Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold35
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: 4812169
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 17994 characters in sequence are not A, C, G, or T
File 12 of 30
Found at i:1945080 original size:28 final size:27
Alignment explanation
Indices: 1945048--1945119 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
1945038 TCACAATTAT
1945048 GGATACTCCAACCCCGTTATTTCATCG-G
1 GGATACTCCAACCCCGTTATTTC--CGAG
*
1945076 GGATACTCCAACCCGGTTATTTCCGAAG
1 GGATACTCCAACCCCGTTATTTCCG-AG
*
1945104 GGATACTCTAACCCCG
1 GGATACTCCAACCCCG
1945120 GCTTTGTATC
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 2 0.05
28 37 0.95
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.25
Consensus pattern (27 bp):
GGATACTCCAACCCCGTTATTTCCGAG
Found at i:1945239 original size:107 final size:107
Alignment explanation
Indices: 1945048--1945273 Score: 274
Period size: 107 Copynumber: 2.1 Consensus size: 107
1945038 TCACAATTAT
* * * *
1945048 GGATACTCCAACCCCGTTATTTCATCGGGGATACTCCAACCCGGTTATTTCCGAAGGGATACTCT
1 GGATACTCCAACCCCGTTATGTCATCGAGGATACTCCAACCCGATTATTTCCGAAGGGATACTCC
** * *** * *
1945113 AACCCCGGCTTTGTATCTAAAATATTGATTTTTCATAATCGA
66 AACCCCAACTTTATATCTAAAATACCAATTTTCCACAATCGA
* * * *
1945155 GGGTACTCCAACCCCGTTATGTCATCGAGGATACTCCAATCCTATTATTTTC-AAGGGGATACTC
1 GGATACTCCAACCCCGTTATGTCATCGAGGATACTCCAACCCGATTATTTCCGAA-GGGATACTC
* *
1945219 CAACCCCAATTTTATTTCTAAAATACCAATTTTCCACAATCGA
65 CAACCCCAACTTTATATCTAAAATACCAATTTTCCACAATCGA
1945262 GGATACTCCAAC
1 GGATACTCCAAC
1945274 TCCGATTTTA
Statistics
Matches: 99, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
106 2 0.02
107 97 0.98
ACGTcount: A:0.28, C:0.27, G:0.15, T:0.31
Consensus pattern (107 bp):
GGATACTCCAACCCCGTTATGTCATCGAGGATACTCCAACCCGATTATTTCCGAAGGGATACTCC
AACCCCAACTTTATATCTAAAATACCAATTTTCCACAATCGA
Found at i:1945273 original size:51 final size:51
Alignment explanation
Indices: 1945211--1945377 Score: 219
Period size: 51 Copynumber: 3.3 Consensus size: 51
1945201 ATTTTCAAGG
* *
1945211 GGATACTCCAACCCCAATTTTATTTCTAAAATACCAATTTTCCACAATCGA
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGA
* *
1945262 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAA-TTTCTCACAATCGA
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTC-CACAATCGA
*** * * * *
1945313 GGATACTCCAACCCCGGCCTTATTTCTAAAGCATCGATTTTCCACAATCGG
1 GGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGA
1945364 GGATACTCCAACCC
1 GGATACTCCAACCC
1945378 TGTTATTTTT
Statistics
Matches: 101, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
50 4 0.04
51 93 0.92
52 4 0.04
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (51 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAACACCAATTTTCCACAATCGA
Found at i:1950431 original size:13 final size:13
Alignment explanation
Indices: 1950413--1950437 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1950403 CAACGTTCCT
1950413 TGTATCGATACAA
1 TGTATCGATACAA
1950426 TGTATCGATACA
1 TGTATCGATACA
1950438 TGGGTTACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1953024 original size:20 final size:19
Alignment explanation
Indices: 1952978--1953036 Score: 82
Period size: 20 Copynumber: 3.1 Consensus size: 19
1952968 TTGTGTCGAT
* *
1952978 ACATTATATAGATACATGA
1 ACATTGTATCGATACATGA
*
1952997 TCATTGTATCGATACATGA
1 ACATTGTATCGATACATGA
1953016 ACAATTGTATCGATACATGA
1 AC-ATTGTATCGATACATGA
1953036 A
1 A
1953037 ACTGGCAGTA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
19 17 0.49
20 18 0.51
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (19 bp):
ACATTGTATCGATACATGA
Found at i:1953088 original size:20 final size:20
Alignment explanation
Indices: 1953063--1953116 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1953053 CTACCACTAT
*
1953063 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
1953083 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
*
1953103 TTGTATGGATACAT
1 TTGTATCGATACAT
1953117 TGCTTGTAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:1961932 original size:22 final size:22
Alignment explanation
Indices: 1961896--1961942 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
1961886 AACAGTCAAG
*
1961896 GCACCCCGATTCTAGGCCCATT
1 GCACCCCGATCCTAGGCCCATT
*
1961918 GCACCCTGATCCTAGGCCCATT
1 GCACCCCGATCCTAGGCCCATT
1961940 GCA
1 GCA
1961943 GGTTTGGTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.19, C:0.40, G:0.19, T:0.21
Consensus pattern (22 bp):
GCACCCCGATCCTAGGCCCATT
Found at i:1966119 original size:19 final size:20
Alignment explanation
Indices: 1966095--1966148 Score: 65
Period size: 21 Copynumber: 2.7 Consensus size: 20
1966085 AGGGTGGTTT
1966095 TGTATCGATACAAAACT-TA
1 TGTATCGATACAAAACTATA
** *
1966114 TGTATCGATACATTTACTATT
1 TGTATCGATACA-AAACTATA
1966135 TGTATCGATACAAA
1 TGTATCGATACAAA
1966149 TTATAAAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
19 12 0.43
20 3 0.11
21 13 0.46
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (20 bp):
TGTATCGATACAAAACTATA
Found at i:1966140 original size:21 final size:19
Alignment explanation
Indices: 1966092--1966148 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1966082 TGCAGGGTGG
1966092 TTTTGTATCGATACAAAAC
1 TTTTGTATCGATACAAAAC
* **
1966111 TTATGTATCGATACATTTAC
1 TTTTGTATCGATACA-AAAC
1966131 TATTTGTATCGATACAAA
1 T-TTTGTATCGATACAAA
1966149 TTATAAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 14 0.47
20 3 0.10
21 13 0.43
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (19 bp):
TTTTGTATCGATACAAAAC
Found at i:1966789 original size:61 final size:60
Alignment explanation
Indices: 1966709--1966850 Score: 153
Period size: 61 Copynumber: 2.4 Consensus size: 60
1966699 TGTTTGCGAT
* * * *
1966709 GTGCCAATATGCAGATTCAAGACT-TGCAACACTAGACTTAAAGATGATAAAG-ATGAGAAG
1 GTGCCAATATGCTGATTCAAG-CTCGGCAACACTAGACTTAAAGATG-CAAAGAATGAAAAG
* * * * * *
1966769 AGTGCCAATGTGCTGATTCAAGGTCGGCGACATTGGACTTAAGGATGCAAAGAATGAAAAG
1 -GTGCCAATATGCTGATTCAAGCTCGGCAACACTAGACTTAAAGATGCAAAGAATGAAAAG
1966830 GTGCCAATATGCTGATTCAAG
1 GTGCCAATATGCTGATTCAAG
1966851 GCCAGTGATA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
60 25 0.37
61 43 0.63
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (60 bp):
GTGCCAATATGCTGATTCAAGCTCGGCAACACTAGACTTAAAGATGCAAAGAATGAAAAG
Found at i:1966895 original size:52 final size:52
Alignment explanation
Indices: 1966818--1967073 Score: 318
Period size: 52 Copynumber: 4.9 Consensus size: 52
1966808 TAAGGATGCA
*
1966818 AAGAATGA-AAAGGTGCCAATATGCTGATTCAAGGCCAGTGATATTGGGCTT
1 AAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* *
1966869 AA-AGATGATAAAGGTGCCAATGTGCTGATTCAAGGCTAGTGACATTGGGCTT
1 AAGA-ATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* * *
1966921 AGGAATGTTAAAGATGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
1 AAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* * ** * * * *
1966973 AGGAATGTTAAAGACGCCAATATGTTGATTCAAGGCCAGCGATATTGGACTT
1 AAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
* * * * *
1967025 AAGAAAGAAAAATGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGG
1 AAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGG
1967074 TTTAGAAGGG
Statistics
Matches: 178, Mismatches: 24, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
50 1 0.01
51 6 0.03
52 170 0.96
53 1 0.01
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.25
Consensus pattern (52 bp):
AAGAATGATAAAGGTGCCAATATGCTGATTCAAGGCCAGTGACATTGGGCTT
Found at i:1967120 original size:33 final size:33
Alignment explanation
Indices: 1967077--1967237 Score: 213
Period size: 33 Copynumber: 5.0 Consensus size: 33
1967067 CATTGGGTTT
*
1967077 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
* *
1967110 AGAAAGGTTGCCACCAACTTATGTGGGCTTTAG
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
* * *
1967143 AGAAGGGTTGCCATCGACTTATGTGGGCTTT--
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
*
1967174 AGAAGAGGCTGCCACCAACTTGTGTGGGCTTT--
1 AGAAG-GGTTGCCACCAACTTGTGTGGGCTTTAG
*
1967206 AGAAGGGTTGCCACCAGCTTGTGTGGGCTTTA
1 AGAAGGGTTGCCACCAACTTGTGTGGGCTTTA
1967238 TAAGGAAACA
Statistics
Matches: 114, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
31 29 0.25
32 27 0.24
33 58 0.51
ACGTcount: A:0.21, C:0.19, G:0.32, T:0.28
Consensus pattern (33 bp):
AGAAGGGTTGCCACCAACTTGTGTGGGCTTTAG
Found at i:1967289 original size:34 final size:33
Alignment explanation
Indices: 1967273--1968004 Score: 722
Period size: 34 Copynumber: 21.8 Consensus size: 33
1967263 GTAAGCTTTG
1967273 AAAA-GAAAAAGGTGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* *
1967305 AAAAAGAAAAAGGGTGCCACAGAGTTGTGGACTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
** *
1967339 AAAAGGAAAAAGGGTGCCATAGAGTTGTGGGCTTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGAC-TT
* * *
1967374 GAAAA-GAAAAAGGTTCCATGGAGTT-TTGACTT
1 -AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
**
1967406 AAAA-G-----GGTGCCATAGAGTTGTGGACTT
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* *
1967433 AAAAGGGAAAAGGGTGCCACGAAGTTGTGGACTT
1 AAAA-GGAAAAAGGTGCCACGGAGTTGTGGACTT
*
1967467 AAAAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGAC-TT
* *
1967502 GAAAA-GAAAAAGATGCCACAGAGTTGTGGACTT
1 -AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
*
1967535 AAAAGGAAAAAAGGTGCCACGGAGTTGCAGG-CTTT
1 AAAAGG-AAAAAGGTGCCACGGAGTTG-TGGAC-TT
1967570 GAAAAGGAAAAAGGGTGCCACGGAGTTGTGGACTT
1 -AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
* *
1967605 AAAAGGAAAAAGGGTGCCACAGAGTTGTGGGCTTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGAC-TT
*
1967640 GAAAA-GAAAAAGGTGCCACGGAATTGTGGACTT
1 -AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* * *
1967673 AAAAGGAAAAAGGATGCCACGAAGTCGTGGGCTTT
1 AAAAGGAAAAAGG-TGCCACGGAGTTGTGGAC-TT
*
1967708 GAAAA-GAAAAAGGTGCCACGAAGTTGTGGACTT
1 -AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
** ** *
1967741 AAAAGGAAAAAGAGTGCCATAGAGTCATGGGCTTT
1 AAAAGGAAAAAG-GTGCCACGGAGTTGTGGAC-TT
* *
1967776 GAAAA-GAAAATGGTGCCATGGAGTTGTGGACTT
1 -AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
* *
1967809 AAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTT
1 AAAAGGAAAAAG-GTGCCACGGAGTTGTGGAC-TT
* *
1967844 GAAAA-GAAAAAGGTACCATGGAGTTGTGGACTT
1 -AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
1967877 AAAAGGAAAAAGGGTGCCACGGAGTTGTGGACTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
*
1967911 AAAAGGAAAAAGGGTGCCACGGAGTTGTGAACTT
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGACTT
* ** *
1967945 AAAAGGAAAAAAGGTGCCACGAAGTCATGGGCTTT
1 AAAAGG-AAAAAGGTGCCACGGAGTTGTGGAC-TT
*
1967980 GAAAA-GAAAAAGGTGCCACAGAGTT
1 -AAAAGGAAAAAGGTGCCACGGAGTT
1968005 ATAGATGGGT
Statistics
Matches: 594, Mismatches: 65, Indels: 80
0.80 0.09 0.11
Matches are distributed among these distances:
26 12 0.02
27 10 0.02
29 1 0.00
31 5 0.01
32 26 0.04
33 53 0.09
34 365 0.61
35 72 0.12
36 50 0.08
ACGTcount: A:0.37, C:0.12, G:0.32, T:0.19
Consensus pattern (33 bp):
AAAAGGAAAAAGGTGCCACGGAGTTGTGGACTT
Found at i:1967322 original size:68 final size:67
Alignment explanation
Indices: 1967273--1968004 Score: 896
Period size: 68 Copynumber: 10.9 Consensus size: 67
1967263 GTAAGCTTTG
* * *
1967273 AAAA-GAAAAAGGTGCCACGGAGTTGTGGAC-TTAAAAAGAAAAAGGGTGCCACAGAGTTGTGGA
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAA-GGTGCCACGGAGTTGTGGA
1967336 CTT
65 CTT
** * * *
1967339 AAAAGGAAAAAGGGTGCCATAGAGTTGTGGGCTTTGAAAAGAAAAAGGTTCCATGGAGTT-TTGA
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGA
1967403 CTT
65 CTT
** * * *
1967406 AAAA-G-----GGTGCCATAGAGTTGTGGAC-TT-AAAAGGGAAAAGGGTGCCACGAAGTTGTGG
1 AAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA--GAAAAAGGTGCCACGGAGTTGTGG
1967463 ACTT
64 ACTT
* *
1967467 AAAAGGAAAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGATGCCACAGAGTTGTGGA
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGA
1967532 CTT
65 CTT
**
1967535 AAAAGGAAAAAAGGTGCCACGGAGTTGCAGGCTTTGAAAAGGAAAAAGGGTGCCACGGAGTTGTG
1 AAAAGG-AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAA-GGTGCCACGGAGTTGTG
1967600 GACTT
63 GACTT
* *
1967605 AAAAGGAAAAAGGGTGCCACAGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAATTGTGGA
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGA
1967670 CTT
65 CTT
* * *
1967673 AAAAGGAAAAAGGATGCCACGAAGTCGTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGA
1 AAAAGGAAAAAGG-TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGA
1967738 CTT
65 CTT
** ** * *
1967741 AAAAGGAAAAAGAGTGCCATAGAGTCATGGGCTTTGAAAAGAAAATGGTGCCATGGAGTTGTGGA
1 AAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGA
1967806 CTT
65 CTT
* * *
1967809 AAAAGGAAAAAGAGTGCCACGAAGTTGTGGGCTTTGAAAAGAAAAAGGTACCATGGAGTTGTGGA
1 AAAAGGAAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGA
1967874 CTT
65 CTT
*
1967877 AAAAGGAAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGAAAAAGGGTGCCACGGAGTTGTG
1 AAAAGGAAAAA-GGTGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAA-GGTGCCACGGAGTTGTG
*
1967940 AACTT
63 GACTT
* ** *
1967945 AAAAGGAAAAAAGGTGCCACGAAGTCATGGGCTTTGAAAAGAAAAAGGTGCCACAGAGTT
1 AAAAGG-AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTT
1968005 ATAGATGGGT
Statistics
Matches: 581, Mismatches: 58, Indels: 52
0.84 0.08 0.08
Matches are distributed among these distances:
58 4 0.01
59 2 0.00
60 35 0.06
61 10 0.02
62 1 0.00
66 9 0.02
67 26 0.04
68 384 0.66
69 51 0.09
70 59 0.10
ACGTcount: A:0.37, C:0.12, G:0.32, T:0.19
Consensus pattern (67 bp):
AAAAGGAAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTGTGGAC
TT
Found at i:1968712 original size:13 final size:13
Alignment explanation
Indices: 1968694--1968719 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1968684 AAACAATTTT
1968694 TTTCATCATGAAA
1 TTTCATCATGAAA
1968707 TTTCATCATGAAA
1 TTTCATCATGAAA
1968720 ATGTGGACAA
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:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TTTCATCATGAAA
Found at i:1971362 original size:42 final size:42
Alignment explanation
Indices: 1971229--1971362 Score: 137
Period size: 42 Copynumber: 3.2 Consensus size: 42
1971219 ATCAACAAAA
* * * * *
1971229 GATAAAAGATTTACTTGGGACTAAGCTGACAAGTAAATAAGG
1 GATAAAAAATTTACCTGGGACTAAGCCGATAAGTAAACAAGG
* * * ** *
1971271 GATAAAAAGTTGA-CTGAGACTAAATCGATAAGTCAAC-AGAG
1 GATAAAAAATTTACCTGGGACTAAGCCGATAAGTAAACAAG-G
*
1971312 GATAAAAAATTTACCTGGGACTAAGCCGATAGGTAAACAAGG
1 GATAAAAAATTTACCTGGGACTAAGCCGATAAGTAAACAAGG
1971354 GATAAAAAA
1 GATAAAAAA
1971363 GTGATCGAGA
Statistics
Matches: 71, Mismatches: 18, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
40 2 0.03
41 28 0.39
42 39 0.55
43 2 0.03
ACGTcount: A:0.46, C:0.11, G:0.22, T:0.20
Consensus pattern (42 bp):
GATAAAAAATTTACCTGGGACTAAGCCGATAAGTAAACAAGG
Found at i:1971738 original size:42 final size:43
Alignment explanation
Indices: 1971709--1972026 Score: 160
Period size: 42 Copynumber: 7.4 Consensus size: 43
1971699 AAGAATGAAG
*
1971709 AAGTCTTTCGAGTCTAAGCCGACGAGTAGACAAAAGATAAAAA
1 AAGTCTCTCGAGTCTAAGCCGACGAGTAGACAAAAGATAAAAA
* * * *
1971752 AAGTCTCTCGAGTCTAAGCGGACGGGTAGATAAAAGA-AAAGA
1 AAGTCTCTCGAGTCTAAGCCGACGAGTAGACAAAAGATAAAAA
* * * *
1971794 AAGTCTCT-TAGGTCTAAGCTGACGCGCAGATC-AAAGAT-AAAA
1 AAGTCTCTCGA-GTCTAAGCCGACGAGTAGA-CAAAAGATAAAAA
* * *
1971836 GAGTCTC-CTGAGTCTAAGCCAAC-AGGCAGACAAAGAAAGGATAAAAA
1 AAGTCTCTC-GAGTCTAAGCCGACGA-GTAGAC--A-AAA-GATAAAAA
* * * * *
1971883 AGGTCTCT-GGGTCTAAGCCGA-TAGGTAGA-AAAGAGAT-GAAG
1 AAGTCTCTCGAGTCTAAGCCGACGA-GTAGACAAA-AGATAAAAA
*
1971924 AAGTCTAC-C-AGGTCTAAGCCGACGGGTAGACAAAGAGAT-AAAA
1 AAGTCT-CTCGA-GTCTAAGCCGACGAGTAGACAAA-AGATAAAAA
* * * * * * * *
1971967 AAGTCTCCCG-GATTTGAGCTGATGAGCAAACAAAGGATAAAAA
1 AAGTCTCTCGAG-TCTAAGCCGACGAGTAGACAAAAGATAAAAA
* *
1972010 AGGTCTCTCGGGTCTAA
1 AAGTCTCTCGAGTCTAA
1972027 CCTTACGGGA
Statistics
Matches: 209, Mismatches: 41, Indels: 50
0.70 0.14 0.17
Matches are distributed among these distances:
41 9 0.04
42 84 0.40
43 83 0.40
44 1 0.00
45 3 0.01
46 20 0.10
47 9 0.04
ACGTcount: A:0.40, C:0.17, G:0.25, T:0.18
Consensus pattern (43 bp):
AAGTCTCTCGAGTCTAAGCCGACGAGTAGACAAAAGATAAAAA
Found at i:1972626 original size:77 final size:78
Alignment explanation
Indices: 1972386--1972652 Score: 392
Period size: 78 Copynumber: 3.4 Consensus size: 78
1972376 TTGGAAACAT
* * * * * *
1972386 GTGGGAAATGCCCCTCATGGCCATGTGATACATCAATACCATTTAGTATTTGAGAAGGAGGGATA
1 GTGGGAAATGCCCCTCTTGGCCATGTGATGCATCAATATCATCTAGTATTTAAGAATGAGGGATA
*
1972451 TGACTGGAAGTGT
66 TGACTGGAAGTGA
*
1972464 GTGGGAAATGCCCCTTTTGGCCATGTGATGCATCAATATCATCTAGTATTTAAGAATGAGGGATA
1 GTGGGAAATGCCCCTCTTGGCCATGTGATGCATCAATATCATCTAGTATTTAAGAATGAGGGATA
1972529 TGACTGGAAGTGA
66 TGACTGGAAGTGA
* *
1972542 GTGGGAAATGCCCCTCTTGGCCATGTGAT-CATCAATATCATCTACTGTTTAAGAATGAGGGATA
1 GTGGGAAATGCCCCTCTTGGCCATGTGATGCATCAATATCATCTAGTATTTAAGAATGAGGGATA
* * *
1972606 TGGCTAGAAATGA
66 TGACTGGAAGTGA
**
1972619 GCAGGAAATGCCCCTCTTGGCCATGTGATGCATC
1 GTGGGAAATGCCCCTCTTGGCCATGTGATGCATC
1972653 GATGTCCTCT
Statistics
Matches: 172, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
77 70 0.41
78 102 0.59
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (78 bp):
GTGGGAAATGCCCCTCTTGGCCATGTGATGCATCAATATCATCTAGTATTTAAGAATGAGGGATA
TGACTGGAAGTGA
Found at i:1972682 original size:155 final size:156
Alignment explanation
Indices: 1972386--1972686 Score: 381
Period size: 155 Copynumber: 1.9 Consensus size: 156
1972376 TTGGAAACAT
* * *
1972386 GTGGGAAATGCCCCTCATGGCCATGTGATACATCAATACCATTTAGTATTTGAGAAGGAGGGATA
1 GTGGGAAATGCCCCTCATGGCCATGTGATACATCAATACCATCTACTATTTAAGAAGGAGGGATA
* * * ** * * *
1972451 TGACTGGAAGTGTGTGGGAAATGCCCCTTTTGGCCATGTGATGCATCAATATCATCTAGTATTTA
66 TGACTAGAAATGAGCAGGAAATGCCCCTCTTGGCCATGTGATGCATCAATATCATCTAGGATTGA
*
1972516 AGAATGAGGGATATGACTGGAAGTGA
131 AGAAAGAGGGATATGACTGGAAGTGA
* * * *
1972542 GTGGGAAATGCCCCTCTTGGCCATGTGAT-CATCAATATCATCTACTGTTTAAGAATGAGGGATA
1 GTGGGAAATGCCCCTCATGGCCATGTGATACATCAATACCATCTACTATTTAAGAAGGAGGGATA
* * * *
1972606 TGGCTAGAAATGAGCAGGAAATGCCCCTCTTGGCCATGTGATGCATCGATGTCCTCTAGGGATTG
66 TGACTAGAAATGAGCAGGAAATGCCCCTCTTGGCCATGTGATGCATCAATATCATCTA-GGATTG
* *
1972671 GATAAAG-GGGATATGA
130 AAGAAAGAGGGATATGA
1972687 TTAGAAATAT
Statistics
Matches: 122, Mismatches: 22, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
155 86 0.70
156 36 0.30
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.28
Consensus pattern (156 bp):
GTGGGAAATGCCCCTCATGGCCATGTGATACATCAATACCATCTACTATTTAAGAAGGAGGGATA
TGACTAGAAATGAGCAGGAAATGCCCCTCTTGGCCATGTGATGCATCAATATCATCTAGGATTGA
AGAAAGAGGGATATGACTGGAAGTGA
Found at i:1974551 original size:23 final size:23
Alignment explanation
Indices: 1974525--1974577 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
1974515 GCTTTTTCTT
1974525 TTTTCTTTT-TGTTTTTTGATTT-C
1 TTTTCTTTTCT-TTTTTT-ATTTGC
*
1974548 TTTTCTTTTCTTTTTTTTTTTGC
1 TTTTCTTTTCTTTTTTTATTTGC
1974571 TTTTCTT
1 TTTTCTT
1974578 ATTTAGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
22 3 0.11
23 23 0.85
24 1 0.04
ACGTcount: A:0.02, C:0.11, G:0.06, T:0.81
Consensus pattern (23 bp):
TTTTCTTTTCTTTTTTTATTTGC
Found at i:1974575 original size:18 final size:18
Alignment explanation
Indices: 1974518--1974577 Score: 63
Period size: 17 Copynumber: 3.4 Consensus size: 18
1974508 TTTTCATGCT
1974518 TTTTCTTTTTTCTTTTTG-
1 TTTTCTTTTTT-TTTTTGC
* *
1974536 TTTT-TTGATTTCTTTT-C
1 TTTTCTT-TTTTTTTTTGC
1974553 TTTTCTTTTTTTTTTTGC
1 TTTTCTTTTTTTTTTTGC
1974571 TTTTCTT
1 TTTTCTT
1974578 ATTTAGAGAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
17 17 0.50
18 17 0.50
ACGTcount: A:0.02, C:0.12, G:0.05, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTTTTTTTGC
Found at i:1975306 original size:33 final size:33
Alignment explanation
Indices: 1975264--1975330 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
1975254 CACAATCTTG
1975264 GCACATATCTAATAGTCTCAATTAGGTTCCTTA
1 GCACATATCTAATAGTCTCAATTAGGTTCCTTA
1975297 GCACATATCTAATAGTCTCAATTAGGTTCCTTA
1 GCACATATCTAATAGTCTCAATTAGGTTCCTTA
1975330 G
1 G
1975331 AAGAAATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.21, G:0.13, T:0.36
Consensus pattern (33 bp):
GCACATATCTAATAGTCTCAATTAGGTTCCTTA
Found at i:1978499 original size:156 final size:156
Alignment explanation
Indices: 1978180--1978889 Score: 754
Period size: 156 Copynumber: 4.5 Consensus size: 156
1978170 GGGCTAAGAT
* * * **
1978180 TAAAAGAATTATGAAAATACTCCTA-AGGGATAACTTCGACGTAAAAGTATCATGGCAACCCTAA
1 TAAAA-AATTATGAAAATACCCCTATAGGTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAA
* * * *
1978244 AGGACTTAAAAAGACTA-AAGATGGGATGAACCTATCCTAAATGCCCACCTAT-GGCATAAAAGC
65 AGGACTTAAAAAGATTAGAA-AAGGGATGAACCTATCCTAAATACCCACCT-TCGACATAAAAGC
* * *
1978307 GAA-CCTAGTGACAAATTAGGACTCGATTC
128 AAACCCGA-TGACAAACTAGGACTCGATTC
* * * *
1978336 TAGAAAATTATGAAAATGCCCTTATAGGTATGCCTTCGACGTAAAAGTATCCCGGCAACCCTAAA
1 TAAAAAATTATGAAAATACCCCTATAGGTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAA
* * *
1978401 GGACTTAAAAAGATTAGAAAAGGGATGAACCTATCCTAAATATCTACCTTCGACATAAAAGTAAA
66 GGACTTAAAAAGATTAGAAAAGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAAA
*** * * *
1978466 CCCGATGACGTCCTAGGAGTTGGTTC
131 CCCGATGACAAACTAGGACTCGATTC
* * * * *
1978492 TAAAAAATT-TCGAAAATACCCCTACAAGTATACATTCCACATAAAAGTATCCCGGCAACCCTAA
1 TAAAAAATTAT-GAAAATACCCCTATAGGTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAA
* * * * * *
1978556 AGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAATGCCCACCTTCGGCATAAAAGCAG
65 AGGACTTAAAAAGATTAGAAAAGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAA
*
1978621 ACCCGGTGACAAACTAGGACTCGATTC
130 ACCCGATGACAAACTAGGACTCGATTC
* * * *
1978648 TAAGAAATTATGAAAATACCCCTAT-GAGTATACTTTTGACGTAAAAGTATCCCGGCAACCTTAA
1 TAAAAAATTATGAAAATACCCCTATAG-GTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAA
* * * * *
1978712 AGGACTTTAAAAGATTAGAAAAGGGATGAACGTATCCTAAATATCTACCTTC-AGCATAAAAGCG
65 AGGACTTAAAAAGATTAGAAAAGGGATGAACCTATCCTAAATACCCACCTTCGA-CATAAAAGCA
* * * * *
1978776 GACCCGGTGAC-AACTTAGGAGTTGGTTC
129 AACCCGATGACAAAC-TAGGACTCGATTC
* * * * *
1978804 TAAAAAAAATATGAAAATACCCCTATA-GTAATACCTTCAATGTAAAAGTATCTCGGCAACTCTA
1 T-AAAAAATTATGAAAATACCCCTATAGGT-ATACCTTCGACGTAAAAGTATCCCGGCAACCCTA
*
1978868 AAGGACATAAAAAGATTAGAAA
64 AAGGACTTAAAAAGATTAGAAA
1978890 TGGTGATTTT
Statistics
Matches: 460, Mismatches: 82, Indels: 23
0.81 0.15 0.04
Matches are distributed among these distances:
155 21 0.05
156 364 0.79
157 75 0.16
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (156 bp):
TAAAAAATTATGAAAATACCCCTATAGGTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAA
GGACTTAAAAAGATTAGAAAAGGGATGAACCTATCCTAAATACCCACCTTCGACATAAAAGCAAA
CCCGATGACAAACTAGGACTCGATTC
Found at i:1978797 original size:312 final size:312
Alignment explanation
Indices: 1978221--1978892 Score: 935
Period size: 312 Copynumber: 2.2 Consensus size: 312
1978211 AACTTCGACG
* *
1978221 TAAAAGTATCATGGCAACCCTAAAGGACTTAAAAAGACTAAAGATGGGATGAACCTATCCTAAAT
1 TAAAAGTATCACGGCAACCCTAAAGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAAT
* *
1978286 GCCCACCTATGGCATAAAAGCGAACCTAGTGACAAATTAGGACTCGATTCTAGAAAATTATGAAA
66 GCCCACCTATGGCATAAAAGCGAACCCAGTGACAAACTAGGACTCGATTCTAGAAAATTATGAAA
* * *
1978351 ATGCCCTTATAGGTATGCCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGATT
131 ATACCCCTATAGGTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGATT
* **
1978416 AGAAAAGGGATGAACCTATCCTAAATATCTACCTTCGACATAAAAGTAAACCCGATGACGTCCTA
196 AGAAAAGGGATGAACCTATCCTAAATATCTACCTTCGACATAAAAGCAAACCCGATGACAACCTA
* *
1978481 GGAGTTGGTTCT-AAAAAATTTCGAAAATACCCCTACAAGT-ATACATTCCACA
261 GGAGTTGGTTCTAAAAAAATAT-GAAAATACCCCTA-AAGTAATACATTCAACA
*
1978533 TAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAAT
1 TAAAAGTATCACGGCAACCCTAAAGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAAT
*
1978598 GCCCACCT-TCGGCATAAAAGC-AGACCCGGTGACAAACTAGGACTCGATTCTA-AGAAATTATG
66 GCCCACCTAT-GGCATAAAAGCGA-ACCCAGTGACAAACTAGGACTCGATTCTAGA-AAATTATG
* * * *
1978660 AAAATACCCCTAT-GAGTATACTTTTGACGTAAAAGTATCCCGGCAACCTTAAAGGACTTTAAAA
128 AAAATACCCCTATAG-GTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAA
* ** *
1978724 GATTAGAAAAGGGATGAACGTATCCTAAATATCTACCTTC-AGCATAAAAGCGGACCCGGTGACA
192 GATTAGAAAAGGGATGAACCTATCCTAAATATCTACCTTCGA-CATAAAAGCAAACCCGATGACA
* * * **
1978788 ACTTAGGAGTTGGTTCTAAAAAAAATATGAAAATACCCCTATAGTAATACCTTCAATG
256 ACCTAGGAGTTGGTTCT-AAAAAAATATGAAAATACCCCTAAAGTAATACATTCAACA
* * * * *
1978846 TAAAAGTATCTCGGCAACTCTAAAGGACATAAAAAGATTAGAAATGG
1 TAAAAGTATCACGGCAACCCTAAAGGACTTAAAAAGACTAGAGATGG
1978893 TGATTTTACC
Statistics
Matches: 320, Mismatches: 32, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
311 5 0.02
312 244 0.76
313 63 0.20
314 8 0.03
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.23
Consensus pattern (312 bp):
TAAAAGTATCACGGCAACCCTAAAGGACTTAAAAAGACTAGAGATGGGATGAACCTATCCTAAAT
GCCCACCTATGGCATAAAAGCGAACCCAGTGACAAACTAGGACTCGATTCTAGAAAATTATGAAA
ATACCCCTATAGGTATACCTTCGACGTAAAAGTATCCCGGCAACCCTAAAGGACTTAAAAAGATT
AGAAAAGGGATGAACCTATCCTAAATATCTACCTTCGACATAAAAGCAAACCCGATGACAACCTA
GGAGTTGGTTCTAAAAAAATATGAAAATACCCCTAAAGTAATACATTCAACA
Found at i:1979796 original size:21 final size:21
Alignment explanation
Indices: 1979770--1979824 Score: 94
Period size: 20 Copynumber: 2.7 Consensus size: 21
1979760 ACAAGTTAAC
1979770 ATAATGAAAATCAACATAAAT
1 ATAATGAAAATCAACATAAAT
1979791 ATAATGAAAATC-ACATAAAT
1 ATAATGAAAATCAACATAAAT
*
1979811 ATAATAAAAATCAA
1 ATAATGAAAATCAA
1979825 GTAAATCATC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 19 0.59
21 13 0.41
ACGTcount: A:0.64, C:0.09, G:0.04, T:0.24
Consensus pattern (21 bp):
ATAATGAAAATCAACATAAAT
Found at i:1980881 original size:19 final size:20
Alignment explanation
Indices: 1980840--1980884 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
1980830 TTTTGTATTT
**
1980840 TGAAAAAAGAAAAATTTCAA
1 TGAAAAAAGAAAAAACTCAA
*
1980860 TGAAAAAATAAAAAACTC-A
1 TGAAAAAAGAAAAAACTCAA
1980879 TGAAAA
1 TGAAAA
1980885 TGAAAGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.67, C:0.07, G:0.09, T:0.18
Consensus pattern (20 bp):
TGAAAAAAGAAAAAACTCAA
Found at i:1982762 original size:142 final size:140
Alignment explanation
Indices: 1982505--1983061 Score: 458
Period size: 150 Copynumber: 3.8 Consensus size: 140
1982495 CATCAGGTCA
* * * * * * *
1982505 CTTCTATGTCGAGGGTATGACTTAGGCGTAGGTTCGCTTTTA-CTTTTTCAAGTCCTCTAGGATC
1 CTTCTATGTCGAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTCAAGTCCTTTAGGATC
* * * * ** * *
1982569 ATCGGGCACTTATAAGTTGATGGTAGACTTTAGGGACCTTTTAGCCGTTTTTCCCCCAAAACAAA
66 ATCGGGCACTTCTAAGTCGATGGTAAACCTTAGGGATATTTTAG-CATTTTTCCCCAAAAACAAA
1982634 CTATCAAGTCCG
130 CTA-CAAGTCCG
*
1982646 CTTCTATG-CTGAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTTAAGTCCTTTAGGAT
1 CTTCTATGTC-GAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTCAAGTCCTTTAGGAT
* * * * **
1982710 CATCGGGCATTTCTAAGTCGATGGTAAATCTTAGTGATATTTT-GAAATTTTT-TGCAAAACTTA
65 CATCGGGCACTTCTAAGTCGATGGTAAACCTTAGGGATATTTTAG-CATTTTTCCCCAAAA---A
* *
1982773 GTCTTATAAAACTACTAGATCCA
126 --C-----AAACTACAAG-TCCG
* * * * *
1982796 CTTTTATGCCGAAGGTATGAATCAGGAGTGGGTTTATTTTTATCTTTTTCAAGTCCCTTAGGATC
1 CTTCTATGTCGAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTCAAGTCCTTTAGGATC
* * * * **
1982861 ACCGGGCACTTCTAAGTCAATAGTAAACCTTAAGGATATTTTAGCATTTTTCCTAAAACCTAGTT
66 ATCGGGCACTTCTAAGTCGATGGTAAACCTTAGGGATATTTTAGCATTTTTCCCCAAA---A---
* **
1982926 TGATAAAACTACTGGGTCCG
125 --A-CAAACTAC-AAGTCCG
* *
1982946 CTTCTACGTCAAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTGTTT-AAGTCCTTTAGGAT
1 CTTCTATGTCGAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTT-TTTCAAGTCCTTTAGGAT
* * *
1983010 CATTGGGCACTTTTAAGTCGATGGTAAACCTTCGGGATATTTTAGCATTTTT
65 CATCGGGCACTTCTAAGTCGATGGTAAACCTTAGGGATATTTTAGCATTTTT
1983062 TCACGAAATC
Statistics
Matches: 332, Mismatches: 61, Indels: 37
0.77 0.14 0.09
Matches are distributed among these distances:
140 5 0.02
141 40 0.12
142 53 0.16
143 1 0.00
145 1 0.00
149 3 0.01
150 216 0.65
151 9 0.03
154 1 0.00
155 1 0.00
156 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.20, T:0.38
Consensus pattern (140 bp):
CTTCTATGTCGAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTCAAGTCCTTTAGGATC
ATCGGGCACTTCTAAGTCGATGGTAAACCTTAGGGATATTTTAGCATTTTTCCCCAAAAACAAAC
TACAAGTCCG
Found at i:1982836 original size:150 final size:149
Alignment explanation
Indices: 1982646--1983061 Score: 525
Period size: 150 Copynumber: 2.8 Consensus size: 149
1982636 ATCAAGTCCG
*
1982646 CTTCTATGCTGAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTTAAGTCCTTTAGGATC
1 CTTCTATGCCGAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTTAAGTCCTTTAGGATC
* * *
1982711 ATCGGGCATTTCTAAGTCGATGGTAAATCTTAGTGATATTTT-GAAATTTTTTGC-AAAACTTAG
66 ATCGGGCATTTCTAAGTCGATGGTAAACCTTAG-GATATTTTAG-AA-TTTTTCCTAAAACCTAG
1982774 TCTT-ATAAAACTACTAGATCCA
128 T-TTGATAAAACTACTAGATCCA
* * * * *
1982796 CTTTTATGCCGAAGGTATGAATCAGGAGTGGGTTTATTTTTATCTTTTTCAAGTCCCTTAGGATC
1 CTTCTATGCCGAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTTAAGTCCTTTAGGATC
* * * * *
1982861 ACCGGGCACTTCTAAGTCAATAGTAAACCTTAAGGATATTTTAGCATTTTTCCTAAAACCTAGTT
66 ATCGGGCATTTCTAAGTCGATGGTAAACCTT-AGGATATTTTAGAATTTTTCCTAAAACCTAGTT
* * *
1982926 TGATAAAACTACTGGGTCCG
130 TGATAAAACTACTAGATCCA
* * * *
1982946 CTTCTACGTCAAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTGTTTAAGTCCTTTAGGATC
1 CTTCTATGCCGAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTTAAGTCCTTTAGGATC
* * *
1983011 ATTGGGCACTTT-TAAGTCGATGGTAAACCTTCGGGATATTTTAGCATTTTT
66 ATCGGGCA-TTTCTAAGTCGATGGTAAACCTT-AGGATATTTTAGAATTTTT
1983062 TCACGAAATC
Statistics
Matches: 228, Mismatches: 33, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
149 8 0.04
150 215 0.94
151 5 0.02
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.40
Consensus pattern (149 bp):
CTTCTATGCCGAAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTTAAGTCCTTTAGGATC
ATCGGGCATTTCTAAGTCGATGGTAAACCTTAGGATATTTTAGAATTTTTCCTAAAACCTAGTTT
GATAAAACTACTAGATCCA
Found at i:1983100 original size:150 final size:147
Alignment explanation
Indices: 1982657--1983112 Score: 508
Period size: 150 Copynumber: 3.0 Consensus size: 147
1982647 TTCTATGCTG
1982657 AAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTTAAGTCCTTTAGGATCATCGGGCA-TT
1 AAGGTATGAATTAGGAGTGGGTTTGTTTTTATC-TTTTTAAGTCCTTTAGGATCATCGGGCACTT
* * *
1982721 TCTAAGTCGATGGTAAATCTTAGTGATATTTT-GAAATTTTTTGCA-AAACTTAGTCTTATAAAA
65 T-TAAGTCGATGGTAAACCTTAGGGATATTTTAG-CATTTTTT-CACAAAC-TAG-CTTATAAAA
* * * * *
1982784 CTACTAGATCCACTTTTATGCCG
125 CTACTGGGTCCACTTCTACGCCA
* * * *
1982807 AAGGTATGAATCAGGAGTGGGTTTATTTTTATCTTTTTCAAGTCCCTTAGGATCACCGGGCACTT
1 AAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTT-AAGTCCTTTAGGATCATCGGGCACTT
* * * * * *
1982872 CTAAGTCAATAGTAAACCTTAAGGATATTTTAGCATTTTTCCTA-AAACCTAGTTTGATAAAACT
65 TTAAGTCGATGGTAAACCTTAGGGATATTTTAGCATTTTTTC-ACAAA-CTAGCTT-ATAAAACT
* *
1982936 ACTGGGTCCGCTTCTACGTCA
127 ACTGGGTCCACTTCTACGCCA
*
1982957 AAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTGTTTAAGTCCTTTAGGATCATTGGGCACTT
1 AAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTT-TTTAAGTCCTTTAGGATCATCGGGCACTT
* * *
1983022 TTAAGTCGATGGTAAACCTTCGGGATATTTTAGCATTTTTTCACGAAATCTAGCCCTATGAAACT
65 TTAAGTCGATGGTAAACCTTAGGGATATTTTAGCATTTTTTCAC-AAA-CTAG-CTTATAAAACT
* *
1983087 ACCGGGT-CACTTCTATGCCA
127 ACTGGGTCCACTTCTACGCCA
*
1983107 AGGGTA
1 AAGGTA
1983113 CATACTAGGG
Statistics
Matches: 256, Mismatches: 40, Indels: 20
0.81 0.13 0.06
Matches are distributed among these distances:
149 9 0.04
150 219 0.86
151 27 0.11
152 1 0.00
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.38
Consensus pattern (147 bp):
AAGGTATGAATTAGGAGTGGGTTTGTTTTTATCTTTTTAAGTCCTTTAGGATCATCGGGCACTTT
TAAGTCGATGGTAAACCTTAGGGATATTTTAGCATTTTTTCACAAACTAGCTTATAAAACTACTG
GGTCCACTTCTACGCCA
Found at i:1983735 original size:19 final size:20
Alignment explanation
Indices: 1983692--1983744 Score: 90
Period size: 19 Copynumber: 2.7 Consensus size: 20
1983682 ATTTCAACGA
1983692 TTTGTATCGATACATAAAAT
1 TTTGTATCGATACATAAAAT
*
1983712 ATTGTATCGATACAT-AAAT
1 TTTGTATCGATACATAAAAT
1983731 TTTGTATCGATACA
1 TTTGTATCGATACA
1983745 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.55
20 14 0.45
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.40
Consensus pattern (20 bp):
TTTGTATCGATACATAAAAT
Found at i:1983805 original size:13 final size:13
Alignment explanation
Indices: 1983787--1983811 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1983777 ATTACTCAAA
1983787 TGTATCGATACAT
1 TGTATCGATACAT
1983800 TGTATCGATACA
1 TGTATCGATACA
1983812 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1983860 original size:52 final size:52
Alignment explanation
Indices: 1983820--1983948 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
1983810 CACTGATCTT
* *
1983820 TGTATCGATACATGCAAGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1983872 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATTGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1983924 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1983949 TCATATTTCG
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1999298 original size:29 final size:29
Alignment explanation
Indices: 1999259--1999578 Score: 227
Period size: 29 Copynumber: 10.7 Consensus size: 29
1999249 TCACCCTTCA
1999259 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1999288 AAAGCCCACAAGTCAGTGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
1999317 AAAGCCCACAAGTCAGTGGCAAC--CTTC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
1999344 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTTC
* * *
1999374 GAAGCCCACAAGTCGGTGGCATCTTTTCC
1 AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * * *
1999403 AAAGTCCACAACTCCGTGGCACTCGTTTTCTTTTG
1 AAAGCCCACAAGTCAGTGGCA-TC----T-TTTTC
* * * * * *
1999438 TAAGCTCATAACTCCGTAGCACTCTTTTTCC
1 AAAGCCCACAAGTCAGTGGCA-TCTTTTT-C
* * * * *
1999469 TTTTAAGCCCACAACTTAGTGGCACCCTTTTC
1 ---AAAGCCCACAAGTCAGTGGCATCTTTTTC
* * *
1999501 AAAAGCCCACAAGTCAGTGGCAAC-CTTTA
1 -AAAGCCCACAAGTCAGTGGCATCTTTTTC
* *
1999530 AAAGCCCACAAGTCAGTAGCAATC--TTTA
1 AAAGCCCACAAGTCAGTGGC-ATCTTTTTC
1999558 AAAGCCCACAAGTCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
1999579 ACCTTTAAAA
Statistics
Matches: 238, Mismatches: 39, Indels: 30
0.78 0.13 0.10
Matches are distributed among these distances:
27 24 0.10
28 43 0.18
29 80 0.34
30 45 0.19
31 1 0.00
32 1 0.00
33 5 0.02
34 17 0.07
35 22 0.09
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATCTTTTTC
Found at i:1999362 original size:56 final size:58
Alignment explanation
Indices: 1999259--1999580 Score: 197
Period size: 56 Copynumber: 5.4 Consensus size: 58
1999249 TCACCCTTCA
* * * * *
1999259 AAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCA-TCTTTTTC
1 AAAGCCCACAAGTCAGTGGCAAC-TCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
1999317 AAAGCCCACAAGTCAGTGGCAAC-CTTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAGTCAGTGGCAACTCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
* * * * * * * * *
1999374 GAAGCCCACAAGTCGGTGGCATCTTTTCCAAAGTCCACAACTCCGTGGCACTCGTTTTCTTTTG
1 AAAGCCCACAAGTCAGTGGCAACTCTT-CAAAGCCCACAAATCAGTGGCAC-CCTTTTC----C
* * * * * * * * * *
1999438 TAAGCTCATAACTCCGTAGC-ACTCTTTTTCCTTTTAAGCCCACAACTTAGTGGCACCCTTTTCA
1 AAAGCCCACAAGTCAGTGGCAACTC---TT-C---AAAGCCCACAAATCAGTGGCACCCTTTTCC
* * * ** *
1999502 AAAGCCCACAAGTCAGTGGCAAC-CTTTAAAAGCCCACAAGTCAGTAGCAATC-TTT-A
1 AAAGCCCACAAGTCAGTGGCAACTC-TTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
1999558 AAAGCCCACAAGTCAGTGGCAAC
1 AAAGCCCACAAGTCAGTGGCAAC
1999581 CTTTAAAAGC
Statistics
Matches: 208, Mismatches: 41, Indels: 32
0.74 0.15 0.11
Matches are distributed among these distances:
56 47 0.23
57 29 0.14
58 42 0.20
59 20 0.10
60 6 0.03
62 3 0.01
63 2 0.01
64 29 0.14
65 2 0.01
66 4 0.02
68 6 0.03
69 18 0.09
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (58 bp):
AAAGCCCACAAGTCAGTGGCAACTCTTCAAAGCCCACAAATCAGTGGCACCCTTTTCC
Found at i:1999381 original size:86 final size:86
Alignment explanation
Indices: 1999253--1999423 Score: 245
Period size: 86 Copynumber: 2.0 Consensus size: 86
1999243 CATTCCTCAC
* * * *
1999253 CCTTCAAAAGCCCACAAGTCAGTGGCATCTTTTTCAAAGCCCACAAGTCAGTGGCATCTTTTTCA
1 CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCA
*
1999318 AAGCCCACAAGTCAGTGGCAA
66 AAGCCCACAACTCAGTGGCAA
* *
1999339 CCTTC-AAAGCCCACAAATCAGTGGCACCCTTTTCCGAAGCCCACAAGTCGGTGGCATCTTTTCC
1 CCTTCAAAAGCCCACAAATCAGTGGCA-CCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCC
* *
1999403 AAAGTCCACAACTCCGTGGCA
65 AAAGCCCACAACTCAGTGGCA
1999424 CTCGTTTTCT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
85 20 0.27
86 55 0.73
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (86 bp):
CCTTCAAAAGCCCACAAATCAGTGGCACCTTTTCCAAAGCCCACAAGTCAGTGGCATCTTTTCCA
AAGCCCACAACTCAGTGGCAA
Found at i:1999541 original size:28 final size:28
Alignment explanation
Indices: 1999473--1999624 Score: 182
Period size: 28 Copynumber: 5.3 Consensus size: 28
1999463 TTTTCCTTTT
* * *
1999473 AAGCCCACAACTTAGTGGCACCCTTTTCAA
1 AAGCCCACAAGTCAGTGGCAACC-TTT-AA
1999503 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
1999531 AAGCCCACAAGTCAGTAGCAATCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
1999559 AAGCCCACAAGTCAGTGGCAACCTTTAA
1 AAGCCCACAAGTCAGTGGCAACCTTTAA
* *
1999587 AAGCACACAAGT-TGAT-GCAAACCTTTCAA
1 AAGCCCACAAGTCAG-TGGC-AACCTTT-AA
1999616 AAGCCCACA
1 AAGCCCACA
1999625 CAAGTTGGTG
Statistics
Matches: 109, Mismatches: 10, Indels: 7
0.87 0.08 0.06
Matches are distributed among these distances:
27 3 0.03
28 73 0.67
29 13 0.12
30 20 0.18
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.19
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCAACCTTTAA
Found at i:1999703 original size:48 final size:49
Alignment explanation
Indices: 1999644--1999983 Score: 436
Period size: 48 Copynumber: 7.0 Consensus size: 49
1999634 GGCATCTTCT
*
1999644 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-ATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* *
1999692 TTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
1999740 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTTGGCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC-TT--CATC
* *
1999792 TTTAAGTCTAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
1999841 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGTACC-TCACC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * *
1999889 TTTAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT-GTC
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
* * * * * * *
1999937 TTTAAGACCAATGTCGCCGGCCTTGAATCAACACATTGTCACCTTCA
1 TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1999984 AGTCTAACTG
Statistics
Matches: 255, Mismatches: 30, Indels: 13
0.86 0.10 0.04
Matches are distributed among these distances:
47 3 0.01
48 161 0.63
49 44 0.17
50 2 0.01
51 2 0.01
52 43 0.17
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATC
Found at i:1999913 original size:149 final size:148
Alignment explanation
Indices: 1999644--1999933 Score: 490
Period size: 149 Copynumber: 2.0 Consensus size: 148
1999634 GGCATCTTCT
*
1999644 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGTCCAATGTAGC
1 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGTCCAATATAGC
* * *
1999709 TGGCCTTGAATCAGCACATTGGCACTTCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCAT
66 TGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCAT
*
1999774 ATTGGCGCCTTTGGCACC
131 ATTGGCACCTTTGGCACC
* * *
1999792 TTTAAGTCTAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATATAG
1 TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTT-ATCTTTAAGTCCAATATAG
*
1999857 CTGGCCTTGAATCAGCACATTGGTACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCA
65 CTGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCA
1999922 TATTGGCACCTT
130 TATTGGCACCTT
1999934 GTCTTTAAGA
Statistics
Matches: 132, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
148 42 0.32
149 90 0.68
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (148 bp):
TTTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTATCTTTAAGTCCAATATAGC
TGGCCTTGAATCAGCACATTGGCACCTCACCTTTAAGCCCAATATCGCTGGCCTTGAATCAGCAT
ATTGGCACCTTTGGCACC
Found at i:2000748 original size:13 final size:13
Alignment explanation
Indices: 2000730--2000757 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
2000720 TACATAAAAT
2000730 ATTGTATCGATAC
1 ATTGTATCGATAC
2000743 ATTGTATCGATAC
1 ATTGTATCGATAC
2000756 AT
1 AT
2000758 AAATTTTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (13 bp):
ATTGTATCGATAC
Found at i:2000772 original size:32 final size:33
Alignment explanation
Indices: 2000711--2000775 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
2000701 TGTCAACGAT
2000711 TTGTATCGATACATAAAATATTGTATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
*
2000744 TTGTATCGATACAT-AAATTTTGTATCGATACA
1 TTGTATCGATACATAAAATATTGTATCGATACA
2000776 ATTTAAGCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 17 0.55
33 14 0.45
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.38
Consensus pattern (33 bp):
TTGTATCGATACATAAAATATTGTATCGATACA
Found at i:2000836 original size:13 final size:13
Alignment explanation
Indices: 2000818--2000842 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2000808 ATTACTCAAA
2000818 TGTATCGATACAT
1 TGTATCGATACAT
2000831 TGTATCGATACA
1 TGTATCGATACA
2000843 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2019456 original size:33 final size:32
Alignment explanation
Indices: 2019410--2019491 Score: 101
Period size: 33 Copynumber: 2.5 Consensus size: 32
2019400 CAACCCTCAA
* *
2019410 AGAGAAAGAAGAGATACGAGGGATGATAGGAGG
1 AGAGATAG-AGAGATACGAGGGATGATAAGAGG
*
2019443 AGAGATAGTAGAGATAGGAGGGATGATAAGAGG
1 AGAGATAG-AGAGATACGAGGGATGATAAGAGG
*
2019476 AAAGATACGAGAGATA
1 AGAGATA-GAGAGATA
2019492 ATAGAGAGAG
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
33 42 0.98
34 1 0.02
ACGTcount: A:0.46, C:0.02, G:0.39, T:0.12
Consensus pattern (32 bp):
AGAGATAGAGAGATACGAGGGATGATAAGAGG
Found at i:2022300 original size:8 final size:8
Alignment explanation
Indices: 2022287--2022331 Score: 63
Period size: 8 Copynumber: 5.5 Consensus size: 8
2022277 TTCCAACAAG
2022287 TTTTTTATT
1 TTTTTTA-T
2022296 TTTTTTAT
1 TTTTTTAT
2022304 TTTTTTAT
1 TTTTTTAT
2022312 TTTTTTAT
1 TTTTTTAT
**
2022320 TAGTTTAT
1 TTTTTTAT
2022328 TTTT
1 TTTT
2022332 GTTCTATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
8 25 0.78
9 7 0.22
ACGTcount: A:0.13, C:0.00, G:0.02, T:0.84
Consensus pattern (8 bp):
TTTTTTAT
Found at i:2022301 original size:9 final size:9
Alignment explanation
Indices: 2022287--2022317 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2022277 TTCCAACAAG
2022287 TTTTTTATT
1 TTTTTTATT
2022296 TTTTTTA-T
1 TTTTTTATT
2022304 TTTTTTATT
1 TTTTTTATT
2022313 TTTTT
1 TTTTT
2022318 ATTAGTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTATT
Found at i:2030041 original size:18 final size:19
Alignment explanation
Indices: 2030018--2030056 Score: 71
Period size: 18 Copynumber: 2.1 Consensus size: 19
2030008 TTTTTTCAAG
2030018 AATACAAAAAAAA-GAAAA
1 AATACAAAAAAAAGGAAAA
2030036 AATACAAAAAAAAGGAAAA
1 AATACAAAAAAAAGGAAAA
2030055 AA
1 AA
2030057 AACCAACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.82, C:0.05, G:0.08, T:0.05
Consensus pattern (19 bp):
AATACAAAAAAAAGGAAAA
Found at i:2030824 original size:12 final size:11
Alignment explanation
Indices: 2030805--2030879 Score: 61
Period size: 12 Copynumber: 6.9 Consensus size: 11
2030795 AGAGAAAAAA
2030805 GAGATAGGAGG
1 GAGATAGGAGG
2030816 GATGATAGGAGG
1 GA-GATAGGAGG
2030828 AGAGATAGGA--
1 -GAGATAGGAGG
*
2030838 GAGATAGTA--
1 GAGATAGGAGG
2030847 GAGATAGGAGG
1 GAGATAGGAGG
*
2030858 GATGATAAGAGG
1 GA-GATAGGAGG
2030870 AGAGAT-GGAG
1 -GAGATAGGAG
2030880 ACATAACGGA
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
9 16 0.30
11 7 0.13
12 27 0.50
13 4 0.07
ACGTcount: A:0.40, C:0.00, G:0.47, T:0.13
Consensus pattern (11 bp):
GAGATAGGAGG
Found at i:2030839 original size:9 final size:9
Alignment explanation
Indices: 2030825--2030856 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
2030815 GGATGATAGG
2030825 AGGAGAGAT
1 AGGAGAGAT
2030834 AGGAGAGAT
1 AGGAGAGAT
*
2030843 AGTAGAGAT
1 AGGAGAGAT
2030852 AGGAG
1 AGGAG
2030857 GGATGATAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.12
Consensus pattern (9 bp):
AGGAGAGAT
Found at i:2030854 original size:42 final size:43
Alignment explanation
Indices: 2030804--2030912 Score: 145
Period size: 42 Copynumber: 2.6 Consensus size: 43
2030794 AAGAGAAAAA
* *
2030804 AGAGATAGGAGGGATGATAGGAGGAGAGATAGGAGAGAT-A-GT
1 AGAGATAGGAGGGATGATAGGAGGAGAGAT-GGAGACATAACGG
*
2030846 AGAGATAGGAGGGATGATAAGAGGAGAGATGGAGACATAACGG
1 AGAGATAGGAGGGATGATAGGAGGAGAGATGGAGACATAACGG
*
2030889 AAAGAT--GAGGGATGATAGGAGGAG
1 AGAGATAGGAGGGATGATAGGAGGAG
2030913 TAGAGAAAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
41 24 0.40
42 30 0.50
43 6 0.10
ACGTcount: A:0.41, C:0.02, G:0.44, T:0.13
Consensus pattern (43 bp):
AGAGATAGGAGGGATGATAGGAGGAGAGATGGAGACATAACGG
Found at i:2035360 original size:19 final size:19
Alignment explanation
Indices: 2035336--2035385 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
2035326 AAACAGTAAC
2035336 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGTGT
*
2035355 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAGTGT
2035374 TGTATCGATACA
1 TGTATCGATACA
2035386 ATGTATCGCT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (19 bp):
TGTATCGATACATAAGTGT
Found at i:2035440 original size:20 final size:20
Alignment explanation
Indices: 2035415--2035516 Score: 88
Period size: 20 Copynumber: 5.8 Consensus size: 20
2035405 CTGCCAAGGA
2035415 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTTTTC
2035435 AATGTATCGATACA----T-
1 AATGTATCGATACATTTTTC
*
2035450 --TGTATCGATACGTTTTTC
1 AATGTATCGATACATTTTTC
2035468 AATGTATCGATACA----T-
1 AATGTATCGATACATTTTTC
*
2035483 --TGTATCGATACGTTTTTC
1 AATGTATCGATACATTTTTC
2035501 AATGTATCGATACATT
1 AATGTATCGATACATT
2035517 GTATCGAAAC
Statistics
Matches: 64, Mismatches: 4, Indels: 28
0.67 0.04 0.29
Matches are distributed among these distances:
13 22 0.34
16 2 0.03
17 2 0.03
20 38 0.59
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (20 bp):
AATGTATCGATACATTTTTC
Found at i:2035455 original size:13 final size:13
Alignment explanation
Indices: 2035437--2035528 Score: 55
Period size: 13 Copynumber: 8.0 Consensus size: 13
2035427 CATTTTTCAA
2035437 TGTATCGATACAT
1 TGTATCGATACAT
*
2035450 TGTATCGATACGT
1 TGTATCGATACAT
*
2035463 T-T-T---T-CAA
1 TGTATCGATACAT
2035470 TGTATCGATACAT
1 TGTATCGATACAT
*
2035483 TGTATCGATACGT
1 TGTATCGATACAT
*
2035496 T-T-T---T-CAA
1 TGTATCGATACAT
2035503 TGTATCGATACAT
1 TGTATCGATACAT
*
2035516 TGTATCGAAACAT
1 TGTATCGATACAT
2035529 AGGAAGTTTA
Statistics
Matches: 58, Mismatches: 9, Indels: 24
0.64 0.10 0.26
Matches are distributed among these distances:
7 4 0.07
8 4 0.07
9 2 0.03
11 2 0.03
12 4 0.07
13 42 0.72
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.40
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:2035459 original size:33 final size:33
Alignment explanation
Indices: 2035417--2035528 Score: 197
Period size: 33 Copynumber: 3.4 Consensus size: 33
2035407 GCCAAGGAAA
2035417 TGTATCGATACATTTTTCAATGTATCGATACAT
1 TGTATCGATACATTTTTCAATGTATCGATACAT
*
2035450 TGTATCGATACGTTTTTCAATGTATCGATACAT
1 TGTATCGATACATTTTTCAATGTATCGATACAT
*
2035483 TGTATCGATACGTTTTTCAATGTATCGATACAT
1 TGTATCGATACATTTTTCAATGTATCGATACAT
*
2035516 TGTATCGAAACAT
1 TGTATCGATACAT
2035529 AGGAAGTTTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 76 1.00
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTTTTCAATGTATCGATACAT
Found at i:2036166 original size:21 final size:21
Alignment explanation
Indices: 2036119--2036176 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
2036109 CACTTTTATC
*
2036119 CAAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGA
**
2036140 GGAATGTATCGATACATTCT-A
1 CAAATGTATCGATACATT-TGA
2036161 CAAATGTATCGATACA
1 CAAATGTATCGATACA
2036177 AGGTCCCAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (21 bp):
CAAATGTATCGATACATTTGA
Found at i:2036237 original size:19 final size:19
Alignment explanation
Indices: 2036213--2036276 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
2036203 TTTCAACGAT
2036213 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
2036232 TTGTATCGAT--AGAA---
1 TTGTATCGATACATAAGTG
2036246 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
2036264 ATGTATCGATACA
1 TTGTATCGATACA
2036277 ATGTATTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
13 9 0.24
15 3 0.08
17 3 0.08
19 22 0.59
ACGTcount: A:0.34, C:0.11, G:0.20, T:0.34
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2036250 original size:32 final size:32
Alignment explanation
Indices: 2036214--2036282 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
2036204 TTCAACGATT
* *
2036214 TGTATCGATACATAAGTGTTGTATCGATAGAA
1 TGTATCGATACATAAGTGATGTATCGATACAA
2036246 TGTATCGATACATAAGTGATGTATCGATACAA
1 TGTATCGATACATAAGTGATGTATCGATACAA
2036278 TGTAT
1 TGTAT
2036283 TGTTACAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (32 bp):
TGTATCGATACATAAGTGATGTATCGATACAA
Found at i:2038749 original size:51 final size:51
Alignment explanation
Indices: 2038693--2038809 Score: 156
Period size: 51 Copynumber: 2.4 Consensus size: 51
2038683 AGTTCTCCGC
2038693 AATCGGGGATA-TCCCAACTCCGATTTTATTT-TCAAAACA-CTAATTTTTTAT
1 AATCGGGGATACT-CCAACTCCGATTTTATTTCT-AAAACATC-AATTTTTTAT
2038744 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAA--TTTT-T
1 AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTTTTTAT
*
2038792 CATCGGGGATACTCCAAC
1 AATCGGGGATACTCCAAC
2038810 CCCGTTAATC
Statistics
Matches: 62, Mismatches: 1, Indels: 9
0.86 0.01 0.12
Matches are distributed among these distances:
48 18 0.29
49 4 0.06
51 37 0.60
52 3 0.05
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.35
Consensus pattern (51 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTTTTTAT
Found at i:2038991 original size:79 final size:79
Alignment explanation
Indices: 2038823--2039136 Score: 391
Period size: 79 Copynumber: 3.9 Consensus size: 79
2038813 GTTAATCATT
*
2038823 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCCGGCTTTATTCCTAAAATAT
1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAA-CCCCGGCTTTATTTCTAAAATAT
*
2038888 TGATTTCTCATAATC
65 TAATTTCTCATAATC
* *
2038903 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGACTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATT
2038968 AATTTCTCATAATC
66 AATTTCTCATAATC
* * * * * * *
2038982 AGGGATACTCCAACCCCATTATCTCCGAGGGGATACTCTAACCCCGGTTTTATTTC-CATATCAT
1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT-AT
* * * *
2039046 CAATTTTTCACAATT
65 TAATTTCTCATAATC
* * * *
2039061 GGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCCC-G-TTACTATCTCCAAAATA
1 GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGGCTT--TATTTCTAAAATA
2039124 TTAAATTTCTCAT
64 TT-AATTTCTCAT
2039137 CGGGAAATAT
Statistics
Matches: 200, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
77 2 0.01
78 4 0.02
79 143 0.71
80 51 0.25
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCATTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATT
AATTTCTCATAATC
Found at i:2051544 original size:9 final size:9
Alignment explanation
Indices: 2051510--2051563 Score: 54
Period size: 9 Copynumber: 5.6 Consensus size: 9
2051500 TTCTCTTCAA
2051510 AAAAAAAAC
1 AAAAAAAAC
2051519 AAAAACAAAAGC
1 -AAAA-AAAA-C
2051531 GAAAAAAAAC
1 -AAAAAAAAC
2051541 AAAAAAAAC
1 AAAAAAAAC
* *
2051550 AAAACAAAG
1 AAAAAAAAC
2051559 AAAAA
1 AAAAA
2051564 GAGAGAAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
9 20 0.53
10 5 0.13
11 8 0.21
12 5 0.13
ACGTcount: A:0.83, C:0.11, G:0.06, T:0.00
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:2051562 original size:25 final size:26
Alignment explanation
Indices: 2051508--2051563 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
2051498 CCTTCTCTTC
*
2051508 AAAAAAAAAACAAAAACAAAAGCGAA
1 AAAAAAAAAACAAAAACAAAAGCAAA
*
2051534 AAAAAACAAA-AAAAACAAAA-CAAA
1 AAAAAAAAAACAAAAACAAAAGCAAA
*
2051558 GAAAAA
1 AAAAAA
2051564 GAGAGAAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 8 0.30
25 10 0.37
26 9 0.33
ACGTcount: A:0.84, C:0.11, G:0.05, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAACAAAAACAAAAGCAAA
Found at i:2052909 original size:55 final size:54
Alignment explanation
Indices: 2052583--2053198 Score: 705
Period size: 55 Copynumber: 10.9 Consensus size: 54
2052573 TTTCCTTTTA
* *
2052583 AAAGCCCCCACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTC
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACACC-TTTC
2052639 TTTTAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTTC
1 ----AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACACC-TTTC
* * **
2052699 TTTTAAAGCCCACACAAGTTGGTGGCACTTTCAGTCCTCAAAGAGCAGAATGCCTTTTC
1 ----AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACACC-TTTC
* **** * *
2052758 TTTTAAAGCCCACCCAAGTTGGTGGCGCCCTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
1 ----AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTC
* * * *
2052822 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGTAGGACCCCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACACCTTTC
2052877 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACACCTTTC
2052932 AAAGCCCACACAAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCATTTTC-AGTCCTCAAAGAGCAGGACACCT-TTC
* *
2052987 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCCCAAAGAGCAGGACACCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACACCTTTC
*
2053042 AAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCTGGACACCTCTT-
1 AAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGACACCT-TTC
** *
2053097 AAAGCCCACACAAGTTGGTGGCACCATTCAGTCCTCAAAGAGCAGGACGCCTTTC
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGACACCTTTC
* *
2053152 AAAGCCCACACGAGTTGGTGGCACTTTTTAGTCCTCAAAGAGCAGGA
1 AAAGCCCACACAAGTTGGTGGCA-TTTTCAGTCCTCAAAGAGCAGGA
2053199 TACACTTTAT
Statistics
Matches: 501, Mismatches: 39, Indels: 37
0.87 0.07 0.06
Matches are distributed among these distances:
54 11 0.02
55 280 0.56
56 10 0.02
59 71 0.14
60 105 0.21
61 19 0.04
64 4 0.01
65 1 0.00
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (54 bp):
AAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGACACCTTTC
Found at i:2054019 original size:19 final size:19
Alignment explanation
Indices: 2053995--2054114 Score: 102
Period size: 19 Copynumber: 6.7 Consensus size: 19
2053985 TTTCAGCGAT
2053995 TTGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
2054014 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
2054028 -TGTATCGATACATAAGTGTTG
1 TTGTATCGATACATAA--G-TG
2054049 TATTGTATCGATACATAAGTG
1 --TTGTATCGATACATAAGTG
2054070 TTGTATCGATAC--AA---
1 TTGTATCGATACATAAGTG
2054084 -TGTATCGATACATAAGTG
1 TTGTATCGATACATAAGTG
*
2054102 ATGTATCGATACA
1 TTGTATCGATACA
2054115 ATGTATCGTT
Statistics
Matches: 84, Mismatches: 0, Indels: 34
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.26
15 4 0.05
17 4 0.05
19 36 0.43
21 2 0.02
22 1 0.01
24 15 0.18
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (19 bp):
TTGTATCGATACATAAGTG
Found at i:2054032 original size:32 final size:32
Alignment explanation
Indices: 2053996--2054127 Score: 190
Period size: 32 Copynumber: 4.4 Consensus size: 32
2053986 TTCAGCGATT
2053996 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2054028 TGTATCGATACATAAGTGTTG--T--AT----
1 TGTATCGATACATAAGTGTTGTATCGATACAA
2054052 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2054084 TGTATCGATACATAAGTGATGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
2054116 TGTATCGTTACA
1 TGTATCGATACA
2054128 AAGCTACTAC
Statistics
Matches: 90, Mismatches: 2, Indels: 16
0.83 0.02 0.15
Matches are distributed among these distances:
24 21 0.23
26 1 0.01
28 4 0.04
30 1 0.01
32 63 0.70
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:2054033 original size:13 final size:13
Alignment explanation
Indices: 2054015--2054039 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2054005 ACATAAGTGT
2054015 TGTATCGATACAA
1 TGTATCGATACAA
2054028 TGTATCGATACA
1 TGTATCGATACA
2054040 TAAGTGTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2054060 original size:24 final size:24
Alignment explanation
Indices: 2054028--2054075 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
2054018 ATCGATACAA
2054028 TGTATCGATACATAAGTGTTGTAT
1 TGTATCGATACATAAGTGTTGTAT
2054052 TGTATCGATACATAAGTGTTGTAT
1 TGTATCGATACATAAGTGTTGTAT
2054076 CGATACAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (24 bp):
TGTATCGATACATAAGTGTTGTAT
Found at i:2054076 original size:56 final size:56
Alignment explanation
Indices: 2053995--2054107 Score: 217
Period size: 56 Copynumber: 2.0 Consensus size: 56
2053985 TTTCAGCGAT
*
2053995 TTGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGTTGTA
1 TTGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGATGTA
2054051 TTGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGATGTA
1 TTGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGATGTA
2054107 T
1 T
2054108 CGATACAATG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 56 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (56 bp):
TTGTATCGATACATAAGTGTTGTATCGATACAATGTATCGATACATAAGTGATGTA
Found at i:2054089 original size:13 final size:13
Alignment explanation
Indices: 2054071--2054128 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
2054061 ACATAAGTGT
2054071 TGTATCGATACAA
1 TGTATCGATACAA
2054084 TGTATCGATACATAAGTGA
1 TGTATCGATAC---A---A
2054103 TGTATCGATACAA
1 TGTATCGATACAA
*
2054116 TGTATCGTTACAA
1 TGTATCGATACAA
2054129 AGCTACTACC
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 24 0.63
16 2 0.05
19 12 0.32
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:2056583 original size:51 final size:51
Alignment explanation
Indices: 2056527--2056624 Score: 139
Period size: 51 Copynumber: 1.9 Consensus size: 51
2056517 AATTCTCCGC
2056527 AATTGGGGATA-TCCCAACTCCGATTTTATTT-TCAAAACA-CTAATTTTCTAT
1 AATTGGGGATACT-CCAACTCCGATTTTATTTCT-AAAACATC-AATTTTCTAT
*
2056578 AATTGGGGATACTCCAACTCTGATTTTATTTCTAAAACATCAATTTT
1 AATTGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTTT
2056625 TCATCGGGGA
Statistics
Matches: 43, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
51 40 0.93
52 3 0.07
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (51 bp):
AATTGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTTTCTAT
Found at i:2056822 original size:79 final size:79
Alignment explanation
Indices: 2056657--2056939 Score: 383
Period size: 79 Copynumber: 3.6 Consensus size: 79
2056647 GTTAATCATT
* * **
2056657 GGGGATACTCCAACCCCATTATTTTCGAAGGGATACTCCAACCCCCGGCTTTATGCCTAAAATAT
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAA-CCCCGGCTTTATTTCTAAAATAT
2056722 TGATTTCTCATAATC
65 TGATTTCTCATAATC
*
2056737 GGGGATACTCTAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATT
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATT
*
2056802 AATTTCTCATAATC
66 GATTTCTCATAATC
* * *
2056816 GGGGATACTCCAACCCCGTTA-TCTCTGAGGGGATACTCCAACCCCGGTTTTATTTC-CAAATCA
1 GGGGATACTCCAACCCCGTTATTTTC-GAGGGGATACTCCAACCCCGGCTTTATTTCTAAAAT-A
* * * *
2056879 TCGATTTTTTACAATC
64 TTGATTTCTCATAATC
* *
2056895 GGGGA-ACTCCAACCCCGTTATTTTCAAGGGGATACTCTAACCCCG
1 GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCG
2056940 TTACCATCTC
Statistics
Matches: 182, Mismatches: 18, Indels: 8
0.88 0.09 0.04
Matches are distributed among these distances:
78 40 0.22
79 104 0.57
80 38 0.21
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.30
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATT
GATTTCTCATAATC
Found at i:2060027 original size:79 final size:79
Alignment explanation
Indices: 2059878--2060419 Score: 362
Period size: 79 Copynumber: 6.9 Consensus size: 79
2059868 TTTTCATCTC
* ** * * * *
2059878 GGGGATACTCCAGCCCCGGTTCCATTTCCAAAACATCAATTT-T--TCATCAGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTCTCATAATCGGGGATACTCCAAC
2059940 CCCGTTATTTTCGA
66 CCCGTTATTTTCGA
* * * *
2059954 GGGGATACTCCAACCTCGGCTTTATTTCTAAAATATTAATTTCTCATAATCGGGAATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTCTCATAATCGGGGATACTCCAAC
**
2060019 CCTATTA-TTTCTGA
66 CCCGTTATTTTC-GA
* * * * *
2060033 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACGTCAATTTTTCATAATCGGGGATACTCCTAT
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTCTCATAATCGGGGATACTCCAAC
* *
2060098 CCCGTTATTTCCAA
66 CCCGTTATTTTCGA
** ** *
2060112 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAA-TTCTCCACAATCGGGGATACTCCAA
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTCT-CATAATCGGGGATACTCCAA
** * *
2060176 CTCCAATTTTATTTCCAAAA
65 C-CC--CGTTATTTTC--GA
*** * * *** * * * * * *
2060196 CACTGATTTCTCACAA--TCGGGGATA-CTC-CAACCCTGTTA-TT-TC---ATCAGGGATACTC
1 -GGGGA-TACTC-CAACCCCGGTTTTATTTCTAAAACAT-TAATTTCTCATAATCGGGGATACTC
*
2060252 CAACCCCGTTATCTTCGA
62 CAACCCCGTTATTTTCGA
** * *
2060270 GGGGATACTCCAACCCCGGCCTTATTTCTAAAATATTGATTTCTCATAATCGGGGATACTCCAAC
1 GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTCTCATAATCGGGGATACTCCAAC
*
2060335 CCCATTATTTTC-A
66 CCCGTTATTTTCGA
* * * *
2060348 CGGGGATACTCCAATCCCGATTTTATTTTTAAAACATTGATTT-TCCATAATCGAGGG-TACTCC
1 -GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTCT-CATAATCG-GGGATACTCC
2060411 AACCCCGTT
63 AACCCCGTT
2060420 GTTATCTCCA
Statistics
Matches: 356, Mismatches: 83, Indels: 51
0.73 0.17 0.10
Matches are distributed among these distances:
71 3 0.01
72 4 0.01
73 7 0.02
74 5 0.01
75 5 0.01
76 42 0.12
77 1 0.00
78 11 0.03
79 238 0.67
80 8 0.02
82 9 0.03
83 4 0.01
84 7 0.02
85 5 0.01
86 4 0.01
87 3 0.01
ACGTcount: A:0.27, C:0.27, G:0.14, T:0.32
Consensus pattern (79 bp):
GGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTCTCATAATCGGGGATACTCCAAC
CCCGTTATTTTCGA
Found at i:2060188 original size:51 final size:51
Alignment explanation
Indices: 2060112--2060229 Score: 184
Period size: 51 Copynumber: 2.3 Consensus size: 51
2060102 TTATTTCCAA
*
2060112 GGGGATACTCCAACCCCAATTTTATTTCTAAAACACCAA-TTCTCCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCT-CACAATC
* **
2060163 GGGGATACTCCAACTCCAATTTTATTTCCAAAACACTGATTTCTCACAATC
1 GGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
2060214 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
2060230 TGTTATTTCA
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 57 0.93
52 4 0.07
ACGTcount: A:0.31, C:0.31, G:0.11, T:0.27
Consensus pattern (51 bp):
GGGGATACTCCAACCCCAATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:2060255 original size:28 final size:28
Alignment explanation
Indices: 2060215--2060287 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
2060205 CTCACAATCG
*
2060215 GGGATACTCCAACCCTGTTAT-TTC-ATCA
1 GGGATACTCCAACCCCGTTATCTTCGA--A
*
2060243 GGGATACTCCAACCCCGTTATCTTCGAG
1 GGGATACTCCAACCCCGTTATCTTCGAA
2060271 GGGATACTCCAACCCCG
1 GGGATACTCCAACCCCG
2060288 GCCTTATTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 37 0.90
29 3 0.07
30 1 0.02
ACGTcount: A:0.23, C:0.33, G:0.19, T:0.25
Consensus pattern (28 bp):
GGGATACTCCAACCCCGTTATCTTCGAA
Found at i:2065567 original size:20 final size:20
Alignment explanation
Indices: 2065542--2065669 Score: 89
Period size: 20 Copynumber: 5.8 Consensus size: 20
2065532 AAAGACCCAG
2065542 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
2065562 ATGTATCGATACATTCTGTCCTTTTACCCA
1 ATGTATCGATACA---T-T-C--TT---CA
* *
2065592 GATGGATCGATACATTTTTCA
1 -ATGTATCGATACATTCTTCA
* *
2065613 ATGTATC-ATTACATGT-ATGA
1 ATGTATCGA-TACAT-TCTTCA
2065633 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTCTTCA
2065653 ATGTATCGATACATTCT
1 ATGTATCGATACATTCT
2065670 GTCTTTTTAC
Statistics
Matches: 86, Mismatches: 7, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
19 2 0.02
20 57 0.66
21 4 0.05
23 1 0.01
24 3 0.03
25 1 0.01
27 3 0.03
28 1 0.01
30 2 0.02
31 12 0.14
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTCTTCA
Found at i:2065613 original size:51 final size:50
Alignment explanation
Indices: 2065536--2065717 Score: 215
Period size: 51 Copynumber: 3.8 Consensus size: 50
2065526 TATGGAAAAG
2065536 ACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCCTTTT
1 ACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGT-CTTTT
* *
2065587 ACCCAGATGGATCGATACATTTTTCAATGTATC-ATTACA---TG-----T
1 ACCCAGATGTATCGATACATTCTTCAATGTATCGA-TACATTCTGTCTTTT
**
2065629 A-TGA-ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTT
1 ACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTC-TTTT
*
2065678 ACCCAGATGTATCGATACATTTTTCAATGTATCGATACAT
1 ACCCAGATGTATCGATACATTCTTCAATGTATCGATACAT
2065718 CTAGTTAAAA
Statistics
Matches: 109, Mismatches: 9, Indels: 26
0.76 0.06 0.18
Matches are distributed among these distances:
40 29 0.27
41 2 0.02
42 2 0.02
43 2 0.02
48 2 0.02
49 2 0.02
50 2 0.02
51 68 0.62
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (50 bp):
ACCCAGATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTT
Found at i:2065717 original size:91 final size:91
Alignment explanation
Indices: 2065542--2065710 Score: 320
Period size: 91 Copynumber: 1.9 Consensus size: 91
2065532 AAAGACCCAG
2065542 ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCCTTTTACCCAGATGGATCGATACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCCTTTTACCCAGATGGATCGATACAT
2065607 TTTTCAATGTATCATTACATGTATGA
66 TTTTCAATGTATCATTACATGTATGA
* *
2065633 ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCTTTTTACCCAGATGTATCGATACAT
1 ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCCTTTTACCCAGATGGATCGATACAT
2065698 TTTTCAATGTATC
66 TTTTCAATGTATC
2065711 GATACATCTA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
91 76 1.00
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (91 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATTCTGTCCTTTTACCCAGATGGATCGATACAT
TTTTCAATGTATCATTACATGTATGA
Found at i:2065841 original size:78 final size:78
Alignment explanation
Indices: 2065707--2065864 Score: 255
Period size: 78 Copynumber: 2.0 Consensus size: 78
2065697 TTTTTCAATG
* *
2065707 TATCGATACATCTAGTTAAAATTAAGCATTTCGGGCCATTTTCAACCTTAGCTTATGGGACCCT-
1 TATCAATACATCTAGTTAAAATTAAGCATTTCGAGCCATTTTCAACCTTAGCTTATGGGA-CCTA
*
2065771 GTGTCTAGTATGGA
65 ATGTCTAGTATGGA
*
2065785 TATCAATACATCTAGTTAAAATTAAGCATTTCGAGCCATTTTCGACCTTAGCTTATGGGACCTAA
1 TATCAATACATCTAGTTAAAATTAAGCATTTCGAGCCATTTTCAACCTTAGCTTATGGGACCTAA
*
2065850 TGTCTGGTATGGA
66 TGTCTAGTATGGA
2065863 TA
1 TA
2065865 CGTATTTTCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
77 3 0.04
78 71 0.96
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.35
Consensus pattern (78 bp):
TATCAATACATCTAGTTAAAATTAAGCATTTCGAGCCATTTTCAACCTTAGCTTATGGGACCTAA
TGTCTAGTATGGA
Found at i:2069592 original size:20 final size:20
Alignment explanation
Indices: 2069568--2069640 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
2069558 ACAACTCAAA
2069568 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
2069588 ATATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2069609 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2069629 GTATCGATACAT
1 GTATCGATACAT
2069641 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2069615 original size:21 final size:21
Alignment explanation
Indices: 2069589--2069661 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
2069579 TGTTGCAATA
2069589 TATCGATACATGAAAAAGATG
1 TATCGATACATGAAAAAGATG
****
2069610 TATCGATACATGTTGCA-ATG
1 TATCGATACATGAAAAAGATG
*
2069630 TATCGATACATAAAAAAGATG
1 TATCGATACATGAAAAAGATG
2069651 TATCGATACAT
1 TATCGATACAT
2069662 TTCTTGGCAG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
TATCGATACATGAAAAAGATG
Found at i:2069618 original size:41 final size:41
Alignment explanation
Indices: 2069568--2069661 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2069558 ACAACTCAAA
*
2069568 GTATCGATACATGTTGCAATATATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATATATCGATACATAAAAAAGAT
*
2069609 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATATATCGATACATAAAAAAGAT
2069650 GTATCGATACAT
1 GTATCGATACAT
2069662 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATATATCGATACATAAAAAAGAT
Found at i:2069718 original size:13 final size:13
Alignment explanation
Indices: 2069700--2069725 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2069690 TACAGCAAGT
2069700 ATGTATCGATACA
1 ATGTATCGATACA
2069713 ATGTATCGATACA
1 ATGTATCGATACA
2069726 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2073806 original size:15 final size:15
Alignment explanation
Indices: 2073786--2073824 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
2073776 TAAAGATGTC
*
2073786 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
2073801 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
*
2073816 CCAAATGAA
1 CAAAATGAA
2073825 ATTGATGTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.21, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:2075912 original size:13 final size:13
Alignment explanation
Indices: 2075894--2075932 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
2075884 ACATTTTTTT
2075894 TTGTATCGATACA
1 TTGTATCGATACA
2075907 TTGTATCGATACA
1 TTGTATCGATACA
*
2075920 CTGTATCGATACA
1 TTGTATCGATACA
2075933 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2078397 original size:20 final size:20
Alignment explanation
Indices: 2078373--2078445 Score: 92
Period size: 20 Copynumber: 3.6 Consensus size: 20
2078363 ACAACTCAAA
2078373 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
* ****
2078393 ATATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
2078414 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
2078434 GTATCGATACAT
1 GTATCGATACAT
2078446 AAAAAAGATG
Statistics
Matches: 42, Mismatches: 10, Indels: 2
0.78 0.19 0.04
Matches are distributed among these distances:
20 27 0.64
21 15 0.36
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:2078420 original size:21 final size:21
Alignment explanation
Indices: 2078394--2078466 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
2078384 TGTTGCAATA
2078394 TATCGATACATGAAAAAGATG
1 TATCGATACATGAAAAAGATG
****
2078415 TATCGATACATGTTGCA-ATG
1 TATCGATACATGAAAAAGATG
*
2078435 TATCGATACATAAAAAAGATG
1 TATCGATACATGAAAAAGATG
2078456 TATCGATACAT
1 TATCGATACAT
2078467 TTCTTGGCAG
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 15 0.36
21 27 0.64
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.29
Consensus pattern (21 bp):
TATCGATACATGAAAAAGATG
Found at i:2078423 original size:41 final size:41
Alignment explanation
Indices: 2078373--2078466 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
2078363 ACAACTCAAA
*
2078373 GTATCGATACATGTTGCAATATATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATATATCGATACATAAAAAAGAT
*
2078414 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATATATCGATACATAAAAAAGAT
2078455 GTATCGATACAT
1 GTATCGATACAT
2078467 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.40, C:0.13, G:0.17, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATATATCGATACATAAAAAAGAT
Found at i:2078523 original size:13 final size:13
Alignment explanation
Indices: 2078505--2078530 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2078495 TACAGCAAGT
2078505 ATGTATCGATACA
1 ATGTATCGATACA
2078518 ATGTATCGATACA
1 ATGTATCGATACA
2078531 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:2085052 original size:20 final size:20
Alignment explanation
Indices: 2085027--2085118 Score: 134
Period size: 20 Copynumber: 4.6 Consensus size: 20
2085017 TCACAATTTT
2085027 TATCGATACATTGTT-CATTG
1 TATCGATACATT-TTGCATTG
2085047 TATCGATACATTTTGCATTG
1 TATCGATACATTTTGCATTG
2085067 TATCGATACATTTTGCATTG
1 TATCGATACATTTTGCATTG
**
2085087 TATCGATACAGTACT-CATTG
1 TATCGATACA-TTTTGCATTG
2085107 TATCGATACATT
1 TATCGATACATT
2085119 GTAAAATGTA
Statistics
Matches: 67, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
19 3 0.04
20 62 0.93
21 2 0.03
ACGTcount: A:0.27, C:0.16, G:0.14, T:0.42
Consensus pattern (20 bp):
TATCGATACATTTTGCATTG
Found at i:2085071 original size:40 final size:39
Alignment explanation
Indices: 2085027--2085139 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 39
2085017 TCACAATTTT
*
2085027 TATCGATACATTGTTCATTGTATCGATACATTTTGCATTG
1 TATCGATACATTGTTCATTGTATCGATACATTCT-CATTG
*
2085067 TATCGATACATT-TTGCATTGTATCGATACAGTACTCATTG
1 TATCGATACATTGTT-CATTGTATCGATACA-TTCTCATTG
** * *
2085107 TATCGATACATTGTAAAATGTATTGATACATTC
1 TATCGATACATTGTTCATTGTATCGATACATTC
2085140 AGGCATTTTT
Statistics
Matches: 63, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
39 4 0.06
40 56 0.89
41 3 0.05
ACGTcount: A:0.29, C:0.15, G:0.14, T:0.42
Consensus pattern (39 bp):
TATCGATACATTGTTCATTGTATCGATACATTCTCATTG
Found at i:2085128 original size:20 final size:20
Alignment explanation
Indices: 2085027--2085138 Score: 120
Period size: 20 Copynumber: 5.6 Consensus size: 20
2085017 TCACAATTTT
*
2085027 TATCGATACATTGTTCATTG
1 TATCGATACATTGTACATTG
* *
2085047 TATCGATACATTTTGCATTG
1 TATCGATACATTGTACATTG
* *
2085067 TATCGATACATTTTGCATTG
1 TATCGATACATTGTACATTG
2085087 TATCGATACA--GTACTCATTG
1 TATCGATACATTGTA--CATTG
* *
2085107 TATCGATACATTGTAAAATG
1 TATCGATACATTGTACATTG
*
2085127 TATTGATACATT
1 TATCGATACATT
2085139 CAGGCATTTT
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
18 1 0.01
20 77 0.95
22 3 0.04
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.42
Consensus pattern (20 bp):
TATCGATACATTGTACATTG
Found at i:2087595 original size:28 final size:28
Alignment explanation
Indices: 2087555--2087628 Score: 139
Period size: 28 Copynumber: 2.6 Consensus size: 28
2087545 TTTCACAATT
2087555 GGGGATACTCCAACCCCGTTATTTCCAA
1 GGGGATACTCCAACCCCGTTATTTCCAA
*
2087583 GGGGATACTCCAACCCCATTATTTCCAA
1 GGGGATACTCCAACCCCGTTATTTCCAA
2087611 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2087629 GCTTTATATC
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.22
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCCAA
Found at i:2087751 original size:31 final size:28
Alignment explanation
Indices: 2087665--2087738 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
2087655 TTTTATAATC
* * *
2087665 GGGGGTACTCAAACCCCGTTATTTC-ATC
1 GGGGATACTCCAACCCCGTTATTTCTA-A
*
2087693 GGGGATACTCCAATCCCGTTATTTCTAA
1 GGGGATACTCCAACCCCGTTATTTCTAA
2087721 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
2087739 ATTTTATTTC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
28 39 0.98
29 1 0.03
ACGTcount: A:0.23, C:0.30, G:0.22, T:0.26
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTCTAA
Found at i:2087783 original size:51 final size:52
Alignment explanation
Indices: 2087721--2087855 Score: 139
Period size: 51 Copynumber: 2.6 Consensus size: 52
2087711 TTATTTCTAA
2087721 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTT-TCCACAATC-
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTCT-CACAATCG
*** * **** *
2087772 GGGGATACTCCAACTTTGATTTTATTTCCAAAATTTTGATTTCTCATAATCG
1 GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTCTCACAATCG
* **
2087824 GGGGATACTTCAACCCCGACCTTATTTCTAAA
1 GGGGATACTCCAACCCCGATTTTATTTCTAAA
2087856 TCATCGATTT
Statistics
Matches: 66, Mismatches: 16, Indels: 3
0.78 0.19 0.04
Matches are distributed among these distances:
51 40 0.61
52 26 0.39
ACGTcount: A:0.29, C:0.24, G:0.13, T:0.35
Consensus pattern (52 bp):
GGGGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTCTCACAATCG
Found at i:2087799 original size:110 final size:106
Alignment explanation
Indices: 2087506--2087785 Score: 317
Period size: 110 Copynumber: 2.6 Consensus size: 106
2087496 CCGCAATCGA
* * * * * * *
2087506 GGATACTCAAACTCTGATTTTATTTCCAAAACACTAATTTTTCACAATTGGGGATACTCCAACCC
1 GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAACCC
2087571 CGTTATTTCCAAGGGGATACTCCAACCCCATTATTTCCAAGG
66 CGTTATTT-CAAGGGGATACTCCAACCCCATTATTTCCAAGG
** * ** * * * * *
2087613 GGATACTCCAACCCCGGCTTTATATCTAAAAATATTGATTTTTTTTATAATCGGGGGTACTCAAA
1 GGATACTCCAACCCCGATTTTATTTCT-AAAATA-CCA-ATTTTTCACAATCGGGGATACTCCAA
* * * *
2087678 CCCCGTTATTTCATCGGGGATACTCCAATCCCGTTATTTCTAAGG
63 CCCCGTTATTTCA-AGGGGATACTCCAACCCCATTATTTCCAAGG
*
2087723 GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTCCACAATCGGGGATACTCCAAC
1 GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAAC
2087786 TTTGATTTTA
Statistics
Matches: 138, Mismatches: 31, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
107 41 0.30
108 6 0.04
109 9 0.07
110 82 0.59
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (106 bp):
GGATACTCCAACCCCGATTTTATTTCTAAAATACCAATTTTTCACAATCGGGGATACTCCAACCC
CGTTATTTCAAGGGGATACTCCAACCCCATTATTTCCAAGG
Found at i:2103580 original size:28 final size:28
Alignment explanation
Indices: 2103541--2103612 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
2103531 AATAAAGCCG
2103541 GGGGTTGGAGTATCCCCTCGA-AAATAAC
1 GGGGTTGGAGTATCCCC-CGATAAATAAC
* *
2103569 GGGGTTGGAGTAT-CCCCGATGATTAAC
1 GGGGTTGGAGTATCCCCCGATAAATAAC
*
2103596 GGCGTTGGAGTATCCCC
1 GGGGTTGGAGTATCCCC
2103613 GATGAAAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 3 0.08
27 20 0.51
28 16 0.41
ACGTcount: A:0.22, C:0.22, G:0.32, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCCGATAAATAAC
Found at i:2103603 original size:27 final size:27
Alignment explanation
Indices: 2103565--2103617 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
2103555 CCCTCGAAAA
*
2103565 TAACGGGGTTGGAGTATCCCCGATGAT
1 TAACGGCGTTGGAGTATCCCCGATGAT
2103592 TAACGGCGTTGGAGTATCCCCGATGA
1 TAACGGCGTTGGAGTATCCCCGATGA
2103618 AAAATTGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.25
Consensus pattern (27 bp):
TAACGGCGTTGGAGTATCCCCGATGAT
Found at i:2103677 original size:103 final size:104
Alignment explanation
Indices: 2103457--2103768 Score: 344
Period size: 103 Copynumber: 2.9 Consensus size: 104
2103447 TTGGAGATAG
* * * * **
2103457 TAACGGGGTTGGAGTATCCCCTTGA-AAATAACGGGGTTGGAGTATCCCAGATTATGAGAAATCA
1 TAACGGGGTTGGAGTATCCCC--GATGATTAACGGGGTTGGAGTATCCCCG---ATGAAAAATTG
* * * *
2103521 ATATTTTAGGAATAAAGCCGGGGGTTGGAGTATCCCCTCGAAAA
61 ATGTTTTAGAAATAAAACCGGAGGTTGGAGTATCCCCTCGAAAA
*
2103565 TAACGGGGTTGGAGTATCCCCGATGATTAACGGCGTTGGAGTATCCCCGATGAAAAATTGATGTT
1 TAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTT
* *
2103630 TTAGAAATAAAACC-GAGGTTGGAGTGTCTCCTC-AGAAA
66 TTAGAAATAAAACCGGAGGTTGGAGTATCCCCTCGA-AAA
* *
2103668 TAATGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGGT
1 TAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGA---TGAAAAATTGAT
* *
2103733 GTTTTTTGGAAATAAAATCGGA-GTTGGAGTATCCCC
63 G--TTTTAGAAATAAAACCGGAGGTTGGAGTATCCCC
2103769 AATTATAGAA
Statistics
Matches: 176, Mismatches: 20, Indels: 16
0.83 0.09 0.08
Matches are distributed among these distances:
102 1 0.01
103 67 0.38
104 24 0.14
106 14 0.08
107 21 0.12
108 47 0.27
109 2 0.01
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.27
Consensus pattern (104 bp):
TAACGGGGTTGGAGTATCCCCGATGATTAACGGGGTTGGAGTATCCCCGATGAAAAATTGATGTT
TTAGAAATAAAACCGGAGGTTGGAGTATCCCCTCGAAAA
Found at i:2106116 original size:13 final size:13
Alignment explanation
Indices: 2106094--2106151 Score: 53
Period size: 13 Copynumber: 4.0 Consensus size: 13
2106084 GGCTGTAGCT
*
2106094 TTGTAGCGATACA
1 TTGTATCGATACA
2106107 TTGTATCGATACATCA
1 TTGTATCGAT--A-CA
2106123 CTTGTGTATCGATACA
1 --T-TGTATCGATACA
2106139 TTGTATCGATACA
1 TTGTATCGATACA
2106152 ACACTTATGT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
15 1 0.03
16 4 0.11
17 1 0.03
18 1 0.03
19 9 0.24
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:2106141 original size:32 final size:32
Alignment explanation
Indices: 2106095--2106170 Score: 125
Period size: 32 Copynumber: 2.4 Consensus size: 32
2106085 GCTGTAGCTT
* * *
2106095 TGTAGCGATACATTGTATCGATACATCACTTG
1 TGTATCGATACATTGTATCGATACAACACTTA
2106127 TGTATCGATACATTGTATCGATACAACACTTA
1 TGTATCGATACATTGTATCGATACAACACTTA
2106159 TGTATCGATACA
1 TGTATCGATACA
2106171 AATCGCTGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (32 bp):
TGTATCGATACATTGTATCGATACAACACTTA
Found at i:2106171 original size:19 final size:18
Alignment explanation
Indices: 2106107--2106171 Score: 68
Period size: 19 Copynumber: 3.8 Consensus size: 18
2106097 TAGCGATACA
*
2106107 TTGTATCGATACATCACT
1 TTGTATCGATACAACACT
2106125 TGTGTATCGAT---ACA--
1 T-TGTATCGATACAACACT
2106139 TTGTATCGATACAACACT
1 TTGTATCGATACAACACT
2106157 TATGTATCGATACAA
1 T-TGTATCGATACAA
2106172 ATCGCTGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 13
0.74 0.02 0.25
Matches are distributed among these distances:
13 9 0.23
14 1 0.03
16 5 0.13
18 2 0.05
19 22 0.56
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (18 bp):
TTGTATCGATACAACACT
Found at i:2109089 original size:20 final size:20
Alignment explanation
Indices: 2109064--2109103 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
2109054 CGTTCTTCGT
* *
2109064 AAAAAAATA-AAAACAAACA
1 AAAAAAACACAAAAAAAACA
2109083 AAAAAAACACAAAAAAAACA
1 AAAAAAACACAAAAAAAACA
2109103 A
1 A
2109104 GAAACAAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.85, C:0.12, G:0.00, T:0.03
Consensus pattern (20 bp):
AAAAAAACACAAAAAAAACA
Found at i:2110487 original size:28 final size:27
Alignment explanation
Indices: 2110444--2110526 Score: 103
Period size: 28 Copynumber: 3.0 Consensus size: 27
2110434 AACACGAATC
* *
2110444 CCTTCTCGAAGCCCACTAGTCAGTGGCA
1 CCTTTTCGAAGTCCAC-AGTCAGTGGCA
*
2110472 CCTTTTCGAAGTCCACAAGTTAGTGGCA
1 CCTTTTCGAAGTCCAC-AGTCAGTGGCA
* *
2110500 TCTTTTCGAAGTCCACAATCAGTGGCA
1 CCTTTTCGAAGTCCACAGTCAGTGGCA
2110527 TTTGCTATAT
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 9 0.19
28 39 0.81
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (27 bp):
CCTTTTCGAAGTCCACAGTCAGTGGCA
Found at i:2110699 original size:28 final size:27
Alignment explanation
Indices: 2110667--2110741 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 27
2110657 TCCTTTCTCA
*
2110667 AAGTCCACTAATTAGTGGCATCTCTTT-G
1 AAGTCCAC-AATCAGTGGCATCT-TTTCG
2110695 AAGTCCACAAGTCAGTGGCATCTTTTCG
1 AAGTCCACAA-TCAGTGGCATCTTTTCG
2110723 AAGTCCACAATCAGTGGCA
1 AAGTCCACAATCAGTGGCA
2110742 CTTGCTATAC
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
27 14 0.32
28 30 0.68
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (27 bp):
AAGTCCACAATCAGTGGCATCTTTTCG
Found at i:2110701 original size:215 final size:215
Alignment explanation
Indices: 2110330--2110761 Score: 704
Period size: 215 Copynumber: 2.0 Consensus size: 215
2110320 TTACCAAGAA
* * *
2110330 ACCATGGCTAATATGCCATTGTCAACAAAATTGTTGTTAAGAAATTTTCGTCAAGAACTTTTGTC
1 ACCATGGCTAATATGCCATTGTCAAAAAAATTGTTGTCAAGAAATTTTCGTAAAGAACTTTTGTC
*
2110395 GAGAACGTGTGTCAGAAACTTCGTCAAGAAATGTTTGTCAACACGAATCCCTTCTCGAAGCCCAC
66 GAGAACGTGTGTCAGAAACTTCGTCAAGAAATGTTTGTCAACACGAATCCCTTCTCAAAGCCCAC
* *
2110460 TAGTCAGTGGCACCTTTTCGAAGTCCACAAGTTAGTGGCATCTTTTCGAAGTCCACAATCAGTGG
131 TAATCAGTGGCACCTTTTCGAAGTCCACAAGTCAGTGGCATCTTTTCGAAGTCCACAATCAGTGG
* *
2110525 CATTTGCTATATATAATGGC
196 CACTTGCTATACATAATGGC
* *
2110545 ACCATGGCTAATATGCCATTGTTAAAAAAATTGTTGTCAAGAAATTTTTGTAAAGAACTTTTGTC
1 ACCATGGCTAATATGCCATTGTCAAAAAAATTGTTGTCAAGAAATTTTCGTAAAGAACTTTTGTC
* * * *
2110610 GAGAACGTGTGTCAGAAACTTTGTCAAGAAATGTTTGTCAACATGAATCCTTTCTCAAAGTCCAC
66 GAGAACGTGTGTCAGAAACTTCGTCAAGAAATGTTTGTCAACACGAATCCCTTCTCAAAGCCCAC
* *
2110675 TAATTAGTGGCATCTCTTT-GAAGTCCACAAGTCAGTGGCATCTTTTCGAAGTCCACAATCAGTG
131 TAATCAGTGGCACCT-TTTCGAAGTCCACAAGTCAGTGGCATCTTTTCGAAGTCCACAATCAGTG
2110739 GCACTTGCTATACATAATGGC
195 GCACTTGCTATACATAATGGC
2110760 AC
1 AC
2110762 TAGAGTCCAT
Statistics
Matches: 200, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
215 197 0.99
216 3 0.01
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.31
Consensus pattern (215 bp):
ACCATGGCTAATATGCCATTGTCAAAAAAATTGTTGTCAAGAAATTTTCGTAAAGAACTTTTGTC
GAGAACGTGTGTCAGAAACTTCGTCAAGAAATGTTTGTCAACACGAATCCCTTCTCAAAGCCCAC
TAATCAGTGGCACCTTTTCGAAGTCCACAAGTCAGTGGCATCTTTTCGAAGTCCACAATCAGTGG
CACTTGCTATACATAATGGC
Found at i:2110964 original size:32 final size:32
Alignment explanation
Indices: 2110923--2111105 Score: 201
Period size: 32 Copynumber: 5.8 Consensus size: 32
2110913 AAACCTTCTT
*
2110923 CAAAGCCCACACAAGTCGGTAGCAACCCTTTC
1 CAAAGCCCACACAAGTCGGTGGCAACCCTTTC
*
2110955 CAAAGCCCACACAAG-CTGGTGGCAA-CCTTCTT
1 CAAAGCCCACACAAGTC-GGTGGCAACCCTT-TC
* **
2110987 CAAAGCCCACACAAGTTGGTGGTGACCCTTTC
1 CAAAGCCCACACAAGTCGGTGGCAACCCTTTC
*
2111019 TAAAGCCCACACAAGTCGGTGGCAACCCTTTC
1 CAAAGCCCACACAAGTCGGTGGCAACCCTTTC
** **
2111051 TGAAGCCTGCACAAGT-GGTGGCAACCCTTTC
1 CAAAGCCCACACAAGTCGGTGGCAACCCTTTC
* * * *
2111082 AAAAGCCCATAAAAGTTGGTGGCA
1 CAAAGCCCACACAAGTCGGTGGCA
2111106 TCTTCTTCTA
Statistics
Matches: 127, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
31 30 0.24
32 93 0.73
33 4 0.03
ACGTcount: A:0.29, C:0.31, G:0.21, T:0.19
Consensus pattern (32 bp):
CAAAGCCCACACAAGTCGGTGGCAACCCTTTC
Found at i:2111015 original size:64 final size:63
Alignment explanation
Indices: 2110914--2111121 Score: 233
Period size: 64 Copynumber: 3.3 Consensus size: 63
2110904 CCAATGGAAA
* * *
2110914 AACCTTCTTCAAAGCCCACACAAGTCGGTAGCAACCCTTTCCAAAGCCCACACAAGCTGGTGGC
1 AACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAAGCCCACACAAG-TGGTGGC
** *
2110978 AACCTTCTTCAAAGCCCACACAAGTTGGTGGTGACCCTTTCTAAAGCCCACACAAGTCGGTGGC
1 AACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAAGCCCACACAAGT-GGTGGC
* * ** * *
2111042 AACCCT-TTCTGAAGCCTGCACAAG-TGGTGGCAACCCTTTCAAAAGCCCATAAAAGTTGGTGGC
1 AACCTTCTTC-AAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAAGCCCACACAAG-TGGTGGC
* *
2111105 -ATCTTCTTCTAAGCCCA
1 AACCTTCTTCAAAGCCCA
2111122 ATGTTGTTGG
Statistics
Matches: 121, Mismatches: 19, Indels: 10
0.81 0.13 0.07
Matches are distributed among these distances:
62 8 0.07
63 39 0.32
64 74 0.61
ACGTcount: A:0.28, C:0.32, G:0.19, T:0.22
Consensus pattern (63 bp):
AACCTTCTTCAAAGCCCACACAAGTTGGTGGCAACCCTTTCAAAAGCCCACACAAGTGGTGGC
Found at i:2112095 original size:31 final size:31
Alignment explanation
Indices: 2112057--2112134 Score: 138
Period size: 31 Copynumber: 2.5 Consensus size: 31
2112047 CATTATTCAT
2112057 TGTATCGATACATTCTGGGTTTTTACCCAGA
1 TGTATCGATACATTCTGGGTTTTTACCCAGA
* *
2112088 TGTATCGATACAATCTGGGTTTTTACCTAGA
1 TGTATCGATACATTCTGGGTTTTTACCCAGA
2112119 TGTATCGATACATTCT
1 TGTATCGATACATTCT
2112135 TCATTGTATC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.40
Consensus pattern (31 bp):
TGTATCGATACATTCTGGGTTTTTACCCAGA
Found at i:2115662 original size:156 final size:154
Alignment explanation
Indices: 2115377--2115913 Score: 806
Period size: 156 Copynumber: 3.4 Consensus size: 154
2115367 TGCGACAACA
* *
2115377 TGAAAGTATCTTGGTACCCCTAAAGGACTTAAAAAGGACTATGGATGGGGTGAACCTATCCTAAA
1 TGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAGGACTATGGATGGGGTGAACCTATCCTAAA
* * * *
2115442 TACCCACCTTTAGCATAAAAGTGGACCCAATGACAACCTAGGACTTGGTTCTAAAAAATTACAAA
66 TACCCACCTTTGGCATAAAAGCGAACCCAGTGACAACCTAGGACTT-GTTCTAAAAAATTACAAA
* *
2115507 AATACCCCTAGAGGATACCTTCGATG
130 AA-ACCTCTAGGGGATACCTTCGATG
* *
2115533 CGAAAGTATTTCGATACCCCTAAAGGACTTAAAAAGGACTATGGATGGGGTGAACCTATCCTAAA
1 TGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAGGACTATGGATGGGGTGAACCTATCCTAAA
** *
2115598 TACCCACCTTTGGCATAAAAGCGAACCCAGTGACAACCTAAAACTCGATTCTAAAAAATTACAAA
66 TACCCACCTTTGGCATAAAAGCGAACCCAGTGACAACCTAGGACTTG-TTCTAAAAAATTACAAA
2115663 AAAGCCTCTAGGGGATACCTTCGATG
130 AAA-CCTCTAGGGGATACCTTCGATG
* * *
2115689 TGAAAGTATCTCGGTACCCCTAAAGGACTTAAAAAAGACTATGGATGAGGTGAACCTATCCTAAA
1 TGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAGGACTATGGATGGGGTGAACCTATCCTAAA
** *
2115754 TACCCACCTTTGGCATAAAAGCGAACCTGGTGACAACCTAGGACTTTGCTCTAAAAAATTACAAA
66 TACCCACCTTTGGCATAAAAGCGAACCCAGTGACAACCTAGGAC-TTGTTCTAAAAAATTACAAA
* *
2115819 AACACCTCTAGGGGAGACCTTCGACG
130 AA-ACCTCTAGGGGATACCTTCGATG
*
2115845 TGAAAGTATCTC-AGTACCCCTAAAAGACTTAAAAAGGACTATGGATGGGGTGAACCTATCCTAA
1 TGAAAGTATCTCGA-TACCCCTAAAGGACTTAAAAAGGACTATGGATGGGGTGAACCTATCCTAA
2115909 ATACC
65 ATACC
2115914 TTTCGATGTG
Statistics
Matches: 346, Mismatches: 30, Indels: 10
0.90 0.08 0.03
Matches are distributed among these distances:
155 2 0.01
156 341 0.99
157 3 0.01
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.23
Consensus pattern (154 bp):
TGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAGGACTATGGATGGGGTGAACCTATCCTAAA
TACCCACCTTTGGCATAAAAGCGAACCCAGTGACAACCTAGGACTTGTTCTAAAAAATTACAAAA
AACCTCTAGGGGATACCTTCGATG
Found at i:2115932 original size:77 final size:77
Alignment explanation
Indices: 2115838--2115991 Score: 247
Period size: 77 Copynumber: 2.0 Consensus size: 77
2115828 AGGGGAGACC
*
2115838 TTCGACGTGAAAGTATCTC-AGTACCCCTAAAAGACTTAAAAAGGACTATGGATGGGGTGAACCT
1 TTCGACGTGAAAGTATCTCGA-TACCCCTAAAAGACTTAAAAAGGACTATGAATGGGGTGAACCT
2115902 ATCCTAAATACCT
65 ATCCTAAATACCT
* * * *
2115915 TTCGATGTGAAAGTATCTCGATACCCCTAAAGGACTTCAAAAGGACTATGAATGGGGTGAGCCTA
1 TTCGACGTGAAAGTATCTCGATACCCCTAAAAGACTTAAAAAGGACTATGAATGGGGTGAACCTA
2115980 TCCTAAATACCT
66 TCCTAAATACCT
2115992 ACTTTTGGCA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
77 70 0.99
78 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (77 bp):
TTCGACGTGAAAGTATCTCGATACCCCTAAAAGACTTAAAAAGGACTATGAATGGGGTGAACCTA
TCCTAAATACCT
Found at i:2116089 original size:233 final size:232
Alignment explanation
Indices: 2115677--2116146 Score: 667
Period size: 233 Copynumber: 2.0 Consensus size: 232
2115667 CCTCTAGGGG
* *
2115677 ATACCTTCGATGTGAAAGTATCTCGGTACCCCTAAAGGACTTAAAAAAGACTATGGATGAGGTGA
1 ATACCTTCGATGTGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAAGACTATGAATGAGGTGA
*
2115742 ACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCTGGTGACAACCTAGGACTTTGCTCTA
66 ACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCTGGTGACAACCTAGGACTTAGCTCTA
* * *
2115807 AAAAATTACAAAAACACCTCTAGGGGAGACCTTCGACGTGAAAGTATCTCAGTACCCCTAAAAGA
131 AAAAATTACAAAAACACCCCTAGGAGAGACCTACGACGTGAAAGTATCTC-GTACCCCTAAAAGA
** *
2115872 CTTAAAAAGGACTAT-GGATGGGGTGAACCTATCCTAA
195 CTTAAAAAGGACTATAAAAAGGGGTGAACCTATCCTAA
* * *
2115909 ATACCTTTCGATGTGAAAGTATCTCGATACCCCTAAAGGACTTCAAAAGGACTATGAATGGGGTG
1 ATACC-TTCGATGTGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAAGACTATGAATGAGGTG
* * * * *
2115974 AGCCTATCCTAAATACCTACTTTTGGCATAAAAGCGGA-CTCGGTGACAACCTAGGACTTAGTTC
65 AACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCT-GGTGACAACCTAGGACTTAGCTC
* ** * * *
2116038 TGAAAAATTATGAAAATACCCCTAAGGAG-GACCTACGATGTGAAAGTATCTCGTACCCCTAAAG
129 TAAAAAATTACAAAAACACCCCT-AGGAGAGACCTACGACGTGAAAGTATCTCGTACCCCTAAAA
*
2116102 GATTTAAAAAGGACTATAAAAAGGGGTGAACCTATCCTAA
193 GACTTAAAAAGGACTATAAAAAGGGGTGAACCTATCCTAA
2116142 ATACC
1 ATACC
2116147 CACATTTAGC
Statistics
Matches: 210, Mismatches: 24, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
232 34 0.16
233 172 0.82
234 4 0.02
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.24
Consensus pattern (232 bp):
ATACCTTCGATGTGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAAGACTATGAATGAGGTGA
ACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCTGGTGACAACCTAGGACTTAGCTCTA
AAAAATTACAAAAACACCCCTAGGAGAGACCTACGACGTGAAAGTATCTCGTACCCCTAAAAGAC
TTAAAAAGGACTATAAAAAGGGGTGAACCTATCCTAA
Found at i:2116205 original size:156 final size:155
Alignment explanation
Indices: 2115917--2116279 Score: 437
Period size: 156 Copynumber: 2.3 Consensus size: 155
2115907 AAATACCTTT
* * * *
2115917 CGATGTGAAAGTATCTCGATACCCCTAAAGGACTTCAAAAGGACTAT-GAATGGGGTGAGCCTAT
1 CGATGTGAAAGTATCTCG-TACCCCTAAAGGACTTAAAAAGGACTATAAAAAGGGGTGAACCTAT
* * * * * *
2115981 CCTAAATACCTACTTTTGGCATAAAAGCGGACTCGGTGACAACCTAGGACTTAGTTCTGAAAAAT
65 CCTAAATACCCACATTTAGCATAAAAGCAGACTCGATGACAACCTAGGACTGAGTTCTGAAAAAT
2116046 TATGAAAATACCCCTAAGGAGG-ACCTA
130 TATGAAAATACCCCT-AGG-GGAACCTA
*
2116073 CGATGTGAAAGTATCTCGTACCCCTAAAGGATTTAAAAAGGACTATAAAAAGGGGTGAACCTATC
1 CGATGTGAAAGTATCTCGTACCCCTAAAGGACTTAAAAAGGACTATAAAAAGGGGTGAACCTATC
* * *
2116138 CTAAATACCCACATTTAGCATAAAAGCAGCCTCGATGATAACCTAGGACTCGA-TT-TTAAAAAT
66 CTAAATACCCACATTTAGCATAAAAGCAGACTCGATGACAACCTAGGACT-GAGTTCTGAAAAA-
* *
2116201 TTATGAAAATACCCCTTGGGGATACCTT
129 TTATGAAAATACCCCTAGGGGA-ACCTA
** * * * *
2116229 CGACATGAAAGTATCCTGGTACCTCTAAAGTACTTAAAAAGGGCTATAAAA
1 CGATGTGAAAGTAT-CTCGTACCCCTAAAGGACTTAAAAAGGACTATAAAA
2116280 GGGATGTGGT
Statistics
Matches: 178, Mismatches: 23, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
154 2 0.01
155 34 0.19
156 110 0.62
157 32 0.18
ACGTcount: A:0.37, C:0.20, G:0.19, T:0.25
Consensus pattern (155 bp):
CGATGTGAAAGTATCTCGTACCCCTAAAGGACTTAAAAAGGACTATAAAAAGGGGTGAACCTATC
CTAAATACCCACATTTAGCATAAAAGCAGACTCGATGACAACCTAGGACTGAGTTCTGAAAAATT
ATGAAAATACCCCTAGGGGAACCTA
Found at i:2116243 original size:389 final size:387
Alignment explanation
Indices: 2115521--2116275 Score: 968
Period size: 389 Copynumber: 1.9 Consensus size: 387
2115511 CCCCTAGAGG
* *
2115521 ATACCTTCGATGCGAAAGTATTTCGATACCCCTAAAGGACTTAAAAAGGACTATGGATGGGGTGA
1 ATACCTTCGATGCGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAGGACTATGAATGGGGTGA
*
2115586 ACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCCAGTGACAACCTAAAACTCGATTCTA
66 ACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCCAGTGACAACCTAAAACTAGATTCTA
* *
2115651 AAAAATTACAAAAAAGCCTCTAGGGGATACCTTCGATGTGAAAGTATCTCGGTACCCCTAAAGGA
131 AAAAATTACAAAAAAGCCCCTAGGGGA-ACCTACGATGTGAAAGTATCTCGGTACCCCTAAAGGA
** * * *
2115716 CTTAAAAAAGACTATGGATGAGGTGAACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACC
195 CTTAAAAAAGACTATAAAAGAGGTGAACCTATCCTAAATACCCACATTTAGCATAAAAGCGAACC
* * * *
2115781 TGGTGACAACCTAGGACTTTGCTCTAAAAAATTACAAAAACACCTCTAGGGGAGACCTTCGACGT
260 TGATGACAACCTAGGACTTCGCTCTAAAAAATTACAAAAACACCCCTAGGGGAGACCTTCGACAT
2115846 GAAAGTAT-CTCAGTACCCCTAAAAG-ACTTAAAAAGGACTATGGATGGGGTGAACCTATCCTAA
325 GAAAGTATCCT-AGTACCCCT-AAAGTACTTAAAAAGGACTATGGATGGGGTGAACCTATCCTAA
* *
2115909 ATACCTTTCGATGTGAAAGTATCTCGATACCCCTAAAGGACTTCAAAAGGACTATGAATGGGGTG
1 ATACC-TTCGATGCGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAGGACTATGAATGGGGTG
* * * * * * **
2115974 AGCCTATCCTAAATACCTACTTTTGGCATAAAAGCGGACTCGGTGACAACCTAGGACTTAG-TTC
65 AACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCCAGTGACAACCTAAAAC-TAGATTC
* * *
2116038 TGAAAAATTATGAAAATA-CCCCTAAGGAGG-ACCTACGATGTGAAAGTATCTC-GTACCCCTAA
129 TAAAAAATTA-CAAAAAAGCCCCT-AGG-GGAACCTACGATGTGAAAGTATCTCGGTACCCCTAA
* * *
2116100 AGGATTTAAAAAGGACTATAAAAAGGGGTGAACCTATCCTAAATACCCACATTTAGCATAAAAGC
191 AGGACTTAAAAAAGACTAT-AAAAGAGGTGAACCTATCCTAAATACCCACATTTAGCATAAAAGC
* * * * * ** * * *
2116165 -AGCCTCGATGATAACCTAGGAC-TCGATTTTAAAAATTTATGAAAATACCCCTTGGGGATACCT
255 GAACCT-GATGACAACCTAGGACTTCG-CTCTAAAAAATTACAAAAACACCCCTAGGGGAGACCT
* * *
2116228 TCGACATGAAAGTATCCTGGTACCTCTAAAGTACTTAAAAAGGGCTAT
318 TCGACATGAAAGTATCCTAGTACCCCTAAAGTACTTAAAAAGGACTAT
2116276 AAAAGGGATG
Statistics
Matches: 314, Mismatches: 43, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
388 42 0.13
389 258 0.82
390 12 0.04
391 2 0.01
ACGTcount: A:0.36, C:0.21, G:0.19, T:0.24
Consensus pattern (387 bp):
ATACCTTCGATGCGAAAGTATCTCGATACCCCTAAAGGACTTAAAAAGGACTATGAATGGGGTGA
ACCTATCCTAAATACCCACCTTTGGCATAAAAGCGAACCCAGTGACAACCTAAAACTAGATTCTA
AAAAATTACAAAAAAGCCCCTAGGGGAACCTACGATGTGAAAGTATCTCGGTACCCCTAAAGGAC
TTAAAAAAGACTATAAAAGAGGTGAACCTATCCTAAATACCCACATTTAGCATAAAAGCGAACCT
GATGACAACCTAGGACTTCGCTCTAAAAAATTACAAAAACACCCCTAGGGGAGACCTTCGACATG
AAAGTATCCTAGTACCCCTAAAGTACTTAAAAAGGACTATGGATGGGGTGAACCTATCCTAA
Found at i:2117878 original size:34 final size:34
Alignment explanation
Indices: 2117840--2117908 Score: 102
Period size: 34 Copynumber: 2.0 Consensus size: 34
2117830 GTTGTTACTG
2117840 TTGCTGCTGTCTTCCTTTTACTAGCATTTTCTTC
1 TTGCTGCTGTCTTCCTTTTACTAGCATTTTCTTC
** * *
2117874 TTGCTGCTGTCTTTTTTTTGCTATCATTTTCTTC
1 TTGCTGCTGTCTTCCTTTTACTAGCATTTTCTTC
2117908 T
1 T
2117909 ACCATCAGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.07, C:0.23, G:0.12, T:0.58
Consensus pattern (34 bp):
TTGCTGCTGTCTTCCTTTTACTAGCATTTTCTTC
Found at i:2117963 original size:17 final size:18
Alignment explanation
Indices: 2117936--2117970 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
2117926 TTTTTTATGC
2117936 TTTGTTTGCTGTCTCATT
1 TTTGTTTGCTGTCTCATT
*
2117954 TTTG-TTGCTGTTTCATT
1 TTTGTTTGCTGTCTCATT
2117971 ACTTTGCTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.06, C:0.14, G:0.17, T:0.63
Consensus pattern (18 bp):
TTTGTTTGCTGTCTCATT
Found at i:2117998 original size:21 final size:21
Alignment explanation
Indices: 2117974--2118030 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
2117964 TTTCATTACT
*
2117974 TTGCTATTTCATTTCTGTTGC
1 TTGCTATTTCATCTCTGTTGC
*
2117995 TTGCTATTTCGTCTCTGTTGC
1 TTGCTATTTCATCTCTGTTGC
*
2118016 TTGCTGTTTCATCTC
1 TTGCTATTTCATCTC
2118031 ACTATTTTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.07, C:0.23, G:0.16, T:0.54
Consensus pattern (21 bp):
TTGCTATTTCATCTCTGTTGC
Found at i:2118766 original size:166 final size:163
Alignment explanation
Indices: 2118550--2118956 Score: 439
Period size: 164 Copynumber: 2.5 Consensus size: 163
2118540 TTTGTAACAG
* * **
2118550 TATTAGATGAGTTTTAAAAATTTTAAACTAAGCAAAATATCCC--CGAAAAAATTTACAGAGAAG
1 TATTTGATGAATTTTAAAAATTAAAAACTAAG-AAAA-ATCCCTTCGAAAAAATTTAC-GAGAAG
* * **
2118613 AAAA-TTCG-ATTTCTCGAAAAAAAGGAATTTCAAAGAAAAAAATTTGAA-ACTCATGAAAATAA
63 AAAACATCGTA-TT-TAGAAAAAAAGGAATTTCAAAGAAAAAAA-TAAAACACTCATGAAAATAA
* **
2118675 ATTAAATTTTCAAAACTGAATTAATATGAATTAAATAATGA
125 A-TAAATTTT-AAAACTGAATTAATATGAAATAAATAAAAA
* * * * *
2118716 TGTTTGATGAATTTTAAAAATTGAAAACCAAGAAAAATCCCTTTGAAAAAATTTACGAAGTAGAA
1 TATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTTCGAAAAAATTTACG-AGAAGAA
* * * *
2118781 AACATCGTATTTAGGAAAAAAGGAGTTTCAAAGAAAAAAATAAAACACTCATGAAAATGAATGAA
65 AACATCGTATTTAGAAAAAAAGGAATTTCAAAGAAAAAAATAAAACACTCATGAAAATAAATAAA
*
2118846 TTTTAAAACTGGATTAATATGAAATAAATAAAAA
130 TTTTAAAACTGAATTAATATGAAATAAATAAAAA
* * *
2118880 TATTTGATGAATTTAAAAAATTAAAAATTAAGAAAAAT-CCTCTCGAAAAAATTTATGGAGAAGA
1 TATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCT-TCGAAAAAATTTA-CGAGAAGA
* *
2118944 AAACCTCGAATTT
64 AAACATCGTATTT
2118957 GCAAATATGA
Statistics
Matches: 203, Mismatches: 30, Indels: 18
0.81 0.12 0.07
Matches are distributed among these distances:
163 3 0.01
164 92 0.45
165 16 0.08
166 86 0.42
167 5 0.02
168 1 0.00
ACGTcount: A:0.51, C:0.09, G:0.12, T:0.28
Consensus pattern (163 bp):
TATTTGATGAATTTTAAAAATTAAAAACTAAGAAAAATCCCTTCGAAAAAATTTACGAGAAGAAA
ACATCGTATTTAGAAAAAAAGGAATTTCAAAGAAAAAAATAAAACACTCATGAAAATAAATAAAT
TTTAAAACTGAATTAATATGAAATAAATAAAAA
Found at i:2126645 original size:27 final size:27
Alignment explanation
Indices: 2126607--2126662 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
2126597 TTAAAAACAG
2126607 ATTCCTTCAAAAGAATGGGGTTGGAGT
1 ATTCCTTCAAAAGAATGGGGTTGGAGT
2126634 ATTCCTTCAAAAGAATGGGGTTGGAGT
1 ATTCCTTCAAAAGAATGGGGTTGGAGT
2126661 AT
1 AT
2126663 CCCCGATGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.29, T:0.30
Consensus pattern (27 bp):
ATTCCTTCAAAAGAATGGGGTTGGAGT
Found at i:2129212 original size:20 final size:19
Alignment explanation
Indices: 2129189--2129258 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
2129179 TAATGAAAAA
2129189 TGTATCGATACAATATCTTT
1 TGTATCGATACAAT-TCTTT
**
2129209 TGTATCGATAC-ATT-TAAA
1 TGTATCGATACAATTCT-TT
* *
2129227 TGTATCAATTCAATTTCTTT
1 TGTATCGATACAA-TTCTTT
2129247 TGTATCGATACA
1 TGTATCGATACA
2129259 TTTAAATGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
17 1 0.03
18 10 0.26
19 3 0.08
20 23 0.61
21 1 0.03
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.44
Consensus pattern (19 bp):
TGTATCGATACAATTCTTT
Found at i:2129228 original size:38 final size:38
Alignment explanation
Indices: 2129186--2129277 Score: 157
Period size: 38 Copynumber: 2.4 Consensus size: 38
2129176 ATATAATGAA
*
2129186 AAATGTATCGATACAATATCTTTTGTATCGATACATTT
1 AAATGTATCAATACAATATCTTTTGTATCGATACATTT
* *
2129224 AAATGTATCAATTCAATTTCTTTTGTATCGATACATTT
1 AAATGTATCAATACAATATCTTTTGTATCGATACATTT
2129262 AAATGTATCAATACAA
1 AAATGTATCAATACAA
2129278 GTTCCTTCCA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (38 bp):
AAATGTATCAATACAATATCTTTTGTATCGATACATTT
Found at i:2129232 original size:18 final size:18
Alignment explanation
Indices: 2129209--2129276 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
2129199 CAATATCTTT
*
2129209 TGTATCGATACATTTAAA
1 TGTATCAATACATTTAAA
* ***
2129227 TGTATCAATTCAATTTCTTT
1 TGTATCAATAC-ATTT-AAA
*
2129247 TGTATCGATACATTTAAA
1 TGTATCAATACATTTAAA
2129265 TGTATCAATACA
1 TGTATCAATACA
2129277 AGTTCCTTCC
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
18 20 0.54
19 8 0.22
20 9 0.24
ACGTcount: A:0.35, C:0.13, G:0.09, T:0.43
Consensus pattern (18 bp):
TGTATCAATACATTTAAA
Found at i:2135222 original size:20 final size:21
Alignment explanation
Indices: 2135184--2135235 Score: 79
Period size: 20 Copynumber: 2.5 Consensus size: 21
2135174 CTACAATTTA
*
2135184 TATCAATACAAACAGTAAATG
1 TATCAATACATACAGTAAATG
2135205 TATCAATACATA-AGTAAATG
1 TATCAATACATACAGTAAATG
*
2135225 TATCGATACAT
1 TATCAATACAT
2135236 GCTTGAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
20 18 0.62
21 11 0.38
ACGTcount: A:0.48, C:0.13, G:0.10, T:0.29
Consensus pattern (21 bp):
TATCAATACATACAGTAAATG
Found at i:2138799 original size:37 final size:37
Alignment explanation
Indices: 2138744--2138830 Score: 165
Period size: 37 Copynumber: 2.4 Consensus size: 37
2138734 CCCATGCGAC
*
2138744 ACCTAACTTTTAGGAAGTTTGTCTTAGATTGGATATT
1 ACCTAACTTTTAGAAAGTTTGTCTTAGATTGGATATT
2138781 ACCTAACTTTTAGAAAGTTTGTCTTAGATTGGATATT
1 ACCTAACTTTTAGAAAGTTTGTCTTAGATTGGATATT
2138818 ACCTAACTTTTAG
1 ACCTAACTTTTAG
2138831 GTTGTTTCTT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (37 bp):
ACCTAACTTTTAGAAAGTTTGTCTTAGATTGGATATT
Done.