Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 250 of 276
Found at i:82786793 original size:24 final size:24
Alignment explanation
Indices: 82786761--82786807 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
82786751 CCCAAAGACG
82786761 ATGAGCTTATTCGAAAAATTTGGC
1 ATGAGCTTATTCGAAAAATTTGGC
82786785 ATGAGCTTATTCGAAAAATTTGG
1 ATGAGCTTATTCGAAAAATTTGG
82786808 TGGTCAGGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (24 bp):
ATGAGCTTATTCGAAAAATTTGGC
Found at i:82789047 original size:24 final size:24
Alignment explanation
Indices: 82788985--82789048 Score: 58
Period size: 24 Copynumber: 2.7 Consensus size: 24
82788975 TGGGAGGTTG
*** **
82788985 GAGTGATTTATGGAGTGTATCATG
1 GAGTGATTTATGGAGAAAATCAAA
*
82789009 GAGAGATATTA-GGAGAAAATCAAA
1 GAGTGAT-TTATGGAGAAAATCAAA
82789033 GAGTGATTTATGGAGA
1 GAGTGATTTATGGAGA
82789049 GATTTAAGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.38, C:0.03, G:0.31, T:0.28
Consensus pattern (24 bp):
GAGTGATTTATGGAGAAAATCAAA
Found at i:82794000 original size:48 final size:47
Alignment explanation
Indices: 82793927--82794101 Score: 156
Period size: 48 Copynumber: 3.6 Consensus size: 47
82793917 TATGTATGCT
* * *
82793927 AGTGTAAGACTATTTTTGGGACATGGTATCGGCCACATAATGAGAACC
1 AGTGTAAGACCATGTTT-GGACATGGCATCGGCCACATAATGAGAACC
* ** * *
82793975 AGTGTAAGACCATGTTTGGATCATGGCATCGGCAATGTTATAAG-ACAC
1 AGTGTAAGACCATGTTTGGA-CATGGCATCGGCCACATAATGAGAAC-C
* * * * * *
82794023 AGAGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CATGTGAGCC
1 AGTGTAAGACCATGT-TTGGACATGGCATCGGCCAC-ATAATGAGAACC
82794071 AGTGTAAGACCATGTTTGGAACATGGCATCG
1 AGTGTAAGACCATGTTTGG-ACATGGCATCG
82794102 ACATTGTTAT
Statistics
Matches: 101, Mismatches: 20, Indels: 12
0.76 0.15 0.09
Matches are distributed among these distances:
47 8 0.08
48 88 0.87
49 5 0.05
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (47 bp):
AGTGTAAGACCATGTTTGGACATGGCATCGGCCACATAATGAGAACC
Found at i:82794096 original size:96 final size:96
Alignment explanation
Indices: 82793973--82794148 Score: 280
Period size: 96 Copynumber: 1.8 Consensus size: 96
82793963 ATAATGAGAA
* *
82793973 CCAGTGTAAGACCATGTTTGGATCATGGCATCGGCAATGTTATAAGACACAGAGTAAGACCATGT
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATAAGACACAGAGTAAGACCATGT
82794038 CTGGGACATGGCATCGGCCTCGACATGTGAG
66 CTGGGACATGGCATCGGCCTCGACATGTGAG
* * *** *
82794069 CCAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATATGTGTCAGTGTAAGACCATGT
1 CCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATAAGACACAGAGTAAGACCATGT
82794134 CTGGGACATGGCATC
66 CTGGGACATGGCATC
82794149 AACACTAATG
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (96 bp):
CCAGTGTAAGACCATGTTTGGAACATGGCATCGACAATGTTATAAGACACAGAGTAAGACCATGT
CTGGGACATGGCATCGGCCTCGACATGTGAG
Found at i:82794122 original size:48 final size:48
Alignment explanation
Indices: 82793974--82794204 Score: 201
Period size: 48 Copynumber: 4.8 Consensus size: 48
82793964 TAATGAGAAC
* * * * *
82793974 CAGTGTAAGACCATGTTTGGATCATGGCATCGGCAATGTTATAAGACA
1 CAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATATGAGA
* * * * ** * *
82794022 CAGAGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGC
1 CAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATATGAGA
* * * *
82794070 CAGTGTAAGACCATGTTTGGAACATGGCATCGACATTGTTATATGTGT
1 CAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATATGAGA
* ** * ** *
82794118 CAGTGTAAGACCATGTCTGGGACATGGCATCAACACTAATGTATGAGA
1 CAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATATGAGA
* * *
82794166 GCTAGTGTAAGACCATGTCCGGGACATGGCATCAGCATT
1 -C-AGTGTAAGACCATGTCTGGAACATGGCATCGGCATT
82794205 TTACCCTTTG
Statistics
Matches: 145, Mismatches: 36, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
48 111 0.77
49 1 0.01
50 33 0.23
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (48 bp):
CAGTGTAAGACCATGTCTGGAACATGGCATCGGCATTGTTATATGAGA
Found at i:82794916 original size:21 final size:21
Alignment explanation
Indices: 82794874--82794916 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
82794864 GTCTGTTTTG
*
82794874 TATGTTTATGCTTGGGTTGGT
1 TATGTTTATGCTTGGGTAGGT
*
82794895 TATGTTTGATG-TTGTGTAGGT
1 TATGTTT-ATGCTTGGGTAGGT
82794916 T
1 T
82794917 GGTGCAAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.12, C:0.02, G:0.33, T:0.53
Consensus pattern (21 bp):
TATGTTTATGCTTGGGTAGGT
Found at i:82795455 original size:20 final size:21
Alignment explanation
Indices: 82795416--82795455 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
82795406 GTTAAGAAGA
*
82795416 CACACGGGCATGTCGCCCTTC
1 CACACGAGCATGTCGCCCTTC
82795437 CACACGAGCATGT-GCCCTT
1 CACACGAGCATGTCGCCCTT
82795456 GTCTGCTTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.17, C:0.40, G:0.23, T:0.20
Consensus pattern (21 bp):
CACACGAGCATGTCGCCCTTC
Found at i:82796441 original size:48 final size:48
Alignment explanation
Indices: 82796364--82796463 Score: 146
Period size: 48 Copynumber: 2.1 Consensus size: 48
82796354 ACATGGTAGG
* * *
82796364 ATGCCAATGCCATATCCCAGATATAGTCTTACGTGGGATCACATATCA
1 ATGCAAATGCCATATCCCAGACATAGTCTTACATGGGATCACATATCA
* * *
82796412 ATGCAAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCG
1 ATGCAAATGCCATATCCCAGACATAGTCTTACATGGGATCACATATCA
82796460 ATGC
1 ATGC
82796464 CGATAGCCTA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (48 bp):
ATGCAAATGCCATATCCCAGACATAGTCTTACATGGGATCACATATCA
Found at i:82799780 original size:20 final size:21
Alignment explanation
Indices: 82799741--82799780 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
82799731 GTATGAATAT
* *
82799741 GTTGAAAATTAGAAATTTATG
1 GTTGAAAATGAGAAAGTTATG
82799762 GTTGAAAATGA-AAAGTTAT
1 GTTGAAAATGAGAAAGTTAT
82799781 TCATAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.45, C:0.00, G:0.20, T:0.35
Consensus pattern (21 bp):
GTTGAAAATGAGAAAGTTATG
Found at i:82813059 original size:37 final size:37
Alignment explanation
Indices: 82813009--82813083 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
82812999 TTCAAGATAG
*
82813009 ACTAAAAGTGGCTTCGGATAGGCAAATTTCTTTTGTA
1 ACTAAAAGTGGCTTCGGATAGGAAAATTTCTTTTGTA
82813046 ACTAAAAGTGGCTTCGGATAGGAAAATTTCTTTTGTA
1 ACTAAAAGTGGCTTCGGATAGGAAAATTTCTTTTGTA
82813083 A
1 A
82813084 AACTTAAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (37 bp):
ACTAAAAGTGGCTTCGGATAGGAAAATTTCTTTTGTA
Found at i:82816617 original size:20 final size:20
Alignment explanation
Indices: 82816584--82816627 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
82816574 TAAAAAAAGT
* *
82816584 AAATGCAATCGAAAGTAATA
1 AAATGCAATCGAAAATAAGA
82816604 AAATGCAAAT-GAAAATAAGA
1 AAATGC-AATCGAAAATAAGA
82816624 AAAT
1 AAAT
82816628 TTGAAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 18 0.86
21 3 0.14
ACGTcount: A:0.61, C:0.07, G:0.14, T:0.18
Consensus pattern (20 bp):
AAATGCAATCGAAAATAAGA
Found at i:82818712 original size:38 final size:38
Alignment explanation
Indices: 82818670--82818753 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 38
82818660 ATCAACATGC
* * *
82818670 CTACTGTTACTATTAAATTGAACACATGTTAAGCACGT
1 CTACTGTTACTATTAAACTAAACACATGTCAAGCACGT
* * * *
82818708 CTACTGCTACTATTGAACTAAATACATGTCAAGCATGT
1 CTACTGTTACTATTAAACTAAACACATGTCAAGCACGT
*
82818746 TTACTGTT
1 CTACTGTT
82818754 TTACATAATA
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.36
Consensus pattern (38 bp):
CTACTGTTACTATTAAACTAAACACATGTCAAGCACGT
Found at i:82818994 original size:85 final size:85
Alignment explanation
Indices: 82818851--82819008 Score: 217
Period size: 85 Copynumber: 1.9 Consensus size: 85
82818841 ACATTAGTGA
* * ** *
82818851 TTCATCCACAAATTACAGACAAATTGTATCAGCAAATATGTTTTGCATTTACAACAAGTGGCAAT
1 TTCATCCACAAATTACAGACAAATTGTACCAGCAAATATGTTGTGCATCCACAACAAGTAGCAAT
82818916 TTATTTGTATATACTGGTGG
66 TTATTTGTATATACTGGTGG
* * * * * *
82818936 TTCATCCACAAATTACTGACAACTTTTACCTGCAAATATGTTGTGCATCCATAACAAGTAGCATT
1 TTCATCCACAAATTACAGACAAATTGTACCAGCAAATATGTTGTGCATCCACAACAAGTAGCAAT
82819001 TTATTTGT
66 TTATTTGT
82819009 GAATGTTTTT
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 62 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (85 bp):
TTCATCCACAAATTACAGACAAATTGTACCAGCAAATATGTTGTGCATCCACAACAAGTAGCAAT
TTATTTGTATATACTGGTGG
Found at i:82831383 original size:23 final size:24
Alignment explanation
Indices: 82831332--82831398 Score: 100
Period size: 24 Copynumber: 2.8 Consensus size: 24
82831322 GTAATTTACT
*
82831332 GTCAATTCATACTTTAAATTTTTC
1 GTCAATTCATACTTTACATTTTTC
*
82831356 GTCAATTCATCCTTTACATTTTT-
1 GTCAATTCATACTTTACATTTTTC
*
82831379 TTCAATTCATACTTTACATT
1 GTCAATTCATACTTTACATT
82831399 CGTAGTGCCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
23 18 0.46
24 21 0.54
ACGTcount: A:0.27, C:0.19, G:0.03, T:0.51
Consensus pattern (24 bp):
GTCAATTCATACTTTACATTTTTC
Found at i:82835647 original size:24 final size:24
Alignment explanation
Indices: 82835620--82835670 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
82835610 TTACTTGGTA
*
82835620 ATTTACCATCAATTTATCCTTCAC
1 ATTTACCATCAATTCATCCTTCAC
** *
82835644 ATTTTTCATCAATTCATCCTTTAC
1 ATTTACCATCAATTCATCCTTCAC
82835668 ATT
1 ATT
82835671 CATAATGCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.00, T:0.47
Consensus pattern (24 bp):
ATTTACCATCAATTCATCCTTCAC
Found at i:82835730 original size:32 final size:32
Alignment explanation
Indices: 82835674--82835739 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
82835664 TTACATTCAT
**
82835674 AATGCCATAACCCAATTATGGTCTTATCAT-TA
1 AATGCCATAACCCAATTACAGTCTTA-CATATA
* *
82835706 AATGCCATAGCCCAGTTACAGTCTTACATATA
1 AATGCCATAACCCAATTACAGTCTTACATATA
82835738 AA
1 AA
82835740 CACTGTCATG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 3 0.10
32 26 0.90
ACGTcount: A:0.36, C:0.23, G:0.11, T:0.30
Consensus pattern (32 bp):
AATGCCATAACCCAATTACAGTCTTACATATA
Found at i:82835855 original size:101 final size:100
Alignment explanation
Indices: 82835669--82835901 Score: 286
Period size: 101 Copynumber: 2.3 Consensus size: 100
82835659 ATCCTTTACA
* * * ** *
82835669 TTCATAATGCCATAACCCAATTATGGTCTTATCATTAAATGCCATAGCCCAGTTACAGTCTTACA
1 TTCATAGTGCCACAACCCAGTTATGGTCTTATCATTAAATGCCATAGCCCAACTACAGTATTACA
* * *
82835734 TATAAACACTGTCATGGTCCAACCATAATCTTAAG
66 TACAAACACTGCCACGGTCCAACCATAATCTTAAG
* * * ** *
82835769 TTCATAGTGGCACAACCTAGTTATGGTCTTATCATTAGAATGTCATAGCCCAACTATGGTATTAT
1 TTCATAGTGCCACAACCCAGTTATGGTCTTATCATTA-AATGCCATAGCCCAACTACAGTATTAC
** *
82835834 ATACAAACACTGCCACGGTCCAACCATGCTCTTATG
65 ATACAAACACTGCCACGGTCCAACCATAATCTTAAG
*
82835870 TTCATAGTGCCATAACCCAGTTATGGTCTTAT
1 TTCATAGTGCCACAACCCAGTTATGGTCTTAT
82835902 TCGTCAATTC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
100 32 0.29
101 79 0.71
ACGTcount: A:0.31, C:0.24, G:0.14, T:0.32
Consensus pattern (100 bp):
TTCATAGTGCCACAACCCAGTTATGGTCTTATCATTAAATGCCATAGCCCAACTACAGTATTACA
TACAAACACTGCCACGGTCCAACCATAATCTTAAG
Found at i:82837670 original size:16 final size:16
Alignment explanation
Indices: 82837651--82837681 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
82837641 TATGATCTTT
82837651 TAAAATTCCAATTTAG
1 TAAAATTCCAATTTAG
*
82837667 TAAAATTGCAATTTA
1 TAAAATTCCAATTTA
82837682 ATCCCTCATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.10, G:0.06, T:0.39
Consensus pattern (16 bp):
TAAAATTCCAATTTAG
Found at i:82839429 original size:20 final size:20
Alignment explanation
Indices: 82839391--82839427 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
82839381 AATTACAAAC
82839391 TTAATTATATATTTTAAATT
1 TTAATTATATATTTTAAATT
*
82839411 TTAATTTTA-ATTTTAAA
1 TTAATTATATATTTTAAA
82839428 ATAAAATCAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 8 0.50
20 8 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAATTATATATTTTAAATT
Found at i:82839482 original size:26 final size:26
Alignment explanation
Indices: 82839443--82839492 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
82839433 ATCACAACAG
82839443 AATTGTAAAATTTAACAA-TAAATATA
1 AATTGTAAAATTT-ACAATTAAATATA
* *
82839469 AATTTTAAATTTTACAATTAAATA
1 AATTGTAAAATTTACAATTAAATA
82839493 AAAACATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (26 bp):
AATTGTAAAATTTACAATTAAATATA
Found at i:82847126 original size:154 final size:152
Alignment explanation
Indices: 82846938--82847236 Score: 490
Period size: 154 Copynumber: 2.0 Consensus size: 152
82846928 AAAGACAAAA
*
82846938 AAATTAATATTTTTTTGAAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
1 AAATTAATATTTTTTGGAAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
* * * * *
82847003 TTATATATTTTACCTAATTTATTAATATAAACGGTTATATTAATTAATTTTAATCAAAATATAAA
66 TTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAATCAAAAAATAAA
* *
82847068 ATACGTGGAAATTAAGACATGG
131 AGACATGGAAATTAAGACATGG
82847090 AAATTAATATTCTTTTGGAAAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAA
1 AAATTAATATT-TTTTGG-AAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAA
*
82847155 TTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAGTCAAAAAATA
64 TTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAATCAAAAAATA
*
82847220 GAAGACATGGAAATTAA
129 AAAGACATGGAAATTAA
82847237 TATTCTTTTG
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
152 11 0.08
153 5 0.04
154 119 0.88
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (152 bp):
AAATTAATATTTTTTGGAAAAGAATATAATTAATATATGAATTTGATTCATACAAAATATTAATT
TTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAATCAAAAAATAAA
AGACATGGAAATTAAGACATGG
Found at i:82847277 original size:138 final size:138
Alignment explanation
Indices: 82847081--82847673 Score: 1035
Period size: 138 Copynumber: 4.3 Consensus size: 138
82847071 CGTGGAAATT
82847081 AAGACATGGAAATTAATATTCTTTTGGAAAAAGAATATAATTAATATATGAATTTGATTCATACA
1 AAGACATGGAAATTAATATTCTTTTGG--AAAGAATATAATTAATATATGAATTTGATTCATACA
82847146 AAATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAGT
64 AAATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAGT
82847211 CAAAAAATAG
129 CAAAAAATAG
82847221 AAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAA
1 AAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAA
82847286 ATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAGTCA
66 ATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAGTCA
82847351 AAAAATAG
131 AAAAATAG
82847359 AAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAA
1 AAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAA
82847424 ATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAGTCA
66 ATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAGTCA
82847489 AAAAATAG
131 AAAAATAG
**
82847497 AAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATGGAAA
1 AAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAA
* * ** * *
82847562 ATATTAATTGTATACATTTTATTGAATTTATTAATATAAACAATTATATTAATTAATTTCAGTC-
66 ATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAGTCA
* *
82847626 AAATATAA
131 AAAAATAG
* * * *
82847634 AAGATATGAAAATTAATATTCTTCTGAAAAGAATATAATT
1 AAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATT
82847674 CATTTTTCTA
Statistics
Matches: 439, Mismatches: 14, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
137 42 0.10
138 370 0.84
140 27 0.06
ACGTcount: A:0.45, C:0.07, G:0.09, T:0.39
Consensus pattern (138 bp):
AAGACATGGAAATTAATATTCTTTTGGAAAGAATATAATTAATATATGAATTTGATTCATACAAA
ATATTAATTTTATATATTTTACCGAATTTATTAATATAAACAGTTATACTAATTAATTTCAGTCA
AAAAATAG
Found at i:82847772 original size:75 final size:75
Alignment explanation
Indices: 82847649--82847795 Score: 249
Period size: 75 Copynumber: 2.0 Consensus size: 75
82847639 ATGAAAATTA
82847649 ATATTCTTCTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
1 ATATTCTTCTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
82847714 GAATAATTCT
66 GAATAATTCT
* * ** *
82847724 ATATTCTTTTGGAAAGAATATAATTTTTTTTTCTAACTTTCCATTTGTCTTCTCTATTACTAAGG
1 ATATTCTTCTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
82847789 GAATAAT
66 GAATAAT
82847796 CCTGATTTTC
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 67 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.47
Consensus pattern (75 bp):
ATATTCTTCTGAAAAGAATATAATTCATTTTTCTAACTTTCCATTTGTCTTCTCTATTAATAAGG
GAATAATTCT
Found at i:82860496 original size:14 final size:14
Alignment explanation
Indices: 82860477--82860539 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 14
82860467 ATTGGCACAT
82860477 ATATACACTTTCAC
1 ATATACACTTTCAC
82860491 ATATACACTTTCAC
1 ATATACACTTTCAC
82860505 ATATTAGGC-CTTATCAC
1 ATA-TA--CACTT-TCAC
82860522 ATATATACACTTTCAC
1 --ATATACACTTTCAC
82860538 AT
1 AT
82860540 TCATCACATC
Statistics
Matches: 42, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
14 19 0.45
15 2 0.05
16 8 0.19
17 8 0.19
18 2 0.05
19 3 0.07
ACGTcount: A:0.35, C:0.25, G:0.03, T:0.37
Consensus pattern (14 bp):
ATATACACTTTCAC
Found at i:82860523 original size:47 final size:47
Alignment explanation
Indices: 82860472--82860642 Score: 240
Period size: 47 Copynumber: 3.6 Consensus size: 47
82860462 ATCACATTGG
* *
82860472 CACATATATACACTTTCACA-T-ATACACTTTC-ACATATTAGGCCTTAT
1 CACATATATACACTTTCACATTCAT-CAC-ATCGGC-TATTAGGCCTTAT
82860519 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
*
82860566 CACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTAT
1 CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
* * *
82860613 CTCATATATGCACTTTCACATCCATCACAT
1 CACATATATACACTTTCACATTCATCACAT
82860643 AGAATCCTAA
Statistics
Matches: 115, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
47 108 0.94
48 5 0.04
49 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (47 bp):
CACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTAT
Found at i:82860575 original size:80 final size:80
Alignment explanation
Indices: 82860431--82860586 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
82860421 TTAGCCATTC
* * *
82860431 GGCCTTACCACATATATTCATGTTCACATTCATCACATTGGCACATATATACACTTTCACATATA
1 GGCCTTACCACATATATACATGTTCACATTCATCACATCGGCACATATAGACACTTTCACATATA
82860496 CACTTTCACATATTA
66 CACTTTCACATATTA
* * *
82860511 GGCCTTATCACATATATACACT-TTCACATTCATCACATCGGC-TAT-TAGGC-CTTATCACATA
1 GGCCTTACCACATATATACA-TGTTCACATTCATCACATCGGCACATATAGACACTT-TCAC--A
82860572 TATACACTTTCACAT
62 TATACACTTTCACAT
82860587 TCATCACATC
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
77 3 0.05
78 7 0.11
79 2 0.03
80 53 0.80
81 1 0.02
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (80 bp):
GGCCTTACCACATATATACATGTTCACATTCATCACATCGGCACATATAGACACTTTCACATATA
CACTTTCACATATTA
Found at i:82872594 original size:40 final size:40
Alignment explanation
Indices: 82872546--82872831 Score: 427
Period size: 40 Copynumber: 7.2 Consensus size: 40
82872536 GGACTAAGAT
82872546 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
82872586 CCGAAGGCATTTGTGCTAGCTACTATAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAG-TC
82872626 CCGAAGGCATTTGTGCTAGTTACTATATCCGGG-TGAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCT-AAGTC
* * *
82872666 CCGAAGGCATTTGTGCTAGTTACTACAACCGGACTAAGAT-
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAG-TC
*
82872706 CCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
82872746 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
* * *
82872786 CCGAAGGCATTTGTGCGAGTTGCTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
82872825 CCGAAGG
1 CCGAAGG
82872832 TACTTGGGTT
Statistics
Matches: 225, Mismatches: 15, Indels: 13
0.89 0.06 0.05
Matches are distributed among these distances:
39 18 0.08
40 204 0.91
41 3 0.01
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTC
Found at i:82872665 original size:80 final size:79
Alignment explanation
Indices: 82872530--82872831 Score: 489
Period size: 80 Copynumber: 3.8 Consensus size: 79
82872520 TATTCGGATG
82872530 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCC-GGCTAAGTCCCGAAGGCA
*
82872595 TTTGTGCTAGCTACT
65 TTTGTGCTAGTTACT
*
82872610 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGGTGAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGCT-AAGTCCCGAAGGCA
82872675 TTTGTGCTAGTTACT
65 TTTGTGCTAGTTACT
*
82872690 ACAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGACTAAGTCCCGAAGGCA
1 ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGG-CTAAGTCCCGAAGGCA
82872755 TTTGTGCTAGTTACT
65 TTTGTGCTAGTTACT
* * * * *
82872770 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTGCTATATCCGGCTAAATCCCGAAGG
1 ATAACCGGACTAAGAT-CCGAAGGCATTTGTGCTAGTTACTATATCCGGCTAAGTCCCGAAGG
82872832 TACTTGGGTT
Statistics
Matches: 209, Mismatches: 10, Indels: 7
0.92 0.04 0.03
Matches are distributed among these distances:
79 17 0.08
80 191 0.91
81 1 0.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.27
Consensus pattern (79 bp):
ATAACCGGACTAAGATCCGAAGGCATTTGTGCTAGTTACTATATCCGGCTAAGTCCCGAAGGCAT
TTGTGCTAGTTACT
Found at i:82878188 original size:13 final size:13
Alignment explanation
Indices: 82878170--82878195 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
82878160 ATATTATAAT
82878170 TATTTTATGTTAA
1 TATTTTATGTTAA
82878183 TATTTTATGTTAA
1 TATTTTATGTTAA
82878196 AAATAAAAAT
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:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (13 bp):
TATTTTATGTTAA
Found at i:82879657 original size:39 final size:40
Alignment explanation
Indices: 82879572--82879657 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
82879562 GGACTAAGAT
* *
82879572 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAATC
82879612 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAATC
82879651 CCGAAGG
1 CCGAAGG
82879658 TACTTGGGTT
Statistics
Matches: 43, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
39 15 0.35
40 26 0.60
41 2 0.05
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAATC
Found at i:82881249 original size:29 final size:29
Alignment explanation
Indices: 82881217--82881291 Score: 71
Period size: 29 Copynumber: 2.6 Consensus size: 29
82881207 GGCCCATCTG
*
82881217 GCCCAGTTCATATTCTTATGACCCAATAA
1 GCCCAGTTCATATTCATATGACCCAATAA
* * * * * *
82881246 GCCCAATTTACATTCATATGGCCCATTAG
1 GCCCAGTTCATATTCATATGACCCAATAA
*
82881275 GCCCAGATCATA-TCATA
1 GCCCAGTTCATATTCATA
82881292 CTCATGCTCA
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
28 5 0.14
29 30 0.86
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (29 bp):
GCCCAGTTCATATTCATATGACCCAATAA
Found at i:82881534 original size:24 final size:24
Alignment explanation
Indices: 82881504--82881562 Score: 75
Period size: 24 Copynumber: 2.5 Consensus size: 24
82881494 GTAGCCTAAC
** *
82881504 TTTCGGCTTTTTGGCATTTC-ATCT
1 TTTCGGCTTTTCAGCATTTCGA-CA
82881528 TTTCGGCTTTTCAGCATTTCGACA
1 TTTCGGCTTTTCAGCATTTCGACA
82881552 TTTCGGCTTTT
1 TTTCGGCTTTT
82881563 GCCGATTCAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.10, C:0.22, G:0.17, T:0.51
Consensus pattern (24 bp):
TTTCGGCTTTTCAGCATTTCGACA
Found at i:82897294 original size:39 final size:40
Alignment explanation
Indices: 82897251--82897418 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
82897241 CTCGTTCAAG
* * * *
82897251 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
82897290 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
82897330 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * * * *
82897370 GGCCTTCGGGACTTAACCCGAAATTA-ATAACTCGCACAAA
1 TGCCTTCGGGACTTAACCCG-GATTATAAAACTCACACGAA
82897410 TGCCTTCGG
1 TGCCTTCGG
82897419 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
39 26 0.24
40 79 0.72
41 3 0.03
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:82897340 original size:40 final size:39
Alignment explanation
Indices: 82897288--82897418 Score: 181
Period size: 40 Copynumber: 3.3 Consensus size: 39
82897278 TAACTCATAC
* *
82897288 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAAAACTCGCACA
* *
82897328 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTA-AAACTCGCACA
* *
82897368 AAGGCCTTCGGGACTTAACCCGAAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAA-AACTCGCACA
82897408 AATGCCTTCGG
1 AATGCCTTCGG
82897419 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 3 0.04
40 77 0.96
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGAATTAAAACTCGCACA
Found at i:82897431 original size:80 final size:79
Alignment explanation
Indices: 82897251--82897469 Score: 214
Period size: 80 Copynumber: 2.8 Consensus size: 79
82897241 CTCGTTCAAG
* * * * * * * **
82897251 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCA-TACAATGCCTTCGGGACTTAACCCGGATTT
1 TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCC-GAAAT
*
82897315 TAAAACTCGCACGAA
65 TAAAACTCGCACAAA
*
82897330 TGCCTTCGGGACTTAACCCGGA-ATTAGT-A-TCTCGCACAAAGGCCTTCGGGACTTAACCCGAA
1 TGCCTTCGGGACTTAACCCGGATA-TAGTCACT-TAGCACAAA-GCCTTCGGGACTTAACCCGAA
82897392 ATTAATAACTCGCACAAA
63 ATTAA-AACTCGCACAAA
** * *
82897410 TGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAGCCTTCGGAACTTAGCCCG
1 TGCCTTCGGGA-CTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCG
82897470 GACAGCATTC
Statistics
Matches: 116, Mismatches: 15, Indels: 17
0.78 0.10 0.11
Matches are distributed among these distances:
77 1 0.01
78 2 0.02
79 36 0.31
80 66 0.57
81 10 0.09
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACTTAACCCGGATATAGTCACTTAGCACAAAGCCTTCGGGACTTAACCCGAAATT
AAAACTCGCACAAA
Found at i:82904658 original size:48 final size:48
Alignment explanation
Indices: 82904578--82904717 Score: 244
Period size: 48 Copynumber: 2.9 Consensus size: 48
82904568 NNNNNNNNNN
* * *
82904578 TTTACCACATATACACATCACACATATTTTTCACATTAGCCATTCGGC
1 TTTACCACATATACATATCACAAATATATTTCACATTAGCCATTCGGC
*
82904626 TTTACCACATATACATATCACATATATATTTCACATTAGCCATTCGGC
1 TTTACCACATATACATATCACAAATATATTTCACATTAGCCATTCGGC
82904674 TTTACCACATATACATATCACAAATATATTTCACATTAGCCATT
1 TTTACCACATATACATATCACAAATATATTTCACATTAGCCATT
82904718 ATTTTCCTTA
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 88 1.00
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (48 bp):
TTTACCACATATACATATCACAAATATATTTCACATTAGCCATTCGGC
Found at i:82907042 original size:40 final size:40
Alignment explanation
Indices: 82906996--82907241 Score: 350
Period size: 40 Copynumber: 6.2 Consensus size: 40
82906986 CCGAATACAC
* * * *
82906996 ATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* * ** *
82907036 AACACCAGCACGAATGCTCTTCGGGGTTTAGCCCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
* *
82907076 ATCACTAGCACGAATGCTCTTCGGGACTTAGACCGGATAC
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
*
82907116 ATCACTAGCACGAATGCT-TCTCGGAACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCT-TCGGGACTTAGCCCGGATAT
* *
82907156 ATCACAAGCACGAATGCTCCTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
82907196 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
1 ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
82907236 ATCACT
1 ATCACT
82907242 CTCAATTCTC
Statistics
Matches: 184, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 1 0.01
40 183 0.99
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
ATCACTAGCACGAATGCTCTTCGGGACTTAGCCCGGATAT
Found at i:82908709 original size:48 final size:48
Alignment explanation
Indices: 82908628--82909069 Score: 636
Period size: 48 Copynumber: 9.1 Consensus size: 48
82908618 NNNNNNNNNN
* *
82908628 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTC
1 GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
** *
82908676 GGCTTTACCACATATACATATCTCATACGTATTTCACATTCGCCATTC
1 GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
* * * *
82908724 GGCTTTACCACATATACATATCACACATATTTTTCACATTAGGCATTC
1 GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
82908772 GGCTTTACCACATATACATAT-TACATATATATTTCACATTAGCCATTC
1 GGCTTTACCACATATACATATCT-CATATATATTTCACATTAGCCATTC
* * * *
82908820 GGCTTTACCACATATACATATCTCATACATATTTCACTTTCGCCATTT
1 GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
* * * *
82908868 GGCTTTACCACA-ATACATATCACACATATTTTTCACATTAGCCATTA
1 GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
* *
82908915 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTC
1 GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
82908963 GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
1 GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
82909011 GGCTTTACCACATATACATATCTCATATACACATATTTTTCACATTAGCCATTC
1 GGCTTTACCACATATACATATCTCATAT----ATA--TTTCACATTAGCCATTC
82909065 GGCTT
1 GGCTT
82909070 CATATCACAC
Statistics
Matches: 354, Mismatches: 31, Indels: 12
0.89 0.08 0.03
Matches are distributed among these distances:
47 40 0.11
48 288 0.81
49 1 0.00
52 3 0.01
54 22 0.06
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (48 bp):
GGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
Found at i:82908953 original size:191 final size:192
Alignment explanation
Indices: 82908628--82909069 Score: 672
Period size: 191 Copynumber: 2.3 Consensus size: 192
82908618 NNNNNNNNNN
* * *
82908628 GGCTTTACCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTTACCACATATAC
1 GGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC
* * * * * *
82908693 ATATCTCATACGTATTTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATTTTT
66 ATATCACACACATATTTCACATTAGCCATTAGGCTTTACCACATATACATATCACACATATATTT
*
82908758 CACATTAGGCATTCGGCTTTACCACATATACATAT-TACATATATATTTCACATTAGCCATTC
131 CACATTAGCCATTCGGCTTTACCACATATACATATCT-CATATATATTTCACATTAGCCATTC
* * *
82908820 GGCTTTACCACATATACATATCTCATACATATTTCACTTTCGCCATTTGGCTTTACCACA-ATAC
1 GGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC
* *
82908884 ATATCACACATATTTTTCACATTAGCCATTAGGCTTTACCACATATACATATCACACATATATTT
66 ATATCACACACATATTTCACATTAGCCATTAGGCTTTACCACATATACATATCACACATATATTT
82908949 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
131 CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
82909011 GGCTTTACCACATATACATATCTCATATACACATATTTTTCACATTAGCCATTCGGCTT
1 GGCTTTACCACATATACATATCTC--AT--ACATA--TTTCACATTAGCCATTCGGCTT
82909070 CATATCACAC
Statistics
Matches: 225, Mismatches: 18, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
191 144 0.64
192 55 0.24
193 2 0.01
195 5 0.02
197 19 0.08
ACGTcount: A:0.31, C:0.26, G:0.07, T:0.36
Consensus pattern (192 bp):
GGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATAC
ATATCACACACATATTTCACATTAGCCATTAGGCTTTACCACATATACATATCACACATATATTT
CACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAGCCATTC
Found at i:82916042 original size:15 final size:16
Alignment explanation
Indices: 82916022--82916051 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
82916012 CCTACGGAAG
82916022 CTTTCTTTAT-TTTCC
1 CTTTCTTTATATTTCC
82916037 CTTTCTTTATATTTC
1 CTTTCTTTATATTTC
82916052 GGTCAAAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.10, C:0.23, G:0.00, T:0.67
Consensus pattern (16 bp):
CTTTCTTTATATTTCC
Found at i:82926276 original size:54 final size:53
Alignment explanation
Indices: 82926217--82926373 Score: 226
Period size: 53 Copynumber: 2.9 Consensus size: 53
82926207 GGCATATCGA
82926217 TCATTTTACCTTATAGGGGTATTACTGTCATTTTACCTTATAGGGGTATTACAG
1 TCATTTTACCTTATAGGGGTATTAC-GTCATTTTACCTTATAGGGGTATTACAG
* * *
82926271 TCATTTTACCCTACAGGGGTATTACAGTCATTTTACCTTACA-GGGTATTACAG
1 TCATTTTACCTTATAGGGGTATTAC-GTCATTTTACCTTATAGGGGTATTACAG
* * *
82926324 TCATTTTACCTTATAGGGGTATTTCGATCATTTTACCCTATGGGGGTATT
1 TCATTTTACCTTATAGGGGTATTACG-TCATTTTACCTTATAGGGGTATT
82926374 TCGGTTATTT
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
52 1 0.01
53 45 0.49
54 45 0.49
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (53 bp):
TCATTTTACCTTATAGGGGTATTACGTCATTTTACCTTATAGGGGTATTACAG
Found at i:82926384 original size:27 final size:27
Alignment explanation
Indices: 82926217--82926373 Score: 228
Period size: 27 Copynumber: 5.9 Consensus size: 27
82926207 GGCATATCGA
*
82926217 TCATTTTACCTTATAGGGGTATTACTG
1 TCATTTTACCTTATAGGGGTATTACAG
82926244 TCATTTTACCTTATAGGGGTATTACAG
1 TCATTTTACCTTATAGGGGTATTACAG
* *
82926271 TCATTTTACCCTACAGGGGTATTACAG
1 TCATTTTACCTTATAGGGGTATTACAG
*
82926298 TCATTTTACCTTACA-GGGTATTACAG
1 TCATTTTACCTTATAGGGGTATTACAG
*
82926324 TCATTTTACCTTATAGGGGTATTTC-G
1 TCATTTTACCTTATAGGGGTATTACAG
* *
82926350 ATCATTTTACCCTATGGGGGTATT
1 -TCATTTTACCTTATAGGGGTATT
82926374 TCGGTTATTT
Statistics
Matches: 120, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
26 26 0.22
27 94 0.78
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (27 bp):
TCATTTTACCTTATAGGGGTATTACAG
Found at i:82926384 original size:80 final size:81
Alignment explanation
Indices: 82926217--82926373 Score: 246
Period size: 80 Copynumber: 2.0 Consensus size: 81
82926207 GGCATATCGA
* *
82926217 TCATTTTACCTTATAGGGGTATTACTGTCATTTTACCTTATAGGGGTATTACAGTCATTTTACCC
1 TCATTTTACCTTACAGGGGTATTACAGTCATTTTACCTTATAGGGGTATTACAGTCATTTTACCC
82926282 TACAGGGGTATTACAG
66 TACAGGGGTATTACAG
*
82926298 TCATTTTACCTTACA-GGGTATTACAGTCATTTTACCTTATAGGGGTATTTC-GATCATTTTACC
1 TCATTTTACCTTACAGGGGTATTACAGTCATTTTACCTTATAGGGGTATTACAG-TCATTTTACC
**
82926361 CTATGGGGGTATT
65 CTACAGGGGTATT
82926374 TCGGTTATTT
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
79 1 0.01
80 55 0.79
81 14 0.20
ACGTcount: A:0.24, C:0.17, G:0.18, T:0.41
Consensus pattern (81 bp):
TCATTTTACCTTACAGGGGTATTACAGTCATTTTACCTTATAGGGGTATTACAGTCATTTTACCC
TACAGGGGTATTACAG
Found at i:82931321 original size:200 final size:200
Alignment explanation
Indices: 82930978--82931377 Score: 791
Period size: 200 Copynumber: 2.0 Consensus size: 200
82930968 TCGGATCGTG
82930978 GAAAAAGGGAAATTGGTCGAATAGTCAGAATTGACGTACATTAGCGATCGAGGTAAGTTTTAAGT
1 GAAAAAGGGAAATTGGTCGAATAGTCAGAATTGACGTACATTAGCGATCGAGGTAAGTTTTAAGT
82931043 ATTAAAGCCTATAATGTGATTGAGTATGATATGTTAAGCACATATTAAAAGAATCATAACTCTAT
66 ATTAAAGCCTATAATGTGATTGAGTATGATATGTTAAGCACATATTAAAAGAATCATAACTCTAT
*
82931108 TGTAAATTTTTATGCATATAGCCTAATGGCTATTATGAAGTATAGGTAAGTTATTGATATGATAT
131 TGTAAATTTTTATGCATATAGCCTAATGGCTATTATGAAGTATAAGTAAGTTATTGATATGATAT
82931173 GTTGC
196 GTTGC
82931178 GAAAAAGGGAAATTGGTCGAATAGTCAGAATTGACGTACATTAGCGATCGAGGTAAGTTTTAAGT
1 GAAAAAGGGAAATTGGTCGAATAGTCAGAATTGACGTACATTAGCGATCGAGGTAAGTTTTAAGT
82931243 ATTAAAGCCTATAATGTGATTGAGTATGATATGTTAAGCACATATTAAAAGAATCATAACTCTAT
66 ATTAAAGCCTATAATGTGATTGAGTATGATATGTTAAGCACATATTAAAAGAATCATAACTCTAT
82931308 TGTAAATTTTTATGCATATAGCCTAATGGCTATTATGAAGTATAAGTAAGTTATTGATATGATAT
131 TGTAAATTTTTATGCATATAGCCTAATGGCTATTATGAAGTATAAGTAAGTTATTGATATGATAT
82931373 GTTGC
196 GTTGC
82931378 CAAATGGATA
Statistics
Matches: 199, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.37, C:0.09, G:0.20, T:0.34
Consensus pattern (200 bp):
GAAAAAGGGAAATTGGTCGAATAGTCAGAATTGACGTACATTAGCGATCGAGGTAAGTTTTAAGT
ATTAAAGCCTATAATGTGATTGAGTATGATATGTTAAGCACATATTAAAAGAATCATAACTCTAT
TGTAAATTTTTATGCATATAGCCTAATGGCTATTATGAAGTATAAGTAAGTTATTGATATGATAT
GTTGC
Found at i:82932168 original size:47 final size:47
Alignment explanation
Indices: 82932110--82932316 Score: 306
Period size: 47 Copynumber: 4.4 Consensus size: 47
82932100 CAGCCAAGAC
* *
82932110 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
* *
82932157 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
82932204 AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
* * * * * *
82932251 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
* *
82932298 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
82932317 TCCCGAAGGG
Statistics
Matches: 146, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 146 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.28
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
Found at i:82932491 original size:37 final size:37
Alignment explanation
Indices: 82932438--82932513 Score: 109
Period size: 37 Copynumber: 2.1 Consensus size: 37
82932428 AGCTCTAAAT
* *
82932438 ACCCGATGACTACGTGTGG-GAATTTTGTCCGGGTAAG
1 ACCCGATAACTACGTGTGGAG-ATTATGTCCGGGTAAG
*
82932475 ACCCGATAACTTCGTGTGGAGATTATGTCCGGGTAAG
1 ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAAG
82932512 AC
1 AC
82932514 TTCGTAATAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
37 34 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.26
Consensus pattern (37 bp):
ACCCGATAACTACGTGTGGAGATTATGTCCGGGTAAG
Found at i:82944449 original size:40 final size:40
Alignment explanation
Indices: 82944419--82944586 Score: 203
Period size: 40 Copynumber: 4.2 Consensus size: 40
82944409 GGACTAAGAT
* *
82944419 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* *
82944459 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* ** * *
82944499 CCGAAGGCATTCGTGCGAGTTGTTGAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
* * * * *
82944539 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
82944578 CCGAAGGCA
1 CCGAAGGCA
82944587 CTTGAACGAG
Statistics
Matches: 115, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 31 0.27
40 84 0.73
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGATACTAAATCCGGGTTAAGTC
Found at i:82944503 original size:80 final size:79
Alignment explanation
Indices: 82944366--82944586 Score: 237
Period size: 80 Copynumber: 2.8 Consensus size: 79
82944356 ATGAATGCTG
* * * * * * *
82944366 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCCGAAGGCATT
*
82944430 TGTGCGAGATACTAAA
64 CGTGCGAGATACTAAA
* *
82944446 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTC
* ** *
82944511 GTGCGAGTTGTTGAA
65 GTGCGAGATACTAAA
* * * * *
82944526 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCA
82944587 CTTGAACGAG
Statistics
Matches: 119, Mismatches: 20, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 33 0.28
80 82 0.69
81 4 0.03
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAA
Found at i:82944608 original size:79 final size:80
Alignment explanation
Indices: 82944444--82944623 Score: 197
Period size: 79 Copynumber: 2.3 Consensus size: 80
82944434 CGAGATACTA
* * *
82944444 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAT
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
** ** *
82944509 TCGTGCGAGTTGTTG
66 TCGAACGAGGAGCTG
* * *
82944524 AATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCAC
1 AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCA-
82944588 TT-GAACGAGGAGCT-
65 TTCGAACGAGGAGCTG
* *
82944602 ATATCC-GGTTAAATTCCGAAGG
1 A-ATCCGGGTTAAGTCCCGAAGG
82944624 TACGTGATTT
Statistics
Matches: 84, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
78 14 0.17
79 43 0.51
80 27 0.32
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
AATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAT
TCGAACGAGGAGCTG
Found at i:82946380 original size:40 final size:40
Alignment explanation
Indices: 82946336--82946424 Score: 178
Period size: 40 Copynumber: 2.2 Consensus size: 40
82946326 TTTATTCTCA
82946336 ACTATTAAATATATTTTTCAGAACAACAATTCTACTAGGT
1 ACTATTAAATATATTTTTCAGAACAACAATTCTACTAGGT
82946376 ACTATTAAATATATTTTTCAGAACAACAATTCTACTAGGT
1 ACTATTAAATATATTTTTCAGAACAACAATTCTACTAGGT
82946416 ACTATTAAA
1 ACTATTAAA
82946425 GAAGAGAGAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.42, C:0.15, G:0.07, T:0.37
Consensus pattern (40 bp):
ACTATTAAATATATTTTTCAGAACAACAATTCTACTAGGT
Found at i:82947575 original size:21 final size:21
Alignment explanation
Indices: 82947534--82947577 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
82947524 AAAATTGTCA
*
82947534 TAGCATGTAACAACCTAGTTT
1 TAGCATGTAACAACCCAGTTT
*
82947555 TAGCATGTAACAACCCGGTTT
1 TAGCATGTAACAACCCAGTTT
82947576 TA
1 TA
82947578 ACAAATCTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (21 bp):
TAGCATGTAACAACCCAGTTT
Found at i:82949490 original size:40 final size:40
Alignment explanation
Indices: 82949460--82949669 Score: 278
Period size: 40 Copynumber: 5.3 Consensus size: 40
82949450 GGACTAAGAT
* * * *
82949460 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
*
82949500 CCGAAGGCATTCGTGTGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
82949540 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * *
82949580 CCGAAGGCATTCATGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * * * *
82949620 CCGAAAGCATT-GTGTGAGTTACTAAAACCGAGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
82949659 CCGAAGGCATT
1 CCGAAGGCATT
82949670 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 18, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 31 0.20
40 121 0.80
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:82949544 original size:80 final size:80
Alignment explanation
Indices: 82949407--82949669 Score: 280
Period size: 80 Copynumber: 3.3 Consensus size: 80
82949397 ATGAATGCTG
* * * * * **
82949407 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCCT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTG-TGAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCCT
*
82949470 TTGTGCGAGATACTAAA
64 TTGTGCGAGTTACTAAA
* * *
82949487 TCCGGGTTAAGTCCCGAAGGCATTCGTGTGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGTGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
82949552 GTGCGAGTTATTAAA
66 GTGCGAGTTACTAAA
* * * * * * *
82949567 TCCGGGTTAAGTCCCGAAGGCATTCATGCGAGTTGTTAAATCCGGGTTATGTCCCGAAAG-CATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGTGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
*
82949631 GTGTGAGTTACTAAA
66 GTGCGAGTTACTAAA
* * *
82949646 ACCGAGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
82949670 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 35 0.23
80 115 0.74
81 5 0.03
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGTGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCCTTT
GTGCGAGTTACTAAA
Found at i:82951979 original size:43 final size:41
Alignment explanation
Indices: 82951878--82952007 Score: 136
Period size: 43 Copynumber: 3.1 Consensus size: 41
82951868 GGTTATCGAG
* *
82951878 ATGTGATTACATGTAAGACCATGTCTGGGACATTGACATCGTT
1 ATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATTG-T
* * *
82951921 AAT-TGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATTGAT
1 -ATGTGATTACATGTAAGACCATGTCTGGGACA-TGGCATTG-T
* * *
82951964 ATGTGATAACATGTAAGACCATATCTGGGATATGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATGGCATTGT
82952005 ATG
1 ATG
82952008 AGCTTTTGTG
Statistics
Matches: 72, Mismatches: 13, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
41 4 0.06
42 10 0.14
43 56 0.78
44 2 0.03
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (41 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATGGCATTGT
Found at i:82958183 original size:27 final size:27
Alignment explanation
Indices: 82958152--82958326 Score: 208
Period size: 27 Copynumber: 6.4 Consensus size: 27
82958142 TAAATTGTAC
82958152 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
82958179 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
82958205 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
82958233 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
82958261 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
82958288 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
82958315 AGCACTGAGTGT
1 AGCACTAAGTGT
82958327 ACGGACTCAA
Statistics
Matches: 128, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 105 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:82958266 original size:82 final size:81
Alignment explanation
Indices: 82958153--82958308 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
82958143 AAATTGTACA
*
82958153 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
82958217 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
82958234 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
82958299 TGCGAGTTGA
65 TGCGAATTGA
82958309 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:82958320 original size:82 final size:81
Alignment explanation
Indices: 82958149--82958326 Score: 232
Period size: 82 Copynumber: 2.2 Consensus size: 81
82958139 GATTAAATTG
*
82958149 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
82958214 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
82958230 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
82958294 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
82958312 TATAGCACTGAGTGT
1 TACAGCACTAAGTGT
82958327 ACGGACTCAA
Statistics
Matches: 82, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.22
82 64 0.78
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.31
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:82960888 original size:94 final size:93
Alignment explanation
Indices: 82960726--82960937 Score: 230
Period size: 94 Copynumber: 2.2 Consensus size: 93
82960716 GGCCAACGCA
** * ****
82960726 ATGTCCCAGACATGGTCTTACACTGGCTCTCACATCTCCGTGCCGATGCATGTCGTTGACATGTC
1 ATGTCCCAGACAT-GTCTTACACTGGCTCT-ACATCTCAATGCCAATGCATGTCCCAAACATGTC
** * *
82960791 TTACGCTGGCT-TACATTGCGAGGCCGATGC
64 TTACAATGGCTCT-CATAGCGAGACCGATGC
* *
82960821 ATGTCCCAGACATGTCTTACACTGGCTCT-CGTTTCAATGCCAATGCCATGTCCCAAACATGGTC
1 ATGTCCCAGACATGTCTTACACTGGCTCTACATCTCAATGCCAATG-CATGTCCCAAACAT-GTC
* *
82960885 TTACAATGGCTCTCATAGTGTGACCGATGC
64 TTACAATGGCTCTCATAGCGAGACCGATGC
82960915 ATGTCCCAGACATGTCTTACACT
1 ATGTCCCAGACATGTCTTACACT
82960938 AGCGCACAAA
Statistics
Matches: 99, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
92 11 0.11
93 10 0.10
94 64 0.65
95 14 0.14
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (93 bp):
ATGTCCCAGACATGTCTTACACTGGCTCTACATCTCAATGCCAATGCATGTCCCAAACATGTCTT
ACAATGGCTCTCATAGCGAGACCGATGC
Found at i:82960918 original size:47 final size:45
Alignment explanation
Indices: 82960726--82960935 Score: 145
Period size: 46 Copynumber: 4.5 Consensus size: 45
82960716 GGCCAACGCA
* * **
82960726 ATGTCCCAGACATGGTCTTACACTGGCTCTCACATCTCCGTGCCGATGC
1 ATGTCCCAGACAT-GTCTTACAATGGCTCT--CATGT-AATGCCGATGC
*** ** ** *
82960775 ATGTCGTTGACATGTCTTACGCTGGCT-TACATTGCGAGGCCGATGC
1 ATGTCCCAGACATGTCTTACAATGGCTCT-CA-TGTAATGCCGATGC
* * * *
82960821 ATGTCCCAGACATGTCTTACACTGGCTCTCGTTTCAATGCCAATGCC
1 ATGTCCCAGACATGTCTTACAATGGCTCTCATGT-AATGCCGATG-C
* *
82960868 ATGTCCCAAACATGGTCTTACAATGGCTCTCATAGT-GTGACCGATGC
1 ATGTCCCAGACAT-GTCTTACAATGGCTCTCAT-GTAATG-CCGATGC
82960915 ATGTCCCAGACATGTCTTACA
1 ATGTCCCAGACATGTCTTACA
82960936 CTAGCGCACA
Statistics
Matches: 128, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
45 1 0.01
46 50 0.39
47 31 0.24
48 35 0.27
49 11 0.09
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (45 bp):
ATGTCCCAGACATGTCTTACAATGGCTCTCATGTAATGCCGATGC
Found at i:82972585 original size:20 final size:20
Alignment explanation
Indices: 82972562--82972606 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
82972552 GAAATATCGG
*
82972562 TACTTCCTTCAGAATATTGA
1 TACTTCATTCAGAATATTGA
82972582 TACTTCATTCAGAATATTGA
1 TACTTCATTCAGAATATTGA
82972602 TACTT
1 TACTT
82972607 TGAGCTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (20 bp):
TACTTCATTCAGAATATTGA
Found at i:82973062 original size:3 final size:3
Alignment explanation
Indices: 82973054--82973109 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
82973044 TCTACATGAC
82973054 ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT ATT
82973100 ATT ATT ATT A
1 ATT ATT ATT A
82973110 GCATTTACCA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:82973301 original size:4 final size:4
Alignment explanation
Indices: 82973287--82973320 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
82973277 AACATCCTTA
* *
82973287 ATAT TTAT ATAT ATAT ATAT ATAT ATAT AAAT AT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT
82973321 TAAGGATGTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:82973301 original size:6 final size:6
Alignment explanation
Indices: 82973287--82973320 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
82973277 AACATCCTTA
* *
82973287 ATATTT ATATAT ATATAT ATATAT ATATAA ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
82973321 TAAGGATGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:82978214 original size:49 final size:49
Alignment explanation
Indices: 82978151--82978249 Score: 180
Period size: 49 Copynumber: 2.0 Consensus size: 49
82978141 TTTTGAGTAC
* *
82978151 TTATTTTCTAAAGTCCAAAGTTGGCTTCAAAGTTATTGTTAACATTATT
1 TTATTTTCTAAAGTCCAAAATTGGCTTCAAAGTGATTGTTAACATTATT
82978200 TTATTTTCTAAAGTCCAAAATTGGCTTCAAAGTGATTGTTAACATTATT
1 TTATTTTCTAAAGTCCAAAATTGGCTTCAAAGTGATTGTTAACATTATT
82978249 T
1 T
82978250 AGTTACAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.44
Consensus pattern (49 bp):
TTATTTTCTAAAGTCCAAAATTGGCTTCAAAGTGATTGTTAACATTATT
Found at i:82982395 original size:34 final size:34
Alignment explanation
Indices: 82982339--82982419 Score: 117
Period size: 34 Copynumber: 2.4 Consensus size: 34
82982329 CCATCTTAGT
* *
82982339 ACAGTATCAAATATGCAATAGGGTCTTAGCCCATC
1 ACAGTATC-AGTATGCAATAGGGCCTTAGCCCATC
*
82982374 ACAGTATCAGTATGCATTAGGGCCTTAGCCCATC
1 ACAGTATCAGTATGCAATAGGGCCTTAGCCCATC
*
82982408 ACAGTATTAGTA
1 ACAGTATCAGTA
82982420 GCAGTCATGC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
34 34 0.81
35 8 0.19
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (34 bp):
ACAGTATCAGTATGCAATAGGGCCTTAGCCCATC
Found at i:82983492 original size:12 final size:11
Alignment explanation
Indices: 82983477--82983570 Score: 75
Period size: 12 Copynumber: 7.9 Consensus size: 11
82983467 GGCAGAGAAC
82983477 AAAGAAGAAGA
1 AAAGAAGAAGA
*
82983488 GAAAGAAAGAAATA
1 -AAAG-AAG-AAGA
*
82983502 AAAAAAGAA-A
1 AAAGAAGAAGA
82983512 GAAAGAAAGAA-A
1 -AAAG-AAGAAGA
82983524 GAAAGAAGAAGA
1 -AAAGAAGAAGA
82983536 AGAAGAAGAAGA
1 A-AAGAAGAAGA
82983548 AGAAGAAGAAGA
1 A-AAGAAGAAGA
82983560 AGAAGAAGAAG
1 A-AAGAAGAAG
82983571 TGGAGGAAAA
Statistics
Matches: 73, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
10 1 0.01
11 11 0.15
12 52 0.71
13 6 0.08
14 3 0.04
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.01
Consensus pattern (11 bp):
AAAGAAGAAGA
Found at i:82983496 original size:4 final size:4
Alignment explanation
Indices: 82983477--82983530 Score: 74
Period size: 4 Copynumber: 13.5 Consensus size: 4
82983467 GGCAGAGAAC
* *
82983477 AAAG -AAG AAGAG AAAG AAAG AAAT AAAA AAAG AAAG AAAG AAAG AAAG
1 AAAG AAAG AA-AG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG AAAG
82983525 AAAG AA
1 AAAG AA
82983531 GAAGAAGAAG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
3 3 0.07
4 38 0.84
5 4 0.09
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (4 bp):
AAAG
Found at i:82983534 original size:3 final size:3
Alignment explanation
Indices: 82983526--82983570 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
82983516 GAAAGAAAGA
82983526 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
82983571 TGGAGGAAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:82989677 original size:33 final size:34
Alignment explanation
Indices: 82989633--82989699 Score: 93
Period size: 33 Copynumber: 2.0 Consensus size: 34
82989623 ACAGTCAAAT
*
82989633 ACAGTTTTGGGCCTAAGCCCCT-TCAGTATCAGTA
1 ACAGTTTTGGGCCTAAGCCCATCTCAGTA-CAGTA
*
82989667 ACAG-TTTGGGCCTTAGCCCATCTCAGTACAGTA
1 ACAGTTTTGGGCCTAAGCCCATCTCAGTACAGTA
82989700 TCAAATATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
33 20 0.67
34 10 0.33
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (34 bp):
ACAGTTTTGGGCCTAAGCCCATCTCAGTACAGTA
Found at i:82989693 original size:34 final size:34
Alignment explanation
Indices: 82989633--82989780 Score: 104
Period size: 34 Copynumber: 4.2 Consensus size: 34
82989623 ACAGTCAAAT
* * *
82989633 ACAGTTTTGGGCCTAAGCCCCT-TCAGTATCAGTA
1 ACAG-TTTGGGCCTTAGCCCATCACAGTATCAGTA
*
82989667 ACAGTTTGGGCCTTAGCCCATCTCAGTACAGTATCAAATA
1 ACAGTTTGGGCCTTAGCCCA--TC---ACAGTATC-AGTA
* * *
82989707 TGCAG-TAGGGCCTTAGCCCATCACAGTATCAATA
1 -ACAGTTTGGGCCTTAGCCCATCACAGTATCAGTA
* *
82989741 TGCA-TTAGGGCCTTAGCCCATCACAGTATCAGTA
1 -ACAGTTTGGGCCTTAGCCCATCACAGTATCAGTA
*
82989775 GCAGTT
1 ACAGTT
82989781 ATGCATTATT
Statistics
Matches: 97, Mismatches: 7, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
33 17 0.18
34 42 0.43
35 9 0.09
38 2 0.02
39 7 0.07
40 17 0.18
41 3 0.03
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (34 bp):
ACAGTTTGGGCCTTAGCCCATCACAGTATCAGTA
Found at i:82989721 original size:40 final size:39
Alignment explanation
Indices: 82989674--82989774 Score: 131
Period size: 34 Copynumber: 2.7 Consensus size: 39
82989664 GTAACAGTTT
82989674 GGGCCTTAGCCCATCTCAGTACAGTATCAAATATGCAGTA
1 GGGCCTTAGCCCATCTCAGTACAGTATC-AATATGCAGTA
*
82989714 GGGCCTTAGCCCA--TC---ACAGTATCAATATGCATTA
1 GGGCCTTAGCCCATCTCAGTACAGTATCAATATGCAGTA
*
82989748 GGGCCTTAGCCCATCACAGTATCAGTA
1 GGGCCTTAGCCCATCTCAGTA-CAGTA
82989775 GCAGTTATGC
Statistics
Matches: 53, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
34 23 0.43
35 8 0.15
36 1 0.02
38 2 0.04
39 1 0.02
40 18 0.34
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (39 bp):
GGGCCTTAGCCCATCTCAGTACAGTATCAATATGCAGTA
Found at i:82989736 original size:35 final size:35
Alignment explanation
Indices: 82989694--82989771 Score: 140
Period size: 34 Copynumber: 2.3 Consensus size: 35
82989684 CCATCTCAGT
82989694 ACAGTATCAAATATGCAGTAGGGCCTTAGCCCATC
1 ACAGTATCAAATATGCAGTAGGGCCTTAGCCCATC
*
82989729 ACAGTATC-AATATGCATTAGGGCCTTAGCCCATC
1 ACAGTATCAAATATGCAGTAGGGCCTTAGCCCATC
82989763 ACAGTATCA
1 ACAGTATCA
82989772 GTAGCAGTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 33 0.80
35 8 0.20
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (35 bp):
ACAGTATCAAATATGCAGTAGGGCCTTAGCCCATC
Found at i:82999019 original size:17 final size:15
Alignment explanation
Indices: 82998997--82999044 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
82998987 TCTTCATAAA
82998997 CATATATCATTCATTT
1 CATATATCA-TCATTT
82999013 CATTATATCAAT-ATTT
1 CA-TATATC-ATCATTT
*
82999029 CATATACCATCATTT
1 CATATATCATCATTT
82999044 C
1 C
82999045 TATGTATTTC
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
14 2 0.07
15 10 0.36
16 8 0.29
17 7 0.25
18 1 0.04
ACGTcount: A:0.33, C:0.21, G:0.00, T:0.46
Consensus pattern (15 bp):
CATATATCATCATTT
Found at i:82999446 original size:24 final size:22
Alignment explanation
Indices: 82999414--82999490 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 22
82999404 CTGTATACTG
*
82999414 GGAAACTCATAAGAGCCATAATCA
1 GGAAGCTCAT-AGAGCCATAA-CA
* *
82999438 GGAAGCTCATGCGAGCCAATAACG
1 GGAAGCTCAT-AGAGCC-ATAACA
*
82999462 GGTAGCTCCATAGAGCCATTAACA
1 GGAAGCT-CATAGAGCCA-TAACA
82999486 GGAAG
1 GGAAG
82999491 TTCTAGATAG
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
23 1 0.02
24 34 0.81
25 7 0.17
ACGTcount: A:0.38, C:0.22, G:0.25, T:0.16
Consensus pattern (22 bp):
GGAAGCTCATAGAGCCATAACA
Found at i:82999551 original size:24 final size:24
Alignment explanation
Indices: 82999425--82999568 Score: 69
Period size: 24 Copynumber: 5.9 Consensus size: 24
82999415 GAAACTCATA
82999425 AGAGCC-ATAATCAGGAAGCT-CATG
1 AGAGCCAAT-ATCAGGAAGCTCCA-G
* * * * *
82999449 CGAGCCAATAACGGGTAGCTCCAT
1 AGAGCCAATATCAGGAAGCTCCAG
* * * *
82999473 AGAGCCATTAACAGGAAGTTCTAG
1 AGAGCCAATATCAGGAAGCTCCAG
* * * *
82999497 ATAGGCAATAT-ATTGGGAAGTTCAAG
1 AGAGCCAATATCA---GGAAGCTCCAG
* *
82999523 TGAGCCAATATCGGGAAGCTCCAG
1 AGAGCCAATATCAGGAAGCTCCAG
*
82999547 AGAGCCATTACTCAGGAAGCTC
1 AGAGCCAATA-TCAGGAAGCTC
82999569 ACAAAGACCC
Statistics
Matches: 87, Mismatches: 26, Indels: 13
0.69 0.21 0.10
Matches are distributed among these distances:
23 1 0.01
24 54 0.62
25 14 0.16
26 18 0.21
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.19
Consensus pattern (24 bp):
AGAGCCAATATCAGGAAGCTCCAG
Found at i:83002227 original size:26 final size:25
Alignment explanation
Indices: 83002192--83002276 Score: 84
Period size: 26 Copynumber: 3.4 Consensus size: 25
83002182 GGTATTACAA
83002192 GAGC-TCCTGATTAAAGGCTCTTCGT
1 GAGCTTCCTGATTAAAGGCTCTT-GT
***
83002217 GAGCTTCCTGATTAAAATTTCTTTGT
1 GAGCTTCCTGATTAAAGGCTC-TTGT
* * *
83002243 GAACTTCCTGATT-ATGGCTCTTAT
1 GAGCTTCCTGATTAAAGGCTCTTGT
83002267 GAGCTTCCTG
1 GAGCTTCCTG
83002277 TTATATAGCC
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
24 12 0.25
25 7 0.15
26 27 0.56
27 2 0.04
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (25 bp):
GAGCTTCCTGATTAAAGGCTCTTGT
Found at i:83002384 original size:26 final size:25
Alignment explanation
Indices: 83002305--83002386 Score: 110
Period size: 26 Copynumber: 3.2 Consensus size: 25
83002295 TTTCTTGATA
* *
83002305 GGCTCTTTGTAAGCTTTCAGATTAAT
1 GGCTCTTTGTGAGCTTCCA-ATTAAT
83002331 GGCTCTTTGTGAGCTTCCCAATTAAT
1 GGCTCTTTGTGAGCTT-CCAATTAAT
*
83002357 GGCTCTTTGTGAGCTTCCTATTATAT
1 GGCTCTTTGTGAGCTTCCAATTA-AT
83002383 GGCT
1 GGCT
83002387 TGAAAGAAGA
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
25 6 0.12
26 43 0.84
27 2 0.04
ACGTcount: A:0.18, C:0.20, G:0.21, T:0.41
Consensus pattern (25 bp):
GGCTCTTTGTGAGCTTCCAATTAAT
Found at i:83020049 original size:26 final size:26
Alignment explanation
Indices: 83020010--83020060 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
83020000 CAGCGACTAT
*
83020010 AGCTCACCAGGCCCACT-GATGACCCC
1 AGCTCACCAAGCCCACTAG-TGACCCC
*
83020036 AGCTCGCCAAGCCCACTAGTGACCC
1 AGCTCACCAAGCCCACTAGTGACCC
83020061 AACTCACTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.24, C:0.45, G:0.20, T:0.12
Consensus pattern (26 bp):
AGCTCACCAAGCCCACTAGTGACCCC
Found at i:83020981 original size:3 final size:3
Alignment explanation
Indices: 83020968--83020998 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
83020958 GTATATATAT
83020968 ATG AT- ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
83020999 AAATTTACGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.35, C:0.00, G:0.29, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:83024568 original size:15 final size:15
Alignment explanation
Indices: 83024548--83024577 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
83024538 TTTAATCTTT
*
83024548 TATAAATTATAAAAA
1 TATAAACTATAAAAA
83024563 TATAAACTATAAAAA
1 TATAAACTATAAAAA
83024578 ATCTAAGTTG
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:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:83028819 original size:19 final size:19
Alignment explanation
Indices: 83028798--83028833 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
83028788 ACTTTTGTTT
83028798 TTTTC-CTTCTTTCTGCTA
1 TTTTCTCTTCTTTCTGCTA
*
83028816 TTTTCTCTTTTTTCTGCT
1 TTTTCTCTTCTTTCTGCT
83028834 CAAAAACTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.03, C:0.25, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTCTCTTCTTTCTGCTA
Found at i:83042715 original size:30 final size:30
Alignment explanation
Indices: 83042679--83042736 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
83042669 CTAAGTTAAG
83042679 TGATCAATAGTCTAAGTCCCCAAACCAAAA
1 TGATCAATAGTCTAAGTCCCCAAACCAAAA
* *
83042709 TGATCAATATTCTGAGTCCCCAAACCAA
1 TGATCAATAGTCTAAGTCCCCAAACCAA
83042737 GTGTTATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (30 bp):
TGATCAATAGTCTAAGTCCCCAAACCAAAA
Found at i:83045905 original size:17 final size:18
Alignment explanation
Indices: 83045883--83045916 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83045873 TAATTGTAAT
*
83045883 GAATTTT-TACAATTATA
1 GAATTTTATAAAATTATA
83045900 GAATTTTATAAAATTAT
1 GAATTTTATAAAATTAT
83045917 TTATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (18 bp):
GAATTTTATAAAATTATA
Found at i:83047169 original size:14 final size:14
Alignment explanation
Indices: 83047150--83047176 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
83047140 CTCTCTTGTA
83047150 CACTTGTATTTTAC
1 CACTTGTATTTTAC
83047164 CACTTGTATTTTA
1 CACTTGTATTTTA
83047177 TTTTATCATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (14 bp):
CACTTGTATTTTAC
Found at i:83048354 original size:18 final size:18
Alignment explanation
Indices: 83048316--83048355 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
83048306 ATTGGAAATG
*
83048316 TAAATAATTAATGGATGA
1 TAAATAATTAATGGATAA
83048334 TAAATAATTAATAGGA-AA
1 TAAATAATTAAT-GGATAA
83048352 TAAA
1 TAAA
83048356 ATCATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (18 bp):
TAAATAATTAATGGATAA
Found at i:83052658 original size:15 final size:15
Alignment explanation
Indices: 83052638--83052667 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
83052628 CTCATAATCG
83052638 CTTCTAACTTGCATA
1 CTTCTAACTTGCATA
83052653 CTTCTAACTTGCATA
1 CTTCTAACTTGCATA
83052668 GTTTATTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.40
Consensus pattern (15 bp):
CTTCTAACTTGCATA
Found at i:83055664 original size:21 final size:23
Alignment explanation
Indices: 83055638--83055680 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
83055628 AATTCAAAAA
83055638 ATATA-TTAAA-AAAAGAAAATT
1 ATATATTTAAATAAAAGAAAATT
*
83055659 ATATATTTAAATAATAGAAAAT
1 ATATATTTAAATAAAAGAAAAT
83055681 ACCTTTGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 5 0.26
22 5 0.26
23 9 0.47
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.33
Consensus pattern (23 bp):
ATATATTTAAATAAAAGAAAATT
Found at i:83064626 original size:30 final size:30
Alignment explanation
Indices: 83064592--83064652 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
83064582 TCCTTAACTC
83064592 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
83064622 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
83064652 A
1 A
83064653 GGCTCAGGAA
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:83077041 original size:30 final size:30
Alignment explanation
Indices: 83076937--83077104 Score: 148
Period size: 30 Copynumber: 5.8 Consensus size: 30
83076927 ATAAATAAGA
* * * *
83076937 CTTTATGGCTATCTTTGTT-AAAGGAA-GA
1 CTTTGTGGCTATCTCTGTTAAAAAGAATGC
* * * *
83076965 CTTTGTGGCGATCTCTGTGACAAGGAA-GC
1 CTTTGTGGCTATCTCTGTTAAAAAGAATGC
* * *
83076994 ATTAGTGGCTATATCTGTTAAAAAGAATGC
1 CTTTGTGGCTATCTCTGTTAAAAAGAATGC
* *
83077024 CTTTGTGGTTATCTCTGTTAAAAAGAATAC
1 CTTTGTGGCTATCTCTGTTAAAAAGAATGC
* * *
83077054 CTTTGTGGCTATCTCAGTT-AAATGGATG-
1 CTTTGTGGCTATCTCTGTTAAAAAGAATGC
*
83077082 CTTTGTGGCTATCTTTGTTAAAA
1 CTTTGTGGCTATCTCTGTTAAAA
83077105 GGACGCCTAC
Statistics
Matches: 112, Mismatches: 25, Indels: 5
0.79 0.18 0.04
Matches are distributed among these distances:
28 32 0.29
29 36 0.32
30 44 0.39
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.38
Consensus pattern (30 bp):
CTTTGTGGCTATCTCTGTTAAAAAGAATGC
Found at i:83078772 original size:79 final size:78
Alignment explanation
Indices: 83078641--83078869 Score: 377
Period size: 79 Copynumber: 2.9 Consensus size: 78
83078631 GAGTCACATC
* *
83078641 TCATGTAACTGTAGTGAATCAGGATTACCTTTTCAGGTCAAATCCTACCCACCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
83078706 AATGAATCATATA
66 AATGAATCATATA
* *
83078719 TCATGTAACCGTAGCGAATCAGGATTACCCTTTTCAGGTCAAATCCTATCCACCTTAGGTTACCA
1 TCATGTAACTGTAGCGAATCAGGATTA-CCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCA
83078784 TAATGAATCATATA
65 TAATGAATCATATA
* * *
83078798 TCGTGTAACTATAGCGAATCAGGATTACCTTTTCAGGTTAAATCCTATCCACCTTAAGTTACCAT
1 TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
*
83078863 AGTGAAT
66 AATGAAT
83078870 TAGGAATAAA
Statistics
Matches: 140, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
78 67 0.48
79 73 0.52
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (78 bp):
TCATGTAACTGTAGCGAATCAGGATTACCTTTTCAGGTCAAATCCTATCCACCTTAAGTTACCAT
AATGAATCATATA
Found at i:83078900 original size:40 final size:40
Alignment explanation
Indices: 83078836--83078973 Score: 159
Period size: 40 Copynumber: 3.5 Consensus size: 40
83078826 CTTTTCAGGT
* * *
83078836 TAAATCCTATCCACCTTAAGTTACCATAGTGAATTAGGAA
1 TAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
*
83078876 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGGAA
1 TAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
* * ** ** *
83078916 CAAATCCTATCCACTTTGAGGTATTATAGTGAATCAAGAA
1 TAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
**
83078956 CGAATCCTATCCACTTTA
1 TAAATCCTATCCACTTTA
83078974 TATTCTCGAG
Statistics
Matches: 84, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 84 1.00
ACGTcount: A:0.37, C:0.20, G:0.12, T:0.31
Consensus pattern (40 bp):
TAAATCCTATCCACTTTAAATTACCATAGTGAATCAGGAA
Found at i:83088271 original size:46 final size:46
Alignment explanation
Indices: 83088175--83088342 Score: 144
Period size: 47 Copynumber: 3.6 Consensus size: 46
83088165 GTGAGCTATG
* * * * *
83088175 TAAGACATGTCTGGGACATGCATCGGCCA-CATCATGAGAGCCAGTG
1 TAAGACATGTCTGGGACATGCATCGGCTATGA-GATGAGAGCCAATA
* *
83088221 TAAGACATGTCTGGGACATGCATCGGCTATGAGATGATAGTCAATA
1 TAAGACATGTCTGGGACATGCATCGGCTATGAGATGAGAGCCAATA
* * *
83088267 TAAGACAATGTCTGGGACATGGCATCGACT-TGAGAT-ATGAGCCAGTG
1 TAAGAC-ATGTCTGGGACAT-GCATCGGCTATGAGATGA-GAGCCAATA
* * *
83088314 TAAGACCGTGTATAGGACATGGCATCGGC
1 TAAGA-CATGTCTGGGACAT-GCATCGGC
83088343 ACCTTACCCT
Statistics
Matches: 101, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
46 44 0.44
47 48 0.48
48 9 0.09
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
TAAGACATGTCTGGGACATGCATCGGCTATGAGATGAGAGCCAATA
Found at i:83088318 original size:47 final size:48
Alignment explanation
Indices: 83088173--83088340 Score: 161
Period size: 46 Copynumber: 3.6 Consensus size: 48
83088163 GTGTGAGCTA
* * * *
83088173 TGTAAGACATGTCTGGGACAT-GCATCGGCCA-CATCATGA-GAGCCAG
1 TGTAAGACATGTCTGGGACATGGCATCGACTATGA-GATGATGAGCCAG
* * *
83088219 TGTAAGACATGTCTGGGACAT-GCATCGGCTATGAGATGAT-AGTCAA
1 TGTAAGACATGTCTGGGACATGGCATCGACTATGAGATGATGAGCCAG
*
83088265 TATAAGACAATGTCTGGGACATGGCATCGACT-TGAGAT-ATGAGCCAG
1 TGTAAGAC-ATGTCTGGGACATGGCATCGACTATGAGATGATGAGCCAG
* * *
83088312 TGTAAGACCGTGTATAGGACATGGCATCG
1 TGTAAGA-CATGTCTGGGACATGGCATCG
83088341 GCACCTTACC
Statistics
Matches: 103, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
46 47 0.46
47 47 0.46
48 9 0.09
ACGTcount: A:0.30, C:0.18, G:0.29, T:0.23
Consensus pattern (48 bp):
TGTAAGACATGTCTGGGACATGGCATCGACTATGAGATGATGAGCCAG
Found at i:83090038 original size:25 final size:25
Alignment explanation
Indices: 83089995--83090053 Score: 68
Period size: 25 Copynumber: 2.4 Consensus size: 25
83089985 TGGCTCATAT
*
83089995 GAGCTTCCTGATAATTGGC-TCGCAA
1 GAGCTTCCTGATAATTGGCTTAG-AA
*
83090020 GAGCTTCCTGTTACA-TGGCTTAGAA
1 GAGCTTCCTGATA-ATTGGCTTAGAA
83090045 GAGCTTCCT
1 GAGCTTCCT
83090054 AATTATATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 27 0.90
26 3 0.10
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.31
Consensus pattern (25 bp):
GAGCTTCCTGATAATTGGCTTAGAA
Found at i:83095952 original size:39 final size:39
Alignment explanation
Indices: 83095892--83095992 Score: 148
Period size: 39 Copynumber: 2.6 Consensus size: 39
83095882 GCTTTGATGA
*
83095892 GCTTCAGTTAGCCTTCGGGCTTCCATTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAACACTTATGT
* * *
83095931 GCTTTAGTTAGCCTTCAGGCTTCCATTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAACACTTATGT
* *
83095970 GCTTCAGCTAGACTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
83095993 AAATCACGAT
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.16, C:0.26, G:0.21, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCATTTAACACTTATGT
Found at i:83097926 original size:21 final size:21
Alignment explanation
Indices: 83097871--83097932 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
83097861 AAATTAAATT
* *
83097871 AAAAACAATTATTTT-TTATA
1 AAAAATAATTGTTTTATTATA
*
83097891 AAAAATTCAAATGTTTTATTATA
1 AAAAA-T-AATTGTTTTATTATA
83097914 AAAAATAATTGTTTTATTA
1 AAAAATAATTGTTTTATTA
83097933 AATCAAATGA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
20 5 0.14
21 12 0.34
22 8 0.23
23 10 0.29
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (21 bp):
AAAAATAATTGTTTTATTATA
Found at i:83105228 original size:28 final size:29
Alignment explanation
Indices: 83105196--83105294 Score: 107
Period size: 28 Copynumber: 3.5 Consensus size: 29
83105186 ATAATAAGCC
*
83105196 CGCACACTTAGTGCTTA-ATAGTCGAACT
1 CGCACACTTAGTGCTTACATAATCGAACT
*
83105224 CGCACACTTAGTGC-TATATAATC-AACCT
1 CGCACACTTAGTGCTTACATAATCGAA-CT
* * *
83105252 CGCACACTTAGTGCTATACA-ATTTGAACC
1 CGCACACTTAGTGCT-TACATAATCGAACT
83105281 CGCACACTTAGTGC
1 CGCACACTTAGTGC
83105295 CGAAACCAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
27 4 0.07
28 35 0.57
29 17 0.28
30 5 0.08
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCGAACT
Found at i:83113667 original size:21 final size:21
Alignment explanation
Indices: 83113611--83113680 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
83113601 GTGTTTTACT
* *
83113611 TTTTGTTCAGCTCTTATGAGT
1 TTTTGTTCAGCTCTTACGAGC
83113632 TTTTGTTCAGCTCTTACGAGC
1 TTTTGTTCAGCTCTTACGAGC
* * *
83113653 TTTTGTTTAGGTCTTTCGAGC
1 TTTTGTTCAGCTCTTACGAGC
*
83113674 TTCTGTT
1 TTTTGTT
83113681 TAGATTTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.11, C:0.17, G:0.20, T:0.51
Consensus pattern (21 bp):
TTTTGTTCAGCTCTTACGAGC
Found at i:83113694 original size:19 final size:21
Alignment explanation
Indices: 83113643--83113694 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
83113633 TTTGTTCAGC
* * *
83113643 TCTTACGAGCTTTTGTTTAGG
1 TCTTTCGAGCTTCTGTTTAGA
83113664 TCTTTCGAGCTTCTGTTTAGA
1 TCTTTCGAGCTTCTGTTTAGA
83113685 T-TTT-GAGCTT
1 TCTTTCGAGCTT
83113695 TTGATTGGCA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 6 0.21
20 3 0.11
21 19 0.68
ACGTcount: A:0.13, C:0.15, G:0.21, T:0.50
Consensus pattern (21 bp):
TCTTTCGAGCTTCTGTTTAGA
Found at i:83114796 original size:19 final size:20
Alignment explanation
Indices: 83114760--83114798 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
83114750 TGTAGTGTTG
*
83114760 AAAATTTTAAATAATTCTGAA
1 AAAAATTTAAAT-ATTCTGAA
83114781 AAAAATTTAAAT-TTCTGA
1 AAAAATTTAAATATTCTGA
83114799 TTTAGTCCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
21 11 0.65
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (20 bp):
AAAAATTTAAATATTCTGAA
Found at i:83116889 original size:20 final size:18
Alignment explanation
Indices: 83116856--83116892 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
83116846 TGTGATGTTG
83116856 ATATGTTTAATTTAATTA
1 ATATGTTTAATTTAATTA
83116874 ATATGGTTTAAATTTAATT
1 ATAT-GTTT-AATTTAATT
83116893 CGTGTTAGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 4 0.24
20 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (18 bp):
ATATGTTTAATTTAATTA
Found at i:83117994 original size:23 final size:23
Alignment explanation
Indices: 83117960--83118017 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
83117950 TTGCTAAAAG
* *
83117960 ATAATATACCATAATAATATCTT
1 ATAATATCCCATAATAATATCTC
*
83117983 ATAATATCCCATAATAATGTCTC
1 ATAATATCCCATAATAATATCTC
83118006 ATAATATCCCAT
1 ATAATATCCCAT
83118018 TAAGAATCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.43, C:0.19, G:0.02, T:0.36
Consensus pattern (23 bp):
ATAATATCCCATAATAATATCTC
Found at i:83120829 original size:68 final size:68
Alignment explanation
Indices: 83120717--83120934 Score: 267
Period size: 68 Copynumber: 3.2 Consensus size: 68
83120707 AAGTTTAATA
* * * *
83120717 TGTAAGACCATAGCTTGGCTATGGCAACAAAGGGAGTCTACTAGGACGTTAAACATGAGTTCATA
1 TGTAAGACCATAGCTCGGCTATGACAACAAAGGGAGTCTGCTAGGACGTTAAACATGGGTTCATA
83120782 CTG
66 CTG
* ** * * *
83120785 TGTAAGACCATAGCTCGGCAATGACAACAAATAGAGTCTGCTAGGACATTAAACATGGGCTCCTA
1 TGTAAGACCATAGCTCGGCTATGACAACAAAGGGAGTCTGCTAGGACGTTAAACATGGGTTCATA
*
83120850 TTG
66 CTG
* * * *
83120853 TGTAAGACCATAGCTCGACTATGGA-AACAAAGGGAGTCTGTTAGGAAGTTAAACATGGGTTCTT
1 TGTAAGACCATAGCTCGGCTAT-GACAACAAAGGGAGTCTGCTAGGACGTTAAACATGGGTTCAT
83120917 ACTG
65 ACTG
**
83120921 TACAAGACCATAGC
1 TGTAAGACCATAGC
83120935 CGATGTGTAA
Statistics
Matches: 126, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
68 124 0.98
69 2 0.02
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.24
Consensus pattern (68 bp):
TGTAAGACCATAGCTCGGCTATGACAACAAAGGGAGTCTGCTAGGACGTTAAACATGGGTTCATA
CTG
Found at i:83120997 original size:87 final size:87
Alignment explanation
Indices: 83120851--83121021 Score: 342
Period size: 87 Copynumber: 2.0 Consensus size: 87
83120841 GGGCTCCTAT
83120851 TGTGTAAGACCATAGCTCGACTATGGAAACAAAGGGAGTCTGTTAGGAAGTTAAACATGGGTTCT
1 TGTGTAAGACCATAGCTCGACTATGGAAACAAAGGGAGTCTGTTAGGAAGTTAAACATGGGTTCT
83120916 TACTGTACAAGACCATAGCCGA
66 TACTGTACAAGACCATAGCCGA
83120938 TGTGTAAGACCATAGCTCGACTATGGAAACAAAGGGAGTCTGTTAGGAAGTTAAACATGGGTTCT
1 TGTGTAAGACCATAGCTCGACTATGGAAACAAAGGGAGTCTGTTAGGAAGTTAAACATGGGTTCT
83121003 TACTGTACAAGACCATAGC
66 TACTGTACAAGACCATAGC
83121022 TCGGCTATGG
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
87 84 1.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (87 bp):
TGTGTAAGACCATAGCTCGACTATGGAAACAAAGGGAGTCTGTTAGGAAGTTAAACATGGGTTCT
TACTGTACAAGACCATAGCCGA
Found at i:83121059 original size:68 final size:68
Alignment explanation
Indices: 83120943--83121099 Score: 203
Period size: 68 Copynumber: 2.3 Consensus size: 68
83120933 GCCGATGTGT
* *
83120943 AAGACCATAGCTCGACTATGGAAACAAAGGGAGTCTGTTAGGAAGTTAAACATGGGTTCT-TACT
1 AAGACCATAGCTCGGCTATGGAAACAAAGAGAGTCTGTTAGGAAGTTAAACATGGGTT-TATACT
*
83121007 GTAC
65 ATAC
* *
83121011 AAGACCATAGCTCGGCTATGGTAACAAAGAGAGT-T-TTCCAGGACGTTAAACATGGGTTTATAC
1 AAGACCATAGCTCGGCTATGGAAACAAAGAGAGTCTGTT--AGGAAGTTAAACATGGGTTTATAC
*
83121074 TATAT
64 TATAC
*
83121079 AAGACCATAGCTCGGATATGG
1 AAGACCATAGCTCGGCTATGG
83121100 CGTCAGGTAA
Statistics
Matches: 79, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
66 2 0.03
67 2 0.03
68 75 0.95
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.25
Consensus pattern (68 bp):
AAGACCATAGCTCGGCTATGGAAACAAAGAGAGTCTGTTAGGAAGTTAAACATGGGTTTATACTA
TAC
Found at i:83121065 original size:155 final size:155
Alignment explanation
Indices: 83120783--83121089 Score: 390
Period size: 155 Copynumber: 2.0 Consensus size: 155
83120773 GAGTTCATAC
* *
83120783 TGTGTAAGACCATAGCTCGGCAATGACAACAAATAGAGTCTGCTAGGACATTAAACATGGGCTCC
1 TGTGTAAGACCATAGCTCGACAATGACAACAAAGAGAGTCTGCTAGGACATTAAACATGGGCTCC
* ** *
83120848 TATTGTGTAAGACCATAGCTCGACTATGGAAACAAAGGGAGTCTGTTAGGAAGTTAAACATGGGT
66 TACTGTACAAGACCATAGCTCGACTATGGAAACAAAGAGAGTCTGTTAGGAAGTTAAACATGGGT
*
83120913 TCT-TACTGTACAAGACCATAGCCGA
131 T-TATACTATACAAGACCATAGCCGA
* * * *
83120938 TGTGTAAGACCATAGCTCGACTATGGA-AACAAAGGGAGTCTGTTAGGA-AGTTAAACATGGGTT
1 TGTGTAAGACCATAGCTCGACAAT-GACAACAAAGAGAGTCTGCTAGGACA-TTAAACATGGGCT
* * * *
83121001 CTTACTGTACAAGACCATAGCTCGGCTATGGTAACAAAGAGAGT-T-TTCCAGGACGTTAAACAT
64 CCTACTGTACAAGACCATAGCTCGACTATGGAAACAAAGAGAGTCTGTT--AGGAAGTTAAACAT
*
83121064 GGGTTTATACTATATAAGACCATAGC
127 GGGTTTATACTATACAAGACCATAGC
83121090 TCGGATATGG
Statistics
Matches: 131, Mismatches: 16, Indels: 10
0.83 0.10 0.06
Matches are distributed among these distances:
153 2 0.02
154 3 0.02
155 124 0.95
156 2 0.02
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.25
Consensus pattern (155 bp):
TGTGTAAGACCATAGCTCGACAATGACAACAAAGAGAGTCTGCTAGGACATTAAACATGGGCTCC
TACTGTACAAGACCATAGCTCGACTATGGAAACAAAGAGAGTCTGTTAGGAAGTTAAACATGGGT
TTATACTATACAAGACCATAGCCGA
Found at i:83131549 original size:16 final size:17
Alignment explanation
Indices: 83131525--83131556 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
83131515 AAAACAACAG
83131525 AAAATAAAATTTAAAAT
1 AAAATAAAATTTAAAAT
83131542 AAAA-AAAATTTAAAA
1 AAAATAAAATTTAAAA
83131557 GTGAAGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATAAAATTTAAAAT
Found at i:83134210 original size:12 final size:12
Alignment explanation
Indices: 83134193--83134218 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
83134183 GTACATATGG
83134193 CCTGGCACACGA
1 CCTGGCACACGA
83134205 CCTGGCACACGA
1 CCTGGCACACGA
83134217 CC
1 CC
83134219 GTGTGCCTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.46, G:0.23, T:0.08
Consensus pattern (12 bp):
CCTGGCACACGA
Found at i:83134693 original size:26 final size:24
Alignment explanation
Indices: 83134663--83134711 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
83134653 AATAAAAAAG
*
83134663 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAACATAA-AAA-CAAATATA
83134689 TTTAAAAACATAAAAACAAATAT
1 TTTAAAAACATAAAAACAAATAT
83134712 TAAAACAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.63, C:0.06, G:0.00, T:0.31
Consensus pattern (24 bp):
TTTAAAAACATAAAAACAAATATA
Found at i:83134731 original size:21 final size:21
Alignment explanation
Indices: 83134682--83134740 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
83134672 ATAATAAATC
*
83134682 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
83134702 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
83134724 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
83134741 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:83140780 original size:18 final size:17
Alignment explanation
Indices: 83140757--83140791 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
83140747 AACTGGGTGT
*
83140757 CTGATTTAATCCTGCTG
1 CTGATTTAAGCCTGCTG
83140774 NCTGATTTAAGCCTGCTG
1 -CTGATTTAAGCCTGCTG
83140792 AATCCTAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.37
Consensus pattern (17 bp):
CTGATTTAAGCCTGCTG
Found at i:83142184 original size:11 final size:11
Alignment explanation
Indices: 83142133--83142182 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
83142123 GAGGATGATG
*
83142133 TTTTTGTTTCC
1 TTTTTGTTTCT
83142144 TTTTTGTTTCT
1 TTTTTGTTTCT
*
83142155 GTTTTGTTT-T
1 TTTTTGTTTCT
*
83142165 TCTTT-TTT-T
1 TTTTTGTTTCT
83142174 TTTTTGTTT
1 TTTTTGTTT
83142183 TTGTTTGGTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
9 8 0.24
10 7 0.21
11 18 0.55
ACGTcount: A:0.00, C:0.08, G:0.10, T:0.82
Consensus pattern (11 bp):
TTTTTGTTTCT
Found at i:83145140 original size:47 final size:47
Alignment explanation
Indices: 83145087--83145497 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
83145077 TTAGGATTCT
83145087 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
83145134 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
83145181 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
83145228 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
83145275 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
83145322 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
83145369 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
83145416 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
83145463 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
83145498 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:83145672 original size:37 final size:37
Alignment explanation
Indices: 83145616--83145694 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
83145606 CCGAGCTCTA
* * *
83145616 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
83145653 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
83145690 AAGAC
1 AAGAC
83145695 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:83165170 original size:42 final size:42
Alignment explanation
Indices: 83165056--83165188 Score: 119
Period size: 42 Copynumber: 3.1 Consensus size: 42
83165046 TAAATGTTCA
* *
83165056 TAAA-CAAGTACAATGCCGACGTCCTAGAC-GTGGTCTTACATG
1 TAAATCAA-TACAATGCCGATGTCCTAGACAG-GGTCTTACACG
* * * ** *
83165098 TAATTCAATATCGATGTCTCTGTCCCAGACAGGGTCTTACACG
1 TAAATCAATA-CAATGCCGATGTCCTAGACAGGGTCTTACACG
* *
83165141 -AAATCAGATACAATGCCGATGTCCTAGACATGGTCTTATACG
1 TAAATCA-ATACAATGCCGATGTCCTAGACAGGGTCTTACACG
83165183 TAAATC
1 TAAATC
83165189 TCAATCGAGG
Statistics
Matches: 70, Mismatches: 16, Indels: 9
0.74 0.17 0.09
Matches are distributed among these distances:
42 35 0.50
43 34 0.49
44 1 0.01
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (42 bp):
TAAATCAATACAATGCCGATGTCCTAGACAGGGTCTTACACG
Found at i:83165207 original size:85 final size:85
Alignment explanation
Indices: 83165064--83165226 Score: 222
Period size: 85 Copynumber: 1.9 Consensus size: 85
83165054 CATAAACAAG
* * * *
83165064 TACAATGCCGACGTCCTAGACGTGGTCTTACATGTAATTCAATATCGATGTCTCTGTCCCAGACA
1 TACAATGCCGACGTCCTAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACA
*
83165129 GGGTCTTACACGAAATCAGA
66 AGGTCTTACACGAAATCAGA
* * *
83165149 TACAATGCCGATGTCCTAGACATGGTCTTATACGTAAATCTC-A-ATCGAGGCCTGTGTCCCAGA
1 TACAATGCCGACGTCCTAGACATGGTCTTACACGT-AAT-TCAATATCGAGGCCTCTGTCCCAGA
83165212 CAAGGTCTTACACGA
64 CAAGGTCTTACACGA
83165227 TGTCTCAGAC
Statistics
Matches: 68, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
85 62 0.91
86 4 0.06
87 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (85 bp):
TACAATGCCGACGTCCTAGACATGGTCTTACACGTAATTCAATATCGAGGCCTCTGTCCCAGACA
AGGTCTTACACGAAATCAGA
Found at i:83166762 original size:6 final size:6
Alignment explanation
Indices: 83166751--83166785 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
83166741 GGAATACACT
* *
83166751 GTAACA GTAACA GTAACA GTAATA GTAATA GTAAC
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAAC
83166786 GGTACAGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.49, C:0.11, G:0.17, T:0.23
Consensus pattern (6 bp):
GTAACA
Found at i:83179915 original size:18 final size:19
Alignment explanation
Indices: 83179892--83179932 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
83179882 GTTTCACCTC
83179892 CTTT-CCTCTTATGATTTT
1 CTTTCCCTCTTATGATTTT
*
83179910 CTTTCCCTTTTATGATTTT
1 CTTTCCCTCTTATGATTTT
83179929 CTTT
1 CTTT
83179933 ATGTTGAATA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.10, C:0.22, G:0.05, T:0.63
Consensus pattern (19 bp):
CTTTCCCTCTTATGATTTT
Found at i:83187067 original size:11 final size:11
Alignment explanation
Indices: 83187026--83187073 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
83187016 ATTAGATAAA
83187026 TATTATTTTAT
1 TATTATTTTAT
* *
83187037 TAATACTTTAAT
1 TATTA-TTTTAT
*
83187049 AATATATTTTAT
1 TAT-TATTTTAT
83187061 TATTATTTTAT
1 TATTATTTTAT
83187072 TA
1 TA
83187074 GTATATAAAG
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
11 14 0.48
12 13 0.45
13 2 0.07
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (11 bp):
TATTATTTTAT
Found at i:83187507 original size:24 final size:24
Alignment explanation
Indices: 83187476--83187531 Score: 103
Period size: 24 Copynumber: 2.3 Consensus size: 24
83187466 AGAGAAAATA
83187476 AGAGAAAGTGATGAGAAATGGTGT
1 AGAGAAAGTGATGAGAAATGGTGT
83187500 AGAGAAAGTGATGAGAAATGGTGT
1 AGAGAAAGTGATGAGAAATGGTGT
*
83187524 AGAAAAAG
1 AGAGAAAG
83187532 AAAATAAGGG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.36, T:0.18
Consensus pattern (24 bp):
AGAGAAAGTGATGAGAAATGGTGT
Done.