Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 250 of 310
Found at i:82509642 original size:56 final size:56
Alignment explanation
Indices: 82509556--82509705 Score: 237
Period size: 56 Copynumber: 2.7 Consensus size: 56
82509546 ATGTATATGA
* * * *
82509556 GGCATCGATATGTGATTTCGATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
1 GGCATCAATATGTGACTCCAATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
*
82509612 GGCATCAATATGTGACTCTAATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
1 GGCATCAATATGTGACTCCAATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
* *
82509668 GGCATCGATATGTGACTCCGATATATGTGTGCGAGTAA
1 GGCATCAATATGTGACTCCAATATATGTGTGCGAGTAA
82509706 TGATACGGCC
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 86 1.00
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (56 bp):
GGCATCAATATGTGACTCCAATATATGTGTGCGAGTAAGACCACGTTTTATACGTT
Found at i:82509939 original size:20 final size:20
Alignment explanation
Indices: 82509916--82509973 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
82509906 TAGCTCGTCC
* *
82509916 AGCTCACAACCAGCTCAGCA
1 AGCTCACATCCAGCTCAACA
**
82509936 AGCTCAGTTCCAGCTCAACA
1 AGCTCACATCCAGCTCAACA
*
82509956 AGTTCACATCCAGCTCAA
1 AGCTCACATCCAGCTCAA
82509974 TTCCAGCTCA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.33, C:0.36, G:0.14, T:0.17
Consensus pattern (20 bp):
AGCTCACATCCAGCTCAACA
Found at i:82511607 original size:11 final size:11
Alignment explanation
Indices: 82511591--82511620 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
82511581 TATATATACA
*
82511591 AAAAAAAATTT
1 AAAAAAAATTC
82511602 AAAAAAAATTC
1 AAAAAAAATTC
82511613 AAAAAAAA
1 AAAAAAAA
82511621 AGGTTCATGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.80, C:0.03, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAAAAATTC
Found at i:82520169 original size:30 final size:30
Alignment explanation
Indices: 82520074--82520170 Score: 74
Period size: 30 Copynumber: 3.2 Consensus size: 30
82520064 AGCTCACTCC
*
82520074 TAGCTC-ACTTTCAACTCACGAGCTAAA-CTT
1 TAGCTCAACTTT-AGCTCACGAGCTAAAGC-T
* *** **
82520104 TAGCTCAACTTCAGCTTTGGAG-TTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAG-CT
*
82520134 CAGCTCAACTTTAGCTCACGAGCTAAAGCT
1 TAGCTCAACTTTAGCTCACGAGCTAAAGCT
82520164 TAGCTCA
1 TAGCTCA
82520171 TTTTAGTTTA
Statistics
Matches: 48, Mismatches: 15, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
29 2 0.04
30 38 0.79
31 8 0.17
ACGTcount: A:0.27, C:0.28, G:0.15, T:0.30
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAAGCT
Found at i:82524122 original size:46 final size:45
Alignment explanation
Indices: 82524048--82524222 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
82524038 GTAACCCGCC
* * *
82524048 CATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* * *
82524093 CCATGAGTGAACTCGGACTCAACTCAACGAGTTCGAATGCCTAGTT-ACAT
1 -CATAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC--GTTCGCAT
* * *
82524143 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATT
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCA-T
82524187 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
82524223 TGCCCAAACA
Statistics
Matches: 108, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 4 0.04
45 2 0.02
46 60 0.56
47 27 0.25
48 2 0.02
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:82524213 original size:93 final size:93
Alignment explanation
Indices: 82524054--82524226 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
82524044 CGCCCATAAG
* * *
82524054 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
82524119 ACGAGTTCGAATGCCTAGTTACATCTCA
66 ACGAGTTCGAATGCCTAGTTACATCTCA
* *
82524147 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATTCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
82524212 ACGAGTTCGGATGCC
66 ACGAGTTCGAATGCC
82524227 CAAACATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGAATGCCTAGTTACATCTCA
Found at i:82526291 original size:13 final size:13
Alignment explanation
Indices: 82526273--82526301 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
82526263 CGGCTAACCT
82526273 ACATAATTAAATA
1 ACATAATTAAATA
82526286 ACATAATTAAATA
1 ACATAATTAAATA
82526299 ACA
1 ACA
82526302 CACAACTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.10, G:0.00, T:0.28
Consensus pattern (13 bp):
ACATAATTAAATA
Found at i:82526337 original size:19 final size:19
Alignment explanation
Indices: 82526315--82526384 Score: 79
Period size: 19 Copynumber: 3.5 Consensus size: 19
82526305 AACTATTCAT
82526315 ATAATTATAATTTAAAATA
1 ATAATTATAATTTAAAATA
*
82526334 ATAACTAAATAATTTAAAAGTA
1 ATAA-T-TATAATTTAAAA-TA
*
82526356 ATAATTA-AATTTAGACATA
1 ATAATTATAATTTA-AAATA
82526375 ATAATTATAA
1 ATAATTATAA
82526385 GTCAAATTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
19 19 0.44
20 6 0.14
21 12 0.28
22 6 0.14
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (19 bp):
ATAATTATAATTTAAAATA
Found at i:82526345 original size:21 final size:22
Alignment explanation
Indices: 82526321--82526365 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
82526311 TCATATAATT
82526321 ATAATTTAAAA-TAATAACTAA
1 ATAATTTAAAAGTAATAACTAA
*
82526342 ATAATTTAAAAGTAATAATTAA
1 ATAATTTAAAAGTAATAACTAA
82526364 AT
1 AT
82526366 TTAGACATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
ATAATTTAAAAGTAATAACTAA
Found at i:82526534 original size:10 final size:10
Alignment explanation
Indices: 82526521--82526556 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
82526511 TAAGCTCGGT
82526521 TGAGCTCAAA
1 TGAGCTCAAA
*
82526531 TGAGCTGAAA
1 TGAGCTCAAA
*
82526541 CGAGCTCAAA
1 TGAGCTCAAA
82526551 TGAGCT
1 TGAGCT
82526557 GAGTTGAGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.36, C:0.19, G:0.25, T:0.19
Consensus pattern (10 bp):
TGAGCTCAAA
Found at i:82526565 original size:20 final size:20
Alignment explanation
Indices: 82526519--82526566 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
82526509 AGTAAGCTCG
82526519 GTTGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
***
82526539 AACGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAATGAGCTGA
82526559 GTTGAGCT
1 GTTGAGCT
82526567 GGACGGAGCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAATGAGCTGA
Found at i:82529199 original size:80 final size:80
Alignment explanation
Indices: 82529089--82529239 Score: 275
Period size: 80 Copynumber: 1.9 Consensus size: 80
82529079 AGAATAGTCG
82529089 AACCCTAAAACCCTTTTATTTTGTTTTTCTTTTCTTTTGTATTCGGCAAGAACAATATGAATATC
1 AACCCTAAAACCCTTTTATTTTGTTTTTCTTTTCTTTTGTATTCGGCAAGAACAATATGAATATC
82529154 TAATGGGAATAGCTA
66 TAATGGGAATAGCTA
* * *
82529169 AACCCTAAAATCCTTTTATTTTTTTTTTCTTTTCTTTTTTATTCGGCAAGAACAATATGAATATC
1 AACCCTAAAACCCTTTTATTTTGTTTTTCTTTTCTTTTGTATTCGGCAAGAACAATATGAATATC
82529234 TAATGG
66 TAATGG
82529240 CTTTATTATT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 68 1.00
ACGTcount: A:0.29, C:0.16, G:0.11, T:0.44
Consensus pattern (80 bp):
AACCCTAAAACCCTTTTATTTTGTTTTTCTTTTCTTTTGTATTCGGCAAGAACAATATGAATATC
TAATGGGAATAGCTA
Found at i:82531024 original size:29 final size:29
Alignment explanation
Indices: 82530958--82531014 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
82530948 GATTCAAAGA
*
82530958 TGGGTTTATGGATATGAAGTTTATGTAGT
1 TGGGTTTATGGATATAAAGTTTATGTAGT
*
82530987 TGGGTTTATGGATATAAAGTTTTTGTAG
1 TGGGTTTATGGATATAAAGTTTATGTAG
82531015 GTTTGGTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.46
Consensus pattern (29 bp):
TGGGTTTATGGATATAAAGTTTATGTAGT
Found at i:82536187 original size:16 final size:16
Alignment explanation
Indices: 82536166--82536202 Score: 74
Period size: 16 Copynumber: 2.3 Consensus size: 16
82536156 ATGAATCGCT
82536166 ATTATCAATCCACATG
1 ATTATCAATCCACATG
82536182 ATTATCAATCCACATG
1 ATTATCAATCCACATG
82536198 ATTAT
1 ATTAT
82536203 ATTTTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.38, C:0.22, G:0.05, T:0.35
Consensus pattern (16 bp):
ATTATCAATCCACATG
Found at i:82536744 original size:25 final size:25
Alignment explanation
Indices: 82536700--82536749 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
82536690 ATGAAAACCA
* *
82536700 AATTTACATATACAATCATATTATAT
1 AATTTACATAAACAAACATA-TATAT
82536726 AATTTA-ATAAACAAACATATATAT
1 AATTTACATAAACAAACATATATAT
82536750 TTTCAATACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 11 0.50
26 6 0.27
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (25 bp):
AATTTACATAAACAAACATATATAT
Found at i:82548678 original size:28 final size:28
Alignment explanation
Indices: 82548644--82548753 Score: 148
Period size: 28 Copynumber: 3.9 Consensus size: 28
82548634 GTTCCTTTTT
82548644 AGAGATAGCCACAAAGGCTTCCTTTAAC
1 AGAGATAGCCACAAAGGCTTCCTTTAAC
* *
82548672 AGAGATAGGCACAAAGGCTTCTTTTAAC
1 AGAGATAGCCACAAAGGCTTCCTTTAAC
* * *
82548700 TGAGATCGCCACAAAGGCTTCCTTTAAT
1 AGAGATAGCCACAAAGGCTTCCTTTAAC
* * *
82548728 TGAGATTGCCACAAATGCTTCCTTTA
1 AGAGATAGCCACAAAGGCTTCCTTTA
82548754 CTAGTGTTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (28 bp):
AGAGATAGCCACAAAGGCTTCCTTTAAC
Found at i:82551703 original size:34 final size:34
Alignment explanation
Indices: 82551665--82551730 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
82551655 GACAGAAAGC
82551665 TCCATCAATATTGGGAAGATTATTCTTAAAGAAG
1 TCCATCAATATTGGGAAGATTATTCTTAAAGAAG
82551699 TCCATCAATATTGGGAAGATTATTCTTAAAGA
1 TCCATCAATATTGGGAAGATTATTCTTAAAGA
82551731 GATCTATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (34 bp):
TCCATCAATATTGGGAAGATTATTCTTAAAGAAG
Found at i:82552424 original size:17 final size:17
Alignment explanation
Indices: 82552402--82552444 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
82552392 AGGGGAGAAA
*
82552402 TTATTTTTCTTTA-GTTT
1 TTATTTTT-TTTAGGTGT
82552419 TTATTTCTTTTTAGGTGT
1 TTATTT-TTTTTAGGTGT
82552437 TTATTTTT
1 TTATTTTT
82552445 ATGTCTTAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 12 0.52
18 11 0.48
ACGTcount: A:0.12, C:0.05, G:0.09, T:0.74
Consensus pattern (17 bp):
TTATTTTTTTTAGGTGT
Found at i:82554424 original size:22 final size:23
Alignment explanation
Indices: 82554389--82554439 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
82554379 TTATCTTGAG
*
82554389 TAATTAATAAGTG-AATTTTACT
1 TAATTAATAAGTGAAATTATACT
* * *
82554411 TAATTAGTATGTGAAATTATGCT
1 TAATTAATAAGTGAAATTATACT
82554434 TAATTA
1 TAATTA
82554440 CATGATTTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.39, C:0.04, G:0.12, T:0.45
Consensus pattern (23 bp):
TAATTAATAAGTGAAATTATACT
Found at i:82572877 original size:13 final size:13
Alignment explanation
Indices: 82572855--82572887 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
82572845 AAGGATTTGT
82572855 TTAT-TAAACTAA
1 TTATCTAAACTAA
82572867 TTATCTAAACTAA
1 TTATCTAAACTAA
*
82572880 TTAACTAA
1 TTATCTAA
82572888 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:82575822 original size:6 final size:5
Alignment explanation
Indices: 82575776--82575865 Score: 55
Period size: 5 Copynumber: 17.8 Consensus size: 5
82575766 TATGTCTTTC
* * *
82575776 AAAAT AAAAT --AAT AAAATT GAAAT GAAAAT AAAA- AGAA- AAACT AAAAAT
1 AAAAT AAAAT AAAAT AAAA-T AAAAT -AAAAT AAAAT AAAAT AAAAT -AAAAT
*
82575825 AAAAAT AAAAT AAAAC AAAAT AAAAAT AAGAAT -AAAT AAAA
1 -AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAA
82575866 AAAGGAGGAT
Statistics
Matches: 68, Mismatches: 8, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
3 3 0.04
4 8 0.12
5 31 0.46
6 26 0.38
ACGTcount: A:0.77, C:0.02, G:0.04, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:82575822 original size:7 final size:6
Alignment explanation
Indices: 82575796--82575860 Score: 64
Period size: 6 Copynumber: 11.2 Consensus size: 6
82575786 AATAAAATTG
* * *
82575796 AAATGA AAATAA AAAGAA AAACTAA AAATAA AAAT-A AAAT-A AAA-CA
1 AAATAA AAATAA AAATAA AAA-TAA AAATAA AAATAA AAATAA AAATAA
*
82575842 AAATAA AAATAA GAATAA A
1 AAATAA AAATAA AAATAA A
82575861 TAAAAAAAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
5 13 0.26
6 32 0.64
7 5 0.10
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:82575823 original size:13 final size:12
Alignment explanation
Indices: 82575801--82575834 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
82575791 AATTGAAATG
82575801 AAAATAAAAAGA
1 AAAATAAAAAGA
*
82575813 AAAACTAAAAATA
1 AAAA-TAAAAAGA
82575826 AAAATAAAA
1 AAAATAAAA
82575835 TAAAACAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 9 0.45
13 11 0.55
ACGTcount: A:0.82, C:0.03, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAATAAAAAGA
Found at i:82575846 original size:21 final size:22
Alignment explanation
Indices: 82575820--82575860 Score: 75
Period size: 21 Copynumber: 1.9 Consensus size: 22
82575810 AGAAAAACTA
82575820 AAAATAAAAATAA-AATAAAAC
1 AAAATAAAAATAAGAATAAAAC
82575841 AAAATAAAAATAAGAATAAA
1 AAAATAAAAATAAGAATAAA
82575861 TAAAAAAAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.15
Consensus pattern (22 bp):
AAAATAAAAATAAGAATAAAAC
Found at i:82575850 original size:16 final size:16
Alignment explanation
Indices: 82575825--82575866 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 16
82575815 AACTAAAAAT
82575825 AAAAAT-AAAATAA-A
1 AAAAATAAAAATAAGA
82575839 ACAAAATAAAAATAAGA
1 A-AAAATAAAAATAAGA
*
82575856 ATAAATAAAAA
1 AAAAATAAAAA
82575867 AAGGAGGATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
14 1 0.04
15 5 0.21
16 16 0.67
17 2 0.08
ACGTcount: A:0.81, C:0.02, G:0.02, T:0.14
Consensus pattern (16 bp):
AAAAATAAAAATAAGA
Found at i:82578740 original size:24 final size:26
Alignment explanation
Indices: 82578708--82578759 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 26
82578698 AGAGGTTTTG
*
82578708 ACTGAGTCG-CA-TGCTTGAAGTGTT
1 ACTGAGTCGTCACTGCATGAAGTGTT
*
82578732 ACTGCGTCGTCACCTGCATGAAGTGTT
1 ACTGAGTCGTCA-CTGCATGAAGTGTT
82578759 A
1 A
82578760 GCTCTCCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 8 0.35
25 2 0.09
27 13 0.57
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (26 bp):
ACTGAGTCGTCACTGCATGAAGTGTT
Found at i:82583023 original size:38 final size:38
Alignment explanation
Indices: 82582960--82583032 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
82582950 GATGAATCCG
*
82582960 GCTTCTGAGATGGATCAATAAGCTTT-CTTGGAGTAATT
1 GCTTCTGAGATGCATCAATAAGCTTTCCTT-GAGTAATT
**
82582998 GCTTCTGAGATGCATCAATCGGCTTTCCTTGAGTA
1 GCTTCTGAGATGCATCAATAAGCTTTCCTTGAGTA
82583033 GTTCCCTACT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
38 28 0.90
39 3 0.10
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (38 bp):
GCTTCTGAGATGCATCAATAAGCTTTCCTTGAGTAATT
Found at i:82584169 original size:15 final size:15
Alignment explanation
Indices: 82584149--82584178 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
82584139 CTCCTTCCTT
*
82584149 CTTGCATCCACATAC
1 CTTGCACCCACATAC
82584164 CTTGCACCCACATAC
1 CTTGCACCCACATAC
82584179 TTCCCTTGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.43, G:0.07, T:0.23
Consensus pattern (15 bp):
CTTGCACCCACATAC
Found at i:82586277 original size:29 final size:27
Alignment explanation
Indices: 82586191--82586281 Score: 83
Period size: 29 Copynumber: 3.2 Consensus size: 27
82586181 TACATACATG
*
82586191 CATATGGCCCACTAGGCCCAATCTTATT
1 CATATGGCCCAC-AGGCCCAATTTTATT
* * * *
82586219 CAAATGGCCCATCTGGCCCAGTTCATATT
1 CATATGGCCCA-CAGGCCCAATT-TTATT
*
82586248 CTTATGGCCCACGAGGCCCAATTTTCATT
1 CATATGGCCCAC-AGGCCCAATTTT-ATT
82586277 CATAT
1 CATAT
82586282 ATACCATTAG
Statistics
Matches: 48, Mismatches: 11, Indels: 7
0.73 0.17 0.11
Matches are distributed among these distances:
28 19 0.40
29 29 0.60
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.30
Consensus pattern (27 bp):
CATATGGCCCACAGGCCCAATTTTATT
Found at i:82586401 original size:18 final size:19
Alignment explanation
Indices: 82586378--82586414 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
82586368 TGGGCCCAAC
82586378 AGCCCATC-AGGCCCATTT
1 AGCCCATCTAGGCCCATTT
*
82586396 AGCCCATCTCGGCCCATTT
1 AGCCCATCTAGGCCCATTT
82586415 GGCCAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.24
Consensus pattern (19 bp):
AGCCCATCTAGGCCCATTT
Found at i:82586537 original size:8 final size:8
Alignment explanation
Indices: 82586521--82586562 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
82586511 GTAGCCCAAC
*
82586521 TTTCAGCT
1 TTTCGGCT
82586529 TTTCGGCT
1 TTTCGGCT
82586537 TTTCGGCT
1 TTTCGGCT
82586545 TTT-GGCAT
1 TTTCGGC-T
82586553 TTT-GGCT
1 TTTCGGCT
82586560 TTT
1 TTT
82586563 GCCAATCCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
7 7 0.22
8 25 0.78
ACGTcount: A:0.05, C:0.19, G:0.21, T:0.55
Consensus pattern (8 bp):
TTTCGGCT
Found at i:82600429 original size:44 final size:43
Alignment explanation
Indices: 82600359--82600516 Score: 122
Period size: 43 Copynumber: 3.7 Consensus size: 43
82600349 TCTATTTCGC
* ** * * *
82600359 GTGTAAGACCACGTCTAAGACGTTGGCATCGACT-TCTGTTTTAT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGA-TATATGATTT-T
* *
82600403 GTGTAAGACCATGTCTGGGACATTGGCTTTG-TATATGATTTT
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTT
* * * * * **
82600445 GTGTAAGACCCTATCTGGGACAGTGGCATCGATATTTAATTAC
1 GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTT
* * *
82600488 ATGTAAGACCACGTCTGGGACGTTGGCAT
1 GTGTAAGACCATGTCTGGGACATTGGCAT
82600517 TATATTTACT
Statistics
Matches: 89, Mismatches: 23, Indels: 5
0.76 0.20 0.04
Matches are distributed among these distances:
42 28 0.31
43 36 0.40
44 25 0.28
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATTGGCATCGATATATGATTTT
Found at i:82604297 original size:32 final size:32
Alignment explanation
Indices: 82604261--82604324 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
82604251 AGTCAACAAG
82604261 GCATTCCTGATGACACTTTGAAGATGCAATTA
1 GCATTCCTGATGACACTTTGAAGATGCAATTA
**
82604293 GCATTCCTGATGATGCTTTGAAGATGCAATTA
1 GCATTCCTGATGACACTTTGAAGATGCAATTA
82604325 TGTCCTTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (32 bp):
GCATTCCTGATGACACTTTGAAGATGCAATTA
Found at i:82611747 original size:27 final size:27
Alignment explanation
Indices: 82611713--82611911 Score: 229
Period size: 27 Copynumber: 7.4 Consensus size: 27
82611703 TCCCAAAATA
* *
82611713 GGTAAAATGACCGCAATACCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
82611740 GGTAAAAT-ACCCGTAATGCCCCTATAG
1 GGTAAAATGA-CCGTAATGCCCCTATAG
* * *
82611767 GGTAAAATGACAGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * ** *
82611794 GGTAAAATGACGGTGATGCAACTATTG
1 GGTAAAATGACCGTAATGCCCCTATAG
* *
82611821 GTTAAAATGACCGTAATGTCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTATAG
*
82611848 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTATAG
* * * *
82611875 AGTAAAATGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATGCCCCTATAG
82611902 GGTAAAATGA
1 GGTAAAATGA
82611912 TGATTATGAC
Statistics
Matches: 144, Mismatches: 26, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
26 1 0.01
27 142 0.99
28 1 0.01
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTATAG
Found at i:82611906 original size:108 final size:108
Alignment explanation
Indices: 82611715--82611911 Score: 315
Period size: 108 Copynumber: 1.8 Consensus size: 108
82611705 CCAAAATAGG
*
82611715 TAAAATGACCGCAATACCCCTATAGGGTAAAATACCCGTAATGCCCCTATAGGGTAAAATGACAG
1 TAAAATGACCGCAATACCCCTATAGGGTAAAATACCCGTAATGCCCCTATAGAGTAAAATGACAG
82611780 TAATACCCCTGTAGGGTAAAATGACGGTGATGCAACTATTGGT
66 TAATACCCCTGTAGGGTAAAATGACGGTGATGCAACTATTGGT
* ** * *
82611823 TAAAATGACCGTAATGTCCCTATAGGGTAAAATGA-CCGTAATGCCCCTGTAGAGTAAAATGACC
1 TAAAATGACCGCAATACCCCTATAGGGTAAAAT-ACCCGTAATGCCCCTATAGAGTAAAATGACA
*
82611887 GTAATACCCCTGTATGGTAAAATGA
65 GTAATACCCCTGTAGGGTAAAATGA
82611912 TGATTATGAC
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
108 80 0.99
109 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.24
Consensus pattern (108 bp):
TAAAATGACCGCAATACCCCTATAGGGTAAAATACCCGTAATGCCCCTATAGAGTAAAATGACAG
TAATACCCCTGTAGGGTAAAATGACGGTGATGCAACTATTGGT
Found at i:82611908 original size:81 final size:82
Alignment explanation
Indices: 82611714--82611911 Score: 258
Period size: 81 Copynumber: 2.4 Consensus size: 82
82611704 CCCAAAATAG
* *
82611714 GTAAAATGACCGCAATACCCCTATAGGGTAAAAT-ACCCGTAATGCCCCTATAGGGTAAAATGAC
1 GTAAAATGACCGTAATACCCCTATATGGTAAAATGACCCGTAATGCCCCTATAGGGTAAAATGAC
*
82611778 AGTAATACCCCTGTAGG
66 AGTAATACCCCTGTAGA
* * * ** *
82611795 GTAAAATGACGGTGATGCAACTAT-TGGTTAAAATGA-CCGTAATGTCCCTATAGGGTAAAATGA
1 GTAAAATGACCGTAATACCCCTATATGG-TAAAATGACCCGTAATGCCCCTATAGGGTAAAATGA
* *
82611858 CCGTAATGCCCCTGTAGA
65 CAGTAATACCCCTGTAGA
*
82611876 GTAAAATGACCGTAATACCCCTGTATGGTAAAATGA
1 GTAAAATGACCGTAATACCCCTATATGGTAAAATGA
82611912 TGATTATGAC
Statistics
Matches: 97, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
80 2 0.02
81 91 0.94
82 4 0.04
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (82 bp):
GTAAAATGACCGTAATACCCCTATATGGTAAAATGACCCGTAATGCCCCTATAGGGTAAAATGAC
AGTAATACCCCTGTAGA
Found at i:82613190 original size:16 final size:17
Alignment explanation
Indices: 82613153--82613191 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
82613143 AGTCTGAGTT
82613153 AACTGAGACTGTAGGAA
1 AACTGAGACTGTAGGAA
*
82613170 AACTGAGTCTGT-GGAA
1 AACTGAGACTGTAGGAA
*
82613186 GACTGA
1 AACTGA
82613192 AAACTATAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.36, C:0.13, G:0.31, T:0.21
Consensus pattern (17 bp):
AACTGAGACTGTAGGAA
Found at i:82615908 original size:27 final size:27
Alignment explanation
Indices: 82615878--82616103 Score: 317
Period size: 27 Copynumber: 8.4 Consensus size: 27
82615868 CCCTAAAATA
* *
82615878 GGTAAAATGACTGTAATATCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* * *
82615905 GGTAAAATAACCGTAATTCCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
82615932 GGTAAAATGACTGTAATACCACTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
82615959 GGTAAAATGACCGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
82615986 GGTAAAATGATCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
*
82616013 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
82616040 AGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
82616067 AGTAAAATGACCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
82616094 GGTAAAATGA
1 GGTAAAATGA
82616104 TTATTATGCC
Statistics
Matches: 176, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 176 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:82619034 original size:17 final size:17
Alignment explanation
Indices: 82619012--82619044 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
82619002 GTTAGTGAAC
*
82619012 ATTGTCGTTGCATTTTT
1 ATTGTCATTGCATTTTT
82619029 ATTGTCATTGCATTTT
1 ATTGTCATTGCATTTT
82619045 AATTTTAGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.58
Consensus pattern (17 bp):
ATTGTCATTGCATTTTT
Found at i:82625917 original size:26 final size:26
Alignment explanation
Indices: 82625888--82625943 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
82625878 TGATACAAAT
82625888 TGATAATGGGTTAGGTAAATCTTCCA
1 TGATAATGGGTTAGGTAAATCTTCCA
*
82625914 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATCTTCCA
82625940 TGAT
1 TGAT
82625944 GGGAATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.09, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATCTTCCA
Found at i:82631975 original size:21 final size:21
Alignment explanation
Indices: 82631941--82631980 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
82631931 AATGGTCATG
*
82631941 GATGATTTAAGAGTGACTTAA
1 GATGATTTAAGAGTCACTTAA
**
82631962 GATGATTTTTGAGTCACTT
1 GATGATTTAAGAGTCACTT
82631981 GTGTTTAGTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (21 bp):
GATGATTTAAGAGTCACTTAA
Found at i:82632257 original size:16 final size:16
Alignment explanation
Indices: 82632236--82632272 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
82632226 CGGAAAATCT
*
82632236 CGAAATGCTGAAAAGC
1 CGAAATGCCGAAAAGC
82632252 CGAAATGCCGAAAAGC
1 CGAAATGCCGAAAAGC
82632268 CGAAA
1 CGAAA
82632273 GTTTGGCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.46, C:0.22, G:0.24, T:0.08
Consensus pattern (16 bp):
CGAAATGCCGAAAAGC
Found at i:82642540 original size:34 final size:33
Alignment explanation
Indices: 82642470--82642626 Score: 113
Period size: 33 Copynumber: 4.8 Consensus size: 33
82642460 GATGACCTTT
* * * *
82642470 CCTTTTCTAGTTGTACACTCAAGGTGCACAGT-C
1 CCTTTTCAAGTGGTACACACAAAGTGCACA-TAC
* *
82642503 CCTTTTTCAAGTGGTACACACGAAGTGTACATAC
1 CC-TTTTCAAGTGGTACACACAAAGTGCACATAC
* * * *
82642537 CCTTTCCAATTTGTACACACAAAGTGCACATAA
1 CCTTTTCAAGTGGTACACACAAAGTGCACATAC
* * * * **
82642570 CCTTTTCAAGT-GTACTCATATAGTGTATC-TTT
1 CCTTTTCAAGTGGTACACACAAAGTGCA-CATAC
*
82642602 CCTTTTCAAGTGGTATACACAAAGT
1 CCTTTTCAAGTGGTACACACAAAGT
82642627 ATACCGTAAC
Statistics
Matches: 96, Mismatches: 24, Indels: 8
0.75 0.19 0.06
Matches are distributed among these distances:
32 24 0.25
33 47 0.49
34 25 0.26
ACGTcount: A:0.28, C:0.24, G:0.15, T:0.34
Consensus pattern (33 bp):
CCTTTTCAAGTGGTACACACAAAGTGCACATAC
Found at i:82646813 original size:40 final size:40
Alignment explanation
Indices: 82646753--82646971 Score: 336
Period size: 40 Copynumber: 5.5 Consensus size: 40
82646743 TTCGGATGAC
*
82646753 ATCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
82646793 ATCCGGGCTAAGTCCCGAAGGCA-TTGTGCTAGTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
* * * *
82646832 ATCCGGGCTAAGCCCCGAAGGAATTTGTGCTATTGAATAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
82646872 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
*
82646912 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTAT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACTAT
*
82646952 ATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGG
82646972 TACTTGGGTT
Statistics
Matches: 166, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
39 52 0.31
40 112 0.67
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAT
Found at i:82646884 original size:79 final size:80
Alignment explanation
Indices: 82646753--82646971 Score: 336
Period size: 79 Copynumber: 2.8 Consensus size: 80
82646743 TTCGGATGAC
* *
82646753 ATCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA-T
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATT
82646817 TGTGCTAGTGACTAT
66 TGTGCTAGTGACTAT
* * *
82646832 ATCCGGGCTAAGCCCCGAAGGAATTTGTGCTATTGAATATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATT
*
82646897 TGTGCTATTGACTAT
66 TGTGCTAGTGACTAT
* *
82646912 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTA-TTGACTATATCCGGGCTAAGTCCCGAAGG
82646972 TACTTGGGTT
Statistics
Matches: 127, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 73 0.57
80 51 0.40
81 3 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (80 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATT
TGTGCTAGTGACTAT
Found at i:82646968 original size:119 final size:119
Alignment explanation
Indices: 82646753--82646971 Score: 361
Period size: 119 Copynumber: 1.8 Consensus size: 119
82646743 TTCGGATGAC
*
82646753 ATCCGGGCTAAGTCCTGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
* *
82646818 GTGCTAGTGACTATATCCGGGCTAAGCCCCGAAGGAATTTGTGCTATTGAATAT
66 GTGCGAGTGACTATATCCGGGCTAAACCCCGAAGGAATTTGTGCTATTGAATAT
*
82646872 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGACTATATCCGGGCTAAGTCCCGAAGGCATT
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCA-T
*
82646937 TGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAGG
65 TGTGCGAG-TGACTATATCCGGGCTAAACCCCGAAGG
82646972 TACTTGGGTT
Statistics
Matches: 93, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
119 75 0.81
120 16 0.17
121 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.27
Consensus pattern (119 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATT
GTGCGAGTGACTATATCCGGGCTAAACCCCGAAGGAATTTGTGCTATTGAATAT
Found at i:82658639 original size:21 final size:22
Alignment explanation
Indices: 82658613--82658658 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
82658603 GCACCAATCA
*
82658613 CATACTCAT-AGAATAATCAAG
1 CATACTCATAAGAATAATAAAG
*
82658634 CATACTCATAATAATAATAAAG
1 CATACTCATAAGAATAATAAAG
82658656 CAT
1 CAT
82658659 TAACATTCAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (22 bp):
CATACTCATAAGAATAATAAAG
Found at i:82665743 original size:42 final size:43
Alignment explanation
Indices: 82665696--82665813 Score: 114
Period size: 43 Copynumber: 2.8 Consensus size: 43
82665686 TGTGGTATCA
* * **
82665696 TGTAAGACCATGTTTGGGACATTGGCATCGTATTTGATTTC-G
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATTTAATGACAG
* * * *
82665738 TGTAAGACCCTATCTAGGACAATGGCATCGATATTTAATGACAG
1 TGTAAGACCATGTCTGGGACATTGGCATCG-TATTTAATGACAG
* * *
82665782 T-TAAGACCACGTCTGGGACGTTGGCATTGTAT
1 TGTAAGACCATGTCTGGGACATTGGCATCGTAT
82665814 GAGCTTTCTG
Statistics
Matches: 59, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
42 28 0.47
43 29 0.49
44 2 0.03
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATTTAATGACAG
Found at i:82669850 original size:40 final size:40
Alignment explanation
Indices: 82669795--82669963 Score: 284
Period size: 40 Copynumber: 4.2 Consensus size: 40
82669785 TATGTGCACA
*
82669795 GCATTCGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
82669835 GCATTCATGCGGGTTATTATAACCGGGCTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
*
82669875 GCATTCGTGCGGGTTATTATAACCGGGATAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
82669915 GCATTCGTGCGAGTTATTATTACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
82669955 GCATTCGTG
1 GCATTCGTG
82669964 TTGGTTGTTA
Statistics
Matches: 121, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 121 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:82669993 original size:80 final size:80
Alignment explanation
Indices: 82669795--82669993 Score: 218
Period size: 80 Copynumber: 2.5 Consensus size: 80
82669785 TATGTGCACA
* * * ** * *
82669795 GCATTCGTGTGGGTTATTATAACCGGGTTAAGTCCCGAAGGCATTCATGCGGGTTATTATAACCG
1 GCATTCGTGCGGGTTATTACAACCGAGACAAATCCCGAAGGCATTCATGCGAGTTATTATAACCG
82669860 GGCTAAGTCCCGAAG
66 GGCTAAGTCCCGAAG
* * * * * *
82669875 GCATTCGTGCGGGTTATTATAACCGGGATAAGTCCCGAAGGCATTCGTGCGAGTTATTATTACCG
1 GCATTCGTGCGGGTTATTACAACCGAGACAAATCCCGAAGGCATTCATGCGAGTTATTATAACCG
*
82669940 GGTTAAGTCCCGAAG
66 GGCTAAGTCCCGAAG
** * * * *
82669955 GCATTCGTGTTGGTTGTTACATCCGAGCCAAATTCCGAA
1 GCATTCGTGCGGGTTATTACAACCGAGACAAATCCCGAA
82669994 AGTATTTATA
Statistics
Matches: 103, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
80 103 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
GCATTCGTGCGGGTTATTACAACCGAGACAAATCCCGAAGGCATTCATGCGAGTTATTATAACCG
GGCTAAGTCCCGAAG
Found at i:82674888 original size:93 final size:93
Alignment explanation
Indices: 82674729--82674900 Score: 238
Period size: 93 Copynumber: 1.8 Consensus size: 93
82674719 GGATGGTTGA
* * * *
82674729 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTAGGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCAGGGATACAAACGTCCGAACTCGTTCAGT
82674794 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
82674822 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATACGAACG-CCTGAGCTCGTTCAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCAGGGATACAAACGTCC-GAACTCGTTCAG
* *
82674886 TTGATTTCGAGTTCG
65 TTGAGTCCGAGTTCG
82674901 CTTATGGGCG
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCAGGGATACAAACGTCCGAACTCGTTCAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:82678133 original size:36 final size:36
Alignment explanation
Indices: 82678086--82678159 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
82678076 GTGATTTTTG
* *
82678086 TTGTTTAATGGTGAAATATGAAATACATGTTTTAGA
1 TTGTTTAATGGTGAAATAGGAAAGACATGTTTTAGA
82678122 TTGTTTAATGGTGAAATAGGAAAGACATGTTTTAGA
1 TTGTTTAATGGTGAAATAGGAAAGACATGTTTTAGA
82678158 TT
1 TT
82678160 AACATATTTT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.41
Consensus pattern (36 bp):
TTGTTTAATGGTGAAATAGGAAAGACATGTTTTAGA
Found at i:82690216 original size:47 final size:47
Alignment explanation
Indices: 82690070--82690216 Score: 133
Period size: 47 Copynumber: 3.1 Consensus size: 47
82690060 ATTTATCTCG
82690070 TAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACC
1 TAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACC
* * * * * * * *
82690117 TAGCTACTACATAGTAT-C-T-CG-TAGCTTTCTTGTA-CACATGATGTGTCG
1 TAGCT-CT-C-TTGTCTACATGGGATA-C-ATCTCGTATCACA-CATGTGACC
82690165 TAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACC
1 TAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACC
82690212 TAGCT
1 TAGCT
82690217 ACTACATAGT
Statistics
Matches: 73, Mismatches: 16, Indels: 22
0.66 0.14 0.20
Matches are distributed among these distances:
45 4 0.05
46 4 0.05
47 31 0.42
48 26 0.36
49 4 0.05
50 4 0.05
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (47 bp):
TAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACC
Found at i:82690230 original size:95 final size:95
Alignment explanation
Indices: 82690067--82690256 Score: 380
Period size: 95 Copynumber: 2.0 Consensus size: 95
82690057 CCAATTTATC
82690067 TCGTAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACCTAGCTACTACATAGT
1 TCGTAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACCTAGCTACTACATAGT
82690132 ATCTCGTAGCTTTCTTGTACACATGATGTG
66 ATCTCGTAGCTTTCTTGTACACATGATGTG
82690162 TCGTAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACCTAGCTACTACATAGT
1 TCGTAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACCTAGCTACTACATAGT
82690227 ATCTCGTAGCTTTCTTGTACACATGATGTG
66 ATCTCGTAGCTTTCTTGTACACATGATGTG
82690257 CACTCAGCAC
Statistics
Matches: 95, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
95 95 1.00
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (95 bp):
TCGTAGCTCTCTTGTCTACATGGGATACATCTCGTATCACACATGTGACCTAGCTACTACATAGT
ATCTCGTAGCTTTCTTGTACACATGATGTG
Found at i:82694758 original size:28 final size:28
Alignment explanation
Indices: 82694718--82694781 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
82694708 TGGGAAGTAG
* *
82694718 TTGGGCCTGATGGGCCATATGAATGTGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
*
82694746 TTGGGCCTGATGGGCCATGTGAACGAGA
1 TTGGGCCTGATGGGCCATATGAACGAGA
82694774 TTGGGCCT
1 TTGGGCCT
82694782 AAAGGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.19, C:0.17, G:0.38, T:0.27
Consensus pattern (28 bp):
TTGGGCCTGATGGGCCATATGAACGAGA
Found at i:82695128 original size:27 final size:27
Alignment explanation
Indices: 82695098--82695328 Score: 249
Period size: 27 Copynumber: 8.6 Consensus size: 27
82695088 TAATAAAGAG
82695098 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
82695125 AAATTACCGAAATA-CCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
82695151 AAATTACCGAAACACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
82695178 AAATTACCGAAACACACTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
82695205 AAATTA-TCAAA-ACACCATCGATTTGTA
1 AAATTACTGAAATAC-CC-TCGATTTGTA
** * **
82695232 AAATTACCAAAATACCTTTAATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
82695259 AAATTACTAAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
82695286 AAATTA-TCGAAACACCC-CTGATTTGTA
1 AAATTACT-GAAATACCCTC-GATTTGTA
82695313 AAATTA-TCGAAATACC
1 AAATTACT-GAAATACC
82695329 ATTGTAGTGT
Statistics
Matches: 179, Mismatches: 18, Indels: 14
0.85 0.09 0.07
Matches are distributed among these distances:
25 2 0.01
26 31 0.17
27 140 0.78
28 4 0.02
29 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:82695257 original size:81 final size:80
Alignment explanation
Indices: 82695098--82695328 Score: 318
Period size: 81 Copynumber: 2.9 Consensus size: 80
82695088 TAATAAAGAG
* *
82695098 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCTCGATTTGTAAAATTACCGAAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAACACCTCGATTTGTAAAATTACCGAAA
* *
82695163 CACCCTCGATTTGTA
66 TACCCTCAATTTGTA
* * * * *
82695178 AAATTACCGAAACACACTCGATTTGTAAAATTATCAAAACACCATCGATTTGTAAAATTACCAAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAACACC-TCGATTTGTAAAATTACCGAA
* *
82695243 ATACCTTTAATTTGTA
65 ATACCCTCAATTTGTA
* * *
82695259 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAACACCCCTGATTTGTAAAATTATCGAA
1 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAACACCTC-GATTTGTAAAATTACCGAA
82695324 ATACC
65 ATACC
82695329 ATTGTAGTGT
Statistics
Matches: 130, Mismatches: 19, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
80 38 0.29
81 92 0.71
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (80 bp):
AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAACACCTCGATTTGTAAAATTACCGAAA
TACCCTCAATTTGTA
Found at i:82695339 original size:27 final size:27
Alignment explanation
Indices: 82695282--82695397 Score: 110
Period size: 27 Copynumber: 4.3 Consensus size: 27
82695272 ACCCTCGATT
* * *
82695282 TGTAAAATTATCGAAACACCCCTG-ATT
1 TGTAAAATTATCGAAATACCCTTGTA-G
*
82695309 TGTAAAATTATCGAAATACCATTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* *
82695336 TGTAAAATTACCAAAATACCCTTGTAG
1 TGTAAAATTATCGAAATACCCTTGTAG
* * *
82695363 TGTAAAATGA-CTGACATACCCCTGTAG
1 TGTAAAATTATC-GAAATACCCTTGTAG
*
82695390 GGTAAAAT
1 TGTAAAAT
82695398 GACTATTTCC
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
26 1 0.01
27 73 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.29
Consensus pattern (27 bp):
TGTAAAATTATCGAAATACCCTTGTAG
Found at i:82695370 original size:81 final size:81
Alignment explanation
Indices: 82695098--82695357 Score: 305
Period size: 81 Copynumber: 3.2 Consensus size: 81
82695088 TAATAAAGAG
** * * *
82695098 AAATTACTGAAATACCCTCGATTTGTAAAATTACCGAAATACCTC-GATTTGTAAAATTACCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTATCGAAACACCCCTGATTTGTAAAATTACCGAA
* *
82695162 ACACCCTCG-ATTTGTA
66 ATA-CCTTGTATTTGTA
* * * * * *
82695178 AAATTACCGAAACACACTCGATTTGTAAAATTATCAAAACA-CCATCGATTTGTAAAATTACCAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTATCGAAACACCCCT-GATTTGTAAAATTACCGA
82695242 AATACCTT-TAATTTGTA
65 AATACCTTGT-ATTTGTA
* *
82695259 AAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAACACCCCTGATTTGTAAAATTATCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTATCGAAACACCCCTGATTTGTAAAATTACCGAA
*
82695324 ATACCATTGTA-GTGTA
66 ATACC-TTGTATTTGTA
82695340 AAATTACCAAAATACCCT
1 AAATTACCAAAATACCCT
82695358 TGTAGTGTAA
Statistics
Matches: 152, Mismatches: 21, Indels: 13
0.82 0.11 0.07
Matches are distributed among these distances:
79 1 0.01
80 38 0.25
81 106 0.70
82 6 0.04
83 1 0.01
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTATCGAAACACCCCTGATTTGTAAAATTACCGAA
ATACCTTGTATTTGTA
Found at i:82703492 original size:26 final size:26
Alignment explanation
Indices: 82703457--82703519 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
82703447 GTCATAGCCA
82703457 AATT-TAACATTTCATAACAGCATTT
1 AATTATAACATTTCATAACAGCATTT
82703482 AATTATAACATTTCATAACAGCATTT
1 AATTATAACATTTCATAACAGCATTT
82703508 AATTATAACATT
1 AATTATAACATT
82703520 AAACTATCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 4 0.11
26 33 0.89
ACGTcount: A:0.43, C:0.14, G:0.03, T:0.40
Consensus pattern (26 bp):
AATTATAACATTTCATAACAGCATTT
Found at i:82703493 original size:13 final size:13
Alignment explanation
Indices: 82703477--82703519 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
82703467 TTCATAACAG
82703477 CATTTAATTATAA
1 CATTTAATTATAA
* * * *
82703490 CATTTCATAACAG
1 CATTTAATTATAA
82703503 CATTTAATTATAA
1 CATTTAATTATAA
82703516 CATT
1 CATT
82703520 AAACTATCAA
Statistics
Matches: 22, Mismatches: 8, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.42
Consensus pattern (13 bp):
CATTTAATTATAA
Found at i:82707070 original size:43 final size:43
Alignment explanation
Indices: 82706946--82707102 Score: 165
Period size: 43 Copynumber: 3.7 Consensus size: 43
82706936 TGTGTTATCG
* * *
82706946 TGTAAGACCATGACTGGGACATTGGCATCGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGATTT-CA
* * * *
82706990 TGTGAGACCACGTTTGAGACATTGGCATCG-TACTTGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTCA
** * * **
82707032 TGTAAGACCTTGTCTAGGACAGTGGCATCGATATTTGATGACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTCA
82707075 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
82707103 TGTATGAGCT
Statistics
Matches: 90, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
42 26 0.29
43 39 0.43
44 25 0.28
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTCA
Found at i:82724606 original size:17 final size:19
Alignment explanation
Indices: 82724564--82724607 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
82724554 ATGAAATTTT
*
82724564 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
82724583 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
82724601 AA-TATTA
1 AATTATTA
82724608 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:82724638 original size:12 final size:12
Alignment explanation
Indices: 82724621--82724645 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
82724611 TATGTATGTT
82724621 TGAAAATTTTTA
1 TGAAAATTTTTA
82724633 TGAAAATTTTTA
1 TGAAAATTTTTA
82724645 T
1 T
82724646 TATTATTTAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:82725778 original size:25 final size:25
Alignment explanation
Indices: 82725724--82725794 Score: 69
Period size: 25 Copynumber: 2.9 Consensus size: 25
82725714 CTACTTCCTT
* *
82725724 TTTTCTTCTTCTTTTC-CTTCTTGTC
1 TTTTCTT-TTCTTTTCTCTTCATCTC
82725749 TTTTCTTTTCTTTTCTCTTCATCTAC
1 TTTTCTTTTCTTTTCTCTTCATCT-C
*
82725775 -TTTCTCTTCTTTT-T-TTCATC
1 TTTTCTTTTCTTTTCTCTTCATC
82725795 CATAGCTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 6 0.15
24 9 0.22
25 25 0.61
26 1 0.02
ACGTcount: A:0.04, C:0.27, G:0.01, T:0.68
Consensus pattern (25 bp):
TTTTCTTTTCTTTTCTCTTCATCTC
Found at i:82725779 original size:20 final size:18
Alignment explanation
Indices: 82725695--82725772 Score: 50
Period size: 20 Copynumber: 4.2 Consensus size: 18
82725685 TATTTTCTTT
**
82725695 TCTTTTCTCCTCTCTTCA
1 TCTTTTCTTTTCTCTTCA
* * *
82725713 TCTACTTCCTTTTTTCTTCT
1 TCT--TTTCTTTTCTCTTCA
* *
82725733 TCTTTTCCTTCTTGTCTT-T
1 TCTTTT-CTT-TTCTCTTCA
82725752 TCTTTTCTTTTCTCTTCA
1 TCTTTTCTTTTCTCTTCA
82725770 TCT
1 TCT
82725773 ACTTTCTCTT
Statistics
Matches: 46, Mismatches: 9, Indels: 10
0.71 0.14 0.15
Matches are distributed among these distances:
17 6 0.13
18 11 0.24
19 10 0.22
20 19 0.41
ACGTcount: A:0.04, C:0.31, G:0.01, T:0.64
Consensus pattern (18 bp):
TCTTTTCTTTTCTCTTCA
Found at i:82725787 original size:62 final size:62
Alignment explanation
Indices: 82725673--82725791 Score: 150
Period size: 62 Copynumber: 1.9 Consensus size: 62
82725663 AGGATTCAGT
* *
82725673 TTTTTCTTCTTCTATTTTCTTTTCTTTTCTCCTCTCTTCATCTACTTCCTTTTTTCTTCTTC
1 TTTTCCTTCTTCTATTTTCTTTTCTTTTCTCCTCTCTACATCTACTTCCTTTTTTCTTCTTC
* * * * *
82725735 TTTTCCTTCTTGTCTTTTCTTTTCTTTTCTCTTCATCTACTTTCT-CTTCTTTTTTTC
1 TTTTCCTTCTTCTATTTTCTTTTCTTTTCTCCTC-TCTAC-ATCTACTTCCTTTTTTC
82725792 ATCCATAGCT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 30 0.62
63 15 0.31
64 3 0.06
ACGTcount: A:0.04, C:0.28, G:0.01, T:0.67
Consensus pattern (62 bp):
TTTTCCTTCTTCTATTTTCTTTTCTTTTCTCCTCTCTACATCTACTTCCTTTTTTCTTCTTC
Found at i:82726766 original size:15 final size:14
Alignment explanation
Indices: 82726746--82726790 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
82726736 CCATACGGGT
82726746 TAATAAATAAAATAA
1 TAATAAATAAAA-AA
82726761 TAAT-AATAAAAAA
1 TAATAAATAAAAAA
*
82726774 TTATAATATAAAAAA
1 TAATAA-ATAAAAAA
82726789 TA
1 TA
82726791 GGCAATAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
13 5 0.19
14 8 0.31
15 13 0.50
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
TAATAAATAAAAAA
Found at i:82726779 original size:16 final size:15
Alignment explanation
Indices: 82726754--82726790 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
82726744 GTTAATAAAT
82726754 AAAATAATAATAATAA
1 AAAATAATAAT-ATAA
*
82726770 AAAATTATAATATAA
1 AAAATAATAATATAA
82726785 AAAATA
1 AAAATA
82726791 GGCAATAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAATAATATAA
Found at i:82731194 original size:31 final size:31
Alignment explanation
Indices: 82731151--82731229 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
82731141 TTTAACGATT
*
82731151 ACTGCGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
82731182 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
82731213 ACTGGGCCGAAGCCTTT
1 ACTGGGCCAAAGCCTTT
82731230 ACTATAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 45 1.00
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCATAAATCATATC
Found at i:82731311 original size:41 final size:41
Alignment explanation
Indices: 82731253--82731342 Score: 135
Period size: 41 Copynumber: 2.2 Consensus size: 41
82731243 TGACCCATAG
* ** *
82731253 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCA-TTCAATATCACATGAAATACCAATGAATGTATGCAA
82731295 GCCCATTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTCAATATCACATGAAATACCAATGAATGTATGCAA
82731336 GCCCATT
1 GCCCATT
82731343 TGGGGAGACT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
41 39 0.89
42 5 0.11
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (41 bp):
GCCCATTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:82731532 original size:26 final size:26
Alignment explanation
Indices: 82731488--82731585 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
82731478 CCTCTTTAAT
*
82731488 AACTAGGGCA-AAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
82731513 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
82731539 AAGTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
82731565 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
82731586 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
25 9 0.14
26 57 0.86
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:82733384 original size:31 final size:31
Alignment explanation
Indices: 82733341--82733419 Score: 124
Period size: 31 Copynumber: 2.6 Consensus size: 31
82733331 TTTAACGATT
*
82733341 ACTGCGCCAAAGCCTTTTCATAAATCATATC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
82733372 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCAAAGCCTTTTCATAAATCATATC
*
82733403 ACTGGGCCGAAG-CTTTT
1 ACTGGGCCAAAGCCTTTT
82733420 ACTATAAACG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
30 5 0.11
31 40 0.89
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.30
Consensus pattern (31 bp):
ACTGGGCCAAAGCCTTTTCATAAATCATATC
Found at i:82733514 original size:41 final size:41
Alignment explanation
Indices: 82733449--82733532 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
82733439 ATAGGCCTAT
* ** *
82733449 TTCAATATCACATGTAATGTCAATGGATGTATGCAAGCCCA
1 TTCAATATCACATGAAATACCAATGAATGTATGCAAGCCCA
82733490 TTCAATATCACATGAAATACCAATGAATGTATGCAAGCCCA
1 TTCAATATCACATGAAATACCAATGAATGTATGCAAGCCCA
82733531 TT
1 TT
82733533 TGGGGAGACT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (41 bp):
TTCAATATCACATGAAATACCAATGAATGTATGCAAGCCCA
Found at i:82733722 original size:26 final size:26
Alignment explanation
Indices: 82733678--82734087 Score: 615
Period size: 26 Copynumber: 15.8 Consensus size: 26
82733668 CCTCTTTAAT
*
82733678 AACTAGGGCA-AAGCCCTTTTCAGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
82733703 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
82733729 AAGTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
82733755 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
82733781 AAGTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
82733807 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
82733833 AAGTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
82733859 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
82733885 AAGTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
82733911 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
82733937 AAGTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
82733963 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
82733989 AAGTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
*
82734015 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAGTA
* *
82734041 AAGTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAGTA
82734067 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
82734088 GCACTTCCTC
Statistics
Matches: 342, Mismatches: 42, Indels: 1
0.89 0.11 0.00
Matches are distributed among these distances:
25 9 0.03
26 333 0.97
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAGTA
Found at i:82733756 original size:52 final size:52
Alignment explanation
Indices: 82733683--82734087 Score: 794
Period size: 52 Copynumber: 7.8 Consensus size: 52
82733673 TTAATAACTA
*
82733683 GGGCA-AAGCCCTTTTCAGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
82733734 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
82733786 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
82733838 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
82733890 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
82733942 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
82733994 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
82734046 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
1 GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTT
82734088 GCACTTCCTC
Statistics
Matches: 352, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
51 5 0.01
52 347 0.99
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.27
Consensus pattern (52 bp):
GGGCATAAGCCCTTTTCGGTAAACTGGGGCATAAGCCCTTTTCAATAAAGTG
Found at i:82739896 original size:385 final size:385
Alignment explanation
Indices: 82739186--82739952 Score: 1408
Period size: 385 Copynumber: 2.0 Consensus size: 385
82739176 CAAATTTAAT
* *
82739186 TCAACTTACACAATTTTTGGTGAATTTTCAGAGTCACACAACTGCTGCTGTCCAACATTGTTTTA
1 TCAACTTACACAATTTTTGGTGAATTTTCAAAGTCACACAACTGCTGCTGTCCAACATTCTTTTA
*
82739251 CTACTAAAATTCACTCTTGCATAATTTCACTTAATCCATTTTGTCTTATCAAAGTTCACTCAAAT
66 CTACTAAAATTCACTCTTACATAATTTCACTTAATCCATTTTGTCTTATCAAAGTTCACTCAAAT
* *
82739316 ATCAAGCGTATTGCTCAAAATTTTTTTAAACATATACCTACACTTATTCATCATATAATCATGTT
131 ATCAAGCATATTGCTCAAAACTTTTTTAAACATATACCTACACTTATTCATCATATAATCATGTT
82739381 CACATGTATTTTTACTTAATCAATTTTCCTGTTGAACTCTTTGAAATAATAACTGATACTCAGTT
196 CACATGTATTTTTACTTAATCAATTTTCCTGTTGAACTCTTTGAAATAATAACTGATACTCAGTT
82739446 GCCTGCACATATTTTAACACTTGTAGCCAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTA
261 GCCTGCACATATTTTAACACTTGTAGCCAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTA
* *
82739511 CTACACATGCGACCAATTATCTGCTACACGTAGTAGTCTGCACTTAGTACTACACACATG
326 CTACACATGCGACCAATTATCTGCTACACATAGTAGCCTGCACTTAGTACTACACACATG
82739571 TCAACTTACACAATTTTTGGTGAATTTTCAAAGTCACACAACTGCTGCTGTCCAACATTCTTTTA
1 TCAACTTACACAATTTTTGGTGAATTTTCAAAGTCACACAACTGCTGCTGTCCAACATTCTTTTA
**
82739636 CTACTAAAATTCACTCTTACATAATTTCACTTAATCCATTTTGTCTTATGGAAGTTCACTCAAAT
66 CTACTAAAATTCACTCTTACATAATTTCACTTAATCCATTTTGTCTTATCAAAGTTCACTCAAAT
* *
82739701 ATCGAGCATATTGCTCAAAACTTTTTTAAACATATACCTGCACTTATTCATCATATAATCATGTT
131 ATCAAGCATATTGCTCAAAACTTTTTTAAACATATACCTACACTTATTCATCATATAATCATGTT
82739766 CACATGTATTTTTACTTAATCAATTTTCCTGTTGAACTCTTTGAAATAATAACTGATACTCAGTT
196 CACATGTATTTTTACTTAATCAATTTTCCTGTTGAACTCTTTGAAATAATAACTGATACTCAGTT
82739831 GCCTGCACATATTTTAACACTTGTAGCCAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTA
261 GCCTGCACATATTTTAACACTTGTAGCCAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTA
* * *
82739896 CTACACATGCGACCAATTATTTGGTACGCATAGTAGCCTGCACTTAGTACTACACAC
326 CTACACATGCGACCAATTATCTGCTACACATAGTAGCCTGCACTTAGTACTACACAC
82739953 GTGACCTCAC
Statistics
Matches: 368, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
385 368 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (385 bp):
TCAACTTACACAATTTTTGGTGAATTTTCAAAGTCACACAACTGCTGCTGTCCAACATTCTTTTA
CTACTAAAATTCACTCTTACATAATTTCACTTAATCCATTTTGTCTTATCAAAGTTCACTCAAAT
ATCAAGCATATTGCTCAAAACTTTTTTAAACATATACCTACACTTATTCATCATATAATCATGTT
CACATGTATTTTTACTTAATCAATTTTCCTGTTGAACTCTTTGAAATAATAACTGATACTCAGTT
GCCTGCACATATTTTAACACTTGTAGCCAAAGCTATCTGGTACGCATAGTAGCCTGCACTTAGTA
CTACACATGCGACCAATTATCTGCTACACATAGTAGCCTGCACTTAGTACTACACACATG
Found at i:82742798 original size:43 final size:43
Alignment explanation
Indices: 82742735--82742822 Score: 142
Period size: 43 Copynumber: 2.0 Consensus size: 43
82742725 CGTTTTACCA
**
82742735 AAATTAACCTTTTTTGCTAACTG-GAATGTTGCGAAAATTAAAC
1 AAATTAACCTTTTTCACTAACTGCG-ATGTTGCGAAAATTAAAC
82742778 AAATTAACCTTTTTCACTAACTGCGATGTTGCGAAAATTAAAC
1 AAATTAACCTTTTTCACTAACTGCGATGTTGCGAAAATTAAAC
82742821 AA
1 AA
82742823 TCTTTCGGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
43 41 0.98
44 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (43 bp):
AAATTAACCTTTTTCACTAACTGCGATGTTGCGAAAATTAAAC
Found at i:82744862 original size:62 final size:62
Alignment explanation
Indices: 82744765--82744887 Score: 228
Period size: 62 Copynumber: 2.0 Consensus size: 62
82744755 ATTTTTGGTG
82744765 AATTTTCAAAGTCACACAACTGCTGCTGTCCAACATTCTTTTACTACTAAAATTCACTCTTA
1 AATTTTCAAAGTCACACAACTGCTGCTGTCCAACATTCTTTTACTACTAAAATTCACTCTTA
* *
82744827 AATTTTCAGAGTCACACAACTGCTGCTGTCCAACATTGTTTTACTACTAAAATTCACTCTT
1 AATTTTCAAAGTCACACAACTGCTGCTGTCCAACATTCTTTTACTACTAAAATTCACTCTT
82744888 GCATAATTTC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
62 59 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (62 bp):
AATTTTCAAAGTCACACAACTGCTGCTGTCCAACATTCTTTTACTACTAAAATTCACTCTTA
Found at i:82745167 original size:49 final size:47
Alignment explanation
Indices: 82745111--82745325 Score: 133
Period size: 49 Copynumber: 4.6 Consensus size: 47
82745101 TTGGTACGCA
82745111 TAGTAGCCTGCACTTAGTACTACACATGCAAACAATTATCCAGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAAACAATTAT--AGTACACG
* * * * * *
82745160 TAGTAGCCTGCAATTAGTGCTACACACGTAAAC--TGATACT-CA-G
1 TAGTAGCCTGCACTTAGTACTACACATGCAAACAATTATAGTACACG
* ** * * * *
82745203 T--T-GCCTGCACATA-TTTTAACACTTGTAGCCAAAGCAATT-TGGTACGCA
1 TAGTAGCCTGCACTTAGTACT-ACAC--AT-G-CAAA-CAATTATAGTACACG
* * *
82745251 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAAACAATTA--TAGTACACG
82745300 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
82745326 CGTGACCTCA
Statistics
Matches: 123, Mismatches: 26, Indels: 34
0.67 0.14 0.19
Matches are distributed among these distances:
39 2 0.02
40 13 0.11
41 1 0.01
43 3 0.02
44 5 0.04
45 3 0.02
46 7 0.06
47 7 0.06
48 2 0.02
49 63 0.51
50 1 0.01
51 14 0.11
52 2 0.02
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (47 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAAACAATTATAGTACACG
Found at i:82745302 original size:140 final size:140
Alignment explanation
Indices: 82745050--82745328 Score: 504
Period size: 140 Copynumber: 2.0 Consensus size: 140
82745040 TTGAAATAAT
82745050 AACTGATACTCAGTTGCCTGCACATATTTTAACACTTGTAGCCAAAGCAATTTGGTACGCATAGT
1 AACTGATACTCAGTTGCCTGCACATATTTTAACACTTGTAGCCAAAGCAATTTGGTACGCATAGT
*
82745115 AGCCTGCACTTAGTACTACACATGCAAACAATTATCCAGTACACGTAGTAGCCTGCAATTAGTGC
66 AGCCTGCACTTAGTACTACACATGCAAACAATTATCCAGTACACGTAGTAGCCTGCAATTAGTAC
82745180 TACACACGTA
131 TACACACGTA
82745190 AACTGATACTCAGTTGCCTGCACATATTTTAACACTTGTAGCCAAAGCAATTTGGTACGCATAGT
1 AACTGATACTCAGTTGCCTGCACATATTTTAACACTTGTAGCCAAAGCAATTTGGTACGCATAGT
* * ** *
82745255 AGCCTGCACTTAGTACTACACATGCGACCAATTATCTGGTACACGTAGTAGCCTGCACTTAGTAC
66 AGCCTGCACTTAGTACTACACATGCAAACAATTATCCAGTACACGTAGTAGCCTGCAATTAGTAC
82745320 TACACACGT
131 TACACACGT
82745329 GACCTCACAA
Statistics
Matches: 133, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 133 1.00
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.28
Consensus pattern (140 bp):
AACTGATACTCAGTTGCCTGCACATATTTTAACACTTGTAGCCAAAGCAATTTGGTACGCATAGT
AGCCTGCACTTAGTACTACACATGCAAACAATTATCCAGTACACGTAGTAGCCTGCAATTAGTAC
TACACACGTA
Found at i:82748105 original size:28 final size:28
Alignment explanation
Indices: 82748073--82748141 Score: 84
Period size: 28 Copynumber: 2.5 Consensus size: 28
82748063 TGTGAATCTT
* * * *
82748073 GCACTAAGTGTGTGAATGTGATTATTGA
1 GCACTAAGTGTGCGAATGTAAATATCGA
* *
82748101 GCACTAAGTGTGCGAGTTTAAATATCGA
1 GCACTAAGTGTGCGAATGTAAATATCGA
82748129 GCACTAAGTGTGC
1 GCACTAAGTGTGC
82748142 AAACTATATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAATGTAAATATCGA
Found at i:82754509 original size:38 final size:38
Alignment explanation
Indices: 82754467--82754577 Score: 123
Period size: 38 Copynumber: 2.9 Consensus size: 38
82754457 ATGCTGGAAT
*
82754467 TATATCCGGGTTAAATCCCACAGGCTTCGTGCTAGTAA
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAA
* * * * *
82754505 TATATCCGGGTTAAATCCTGCAGGCCTGGTGCTGGTAT
1 TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAA
* * *
82754543 TATATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCT
1 TATATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCT
82754578 GGTGTTATGC
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
38 39 0.66
39 6 0.10
40 14 0.24
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.32
Consensus pattern (38 bp):
TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTAGTAA
Found at i:82770997 original size:40 final size:40
Alignment explanation
Indices: 82770942--82771024 Score: 157
Period size: 40 Copynumber: 2.1 Consensus size: 40
82770932 NNNNNNNNNN
82770942 GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGG
1 GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGG
*
82770982 GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCTG
1 GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGG
82771022 GTT
1 GTT
82771025 GTTACATCCG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (40 bp):
GTTATTATAACCGGGTTAAGTCCCGAAGGCATTCGTGCGG
Found at i:82774363 original size:39 final size:39
Alignment explanation
Indices: 82774309--82774386 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
82774299 ATCCTCGATG
82774309 TTAGCTCAAAAATATGTGAGAAAGGGGTGTGAAGTGTAT
1 TTAGCTCAAAAATATGTGAGAAAGGGGTGTGAAGTGTAT
82774348 TTAGCTCAAAAATATGTGAGAAAGGGGTGTGAAGTGTAT
1 TTAGCTCAAAAATATGTGAGAAAGGGGTGTGAAGTGTAT
82774387 CTTGCATACG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.36, C:0.05, G:0.31, T:0.28
Consensus pattern (39 bp):
TTAGCTCAAAAATATGTGAGAAAGGGGTGTGAAGTGTAT
Found at i:82778086 original size:15 final size:15
Alignment explanation
Indices: 82778068--82778102 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
82778058 TGTTTGATGC
82778068 TAATGCTGAATATGA
1 TAATGCTGAATATGA
82778083 TAATGCTGAATATGA
1 TAATGCTGAATATGA
*
82778098 AAATG
1 TAATG
82778103 TTGTACTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (15 bp):
TAATGCTGAATATGA
Found at i:82779100 original size:40 final size:40
Alignment explanation
Indices: 82779049--82779197 Score: 169
Period size: 40 Copynumber: 3.7 Consensus size: 40
82779039 CGGATGATAT
* * *
82779049 CCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGACTAAG-TCCCGAAGGCATTCGTGCTAGTTATTATAA
82779089 CCGGACTAAGAT-CCGAAGGCAATT-GTGCTAGTTATTATAA
1 CCGGACTAAG-TCCCGAAGGC-ATTCGTGCTAGTTATTATAA
** **
82779129 CCGGGTTAAGTCCCGAAGGCATTCGTGCGGGTTATTATAA
1 CCGGACTAAGTCCCGAAGGCATTCGTGCTAGTTATTATAA
**
82779169 CCGGGTTAAGTCCCGAAGGCATTCGTGCT
1 CCGGACTAAGTCCCGAAGGCATTCGTGCT
82779198 GGTTGTTACA
Statistics
Matches: 99, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
39 4 0.04
40 92 0.93
41 3 0.03
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGGACTAAGTCCCGAAGGCATTCGTGCTAGTTATTATAA
Found at i:82788961 original size:32 final size:32
Alignment explanation
Indices: 82788920--82788983 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
82788910 AGTAAAGGTG
82788920 TTATGGCTCAAACACGGGATCGAAGAAGCTAC
1 TTATGGCTCAAACACGGGATCGAAGAAGCTAC
*
82788952 TTATGGCTCAAACATGGGATCGAAGAAGCTAC
1 TTATGGCTCAAACACGGGATCGAAGAAGCTAC
82788984 CTGGGAAATC
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.34, C:0.20, G:0.25, T:0.20
Consensus pattern (32 bp):
TTATGGCTCAAACACGGGATCGAAGAAGCTAC
Found at i:82805188 original size:328 final size:328
Alignment explanation
Indices: 82804591--82805246 Score: 1312
Period size: 328 Copynumber: 2.0 Consensus size: 328
82804581 TATCAACCAA
82804591 CTTCATACTTAATAATCATACCAAATTATGCCAAAACATAAAACAAAATCATATCTAAACATTTG
1 CTTCATACTTAATAATCATACCAAATTATGCCAAAACATAAAACAAAATCATATCTAAACATTTG
82804656 TTTCATAACCTCATTTTACATCATTCAAACACATGTTATAAACTTACCAATATTTCAAATTTGCA
66 TTTCATAACCTCATTTTACATCATTCAAACACATGTTATAAACTTACCAATATTTCAAATTTGCA
82804721 CATTCCAAAACTTACCAGAATTGACCATTTTATTTGATCACTCATAAACACATCACATAAGCATA
131 CATTCCAAAACTTACCAGAATTGACCATTTTATTTGATCACTCATAAACACATCACATAAGCATA
82804786 ATTTACATCACATATCATATACCAAATCAAACCATAAGTTCAACCACAAACTAGCCATATCACAT
196 ATTTACATCACATATCATATACCAAATCAAACCATAAGTTCAACCACAAACTAGCCATATCACAT
82804851 GGCATGATATATACATTACAAAACATGTCCAAATACTCCTAGCCTATACATGCCATATTCTAATA
261 GGCATGATATATACATTACAAAACATGTCCAAATACTCCTAGCCTATACATGCCATATTCTAATA
82804916 TTC
326 TTC
82804919 CTTCATACTTAATAATCATACCAAATTATGCCAAAACATAAAACAAAATCATATCTAAACATTTG
1 CTTCATACTTAATAATCATACCAAATTATGCCAAAACATAAAACAAAATCATATCTAAACATTTG
82804984 TTTCATAACCTCATTTTACATCATTCAAACACATGTTATAAACTTACCAATATTTCAAATTTGCA
66 TTTCATAACCTCATTTTACATCATTCAAACACATGTTATAAACTTACCAATATTTCAAATTTGCA
82805049 CATTCCAAAACTTACCAGAATTGACCATTTTATTTGATCACTCATAAACACATCACATAAGCATA
131 CATTCCAAAACTTACCAGAATTGACCATTTTATTTGATCACTCATAAACACATCACATAAGCATA
82805114 ATTTACATCACATATCATATACCAAATCAAACCATAAGTTCAACCACAAACTAGCCATATCACAT
196 ATTTACATCACATATCATATACCAAATCAAACCATAAGTTCAACCACAAACTAGCCATATCACAT
82805179 GGCATGATATATACATTACAAAACATGTCCAAATACTCCTAGCCTATACATGCCATATTCTAATA
261 GGCATGATATATACATTACAAAACATGTCCAAATACTCCTAGCCTATACATGCCATATTCTAATA
82805244 TTC
326 TTC
82805247 ACAATGTCAA
Statistics
Matches: 328, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
328 328 1.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.30
Consensus pattern (328 bp):
CTTCATACTTAATAATCATACCAAATTATGCCAAAACATAAAACAAAATCATATCTAAACATTTG
TTTCATAACCTCATTTTACATCATTCAAACACATGTTATAAACTTACCAATATTTCAAATTTGCA
CATTCCAAAACTTACCAGAATTGACCATTTTATTTGATCACTCATAAACACATCACATAAGCATA
ATTTACATCACATATCATATACCAAATCAAACCATAAGTTCAACCACAAACTAGCCATATCACAT
GGCATGATATATACATTACAAAACATGTCCAAATACTCCTAGCCTATACATGCCATATTCTAATA
TTC
Found at i:82805564 original size:13 final size:13
Alignment explanation
Indices: 82805546--82805585 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
82805536 TTAATTTATA
82805546 TGTGTGAAAATTT
1 TGTGTGAAAATTT
82805559 TGTGTGAAAATTT
1 TGTGTGAAAATTT
82805572 TGTGTGAAAATTT
1 TGTGTGAAAATTT
82805585 T
1 T
82805586 ATTGTTTGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (13 bp):
TGTGTGAAAATTT
Found at i:82806734 original size:43 final size:43
Alignment explanation
Indices: 82806682--82806806 Score: 128
Period size: 44 Copynumber: 2.9 Consensus size: 43
82806672 AGGATTTTGA
82806682 TATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGAT
1 TATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCG-T
* * * * *
82806726 T-TTTGATTTGCGTGTAAGACC-CTATCTGGGACAGTAGCATTGT
1 TATGTGATTT-CGTGTAAGACCAC-GTCTGGGACATTGGCATCGT
* * * *
82806769 TATGTAATTACATGTAAGACCACGTCTGGAACATTGGC
1 TATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGC
82806807 GTTGTACGAG
Statistics
Matches: 64, Mismatches: 13, Indels: 9
0.74 0.15 0.10
Matches are distributed among these distances:
43 31 0.48
44 33 0.52
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
TATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATCGT
Found at i:82809188 original size:42 final size:43
Alignment explanation
Indices: 82809086--82809189 Score: 147
Period size: 42 Copynumber: 2.4 Consensus size: 43
82809076 AATGTCGACA
* * *
82809086 TCCCAGATGTGGTCTTACATGTAATCAAATATCGATGCCACTG
1 TCCCAGATATGGTCTTACATGAAATCAAATATCGATGCCAATG
* * *
82809129 TCCCAGACAAGGCCTTACATGAAATCAAATA-CGATGCCAATG
1 TCCCAGATATGGTCTTACATGAAATCAAATATCGATGCCAATG
82809171 TCCCAGATATGGTCTTACA
1 TCCCAGATATGGTCTTACA
82809190 AAATATCACA
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 26 0.50
43 26 0.50
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
TCCCAGATATGGTCTTACATGAAATCAAATATCGATGCCAATG
Found at i:82814819 original size:29 final size:29
Alignment explanation
Indices: 82814760--82814876 Score: 182
Period size: 29 Copynumber: 4.1 Consensus size: 29
82814750 ATACATGCAC
* * *
82814760 ATGGCCCACTAGG-CCTAATCTCATTCAT
1 ATGGCCCATTAGGCCCAAATCACATTCAT
*
82814788 ATGGCCCATTAGGCCCAAATCACATTCGT
1 ATGGCCCATTAGGCCCAAATCACATTCAT
82814817 ATGGCCCATTAGGCCCAAATCACATTCAT
1 ATGGCCCATTAGGCCCAAATCACATTCAT
*
82814846 ACGGCCCATTAGGCCCAAATCACATTCAT
1 ATGGCCCATTAGGCCCAAATCACATTCAT
82814875 AT
1 AT
82814877 ACATGCTTTC
Statistics
Matches: 81, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 12 0.15
29 69 0.85
ACGTcount: A:0.29, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
ATGGCCCATTAGGCCCAAATCACATTCAT
Found at i:82816680 original size:29 final size:28
Alignment explanation
Indices: 82816619--82816708 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 28
82816609 ACATACATGC
* ** *
82816619 ATATGGCCCATCAGGCCCAATTCATATTC
1 ATATGGCCCATTAGGCCCAA-TCACCTTT
82816648 ATATGGCCCATTAGGCCCGAATCACCTTT
1 ATATGGCCCATTAGGCCC-AATCACCTTT
** *
82816677 ATATGGCCTGTTAGGCCTAAATCACC-TT
1 ATATGGCCCATTAGGCC-CAATCACCTTT
82816705 ATAT
1 ATAT
82816709 TCATGCTTAC
Statistics
Matches: 52, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
28 6 0.12
29 44 0.85
30 2 0.04
ACGTcount: A:0.27, C:0.28, G:0.16, T:0.30
Consensus pattern (28 bp):
ATATGGCCCATTAGGCCCAATCACCTTT
Found at i:82816946 original size:16 final size:16
Alignment explanation
Indices: 82816925--82816960 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
82816915 AACTTTCAGA
*
82816925 TTTTCGTCATTTTGGC
1 TTTTCGACATTTTGGC
82816941 TTTTCGACATTTTGGC
1 TTTTCGACATTTTGGC
82816957 TTTT
1 TTTT
82816961 TGATGCCATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.08, C:0.17, G:0.17, T:0.58
Consensus pattern (16 bp):
TTTTCGACATTTTGGC
Found at i:82818501 original size:33 final size:33
Alignment explanation
Indices: 82818452--82818516 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
82818442 ATATGCAAAA
*
82818452 CAGTCTAGGCCGTAGCCATATTCAGTAACAGAG
1 CAGTCTAGGCCGTAGCCATATACAGTAACAGAG
** * *
82818485 CAGTCTAGGCTTTAGCCCTATACAGTAGCAGA
1 CAGTCTAGGCCGTAGCCATATACAGTAACAGA
82818517 ATGGGCCCAA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (33 bp):
CAGTCTAGGCCGTAGCCATATACAGTAACAGAG
Found at i:82818854 original size:27 final size:27
Alignment explanation
Indices: 82818824--82818891 Score: 111
Period size: 28 Copynumber: 2.5 Consensus size: 27
82818814 GGGCATAATC
82818824 GTCATTTTACCATAC-AGGGGTATTACG
1 GTCATTTTACC-TACAAGGGGTATTACG
82818851 GTCATTTTATCCTACAAGGGGTATTACG
1 GTCATTTTA-CCTACAAGGGGTATTACG
82818879 GTCATTTTACCTA
1 GTCATTTTACCTA
82818892 TTTTGGGGTT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
27 16 0.41
28 23 0.59
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCTACAAGGGGTATTACG
Found at i:82826041 original size:125 final size:125
Alignment explanation
Indices: 82825819--82826068 Score: 500
Period size: 125 Copynumber: 2.0 Consensus size: 125
82825809 TTAGAAAAAA
82825819 TAATTTTGAAAACTCAATTTTGAGAAAATTTTTCAAAAACCCATTGCACAGCCGAGTTTTGCAAC
1 TAATTTTGAAAACTCAATTTTGAGAAAATTTTTCAAAAACCCATTGCACAGCCGAGTTTTGCAAC
82825884 CTAGCTCTAATACCACTAAATGTAACACCCTGAATCGGCCTGAACATTACGGCTGAATCT
66 CTAGCTCTAATACCACTAAATGTAACACCCTGAATCGGCCTGAACATTACGGCTGAATCT
82825944 TAATTTTGAAAACTCAATTTTGAGAAAATTTTTCAAAAACCCATTGCACAGCCGAGTTTTGCAAC
1 TAATTTTGAAAACTCAATTTTGAGAAAATTTTTCAAAAACCCATTGCACAGCCGAGTTTTGCAAC
82826009 CTAGCTCTAATACCACTAAATGTAACACCCTGAATCGGCCTGAACATTACGGCTGAATCT
66 CTAGCTCTAATACCACTAAATGTAACACCCTGAATCGGCCTGAACATTACGGCTGAATCT
82826069 GGCATGTCAC
Statistics
Matches: 125, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 125 1.00
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (125 bp):
TAATTTTGAAAACTCAATTTTGAGAAAATTTTTCAAAAACCCATTGCACAGCCGAGTTTTGCAAC
CTAGCTCTAATACCACTAAATGTAACACCCTGAATCGGCCTGAACATTACGGCTGAATCT
Found at i:82827032 original size:28 final size:28
Alignment explanation
Indices: 82826972--82827066 Score: 104
Period size: 28 Copynumber: 3.4 Consensus size: 28
82826962 GGGCATAATC
*
82826972 GTCATTTTACCATATAG-GGGTATTACG
1 GTCATTTTACCTTATAGAGGGTATTACG
**
82826999 ACCATTTTACCTTATAGAGGGTATTACG
1 GTCATTTTACCTTATAGAGGGTATTACG
* * *
82827027 GTCATTTTATCC-TACAGAGGGTATTCCT
1 GTCATTTTA-CCTTATAGAGGGTATTACG
*
82827055 TTCATTTTACCT
1 GTCATTTTACCT
82827067 ATTTTGGGGT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
27 16 0.29
28 38 0.68
29 2 0.04
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.40
Consensus pattern (28 bp):
GTCATTTTACCTTATAGAGGGTATTACG
Found at i:82831409 original size:42 final size:42
Alignment explanation
Indices: 82831292--82831453 Score: 148
Period size: 43 Copynumber: 3.8 Consensus size: 42
82831282 CAAAAAGCTC
* * *
82831292 ATACAATGCCGACGTCCCAGACGTGGTCTTACATGTAATCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAA
* * ** *
82831334 ATATCGATGCC-ACTATCCTAGACAAGGTGTTACATGAAATCAA
1 ATA-CGATGCCAAC-GTCCCAGACGTGGTCTTACATGAAATCAA
*
82831377 ATACGATGCCAACGTCCCAGACGTGGTCTTACATATAAATACCAA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACAT-GAAAT--CAA
* * * *
82831422 ATA-GATGCCAATGTTCTAGATGTGGTCTTACA
1 ATACGATGCCAACGTCCCAGACGTGGTCTTACA
82831454 AGATATCACA
Statistics
Matches: 97, Mismatches: 17, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
42 28 0.29
43 38 0.39
44 25 0.26
45 6 0.06
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (42 bp):
ATACGATGCCAACGTCCCAGACGTGGTCTTACATGAAATCAA
Found at i:82832460 original size:16 final size:16
Alignment explanation
Indices: 82832439--82832503 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
82832429 AAAATATACA
82832439 TAACAATTAAGCACTT
1 TAACAATTAAGCACTT
*
82832455 TAACAAATAGCATGCAACTT
1 TAACAATTA--A-GC-ACTT
* * *
82832475 TTACGATT-TGCACTT
1 TAACAATTAAGCACTT
82832490 TAACAATTAAGCAC
1 TAACAATTAAGCAC
82832504 ACAATTGATC
Statistics
Matches: 36, Mismatches: 8, Indels: 10
0.67 0.15 0.19
Matches are distributed among these distances:
15 10 0.28
16 14 0.39
18 1 0.03
19 2 0.06
20 9 0.25
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (16 bp):
TAACAATTAAGCACTT
Found at i:82842520 original size:21 final size:21
Alignment explanation
Indices: 82842494--82842536 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
82842484 TCCGATTTGT
82842494 TTCCTAGGCTCAAATGGGAAC
1 TTCCTAGGCTCAAATGGGAAC
82842515 TTCCTAGGCTCAAATGGGAAC
1 TTCCTAGGCTCAAATGGGAAC
82842536 T
1 T
82842537 CTACTATCTT
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:0.23, G:0.23, T:0.26
Consensus pattern (21 bp):
TTCCTAGGCTCAAATGGGAAC
Found at i:82853909 original size:15 final size:17
Alignment explanation
Indices: 82853889--82853928 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
82853879 GAGAGATGAA
82853889 AAAAAGAAAT-G-AAAG
1 AAAAAGAAATCGAAAAG
82853904 AAAAAGAAATCGAAAAAG
1 AAAAAGAAATCG-AAAAG
82853922 AAAAAGA
1 AAAAAGA
82853929 GAGTGAGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.45
16 1 0.05
18 11 0.50
ACGTcount: A:0.75, C:0.03, G:0.17, T:0.05
Consensus pattern (17 bp):
AAAAAGAAATCGAAAAG
Found at i:82855898 original size:27 final size:27
Alignment explanation
Indices: 82855868--82855955 Score: 83
Period size: 27 Copynumber: 3.3 Consensus size: 27
82855858 TAAAACAATC
82855868 ATTTTACCCTATAGGGGTATTTCAGTA
1 ATTTTACCCTATAGGGGTATTTCAGTA
* * *
82855895 ATTTTACACTACAAGGGTATTTC-GATA
1 ATTTTACCCTATAGGGGTATTTCAG-TA
**
82855922 ATTTTA-CAAACT-GAGGGTATTTCAGTA
1 ATTTTACCCTA-TAG-GGGTATTTCAGTA
82855949 ATTTTAC
1 ATTTTAC
82855956 AAGTTGAGGG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
26 2 0.04
27 45 0.94
28 1 0.02
ACGTcount: A:0.31, C:0.14, G:0.16, T:0.40
Consensus pattern (27 bp):
ATTTTACCCTATAGGGGTATTTCAGTA
Found at i:82855926 original size:54 final size:54
Alignment explanation
Indices: 82855882--82856038 Score: 162
Period size: 54 Copynumber: 2.9 Consensus size: 54
82855872 TACCCTATAG
82855882 GGGTATTTCAGTAATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAACTGA
1 GGGTATTTCAGTAATTTTACAACT-CAAGGGTATTTCGATAATTTTACAAACTGA
* ** * *
82855936 GGGTATTTCAGTAATTTTACAAGTTGAGGGTATTTCGATAATTTCACAAA-TCA
1 GGGTATTTCAGTAATTTTACAACTCAAGGGTATTTCGATAATTTTACAAACTGA
* * * *
82855989 GGAGTATGTC-GTTAATTTTACAACCCGA-GATATTTC-AGTAATTTTACAAA
1 GG-GTATTTCAG-TAATTTTACAACTCAAGGGTATTTCGA-TAATTTTACAAA
82856039 TCAGAGGCTT
Statistics
Matches: 88, Mismatches: 11, Indels: 9
0.81 0.10 0.08
Matches are distributed among these distances:
52 1 0.01
53 23 0.26
54 62 0.70
55 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (54 bp):
GGGTATTTCAGTAATTTTACAACTCAAGGGTATTTCGATAATTTTACAAACTGA
Found at i:82855956 original size:27 final size:27
Alignment explanation
Indices: 82855882--82856038 Score: 128
Period size: 27 Copynumber: 5.9 Consensus size: 27
82855872 TACCCTATAG
* *
82855882 GGGTATTTC-AGTAATTTTACACTAC-AA
1 GGGTATTTCGA-TAATTTTACA-AACTGA
82855909 GGGTATTTCGATAATTTTACAAACTGA
1 GGGTATTTCGATAATTTTACAAACTGA
**
82855936 GGGTATTTC-AGTAATTTTACAAGTTGA
1 GGGTATTTCGA-TAATTTTACAAACTGA
* *
82855963 GGGTATTTCGATAATTTCACAAA-TCA
1 GGGTATTTCGATAATTTTACAAACTGA
* * * *
82855989 GGAGTATGTCGTTAATTTTACAACCCGA
1 GG-GTATTTCGATAATTTTACAAACTGA
*
82856017 -GATATTTC-AGTAATTTTACAAA
1 GGGTATTTCGA-TAATTTTACAAA
82856039 TCAGAGGCTT
Statistics
Matches: 106, Mismatches: 17, Indels: 15
0.77 0.12 0.11
Matches are distributed among these distances:
26 23 0.22
27 80 0.75
28 3 0.03
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACAAACTGA
Found at i:82856251 original size:17 final size:17
Alignment explanation
Indices: 82856229--82856261 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
82856219 TATCCGTGTG
82856229 GGCCCA-CGAGCCCATTA
1 GGCCCACCG-GCCCATTA
82856246 GGCCCACCGGCCCATT
1 GGCCCACCGGCCCATT
82856262 TTGACCCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.18, C:0.45, G:0.24, T:0.12
Consensus pattern (17 bp):
GGCCCACCGGCCCATTA
Found at i:82864181 original size:30 final size:30
Alignment explanation
Indices: 82864147--82864207 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
82864137 TCCTTAACTC
82864147 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
82864177 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
82864207 A
1 A
82864208 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:82868893 original size:15 final size:15
Alignment explanation
Indices: 82868870--82868909 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 15
82868860 CAAGCCCAGA
82868870 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
82868885 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
82868900 ATAAGGAAAT
1 ATAAGGAAAT
82868910 ACCATTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.17, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:82870513 original size:20 final size:20
Alignment explanation
Indices: 82870467--82870513 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
82870457 AGCTCGTTTC
*
82870467 CAGCTCACTCGAGCTCAAGT
1 CAGCTCACTCAAGCTCAAGT
* *
82870487 CAACTCACTCAAGCTCAATT
1 CAGCTCACTCAAGCTCAAGT
82870507 CAGCTCA
1 CAGCTCA
82870514 ATCTTAACCC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.30, C:0.36, G:0.13, T:0.21
Consensus pattern (20 bp):
CAGCTCACTCAAGCTCAAGT
Found at i:82875086 original size:47 final size:49
Alignment explanation
Indices: 82874971--82875239 Score: 172
Period size: 46 Copynumber: 5.7 Consensus size: 49
82874961 GGGTAAGGTT
* * * *
82874971 CCGATGCCATGTCCCAGACATGGTCTTACACT-G-TCTCATATCTAAAG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCGAAGG
* * * * *
82875018 TCGATGCCATGCCCCAAACATGGTCTTACACTAACTATCATCTCGTA-G
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCGAAGG
* * * * *
82875066 CCGATG-CATGTCCTAGACAT-GTTTTACACTGGCT-TACGTGTCG-AGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTAT-CATCTCGAAGG
* * * *
82875112 CCAATG-CATTTCCTAGACAT-GTCTTACACTAGC-ACTCATCTC-AATG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTA-TCATCTCGAAGG
* ** * * **
82875158 CCAATGCCATGTCCCAGACATGGTCTTACACGGGCTCTC-T-TAGTGTGG
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCG-AAGG
*
82875206 CCGATG-CAGGTCCCAGACAT-GTCTTACACTAGCT
1 CCGATGCCATGTCCCAGACATGGTCTTACACTAGCT
82875240 CACAATAACC
Statistics
Matches: 173, Mismatches: 37, Indels: 25
0.74 0.16 0.11
Matches are distributed among these distances:
45 2 0.01
46 71 0.41
47 67 0.39
48 25 0.14
49 8 0.05
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGGTCTTACACTAGCTATCATCTCGAAGG
Found at i:82880944 original size:45 final size:45
Alignment explanation
Indices: 82880879--82880979 Score: 184
Period size: 45 Copynumber: 2.2 Consensus size: 45
82880869 GGTACACACC
*
82880879 TGATTCGCGACGACTGCTACTGAGATCTCTTCCGATGTCCTACAAT
1 TGATTAGC-ACGACTGCTACTGAGATCTCTTCCGATGTCCTACAAT
82880925 TGATTAGCACGACTGCTACTGAGATCTCTTCCGATGTCCTACAAT
1 TGATTAGCACGACTGCTACTGAGATCTCTTCCGATGTCCTACAAT
82880970 TGATTAGCAC
1 TGATTAGCAC
82880980 AGTTCTTATT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 47 0.87
46 7 0.13
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (45 bp):
TGATTAGCACGACTGCTACTGAGATCTCTTCCGATGTCCTACAAT
Found at i:82888808 original size:47 final size:46
Alignment explanation
Indices: 82888739--82888828 Score: 162
Period size: 47 Copynumber: 1.9 Consensus size: 46
82888729 GGGTGTTCGA
*
82888739 TACACACCTGATTCGCGACGACTGCTACTTAGATCTCTTCCGANCGG
1 TACACACCTGATTCGCGACGACTGCTACTGAGATCTCTTCCGA-CGG
82888786 TACACACCTGATTCGCGACGACTGCTACTGAGATCTCTTCCGA
1 TACACACCTGATTCGCGACGACTGCTACTGAGATCTCTTCCGA
82888829 TGTCCTACAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.26
Consensus pattern (46 bp):
TACACACCTGATTCGCGACGACTGCTACTGAGATCTCTTCCGACGG
Found at i:82892982 original size:14 final size:14
Alignment explanation
Indices: 82892960--82893007 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
82892950 ACCTAAACCG
* *
82892960 ACCAATTTGTTCAT
1 ACCATTTTGTTCCT
82892974 ACCATTTTGTTCCT
1 ACCATTTTGTTCCT
* *
82892988 ACCCTTTCGTTCCT
1 ACCATTTTGTTCCT
82893002 ACCATT
1 ACCATT
82893008 CCATTCGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.19, C:0.31, G:0.06, T:0.44
Consensus pattern (14 bp):
ACCATTTTGTTCCT
Found at i:82894010 original size:21 final size:20
Alignment explanation
Indices: 82893971--82894010 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
82893961 CACTTGACAC
*
82893971 AAGGGCACACGCCCATGTGG
1 AAGGGCACACACCCATGTGG
*
82893991 AAGGGCAACACACCCGTGTG
1 AAGGGC-ACACACCCATGTG
82894011 ACCATTTTGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.28, C:0.30, G:0.33, T:0.10
Consensus pattern (20 bp):
AAGGGCACACACCCATGTGG
Found at i:82905383 original size:40 final size:42
Alignment explanation
Indices: 82905327--82905498 Score: 251
Period size: 42 Copynumber: 4.1 Consensus size: 42
82905317 TCGATATAAT
* *
82905327 ATATATATATCTGGGTTAAATCTCGCAGGCTTCATGCTGGT-
1 ATATATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTA
*
82905368 A-ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATATATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTA
* *
82905409 ATATATATATACGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATATATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTA
*
82905451 ATATATATATCCGGGTTAAATCCTGCAGGCTT-AGTGCTGGTA
1 ATATATATATCCGGGTTAAATCCCGCAGGCTTCA-TGCTGGTA
*
82905493 CTATAT
1 ATATAT
82905499 CCGGACTTAG
Statistics
Matches: 120, Mismatches: 8, Indels: 5
0.90 0.06 0.04
Matches are distributed among these distances:
40 36 0.30
41 2 0.02
42 82 0.68
ACGTcount: A:0.26, C:0.19, G:0.23, T:0.33
Consensus pattern (42 bp):
ATATATATATCCGGGTTAAATCCCGCAGGCTTCATGCTGGTA
Found at i:82909566 original size:21 final size:22
Alignment explanation
Indices: 82909540--82909602 Score: 83
Period size: 21 Copynumber: 2.9 Consensus size: 22
82909530 TTGGTATTTG
82909540 GGAATTGGTACGAAATGGTAT-
1 GGAATTGGTACGAAATGGTATA
*
82909561 GGAATTGGTATGAAATGGTATA
1 GGAATTGGTACGAAATGGTATA
* * *
82909583 GTATTTGGTACGAATTGGTA
1 GGAATTGGTACGAAATGGTA
82909603 ATGGTTCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 20 0.56
22 16 0.44
ACGTcount: A:0.32, C:0.03, G:0.32, T:0.33
Consensus pattern (22 bp):
GGAATTGGTACGAAATGGTATA
Found at i:82911905 original size:16 final size:17
Alignment explanation
Indices: 82911866--82911903 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
82911856 TTTCACTTTC
82911866 TTTTTCTTTGATATTGT
1 TTTTTCTTTGATATTGT
82911883 TTTTTCTTTGATATTGT
1 TTTTTCTTTGATATTGT
82911900 TTTT
1 TTTT
82911904 CTCACAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.11, C:0.05, G:0.11, T:0.74
Consensus pattern (17 bp):
TTTTTCTTTGATATTGT
Found at i:82914121 original size:13 final size:13
Alignment explanation
Indices: 82914089--82914125 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
82914079 AAATTTTGGA
82914089 AATTTTTTTTTTC
1 AATTTTTTTTTTC
*
82914102 AAATTTTTTTTTC
1 AATTTTTTTTTTC
82914115 --TTTTTTTTTTC
1 AATTTTTTTTTTC
82914126 GAACTCCTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 10 0.45
13 12 0.55
ACGTcount: A:0.14, C:0.08, G:0.00, T:0.78
Consensus pattern (13 bp):
AATTTTTTTTTTC
Found at i:82914136 original size:25 final size:24
Alignment explanation
Indices: 82914091--82914138 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
82914081 ATTTTGGAAA
**
82914091 TTTTTTTTTTCAAATTTTTTTTTC
1 TTTTTTTTTTCAAATCCTTTTTTC
*
82914115 TTTTTTTTTTCGAACTCCTTTTTT
1 TTTTTTTTTTC-AAATCCTTTTTT
82914139 TTACGTACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.10, C:0.12, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTTTTTTTTCAAATCCTTTTTTC
Done.