-TTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
47869192 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
47869218 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 11, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
38 1 0.01
39 76 0.61
40 39 0.31
41 9 0.07
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:47886730 original size:46 final size:46
Alignment explanation
Indices: 47886663--47886835 Score: 188
Period size: 46 Copynumber: 3.7 Consensus size: 46
47886653 AACCCGCCCC
* * *
47886663 TAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* ** * * *
47886709 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATCCCTAG-TTACA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA-CATTCGCATCCA
* * * *
47886755 TTTCA-CGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCA
1 --TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
47886802 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
47886836 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
45 2 0.02
46 64 0.63
47 34 0.33
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:47886781 original size:93 final size:93
Alignment explanation
Indices: 47886668--47886836 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
47886658 GCCCCTAAGT
* * *
47886668 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
47886733 CGAGTTCGGATCCCTAGTTACATTTCAC
66 CGAGTTCGGATCCCTAGTTACATTTCAC
* * *
47886761 GAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
47886826 CGAGTTCGGAT
66 CGAGTTCGGAT
47886837 GCTCAACCAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGTTCGGATCCCTAGTTACATTTCAC
Found at i:47887290 original size:30 final size:30
Alignment explanation
Indices: 47887256--47887315 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
47887246 ATTTAATATG
*
47887256 AACTTTGGGAAAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
* *
47887286 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGCAAAATTACACTTTTGCCCCTA
47887316 GGCTGGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.28, C:0.25, G:0.10, T:0.37
Consensus pattern (30 bp):
AACTTTGGCAAAATTACACTTTTGCCCCTA
Found at i:47893112 original size:60 final size:60
Alignment explanation
Indices: 47892945--47893116 Score: 165
Period size: 60 Copynumber: 2.9 Consensus size: 60
47892935 TTTTTCTAAT
* * * *
47892945 ATTATATATTTTTA-TTT-TTATAATTCATATTTTAATAATAATTATATTAAGAATGTTATTAA
1 ATTATATATTATTATTTTATTA-AATT-ATA-TTTAATAATAATAATATTAA-AATATGATTAA
* * * *
47893007 ATTATATATTA-T-TTTCATTAAATT-TAATTTCATAATGATAATATTAAATTATGATTAA
1 ATTATATATTATTATTTTATTAAATTAT-ATTTAATAATAATAATATTAAAATATGATTAA
* **
47893065 ATTATTTATTATTATTTTATTAAATTATATTTAATAATAATCCTATTAAAAT
1 ATTATATATTATTATTTTATTAAATTATATTTAATAATAATAATATTAAAAT
47893117 TTAATAACAT
Statistics
Matches: 89, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
58 18 0.20
59 19 0.21
60 31 0.35
61 8 0.09
62 13 0.15
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (60 bp):
ATTATATATTATTATTTTATTAAATTATATTTAATAATAATAATATTAAAATATGATTAA
Found at i:47916354 original size:83 final size:83
Alignment explanation
Indices: 47916249--47916417 Score: 302
Period size: 83 Copynumber: 2.0 Consensus size: 83
47916239 GTCTCTGCCT
*
47916249 GTGCGTTTACTACCATGCATTCTGACTTGCAATTTTTACATGCAGGGGACACACGGCCGATCCAC
1 GTGCGTTTACTACCATGCATTCTGACTTGCAATTTTTACATGCAGGGGACACACGGCCGAACCAC
*
47916314 TCACCCGTGGAACTAACC
66 ACACCCGTGGAACTAACC
*
47916332 GTGCGTTTACTACCATGCATTCTGACTTGCAATTTTTACATGCAGGGGACACACGGTCGAACCAC
1 GTGCGTTTACTACCATGCATTCTGACTTGCAATTTTTACATGCAGGGGACACACGGCCGAACCAC
*
47916397 ACGCCCGTGGAACTAACC
66 ACACCCGTGGAACTAACC
47916415 GTG
1 GTG
47916418 TATCTACCTG
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 82 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (83 bp):
GTGCGTTTACTACCATGCATTCTGACTTGCAATTTTTACATGCAGGGGACACACGGCCGAACCAC
ACACCCGTGGAACTAACC
Found at i:47917391 original size:48 final size:46
Alignment explanation
Indices: 47917320--47917534 Score: 213
Period size: 46 Copynumber: 4.6 Consensus size: 46
47917310 AAGCTGACGC
* *
47917320 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-T-TATATCTCGAGGCCGATG
* * * * *
47917368 CATGTCCTAGACATGTCTTACACTAGC-TATCGTCTCAATGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTAT-ATCTCGAGGCCGATG
* *
47917414 CATGTCCCAGACATATCTTACACTGGCTTAAATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTT--ATATCTCGAGGCCGATG
* * *
47917462 CATATCCCAGACATGTCTTACAC-AGGCTCATATACT--ATGGCTGATG
1 CATGTCCCAGACATGTCTTACACTA-GCTTATAT-CTCGA-GGCCGATG
*
47917508 CATGTCCCAGACATATCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
47917535 ACACATATCA
Statistics
Matches: 138, Mismatches: 21, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
45 4 0.03
46 68 0.49
47 4 0.03
48 60 0.43
49 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATATCTCGAGGCCGATG
Found at i:47917437 original size:94 final size:94
Alignment explanation
Indices: 47917320--47917534 Score: 276
Period size: 94 Copynumber: 2.3 Consensus size: 94
47917310 AAGCTGACGC
** ** * *
47917320 CATGTCCCAGACAGGTCTTACACTAGCTTGTATATCGCGAGGCCGATGCATGTCCTAGACATGTC
1 CATGTCCCAGACATATCTTACACTAGCTTAAATATCGCGAGGCCGATGCATATCCCAGACATGTC
* *
47917385 TTACACTA-GCT-ATCGT-CTCAATGTC-GATG
66 TTACAC-AGGCTCAT-ATACT--ATGGCTGATG
* *
47917414 CATGTCCCAGACATATCTTACACTGGCTTAAATATCTCGAGGCCGATGCATATCCCAGACATGTC
1 CATGTCCCAGACATATCTTACACTAGCTTAAATATCGCGAGGCCGATGCATATCCCAGACATGTC
47917479 TTACACAGGCTCATATACTATGGCTGATG
66 TTACACAGGCTCATATACTATGGCTGATG
47917508 CATGTCCCAGACATATCTTACACTAGC
1 CATGTCCCAGACATATCTTACACTAGC
47917535 ACACATATCA
Statistics
Matches: 106, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
93 5 0.05
94 97 0.92
95 4 0.04
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (94 bp):
CATGTCCCAGACATATCTTACACTAGCTTAAATATCGCGAGGCCGATGCATATCCCAGACATGTC
TTACACAGGCTCATATACTATGGCTGATG
Found at i:47920470 original size:25 final size:24
Alignment explanation
Indices: 47920441--47920494 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 24
47920431 TAGCAAAATT
47920441 AAAATTAAAAT-TAAAATATATATAA
1 AAAATTAAAATATAAAA-ATATA-AA
47920466 AAAATTAAAATATAAAAATATAAA
1 AAAATTAAAATATAAAAATATAAA
47920490 AAAAT
1 AAAAT
47920495 ATAAGTATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
24 7 0.25
25 16 0.57
26 5 0.18
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (24 bp):
AAAATTAAAATATAAAAATATAAA
Found at i:47920503 original size:24 final size:23
Alignment explanation
Indices: 47920441--47920509 Score: 68
Period size: 24 Copynumber: 2.9 Consensus size: 23
47920431 TAGCAAAATT
*
47920441 AAAATTAAAAT-TAAAATATATATA
1 AAAAATAAAATATAAAA-ATATA-A
47920465 AAAAATTAAAATATAAAAATATAA
1 AAAAA-TAAAATATAAAAATATAA
* *
47920489 AAAAATATAAGTATAAGAATA
1 AAAAATA-AAATATAAAAATA
47920510 AATTAATTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
23 2 0.05
24 21 0.54
25 11 0.28
26 5 0.13
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.28
Consensus pattern (23 bp):
AAAAATAAAATATAAAAATATAA
Found at i:47920893 original size:30 final size:30
Alignment explanation
Indices: 47920859--47920946 Score: 95
Period size: 30 Copynumber: 2.9 Consensus size: 30
47920849 ATGTGAGATC
* *
47920859 CCACACGCCCGTATGGCCAGGCCGTGTGAT
1 CCACACACCCATATGGCCAGGCCGTGTGAT
* *
47920889 CCACACACCCATGTGGCCAGGCCGTGTGCT
1 CCACACACCCATATGGCCAGGCCGTGTGAT
* ** * *
47920919 CCAAACACCTTTGTGTCCAGGCCGTGTG
1 CCACACACCCATATGGCCAGGCCGTGTG
47920947 GGTCAAAAAC
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.17, C:0.36, G:0.27, T:0.19
Consensus pattern (30 bp):
CCACACACCCATATGGCCAGGCCGTGTGAT
Found at i:47929884 original size:16 final size:16
Alignment explanation
Indices: 47929863--47929907 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
47929853 ATTACAATTG
*
47929863 TATTCCATTACAGCTT
1 TATTCCATTACAGCTC
* * *
47929879 TTTTCCATTATACCTC
1 TATTCCATTACAGCTC
47929895 TATTCCATTACAG
1 TATTCCATTACAG
47929908 TGAATCAAAC
Statistics
Matches: 22, Mismatches: 7, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.24, C:0.27, G:0.04, T:0.44
Consensus pattern (16 bp):
TATTCCATTACAGCTC
Found at i:47934877 original size:41 final size:42
Alignment explanation
Indices: 47934832--47934937 Score: 99
Period size: 43 Copynumber: 2.5 Consensus size: 42
47934822 GGCACGAAGC
* * *
47934832 CTGCTAGACTTTAAGTCTGA-ACTCA-TTCACCGGCATTTCGG
1 CTGCTAGACTTGAAGCCCGATA-TCATTTCACCGGCATTTCGG
* * *
47934873 CTGCTAGGCTTGAAGCCCGATATCATTTCACCGGCATTATAGC
1 CTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATT-TCGG
* **
47934916 CTGCTAGGCCCGAAGCCCGATA
1 CTGCTAGACTTGAAGCCCGATA
47934938 ATATTATTCA
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
41 19 0.35
42 13 0.24
43 22 0.41
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.26
Consensus pattern (42 bp):
CTGCTAGACTTGAAGCCCGATATCATTTCACCGGCATTTCGG
Found at i:47934910 original size:42 final size:43
Alignment explanation
Indices: 47934857--47934937 Score: 119
Period size: 43 Copynumber: 1.9 Consensus size: 43
47934847 TCTGAACTCA
* * **
47934857 TTCACCGGCATT-TCGGCTGCTAGGCTTGAAGCCCGATATCAT
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
47934899 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
1 TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATA
47934938 ATATTATTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
42 12 0.35
43 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.23, T:0.25
Consensus pattern (43 bp):
TTCACCGGCATTATAGCCTGCTAGGCCCGAAGCCCGATATCAT
Found at i:47936971 original size:21 final size:21
Alignment explanation
Indices: 47936946--47936988 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
47936936 GTTTAGCGAG
47936946 CCTCGCAGACCTTACAATGTA
1 CCTCGCAGACCTTACAATGTA
47936967 CCTCGCAGACCTTACAATGTA
1 CCTCGCAGACCTTACAATGTA
47936988 C
1 C
47936989 TCATAGAGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.35, G:0.14, T:0.23
Consensus pattern (21 bp):
CCTCGCAGACCTTACAATGTA
Found at i:47939497 original size:16 final size:17
Alignment explanation
Indices: 47939468--47939499 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
47939458 ATGTAACGTT
47939468 TGTTATTATGTTTTTTG
1 TGTTATTATGTTTTTTG
47939485 TGTTATT-TGTTTTTT
1 TGTTATTATGTTTTTT
47939500 CTGATTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.09, C:0.00, G:0.16, T:0.75
Consensus pattern (17 bp):
TGTTATTATGTTTTTTG
Found at i:47940061 original size:19 final size:19
Alignment explanation
Indices: 47940037--47940076 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
47940027 AAAAATTAAA
*
47940037 TTATTTGAGTTCATTGATT
1 TTATTTAAGTTCATTGATT
* *
47940056 TTATTTAAGTTGATTTATT
1 TTATTTAAGTTCATTGATT
47940075 TT
1 TT
47940077 GTAAAAAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.03, G:0.12, T:0.62
Consensus pattern (19 bp):
TTATTTAAGTTCATTGATT
Found at i:47949050 original size:22 final size:21
Alignment explanation
Indices: 47949024--47949066 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
47949014 CTCATTAACA
47949024 AATATATTCATTGTTTATAGAC
1 AATATATT-ATTGTTTATAGAC
* *
47949046 AATATGTTATTTTTTATAGAC
1 AATATATTATTGTTTATAGAC
47949067 TTCGTTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.35, C:0.07, G:0.09, T:0.49
Consensus pattern (21 bp):
AATATATTATTGTTTATAGAC
Found at i:47952933 original size:27 final size:27
Alignment explanation
Indices: 47952902--47953079 Score: 187
Period size: 27 Copynumber: 6.6 Consensus size: 27
47952892 TAAATTGTAC
*
47952902 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
47952929 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
47952955 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
47952983 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
47953010 AGCACTAAGTGTGCGAGTTTGATTACGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
47953038 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
47953065 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47953080 GACTTAATAT
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:47952963 original size:54 final size:55
Alignment explanation
Indices: 47952902--47953079 Score: 227
Period size: 54 Copynumber: 3.3 Consensus size: 55
47952892 TAAATTGTAC
* **
47952902 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
47952957 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * *
47953010 AGCACTAAGTGTGCGAGTTTGATTACGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
47953065 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47953080 GACTTAATAT
Statistics
Matches: 106, Mismatches: 14, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.57
55 45 0.42
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:47960950 original size:27 final size:27
Alignment explanation
Indices: 47960916--47961093 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
47960906 TAAATTGTAC
*
47960916 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* * *
47960943 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
47960969 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGAATTGACTATGT
* *
47960997 GGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAATTGACTATGT
* *
47961024 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGA-ATTGACTATGT
* * * *
47961052 GGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACTATGT
*
47961079 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47961094 GACTTAATAT
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAATTGACTATGT
Found at i:47960977 original size:54 final size:55
Alignment explanation
Indices: 47960916--47961093 Score: 236
Period size: 54 Copynumber: 3.3 Consensus size: 55
47960906 TAAATTGTAC
* **
47960916 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* * * *
47960971 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGACTATG-T
1 AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
* *
47961024 AGCACTAAGTGTGCGAGTTTGATTATGTGGCACTAAGTGTGCGAGTTGATTAT-AT
1 AGCACTAAGTGTGCGA-TTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
*
47961079 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
47961094 GACTTAATAT
Statistics
Matches: 107, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
53 1 0.01
54 60 0.56
55 46 0.43
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGATTTGACTATGTGGCACTAAGTGTGCGAGTTGAATATGAT
Found at i:47966930 original size:3 final size:3
Alignment explanation
Indices: 47966922--47966947 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
47966912 AATTTGGATG
47966922 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
47966948 TTGAATGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:47968821 original size:20 final size:20
Alignment explanation
Indices: 47968777--47968822 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
47968767 ACTGTTTTGT
*
47968777 TATGGG-CCAACTGTATTGA
1 TATGGGCCCAACTATATTGA
*
47968796 -AGTGGGCCCAACTATGTTGA
1 TA-TGGGCCCAACTATATTGA
47968816 TATGGGC
1 TATGGGC
47968823 AAGGCCCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
18 1 0.05
19 4 0.18
20 16 0.73
21 1 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (20 bp):
TATGGGCCCAACTATATTGA
Found at i:47968960 original size:61 final size:62
Alignment explanation
Indices: 47968812--47968986 Score: 168
Period size: 60 Copynumber: 2.9 Consensus size: 62
47968802 CCCAACTATG
* * * *
47968812 TTGATATGGGC-AAGGCCCAATATATCTC-GA-CTTGTAATAGGGCTACGGCCCAGATTGATA
1 TTGATATGGGCTAAGGCCCAGT-TAACTCTGATATTGTAATAGGGCTACGGCCCAGATTAATA
* ** * *
47968872 CTGATATGATCT-AGGCCCAG-TATACTCTGATATTGTAA-GGGGCTATGGCCCAGATTAATA
1 TTGATATGGGCTAAGGCCCAGTTA-ACTCTGATATTGTAATAGGGCTACGGCCCAGATTAATA
*
47968932 TTGATATGGGCTAAGGCCCAGTTAACTCTGAT-TTCTAAATAGGGCTTA-GGCCCAG
1 TTGATATGGGCTAAGGCCCAGTTAACTCTGATATTGT-AATAGGGC-TACGGCCCAG
47968987 TAAAGCTTGA
Statistics
Matches: 92, Mismatches: 14, Indels: 16
0.75 0.11 0.13
Matches are distributed among these distances:
58 2 0.02
59 3 0.03
60 48 0.52
61 24 0.26
62 13 0.14
63 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (62 bp):
TTGATATGGGCTAAGGCCCAGTTAACTCTGATATTGTAATAGGGCTACGGCCCAGATTAATA
Found at i:47971222 original size:48 final size:46
Alignment explanation
Indices: 47971162--47971282 Score: 145
Period size: 46 Copynumber: 2.6 Consensus size: 46
47971152 AAGCTGACGC
* * *
47971162 CATGTCCCAGACAGGTCTTACACTAGCT-TGTATATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATA-AT-GAGGCCGATG
* * * *
47971210 CATGTCCAAGACATGTCTTACACTGGCTCTCATAATGTGGTCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGCCGATG
47971256 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
47971283 ACACATATCA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
46 33 0.52
47 1 0.02
48 28 0.44
49 1 0.02
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGAGGCCGATG
Found at i:47980592 original size:17 final size:17
Alignment explanation
Indices: 47980570--47980604 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
47980560 TTTCAAAACC
47980570 ACTGTTCTGATTTATCT
1 ACTGTTCTGATTTATCT
47980587 ACTGTTCTGATTTATCT
1 ACTGTTCTGATTTATCT
47980604 A
1 A
47980605 AAACCGAGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (17 bp):
ACTGTTCTGATTTATCT
Found at i:47986471 original size:20 final size:20
Alignment explanation
Indices: 47986446--47986488 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
47986436 ATCATTATTC
47986446 TTATCCTGAATTTCAGGATT
1 TTATCCTGAATTTCAGGATT
*
47986466 TTATCCTGAATTTCAGTATT
1 TTATCCTGAATTTCAGGATT
47986486 TTA
1 TTA
47986489 ATTTAGATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.49
Consensus pattern (20 bp):
TTATCCTGAATTTCAGGATT
Found at i:47991127 original size:26 final size:26
Alignment explanation
Indices: 47991094--47991146 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
47991084 CCCATGCAAG
47991094 AAAAACTCAAGCTGCAGTGGTTTAAA
1 AAAAACTCAAGCTGCAGTGGTTTAAA
47991120 AAAAACTCAAGCTGCAGTGGTTTAAA
1 AAAAACTCAAGCTGCAGTGGTTTAAA
47991146 A
1 A
47991147 GAGTGTTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.19, T:0.23
Consensus pattern (26 bp):
AAAAACTCAAGCTGCAGTGGTTTAAA
Found at i:47994291 original size:21 final size:22
Alignment explanation
Indices: 47994262--47994308 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
47994252 CAGAAGGAGT
*
47994262 GAGTAGTACTTCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
47994284 GAGT-GTACTCCGCAGCAGGTG
1 GAGTAGTACTCCGCAGCAGGTG
47994305 GAGT
1 GAGT
47994309 TTGAGCAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.38, T:0.21
Consensus pattern (22 bp):
GAGTAGTACTCCGCAGCAGGTG
Found at i:47995751 original size:16 final size:17
Alignment explanation
Indices: 47995726--47995796 Score: 67
Period size: 16 Copynumber: 4.3 Consensus size: 17
47995716 GTTTTGCCCC
*
47995726 TTTTTGTAGGGTTGGGG
1 TTTTTGTAGGGTTAGGG
47995743 TTTTT-TAGGGTTAGGG
1 TTTTTGTAGGGTTAGGG
* *
47995759 TTTTTAGT-GGTTTAGAG
1 TTTTT-GTAGGGTTAGGG
* *
47995776 TTTTGGT-GGTTTAGGG
1 TTTTTGTAGGGTTAGGG
47995792 TTTTT
1 TTTTT
47995797 AGTGTTTTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
16 29 0.63
17 16 0.35
18 1 0.02
ACGTcount: A:0.10, C:0.00, G:0.37, T:0.54
Consensus pattern (17 bp):
TTTTTGTAGGGTTAGGG
Found at i:47995803 original size:16 final size:17
Alignment explanation
Indices: 47995744--47995800 Score: 75
Period size: 16 Copynumber: 3.5 Consensus size: 17
47995734 GGGTTGGGGT
47995744 TTTTTAG-GG-TTAGGG
1 TTTTTAGTGGTTTAGGG
*
47995759 TTTTTAGTGGTTTAGAG
1 TTTTTAGTGGTTTAGGG
*
47995776 -TTTTGGTGGTTTAGGG
1 TTTTTAGTGGTTTAGGG
47995792 TTTTTAGTG
1 TTTTTAGTG
47995801 TTTTTTAAGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
15 7 0.20
16 16 0.46
17 12 0.34
ACGTcount: A:0.12, C:0.00, G:0.35, T:0.53
Consensus pattern (17 bp):
TTTTTAGTGGTTTAGGG
Found at i:47995953 original size:16 final size:14
Alignment explanation
Indices: 47995923--47995956 Score: 50
Period size: 16 Copynumber: 2.3 Consensus size: 14
47995913 TTTCTAATTA
47995923 TTTTACGGTTAGGG
1 TTTTACGGTTAGGG
47995937 TTTTACTGGTGTAGGG
1 TTTTAC-GGT-TAGGG
47995953 TTTT
1 TTTT
47995957 TAGTATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 6 0.33
15 3 0.17
16 9 0.50
ACGTcount: A:0.12, C:0.06, G:0.32, T:0.50
Consensus pattern (14 bp):
TTTTACGGTTAGGG
Found at i:47996096 original size:17 final size:16
Alignment explanation
Indices: 47996076--47996128 Score: 79
Period size: 17 Copynumber: 3.2 Consensus size: 16
47996066 GGTTTAAGGT
47996076 TTTAGGGTTTTTAGTAG
1 TTTAGGGTTTTTAGT-G
47996093 TTTAGGGTTTTTAGTGG
1 TTTAGGGTTTTTAGT-G
*
47996110 TTTAGGATTTTTAGTG
1 TTTAGGGTTTTTAGTG
47996126 TTT
1 TTT
47996129 TTAAGGGAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
16 4 0.12
17 30 0.88
ACGTcount: A:0.15, C:0.00, G:0.28, T:0.57
Consensus pattern (16 bp):
TTTAGGGTTTTTAGTG
Found at i:47996231 original size:161 final size:161
Alignment explanation
Indices: 47995753--47996232 Score: 618
Period size: 161 Copynumber: 3.0 Consensus size: 161
47995743 TTTTTTAGGG
* * *
47995753 TTAGGGTTTTTAGTGGTTTAGAGTTTTGGTGGTTTAGGGTTTTTAGTGTTTTTTAAGGGAAAAAT
1 TTAGGGTTTTTAGTAGTTTAGGGTTTTAGTGGTTTAGGGTTTTTAGTG-TTTTTAAGGGAAAAAT
*
47995818 TAATGAAAACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGACAATAAAAAAATTAATTAA
65 TAAT-AAAACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAATTAATTAA
* * *
47995883 ATTAGGGTTTAGGGTTTTTTAAGG-TTAGGGTT
129 ATTAGGGTTTAGTGTTTTTTAGGGTTTAAGGTT
* * * * * *
47995915 TCTA--ATTATTT--TACGGTTAGGGTTTTACTGGTGTAGGGTTTTTAGTATTTTTTAAGAGAAA
1 T-TAGGGTT-TTTAGTA-GTTTAGGGTTTTAGTGGTTTAGGGTTTTTAGT-GTTTTTAAGGGAAA
* *
47995976 AATTAATAAACACTTAGAGTTGAGGGTTAATTAATTAAATTAATTATGAAAATAAGAAAAAATCA
62 AATTAATAAA-ACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAAT-A-AAAAAATTA
*
47996041 ATTAAATTAGGGTTTAGTAG---TTCAGGGTTTAAGGTT
124 ATTAAATTAGGGTTTAGT-GTTTTTTAGGGTTTAAGGTT
*
47996077 TTAGGGTTTTTAGTAGTTTAGGGTTTTTAGTGGTTTAGGATTTTTAGTGTTTTTAAGGGAAAAAT
1 TTAGGGTTTTTAGTAGTTTAGGG-TTTTAGTGGTTTAGGGTTTTTAGTGTTTTTAAGGGAAAAAT
** *
47996142 TAATTTAA-TTAGATTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAATTAATTAAA
65 TAATAAAACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAATTAATTAAA
47996206 TTAGGGTTTAGTGTTTTTTAGGGTTTA
130 TTAGGGTTTAGTGTTTTTTAGGGTTTA
47996233 TTAATTAAAT
Statistics
Matches: 272, Mismatches: 29, Indels: 35
0.81 0.09 0.10
Matches are distributed among these distances:
158 1 0.00
159 26 0.10
160 5 0.02
161 143 0.53
162 17 0.06
163 56 0.21
164 24 0.09
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.42
Consensus pattern (161 bp):
TTAGGGTTTTTAGTAGTTTAGGGTTTTAGTGGTTTAGGGTTTTTAGTGTTTTTAAGGGAAAAATT
AATAAAACTTAGAGTTGAGGGTTAATTAATTAAATTAACTATGAAAATAAAAAAATTAATTAAAT
TAGGGTTTAGTGTTTTTTAGGGTTTAAGGTT
Found at i:47996640 original size:126 final size:126
Alignment explanation
Indices: 47996251--47996939 Score: 1015
Period size: 126 Copynumber: 5.5 Consensus size: 126
47996241 ATTAACTATT
* * *
47996251 AATTAC-GAAATAAAGCTCCCACGTGGACTCTCTTTTGCTACAGTAGTATCTGAAAAAATAAATT
1 AATTACGGAAA-AAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTT
* * *
47996315 TGAGAAGATGTTTCTGAACAAATAGTGTAAAAAACTCTTCAAGAAGGATGCACTGTCAGCAA
65 TGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAA
* * * * *
47996377 AATAACAGAAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATTTGAAAAAATAAATT
1 AATTAC-GGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTT
* * *
47996442 TAAAAAGATGTTTCTGAACAAATAGTGTCAAAAAACGCTTCAAGAAGGATGCACTTTTAGCAA
65 TGAGAAGATGTTTCTGAACAAATAGTGTC-AAAAACGCTTCAAGAAGGATGCACTTTCAGCAA
* *
47996505 AATTACGGAAAAAAGCTCCCATGTGGACGCTCTTTTGCTACAGTGGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* *
47996570 GAGAAGCTATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAA
* * *
47996631 AATTACGGAAAAAGGCTCCCACGTGGACGTTCTTTTGCTACAGTGGTATCTGATAAAATAATTTT
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
* * * * *
47996696 GAGAAGATGTTTCTTAACAAATAGTGTCAAGAACGCTTCAAAAAGGATGTACTTTTAGCAA
66 GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAA
* * *
47996757 AATTACGGAAATAAA-CTCTCACGTGGACGCTCTTTTGCTACAGTGGTATCTGATAATATAATTT
1 AATTACGGAAA-AAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTT
*
47996821 TGAGAAAATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAA
65 TGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAA
* * * *
47996883 AATTACGGAAAAAATCTCCCACGTGGACGCTATGTTGCTACAGTAATATCTGA-AAAA
1 AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAA
47996940 GCCTTAGACT
Statistics
Matches: 510, Mismatches: 48, Indels: 11
0.90 0.08 0.02
Matches are distributed among these distances:
125 6 0.01
126 310 0.61
127 156 0.31
128 38 0.07
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.28
Consensus pattern (126 bp):
AATTACGGAAAAAAGCTCCCACGTGGACGCTCTTTTGCTACAGTAGTATCTGATAAAATAATTTT
GAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGAAGGATGCACTTTCAGCAA
Found at i:48001393 original size:45 final size:44
Alignment explanation
Indices: 48001344--48001434 Score: 103
Period size: 45 Copynumber: 2.0 Consensus size: 44
48001334 AGGATTTTTG
* * *
48001344 ATATGT-GTTCTCATGTAAGACCAAATTTGGGACATTGGCATCGAT
1 ATATGTGGTTATC-TGTAAGACCAAATCTGGGACATCGGCATC-AT
* **
48001389 ATATGTGGTTATCTGTAATACCATGTCTGGGACATCGGCATCAT
1 ATATGTGGTTATCTGTAAGACCAAATCTGGGACATCGGCATCAT
48001433 AT
1 AT
48001435 TAGATTCGTG
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
44 4 0.10
45 30 0.77
46 5 0.13
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (44 bp):
ATATGTGGTTATCTGTAAGACCAAATCTGGGACATCGGCATCAT
Found at i:48001459 original size:41 final size:43
Alignment explanation
Indices: 48001402--48001513 Score: 124
Period size: 41 Copynumber: 2.7 Consensus size: 43
48001392 TGTGGTTATC
* * * *
48001402 TGTAATACCATGTCTGGGACA-TCGGCATC-ATATTAGAT-TCG
1 TGTAAGACCATGTCTGGGACAGT-GGCATCGATATGAGATAGCA
*
48001443 TGTAAGACCTTGTCTGGGACAGTGGCATCGATATGAGATAGCA
1 TGTAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAGCA
*
48001486 TGTAAGACCACGTCTGGGAC-GTTGGCAT
1 TGTAAGACCATGTCTGGGACAG-TGGCAT
48001514 TGTTCGATAT
Statistics
Matches: 60, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
41 25 0.42
42 10 0.17
43 25 0.42
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAGTGGCATCGATATGAGATAGCA
Found at i:48006465 original size:34 final size:33
Alignment explanation
Indices: 48006370--48006466 Score: 133
Period size: 33 Copynumber: 2.9 Consensus size: 33
48006360 GTATGCATTT
48006370 CTGATACTGTACTGAATTGGGCTAAGGCCCACA
1 CTGATACTGTACTGAATTGGGCTAAGGCCCACA
*
48006403 CTGATACTGCTACT-TATTGGGCTAAGGCCCACA
1 CTGATACTG-TACTGAATTGGGCTAAGGCCCACA
* * *
48006436 CTGATATTGTGACTGAAATGGGCTTAGGCCC
1 CTGATACTGT-ACTGAATTGGGCTAAGGCCC
48006467 GGACTGTTCA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
32 1 0.02
33 38 0.68
34 17 0.30
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (33 bp):
CTGATACTGTACTGAATTGGGCTAAGGCCCACA
Found at i:48009407 original size:7 final size:7
Alignment explanation
Indices: 48009395--48009434 Score: 80
Period size: 7 Copynumber: 5.7 Consensus size: 7
48009385 AAAACTGATG
48009395 ATAATGT
1 ATAATGT
48009402 ATAATGT
1 ATAATGT
48009409 ATAATGT
1 ATAATGT
48009416 ATAATGT
1 ATAATGT
48009423 ATAATGT
1 ATAATGT
48009430 ATAAT
1 ATAAT
48009435 AAATAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (7 bp):
ATAATGT
Found at i:48009440 original size:21 final size:21
Alignment explanation
Indices: 48009395--48009446 Score: 77
Period size: 21 Copynumber: 2.5 Consensus size: 21
48009385 AAAACTGATG
**
48009395 ATAATGTATAATGTATAATGT
1 ATAATGTATAATGTATAATAA
48009416 ATAATGTATAATGTATAATAA
1 ATAATGTATAATGTATAATAA
*
48009437 ATAATATATA
1 ATAATGTATA
48009447 TATGCTTCAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (21 bp):
ATAATGTATAATGTATAATAA
Found at i:48012296 original size:50 final size:50
Alignment explanation
Indices: 48012134--48012358 Score: 260
Period size: 49 Copynumber: 4.5 Consensus size: 50
48012124 CTGGTATGCA
* * *
48012134 TAGTAGCCTGCACATAGTACTACACATGCGA-CTAATTAT-TCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCT-GGTACACG
* * *
48012183 TAGTAGCCTGCATTTAGTACTACACACGTGACC-AATTATCCGGTACACT
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGGTACACG
** *
48012232 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGGTACACG
* * * * * *
48012282 TAGTAGCCTGCACTTAGTACTACACACATGATCAC-AGTTTTCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CTAATTATCTGGTACACG
48012333 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
48012359 TGCGACCTCA
Statistics
Matches: 150, Mismatches: 21, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
49 72 0.48
50 42 0.28
51 35 0.23
52 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCTAATTATCTGGTACACG
Found at i:48012304 original size:99 final size:100
Alignment explanation
Indices: 48012132--48012364 Score: 301
Period size: 99 Copynumber: 2.3 Consensus size: 100
48012122 ATCTGGTATG
* * ** * *
48012132 CATAGTAGCCTGCACATAGTACTACACATGCGACTAATTATTCGGTACACGTAGTAGCCTGCATT
1 CATAGTAGCCTGCACTTAGTACTACACACGCGACTAACCATTCGATACACGTAGTAGCCTGCACT
*
48012197 TAGTACTACACACGTGA-C-CAATTATCCGGTACA
66 TAGTACTACACACATGATCACAATTATCCGGTACA
* *
48012230 CTTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACTTAGTACTACACACGCGA-CTAACCATTC-GATACACGTAGTAGCCTGCA
* * * *
48012294 CTTAGTACTACACACATGATCACAGTTTTCGGGTACG
64 CTTAGTACTACACACATGATCACAATTATCCGGTACA
*
48012331 CATAGTAGCCTGCACTTAGTACTACACATGCGAC
1 CATAGTAGCCTGCACTTAGTACTACACACGCGAC
48012365 CTCACAATAG
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
98 31 0.27
99 41 0.36
100 2 0.02
101 41 0.36
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (100 bp):
CATAGTAGCCTGCACTTAGTACTACACACGCGACTAACCATTCGATACACGTAGTAGCCTGCACT
TAGTACTACACACATGATCACAATTATCCGGTACA
Found at i:48012366 original size:101 final size:99
Alignment explanation
Indices: 48012121--48012366 Score: 316
Period size: 101 Copynumber: 2.5 Consensus size: 99
48012111 TAGCCAAAGC
* * * ** *
48012121 TATCTGGTATGCATAGTAGCCTGCACATAGTACTACACATGCGA-CTAATTATTCGGTACACGTA
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATTCGATACACGTA
* *
48012185 GTAGCCTGCATTTAGTACTACACACGTGACCAAT
66 GTAGCCTGCACTTAGTACTACACACATGACCAAT
* * * *
48012219 TATCCGGTACACTTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCA-TCTGATACACGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATTC-GATACACGT
*
48012283 AGTAGCCTGCACTTAGTACTACACACATGATCACAGT
65 AGTAGCCTGCACTTAGTACTACACACATGA-C-CAAT
* *
48012320 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCT
48012367 CACAATAGAT
Statistics
Matches: 125, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
98 39 0.31
99 41 0.33
100 1 0.01
101 44 0.35
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.27
Consensus pattern (99 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATTCGATACACGTA
GTAGCCTGCACTTAGTACTACACACATGACCAAT
Found at i:48016727 original size:47 final size:46
Alignment explanation
Indices: 48016444--48016748 Score: 167
Period size: 47 Copynumber: 6.6 Consensus size: 46
48016434 TTGTCGATGC
* * * *
48016444 CATGTCCCAGACATGGTCTTACATTGGCTCTCATATATGCGTGCTGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTCATA-ATGTG-GCCGAAG
** * * *** * *
48016493 CATGTCCCAGACATGTCTTACACCAGCAC-AACGCT-TAGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCGAAG
** * * *
48016537 TGTGTCCCAGACACGTCTTACACTGGCTATCTC-T-GTCGTGGCC-AATT
1 CATGTCCCAGACATGTCTTACACTGGC--TCTCATAAT-GTGGCCGAA-G
* * * * * **
48016584 CATATCCCAAACATGTCTTACTCTGGCAC-CATAATATGGTTGAAG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCGAAG
* * * * *
48016629 CATGTCCCAGACATGTCTTACACTAGCCCTCAT-CTG-GATGTCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTG--GCCGAAG
48016675 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGAAG
1 -CATGTCCCAGACAT-GTCTTACACTGGCTCTCATAATGTGGCCGAAG
* *
48016723 CATGTCTCAGACATGTTTTACACTGG
1 CATGTCCCAGACATGTCTTACACTGG
48016749 TGCACAAATC
Statistics
Matches: 189, Mismatches: 51, Indels: 35
0.69 0.19 0.13
Matches are distributed among these distances:
44 30 0.16
45 31 0.16
46 25 0.13
47 53 0.28
48 33 0.17
49 16 0.08
50 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCCGAAG
Found at i:48024130 original size:47 final size:47
Alignment explanation
Indices: 48023979--48024286 Score: 210
Period size: 47 Copynumber: 6.6 Consensus size: 47
48023969 TTGCAGATGC
** * *
48023979 CATGTCCCAGACATGGTCTTACACTTTC-TCTCATATATGCGTGCTAATG
1 CATGTCCCAGACAT-GTCTTACACTGGCATCTCATA-ATGAG-GCCAATG
* * * **
48024028 CATGTCCCAAACATGTCTTACACTAGCACAACTC-T--T-A-GCTGATG
1 CATGTCCCAGACATGTCTTACACT-G-GCATCTCATAATGAGGCCAATG
* * **
48024072 CGTGTCCCAGACACGTCTTACACTGGCTATCTC-TGTTGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGGC-ATCTCATAATGAGGCCAATG
* * *
48024119 CATGTCCCAGACATGTCTTACTCTGGCA-CTCATAAT-ATGGCTAAAG
1 CATGTCCCAGACATGTCTTACACTGGCATCTCATAATGA-GGCCAATG
* * * * * *
48024165 CATGTCCCAGACATGTCTTACACTAGC-CCTCGT-CTGGATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCATCTCATAAT-GAGGCCAATG
*
48024211 CCATGTCCCAGACATGGTCTTACACTGGC-TCTCATAATGTGGCCGAA-G
1 -CATGTCCCAGACAT-GTCTTACACTGGCATCTCATAATGAGGCC-AATG
*
48024259 TATGTCCCAGACATGTCTTACACTGGCA
1 CATGTCCCAGACATGTCTTACACTGGCA
48024287 CACAAATCAT
Statistics
Matches: 205, Mismatches: 36, Indels: 38
0.73 0.13 0.14
Matches are distributed among these distances:
42 1 0.00
43 6 0.03
44 27 0.13
45 6 0.03
46 56 0.27
47 58 0.28
48 31 0.15
49 15 0.07
50 2 0.01
51 3 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTGGCATCTCATAATGAGGCCAATG
Found at i:48024264 original size:140 final size:137
Alignment explanation
Indices: 48023979--48024287 Score: 340
Period size: 140 Copynumber: 2.2 Consensus size: 137
48023969 TTGCAGATGC
** * *
48023979 CATGTCCCAGACATGGTCTTACACTTTCTCTCATATATGCGTGCTAATGCATGTCCCAAACATGT
1 CATGTCCCAGACAT-GTCTTACACTGGCACTCATATAT-CGTGCTAAAGCATGTCCCAAACATGT
* * * **
48024044 CTTACACTAGCACAACTCTTAGCTGATGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTT
64 CTTACACTAGCACAACTCTGAGCCGATGCATGTCCCAGACACGTCTTACACTGGC-ATCTCTAAT
48024109 GAGGCCAATG
128 GAGGCCAATG
* *
48024119 CATGTCCCAGACATGTCTTACTCTGGCACTCATAATAT-G-GCTAAAGCATGTCCCAGACATGTC
1 CATGTCCCAGACATGTCTTACACTGGCACTCAT-ATATCGTGCTAAAGCATGTCCCAAACATGTC
** *
48024182 TTACACTAGC-CCTCGTCTGGATGCCGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCA
65 TTACACTAGCACAAC-TCT-GA-GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCATCTC-
*
48024245 TAATGTGGCCGAA-G
124 TAATGAGGCC-AATG
*
48024259 TATGTCCCAGACATGTCTTACACTGGCAC
1 CATGTCCCAGACATGTCTTACACTGGCAC
48024288 ACAAATCATC
Statistics
Matches: 144, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
136 2 0.01
137 35 0.24
138 2 0.01
139 25 0.17
140 65 0.45
141 15 0.10
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (137 bp):
CATGTCCCAGACATGTCTTACACTGGCACTCATATATCGTGCTAAAGCATGTCCCAAACATGTCT
TACACTAGCACAACTCTGAGCCGATGCATGTCCCAGACACGTCTTACACTGGCATCTCTAATGAG
GCCAATG
Found at i:48024270 original size:94 final size:92
Alignment explanation
Indices: 48024074--48024282 Score: 267
Period size: 94 Copynumber: 2.2 Consensus size: 92
48024064 AGCTGATGCG
* * *
48024074 TGTCCCAGACACGTCTTACACTGGCTATCTCTGTTGAGGCCAATGCATGTCCCAGACATGTCTTA
1 TGTCCCAGACATGTCTTACACTAGCCATCTCTG-TGAGGCCAATGCATGTCCCAGACATGTCTTA
* *
48024139 CTCTGGCACTCATAATATGGCTAAAGCA
65 CACTGGCACTCATAATATGGCCAAAGCA
* * *
48024167 TGTCCCAGACATGTCTTACACTAGCCCTCGTCTG-GATGCCGATGCCATGTCCCAGACATGGTCT
1 TGTCCCAGACATGTCTTACACTAGCCATC-TCTGTGAGGCCAATG-CATGTCCCAGACAT-GTCT
* * * *
48024231 TACACTGGCTCTCATAATGTGGCCGAAGTA
63 TACACTGGCACTCATAATATGGCCAAAGCA
48024261 TGTCCCAGACATGTCTTACACT
1 TGTCCCAGACATGTCTTACACT
48024283 GGCACACAAA
Statistics
Matches: 101, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
92 8 0.08
93 39 0.39
94 54 0.53
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
TGTCCCAGACATGTCTTACACTAGCCATCTCTGTGAGGCCAATGCATGTCCCAGACATGTCTTAC
ACTGGCACTCATAATATGGCCAAAGCA
Found at i:48029192 original size:46 final size:45
Alignment explanation
Indices: 48029057--48029278 Score: 154
Period size: 46 Copynumber: 4.8 Consensus size: 45
48029047 GTTATTGTGG
48029057 GCTAGTGTAAGACATGT-TCGGGACATGCATCGGCTACATT-ATGA-GA-
1 GCTAGTGTAAGACATGTCT-GGGACATGCATCGGC--C-TTGA-GACGAT
* * * * *
48029103 GCCTA-TGTAAGATGATGTTTGGGACATGGCATCAGCATCGAGACGAGT
1 G-CTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGACGA-T
* *
48029151 GCTAGTGTAAGACATGTCTGGGAGATGCATCGGCCTTGAGACGTAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACG-AT
* *
48029197 GCCAGTGTAAGACATGTCTGGGACATGCA-CTGG-CTATGAGATGAT
1 GCTAGTGTAAGACATGTCTGGGACATGCATC-GGCCT-TGAGACGAT
*
48029242 AG-TCAGTGTAAGACCATGTCTGGGATATGGCATCGGC
1 -GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
48029279 ACCCTACTCC
Statistics
Matches: 141, Mismatches: 17, Indels: 33
0.74 0.09 0.17
Matches are distributed among these distances:
45 7 0.05
46 70 0.50
47 42 0.30
48 21 0.15
49 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGACGAT
Found at i:48031373 original size:36 final size:36
Alignment explanation
Indices: 48031332--48031400 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 36
48031322 TTATATTGTG
*
48031332 AACCATGTGAACTTGGTGAATTATATTATTATGGAC
1 AACCATGTGAACTTGGTGAATTATATTAATATGGAC
* * * *
48031368 AACCATGTTAATTTGGTGATTTGTATTAATATG
1 AACCATGTGAACTTGGTGAATTATATTAATATG
48031401 ACGAACTGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 28 1.00
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.41
Consensus pattern (36 bp):
AACCATGTGAACTTGGTGAATTATATTAATATGGAC
Found at i:48032090 original size:17 final size:17
Alignment explanation
Indices: 48032053--48032134 Score: 74
Period size: 17 Copynumber: 4.8 Consensus size: 17
48032043 ATGACGAAGA
* *
48032053 ATGAACTGTTATTTTGC
1 ATGAACTGTTATTTGGT
*
48032070 ATGAACTGTTATTTGTT
1 ATGAACTGTTATTTGGT
** * *
48032087 ATGAACTACTAATTGGA
1 ATGAACTGTTATTTGGT
* *
48032104 ATGAACTATCATTTGGT
1 ATGAACTGTTATTTGGT
*
48032121 ATGAATTGTTATTT
1 ATGAACTGTTATTT
48032135 CATATGAACA
Statistics
Matches: 50, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 50 1.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (17 bp):
ATGAACTGTTATTTGGT
Found at i:48032091 original size:34 final size:34
Alignment explanation
Indices: 48032053--48032134 Score: 83
Period size: 34 Copynumber: 2.4 Consensus size: 34
48032043 ATGACGAAGA
* * * * *
48032053 ATGAACTGTTATTTTGCATGAACTGTTATTTGTT
1 ATGAACTGTTATTTGGAATGAACTATCATTTGGT
** *
48032087 ATGAACTACTAATTGGAATGAACTATCATTTGGT
1 ATGAACTGTTATTTGGAATGAACTATCATTTGGT
*
48032121 ATGAATTGTTATTT
1 ATGAACTGTTATTT
48032135 CATATGAACA
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.29, C:0.09, G:0.17, T:0.45
Consensus pattern (34 bp):
ATGAACTGTTATTTGGAATGAACTATCATTTGGT
Found at i:48034780 original size:46 final size:46
Alignment explanation
Indices: 48034666--48034888 Score: 207
Period size: 46 Copynumber: 4.7 Consensus size: 46
48034656 CACACAACAA
* * *
48034666 GCTGATGCCATGTCCCAGAAAGGTCTTACACTAGCT-TGTATACCTCGA-
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTCT-TAT--CTCAAT
* * * **
48034714 GGTCGATGCATGTCCTAGACATGTTTTACACTAGCTCTCGTCTCAAT
1 GCT-GATGCATGTCCCAGACATGTCTTACACTAGCTCTTATCTCAAT
* * * * *
48034761 GCTGATGCATGTCCCAGACATGTGTTACACTGGCTTGTATATCTCGAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC-TCT-TATCTCAAT
*
48034809 GCTGATACATGTCCCAGACATGTCTTACACTAGCTCTTATCTCAAT
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATCTCAAT
* * * *
48034855 GCCGATGCATGTCCTAAACATGTCTTACGCTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
48034889 ACACATATCA
Statistics
Matches: 142, Mismatches: 28, Indels: 12
0.78 0.15 0.07
Matches are distributed among these distances:
46 68 0.48
47 6 0.04
48 63 0.44
49 5 0.04
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTTATCTCAAT
Found at i:48034789 original size:94 final size:94
Alignment explanation
Indices: 48034666--48034888 Score: 295
Period size: 94 Copynumber: 2.4 Consensus size: 94
48034656 CACACAACAA
* * * *
48034666 GCTGATGCCATGTCCCAGAAAGGTCTTACACTAGCTTGTATACCTCGAGG-TCGATGCATGTCCT
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTTGTATACCTCGAGGCT-GATACATGTCCC
* *
48034730 AGACATGTTTTACACTAGCTCTCGTCTCAAT
64 AGACATGTCTTACACTAGCTCTCATCTCAAT
* * *
48034761 GCTGATGCATGTCCCAGACATGTGTTACACTGGCTTGTATATCTCGAGGCTGATACATGTCCCAG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATACCTCGAGGCTGATACATGTCCCAG
*
48034826 ACATGTCTTACACTAGCTCTTATCTCAAT
66 ACATGTCTTACACTAGCTCTCATCTCAAT
* * * *
48034855 GCCGATGCATGTCCTAAACATGTCTTACGCTAGC
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGC
48034889 ACACATATCA
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
94 103 0.93
95 8 0.07
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.30
Consensus pattern (94 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTTGTATACCTCGAGGCTGATACATGTCCCAG
ACATGTCTTACACTAGCTCTCATCTCAAT
Found at i:48035574 original size:20 final size:18
Alignment explanation
Indices: 48035537--48035579 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
48035527 CTATAGCAAC
48035537 TCACAATTT-CAATTATT
1 TCACAATTTACAATTATT
48035554 TCACACATTTACAACTTATT
1 TCACA-ATTTACAA-TTATT
*
48035574 TTACAA
1 TCACAA
48035580 ACTTTACAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.23
18 4 0.18
19 4 0.18
20 9 0.41
ACGTcount: A:0.37, C:0.21, G:0.00, T:0.42
Consensus pattern (18 bp):
TCACAATTTACAATTATT
Found at i:48046067 original size:40 final size:40
Alignment explanation
Indices: 48046005--48046180 Score: 236
Period size: 40 Copynumber: 4.5 Consensus size: 40
48045995 AAGCCAAGTA
* * *
48046005 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
48046044 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
48046084 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
48046124 CCTT--GGACTTAGCCCGGA-ACTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
48046162 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48046181 TTATCATCCA
Statistics
Matches: 123, Mismatches: 9, Indels: 9
0.87 0.06 0.06
Matches are distributed among these distances:
37 1 0.01
38 34 0.28
39 12 0.10
40 76 0.62
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:48046174 original size:78 final size:79
Alignment explanation
Indices: 48046005--48046180 Score: 234
Period size: 78 Copynumber: 2.2 Consensus size: 79
48045995 AAGCCAAGTA
* * *
48046005 CCTTCGGGATTTA-ACCGGATATAGCTACTCGCTCAAATGCCTTCGGGACATAGCCCGGATATAG
1 CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTC-GGACATAGCCCGGATATAG
* *
48046069 TAACTCGCACCAATG
65 TAACTAGCACAAATG
*
48046084 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATGCCTT-GGACTTAGCCCGGA-ACTA
1 CCTTCGGGACTTAGCCCGGATATAGCT-ACTCGCACAAATGCCTTCGGACATAGCCCGGATA-TA
*
48046146 GTCACTAGCACAAATG
64 GTAACTAGCACAAATG
48046162 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
48046181 TTATCATCCA
Statistics
Matches: 87, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
77 1 0.01
78 47 0.54
79 13 0.15
80 26 0.30
ACGTcount: A:0.26, C:0.29, G:0.23, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGCTACTCGCACAAATGCCTTCGGACATAGCCCGGATATAGT
AACTAGCACAAATG
Done.