Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold23
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: 3125668
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.28
Warning! 362582 characters in sequence are not A, C, G, or T
File 10 of 18
Found at i:1403692 original size:23 final size:22
Alignment explanation
Indices: 1403666--1403764 Score: 87
Period size: 23 Copynumber: 4.4 Consensus size: 22
1403656 CTCTACACAA
1403666 AAAAAAAAACAAACAAACAAAAC
1 AAAAAAAAA-AAACAAACAAAAC
* * *
1403689 AAAAAAAAGAAGAGAAAAAAAAGC
1 AAAAAAAA-AAAACAAACAAAA-C
1403713 -AAAAAAAAAAA-AAACAAAAAC
1 AAAAAAAAAAAACAAAC-AAAAC
1403734 AAAAAAAAAACAAC-AACAACAAC
1 AAAAAAAAAA-AACAAACAA-AAC
*
1403757 AACAAAAA
1 AAAAAAAA
1403765 GGATCCGGAT
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
21 4 0.06
22 18 0.29
23 39 0.62
24 2 0.03
ACGTcount: A:0.83, C:0.13, G:0.04, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAACAAACAAAAC
Found at i:1403693 original size:6 final size:6
Alignment explanation
Indices: 1403662--1403758 Score: 64
Period size: 6 Copynumber: 16.7 Consensus size: 6
1403652 TGTCCTCTAC
* *
1403662 ACAAAA AAAAAA ACAAACA A-ACAAA ACAAAA A-AAAGA AGAGAAA A-AAAA
1 ACAAAA ACAAAA ACAAA-A ACA-AAA ACAAAA ACAAA-A ACA-AAA ACAAAA
* * *
1403711 GC-AAA A-AAAA A-AAAA ACAAAA ACAAAA A-AAAA ACAACA ACAACA
1 ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA ACAAAA
1403755 ACAA
1 ACAA
1403759 CAAAAAGGAT
Statistics
Matches: 76, Mismatches: 5, Indels: 20
0.75 0.05 0.20
Matches are distributed among these distances:
5 23 0.30
6 43 0.57
7 8 0.11
8 2 0.03
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.00
Consensus pattern (6 bp):
ACAAAA
Found at i:1403748 original size:20 final size:20
Alignment explanation
Indices: 1403662--1403755 Score: 75
Period size: 20 Copynumber: 4.5 Consensus size: 20
1403652 TGTCCTCTAC
*
1403662 ACAAAAA-AAAAAACAAACA
1 ACAAAAACAAAAAAAAAACA
*
1403681 A-ACAAAACAAAAAAAAGAAGAGA
1 ACA-AAAAC-AAAAAAA-AA-ACA
* *
1403704 AAAAAAAGCAAAAAAAAAAAAA
1 ACAAAAA-C-AAAAAAAAAACA
1403726 ACAAAAACAAAAAAAAAACA
1 ACAAAAACAAAAAAAAAACA
*
1403746 ACAACAACAA
1 ACAAAAACAA
1403756 CAACAAAAAG
Statistics
Matches: 62, Mismatches: 6, Indels: 13
0.77 0.07 0.16
Matches are distributed among these distances:
18 1 0.02
19 5 0.08
20 20 0.32
21 7 0.11
22 10 0.16
23 9 0.15
24 10 0.16
ACGTcount: A:0.83, C:0.13, G:0.04, T:0.00
Consensus pattern (20 bp):
ACAAAAACAAAAAAAAAACA
Found at i:1405244 original size:34 final size:33
Alignment explanation
Indices: 1405195--1405372 Score: 257
Period size: 34 Copynumber: 5.3 Consensus size: 33
1405185 TTTATGGCAC
*
1405195 CCTTTTAAGTCCACAACTCCGTGGTACCTTTTT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
1405228 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTT-AAGTCCACAACTCCGTGGCAC-CTTTTT
* *
1405263 CCTTTTAAGTCCACAACTTCGTGGCATCCTTGTT
1 CCTTTTAAGTCCACAACTCCGTGGCA-CCTTTTT
*
1405297 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTC
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
* *
1405330 CCTTTTAAGTCCACAACTCCGTGGCATCTTTCT
1 CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
1405363 CCTTTTAAGT
1 CCTTTTAAGT
1405373 TCTCGAGTTA
Statistics
Matches: 129, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
33 50 0.39
34 67 0.52
35 12 0.09
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (33 bp):
CCTTTTAAGTCCACAACTCCGTGGCACCTTTTT
Found at i:1405417 original size:30 final size:29
Alignment explanation
Indices: 1405382--1405464 Score: 89
Period size: 28 Copynumber: 2.9 Consensus size: 29
1405372 TTCTCGAGTT
1405382 AGTGGCACCCTTTTCAAAAGCCCACAAATC
1 AGTGGCACCC-TTTCAAAAGCCCACAAATC
* * * *
1405412 AGTGGCAACCTTT-AAAAGCACACAAGTT
1 AGTGGCACCCTTTCAAAAGCCCACAAATC
*
1405440 GGT-GCAACCCTTTCAAAAGCCCACA
1 AGTGGC-ACCCTTTCAAAAGCCCACA
1405465 CAAGTTGGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
27 2 0.05
28 20 0.45
29 13 0.30
30 9 0.20
ACGTcount: A:0.35, C:0.30, G:0.16, T:0.19
Consensus pattern (29 bp):
AGTGGCACCCTTTCAAAAGCCCACAAATC
Found at i:1405468 original size:31 final size:31
Alignment explanation
Indices: 1405388--1405474 Score: 96
Period size: 31 Copynumber: 2.9 Consensus size: 31
1405378 AGTTAGTGGC
**
1405388 ACCCTTTTCAAAAGCCCACA-AA-TCAGTGGCA
1 ACCC-TTTCAAAAGCCCACACAAGTTGGT-GCA
1405419 A-CCTTT-AAAAG--CACACAAGTTGGTGCA
1 ACCCTTTCAAAAGCCCACACAAGTTGGTGCA
1405446 ACCCTTTCAAAAGCCCACACAAGTTGGTG
1 ACCCTTTCAAAAGCCCACACAAGTTGGTG
1405475 GCGTCTTTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
26 4 0.08
27 6 0.12
28 13 0.27
29 8 0.17
30 2 0.04
31 15 0.31
ACGTcount: A:0.34, C:0.29, G:0.16, T:0.21
Consensus pattern (31 bp):
ACCCTTTCAAAAGCCCACACAAGTTGGTGCA
Found at i:1405600 original size:39 final size:39
Alignment explanation
Indices: 1405536--1406173 Score: 387
Period size: 39 Copynumber: 15.0 Consensus size: 39
1405526 TTTTACTTTT
* * * *
1405536 AAGACTAATGTCGCTAGCCTTGAATCAACACATTGGCAC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
1405575 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA------C
* * *
1405620 TTTAAGACCAATGTCGCTAGCCTTGACTCAGCACATTGGCAC
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
1405662 AAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTGTC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA------C
* *
1405707 TTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
1405749 AAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCAC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
1405788 AAGTCCAATATCGCTGGTCTTGAATCAGCATATTGGCACCTTGTC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA------C
* *
1405833 TTTAAGACCAATGTCGCTGGGCTTGAATCAGCACATTGGCAC
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
1405875 AAGCCCAATATCCCTGG-GTTGAATCAGCATATTGGCACATTGTC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGG--CA----C
* *
1405919 TTTAAGACCATTGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
1405961 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTATC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGG---C--A-C
* **
1406006 TTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGCAC
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * * * * *
1406048 AAGCCCAATATCACTGGCCTTTAATCAACATATTGACACCTTGTC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA------C
* *
1406093 TTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCAC
1 ---AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
1406135 AAGTCCAATATTGCTGGCCTCGAATCAGCATATTGGCAC
1 AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
1406174 CTTTGTTATA
Statistics
Matches: 471, Mismatches: 73, Indels: 110
0.72 0.11 0.17
Matches are distributed among these distances:
38 16 0.03
39 244 0.52
40 2 0.00
42 7 0.01
43 1 0.00
44 2 0.00
45 6 0.01
46 2 0.00
47 13 0.03
48 178 0.38
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.28
Consensus pattern (39 bp):
AAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1405663 original size:87 final size:87
Alignment explanation
Indices: 1405487--1405787 Score: 469
Period size: 87 Copynumber: 3.4 Consensus size: 87
1405477 GTCTTTTTCT
* *
1405487 AAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCA-CTTTTACTTTTAAGACTAATGTCGCT
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGT-C-TTTAAGACTAATGTCGCT
*
1405551 AGCCTTGAATCAACACATTGGCAC
64 AGCCTTGAATCAGCACATTGGCAC
*
1405575 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTAG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTAG
*
1405640 CCTTGACTCAGCACATTGGCAC
66 CCTTGAATCAGCACATTGGCAC
* * *
1405662 AAGCCCAATATCGCTGGCCTTGAATCAGTATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTAG
1405727 CCTTGAATCAGCACATTGGCAC
66 CCTTGAATCAGCACATTGGCAC
* * * *
1405749 AAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCAC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
1405788 AAGTCCAATA
Statistics
Matches: 197, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
87 155 0.79
88 38 0.19
89 4 0.02
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (87 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACTAATGTCGCTAG
CCTTGAATCAGCACATTGGCAC
Found at i:1405780 original size:126 final size:128
Alignment explanation
Indices: 1405623--1406427 Score: 643
Period size: 126 Copynumber: 6.0 Consensus size: 128
1405613 CCTTGTCTTT
* * *
1405623 AAGACCAATGTCGCTAGCCTTGACTCAGCACATTGGCA-C-AAGCCCAATATCGCTGGCCTTGAA
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTAAGTCCAATATCGCTGGCCTTGAA
* *
1405686 TCAGTATATTGGCACCTTGTCTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
66 TCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* *
1405749 AAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCA-C-AAGTCCAATATCGCTGGTCTTGAA
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTAAGTCCAATATCGCTGGCCTTGAA
*
1405812 TCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGGCTTGAATCAGCACATTGGCAC
66 TCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
* * * * * * * *
1405875 AAGCCCAATATCCCTGG-GTTGAATCAGCATATTGGCACATTGTCTTTAAGACCATTGTCGCTGG
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG--CA---TC--TAAGTCCAATATCGCTGG
* * * *
1405939 CCTTGAATCAGCACATTGGCA------C---AAGTCCAATATCGCTGGCCTTGAATCAGCATATT
59 CCTTGAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATT
1405995 GGTACCTTATC
124 GG---C--A-C
** * *
1406006 TTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGGCA-C-AAGCCCAATATCACTGGCCTT
1 ---AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTAAGTCCAATATCGCTGGCCTT
* * * *
1406069 TAATCAACATATTGACACCTTGTCTTTAAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCA
63 GAATCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA
1406134 C
128 C
* * * * * * * *
1406135 AAGTCCAATATTGCTGGCCTCGAATCAGCATATTGGCACCTTTGTTATATTTCAGTCTAATGTCG
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCA-------TCTA----AGTCCAATATCG
* * * *
1406200 CTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATATCGCTGGCCTTGAATCAGC
55 CTGGCCTTGAATCAGCATATTGGCACCTT-GTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGC
*
1406265 ATATTGGCACCTTCGTC
119 ACATTGGCA-------C
1406282 ATTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 ------AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CATC--TAAGTCCAATA
*
1406347 TCGCTAGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGACCAATGTCGCTGGCCTTGA
52 TCGCTGGCCTTGAATCAGCATATTGGCACCTT-G---TCTTTAAGACCAATGTCGCTGGCCTTGA
1406412 ATCAGCACATTGGCAC
113 ATCAGCACATTGGCAC
1406428 CTTCATCTTT
Statistics
Matches: 537, Mismatches: 76, Indels: 112
0.74 0.10 0.15
Matches are distributed among these distances:
125 48 0.09
126 192 0.36
127 2 0.00
128 2 0.00
129 2 0.00
130 2 0.00
131 2 0.00
132 2 0.00
133 2 0.00
134 46 0.09
135 49 0.09
139 34 0.06
140 38 0.07
146 1 0.00
147 1 0.00
150 39 0.07
152 1 0.00
153 70 0.13
154 2 0.00
159 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (128 bp):
AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCATCTAAGTCCAATATCGCTGGCCTTGAA
TCAGCATATTGGCACCTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1405840 original size:87 final size:87
Alignment explanation
Indices: 1405749--1406528 Score: 826
Period size: 101 Copynumber: 8.4 Consensus size: 87
1405739 ACATTGGCAC
* *
1405749 AAGACCAATGTTGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGTCTTGAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATC
1405814 AGCATATTGGCACCTTGTCTTT
66 AGCATATTGGCACCTTGTCTTT
* * * *
1405836 AAGACCAATGTCGCTGGGCTTGAATCAGCACATTGGCACAAGCCCAATATCCCTGG-GTTGAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATC
*
1405900 AGCATATTGGCACATTGTCTTT
66 AGCATATTGGCACCTTGTCTTT
*
1405922 AAGACCATTGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATC
* *
1405987 AGCATATTGGTACCTTATCTTT
66 AGCATATTGGCACCTTGTCTTT
** * * *
1406009 AAGACCAATGTCATTGGCCTTGAATCAGCACATTGGCACAAGCCCAATATCACTGGCCTTTAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATC
* *
1406074 AACATATTGACACCTTGTCTTT
66 AGCATATTGGCACCTTGTCTTT
* * *
1406096 AAGACCAATGTCGCTGGCCTTAAATCAGCACATTGGCACAAGTCCAATATTGCTGGCCTCGAATC
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATC
*
1406161 AGCATATTGGCACCTTTGTTATATTT
66 AGCATATTGGCACC-TTG---TCTTT
* * * * *
1406187 CAGTCTAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATATCGCTG
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-C---AAGTCCAATATCGCTG
1406252 GCCTTGAATCAGCATATTGGCACCTTCGTCATTTTT
56 GCCTTGAATCAGCATATTGGCACCTT-GTC---TTT
*
1406288 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGCTA
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-C---AAGTCCAATATCGCTG
1406353 GCCTTGAATCAGCATATTGGCACCTTCGTCATCTTT
56 GCCTTGAATCAGCATATTGGCACCTT-G---TCTTT
* *
1406389 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAAATCGTTG
1 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGG------CA-C---AAGTCCAATATCGCTG
* *
1406454 GTCTTGAATCAGCATATTGGCGCCTTCGTCATCTTT
56 GCCTTGAATCAGCATATTGGCACCTT-G---TCTTT
* *
1406490 CAA-ACCAATGTCACTGGCCTTTAATCAGCACATTGGCAC
1 -AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1406529 CTTCATCCTT
Statistics
Matches: 613, Mismatches: 57, Indels: 39
0.86 0.08 0.06
Matches are distributed among these distances:
86 80 0.13
87 224 0.37
88 3 0.00
91 35 0.06
94 1 0.00
95 2 0.00
97 2 0.00
98 2 0.00
100 2 0.00
101 258 0.42
102 2 0.00
104 2 0.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.30
Consensus pattern (87 bp):
AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACAAGTCCAATATCGCTGGCCTTGAATC
AGCATATTGGCACCTTGTCTTT
Found at i:1406225 original size:52 final size:52
Alignment explanation
Indices: 1406135--1406573 Score: 490
Period size: 49 Copynumber: 8.7 Consensus size: 52
1406125 ACATTGGCAC
* * * * *
1406135 AAGTCCAATATTGCTGGCCTCGAATCAGCATATTGGCACCTTTGTTATATTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
* *
1406187 CAGTCTAATGTCGCTGGCCTTGAATCAGCATATTGGCACC--T-TCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
* * * *
1406236 AAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATTTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
* *
1406288 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
* * *
1406337 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
* *
1406389 AAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC--T-TCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
** * * * *
1406438 AAGTCCAAAATCGTTGGTCTTGAATCAGCATATTGGCGCCTTCGTCATCTTT
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
* * * * *
1406490 CAA-ACCAATGTCACTGGCCTTTAATCAGCACATTGGCACC--T-TCATCCTT
1 -AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
* * *
1406539 AAGTCCAATATCGTTGGCCTTGAATCAGCGTATTG
1 AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTG
1406574 ACATCTTTAA
Statistics
Matches: 323, Mismatches: 53, Indels: 25
0.81 0.13 0.06
Matches are distributed among these distances:
48 2 0.01
49 160 0.50
50 1 0.00
52 158 0.49
53 2 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (52 bp):
AAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTCATCTTT
Found at i:1406310 original size:101 final size:101
Alignment explanation
Indices: 1406135--1406664 Score: 665
Period size: 101 Copynumber: 5.3 Consensus size: 101
1406125 ACATTGGCAC
* * * * * * * *
1406135 AAGTCCAATATTGCTGGCCTCGAATCAGCATATTGGCACCTTTGTTATATTTCAGTCTAATGTCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATTTTTAAGACCAATGTCG
*
1406200 CTGGCCTTGAATCAGCATATTGGCACCTTCATCTTT
66 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
*
1406236 AAGTCTAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATTTTTAAGACCAATGTCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATTTTTAAGACCAATGTCG
1406301 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
66 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* *
1406337 AAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAGACCAATGTCG
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATTTTTAAGACCAATGTCG
1406402 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
66 CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * * * *
1406438 AAGTCCAAAATCGTTGGTCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTCAA-ACCAATGTC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCAT-TTTTAAGACCAATGTC
* * *
1406502 ACTGGCCTTTAATCAGCACATTGGCACCTTCATCCTT
65 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * * * *** ***
1406539 AAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGACATCTTTAACATTCCGAAG-CTCAATGTC
1 AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATTTTTAAGAC-CAATGTC
* ** *
1406603 GTTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTT
65 GCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
* * *
1406638 AAGTCTAATGTCGC-GGACCATGAATCA
1 AAGTCCAATATCGCTGG-CCTTGAATCA
1406665 ACACATTGTC
Statistics
Matches: 379, Mismatches: 46, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
98 2 0.01
99 27 0.07
100 4 0.01
101 342 0.90
102 4 0.01
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.33
Consensus pattern (101 bp):
AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATTTTTAAGACCAATGTCG
CTGGCCTTGAATCAGCACATTGGCACCTTCATCTTT
Found at i:1406602 original size:202 final size:202
Alignment explanation
Indices: 1405893--1406642 Score: 644
Period size: 202 Copynumber: 3.9 Consensus size: 202
1405883 TATCCCTGGG
* * *
1405893 TTGAATCAGCATATTGGCACATT-GTC--TTT-AAGACCATTGTCGCTGGCCTTGAATCAGCACA
1 TTGAATCAGCATATTGGCACCTTCGTCATTTTCAAGACCAATGTCACTGGCCTTGAATCAGCACA
* **
1405954 TTGG------CA--C--AAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTT----AT
66 TTGGCACCTTCATCCTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGACACCTTCAACAT
** ** * *
1406005 CTTTAAGACCAATGTCATTGGCCTTGAATCAGCACATTGG------CA-C---AAGCCCAATATC
131 CTCGAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAAATC
*
1406060 ACTGGCC
196 GCTGGCC
* * * * *
1406067 TTTAATCAACATATTGACACCTT-GTC--TTT-AAGACCAATGTCGCTGGCCTTAAATCAGCACA
1 TTGAATCAGCATATTGGCACCTTCGTCATTTTCAAGACCAATGTCACTGGCCTTGAATCAGCACA
* * * * ** *
1406128 TTGG------CA--C--AAGTCCAATATTGCTGGCCTCGAATCAGCATATTGGCACCTTTGTTAT
66 TTGGCACCTTCATCCTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGACACC-TT-CAAC
* * * * * *
1406183 ATTTC--AGTCTAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCTAATA
129 ATCTCGAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAAA
1406246 TCGCTGGCC
194 TCGCTGGCC
* *
1406255 TTGAATCAGCATATTGGCACCTTCGTCATTTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACA
1 TTGAATCAGCATATTGGCACCTTCGTCATTTTCAAGACCAATGTCACTGGCCTTGAATCAGCACA
* * **
1406320 TTGGCACCTTCATCTTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGGCACCTTCGTCAT
66 TTGGCACCTTCATCCTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGACACCTTCAACAT
**
1406385 CTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAAATC
131 CTCGAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAAATC
* *
1406450 GTTGGTC
196 GCTGGCC
* *
1406457 TTGAATCAGCATATTGGCGCCTTCGTCATCTTTCAA-ACCAATGTCACTGGCCTTTAATCAGCAC
1 TTGAATCAGCATATTGGCACCTTCGTCAT-TTTCAAGACCAATGTCACTGGCCTTGAATCAGCAC
* * * * *
1406521 ATTGGCACCTTCATCCTTAAGTCCAATATCGTTGGCCTTGAATCAGCGTATTGACATCTTTAACA
65 ATTGGCACCTTCATCCTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGACACCTTCAACA
* ** *
1406586 T-TCCGAAG-CTCAATGTCGTTGGCCTTGTCTCAGCACATTGGCA--TTCTTCTTTAAGTC
130 TCT-CGAAGAC-CAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTC
1406643 TAATGTCGCG
Statistics
Matches: 482, Mismatches: 59, Indels: 44
0.82 0.10 0.08
Matches are distributed among these distances:
174 99 0.21
175 2 0.00
178 30 0.06
180 3 0.01
184 2 0.00
185 1 0.00
188 36 0.07
189 3 0.01
191 3 0.01
192 35 0.07
198 2 0.00
200 16 0.03
201 4 0.01
202 241 0.50
203 5 0.01
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (202 bp):
TTGAATCAGCATATTGGCACCTTCGTCATTTTCAAGACCAATGTCACTGGCCTTGAATCAGCACA
TTGGCACCTTCATCCTTAAGTCCAATATCGCTAGCCTTGAATCAGCATATTGACACCTTCAACAT
CTCGAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAAGTCCAAAATC
GCTGGCC
Found at i:1407353 original size:13 final size:13
Alignment explanation
Indices: 1407335--1407359 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1407325 TTCAACGATT
1407335 TGTATCGATACAA
1 TGTATCGATACAA
1407348 TGTATCGATACA
1 TGTATCGATACA
1407360 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:1407448 original size:13 final size:13
Alignment explanation
Indices: 1407430--1407455 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1407420 CATTATTCCA
1407430 TGTATCGATACAT
1 TGTATCGATACAT
1407443 TGTATCGATACAT
1 TGTATCGATACAT
1407456 GGATTTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1411194 original size:205 final size:205
Alignment explanation
Indices: 1410842--1411248 Score: 627
Period size: 205 Copynumber: 2.0 Consensus size: 205
1410832 GGGTTTTTAA
* * * * **
1410842 GCAACCAAGCTTCAAAAAATCATAACTCCTTGATTCAAGATGATTCGGGGGTAAATTAGCCACTG
1 GCAACCAAGCTTCAAAAAATCATAACTCCCTGATTCAAGATCATCCGAGGGTAAATTAGCCACCA
*
1410907 TTGAAAAGGTGATTCAGTGTATTTTCAAGGAAAGATATCACAACATGCCAAAAATACTGTTTAAA
66 TTGAAAAGGTGATTCAGTGTATTTTCAAGGAAAAATATCACAACATGCCAAAAATACTGTTTAAA
* * *
1410972 ATCTAAAAATGATTTTTCAAAGTAGGGTTGCAATGCTGCTAGGACAAAACATGGCAAGTTTCATT
131 ATCTAAAAATGATTTTTCAAAGTAGGGCTGCAATGCTACTAGGACAAAACAAGGCAAGTTTCATT
1411037 GTTTTTCGAG
196 GTTTTTCGAG
* * *
1411047 GCAACCAAGCTTCAAAAAATCATAACTCCCTGA-TCTGAGATCATCCGATGGTAAATTAGTCACC
1 GCAACCAAGCTTCAAAAAATCATAACTCCCTGATTC-AAGATCATCCGAGGGTAAATTAGCCACC
** * *
1411111 ATTGAAAAGGTGATTCAGTGTATTTTCAAGGAAAAATATCATGACATGCCAAAAATATTGTTTAC
65 ATTGAAAAGGTGATTCAGTGTATTTTCAAGGAAAAATATCACAACATGCCAAAAATACTGTTTAA
* *
1411176 AATTTAAAAATGATTTTTCAAAGTGGGGCTGCAATGCTACTAGGACAAAACAAGGCAAGTTTCAT
130 AATCTAAAAATGATTTTTCAAAGTAGGGCTGCAATGCTACTAGGACAAAACAAGGCAAGTTTCAT
1411241 TGTTTTTC
195 TGTTTTTC
1411249 AAGTTTTTGA
Statistics
Matches: 182, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
204 2 0.01
205 180 0.99
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.29
Consensus pattern (205 bp):
GCAACCAAGCTTCAAAAAATCATAACTCCCTGATTCAAGATCATCCGAGGGTAAATTAGCCACCA
TTGAAAAGGTGATTCAGTGTATTTTCAAGGAAAAATATCACAACATGCCAAAAATACTGTTTAAA
ATCTAAAAATGATTTTTCAAAGTAGGGCTGCAATGCTACTAGGACAAAACAAGGCAAGTTTCATT
GTTTTTCGAG
Found at i:1412228 original size:13 final size:13
Alignment explanation
Indices: 1412210--1412239 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1412200 ATACATTGTT
1412210 CATTGTATCGATA
1 CATTGTATCGATA
*
1412223 CATTGTATTGATA
1 CATTGTATCGATA
1412236 CATT
1 CATT
1412240 CGGGCTTTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.13, G:0.13, T:0.43
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:1412283 original size:20 final size:20
Alignment explanation
Indices: 1412258--1412348 Score: 114
Period size: 20 Copynumber: 4.5 Consensus size: 20
1412248 ACCTAGATGG
1412258 ATCGATACATTTTGCATTGT
1 ATCGATACATTTTGCATTGT
1412278 ATCGATACATTTCT-CATTGT
1 ATCGATACATTT-TGCATTGT
* *
1412298 ATCGATACA-TTGGTCACTGT
1 ATCGATACATTTTG-CATTGT
* *
1412318 ATCGATACATTTTACAATGT
1 ATCGATACATTTTGCATTGT
1412338 ATCGATACATT
1 ATCGATACATT
1412349 CAAGCATTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
19 2 0.03
20 57 0.92
21 3 0.05
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.41
Consensus pattern (20 bp):
ATCGATACATTTTGCATTGT
Found at i:1414458 original size:19 final size:20
Alignment explanation
Indices: 1414413--1414464 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
1414403 TTACAAGCCA
* *
1414413 ATGTATCGATACATTTTGTG
1 ATGTATCGATACATATTATG
1414433 ATGTATCGATACATATTATG
1 ATGTATCGATACATATTATG
*
1414453 -TGTATCAATACA
1 ATGTATCGATACA
1414465 AATTTAGCTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 11 0.38
20 18 0.62
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATATTATG
Found at i:1414523 original size:20 final size:20
Alignment explanation
Indices: 1414498--1414546 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1414488 CCAATGACTT
**
1414498 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
1414518 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
1414538 GTATCGATA
1 GTATCGATA
1414547 TATTGTATCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:1416908 original size:20 final size:21
Alignment explanation
Indices: 1416879--1416919 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1416869 TGTTTTTGTT
1416879 GATGATTTTG-A-TGAAAAAC
1 GATGATTTTGAAGTGAAAAAC
1416898 GATGTATTTTGAAGTGAAAAAC
1 GATG-ATTTTGAAGTGAAAAAC
1416920 AAGAAATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 1 0.05
22 8 0.42
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (21 bp):
GATGATTTTGAAGTGAAAAAC
Found at i:1417069 original size:13 final size:13
Alignment explanation
Indices: 1417051--1417076 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1417041 ATAAACCCCT
1417051 TGTATCGATACAA
1 TGTATCGATACAA
1417064 TGTATCGATACAA
1 TGTATCGATACAA
1417077 AGAATGCTAT
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):
TGTATCGATACAA
Found at i:1423347 original size:32 final size:33
Alignment explanation
Indices: 1423283--1423350 Score: 102
Period size: 33 Copynumber: 2.1 Consensus size: 33
1423273 CGTTACAAGC
* *
1423283 CAATTTATCGATACATTTTGTGATGTATCGATA
1 CAATGTATCGATACATATTGTGATGTATCGATA
*
1423316 CAATGTATCGATATATATTGTG-TGTATCGATA
1 CAATGTATCGATACATATTGTGATGTATCGATA
1423348 CAA
1 CAA
1423351 ATTTAGCTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
32 13 0.41
33 19 0.59
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (33 bp):
CAATGTATCGATACATATTGTGATGTATCGATA
Found at i:1423408 original size:20 final size:20
Alignment explanation
Indices: 1423383--1423431 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
1423373 CCAATGACTT
**
1423383 GTATCGATACATTTTTTCAA
1 GTATCGATACATTTAGTCAA
*
1423403 GTATCGATACATTTAGTCAT
1 GTATCGATACATTTAGTCAA
1423423 GTATCGATA
1 GTATCGATA
1423432 TTGTGCAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (20 bp):
GTATCGATACATTTAGTCAA
Found at i:1427325 original size:115 final size:113
Alignment explanation
Indices: 1427196--1427538 Score: 347
Period size: 114 Copynumber: 3.0 Consensus size: 113
1427186 AAAAATTGAC
* * *
1427196 CTAATATAACTAAATAAATTAGA-CCGCAAATAAATTAATTAACTATGGAT-CAGGGCCATATTT
1 CTAATATAATTAAATAAA-TAGAGCC-CAAATAAATTAATTAAATA-GGATGCAGGACC-TATTT
* * *
1427259 TATCTAATGTATATTTTTATAAGGCTTAGACTTAGATTGAATAATTTATGAA
62 TATCTAATATATATTTTTATAAGGCTTAGACTTAAATTAAATAATTTATGAA
* * * *
1427311 CTAATATAATTAAATAAA-AGAGGCTCAAATAAATTAATTAAATAAGCATGTAGGATCTATTTTA
1 CTAATATAATTAAATAAATAGA-GCCCAAATAAATTAATTAAAT-AGGATGCAGGACCTATTTTA
* * * * * *
1427375 TTTGATATATATTTTTCATAA-GATTAGGCCTAAAATTAAATAATTTATGAT
64 TCTAATATATATTTTT-ATAAGGCTTA-GACTTAAATTAAATAATTTATGAA
* * *
1427426 CTAATATAATTAAATAAAATA-AGTCCAAATAAATTAATTAAATAAG-TGCATGAACCTATTTTA
1 CTAATATAATTAAAT-AAATAGAGCCCAAATAAATTAATTAAATAGGATGCA-GGACCTATTTTA
* * *
1427489 TCTAATATATATTTTTTATGAGACTTAGTCTTAAATTAAATAATTTATGA
64 TCTAATATATA-TTTTTATAAGGCTTAGACTTAAATTAAATAATTTATGA
1427539 CCTTACCTCA
Statistics
Matches: 187, Mismatches: 30, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
113 6 0.03
114 88 0.47
115 88 0.47
116 4 0.02
117 1 0.01
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.38
Consensus pattern (113 bp):
CTAATATAATTAAATAAATAGAGCCCAAATAAATTAATTAAATAGGATGCAGGACCTATTTTATC
TAATATATATTTTTATAAGGCTTAGACTTAAATTAAATAATTTATGAA
Found at i:1427373 original size:114 final size:112
Alignment explanation
Indices: 1427254--1427538 Score: 342
Period size: 115 Copynumber: 2.5 Consensus size: 112
1427244 ATCAGGGCCA
* * *
1427254 TATTTTATCTAATGTATATTTTTATAAGGCTTAGACTTAGATTGAATAATTTATGAACTAATATA
1 TATTTTATCTAATATATATTTTTATAAGGCTTAGACTTAAATTAAATAATTTATGAACTAATATA
* *
1427319 ATTAAATAAAAG-AGGCTCAAATAAATTAATTAAATAA-GCATGTAGGATC
66 ATTAAATAAAAGAAGTC-CAAATAAATTAATTAAATAAGGCATG-A--ACC
* * * * * *
1427368 TATTTTATTTGATATATATTTTTCATAA-GATTAGGCCTAAAATTAAATAATTTATGATCTAATA
1 TATTTTATCTAATATATATTTTT-ATAAGGCTTA-GACTTAAATTAAATAATTTATGAACTAATA
*
1427432 TAATTAAATAAAATAAGTCCAAATAAATTAATTAAATAAGTGCATGAACC
64 TAATTAAATAAAAGAAGTCCAAATAAATTAATTAAATAAG-GCATGAACC
* * *
1427482 TATTTTATCTAATATATATTTTTTATGAGACTTAGTCTTAAATTAAATAATTTATGA
1 TATTTTATCTAATATATA-TTTTTATAAGGCTTAGACTTAAATTAAATAATTTATGA
1427539 CCTTACCTCA
Statistics
Matches: 145, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
114 66 0.46
115 70 0.48
116 4 0.03
117 5 0.03
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (112 bp):
TATTTTATCTAATATATATTTTTATAAGGCTTAGACTTAAATTAAATAATTTATGAACTAATATA
ATTAAATAAAAGAAGTCCAAATAAATTAATTAAATAAGGCATGAACC
Found at i:1429246 original size:28 final size:28
Alignment explanation
Indices: 1429210--1429622 Score: 373
Period size: 28 Copynumber: 14.3 Consensus size: 28
1429200 ATCCTTCCCC
*
1429210 AAGCCCACAAGTTAGTGGCATCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
*
1429238 AAGCCCACAAGTCAGTGGCATACTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* * *
1429266 AAGCCCACATGTCAATGGCATCCTTATTA
1 AAGCCCACAAGTCAGTGGCATCCTT-TCA
1429295 AAGCCCACAAGTCAGTGGCATCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
*
1429323 AAGCCCACATGTCAGTGGCATCCTTTTCA
1 AAGCCCACAAGTCAGTGGCATCC-TTTCA
* **
1429352 AA-CCTCACAAATCAGTGGCATCCTTTTTT
1 AAGCC-CACAAGTCAGTGGCATCC-TTTCA
1429381 AAGCCCATACAAGTCAGTGGCATCCTTTCA
1 AAGCCC--ACAAGTCAGTGGCATCCTTTCA
* *
1429411 AAGCCCACATGTTAGTGGCATCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* * **
1429439 AAGCTCACATGTCAGTGGCATCCTTCTTT
1 AAGCCCACAAGTCAGTGGCATCCTT-TCA
*
1429468 AAGCCCACACAAGTC-GATGGCAACCTCTCTCA
1 AAG-CC-CACAAGTCAG-TGGCATCCT-T-TCA
* * *
1429500 AAGCCCACTAGTCAGTGGTAGCCTTTCA
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* * * **
1429528 AAGTCCACAAGTTAGTGGCACCCTTTTG
1 AAGCCCACAAGTCAGTGGCATCCTTTCA
* * * * *
1429556 AAGCCTACAGGTTAATGGC-TCTCTTTTA
1 AAGCCCACAAGTCAGTGGCATC-CTTTCA
** * *
1429584 AAGCCCACAAGTTGGTGGCAACTTTCTCTA
1 AAGCCCACAAGTCAGTGGCATCCTT-TC-A
1429614 AAGCCCACA
1 AAGCCCACA
1429623 CAAGTTAGTG
Statistics
Matches: 318, Mismatches: 51, Indels: 30
0.80 0.13 0.08
Matches are distributed among these distances:
27 1 0.00
28 178 0.56
29 62 0.19
30 37 0.12
31 34 0.11
32 6 0.02
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (28 bp):
AAGCCCACAAGTCAGTGGCATCCTTTCA
Found at i:1429538 original size:145 final size:144
Alignment explanation
Indices: 1429210--1429646 Score: 472
Period size: 145 Copynumber: 3.0 Consensus size: 144
1429200 ATCCTTCCCC
* *
1429210 AAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATACTTTCAAAGCCCACA
1 AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
* * *
1429275 TGTCAATGGCATCCTTATTAAAGCCCACAAGTCAGTGGCATCCTT-TCAAAG-CC-CACATGTCA
66 TGTTAATGGCATCCTT-TTAAAGCCCACAAGTCAGTGGCATCCTTCTTAAAGCCCACACAAGTCA
* *
1429337 GTGGCATCCTTTTCA
130 GTGGCAACCTTCTCA
* **
1429352 AA-CCTCACAAATCAGTGGCATCCTTTTTTAAGCCCATACAAGTCAGTGGCATCCTTTCAAAGCC
1 AAGCC-CACAAGTCAGTGGCATCC-TTTCAAAGCCC--ACAAGTCAGTGGCATCCTTTCAAAGCC
* * * * *
1429416 CACATGTTAGTGGCATCCTTTCAAAGCTCACATGTCAGTGGCATCCTTCTTTAAGCCCACACAAG
62 CACATGTTAATGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTCTTAAAGCCCACACAAG
1429481 TC-GATGGCAACCTCTCTCA
127 TCAG-TGGCAACCT-TCTCA
* * * * * * ** *
1429500 AAGCCCACTAGTCAGTGGTAGCCTTTCAAAGTCCACAAGTTAGTGGCACCCTTTTGAAGCCTACA
1 AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
* ** * * *
1429565 GGTTAATGGC-TCTCTTTTAAAGCCCACAAGTTGGTGGCAACTTTCTCTAAAGCCCACACAAGTT
66 TGTTAATGGCATC-CTTTTAAAGCCCACAAGTCAGTGGCATCCTTCT-TAAAGCCCACACAAGTC
1429629 AGTGGCAACCCTTCTCA
129 AGTGGCAA-CCTTCTCA
1429646 A
1 A
1429647 CCCGATGTCG
Statistics
Matches: 243, Mismatches: 38, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
141 2 0.01
142 18 0.07
143 9 0.04
144 27 0.11
145 108 0.44
146 30 0.12
147 27 0.11
148 20 0.08
149 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (144 bp):
AAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACA
TGTTAATGGCATCCTTTTAAAGCCCACAAGTCAGTGGCATCCTTCTTAAAGCCCACACAAGTCAG
TGGCAACCTTCTCA
Found at i:1429589 original size:173 final size:171
Alignment explanation
Indices: 1429210--1429609 Score: 472
Period size: 173 Copynumber: 2.3 Consensus size: 171
1429200 ATCCTTCCCC
* *
1429210 AAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAGTGGCATACTTTCAAAGCCCACA
1 AAGCCTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATACTTTCAAAGCCCACA
*
1429275 TGTCAATGGCATCCTTATTAAAGCCCACAAGTCAGTGGCATCCTTTCAAAGCCCACATGTCAGTG
66 TGTCAATGGCATCCTTATTAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACATGTCAGTG
* * *
1429340 GCATCCTTTTCAAACCTCACAAATCAGTGGCATCCTTTTTT
131 GCAGCCTTTTCAAACCTCACAAATCAGTGGCATCCCTTTTG
* * * *
1429381 AAGCCCATACAAGTCAGTGGCATCCTTTCAAAGCCCACATGTTAGTGGCATCCTTTCAAAGCTCA
1 AAG-CC-TACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATACTTTCAAAGCCCA
* * *
1429446 CATGTCAGTGGCATCCTTCTTTAAGCCCACACAAGTC-GATGGCAACCTCTCTCAAAGCCCAC-T
64 CATGTCAATGGCATCCTTATTAAAG-CC-CACAAGTCAG-TGGCAACCT-T-TCAAAGCCCACAT
* * * *
1429509 AGTCAGTGGTAGCC-TTTCAAA-GTCCACAAGTTAGTGGCA-CCCTTTTG
124 -GTCAGTGGCAGCCTTTTCAAACCT-CACAAATCAGTGGCATCCCTTTTG
* * * *
1429556 AAGCCTACAGGTTAATGGC-TCTCTTTTAAAGCCCACAAGTTGGTGGCA-ACTTTC
1 AAGCCTACAAGTTAGTGGCATC-CTTTCAAAGCCCACAAGTTAGTGGCATACTTTC
1429610 TCTAAAGCCC
Statistics
Matches: 195, Mismatches: 24, Indels: 19
0.82 0.10 0.08
Matches are distributed among these distances:
171 3 0.02
172 9 0.05
173 108 0.55
174 5 0.03
175 26 0.13
176 22 0.11
177 22 0.11
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (171 bp):
AAGCCTACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTTAGTGGCATACTTTCAAAGCCCACA
TGTCAATGGCATCCTTATTAAAGCCCACAAGTCAGTGGCAACCTTTCAAAGCCCACATGTCAGTG
GCAGCCTTTTCAAACCTCACAAATCAGTGGCATCCCTTTTG
Found at i:1433085 original size:13 final size:13
Alignment explanation
Indices: 1433067--1433094 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1433057 ATACAAAGAT
1433067 CAATGTATCGATA
1 CAATGTATCGATA
1433080 CAATGTATCGATA
1 CAATGTATCGATA
1433093 CA
1 CA
1433095 TTTCCTTGGT
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:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1433931 original size:101 final size:98
Alignment explanation
Indices: 1433760--1434241 Score: 432
Period size: 101 Copynumber: 4.8 Consensus size: 98
1433750 AGTGATAAAG
* * * * *
1433760 GTGCCAATATGCTGATTC-AGGACCAATGATATTGGGCTTAAAGTTGTAAAGAATGCCAATGTGC
1 GTGCCAATGTGCTGATTCAAGG-CCAACGACATTGGGCTTAAAGATG--AAG-GTGCCAATGTGC
* * ** *
1433824 TAATTCACGATCAGCGACATTAGACTTGAAGATAAGAA
62 TGATTCAAGGCCAGCGACATTAGACTTAAAGAT-AGAA
* *
1433862 GAATGTCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTAAAGATGAAGGTGCCAATGTGCTG
1 G--TGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAGATGAAGGTGCCAATGTGCTG
* * * *
1433927 ATTCAAGGCCAGTGATATCAAACTTAAAGAT-GAA
64 ATTCAAGGCCAGCGACATTAGACTTAAAGATAGAA
* * * * ** *
1433961 TGTGCCAATGTGCTAATTCGAGGCCAGCGACATTGGACTTAAAGATGGTTAAATTGCCAATGTAC
1 -GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAGAT-G--AAGGTGCCAATGTGC
* * *
1434026 TGATTCAAGGCCAACGACA-TCGATCTTAAAGATCA-AG
62 TGATTCAAGGCCAGCGACATTAGA-CTTAAAGAT-AGAA
* * ** * * *
1434063 GTGCCAATGTGTTGATTCAAGGCCAACGATATCAGACTTAAAGATGAACGTGCCAATGTGCCGAT
1 GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGAT
* *
1434128 TCAAGGCCAGCGACATTGGACTTAAAGATGGTTAA
66 TCAAGGCCAGCGACATTAGACTTAAAGATAG--AA
* * * * *
1434163 GGTGCCAATGTGTTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGATGA
1 -GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGA
1434228 TTCAAGGCCAGCGA
65 TTCAAGGCCAGCGA
1434242 TATTGGGCTC
Statistics
Matches: 311, Mismatches: 54, Indels: 31
0.79 0.14 0.08
Matches are distributed among these distances:
98 76 0.24
99 7 0.02
100 4 0.01
101 181 0.58
102 5 0.02
104 35 0.11
105 3 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (98 bp):
GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGGCTTAAAGATGAAGGTGCCAATGTGCTGAT
TCAAGGCCAGCGACATTAGACTTAAAGATAGAA
Found at i:1433933 original size:49 final size:49
Alignment explanation
Indices: 1433757--1434247 Score: 428
Period size: 49 Copynumber: 9.8 Consensus size: 49
1433747 AAGAGTGATA
* * * * *
1433757 AAGGTGCCAATATGCTGATTC-AGGACCAATGATATTGGGCTTAAAGTTG
1 AAGGTGCCAATGTGCTGATTCAAGG-CCAACGACATTGGACTTAAAGATG
* * * ** * * *
1433806 TAAAGAATGCCAATGTGCTAATTCACGATCAGCGACATTAGACTTGAAGATAAG
1 --AAG-GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT--G
* * **
1433860 AAGAATGTCAATGTGCTGATTCAAGGCCAACGACATTGGGTTTAAAGATG
1 AAG-GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG
** * ***
1433910 AAGGTGCCAATGTGCTGATTCAAGGCCAGTGATATCAAACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG
* * * *
1433959 AATGTGCCAATGTGCTAATTCGAGGCCAGCGACATTGGACTTAAAGATGG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT-G
** * * *
1434009 TTAAATTGCCAATGTACTGATTCAAGGCCAACGACA-TCGATCTTAAAGATC
1 --AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGA-CTTAAAGATG
* * **
1434060 AAGGTGCCAATGTGTTGATTCAAGGCCAACGATATCAGACTTAAAGATG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG
* * *
1434109 AACGTGCCAATGTGCCGATTCAAGGCCAGCGACATTGGACTTAAAGATGG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGAT-G
* * *
1434159 TTAAGGTGCCAATGTGTTGATTCAAGGCCAACGACATCGGTCTTAAAGATG
1 --AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG
* * * *
1434210 AAGGTGCCAATATGATGATTCAAGGCCAGCGATATTGG
1 AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1434248 GCTCGTGCCA
Statistics
Matches: 353, Mismatches: 75, Indels: 26
0.78 0.17 0.06
Matches are distributed among these distances:
49 188 0.53
50 8 0.02
51 7 0.02
52 148 0.42
53 1 0.00
54 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG
Found at i:1434031 original size:150 final size:150
Alignment explanation
Indices: 1433868--1434244 Score: 585
Period size: 150 Copynumber: 2.5 Consensus size: 150
1433858 AGAAGAATGT
* *
1433868 CAATGTGCTGATTCAAGGCCAACGACATTGGGT-TTAAAGATGAAGGTGCCAATGTGCTGATTCA
1 CAATGTGCTGATTCAAGGCCAACGACA-TCGGTCTTAAAGATGAAGGTGCCAATGTGATGATTCA
* * * *
1433932 AGGCCAGTGATATCAAACTTAAAGATGAATGTGCCAATGTGCTAATTCGAGGCCAGCGACATTGG
65 AGGCCAGCGATATCAAACTTAAAGATGAACGTGCCAATGTGCCAATTCAAGGCCAGCGACATTGG
*
1433997 ACTTAAAGATGGTTAAATTGC
130 ACTTAAAGATGGTTAAAGTGC
* * * *
1434018 CAATGTACTGATTCAAGGCCAACGACATCGATCTTAAAGATCAAGGTGCCAATGTGTTGATTCAA
1 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATGTGATGATTCAA
* * *
1434083 GGCCAACGATATCAGACTTAAAGATGAACGTGCCAATGTGCCGATTCAAGGCCAGCGACATTGGA
66 GGCCAGCGATATCAAACTTAAAGATGAACGTGCCAATGTGCCAATTCAAGGCCAGCGACATTGGA
*
1434148 CTTAAAGATGGTTAAGGTGC
131 CTTAAAGATGGTTAAAGTGC
* *
1434168 CAATGTGTTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATATGATGATTCAA
1 CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATGTGATGATTCAA
1434233 GGCCAGCGATAT
66 GGCCAGCGATAT
1434245 TGGGCTCGTG
Statistics
Matches: 205, Mismatches: 21, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
149 3 0.01
150 202 0.99
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (150 bp):
CAATGTGCTGATTCAAGGCCAACGACATCGGTCTTAAAGATGAAGGTGCCAATGTGATGATTCAA
GGCCAGCGATATCAAACTTAAAGATGAACGTGCCAATGTGCCAATTCAAGGCCAGCGACATTGGA
CTTAAAGATGGTTAAAGTGC
Found at i:1434334 original size:48 final size:48
Alignment explanation
Indices: 1434252--1434343 Score: 130
Period size: 48 Copynumber: 1.9 Consensus size: 48
1434242 TATTGGGCTC
* * *
1434252 GTGCCAATATGCTAATTAAAGGCTAGCAAGATTGGTCTTAAAGGCAAG
1 GTGCCAATATGCTAATTAAAGGCCAACAAGATTGGACTTAAAGGCAAG
* * *
1434300 GTGCCAATATGCTAATTCAAGGCCAACGATATTGGACTTAAAGG
1 GTGCCAATATGCTAATTAAAGGCCAACAAGATTGGACTTAAAGG
1434344 TGCCATAGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.35, C:0.16, G:0.24, T:0.25
Consensus pattern (48 bp):
GTGCCAATATGCTAATTAAAGGCCAACAAGATTGGACTTAAAGGCAAG
Found at i:1434455 original size:33 final size:32
Alignment explanation
Indices: 1434395--1434484 Score: 90
Period size: 34 Copynumber: 2.7 Consensus size: 32
1434385 AAGGTGTGGG
* *
1434395 CTTAAAAGGGAAAAGGGTGCCACGGAGTCATGCA
1 CTTAAAA--GAAAAAGGTGCCATGGAGTCATGCA
** *
1434429 CTTAAAAGAAAAAAGGTGCCATGGAGTTGTGGA
1 CTTAAAAG-AAAAAGGTGCCATGGAGTCATGCA
1434462 CTTTGAAAAGAAAAAGGTGCCAT
1 C-TT-AAAAGAAAAAGGTGCCAT
1434485 TGACTTGTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
32 1 0.02
33 20 0.42
34 22 0.46
35 5 0.10
ACGTcount: A:0.39, C:0.13, G:0.29, T:0.19
Consensus pattern (32 bp):
CTTAAAAGAAAAAGGTGCCATGGAGTCATGCA
Found at i:1434511 original size:28 final size:28
Alignment explanation
Indices: 1434487--1434590 Score: 129
Period size: 28 Copynumber: 3.7 Consensus size: 28
1434477 GGTGCCATTG
1434487 ACTTGTGAGCTTTTGAAGGTTGCCACTA
1 ACTTGTGAGCTTTTGAAGGTTGCCACTA
* * *
1434515 ACTTGTGGGCTTTTGAAGGTTGGCACTG
1 ACTTGTGAGCTTTTGAAGGTTGCCACTA
* * *
1434543 ACTTGTGGGC-TTTGAAAAGATGCCACTA
1 ACTTGTGAGCTTTTG-AAGGTTGCCACTA
*
1434571 ACTTGTGAGCTTTGGAAGGT
1 ACTTGTGAGCTTTTGAAGGT
1434591 GAGGAATGCC
Statistics
Matches: 63, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
27 4 0.06
28 56 0.89
29 3 0.05
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (28 bp):
ACTTGTGAGCTTTTGAAGGTTGCCACTA
Found at i:1434555 original size:56 final size:56
Alignment explanation
Indices: 1434485--1434590 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 56
1434475 AAGGTGCCAT
* * * *
1434485 TGACTTGTGAGCTTTTG-AAGGTTGCCACTAACTTGTGGGCTTTTGAAGGTTGGCAC
1 TGACTTGTGAGC-TTTGAAAAGATGCCACTAACTTGTGAGCTTTGGAAGGTTGGCAC
*
1434541 TGACTTGTGGGCTTTGAAAAGATGCCACTAACTTGTGAGCTTTGGAAGGT
1 TGACTTGTGAGCTTTGAAAAGATGCCACTAACTTGTGAGCTTTGGAAGGT
1434591 GAGGAATGCC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
55 4 0.09
56 40 0.91
ACGTcount: A:0.21, C:0.15, G:0.30, T:0.34
Consensus pattern (56 bp):
TGACTTGTGAGCTTTGAAAAGATGCCACTAACTTGTGAGCTTTGGAAGGTTGGCAC
Found at i:1434991 original size:36 final size:37
Alignment explanation
Indices: 1434954--1435033 Score: 153
Period size: 36 Copynumber: 2.2 Consensus size: 37
1434944 GATGAAGCAC
1434954 AATGCATCATGCAAAATGAAATGTTATGAATGTCACA
1 AATGCATCATGCAAAATGAAATGTTATGAATGTCACA
1434991 AATGC-TCATGCAAAATGAAATGTTATGAATGTCACA
1 AATGCATCATGCAAAATGAAATGTTATGAATGTCACA
1435027 AATGCAT
1 AATGCAT
1435034 GATTGTGGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
36 36 0.86
37 6 0.14
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.28
Consensus pattern (37 bp):
AATGCATCATGCAAAATGAAATGTTATGAATGTCACA
Found at i:1435029 original size:18 final size:18
Alignment explanation
Indices: 1434972--1435030 Score: 50
Period size: 18 Copynumber: 3.3 Consensus size: 18
1434962 ATGCAAAATG
1434972 AAATGTTATGAATGTCAC
1 AAATGTTATGAATGTCAC
* ** *
1434990 AAATGCTCATGCAAAAT--G
1 AAATG-TTATG-AATGTCAC
1435008 AAATGTTATGAATGTCAC
1 AAATGTTATGAATGTCAC
1435026 AAATG
1 AAATG
1435031 CATGATTGTG
Statistics
Matches: 29, Mismatches: 8, Indels: 8
0.64 0.18 0.18
Matches are distributed among these distances:
16 3 0.10
17 4 0.14
18 15 0.52
19 4 0.14
20 3 0.10
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (18 bp):
AAATGTTATGAATGTCAC
Found at i:1436078 original size:9 final size:9
Alignment explanation
Indices: 1436074--1436099 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
1436064 TATTTTTTTC
1436074 TTTTTGTTT
1 TTTTTGTTT
1436083 TTTTTGTTT
1 TTTTTGTTT
1436092 TTTTTGTT
1 TTTTTGTT
1436100 GCTTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
TTTTTGTTT
Found at i:1436083 original size:12 final size:11
Alignment explanation
Indices: 1436066--1436112 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 11
1436056 CTTTTTGCTA
1436066 TTTTTTTCTTT-
1 TTTTTTT-TTTG
1436077 TTGTTTTTTTTG
1 TT-TTTTTTTTG
1436089 TTTTTTTTGTTG
1 TTTTTTTT-TTG
1436101 CTTTTTTTTTTG
1 -TTTTTTTTTTG
1436113 CGAAGGACGC
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
11 11 0.34
12 13 0.41
13 8 0.25
ACGTcount: A:0.00, C:0.04, G:0.11, T:0.85
Consensus pattern (11 bp):
TTTTTTTTTTG
Found at i:1436087 original size:18 final size:18
Alignment explanation
Indices: 1436066--1436111 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
1436056 CTTTTTGCTA
*
1436066 TTTTTTTCTTTTTGTT-T
1 TTTTTTTTTTTTTGTTCT
1436083 TTTTTGTTTTTTTTGTTGCT
1 TTTTT-TTTTTTTTGTT-CT
1436103 TTTTTTTTT
1 TTTTTTTTT
1436112 GCGAAGGACG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 5 0.20
18 10 0.40
19 4 0.16
20 6 0.24
ACGTcount: A:0.00, C:0.04, G:0.09, T:0.87
Consensus pattern (18 bp):
TTTTTTTTTTTTTGTTCT
Found at i:1446256 original size:13 final size:13
Alignment explanation
Indices: 1446238--1446263 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1446228 TACAGCAAGT
1446238 ATGTATCGATACA
1 ATGTATCGATACA
1446251 ATGTATCGATACA
1 ATGTATCGATACA
1446264 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:1449510 original size:52 final size:52
Alignment explanation
Indices: 1449432--1449559 Score: 206
Period size: 52 Copynumber: 2.5 Consensus size: 52
1449422 CGAAATATGA
* *
1449432 AAATTTGCCTGTATGTATCGATACA-TTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTAGGC
*
1449484 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTAGGC
1449536 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
1449560 AAGATCAGTG
Statistics
Matches: 72, Mismatches: 3, Indels: 3
0.92 0.04 0.04
Matches are distributed among these distances:
51 21 0.29
52 46 0.64
53 5 0.07
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTAGGC
Found at i:1449572 original size:51 final size:50
Alignment explanation
Indices: 1449432--1449579 Score: 176
Period size: 52 Copynumber: 2.9 Consensus size: 50
1449422 CGAAATATGA
* *
1449432 AAATTTGCCTGTATGTATCGATACATTTAATAGTGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTAGGC
*
1449484 AAATTTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTAGGC
1449536 AAA-TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
1449580 ATGTATCGAT
Statistics
Matches: 87, Mismatches: 3, Indels: 13
0.84 0.03 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.38
52 45 0.52
53 1 0.01
54 4 0.05
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (50 bp):
AAATTTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTAGGC
Found at i:1449586 original size:13 final size:13
Alignment explanation
Indices: 1449568--1449592 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1449558 CAAAGATCAG
1449568 TGTATCGATACAA
1 TGTATCGATACAA
1449581 TGTATCGATACA
1 TGTATCGATACA
1449593 TTTGAGTAAT
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:1449674 original size:13 final size:13
Alignment explanation
Indices: 1449656--1449680 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1449646 AAAAAAAATA
1449656 TGTATCGATACAT
1 TGTATCGATACAT
1449669 TGTATCGATACA
1 TGTATCGATACA
1449681 ACATTTTATG
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:1453972 original size:15 final size:15
Alignment explanation
Indices: 1453952--1453982 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1453942 TAAAAATGTC
*
1453952 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1453967 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1453982 C
1 C
1453983 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1456081 original size:13 final size:13
Alignment explanation
Indices: 1456063--1456101 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1456053 ACATTTTTCT
1456063 TTGTATCGATACA
1 TTGTATCGATACA
1456076 TTGTATCGATACA
1 TTGTATCGATACA
1456089 TTGTATCGATACA
1 TTGTATCGATACA
1456102 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1458674 original size:13 final size:13
Alignment explanation
Indices: 1458656--1458681 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1458646 TACAGCAAGT
1458656 ATGTATCGATACA
1 ATGTATCGATACA
1458669 ATGTATCGATACA
1 ATGTATCGATACA
1458682 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:1464550 original size:49 final size:49
Alignment explanation
Indices: 1464402--1464857 Score: 459
Period size: 49 Copynumber: 9.1 Consensus size: 49
1464392 GACCAGTGAT
* * ** * * *
1464402 ATTGGGCTTAAAGATGTAAAGAATGCCAATGTGCAAATTCACGGTCAGCGAC
1 ATTGGACTTAAAGATG--AAG-GTGCCAATGTGCTGATTCAAGGCCAACGAC
* * * * * *
1464454 ATTAGACTTGAAGATGAGAAGAATGTCAATGTGCTGATTCAAAGCCAGCGAC
1 ATTGGACTTAAAGAT--GAAG-GTGCCAATGTGCTGATTCAAGGCCAACGAC
** * * *
1464506 ATTGGGTTTAAAGATGAAGGTGCCAATGTGATGATTCAAGGCCAGCGAT
1 ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
*** *
1464555 ATCAAACTTAAAGATGAACGTGCCAATGTGCTGATTCAAGGCCAACGAC
1 ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
*
1464604 ATTGGACTTAAAGATGGTTAAGGTGCCAATTTGCTGATTCAAGGCCAACGAC
1 ATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
* * * *
1464656 ATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAATCAAGGCCAACGAT
1 ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
* *
1464705 ATCGGACTT-AAGATGAACGTGCCAATGTGCTGATTCAAGGCCAACGAC
1 ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
1464753 ATTGGACTTAAAGATGGTTAAGGTGCCAAT-TGCTGATTCAAGGCCAACGAC
1 ATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
* * * * * *
1464804 A-TCGATCTTAGAGATGAAGGTGCCAATATGTTGATTCAAGGCCAGCGAT
1 ATTGGA-CTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
1464853 ATTGG
1 ATTGG
1464858 GCTCGTGCCA
Statistics
Matches: 342, Mismatches: 50, Indels: 26
0.82 0.12 0.06
Matches are distributed among these distances:
48 54 0.16
49 138 0.40
50 12 0.04
51 31 0.09
52 106 0.31
54 1 0.00
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (49 bp):
ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
Found at i:1464569 original size:101 final size:99
Alignment explanation
Indices: 1464402--1464857 Score: 463
Period size: 101 Copynumber: 4.5 Consensus size: 99
1464392 GACCAGTGAT
* * ** * * * * *
1464402 ATTGGGCTTAAAGATGTAAAGAATGCCAATGTGCAAATTCACGGTCAGCGACATTAGACTTGAAG
1 ATTGGACTTAAAGATG--AAG-GTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * * *
1464467 ATGAGAAGAATGTCAATGTGCTGATTCAAAGCCAGCGAC
63 ATG-GAAG-GTGCCAATGTGCTGATTCAAGGCCAACGAC
** * * * ***
1464506 ATTGGGTTTAAAGATGAAGGTGCCAATGTGATGATTCAAGGCCAGCGATATCAAACTTAAAGAT-
1 ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG
*
1464570 GAACGTGCCAATGTGCTGATTCAAGGCCAACGAC
66 GAAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
* *
1464604 ATTGGACTTAAAGATGGTTAAGGTGCCAATTTGCTGATTCAAGGCCAACGACATTGGTCTTAAAG
1 ATTGGACTTAAAGAT-G--AAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAG
* * *
1464669 AT-GAAGGTGCCAATATGCTGAATCAAGGCCAACGAT
63 ATGGAAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
* *
1464705 ATCGGACTT-AAGATGAACGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG
1 ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG
1464769 GTTAAGGTGCCAAT-TGCTGATTCAAGGCCAACGAC
66 G--AAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
* * * * * *
1464804 A-TCGATCTTAGAGATGAAGGTGCCAATATGTTGATTCAAGGCCAGCGATATTGG
1 ATTGGA-CTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1464858 GCTCGTGCCA
Statistics
Matches: 300, Mismatches: 44, Indels: 20
0.82 0.12 0.05
Matches are distributed among these distances:
97 45 0.15
98 42 0.14
99 28 0.09
100 54 0.18
101 113 0.38
102 3 0.01
104 15 0.05
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.24
Consensus pattern (99 bp):
ATTGGACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGACTTAAAGATG
GAAGGTGCCAATGTGCTGATTCAAGGCCAACGAC
Found at i:1464775 original size:149 final size:150
Alignment explanation
Indices: 1464480--1464854 Score: 603
Period size: 149 Copynumber: 2.5 Consensus size: 150
1464470 AGAAGAATGT
* * * *
1464480 CAATGTGCTGATTCAAAGCCAGCGACATTGGGT-TTAAAGATGAAGGTGCCAATGTGATGATTCA
1 CAATTTGCTGATTCAAGGCCAACGACATT-GGTCTTAAAGATGAAGGTGCCAATATGATGATTCA
1464544 AGGCCAGCGATATCAAACTTAAAGATGAACGTGCCAATGTGCTGATTCAAGGCCAACGACATTGG
65 AGGCCAGCGATATCAAACTTAAAGATGAACGTGCCAATGTGCTGATTCAAGGCCAACGACATTGG
1464609 ACTTAAAGATGGTTAAGGTGC
130 ACTTAAAGATGGTTAAGGTGC
* *
1464630 CAATTTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGCTGAATCAA
1 CAATTTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGATGATTCAA
* **
1464695 GGCCAACGATATCGGACTT-AAGATGAACGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGA
66 GGCCAGCGATATCAAACTTAAAGATGAACGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGA
1464759 CTTAAAGATGGTTAAGGTGC
131 CTTAAAGATGGTTAAGGTGC
* * * *
1464779 CAA-TTGCTGATTCAAGGCCAACGACATCGATCTTAGAGATGAAGGTGCCAATATGTTGATTCAA
1 CAATTTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGATGATTCAA
1464843 GGCCAGCGATAT
66 GGCCAGCGATAT
1464855 TGGGCTCGTG
Statistics
Matches: 209, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
148 67 0.32
149 71 0.34
150 71 0.34
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.24
Consensus pattern (150 bp):
CAATTTGCTGATTCAAGGCCAACGACATTGGTCTTAAAGATGAAGGTGCCAATATGATGATTCAA
GGCCAGCGATATCAAACTTAAAGATGAACGTGCCAATGTGCTGATTCAAGGCCAACGACATTGGA
CTTAAAGATGGTTAAGGTGC
Found at i:1464928 original size:87 final size:87
Alignment explanation
Indices: 1464775--1464944 Score: 229
Period size: 87 Copynumber: 2.0 Consensus size: 87
1464765 GATGGTTAAG
* * * *
1464775 GTGCCAATTGCTGATTCAAGGCCAACGACATCGATCTTAGAGATGAAGGTGCCAATATGTTGATT
1 GTGCCAATTGCTGATTAAAGGCCAACAACATCGATCTTAGAGAGGAAGGTGCCAATAAGTTGATT
1464840 CAAGGCCAGCGATATTGGGCTC
66 CAAGGCCAGCGATATTGGGCTC
* * *
1464862 GTGCCAATGTGCTGATTAAAGGCCAGCAACATTGGTCTTA-A-AGGCAAGGTGCCAATAAGCTT-
1 GTGCCAAT-TGCTGATTAAAGGCCAACAACATCGATCTTAGAGAGG-AAGGTGCCAATAAG-TTG
1464924 ATTCAAGGCCAGCGATATTGG
63 ATTCAAGGCCAGCGATATTGG
1464945 ACTTAAAGGT
Statistics
Matches: 73, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
86 2 0.03
87 43 0.59
88 28 0.38
ACGTcount: A:0.29, C:0.20, G:0.26, T:0.25
Consensus pattern (87 bp):
GTGCCAATTGCTGATTAAAGGCCAACAACATCGATCTTAGAGAGGAAGGTGCCAATAAGTTGATT
CAAGGCCAGCGATATTGGGCTC
Found at i:1464933 original size:48 final size:48
Alignment explanation
Indices: 1464862--1464953 Score: 121
Period size: 48 Copynumber: 1.9 Consensus size: 48
1464852 TATTGGGCTC
** *
1464862 GTGCCAATGTGCTGATTAAAGGCCAGCAACATTGGTCTTAAAGGCAAG
1 GTGCCAATAAGCTGATTAAAGGCCAGCAACATTGGACTTAAAGGCAAG
* * * *
1464910 GTGCCAATAAGCTTATTCAAGGCCAGCGATATTGGACTTAAAGG
1 GTGCCAATAAGCTGATTAAAGGCCAGCAACATTGGACTTAAAGG
1464954 TGCCACAGAG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
48 37 1.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (48 bp):
GTGCCAATAAGCTGATTAAAGGCCAGCAACATTGGACTTAAAGGCAAG
Found at i:1464992 original size:34 final size:33
Alignment explanation
Indices: 1464949--1465094 Score: 170
Period size: 34 Copynumber: 4.3 Consensus size: 33
1464939 TATTGGACTT
* *
1464949 AAAGGTGCCACAGAGTTATGGACTT-ATAGGAAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGG-AA
* *
1464982 AAAGGATGCCACAGAGGTGTGGGCTTAAAAGGGAA
1 AAAGG-TGCCACAGAGTTGTGGACTTAAAA-GGAA
** *
1465017 AAAGGTGCCATGGAGTCGTGGACTTAAAAGGAA
1 AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
1465050 AAAGGTGCCACAGAGTTGTGGACTTTGAAAA-GAA
1 AAAGGTGCCACAGAGTTGTGGAC-TT-AAAAGGAA
1465084 AAAGGTGCCAC
1 AAAGGTGCCAC
1465095 TAACCTGTGG
Statistics
Matches: 96, Mismatches: 12, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
33 29 0.30
34 52 0.54
35 13 0.14
36 2 0.02
ACGTcount: A:0.38, C:0.13, G:0.32, T:0.18
Consensus pattern (33 bp):
AAAGGTGCCACAGAGTTGTGGACTTAAAAGGAA
Found at i:1465138 original size:28 final size:28
Alignment explanation
Indices: 1465085--1465172 Score: 124
Period size: 28 Copynumber: 3.2 Consensus size: 28
1465075 TGAAAAGAAA
* *
1465085 AAGG-TGCCACTAACCTGTGGGTTTTTG
1 AAGGTTGCCACTAACTTGTGGGCTTTTG
* *
1465112 AAGGTTGCCACTGACTTGTTGGCTTTTG
1 AAGGTTGCCACTAACTTGTGGGCTTTTG
*
1465140 AAGGTTGCCACTAACTTGTGGGCTTTGG
1 AAGGTTGCCACTAACTTGTGGGCTTTTG
1465168 AAGGT
1 AAGGT
1465173 GAGGAATGCC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
27 4 0.08
28 49 0.92
ACGTcount: A:0.18, C:0.17, G:0.31, T:0.34
Consensus pattern (28 bp):
AAGGTTGCCACTAACTTGTGGGCTTTTG
Found at i:1465575 original size:37 final size:37
Alignment explanation
Indices: 1465534--1465614 Score: 153
Period size: 37 Copynumber: 2.2 Consensus size: 37
1465524 GATGAAGCAC
1465534 AATGCATCATGCAAAATGAAATATTATGAATGTCACA
1 AATGCATCATGCAAAATGAAATATTATGAATGTCACA
*
1465571 AATGCATCATGCAAAATGAAATGTTATGAATGTCACA
1 AATGCATCATGCAAAATGAAATATTATGAATGTCACA
1465608 AATGCAT
1 AATGCAT
1465615 GATTGTGGCA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 43 1.00
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (37 bp):
AATGCATCATGCAAAATGAAATATTATGAATGTCACA
Found at i:1471502 original size:156 final size:156
Alignment explanation
Indices: 1471209--1471559 Score: 400
Period size: 156 Copynumber: 2.2 Consensus size: 156
1471199 ACAACTTTGG
* * * *
1471209 GATATACCTTTGACATAAAAGTATCTCGTTAA-CTCTAAAGGACTTAAAAATGATCATAAATGGG
1 GATATACCTTTGACATGAAAGTATCTCGGTAATC-CTAAAGGACTAAAAAATAATCATAAATGGG
** * * * * **
1471273 ATGAACCTATCCTAAATGCACACCTTTGGCATAAAAGCATCCCAGTGACAACTTAGGACTCGGTT
65 AAAAACCTATCATAAATGCACACCATTAGCATAAAAGCATCCCAGTGAAAACTTAGGACTCCATT
* ** * ** * * **
1471338 TTGGAAAAATTATGAAAATGCCCTTGT
130 CTAAAAAAATAACAAAAATACCCCTAA
** **
1471365 GATATACCTTCAACATGAAAGTATCTCGGTAATCCTAAAGGACTAAAAAATAATTGTAAATGGGA
1 GATATACCTTTGACATGAAAGTATCTCGGTAATCCTAAAGGACTAAAAAATAATCATAAATGGGA
*
1471430 AAAACCTATCATAAATGTACACCATTAGCATAAAAGCATCCCAGTGATAAAC-TAGGACTCCATT
66 AAAACCTATCATAAATGCACACCATTAGCATAAAAGCATCCCAGTGA-AAACTTAGGACTCCATT
1471494 CTAAAAAAATAACAAAAATACCCCTAA
130 CTAAAAAAATAACAAAAATACCCCTAA
* *
1471521 GGTATACCTTTTGACATGAAAGTATCCCGGTAATCCTAA
1 GATATACC-TTTGACATGAAAGTATCTCGGTAATCCTAA
1471560 TAGACACTAA
Statistics
Matches: 161, Mismatches: 31, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
156 130 0.81
157 31 0.19
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (156 bp):
GATATACCTTTGACATGAAAGTATCTCGGTAATCCTAAAGGACTAAAAAATAATCATAAATGGGA
AAAACCTATCATAAATGCACACCATTAGCATAAAAGCATCCCAGTGAAAACTTAGGACTCCATTC
TAAAAAAATAACAAAAATACCCCTAA
Found at i:1473064 original size:19 final size:19
Alignment explanation
Indices: 1473026--1473064 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1473016 TTTTTTTTAG
* *
1473026 ATTTTTTCTTTGTTTAATT
1 ATTTTATCTTTCTTTAATT
*
1473045 ATTTTATCTTTCTTTTATT
1 ATTTTATCTTTCTTTAATT
1473064 A
1 A
1473065 CTTAATCAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.18, C:0.08, G:0.03, T:0.72
Consensus pattern (19 bp):
ATTTTATCTTTCTTTAATT
Found at i:1473766 original size:150 final size:151
Alignment explanation
Indices: 1473385--1473830 Score: 483
Period size: 150 Copynumber: 2.9 Consensus size: 151
1473375 ATTGTTATAT
* * * * * * *
1473385 AAAAACTGCAAAACTCATAAAATGAATTGAATTTT-TACAAACTAATTTAA-GAGAAATTAAATA
1 AAAAATTGTAAAACTCATAAAATAAATTAAATTTTCT--AAACTGATTTAATAAG-AATTAAACA
* * * * *
1473448 AAAATATTTGATGAATTTTACAAATTTTAAAA-TGAGAAAAAT-CTAGCCAAAGAAATTTACGGA
63 ATAATATTTGAAGAATTTTA-AAAATTAAAAACTTAGAAAAATCCTAGCCAAAGAAATTTACGGA
* *
1473511 GTAGAAAACTTTGTATCTTGGAAACAAA
127 GTAAAAAACTCTGTATCTTGG--A-AAA
* * * ** * *
1473539 AAAAATTATAAAACTCATAAAATAAATTGAATTTTTTAAAACTGATAGAATATGAATTAATCAAT
1 AAAAATTGTAAAACTCATAAAATAAATTAAATTTTCT-AAACTGATTTAATAAGAATTAAACAAT
* *
1473604 AATATTTGAAGAATTTTAAAAATTAAAAACTTAGAAAAATCCCA-CCAAAGAAATTTATGGAGTA
65 AATATTTGAAGAATTTTAAAAATTAAAAACTTAGAAAAATCCTAGCCAAAGAAATTTACGGAGTA
*
1473668 AAAAACTCTGTATCTTGG-TAA
130 AAAAACTCTGTATCTTGGAAAA
*
1473689 AAAAATTGTAAAACTCATAAAATAAATTAAAATTTTCTAAACTGATTTAATAAGAATTAAGCAAT
1 AAAAATTGTAAAACTCATAAAATAAATT-AAATTTTCTAAACTGATTTAATAAGAATTAAACAAT
* * * * * *
1473754 AATATTTGAAGAATTTTGAAAATTATAAACTTAGAAAAATCTTATCGAAA-AAATTTACAGAGTA
65 AATATTTGAAGAATTTTAAAAATTAAAAACTTAGAAAAATCCTAGCCAAAGAAATTTACGGAGTA
1473818 AAAAACTCTGTAT
130 AAAAACTCTGTAT
1473831 TTTAAAAATA
Statistics
Matches: 250, Mismatches: 36, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
150 117 0.47
151 11 0.04
153 9 0.04
154 109 0.44
155 4 0.02
ACGTcount: A:0.51, C:0.09, G:0.10, T:0.31
Consensus pattern (151 bp):
AAAAATTGTAAAACTCATAAAATAAATTAAATTTTCTAAACTGATTTAATAAGAATTAAACAATA
ATATTTGAAGAATTTTAAAAATTAAAAACTTAGAAAAATCCTAGCCAAAGAAATTTACGGAGTAA
AAAACTCTGTATCTTGGAAAA
Found at i:1475181 original size:115 final size:114
Alignment explanation
Indices: 1474976--1475203 Score: 359
Period size: 115 Copynumber: 2.0 Consensus size: 114
1474966 GCGAATTAAT
1474976 CCAACTTATCAAATCCCATCCAAAACCAAAAAAAAAAAAATTAATTTAAGTCCGACATGTTCAAT
1 CCAACTTATCAAATCCCATCCAAAACCAAAAAAAAAAAAATTAATTTAAGTCCGACATGTTCAAT
* * * *
1475041 TCATGTTTAACAAGTTATGATAATATCTTTAAACTAAAAGTTATTAAAG
66 TCATATTCAACAAGTTACGACAATATCTTTAAACTAAAAGTTATTAAAG
* *
1475090 CCAACTTATCAAATCCCATCCAAAACCAAAAAAAAATAATAA-TAATTTAAGTCCGACGTGTTCG
1 CCAACTTATCAAATCCCATCCAAAACCAAAAAAAAA-AA-AATTAATTTAAGTCCGACATGTTCA
* *
1475154 ATTCATATTCAACACGTTACGACAATATTTTTAAACTAAAAGTTATTAAA
64 ATTCATATTCAACAAGTTACGACAATATCTTTAAACTAAAAGTTATTAAA
1475204 TGCTAGCTAA
Statistics
Matches: 104, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
114 36 0.35
115 66 0.63
116 2 0.02
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (114 bp):
CCAACTTATCAAATCCCATCCAAAACCAAAAAAAAAAAAATTAATTTAAGTCCGACATGTTCAAT
TCATATTCAACAAGTTACGACAATATCTTTAAACTAAAAGTTATTAAAG
Found at i:1475543 original size:27 final size:24
Alignment explanation
Indices: 1475493--1475544 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 24
1475483 AAGTCTTAAA
*
1475493 ATTTTTTATATAATTTTTTAAATT
1 ATTTTTTATAAAATTTTTTAAATT
1475517 ATTTTATTATAAAATTAATTTTAAATT
1 ATTTT-TTATAAAATT--TTTTAAATT
1475544 A
1 A
1475545 AAATTTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 5 0.21
25 9 0.38
27 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (24 bp):
ATTTTTTATAAAATTTTTTAAATT
Found at i:1476743 original size:33 final size:33
Alignment explanation
Indices: 1476706--1476772 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
1476696 AAATGCACCA
*
1476706 AAGTGCTCA-TCCAT-TCGCTGTGAGAGTGAAGTG
1 AAGTGCTCACT-CATGT-GCTGTGAAAGTGAAGTG
*
1476739 AAGTGCTCACTCATGTGTTGTGAAAGTGAAGTG
1 AAGTGCTCACTCATGTGCTGTGAAAGTGAAGTG
1476772 A
1 A
1476773 TCAACTCTCG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 28 0.93
34 2 0.07
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (33 bp):
AAGTGCTCACTCATGTGCTGTGAAAGTGAAGTG
Found at i:1480042 original size:79 final size:78
Alignment explanation
Indices: 1479827--1480048 Score: 223
Period size: 79 Copynumber: 2.8 Consensus size: 78
1479817 ATAACGGGGC
* * * * *
1479827 TGGAGTAT-CCTCGATTATAGAAAATTGGTGTTTTGAAAATAAAATCGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCT-GATTAT-GAAAATTGATGTTTTGGAAATAAAACCAGGGTTGGAGTATCCCCG
*
1479891 CAAAAATAACGAGGT
64 CAAAAATAAAGAGGT
* * * * * * ** *
1479906 TGGAGTATCCCCGATTGTGAAAAATCGATGCTTTAGAAATGAGGCCAGGATTGGAGTATCCCCGC
1 TGGAGTATCCCTGATTATG-AAAATTGATGTTTTGGAAATAAAACCAGGGTTGGAGTATCCCCGC
*
1479971 GAAAATAAAG-GGAT
65 AAAAATAAAGAGG-T
* *
1479985 TGGAGTATCCCTGATTATGAAGAATTGATGTTTTGGAAATAAAACCCGGGTTAGAGTATCCCCG
1 TGGAGTATCCCTGATTATGAA-AATTGATGTTTTGGAAATAAAACCAGGGTTGGAGTATCCCCG
1480049 AGATGAAAAA
Statistics
Matches: 112, Mismatches: 27, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
78 5 0.04
79 105 0.94
80 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (78 bp):
TGGAGTATCCCTGATTATGAAAATTGATGTTTTGGAAATAAAACCAGGGTTGGAGTATCCCCGCA
AAAATAAAGAGGT
Found at i:1482402 original size:49 final size:50
Alignment explanation
Indices: 1482346--1482479 Score: 180
Period size: 49 Copynumber: 2.7 Consensus size: 50
1482336 AAAAATGTCT
*
1482346 GAATGTATCGATACATTGAAAAATGTATCGATACATATGGGT-AAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATATGGGTGAAACCCA
* * * * *
1482395 GAATGTATCGATATAATGAACAATTTATTGATACATCTGGGTGAAACCCA
1 GAATGTATCGATACAATGAAAAATGTATCGATACATATGGGTGAAACCCA
* * *
1482445 GAATGTATCAATACAATGAATAATGTATCAATACA
1 GAATGTATCGATACAATGAAAAATGTATCGATACA
1482480 AATTGTGAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
49 36 0.50
50 36 0.50
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.28
Consensus pattern (50 bp):
GAATGTATCGATACAATGAAAAATGTATCGATACATATGGGTGAAACCCA
Found at i:1483194 original size:61 final size:59
Alignment explanation
Indices: 1483111--1483884 Score: 608
Period size: 55 Copynumber: 13.4 Consensus size: 59
1483101 ATGAAATGAG
* * * * *
1483111 TCCTGCTCCTTGGGGACTAGAAGGTGCCACCAACTTCTATGGGCTTCACAAGGAGAAAGCA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTA-AAGGA-AAAGCA
* * **
1483172 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAGCTTGTGTAGGCTTTAAAAGGAAAAGGTG
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAA-GCA
* * ** * * *
1483233 TCCTACCCCATGAGGACT-GAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAA-GCA
* * *
1483294 TCTTGCTCTTTGAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT----GAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGCA
* * * * *
1483349 TCCTACTTTTTGAAGACTGGAAGGTGCCACCAACTTGTGTGGGCTTT--A--AAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGCA
* * ** * *
1483404 TCTTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTT----GAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGCA
* *
1483459 TCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGTA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAA-GCA
* * * *
1483520 TCCTGCACTTTAAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTT----GAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGCA
* * * ** * * * *
1483575 TCCTACTCTTTAAGGACTGGAAAATACCACCAACTTATGTGTGCTTTGAAAGGCGAAAGCA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGG-AAAAGCA
* * * *
1483636 TCCGGCTTTTTGAGGACTAGAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCA
1 TCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGA-AAAGCA
* * * *
1483698 TCCTGCTCTTTGAGGACT-GGAGATGCCACCAGCTTGTGTGGGCTTTGAAGG----GCA
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGCA
* * *
1483752 TCCTGCTCTTTGAGGACTTGGAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGG---TG--
1 TCCTGCTCTTTGAGGAC-TAGAAGGTGCCACCAACTTGTGTGGGCTTT-AAAGGAAAAGCA
* ** *
1483807 TCCTGCTCTTTAAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTT----GAAAGGCA
1 TCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGCA
*
1483862 TCCTGCTCTTTGAAGACTA-AAGG
1 TCCTGCTCTTTGAGGACTAGAAGG
1483885 GTGAAAAGAG
Statistics
Matches: 590, Mismatches: 91, Indels: 71
0.78 0.12 0.09
Matches are distributed among these distances:
50 1 0.00
53 2 0.00
54 25 0.04
55 263 0.45
56 14 0.02
57 1 0.00
59 4 0.01
60 31 0.05
61 198 0.34
62 51 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (59 bp):
TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAGGAAAAGCA
Found at i:1483761 original size:348 final size:344
Alignment explanation
Indices: 1483110--1483859 Score: 895
Period size: 348 Copynumber: 2.2 Consensus size: 344
1483100 AATGAAATGA
* * * * * *
1483110 GTCCTGCTCCTTGGGGACTAGAAGGTGCCACCAACTTCTATGGGCTTCACAAGGAGAAAGCATCC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCC
* * * * **
1483175 TGCTCTTTGAGGACTAGAAGGTGCCACCAGCTTGTGTAGGCTTTAAAAGGAAAAGGTGTCCTACC
66 TGCACTTTAAGGACTAGAAGGTGCCACCAACTTATGTAGGCTTT---A-GAAAAGGCATCCTACC
* * * * **
1483240 CCATGAGGACTGAAAAGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCGTCTTGCTCTTT
127 CCATAAGGACTGAAAAGTACCACCAACTTATGTGAGCTTTAAAAGGAAAAGGCATCCGGCTCTTT
* * *
1483305 GAAGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTACTTTTTGAAGACTGGA
192 GAAGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCATCCTACTCTTTGAAGACTGGA
* *
1483370 AGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTCTTTGAGGAC-TGGAAAATGCCAC
257 AGATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTTGG-AAATGCCAC
1483434 CAACTTGTGTGGGCTTTGAAAGGC
321 CAACTTGTGTGGGCTTTGAAAGGC
* *
1483458 GTCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGTATC
1 GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAA-GCATC
* * **
1483522 CTGCACTTTAAGGACTAGAAGGTGCCACCAACTTATGTGGGCTTT-G-AAAGGCATCCTACTCTT
65 CTGCACTTTAAGGACTAGAAGGTGCCACCAACTTATGTAGGCTTTAGAAAAGGCATCCTACCCCA
* * * *
1483585 TAAGGACTGGAAAA-TACCACCAACTTATGTGTGCTTTGAAAGGCGAAA-GCATCCGGCTTTTTG
130 TAAGGACT-GAAAAGTACCACCAACTTATGTGAGCTTTAAAAGG-AAAAGGCATCCGGCTCTTTG
* * * *
1483648 AGGACTAGAAAAGTGCTACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCCTGCTCTTTGAGG
193 AAGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTT-----GA-AAAGCATCCTACTCTTTGAAG
* * *
1483713 ACTGG-AGATGCCACCAGCTTGTGTGGGCTTTGAAGGGCATCCTGCTCTTTGAGGACTTGGAAAT
251 ACTGGAAGATGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTTGGAAAT
*
1483777 GCCACCAACTTGTGTGGGCTTTGAAAGGT
316 GCCACCAACTTGTGTGGGCTTTGAAAGGC
* ** *
1483806 GTCCTGCTCTTTAAGGACT-GAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGG
1 GTCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1483860 CATCCTGCTC
Statistics
Matches: 344, Mismatches: 46, Indels: 24
0.83 0.11 0.06
Matches are distributed among these distances:
342 62 0.18
343 34 0.10
347 4 0.01
348 219 0.64
349 25 0.07
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (344 bp):
GTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAAGCATCC
TGCACTTTAAGGACTAGAAGGTGCCACCAACTTATGTAGGCTTTAGAAAAGGCATCCTACCCCAT
AAGGACTGAAAAGTACCACCAACTTATGTGAGCTTTAAAAGGAAAAGGCATCCGGCTCTTTGAAG
ACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGCATCCTACTCTTTGAAGACTGGAAGAT
GCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGACTTGGAAATGCCACCAACT
TGTGTGGGCTTTGAAAGGC
Found at i:1484931 original size:12 final size:12
Alignment explanation
Indices: 1484904--1484964 Score: 61
Period size: 12 Copynumber: 4.9 Consensus size: 12
1484894 AGCAGGTTCT
* *
1484904 TTTTTTTCTCTC
1 TTTTTTTCTTTG
1484916 TTTTTTTCTTTG
1 TTTTTTTCTTTG
1484928 TTTTGTTT-TTTG
1 TTTT-TTTCTTTG
*
1484940 TTATTTTTTTTTG
1 TT-TTTTTCTTTG
1484953 TTTTTTTGCTTT
1 TTTTTTT-CTTT
1484965 TCTTTAAAAA
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
12 28 0.67
13 14 0.33
ACGTcount: A:0.02, C:0.08, G:0.08, T:0.82
Consensus pattern (12 bp):
TTTTTTTCTTTG
Found at i:1485316 original size:19 final size:18
Alignment explanation
Indices: 1485291--1485355 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
1485281 ATTTCAACGA
1485291 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1485309 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1485325 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1485341 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1485356 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
18 1 0.03
19 24 0.60
ACGTcount: A:0.32, C:0.12, G:0.17, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1485329 original size:32 final size:32
Alignment explanation
Indices: 1485293--1485363 Score: 133
Period size: 32 Copynumber: 2.2 Consensus size: 32
1485283 TTCAACGATT
1485293 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1485325 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1485357 TGTATCG
1 TGTATCG
1485364 CTACGAAGCT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1485330 original size:13 final size:13
Alignment explanation
Indices: 1485312--1485336 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1485302 ACATAAGTGT
1485312 TGTATCGATACAA
1 TGTATCGATACAA
1485325 TGTATCGATACA
1 TGTATCGATACA
1485337 TAAGTTTTGT
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:1485426 original size:13 final size:13
Alignment explanation
Indices: 1485408--1485432 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1485398 ATTACTCAAA
1485408 TGTATCGATACAT
1 TGTATCGATACAT
1485421 TGTATCGATACA
1 TGTATCGATACA
1485433 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:1485485 original size:52 final size:52
Alignment explanation
Indices: 1485441--1485569 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
1485431 CACTGATCTT
1485441 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
* ** *
1485493 TGTATAGATACAAACAGGCAAATTTGCCCAGATGTATCCATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
*
1485545 TGTATCAATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1485570 TCATATTTGG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 69 1.00
ACGTcount: A:0.37, C:0.19, G:0.17, T:0.27
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
Found at i:1491598 original size:19 final size:18
Alignment explanation
Indices: 1491573--1491669 Score: 79
Period size: 19 Copynumber: 5.8 Consensus size: 18
1491563 ATTTCAGCGA
1491573 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
1491591 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
1491607 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
1491623 TGTTGTATCGTTAC--AA-
1 T-TTGTATCGATACATAAG
1491639 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1491655 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1491670 ATGTATCGCT
Statistics
Matches: 62, Mismatches: 4, Indels: 25
0.68 0.04 0.27
Matches are distributed among these distances:
13 20 0.32
15 4 0.06
17 4 0.06
18 1 0.02
19 33 0.53
ACGTcount: A:0.33, C:0.12, G:0.16, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1491616 original size:32 final size:32
Alignment explanation
Indices: 1491575--1491677 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
1491565 TTCAGCGATT
*
1491575 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1491607 TGTATCGATACATAAGTGTTGTATCGTTACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1491639 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1491671 TGTATCG
1 TGTATCG
1491678 CTGGGAAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1491739 original size:13 final size:13
Alignment explanation
Indices: 1491721--1491746 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1491711 CATTTTTCTG
1491721 TGTATCGATACAT
1 TGTATCGATACAT
1491734 TGTATCGATACAT
1 TGTATCGATACAT
1491747 CTATTCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1491764 original size:34 final size:33
Alignment explanation
Indices: 1491701--1491767 Score: 107
Period size: 34 Copynumber: 2.0 Consensus size: 33
1491691 GCCAAGAAAA
*
1491701 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATTATTCTGTGTATCGATACAT
*
1491734 TGTATCGATACATCTATTCTTTGTATCGATACAT
1 TGTATCGATACAT-TATTCTGTGTATCGATACAT
1491768 CTAGGAAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 13 0.42
34 18 0.58
ACGTcount: A:0.25, C:0.16, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATACAT
Found at i:1494222 original size:53 final size:49
Alignment explanation
Indices: 1494104--1494228 Score: 124
Period size: 51 Copynumber: 2.4 Consensus size: 49
1494094 CTCAATTCTC
* * ** * *
1494104 CACAATCGGGGATATTCCCACTCCGATTTTATTTTTAAAACGCTAATTTT
1 CACAATC-GGGATACTCCAACTCCGATTTTATTTAAAAAACACCAATTTT
*
1494154 CTATAATCGGAGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTT
1 C-ACAATCGG-GATACTCCAACTCCGATTTTATTT--AAAAAACACCAA-TTTT
1494208 CACAATCAGGGATACTCCAAC
1 CACAATC-GGGATACTCCAAC
1494229 CCCATTAATC
Statistics
Matches: 61, Mismatches: 8, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
50 3 0.05
51 27 0.44
53 24 0.39
54 7 0.11
ACGTcount: A:0.33, C:0.25, G:0.10, T:0.32
Consensus pattern (49 bp):
CACAATCGGGATACTCCAACTCCGATTTTATTTAAAAAACACCAATTTT
Found at i:1494299 original size:78 final size:80
Alignment explanation
Indices: 1494159--1494309 Score: 216
Period size: 78 Copynumber: 1.9 Consensus size: 80
1494149 ATTTTCTATA
* *
1494159 ATCGGAGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCAGGGATACT
1 ATCGGAGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTTCCACAATCAGGGATACT
1494224 CCAACCCCATTAATC
66 CCAACCCCATTAATC
* * * ** *
1494239 ATCGGGGATACTCCAACCCCGGTTTTATTT-C-TAAAACATTAATTTTCCACAATCGGGGATACT
1 ATCGGAGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTTCCACAATCAGGGATACT
1494302 CCAACCCC
66 CCAACCCC
1494310 GGTTTTATTT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
78 35 0.56
79 1 0.02
80 27 0.43
ACGTcount: A:0.32, C:0.29, G:0.11, T:0.28
Consensus pattern (80 bp):
ATCGGAGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTTCCACAATCAGGGATACT
CCAACCCCATTAATC
Found at i:1494315 original size:51 final size:52
Alignment explanation
Indices: 1494239--1494411 Score: 215
Period size: 51 Copynumber: 3.3 Consensus size: 52
1494229 CCCATTAATC
**
1494239 ATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACATTAATTTTCCACA
1 ATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAAACACCAATTTTCCACA
* **
1494290 ATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCTTTA
1 ATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAAACACCAATTTTCC-ACA
* *** *
1494342 ATCGGGGATACTCCAACTCAAATTTTATTTCTAAAAACACCAATTTTTCACA
1 ATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAAACACCAATTTTCCACA
* *
1494394 ATTGAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
1494412 TCGTTATTTC
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
50 1 0.01
51 44 0.42
52 43 0.41
53 16 0.15
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (52 bp):
ATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAAACACCAATTTTCCACA
Found at i:1494368 original size:52 final size:51
Alignment explanation
Indices: 1494239--1494411 Score: 204
Period size: 52 Copynumber: 3.4 Consensus size: 51
1494229 CCCATTAATC
**
1494239 ATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATTAATTTTCCACA
1 ATCGGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTCCACA
**
1494290 ATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTA
1 ATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCC-ACA
* *** * *
1494342 ATCGGGGATACTCCAACTCAAATTTTATTTCTAAAAACACCAATTTTTCACA
1 ATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTTCCACA
* *
1494394 ATTGAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
1494412 TCGTTATTTC
Statistics
Matches: 104, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
51 41 0.39
52 47 0.45
53 16 0.15
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCACA
Found at i:1494409 original size:182 final size:183
Alignment explanation
Indices: 1494097--1494442 Score: 500
Period size: 182 Copynumber: 1.9 Consensus size: 183
1494087 TGAGTTTCTC
* * * * * *
1494097 AATTCTCCACAATCGGGGATATTCCCACTCCGATTTTATTTTTAAAACGCTAATTTTCTATAATC
1 AATTCTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATC
**
1494162 GGAGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCAGGGATACTCCA
66 GGAGATACTCCAACTCAAATTTTATTTCCAAAAAACACCAATTTTTCACAATCAGGGATACTCCA
1494227 ACCCCATTA-ATCATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATT
131 ACCCCATTATATCATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATT
* * *
1494279 AATTTTCCACAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAAT
1 AATTCTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTT-CTATAAT
* * *
1494344 CGGGGATACTCCAACTCAAATTTTATTT-CTAAAAACACCAATTTTTCACAAT-TGAGGATACTC
65 CGGAGATACTCCAACTCAAATTTTATTTCCAAAAAACACCAATTTTTCACAATCAG-GGATACTC
* * *
1494407 CAACCTCGTTATTTCATCGGGGATACTCCAACCCCG
129 CAACCCCATTATATCATCGGGGATACTCCAACCCCG
1494443 TTACCTCCGA
Statistics
Matches: 144, Mismatches: 17, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
181 1 0.01
182 89 0.62
183 54 0.38
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (183 bp):
AATTCTCCACAATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCTATAATC
GGAGATACTCCAACTCAAATTTTATTTCCAAAAAACACCAATTTTTCACAATCAGGGATACTCCA
ACCCCATTATATCATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATT
Found at i:1494573 original size:79 final size:79
Alignment explanation
Indices: 1494424--1494628 Score: 218
Period size: 79 Copynumber: 2.6 Consensus size: 79
1494414 GTTATTTCAT
**
1494424 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
* * *
1494489 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * ** **
1494503 TGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAATCCCGATG-TTT-TTTTC-TGAT
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG--GCTTTATTCCCAAAAT
1494565 CATCGATTTCTCACAAC
64 -ATCGATTTCTCACAAC
* * * * *
1494582 CGGGGATACTCCAGCCCCGTCATTTTCAAGGGGACACTCCAACCCCG
1 CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG
1494629 TTATTATCTC
Statistics
Matches: 105, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
78 2 0.02
79 99 0.94
80 3 0.03
81 1 0.01
ACGTcount: A:0.23, C:0.32, G:0.19, T:0.27
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:1508110 original size:55 final size:54
Alignment explanation
Indices: 1507801--1509064 Score: 1430
Period size: 55 Copynumber: 22.4 Consensus size: 54
1507791 CTCCTTCCGT
* * *
1507801 TTTTTAGTCCTCAAAGAGCAGGACGCCTATTTTTTAAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACACC-----TTTCAAAGCCCACACAAGTTGGTGGCA
*
1507860 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCG
1 TTTT-CAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCA
** * * * *
1507920 CCTTCAGTCCTCAAAAAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCA
** * * *
1507979 CCTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCATACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1508039 CCTTTT-AGTCCCCAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 --TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1508094 TTTTCCAATCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1508149 TTTTCCAGTCCTCAAAGAGTAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
** *
1508204 CCTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCA
** ** * *
1508263 CCTTCAGTCCTCAAAGAGTGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCA
** * * * *
1508322 CCTTCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCATACAAGTTGGTGGCA
1 TTTTCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
1508382 CCTTTT-AGTCCCTAAAAAGAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 --TTTTCAGT-CCT-CAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1508439 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1508494 TTTTCCAGTCCTCAAAGAGTAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
1508549 CCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1508604 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
1508659 CCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1508714 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
1508769 CCTTTCAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1508824 TTTTCTAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTTC-AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* *
1508879 CCTTTT-AGTCCCCAAAGAGAAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 --TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1508934 TTTTCCAGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCA
1 TTTT-CAGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA
* * * *
1508989 CCTTTCAGTCCTCAAATAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
1509044 CTTTTTAGTCCTCAAAGAGCA
1 -TTTTCAGTCCTCAAAGAGCA
1509065 TGATACACTT
Statistics
Matches: 1074, Mismatches: 76, Indels: 114
0.85 0.06 0.09
Matches are distributed among these distances:
53 8 0.01
54 44 0.04
55 644 0.60
56 32 0.03
57 34 0.03
59 175 0.16
60 87 0.08
61 23 0.02
62 7 0.01
63 10 0.01
64 8 0.01
65 2 0.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (54 bp):
TTTTCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:1509847 original size:21 final size:21
Alignment explanation
Indices: 1509818--1509894 Score: 118
Period size: 21 Copynumber: 3.7 Consensus size: 21
1509808 TATATATCCA
* *
1509818 AATGCATCGATACATTTGTAG
1 AATGTATCGATACATTTGTGG
1509839 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
*
1509860 AATGTATTGATACATTTGTGG
1 AATGTATCGATACATTTGTGG
*
1509881 AATGTATTGATACA
1 AATGTATCGATACA
1509895 GTCTACAAAT
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (21 bp):
AATGTATCGATACATTTGTGG
Found at i:1509906 original size:42 final size:42
Alignment explanation
Indices: 1509816--1509913 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
1509806 AATATATATC
* * *
1509816 CAAATGCATCGATACATTTGTAGAATGTATCGATACATTTGT
1 CAAATGTATCGATACATTTGTAGAATGTATCGATACATCTGA
** * * *
1509858 GGAATGTATTGATACATTTGTGGAATGTATTGATACAGTCT-A
1 CAAATGTATCGATACATTTGTAGAATGTATCGATACA-TCTGA
1509900 CAAATGTATCGATA
1 CAAATGTATCGATA
1509914 TAGGGTCCTA
Statistics
Matches: 44, Mismatches: 11, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
42 42 0.95
43 2 0.05
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.36
Consensus pattern (42 bp):
CAAATGTATCGATACATTTGTAGAATGTATCGATACATCTGA
Found at i:1509976 original size:19 final size:18
Alignment explanation
Indices: 1509951--1510047 Score: 97
Period size: 19 Copynumber: 5.8 Consensus size: 18
1509941 ATTTCAACGA
1509951 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1509969 TGTTGTATCGAT--ATAA-
1 T-TTGTATCGATACATAAG
1509985 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1510001 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1510017 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1510033 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1510048 ATGTATCGCT
Statistics
Matches: 66, Mismatches: 0, Indels: 25
0.73 0.00 0.27
Matches are distributed among these distances:
13 20 0.30
15 6 0.09
17 6 0.09
18 1 0.02
19 33 0.50
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1509989 original size:32 final size:32
Alignment explanation
Indices: 1509953--1510055 Score: 188
Period size: 32 Copynumber: 3.2 Consensus size: 32
1509943 TTCAACGATT
*
1509953 TGTATCGATACATAAGTGTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1509985 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1510017 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1510049 TGTATCG
1 TGTATCG
1510056 CTAGGAAGCT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 69 1.00
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1510027 original size:13 final size:13
Alignment explanation
Indices: 1509972--1510028 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1509962 ACATAAGTGT
*
1509972 TGTATCGATATAA
1 TGTATCGATACAA
1509985 TGTATCGATACATAA
1 TGTATCGATAC--AA
1510000 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
1510017 TGTATCGATACA
1 TGTATCGATACA
1510029 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1510142 original size:34 final size:33
Alignment explanation
Indices: 1510079--1510142 Score: 101
Period size: 34 Copynumber: 1.9 Consensus size: 33
1510069 GCTAAGGAAA
*
1510079 TGTATCGATACATTTTTCTGTGTATCGATATAT
1 TGTATCGATACATTATTCTGTGTATCGATATAT
*
1510112 TGTATCGATACATCTATTCTTTGTATCGATA
1 TGTATCGATACAT-TATTCTGTGTATCGATA
1510143 CATCTAGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 13 0.46
34 15 0.54
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.47
Consensus pattern (33 bp):
TGTATCGATACATTATTCTGTGTATCGATATAT
Found at i:1512692 original size:78 final size:80
Alignment explanation
Indices: 1512552--1512700 Score: 212
Period size: 78 Copynumber: 1.9 Consensus size: 80
1512542 ATTTTCTATA
* *
1512552 ATCGGAGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCAGGGATACT
1 ATCGGAGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTTCCACAATCAGGGATACT
1512617 CCAACCACGTTAATC
66 CCAACCACGTTAATC
* * * ** *
1512632 ATCGGGGATACTCCAACCCCGGTTTTATTT-C-TAAAACATTAATTTTCCACAATCGGGGATACT
1 ATCGGAGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTTCCACAATCAGGGATACT
1512695 CCAACC
66 CCAACC
1512701 CTGGTTTTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
78 33 0.54
79 1 0.02
80 27 0.44
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.28
Consensus pattern (80 bp):
ATCGGAGATACTCCAACCCCGATTTTATTTCCAAAAAACACCAATTTTCCACAATCAGGGATACT
CCAACCACGTTAATC
Found at i:1512708 original size:51 final size:50
Alignment explanation
Indices: 1512632--1512804 Score: 186
Period size: 51 Copynumber: 3.4 Consensus size: 50
1512622 CACGTTAATC
*
1512632 ATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATTAATTTTCCACA
1 ATCGGGGATACTCCAA-CCCGGTTTTATTTCTAAAACACTAATTTTCCACA
**
1512683 ATCGGGGATACTCCAACCCTGGTTTTATTT-TCAAAACACTAATTTTCCTTTA
1 ATCGGGGATACTCCAACCC-GGTTTTATTTCT-AAAACACTAATTTTCC-ACA
** * * *
1512735 ATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAATTTTTCACA
1 ATCGGGGATACTCCAAC-CCGGTTTTATTT-CTAAAACACTAATTTTCCACA
***
1512787 ATTAAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
1512805 TCGTTATTTC
Statistics
Matches: 103, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
50 4 0.04
51 42 0.41
52 41 0.40
53 16 0.16
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (50 bp):
ATCGGGGATACTCCAACCCGGTTTTATTTCTAAAACACTAATTTTCCACA
Found at i:1512761 original size:52 final size:51
Alignment explanation
Indices: 1512632--1512804 Score: 188
Period size: 52 Copynumber: 3.4 Consensus size: 51
1512622 CACGTTAATC
* *
1512632 ATCGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAACATTAATTTTCCACA
1 ATCGGGGATACTCCAA-CCCGGTTTTATTTTCAAAAACACTAATTTTCCACA
**
1512683 ATCGGGGATACTCCAACCCTGGTTTTATTTTC-AAAACACTAATTTTCCTTTA
1 ATCGGGGATACTCCAACCC-GGTTTTATTTTCAAAAACACTAATTTTCC-ACA
** * * *
1512735 ATCGGGGATACTCCAACTCCAATTTTATTTCCAAAAACACCAATTTTTCACA
1 ATCGGGGATACTCCAAC-CCGGTTTTATTTTCAAAAACACTAATTTTCCACA
***
1512787 ATTAAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
1512805 TCGTTATTTC
Statistics
Matches: 104, Mismatches: 13, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
50 3 0.03
51 39 0.38
52 46 0.44
53 16 0.15
ACGTcount: A:0.31, C:0.25, G:0.10, T:0.33
Consensus pattern (51 bp):
ATCGGGGATACTCCAACCCGGTTTTATTTTCAAAAACACTAATTTTCCACA
Found at i:1512802 original size:182 final size:183
Alignment explanation
Indices: 1512490--1512835 Score: 534
Period size: 182 Copynumber: 1.9 Consensus size: 183
1512480 TGAGTTTCTC
* * * *
1512490 AATTCTCCACAATCGAGGATATTCCCACTCTGATTTTATTTTCAAAACGCTAATTTTCTATAATC
1 AATTCTCCACAATCGAGGATACTCCAACCCTGATTTTATTTTCAAAACACTAATTTTCTATAATC
* *
1512555 GGAGATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTTTCACAATCAGGGATACTCCA
66 GGAGATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTTTCACAATCAAGGATACTCCA
*
1512620 ACCACGTTA-ATCATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATT
131 ACCACGTTATATCATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAACATT
* * * *
1512672 AATTTTCCACAATCGGGGATACTCCAACCCTGGTTTTATTTTCAAAACACTAATTTTCCTTTAAT
1 AATTCTCCACAATCGAGGATACTCCAACCCTGATTTTATTTTCAAAACACTAATTTT-CTATAAT
* *
1512737 CGGGGATACTCCAACTCCAATTTTATTTCC-AAAAACACCAATTTTTCACAATTAAGGATACTCC
65 CGGAGATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTTTCACAATCAAGGATACTCC
* *
1512801 AACCTCGTTATTTCATCGAGGATACTCCAACCCCG
130 AACCACGTTATATCATCGAGGATACTCCAACCCCG
1512836 TTACCTCCGA
Statistics
Matches: 147, Mismatches: 15, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
182 91 0.62
183 56 0.38
ACGTcount: A:0.31, C:0.26, G:0.10, T:0.32
Consensus pattern (183 bp):
AATTCTCCACAATCGAGGATACTCCAACCCTGATTTTATTTTCAAAACACTAATTTTCTATAATC
GGAGATACTCCAACTCCAATTTTATTTCCAAAAAACACCAATTTTTCACAATCAAGGATACTCCA
ACCACGTTATATCATCGAGGATACTCCAACCCCGGTTTTATTTCTAAAACATT
Found at i:1527319 original size:19 final size:18
Alignment explanation
Indices: 1527295--1527357 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1527285 AAATAGAAAA
1527295 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
1527314 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
1527327 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1527346 TGTATCGATACA
1 TGTATCGATACA
1527358 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1527332 original size:13 final size:13
Alignment explanation
Indices: 1527314--1527426 Score: 68
Period size: 13 Copynumber: 7.9 Consensus size: 13
1527304 ACATAAGTGT
1527314 TGTATCGATACAA
1 TGTATCGATACAA
1527327 TGTATCGATACATAA
1 TGTATCGATAC--AA
1527342 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
1527359 TGTATCGCTACGAA
1 TGTATCGATAC-AA
* *
1527373 -GCTACTGCCA-AGGAA
1 TG-TA-T-CGATA-CAA
*
1527388 ATGTATCGATACAT
1 -TGTATCGATACAA
1527402 TGTATCGATACAA
1 TGTATCGATACAA
1527415 TGTATCGATACA
1 TGTATCGATACA
1527427 TCGATCTTTG
Statistics
Matches: 78, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
13 46 0.59
14 7 0.09
15 8 0.10
16 3 0.04
17 3 0.04
19 11 0.14
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1527334 original size:32 final size:32
Alignment explanation
Indices: 1527293--1527365 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1527283 ACAAATAGAA
1527293 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
1527325 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
1527357 AATGTATCG
1 AATGTATCG
1527366 CTACGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:1529885 original size:52 final size:52
Alignment explanation
Indices: 1529778--1529899 Score: 174
Period size: 52 Copynumber: 2.3 Consensus size: 52
1529768 ATTTCTTATG
**
1529778 ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTTTA
1 ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTACA
* * *
1529830 ATCGGGGATACTCTAACTCCGATTTTATTTTCAAAAACACCAATTTTTC-ACA
1 ATCGGGGATACTCCAACCCCGATTTTATTTTC-AAAACACCAATTTTCCTACA
*
1529882 ATCGAGGATACTCCAACC
1 ATCGGGGATACTCCAACC
1529900 TCGTTATTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 46 0.75
53 15 0.25
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (52 bp):
ATCGGGGATACTCCAACCCCGATTTTATTTTCAAAACACCAATTTTCCTACA
Found at i:1530019 original size:79 final size:79
Alignment explanation
Indices: 1529917--1530145 Score: 237
Period size: 79 Copynumber: 2.9 Consensus size: 79
1529907 TTCATCGGGA
** *
1529917 ATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATATTGATT
1 ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTGATT
** **
1529982 TCTCTTAATTAGGG
66 TCTCACAACCAGGG
* * * * * *
1529996 ATACTTCAGCCCCGTTATTTCCGAGGGGATACTCCAATCCCGATTTTATTTCC-TAATCATCGAT
1 ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAAT-ATTGAT
* *
1530060 TTTTCACAACCGGGG
65 TTCTCACAACCAGGG
* * * * *
1530075 ATACTCCAACCCCGTTATTTTCAAAGGGATACTCCAACCCC-GTTATTATCTCCAAAATATTAAA
1 ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT-TTATTTCCAAAATATT-GA
1530139 TTTCTCA
64 TTTCTCA
1530146 TCGAGACATA
Statistics
Matches: 119, Mismatches: 27, Indels: 7
0.78 0.18 0.05
Matches are distributed among these distances:
78 5 0.04
79 104 0.87
80 10 0.08
ACGTcount: A:0.27, C:0.28, G:0.13, T:0.32
Consensus pattern (79 bp):
ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATATTGATT
TCTCACAACCAGGG
Found at i:1536520 original size:124 final size:123
Alignment explanation
Indices: 1536263--1536655 Score: 560
Period size: 124 Copynumber: 3.2 Consensus size: 123
1536253 TCTTTTAGCC
* * *
1536263 CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACATAAGTTGGTGGCACCC
1 CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
* * * * * *
1536328 TTTAGTCCTCAAGGAGCAGGGCGCCTTCT-CTTTCAAAGCCCATACGATTTGGTGGCA
66 TTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1536385 CTTCTCCAGTCCTCAAAAAACAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CTTCT--AGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCAC
* * *
1536450 TTTTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
64 -CTTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
**
1536511 CCTT-TAGTCCTCAAAGAGCAGGATGCC--TTTTCCCTTTAAAGCCCACACAAGTTGGTGGCACC
1 -CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACC
*
1536573 TTTTAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
65 TTTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1536632 CTTCCTAGTCCTCAAAGAGCAGGA
1 CTT-CTAGTCCTCAAAGAGCAGGA
1536656 CGCTCTCTCC
Statistics
Matches: 242, Mismatches: 22, Indels: 14
0.87 0.08 0.05
Matches are distributed among these distances:
120 3 0.01
121 56 0.23
122 56 0.23
124 74 0.31
125 25 0.10
126 25 0.10
127 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (123 bp):
CTTCTAGTCCTCAAAGAGCAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCACCT
TTTAGTCCTCAAAGAGCAGGACGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1536549 original size:60 final size:60
Alignment explanation
Indices: 1536262--1536658 Score: 476
Period size: 61 Copynumber: 6.4 Consensus size: 60
1536252 CTCTTTTAGC
* *
1536262 CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTTTCTTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTT-TAGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * * * * *
1536325 CCCTTTAGTCCTCAAGGAGCAGGGCGCCTTCT-CTTTCAAAGCCCATACGATTTGGTGGCA
1 -CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* * * *
1536385 -CTTCTCCAGTCCTCAAAAAACAGGATGCCTTTTTTCTTTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTT-T--AGTCCTCAAAGAGCAGGACGCC--TTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1536449 CTTTTTTAGTCCTCAAAGAGCAGGACACCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 C--CTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1536511 CCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCCTTTAAAGCCCACACAAGTTGGTGGCA
1 CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
* *
1536571 CCTTTTAGTCCTCAAAGAGCAGGATGCCTTCTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1 CC-TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
1536632 -CTTCCTAGTCCTCAAAGAGCAGGACGC
1 CCTT--TAGTCCTCAAAGAGCAGGACGC
1536659 TCTCTCCTTT
Statistics
Matches: 288, Mismatches: 33, Indels: 27
0.83 0.09 0.08
Matches are distributed among these distances:
58 3 0.01
59 3 0.01
60 80 0.28
61 97 0.34
62 33 0.11
63 24 0.08
64 45 0.16
66 1 0.00
67 2 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (60 bp):
CCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA
Found at i:1536759 original size:217 final size:208
Alignment explanation
Indices: 1536482--1536869 Score: 575
Period size: 217 Copynumber: 1.8 Consensus size: 208
1536472 GACACCTTTT
*
1536482 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGATGCCTTTTCCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTT-CCTT
* *
1536547 T-AAAGCCCACACAAGTTGGTGGCACCTTTT-AGTCCTCAAAGAGCAGGATGCCTTCTCCTTTTA
65 TCAAAGCCCACACAAGTTGGTGGCA--TTTTCAGTCCTCAAAGAGCAGG--G-C-GCT--TTTCA
*
1536610 AAGCCCACACAAGTTGGTGGCA-CTTCCTAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCT
122 AAGCCCACACAAGTTGGGGGCACCTTCC-AGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCT
1536674 TTTTGTCCTCAAAGAACAGGATG
186 TTTTGTCCTCAAAGAACAGGATG
* *
1536697 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAAGAGCGGGACGCCTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCCT
1536762 TTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCC
64 TTCAAAGCCCACACAAGTTGGTGGCATTTT-CAGTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCC
*
1536827 ACACAAGTTGGGGGCACCTTTCAGTCCTCAAAGAGCAGGACGC
128 ACACAAGTTGGGGGCACCTTCCAGTCCTCAAAGAGCAGGACGC
1536870 CTTTTAAAGC
Statistics
Matches: 160, Mismatches: 7, Indels: 16
0.87 0.04 0.09
Matches are distributed among these distances:
211 46 0.29
212 4 0.03
213 2 0.01
214 1 0.01
215 35 0.22
216 7 0.04
217 65 0.41
ACGTcount: A:0.24, C:0.29, G:0.21, T:0.26
Consensus pattern (208 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTT
CAAAGCCCACACAAGTTGGTGGCATTTTCAGTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACA
CAAGTTGGGGGCACCTTCCAGTCCTCAAAGAGCAGGACGCTCTCTCCTTTCGCCTTTTTGTCCTC
AAAGAACAGGATG
Found at i:1536852 original size:55 final size:54
Alignment explanation
Indices: 1536678--1537262 Score: 532
Period size: 55 Copynumber: 10.3 Consensus size: 54
1536668 TCGCCTTTTT
*
1536678 GTCCTCAAAGAACAGGATGC-CTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTA
1 GTCCTCAAAGAGCAGG--GCGCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTC-A
1536734 GTCCTCAAAGAGC-GGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGG-CG-C---T--TTTCAAAGCCCACACAAGTTGGTGGCATTTT-CA
* *
1536795 GTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACACAAGTTGGGGGCACCTTTCA
1 GTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCA
* **
1536850 GTCCTCAAAGAGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCCCA
1 GTCCTCAAAGAGCAGGGCG-CTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCA
* * * * *
1536905 ATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCTA
1 GTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTC-A
* **
1536960 GTCCTCAAAGAGCAGGGCACTTTTCAAAGCCCACATGAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CA
* * * *
1537015 GTCCTCAAAAAGCAGGACGCCTCTT-AAAGCCCACGCAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGGCG-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CA
* * * * * *
1537070 GTCCTCAAAAAGCAAGACGTTTTTCAAAGCCCGCATAAGTTGGTGGCATTTTCCA
1 GTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACACAAGTTGGTGGCATTTT-CA
* * * *
1537125 GTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACGAGTTGGTGGCACCTTCCA
1 GTCCTCAAAGAGCAGG--GC--GCT-TTT-CAAAGCCCACACAAGTTGGTGGCA-TTTTCA
* *** *
1537186 GTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAAAGCCCACGTGAGTTGGTGGCACTTTTTA
1 GTCCTCAAAGAGCAGG--G-C---GCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCA
1537247 GTCCTCAAAGAGCAGG
1 GTCCTCAAAGAGCAGG
1537263 ATGCACTTTA
Statistics
Matches: 452, Mismatches: 50, Indels: 49
0.82 0.09 0.09
Matches are distributed among these distances:
53 1 0.00
54 11 0.02
55 263 0.58
56 26 0.06
57 2 0.00
59 2 0.00
60 4 0.01
61 106 0.23
62 33 0.07
63 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (54 bp):
GTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCA
Found at i:1536911 original size:110 final size:111
Alignment explanation
Indices: 1536678--1537262 Score: 614
Period size: 110 Copynumber: 5.1 Consensus size: 111
1536668 TCGCCTTTTT
*
1536678 GTCCTCAAAGAACAGGATGC-CTTTT-AAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCA
1 GTCCTCAAAGAGCAGG--GCGCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCA
*
1536741 AAGAGCGGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
63 AAGAGCAGGACGCC---T--TTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* *
1536795 GTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACACAAGTTGGGGGCACCTTTCAGTCCTCAAAG
1 GTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG
* *
1536860 AGCAGGACGCCTTTT-AAAGCCCACACAAGTTGGTGGCACTTCCCA
66 AGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* * * * *
1536905 ATCCTCAAAGAGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA-TTTTCTAGTCCTCAAA
1 GTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTC-AGTCCTCAAA
**
1536969 GAGCAGG--GCACTTTTCAAAGCCCACATGAGTTGGTGGCATTTTCCA
65 GAGCAGGACGC-CTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* * * *
1537015 GTCCTCAAAAAGCAGGACGCCTCTT-AAAGCCCACGCAAGTTGGTGGCA-TTTTCCAGTCCTCAA
1 GTCCTCAAAGAGCAGGGCG-CTTTTCAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAA
* * * * *
1537078 AAAGCAAGACG-TTTTTCAAAGCCCGCATAAGTTGGTGGCATTTTCCA
64 AGAGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
* * * *
1537125 GTCCTCAAAGAGCAGGATGCTTTCTCTTTGCAAAGCCCACACGAGTTGGTGGCACCTTCCAGTCC
1 GTCCTCAAAGAGCAGG--GC--GCT-TTT-CAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCC
*** *
1537190 TCAAAGAGCAGGACGCCTTTCCTTTTCAAAGCCCACGTGAGTTGGTGGCACTTTT-TA
60 TCAAAGAGCAGGACG-----CCTTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCA
1537247 GTCCTCAAAGAGCAGG
1 GTCCTCAAAGAGCAGG
1537263 ATGCACTTTA
Statistics
Matches: 400, Mismatches: 44, Indels: 43
0.82 0.09 0.09
Matches are distributed among these distances:
108 2 0.00
109 9 0.02
110 217 0.54
111 7 0.02
112 2 0.00
113 3 0.01
114 2 0.00
115 2 0.00
116 66 0.17
117 44 0.11
122 42 0.10
123 4 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (111 bp):
GTCCTCAAAGAGCAGGGCGCTTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAG
AGCAGGACGCCTTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCA
Found at i:1536969 original size:165 final size:165
Alignment explanation
Indices: 1536678--1537263 Score: 706
Period size: 165 Copynumber: 3.4 Consensus size: 165
1536668 TCGCCTTTTT
* * *
1536678 GTCCTCAAAGAACAGGATGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCCTCAAA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCCAGTCCTCAAA
*
1536743 GAGCGGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
65 GAGCAGGACG------CCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGC
* * *
1536808 AGGGCGCTTTTCAAAGCCCACACAAGTTGGGGGCACCTTTCA
124 AGGGCACTTTTCAAAGCCCACACGAGTTGGTGGCACCTTTCA
* *
1536850 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTCCCAATCCTCAAAG
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAG
* * *
1536915 AGTAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCATTTTCTAGTCCTCAAAGAGCAGGGCAC
66 AGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGGCAC
* *
1536980 TTTTCAAAGCCCACATGAGTTGGTGGCA-TTTTCCA
131 TTTTCAAAGCCCACACGAGTTGGTGGCACCTTT-CA
* * * * *
1537015 GTCCTCAAAAAGCAGGACGCCTCTTAAAGCCCACGCAAGTTGGTGGCATTTTCCAGTCCTCAAAA
1 GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAG
* ** * *
1537080 AGCAAGACGTTTTTCAAAGCCCGCATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGATGC
66 AGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGG--GC
* *
1537145 TTTCTCTTTGCAAAGCCCACACGAGTTGGTGGCACCTTCCA
129 --ACT-TTT-CAAAGCCCACACGAGTTGGTGGCACCTTTCA
*** **
1537186 GTCCTCAAAGAGCAGGACGCCTTTCCTTTTCAAAGCCCACGTGAGTTGGTGGCACTTTTTAGTCC
1 GTCCTCAAAGAGCAGGACG-----CCTTTT-AAAGCCCACACAAGTTGGTGGCACTTTCCAGTCC
1537251 TCAAAGAGCAGGA
60 TCAAAGAGCAGGA
1537264 TGCACTTTAT
Statistics
Matches: 358, Mismatches: 42, Indels: 23
0.85 0.10 0.05
Matches are distributed among these distances:
164 3 0.01
165 191 0.53
167 2 0.01
169 2 0.01
170 3 0.01
171 63 0.18
172 49 0.14
176 5 0.01
177 40 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (165 bp):
GTCCTCAAAGAGCAGGACGCCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCTCAAAG
AGCAGGACGCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGGCAC
TTTTCAAAGCCCACACGAGTTGGTGGCACCTTTCA
Found at i:1538080 original size:19 final size:19
Alignment explanation
Indices: 1538056--1538117 Score: 63
Period size: 19 Copynumber: 3.2 Consensus size: 19
1538046 TTTTGAATTT
1538056 CAAACAGTTTGTATCGATA
1 CAAACAGTTTGTATCGATA
**
1538075 CAAACAGAAAATGTATCGATA
1 CAAACAG--TTTGTATCGATA
*
1538096 CATA-AGTGTTGTATCGATA
1 CAAACAGT-TTGTATCGATA
1538115 CAA
1 CAA
1538118 TGTATCGATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
19 19 0.56
20 2 0.06
21 13 0.38
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (19 bp):
CAAACAGTTTGTATCGATA
Found at i:1538123 original size:13 final size:13
Alignment explanation
Indices: 1538105--1538217 Score: 68
Period size: 13 Copynumber: 7.9 Consensus size: 13
1538095 ACATAAGTGT
1538105 TGTATCGATACAA
1 TGTATCGATACAA
1538118 TGTATCGATACATAA
1 TGTATCGATAC--AA
1538133 GTTTTGTATCGATACAA
1 ----TGTATCGATACAA
*
1538150 TGTATCGCTACGAA
1 TGTATCGATAC-AA
* *
1538164 -GCTACTGCCA-AGGAA
1 TG-TA-T-CGATA-CAA
*
1538179 ATGTATCGATACAT
1 -TGTATCGATACAA
1538193 TGTATCGATACAA
1 TGTATCGATACAA
1538206 TGTATCGATACA
1 TGTATCGATACA
1538218 TCGATCTTTG
Statistics
Matches: 78, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
13 46 0.59
14 7 0.09
15 8 0.10
16 3 0.04
17 3 0.04
19 11 0.14
ACGTcount: A:0.35, C:0.17, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1538125 original size:32 final size:32
Alignment explanation
Indices: 1538084--1538156 Score: 137
Period size: 32 Copynumber: 2.3 Consensus size: 32
1538074 ACAAACAGAA
1538084 AATGTATCGATACATAAGTGTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
*
1538116 AATGTATCGATACATAAGTTTTGTATCGATAC
1 AATGTATCGATACATAAGTGTTGTATCGATAC
1538148 AATGTATCG
1 AATGTATCG
1538157 CTACGAAGCT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 40 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
AATGTATCGATACATAAGTGTTGTATCGATAC
Found at i:1538142 original size:19 final size:18
Alignment explanation
Indices: 1538086--1538148 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
1538076 AAACAGAAAA
1538086 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
1538105 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
1538118 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
1538137 TGTATCGATACA
1 TGTATCGATACA
1538149 ATGTATCGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:1540627 original size:51 final size:49
Alignment explanation
Indices: 1540539--1540703 Score: 152
Period size: 51 Copynumber: 3.2 Consensus size: 49
1540529 TAATCCCCCT
* **** *
1540539 ATACTCCAACCCCGGCTTTATTTCCAAAATGTTAATTTCTCATGATCGGGG
1 ATACTCCAACCCCGG-TTTATTTTCAAAACACCAATTT-TCATAATCGGGG
*
1540590 ATACTCCAACCCCGGTTTCATTTTCAAAACACCAATTTTCCTTTAATCGGGG
1 ATACTCCAACCCCGGTTT-ATTTTCAAAACACCAATTTT-C-ATAATCGGGG
* * * *
1540642 ATACT-CAACTCCGATTTTATTTTCAAAAACACCAATTTTTCACAATCGAGG
1 ATACTCCAACCCCG-GTTTATTTTC-AAAACACCAA-TTTTCATAATCGGGG
1540693 ATACTCCAACC
1 ATACTCCAACC
1540704 TCGTTATTTC
Statistics
Matches: 94, Mismatches: 13, Indels: 13
0.78 0.11 0.11
Matches are distributed among these distances:
50 4 0.04
51 55 0.59
52 31 0.33
53 4 0.04
ACGTcount: A:0.30, C:0.27, G:0.11, T:0.32
Consensus pattern (49 bp):
ATACTCCAACCCCGGTTTATTTTCAAAACACCAATTTTCATAATCGGGG
Found at i:1540800 original size:79 final size:78
Alignment explanation
Indices: 1540716--1540938 Score: 261
Period size: 78 Copynumber: 2.8 Consensus size: 78
1540706 GTTATTTCAT
* * *
1540716 CGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCCCGGCTTTATTTCCAAAATAT
1 CGGGGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATAT
** *
1540781 TGATTTCTCTTAAT
65 TGATTTCTCACAAC
* * * *
1540795 TGGGGATACTCCAACCCCGTTATTTCGAGGGGATACTCCAATCCCGATTTTATTTCC-TAATCAT
1 CGGGGATACTCCAACCCCGTTATTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAAT-AT
* *
1540859 CGATTTTTCACAAC
65 TGATTTCTCACAAC
* * *
1540873 CGGGGATACTCCAACCCCGTTATTTTCAAGGGGATACTCCAACCTC-GTTATTATCTCCAAAATA
1 CGGGGATACTCCAACCCCGTTA-TTTCGAGGGGATACTCCAACCCCGGTT-TTATTTCCAAAATA
1540937 TT
64 TT
1540939 AAAATATATT
Statistics
Matches: 120, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
77 3 0.03
78 64 0.53
79 50 0.42
80 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.16, T:0.31
Consensus pattern (78 bp):
CGGGGATACTCCAACCCCGTTATTTCGAGGGGATACTCCAACCCCGGTTTTATTTCCAAAATATT
GATTTCTCACAAC
Found at i:1549958 original size:79 final size:79
Alignment explanation
Indices: 1549822--1550042 Score: 213
Period size: 79 Copynumber: 2.8 Consensus size: 79
1549812 AACAACGGGG
* * * * *
1549822 TTGGAGTATCCTCGATTAT-AGAAAATCGGTG-TTTTGAAAATAAAATCGAGG-TTGGAGTATCC
1 TTGGAGTATCCCCGATTATGA-AAAATTGATGCTTTAG-AAATAAAACCG-GGATTGGAGTATCC
1549884 C-ATCAAAAATAATAAGG-
63 CTA-CAAAAATAA-AAGGA
* **
1549901 TTGGAGTATCCCCGACTGTA-G-AAAATTGATGCTTTAGAAATGAGGCCGGGATTGGAGTATCCC
1 TTGGAGTATCCCCGA-T-TATGAAAAATTGATGCTTTAGAAATAAAACCGGGATTGGAGTATCCC
* *
1549964 TACGAAAATAAAGGGA
64 TACAAAAATAAAAGGA
* * *
1549980 TTGGAGTATCCCCGATTATGAAAAATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTATCCC
1 TTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACCGGGATTGGAGTATCCC
1550043 CGAGATGAAA
Statistics
Matches: 117, Mismatches: 16, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
77 2 0.02
78 7 0.06
79 100 0.85
80 6 0.05
81 2 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.28
Consensus pattern (79 bp):
TTGGAGTATCCCCGATTATGAAAAATTGATGCTTTAGAAATAAAACCGGGATTGGAGTATCCCTA
CAAAAATAAAAGGA
Found at i:1552428 original size:20 final size:20
Alignment explanation
Indices: 1552403--1552479 Score: 127
Period size: 20 Copynumber: 3.9 Consensus size: 20
1552393 ATGTATCGAT
**
1552403 ACAATGTATTAATACAATGA
1 ACAATGTATCGATACAATGA
1552423 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
1552443 ACAATGTATCGATACAATGA
1 ACAATGTATCGATACAATGA
*
1552463 ATAATGTATCGATACAA
1 ACAATGTATCGATACAA
1552480 ATTGTGAAAA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (20 bp):
ACAATGTATCGATACAATGA
Found at i:1558440 original size:21 final size:21
Alignment explanation
Indices: 1558414--1558470 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1558404 AAAAATTCCA
1558414 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1558435 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1558456 AATGTATCGATACAT
1 AATGTATCGATACAT
1558471 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1558550 original size:19 final size:19
Alignment explanation
Indices: 1558526--1558593 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1558516 AATTCAACAA
1558526 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1558545 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1558560 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1558577 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1558594 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1558565 original size:13 final size:13
Alignment explanation
Indices: 1558547--1558571 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1558537 ACATAAGTTT
1558547 TGTATCGATACAA
1 TGTATCGATACAA
1558560 TGTATCGATACA
1 TGTATCGATACA
1558572 TAAGTATTGT
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:1558569 original size:32 final size:32
Alignment explanation
Indices: 1558528--1558590 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1558518 TTCAACAATT
*
1558528 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1558560 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1558591 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1558638 original size:20 final size:18
Alignment explanation
Indices: 1558613--1558667 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 18
1558603 GCCAAGGAAA
1558613 TGTATCGATACATTTTTCT
1 TGTATCGATACATTTTT-T
*
1558632 GTGTATCGATACATGGATTTT
1 -TGTATCGATACAT--TTTTT
1558653 TGTATCGATACATTT
1 TGTATCGATACATTT
1558668 GGAAATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 1 0.03
20 26 0.84
21 1 0.03
22 3 0.10
ACGTcount: A:0.24, C:0.13, G:0.16, T:0.47
Consensus pattern (18 bp):
TGTATCGATACATTTTTT
Found at i:1561171 original size:28 final size:27
Alignment explanation
Indices: 1561104--1561172 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
1561094 CTTCACAATC
*
1561104 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
1561131 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
1561159 GGGGATACTCCAAC
1 GGGGATACTCCAAC
1561173 TCCGGTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Done.