Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 114 of 173
Found at i:35429767 original size:18 final size:18
Alignment explanation
Indices: 35429740--35429779 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
35429730 TAGGTGCGTT
* *
35429740 TCCTAGCCCTTTTATGTA
1 TCCTAACCCTTATATGTA
*
35429758 TCCTAACCCTTATATGTT
1 TCCTAACCCTTATATGTA
35429776 TCCT
1 TCCT
35429780 TTTCCGAGTC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.30, G:0.07, T:0.45
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:35430418 original size:22 final size:22
Alignment explanation
Indices: 35430356--35431576 Score: 1362
Period size: 22 Copynumber: 56.0 Consensus size: 22
35430346 CCTTAACCCT
*
35430356 AACCCT-AACCCTTAACTTGAA
1 AACCCTAAACCCTTAACTTAAA
*
35430377 AACCCT-AACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35430398 AACCCTAAAACCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
35430420 AACCATAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTAAA
35430442 AACCCT-AACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
35430462 AACCCAAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
35430484 AACCCT-AACCCTTTAACTTAAA
1 AACCCTAAACCC-TTAACTTAAA
* *
35430506 ACCCCAAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35430528 AACCCTAAACCCTTAATTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35430550 AACCATAAACCATAAACCCTTAACCTAAA
1 AA-C-----CC-TAAACCCTTAACTTAAA
*
35430579 AA-CCTTAACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
* *
35430599 AATCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
35430621 AACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
35430643 AACCTTAACCCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* * *
35430665 AACCATAAACCTTTAACTTAGA
1 AACCCTAAACCCTTAACTTAAA
*
35430687 AACCATAAACCCTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
35430708 AACCCATAACCCCTTAACTTAAA
1 AACCC-TAAACCCTTAACTTAAA
*
35430731 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
35430753 TACCCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
**
35430775 AACCCTAATA--CTTAACTTTGA
1 AACCCTAA-ACCCTTAACTTAAA
35430796 AACCCT-AACCTCTTAACTTAAA
1 AACCCTAAACC-CTTAACTTAAA
** *
35430818 AACTTTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
35430840 AACCCTAAACCCATAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35430862 AACCCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35430884 ACCCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35430905 AACCATAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35430927 AACCAT-AACCCTTTAACTTAAA
1 AACCCTAAACCC-TTAACTTAAA
* * *
35430949 AACCTTAAACCCTTAAATTTAA
1 AACCCTAAACCCTTAACTTAAA
*
35430971 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35430993 AACACT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35431014 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
** *
35431036 AACCCTAAACATTTAGCTTAAA
1 AACCCTAAACCCTTAACTTAAA
35431058 AACCCT-AACCCTTTAACTTAAA
1 AACCCTAAACCC-TTAACTTAAA
* *
35431080 AACCCTAAATCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
** *
35431102 AACATTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
35431124 AACCCT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35431145 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
35431167 AACCCTAAACCTTTAGCTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
35431189 AACCCT-AACCTTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
35431210 AACCCT-AACCTCTTAACTTAAA
1 AACCCTAAACC-CTTAACTTAAA
* * * *
35431232 AATCTTAAACCTTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35431254 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* **
35431276 AACCTTAAACTTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
35431298 AGCCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
35431319 AACCC-AAACCCTTAAACTTAAA
1 AACCCTAAACCCTT-AACTTAAA
* *
35431341 AACACTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* * *
35431363 AACACTAAACCTTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35431385 AACCCTAAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTAAA
* *
35431407 AACCATAAACCTTTAACTT-AA
1 AACCCTAAACCCTTAACTTAAA
*
35431428 AACCCT-AACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
*
35431449 AACCCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35431471 AA--CTATAACCCTTAAATTAAA
1 AACCCTA-AACCCTTAACTTAAA
* *
35431492 AACACTAAACCCTTAACTTTAA
1 AACCCTAAACCCTTAACTTAAA
** * * *
35431514 AACTGT-AACTCTTAAATAAAA
1 AACCCTAAACCCTTAACTTAAA
*
35431535 AACCCT-AACACTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
*
35431556 AACCAT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
35431577 TATAATTTGA
Statistics
Matches: 1025, Mismatches: 137, Indels: 76
0.83 0.11 0.06
Matches are distributed among these distances:
19 1 0.00
20 26 0.03
21 285 0.28
22 652 0.64
23 42 0.04
28 2 0.00
29 17 0.02
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (22 bp):
AACCCTAAACCCTTAACTTAAA
Found at i:35430565 original size:29 final size:29
Alignment explanation
Indices: 35430527--35430582 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
35430517 CTTAACTTAA
* **
35430527 AAACCCTAAACCCTTAATTTAAAAACCAT
1 AAACCATAAACCCTTAACCTAAAAACCAT
35430556 AAACCATAAACCCTTAACCTAAAAACC
1 AAACCATAAACCCTTAACCTAAAAACC
35430583 TTAACCCTTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.50, C:0.30, G:0.00, T:0.20
Consensus pattern (29 bp):
AAACCATAAACCCTTAACCTAAAAACCAT
Found at i:35430815 original size:109 final size:108
Alignment explanation
Indices: 35430356--35431576 Score: 1295
Period size: 109 Copynumber: 11.2 Consensus size: 108
35430346 CCTTAACCCT
*
35430356 AACCCT-AACCCTTAACTTGAAAACCCT-AACCCTTAAATTAAAAACCCTAAAACCTTAACTTAA
1 AACCCTAAACCCTTAACTT-AAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
* * *
35430419 AAACCATAAACCCTTAACCTAAAAACCCTAACCCTTAACTT-AA
65 AAACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAA
* * * *
35430462 AACCCAAAACCCTTAACTTAAAAACCCT-AACCCTTTAACTTAAAACCCCAAAACCCTTAACTTA
1 AACCCTAAACCCTTAACTT-AAAACCCTAAACCC-TTAAATTAAAAACCCTAAACCCTTAACTTA
* * *
35430526 AAAACCCTAAACCCTTAATTTAAAAACCATAAACCATAAACCCTTAACCTAAA
64 AAAACCCTAAACCCTTAACTTAAAAA-C-----CC-T-AACACTTAACTTAAA
* *
35430579 AA-CCTTAACCCTTAACTTAAAATCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAA
* * * *
35430643 AACCTTAACCCCTTAACTTAAAAACCATAA-ACCTTTAACTTAGA
66 AACCCTAAACCCTTAACTTAAAAACCCTAACA-C-TTAACTTAAA
* * * *
35430687 AACCATAAACCCTTAACTTAAAACCCATAACCCCTTAACTTAAAAACCCTAAACCCTTAAATTAA
1 AACCCTAAACCCTTAACTTAAAACCC-TAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
* * * **
35430752 ATACCCTAAACCTTTAACTTAAAAACCCTAATACTTAACTTTGA
65 AAACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAA
** * *
35430796 AACCCT-AACCTCTTAACTTAAAAACTTTAAACCCTTAAATTAAAAACCCTAAACCCATAAATTA
1 AACCCTAAACC-CTTAACTT-AAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTA
* * *
35430860 AAAACCCTAAACCTTTAACTTAAAACCCCTAACCCTTAACTTAAA
64 AAAACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAA
* * * * * *
35430905 AACCATAAACCCTTAACTTAAAAACC-ATAACCCTTTAACTTAAAAACCTTAAACCCTTAAATTT
1 AACCCTAAACCCTTAACTTAAAACCCTA-AACCC-TTAAATTAAAAACCCTAAACCCTTAACTTA
* * *
35430969 AAAACCCTAAACCCTTAAATTAAAAACACTAACCCTTAACTTAAA
64 AAAACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAA
* ** **
35431014 AACCCTAAACCCTTAAATTAAAAACCCTAAACATTTAGCTTAAAAACCCT-AACCCTTTAACTTA
1 AACCCTAAACCCTTAACTT-AAAACCCTAAACCCTTAAATTAAAAACCCTAAACCC-TTAACTTA
* * ** * *
35431078 AAAACCCTAAATCCTTAAATTAAAAACATTAAACCCTTAAATTAAA
64 AAAACCCTAAACCCTTAACTTAAAAACCCT-AACACTTAACTTAAA
* *
35431124 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCTTTAGCTTAA
1 AACCCTAAACCCTTAACTT-AAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
* * *
35431188 AAACCCT-AACCTTTAACTTTAAAACCCTAACCTCTTAACTTAAA
65 AAACCCTAAACCCTTAACTTAAAAACCCTAA-CACTTAACTTAAA
* * * * * **
35431232 AATCTTAAACCTTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACCTTAAACTTTTAACTTAA
1 AACCCTAAACCCTTAACTT-AAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
* * * *
35431297 AAGCCCT-AACCCTTAACTTTAAAACCCAAACCCTTAAACTTAAA
65 AAACCCTAAACCCTTAACTTAAAAACCCTAACACTT-AACTTAAA
* * * * *
35431341 AACACTAAACCCTTAAATTAAAAACACTAAACCTTTAAATTAAAAACCCTAAACCCTTAAATTAA
1 AACCCTAAACCCTTAACTT-AAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
* * * *
35431406 AAACCATAAACCTTTAACTT-AAAACCCTAACCCTTAACTTTAA
65 AAACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAA
* * * *
35431449 AACCCTAAACCTTTAACTTAAAA-ACTATAACCCTTAAATTAAAAACACTAAACCCTTAACTTTA
1 AACCCTAAACCCTTAACTTAAAACCCTA-AACCCTTAAATTAAAAACCCTAAACCCTTAACTTAA
** * * *
35431513 AAACTGT-AACTCTTAAATAAAAAACCCTAACACTTAACTTAAA
65 AAACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAA
*
35431556 AACCAT-AACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAA
35431577 TATAATTTGA
Statistics
Matches: 953, Mismatches: 129, Indels: 66
0.83 0.11 0.06
Matches are distributed among these distances:
106 31 0.03
107 98 0.10
108 135 0.14
109 477 0.50
110 115 0.12
111 2 0.00
114 3 0.00
115 58 0.06
116 30 0.03
117 4 0.00
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (108 bp):
AACCCTAAACCCTTAACTTAAAACCCTAAACCCTTAAATTAAAAACCCTAAACCCTTAACTTAAA
AACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAA
Found at i:35430830 original size:131 final size:130
Alignment explanation
Indices: 35430356--35431576 Score: 1244
Period size: 131 Copynumber: 9.3 Consensus size: 130
35430346 CCTTAACCCT
* * * *
35430356 AACCCT-AACCCTTAACTTGAAAACCCTAACCCTTAAATTAAAAACCCTAAAACCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * * *
35430420 AACCATAAACCCTTAACCTAAAAACCC-T-AACCCTTAACTT-AAAACCCAAAACCCTTAACTTA
65 AACCATAAACCCTTAA-ATTAAAACCCATAAACCCTTAAATTAAAAACCCTAAACCCTTAAATTA
35430482 AA
129 AA
* * * *
35430484 AACCCT-AACCCTTTAACTTAAAACCCCAAAACCCTTAACTTAAAAACCCTAAACCCTTAATTTA
1 AACCCTAAACCC-TTAACTTAAAAACCC-TAACACTTAACTTAAAAACCCT-AACCCTTAACTT-
** * * * *
35430548 AAAACCATAAACCATAAACCCTTAACCTAAAAACC-TTAACCCTTAACTT-AAAATCCTAAACCC
62 ---A--A-AAACCATAAACCCTTAAATTAAAACCCATAAACCCTTAAATTAAAAACCCTAAACCC
35430611 TTAAATTAAA
121 TTAAATTAAA
* * * * *
35430621 AACCCTAAACCCTTAACTTAAAAACCTTAACCCCTTAACTTAAAAACCATAAACCTTTAACTTAG
1 AACCCTAAACCCTTAACTTAAAAACCCTAA-CACTTAACTTAAAAACCCT-AACCCTTAACTTAA
* * *
35430686 AAACCATAAACCCTTAACTTAAAACCCATAACCCCTTAACTTAAAAACCCTAAACCCTTAAATTA
64 AAACCATAAACCCTTAAATTAAAACCCATAAACCCTTAAATTAAAAACCCTAAACCCTTAAATTA
35430751 AA
129 AA
* * * **
35430753 TACCCTAAACCTTTAACTTAAAAACCCTAATACTTAACTTTGAAACCCTAACCTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAAAACCCTAACC-CTTAACTTAAA
** * * *
35430818 AACTTTAAACCCTTAAATTAAAAACCC-TAAACCCATAAATTAAAAACCCTAAACCTTTAACTTA
65 AACCATAAACCCTTAAATT-AAAACCCATAAACCCTTAAATTAAAAACCCTAAACCCTTAAATTA
35430882 AA
129 AA
* * * *
35430884 ACCCCT-AACCCTTAACTTAAAAACCATAAACCCTTAACTTAAAAACCATAACCCTTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACACTTAACTTAAAAACCCTAACCC-TTAACTTAA
* * *
35430948 AAACCTTAAACCCTTAAATTTAAAACCC-TAAACCCTTAAATTAAAAACACT-AACCCTTAACTT
64 AAACCATAAACCCTTAAA-TTAAAACCCATAAACCCTTAAATTAAAAACCCTAAACCCTTAAATT
35431011 AAA
128 AAA
* * *
35431014 AACCCTAAACCCTTAAATTAAAAACCCTAAACATTTAGCTTAAAAACCCTAACCCTTTAACTTAA
1 AACCCTAAACCCTTAACTTAAAAACCCT-AACACTTAACTTAAAAACCCTAACCC-TTAACTTAA
* * * *
35431079 AAACCCTAAATCCTTAAATTAAAA-ACATTAAACCCTTAAATTAAAAACCCT-AACCCTTAACTT
64 AAACCATAAACCCTTAAATTAAAACCCA-TAAACCCTTAAATTAAAAACCCTAAACCCTTAAATT
35431142 AAA
128 AAA
* * * *
35431145 AACCCTAAACCCTTAAATTAAAAACCCTAA-ACCTTTAGCTTAAAAACCCTAACCTTTAACTTTA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACA-C-TTAACTTAAAAACCCTAACCCTTAACTTAA
* * ** * *
35431209 AAACCCT-AACCTCTTAACTTAAAAATCTTAAACCTTTAAATTAAAAACCCTAAACCCTTAAATT
64 AAACCATAAACC-CTTAAATTAAAACCCATAAACCCTTAAATTAAAAACCCTAAACCCTTAAATT
35431273 AAA
128 AAA
* ** * * * *
35431276 AACCTTAAACTTTTAACTTAAAAGCCCTAACCCTTAACTTTAAAACCCAAACCCTTAAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAAAACCCTAACCCTT-AACTTAAA
* *
35431341 AA-CACTAAACCCTTAAATTAAAA-ACACTAAACCTTTAAATTAAAAACCCTAAACCCTTAAATT
65 AACCA-TAAACCCTTAAATTAAAACCCA-TAAACCCTTAAATTAAAAACCCTAAACCCTTAAATT
35431404 AAA
128 AAA
* * * * *
35431407 AACCATAAACCTTTAACTT-AAAACCCTAACCCTTAACTTTAAAACCCTAAACCTTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * * ** * *
35431471 AACTAT-AACCCTTAAATTAAAA-ACACTAAACCCTTAACTTTAAAACTGT-AACTCTTAAATAA
65 AACCATAAACCCTTAAATTAAAACCCA-TAAACCCTTAAATTAAAAACCCTAAACCCTTAAATTA
35431533 AA
129 AA
* * *
35431535 AACCCT-AACACTTAACTTAAAAACCATAACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAA
35431577 TATAATTTGA
Statistics
Matches: 950, Mismatches: 108, Indels: 70
0.84 0.10 0.06
Matches are distributed among these distances:
127 10 0.01
128 50 0.05
129 56 0.06
130 214 0.23
131 441 0.46
132 63 0.07
133 1 0.00
134 1 0.00
136 11 0.01
137 98 0.10
138 5 0.01
ACGTcount: A:0.46, C:0.27, G:0.01, T:0.26
Consensus pattern (130 bp):
AACCCTAAACCCTTAACTTAAAAACCCTAACACTTAACTTAAAAACCCTAACCCTTAACTTAAAA
ACCATAAACCCTTAAATTAAAACCCATAAACCCTTAAATTAAAAACCCTAAACCCTTAAATTAAA
Found at i:35433800 original size:126 final size:125
Alignment explanation
Indices: 35433544--35434220 Score: 713
Period size: 126 Copynumber: 5.5 Consensus size: 125
35433534 CCCAAACATG
** * * * *
35433544 CTACTGTAGCAAAAGCGGGTCCATGTGGGTGTGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * * *
35433609 TAGAAGC---GATTTTATACTATTTTCTCAGAAACGTCAAGTCGAAATTATTTTTCCAGGAC
66 T-TAAGCATTG-TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
35433668 CTACTGTAGCAAAAGCACGTCCATGAGGACGCGATTTCACAAATTCTTCTCA-AATAGCATCCTG
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTG
35433732 CTTACAGCATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
65 CTTA-AGCATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
35433794 CTACTGTAGCAAAAG-AGCGTCCACGTGGGCGCGATTACACAAATTCTTCTCATAAAGCATCCTG
1 CTACTGTAGCAAAAGCA-CGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
*
35433858 CTATAAGC---GATTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTA-TTTTT------
65 CT-TAAGCATTG-TTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* *
35433911 CT-C---A--TAAAG--CTTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
35433968 TTGAAGCATT-TTTTAAACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCGAGGAC
66 TT-AAGCATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTC-AGGAC
* * ** * * * *
35434029 CAACTATAGCAAAAGTGCGTCCACAAGGGCACGATTTCACAAATTCTTCTCATAACGCATCCTGG
1 CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
* * *
35434094 TTGAAGCATT-TTTTAAACTATTTGCTCAGAAACGTCAATTCGAAATTATTTTTCCAGGAC
66 TT-AAGCATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
* * * * * ** * *
35434154 CTACTATAGCAAAAGCGCGTACACGTA-GGCGCGACTTCAAAAAGCCTTCTGATAAATCATCCTG
1 CTACTGTAGCAAAAGCACGTCCACG-AGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTG
35434218 CTT
65 CTT
35434221 TGATTTTATC
Statistics
Matches: 476, Mismatches: 47, Indels: 59
0.82 0.08 0.10
Matches are distributed among these distances:
108 1 0.00
109 50 0.11
110 35 0.07
111 8 0.02
113 1 0.00
116 1 0.00
117 2 0.00
118 1 0.00
119 1 0.00
122 1 0.00
123 9 0.02
124 101 0.21
125 58 0.12
126 202 0.42
127 5 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.31
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGC
TTAAGCATTGTTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTTTTCAGGAC
Found at i:35434722 original size:28 final size:28
Alignment explanation
Indices: 35434690--35434743 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
35434680 ATTCATGTTG
35434690 TTCAACGCTTTTT-TTATTTTAATTTTGT
1 TTCAA-GCTTTTTCTTATTTTAATTTTGT
**
35434718 TTCAATTTTTTTCTTATTTTAATTTT
1 TTCAAGCTTTTTCTTATTTTAATTTT
35434744 AATATTTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.19, C:0.09, G:0.04, T:0.69
Consensus pattern (28 bp):
TTCAAGCTTTTTCTTATTTTAATTTTGT
Found at i:35435513 original size:24 final size:26
Alignment explanation
Indices: 35435469--35435520 Score: 90
Period size: 25 Copynumber: 2.1 Consensus size: 26
35435459 ACTTTAATTA
35435469 AAAATTAAAATAAAAAAGCTT-AAAC
1 AAAATTAAAATAAAAAAGCTTCAAAC
35435494 AAAATTAAAAT-AAAAAGCTTCAAAC
1 AAAATTAAAATAAAAAAGCTTCAAAC
35435519 AA
1 AA
35435521 CATGAATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
24 9 0.35
25 17 0.65
ACGTcount: A:0.67, C:0.10, G:0.04, T:0.19
Consensus pattern (26 bp):
AAAATTAAAATAAAAAAGCTTCAAAC
Found at i:35435532 original size:24 final size:23
Alignment explanation
Indices: 35435477--35435533 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
35435467 TAAAAATTAA
*
35435477 AATAAAAAAGCTTAAACAAAATT
1 AATAAAAAAGCTTAAACAAAATG
* *
35435500 AAAATAAAAAGCTTCAAACAACATG
1 AATA-AAAAAGCTT-AAACAAAATG
35435525 AATAAAAAA
1 AATAAAAAA
35435534 AAGATCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 3 0.11
24 14 0.50
25 11 0.39
ACGTcount: A:0.67, C:0.11, G:0.05, T:0.18
Consensus pattern (23 bp):
AATAAAAAAGCTTAAACAAAATG
Found at i:35435533 original size:25 final size:23
Alignment explanation
Indices: 35435480--35435534 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 23
35435470 AAATTAAAAT
*
35435480 AAAAAAGCTTAAACAAAATTAAA
1 AAAAAAGCTTAAACAAAATGAAA
*
35435503 ATAAAAAGCTTCAAACAACATGAATA
1 A-AAAAAGCTT-AAACAAAATGAA-A
35435529 AAAAAA
1 AAAAAA
35435535 AGATCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.04
24 9 0.33
25 15 0.56
26 2 0.07
ACGTcount: A:0.67, C:0.11, G:0.05, T:0.16
Consensus pattern (23 bp):
AAAAAAGCTTAAACAAAATGAAA
Found at i:35438694 original size:44 final size:44
Alignment explanation
Indices: 35438586--35439086 Score: 280
Period size: 44 Copynumber: 11.5 Consensus size: 44
35438576 TCTTCTGTCC
* * * *
35438586 GCTCCACTGCAACTTTAGGGAGATAAGA-CTG--GATGCGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTTGTTTCAATCT
* * * * *
35438627 ACTCTACTGCAACTTCAGAGAGATAAGATCTGTTGTTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTTGTTTCAATCT
* * * * **
35438671 GCTCCATTGCAACTTTAGGGAGATAGGAT-TAGCTT-CTTCTGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-G-TTGTTTCAATCT
* *
35438715 GCTCCACTGTAACTTCAGGGAGATAAGAT-TCGTTATCTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-GTTGT-TTCAATCT
* * * *
35438760 GCCCCACTGCAACTTCAGGGGGATAAGATCTGTTTGCTT-AGTCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTG-TTGTTTCAATCT
** * * * *
35438804 GCTCTGCTGCAACTTCAGAGTGATAAGA-CTAGATG---CGATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCT-GTTGTTTCAATCT
* * * ** * *
35438845 GCT-CTCTGCAACTTCAGAGAGATAAGATCTATCATTTTAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTTGTTTCAATCT
* * *
35438888 GCTCCACTACAACTTCAGGGAGATAGGAT-TATTGGCTTT-AATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTT-G-TTTCAATCT
* * * * *** *
35438932 ACTCCACTGCAACTTTAAGGTGATAAGA-CTTGCCATCTTCAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATC-TGTTGT-TTCAATCT
* *
35438977 GCTCCACTGCAACTTCAGGGAGATAGGAT-TATTGGTTTCAATCT
1 GCTCCACTGCAACTTCAGGGAGATAAGATCTGTT-GTTTCAATCT
* * *** *
35439021 GCTCCGCTGCAACTTCAAGGAGATAAGA-CTTGCCATCTTCAATCC
1 GCTCCACTGCAACTTCAGGGAGATAAGATC-TGTTGT-TTCAATCT
*
35439066 GCTCCACTTCAACTTCAGGGA
1 GCTCCACTGCAACTTCAGGGA
35439087 AATAGGATTT
Statistics
Matches: 342, Mismatches: 91, Indels: 50
0.71 0.19 0.10
Matches are distributed among these distances:
40 21 0.06
41 32 0.09
42 3 0.01
43 17 0.05
44 171 0.50
45 95 0.28
46 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (44 bp):
GCTCCACTGCAACTTCAGGGAGATAAGATCTGTTGTTTCAATCT
Found at i:35438818 original size:89 final size:88
Alignment explanation
Indices: 35438583--35438831 Score: 240
Period size: 89 Copynumber: 2.9 Consensus size: 88
35438573 GTTTCTTCTG
* ** * *
35438583 TCCGCTCCACTGCAACTTTAGGGAGATAAGA-CTGGATGC-GA-TCTACTCTACTGCAACTTCAG
1 TCCGCCCCACTGCAACTTTAGGGAGATAAGATCTGCTTGCTTAGTCTGCTCTACTGCAACTTCAG
* *
35438645 AGAGATAAGATCTGTTGTTTTAA
66 AGAGATAAGATCTGTTATTTCAA
* * * * * *
35438668 TCCGCTCCATTGCAACTTTAGGGAGATAGGAT-TAGCTT-CTTCTGTCTGCTCCACTGTAACTTC
1 TCCGCCCCACTGCAACTTTAGGGAGATAAGATCT-GCTTGCTT-AGTCTGCTCTACTGCAACTTC
*
35438731 AGGGAGATAAGAT-TCGTTATCTTCAA
64 AGAGAGATAAGATCT-GTTAT-TTCAA
* * * * *
35438757 TCTGCCCCACTGCAACTTCAGGGGGATAAGATCTGTTTGCTTAGTCTGCTCTGCTGCAACTTCAG
1 TCCGCCCCACTGCAACTTTAGGGAGATAAGATCTGCTTGCTTAGTCTGCTCTACTGCAACTTCAG
*
35438822 AGTGATAAGA
66 AGAGATAAGA
35438832 CTAGATGCGA
Statistics
Matches: 130, Mismatches: 25, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
85 31 0.24
86 2 0.02
87 1 0.01
88 32 0.25
89 60 0.46
90 4 0.03
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.31
Consensus pattern (88 bp):
TCCGCCCCACTGCAACTTTAGGGAGATAAGATCTGCTTGCTTAGTCTGCTCTACTGCAACTTCAG
AGAGATAAGATCTGTTATTTCAA
Found at i:35438972 original size:217 final size:217
Alignment explanation
Indices: 35438586--35439050 Score: 564
Period size: 217 Copynumber: 2.1 Consensus size: 217
35438576 TCTTCTGTCC
* * * *
35438586 GCTCCACTGCAACTTTAGGGAGATAAGACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGAT
1 GCTCCGCTGCAACTTCAGAGAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGAT
* ** * * * * *
35438651 AAGATCTGTTGTTTTAATCCGCTCCATTGCAACTTTAGGGAGATAGGATTAGCTTCTTCTGTCTG
66 AAGATCTATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA-CTTCTTCTATCTA
* * ** * *
35438716 CTCCACTGTAACTTCAGGGAGATAAGATTCGTTATCTTCAATCTGCCCCACTGCAACTTCAGGGG
130 CTCCACTGCAACTTCAAGGAGATAAGATTCGCCATCTTCAATCCGCCCCACTGCAACTTCAGGGA
* * *
35438781 GATAAGATCTGTTTGCTT-AGTCT
195 GATAAGAT-TATTGGCTTCAATCT
* * *
35438804 GCTCTGCTGCAACTTCAGAGTGATAAGACTAGATGCGATCTGCTCT-CTGCAACTTCAGAGAGAT
1 GCTCCGCTGCAACTTCAGAGAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGAT
35438868 AAGATCTATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTA-TTGGCTT-TAATC
66 AAGATCTATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTACTT--CTTCT-ATC
* * *
35438931 TACTCCACTGCAACTTTAAGGTGATAAGACTT-GCCATCTTCAATCCGCTCCACTGCAACTTCAG
128 TACTCCACTGCAACTTCAAGGAGATAAGA-TTCGCCATCTTCAATCCGCCCCACTGCAACTTCAG
* *
35438995 GGAGATAGGATTATTGGTTTCAATCT
192 GGAGATAAGATTATTGGCTTCAATCT
35439021 GCTCCGCTGCAACTTCA-AGGAGATAAGACT
1 GCTCCGCTGCAACTTCAGA-GAGATAAGACT
35439051 TGCCATCTTC
Statistics
Matches: 210, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
215 2 0.01
216 8 0.04
217 159 0.76
218 41 0.20
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.30
Consensus pattern (217 bp):
GCTCCGCTGCAACTTCAGAGAGATAAGACTAGATGCGATCTACTCTACTGCAACTTCAGAGAGAT
AAGATCTATCATTTTAATCCGCTCCACTACAACTTCAGGGAGATAGGATTACTTCTTCTATCTAC
TCCACTGCAACTTCAAGGAGATAAGATTCGCCATCTTCAATCCGCCCCACTGCAACTTCAGGGAG
ATAAGATTATTGGCTTCAATCT
Found at i:35439000 original size:89 final size:89
Alignment explanation
Indices: 35438850--35439103 Score: 349
Period size: 89 Copynumber: 2.9 Consensus size: 89
35438840 GATCTGCTCT
*
35438850 CTGCAACTTC-AGAGAGATAAGATCTAT--CAT-TTTAATCCGCTCCACTACAACTTCAGGGAGA
1 CTGCAACTTCAAG-GAGATAAGA-CT-TGCCATCTTCAATCCGCTCCACTACAACTTCAGGGAGA
35438911 TAGGATTATTGGCTTT-AATCTACTCCA
63 TAGGATTATTGG-TTTCAATCTACTCCA
* * *
35438938 CTGCAACTTTAAGGTGATAAGACTTGCCATCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAG
1 CTGCAACTTCAAGGAGATAAGACTTGCCATCTTCAATCCGCTCCACTACAACTTCAGGGAGATAG
* *
35439003 GATTATTGGTTTCAATCTGCTCCG
66 GATTATTGGTTTCAATCTACTCCA
* *
35439027 CTGCAACTTCAAGGAGATAAGACTTGCCATCTTCAATCCGCTCCACTTCAACTTCAGGGAAATAG
1 CTGCAACTTCAAGGAGATAAGACTTGCCATCTTCAATCCGCTCCACTACAACTTCAGGGAGATAG
35439092 GATT-TGTGGTTT
66 GATTAT-TGGTTT
35439104 TACCGATCTG
Statistics
Matches: 150, Mismatches: 10, Indels: 11
0.88 0.06 0.06
Matches are distributed among these distances:
86 1 0.01
87 2 0.01
88 24 0.16
89 123 0.82
ACGTcount: A:0.28, C:0.24, G:0.19, T:0.30
Consensus pattern (89 bp):
CTGCAACTTCAAGGAGATAAGACTTGCCATCTTCAATCCGCTCCACTACAACTTCAGGGAGATAG
GATTATTGGTTTCAATCTACTCCA
Found at i:35439902 original size:26 final size:26
Alignment explanation
Indices: 35439873--35439922 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
35439863 AGTATCTTGA
*
35439873 AAAGAACAAAGTATTCCAAGAACAAT
1 AAAGAACAAAATATTCCAAGAACAAT
*
35439899 AAAGAATAAAATATTCCAAGAACA
1 AAAGAACAAAATATTCCAAGAACA
35439923 GCAAGTAATA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.60, C:0.14, G:0.10, T:0.16
Consensus pattern (26 bp):
AAAGAACAAAATATTCCAAGAACAAT
Found at i:35456255 original size:6 final size:6
Alignment explanation
Indices: 35456244--35456278 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
35456234 ATTTTTAAGT
35456244 AATTAA AATTAA AATTAA AATTAA AATTAA AATTA
1 AATTAA AATTAA AATTAA AATTAA AATTAA AATTA
35456279 TTATGAACGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (6 bp):
AATTAA
Found at i:35458784 original size:19 final size:19
Alignment explanation
Indices: 35458757--35458793 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
35458747 AAAATATACC
*
35458757 AACATTTATATACCAACAA
1 AACAATTATATACCAACAA
35458776 AACAATTATATACCAACA
1 AACAATTATATACCAACA
35458794 TTGGCTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.54, C:0.22, G:0.00, T:0.24
Consensus pattern (19 bp):
AACAATTATATACCAACAA
Found at i:35459315 original size:24 final size:25
Alignment explanation
Indices: 35459288--35459342 Score: 76
Period size: 24 Copynumber: 2.2 Consensus size: 25
35459278 GTATTTGTAT
* *
35459288 GCTCATACGAGTTGTA-AACGGAAA
1 GCTCATACGAGCTGAATAACGGAAA
35459312 GCTCATACGAGCTGAATAACGGAAA
1 GCTCATACGAGCTGAATAACGGAAA
*
35459337 GTTCAT
1 GCTCAT
35459343 GCAAGCTGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 14 0.52
25 13 0.48
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.22
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGAAA
Found at i:35463222 original size:2 final size:2
Alignment explanation
Indices: 35463215--35463263 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
35463205 TCTCTGTCAA
35463215 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
35463257 CT CT CT C
1 CT CT CT C
35463264 ATGGATTTGG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:35465834 original size:14 final size:16
Alignment explanation
Indices: 35465815--35465847 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
35465805 AAACTATAAG
35465815 TTAAATA-AA-TTAGA
1 TTAAATATAAGTTAGA
35465829 TTAAATATAAGTTAGA
1 TTAAATATAAGTTAGA
35465845 TTA
1 TTA
35465848 CTGATTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 2 0.12
16 8 0.47
ACGTcount: A:0.52, C:0.00, G:0.09, T:0.39
Consensus pattern (16 bp):
TTAAATATAAGTTAGA
Found at i:35466445 original size:13 final size:12
Alignment explanation
Indices: 35466405--35466447 Score: 52
Period size: 13 Copynumber: 3.5 Consensus size: 12
35466395 ATATTTTTAA
*
35466405 TTTTATATTAACT
1 TTTTATA-TAATT
35466418 TTTTATA-AATT
1 TTTTATATAATT
35466429 TTTTATATAATT
1 TTTTATATAATT
35466441 ATTTTAT
1 -TTTTAT
35466448 CCGTGTTACA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 10 0.37
12 4 0.15
13 13 0.48
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTATATAATT
Found at i:35467854 original size:42 final size:42
Alignment explanation
Indices: 35467775--35467854 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
35467765 TCAGATGCCT
*
35467775 CACGGCCTAGACACACGCCCATGTCCTTGCCCATGTGGCTTA
1 CACGGCCTAGACACACGCCCATGTCCTTACCCATGTGGCTTA
* *
35467817 CACGGCCT-GACACACGCCCATGTCGTCTACCCGTGTGG
1 CACGGCCTAGACACACGCCCATGTCCT-TACCCATGTGG
35467855 TTCTAAATCG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
41 17 0.50
42 17 0.50
ACGTcount: A:0.17, C:0.39, G:0.24, T:0.20
Consensus pattern (42 bp):
CACGGCCTAGACACACGCCCATGTCCTTACCCATGTGGCTTA
Found at i:35467949 original size:42 final size:42
Alignment explanation
Indices: 35467890--35467999 Score: 148
Period size: 42 Copynumber: 2.6 Consensus size: 42
35467880 ATGGCCTAGA
* * *
35467890 CACACACCCATGTCCTTGCCTGTGTGGCTCATATAGCCTGGG
1 CACACGCCCATGTCCTTGCCTGTGTAGCTCACATAGCCTGGG
* * *
35467932 CACACGCTCATGTCCTTGCCCGTGTAGCTTACATAGCCTGGG
1 CACACGCCCATGTCCTTGCCTGTGTAGCTCACATAGCCTGGG
*
35467974 CACACGCCCATGTCATCTGCCTGTGT
1 CACACGCCCATGTCCT-TGCCTGTGT
35468000 TATTCTAAAT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
42 50 0.86
43 8 0.14
ACGTcount: A:0.16, C:0.35, G:0.23, T:0.26
Consensus pattern (42 bp):
CACACGCCCATGTCCTTGCCTGTGTAGCTCACATAGCCTGGG
Found at i:35468052 original size:147 final size:146
Alignment explanation
Indices: 35467779--35468103 Score: 382
Period size: 147 Copynumber: 2.2 Consensus size: 146
35467769 ATGCCTCACG
* * * *
35467779 GCCTAGACACACGCCCATGTCCTTGCCCATGTGGCTTACACGGCCTGACACACGCCCATGTCGTC
1 GCCTAGGCACACGCCCATGTCCTTGCCCATGTAGCTTACACAGCCTGACACACGCCCATGTCATC
* * * *
35467844 TACCCGTGTGGTTCTAAATCGTAAACAATGAGTTACATGGCCTAGACACACACCCATGTCCTTGC
66 TACCCGTGTGATTCTAAATCATAAACAATGAGTTACACGGCCTAGACACACACCCACGTCCTTGC
* * * *
35467909 CTGTGTGGCTCATATA
131 CCGTATGGCTCACACA
* * * * *
35467925 GCCTGGGCACACGCTCATGTCCTTGCCCGTGTAGCTTACATAGCCTGGGCACACGCCCATGTCAT
1 GCCTAGGCACACGCCCATGTCCTTGCCCATGTAGCTTACACAGCCT-GACACACGCCCATGTCAT
* * * * * * *
35467990 CTGCCTGTGTTATTCTAAATCATAAA-AAGTGAGTTACACGGCTTGGACACACGCCTACGTCCTT
65 CTACCCGTGTGATTCTAAATCATAAACAA-TGAGTTACACGGCCTAGACACACACCCACGTCCTT
35468054 GCCCGTATGGCTCACACA
129 GCCCGTATGGCTCACACA
* * *
35468072 GCCTAGGCACACACCCATGTCCCTGGCCATGT
1 GCCTAGGCACACGCCCATGTCCTTGCCCATGT
35468104 GGTCCTAAAT
Statistics
Matches: 147, Mismatches: 30, Indels: 3
0.82 0.17 0.02
Matches are distributed among these distances:
146 41 0.28
147 106 0.72
ACGTcount: A:0.22, C:0.33, G:0.21, T:0.24
Consensus pattern (146 bp):
GCCTAGGCACACGCCCATGTCCTTGCCCATGTAGCTTACACAGCCTGACACACGCCCATGTCATC
TACCCGTGTGATTCTAAATCATAAACAATGAGTTACACGGCCTAGACACACACCCACGTCCTTGC
CCGTATGGCTCACACA
Found at i:35468148 original size:104 final size:104
Alignment explanation
Indices: 35467932--35468159 Score: 262
Period size: 105 Copynumber: 2.2 Consensus size: 104
35467922 ATAGCCTGGG
* * * * * * * *
35467932 CACACGCTCATGTCCTTGCCCGTGTAGCTTACATAGCCTGGGCACACGCCCATGTCATCTGCCTG
1 CACACGCCCACGTCCTTGCCCGTATAGCTCACACAGCCTAGGCACACACCCATGTCACCTGCCTG
* * *
35467997 TGTTATTCTAAATCATAAAAAGTGAGTTACACGGCTTGGA
66 TG-TATCCTAAATCATAAAAAGTGAGTTACACGGCCTAGA
* *
35468037 CACACGCCTACGTCCTTGCCCGTATGGCTCACACAGCCTAGGCACACACCCATGTC-CCTGGCCA
1 CACACGCCCACGTCCTTGCCCGTATAGCTCACACAGCCTAGGCACACACCCATGTCACCT-GCC-
* * *
35468101 TGTG-GTCCTAAATCATAAACAGTGAGTTACACGGCCTATA
64 TGTGTATCCTAAATCATAAAAAGTGAGTTACACGGCCTAGA
*
35468141 CACACGCCCATGTCCTTGC
1 CACACGCCCACGTCCTTGC
35468160 TCGTGTGAAC
Statistics
Matches: 103, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
104 49 0.48
105 50 0.49
106 4 0.04
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (104 bp):
CACACGCCCACGTCCTTGCCCGTATAGCTCACACAGCCTAGGCACACACCCATGTCACCTGCCTG
TGTATCCTAAATCATAAAAAGTGAGTTACACGGCCTAGA
Found at i:35470663 original size:11 final size:11
Alignment explanation
Indices: 35470633--35470666 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
35470623 CATATTGTAT
35470633 TTATTAATTT-
1 TTATTAATTTA
35470643 TTATTAATTTA
1 TTATTAATTTA
*
35470654 TTATTTATTTA
1 TTATTAATTTA
35470665 TT
1 TT
35470667 TCGAATGTCG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 10 0.45
11 12 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTAATTTA
Found at i:35473297 original size:57 final size:57
Alignment explanation
Indices: 35473209--35473323 Score: 230
Period size: 57 Copynumber: 2.0 Consensus size: 57
35473199 ATAGTGCCTG
35473209 TTAAACTATTTAGAATACCATTGGATACTTGGGATAGCTCTCACATAGCGTGCTAAC
1 TTAAACTATTTAGAATACCATTGGATACTTGGGATAGCTCTCACATAGCGTGCTAAC
35473266 TTAAACTATTTAGAATACCATTGGATACTTGGGATAGCTCTCACATAGCGTGCTAAC
1 TTAAACTATTTAGAATACCATTGGATACTTGGGATAGCTCTCACATAGCGTGCTAAC
35473323 T
1 T
35473324 CATATAATTG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 58 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.32
Consensus pattern (57 bp):
TTAAACTATTTAGAATACCATTGGATACTTGGGATAGCTCTCACATAGCGTGCTAAC
Found at i:35476270 original size:13 final size:14
Alignment explanation
Indices: 35476254--35476286 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
35476244 TTTTTCCATC
35476254 TTAATTATT-TATT
1 TTAATTATTCTATT
*
35476267 TTAATTATTCTTTT
1 TTAATTATTCTATT
35476281 TTAATT
1 TTAATT
35476287 TATAGATCTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (14 bp):
TTAATTATTCTATT
Found at i:35479869 original size:25 final size:25
Alignment explanation
Indices: 35479776--35479874 Score: 85
Period size: 25 Copynumber: 4.0 Consensus size: 25
35479766 TCATGTACAT
* * * *
35479776 GTATGCTCATACGAGCTGTGAATCA
1 GTATGCTCTTACGAGCTATAAATCG
* *
35479801 GTTTGCTCATT-TGAGCTA-AAGATCG
1 GTATGCTC-TTACGAGCTATAA-ATCG
* *
35479826 GTATGCTCTCACGAGCTATGAATCG
1 GTATGCTCTTACGAGCTATAAATCG
*
35479851 GTATGCTCTTATGAGCTATAAATC
1 GTATGCTCTTACGAGCTATAAATC
35479875 AGTAACCCTA
Statistics
Matches: 57, Mismatches: 13, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
24 2 0.04
25 53 0.93
26 2 0.04
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (25 bp):
GTATGCTCTTACGAGCTATAAATCG
Found at i:35487182 original size:25 final size:25
Alignment explanation
Indices: 35487128--35487184 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
35487118 TGAGCTGAAG
*
35487128 ATCGATATGCTCTCACGAGCTATAA
1 ATCGGTATGCTCTCACGAGCTATAA
*
35487153 ATCGGTATGCTCTTACGAGCTATAA
1 ATCGGTATGCTCTCACGAGCTATAA
35487178 ATCGGTA
1 ATCGGTA
35487185 ACTCTAATGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.30
Consensus pattern (25 bp):
ATCGGTATGCTCTCACGAGCTATAA
Found at i:35495118 original size:16 final size:15
Alignment explanation
Indices: 35495089--35495117 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
35495079 AAGTATAATA
35495089 AAATATTAAAAAAAT
1 AAATATTAAAAAAAT
35495104 AAATATTAAAAAAA
1 AAATATTAAAAAAA
35495118 AAGACACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAATATTAAAAAAAT
Found at i:35500550 original size:45 final size:46
Alignment explanation
Indices: 35500492--35500710 Score: 222
Period size: 45 Copynumber: 4.9 Consensus size: 46
35500482 TAATTACACT
*
35500492 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGTTATCCGA
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGATATCCGA
* * *
35500538 G-GGAACCAGCACTTAGCAACCACC-TTACT-TACATGGATATCC-A
1 GTGGAATCAGCACTTAGCAACCACCTTTA-TATTCAAGGATATCCGA
* * *
35500581 GTGGAATCATCACTTAGCAACCACCTTTATATTCGAGGATATCTG-
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGATATCCGA
* * * * *
35500626 GTGGAATTAGCACTTAACAACCACC--TACT-TACATGGATATCTG-
1 GTGGAATCAGCACTTAGCAACCACCTTTA-TATTCAAGGATATCCGA
* * *
35500669 GTGGAATTAGCGCTTAGCAACCACCTTTATATTCGAGGATAT
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGATAT
35500711 TTGGTCTAAT
Statistics
Matches: 143, Mismatches: 21, Indels: 19
0.78 0.11 0.10
Matches are distributed among these distances:
43 38 0.27
44 37 0.26
45 67 0.47
46 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (46 bp):
GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGATATCCGA
Found at i:35500677 original size:43 final size:43
Alignment explanation
Indices: 35500545--35500694 Score: 178
Period size: 43 Copynumber: 3.4 Consensus size: 43
35500535 CGAGGGAACC
** *
35500545 AGCACTTAGCAACCACCTTACTTACATGGATATCCAGTGGAATC
1 AGCACTTAGCAACCACC-TACTTACATGGATATCTGGTGGAATT
* *
35500589 ATCACTTAGCAACCACCT--TTATATTCGAGGATATCTGGTGGAATT
1 AGCACTTAGCAACCACCTACTTACA-T---GGATATCTGGTGGAATT
*
35500634 AGCACTTAACAACCACCTACTTACATGGATATCTGGTGGAATT
1 AGCACTTAGCAACCACCTACTTACATGGATATCTGGTGGAATT
*
35500677 AGCGCTTAGCAACCACCT
1 AGCACTTAGCAACCACCT
35500695 TTATATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 13
0.80 0.09 0.12
Matches are distributed among these distances:
41 4 0.04
42 1 0.01
43 34 0.38
44 16 0.18
45 30 0.33
46 1 0.01
47 4 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (43 bp):
AGCACTTAGCAACCACCTACTTACATGGATATCTGGTGGAATT
Found at i:35500698 original size:88 final size:89
Alignment explanation
Indices: 35500492--35500715 Score: 317
Period size: 89 Copynumber: 2.5 Consensus size: 89
35500482 TAATTACACT
* * * *
35500492 GTGGAATCAGCACTTAGCAACCACCTTTATATTCAAGGTTATCCGAG-GGAACCAGCACTTAGCA
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCGAGGATATCTG-GTGGAACCAGCACTTAACA
35500556 ACCACCTTACTTACATGGATATCCA
65 ACCACCTTACTTACATGGATATCCA
* **
35500581 GTGGAATCATCACTTAGCAACCACCTTTATATTCGAGGATATCTGGTGGAATTAGCACTTAACAA
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCGAGGATATCTGGTGGAACCAGCACTTAACAA
**
35500646 CCACC-TACTTACATGGATATCTG
66 CCACCTTACTTACATGGATATCCA
* * *
35500669 GTGGAATTAGCGCTTAGCAACCACCTTTATATTCGAGGATATTTGGT
1 GTGGAATCAGCACTTAGCAACCACCTTTATATTCGAGGATATCTGGT
35500716 CTAATCCGAG
Statistics
Matches: 121, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
88 60 0.50
89 61 0.50
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (89 bp):
GTGGAATCAGCACTTAGCAACCACCTTTATATTCGAGGATATCTGGTGGAACCAGCACTTAACAA
CCACCTTACTTACATGGATATCCA
Found at i:35505432 original size:8 final size:8
Alignment explanation
Indices: 35505411--35505448 Score: 58
Period size: 8 Copynumber: 4.6 Consensus size: 8
35505401 TAATAATTAT
*
35505411 TAAAAAAA
1 TAAAATAA
35505419 TCAAAATAA
1 T-AAAATAA
35505428 TAAAATAA
1 TAAAATAA
35505436 TAAAATAA
1 TAAAATAA
35505444 TAAAA
1 TAAAA
35505449 GCTGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (8 bp):
TAAAATAA
Found at i:35507973 original size:15 final size:16
Alignment explanation
Indices: 35507953--35507983 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
35507943 ATTTTTTTAT
35507953 GAATCAT-ATCACATC
1 GAATCATAATCACATC
35507968 GAATCATAATCACATC
1 GAATCATAATCACATC
35507984 ATGTCTTACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (16 bp):
GAATCATAATCACATC
Found at i:35508797 original size:21 final size:21
Alignment explanation
Indices: 35508767--35508810 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
35508757 TACACCAAAA
* *
35508767 TAGGCTTTTAGCGGTGCTTTT
1 TAGGCCTTTAGCGGCGCTTTT
35508788 TAGGCCTTTAGCGGCGCTTTT
1 TAGGCCTTTAGCGGCGCTTTT
35508809 TA
1 TA
35508811 ACGCCGCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.11, C:0.18, G:0.27, T:0.43
Consensus pattern (21 bp):
TAGGCCTTTAGCGGCGCTTTT
Found at i:35510482 original size:19 final size:21
Alignment explanation
Indices: 35510444--35510482 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
35510434 CCTTTTTTAA
*
35510444 AATCGTAAATAAGTAAAAAAT
1 AATCGTAAATAAGAAAAAAAT
35510465 AATCG-AAA-AAGAAAAAAA
1 AATCGTAAATAAGAAAAAAA
35510483 AGAAAACAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.69, C:0.05, G:0.10, T:0.15
Consensus pattern (21 bp):
AATCGTAAATAAGAAAAAAAT
Found at i:35510712 original size:21 final size:21
Alignment explanation
Indices: 35510686--35510759 Score: 116
Period size: 21 Copynumber: 3.6 Consensus size: 21
35510676 TCATATCTTG
35510686 TAAGATTGTATATATCATATC
1 TAAGATTGTATATATCATATC
*
35510707 TAAGATTGCATATATCATATC
1 TAAGATTGTATATATCATATC
*
35510728 TAAGATTG--CATATCATATC
1 TAAGATTGTATATATCATATC
35510747 TAAGATTGTATAT
1 TAAGATTGTATAT
35510760 CCTCGAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
19 18 0.38
21 30 0.62
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (21 bp):
TAAGATTGTATATATCATATC
Found at i:35510719 original size:19 final size:19
Alignment explanation
Indices: 35510697--35510760 Score: 101
Period size: 19 Copynumber: 3.3 Consensus size: 19
35510687 AAGATTGTAT
35510697 ATATCATATCTAAGATTGC
1 ATATCATATCTAAGATTGC
35510716 ATATATCATATCTAAGATTGC
1 --ATATCATATCTAAGATTGC
*
35510737 ATATCATATCTAAGATTGT
1 ATATCATATCTAAGATTGC
35510756 ATATC
1 ATATC
35510761 CTCGAAAATT
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
19 23 0.55
21 19 0.45
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.39
Consensus pattern (19 bp):
ATATCATATCTAAGATTGC
Found at i:35511527 original size:132 final size:132
Alignment explanation
Indices: 35511290--35513176 Score: 2907
Period size: 132 Copynumber: 14.3 Consensus size: 132
35511280 TCCACTGCAA
* * * * * *
35511290 CTTCAACCTACTCCGTTACTGCTCAGGGAGATAAGGCTTGGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
35511355 CTTGGAAAGATAAGATTTGCCGA-CTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTAC
66 CTTGGAAAGATAAGATTTGCC-ATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
35511419 AAT
130 AAT
*
35511422 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGACTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
35511487 CTTGGAAAGATTAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
35511552 AT
131 AT
* * * * * * *
35511554 CTTCAATCTACTCCGCTGCTGCTTAAAGAGACAAAGCTTGGTGGCTTAAATCTACTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * *
35511619 CTTGGAAAGATAATATTTGACGTATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
35511684 AT
131 AT
*
35511686 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGACTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * *
35511751 CTTGGAAAGATAAGATTTGTCATCTTTGATCTGCTCCACTACTACTTAAGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
35511816 AT
131 AT
* * *
35511818 CTTTAACCTTCTCCTCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCTACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * *
35511883 CTTGGAAAGATAAGATTTGCCATCTTTAATCTACTCCACTACTGCTTAAGGAGATAAGGTCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
35511948 AT
131 AT
* * * *
35511950 CTTCAACCTACTCCGCTGCTACTCA-AGGAGACAAGGCTTGGTGGCTTAAATCTACTTCCCACTA
1 CTTCAACCTTCTCCGCTGCTGCTCAGA-GAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTA
* * * *
35512014 TCTTGGAAAGATAAGATTTGTCATCTTCGATCTACTCCACTACTACTTAGGGAGATAAGATCTAC
65 TCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
35512079 AAT
130 AAT
* * * *
35512082 CTTTAACCTTTTCTGTTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
35512147 CTTGGAAAGATAAGATTTGCCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
35512212 AT
131 AT
* * * * *
35512214 CTTCAACCTACTCCACTGCTGCTCAGGGAGACAAGGCTTGGTGGCTTAAATCTACTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * * * *
35512279 CTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTATA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
35512344 AT
131 AT
*
35512346 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGATAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
35512411 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
35512476 AT
131 AT
* * * * * *
35512478 CTTCAACCTACTCCGCTGCTGCTCAGGGAGACATGGCTTGGTGGCTTAAATCTGTTTCCCACTAA
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* * *
35512543 CTTGGAAAGATAAGATTTGCCGTCTTTGATCTACTTCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
35512608 AT
131 AT
* *
35512610 CTTTAACCTTCTCCGCTGCTGCTCAGGGAGACAAGGCTTTGTGG-TTGAAATCTGCTTCCCACTA
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTT-AAATCTGCTTCCCACTA
* *
35512674 TCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCTACTACTGCTTAGGGAGATAAGATTTAC
65 TCTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTAC
35512739 AAT
130 AAT
* * *
35512742 CTTCAACCTTCTTCGTTGCTGCTTAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* *
35512807 CTTGGAAAGATAAGATTTGCCATCTTTGATCTACTCCACTACTGCTTAGGGAGATAAAATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
35512872 AT
131 AT
* * * * *
35512874 CTTCAACCTACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGCGGCTTAAATCTACTTCCCACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
* *
35512939 CTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
35513004 AT
131 AT
* * * * *
35513006 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGACTTTATGGCTTAAATCCGTTTCCTACTAT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
*
35513071 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTTCTTAGGGAGATAAGATCTACA
66 CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
35513136 AT
131 AT
* * * * *
35513138 CTTTAATCTACTACGCTGCTGCTCAGGGAGACAAGGCTT
1 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTT
35513177 GGTGTTTCAC
Statistics
Matches: 1594, Mismatches: 156, Indels: 10
0.91 0.09 0.01
Matches are distributed among these distances:
131 4 0.00
132 1587 1.00
133 3 0.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (132 bp):
CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGGCTTTGTGGCTTAAATCTGCTTCCCACTAT
CTTGGAAAGATAAGATTTGCCATCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACA
AT
Found at i:35511556 original size:44 final size:44
Alignment explanation
Indices: 35511378--35511952 Score: 114
Period size: 44 Copynumber: 13.1 Consensus size: 44
35511368 GATTTGCCGA
* *
35511378 CTTTGATCTGCTCCACTACTGCTTAGGGAAATAAGATCTACAAT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * * * * ***
35511422 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGA-CT-TTGT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * *
35511464 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATTAGATTTGCCAT
1 --CTTTAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCTACAAT
*
35511510 CTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * ** * * ***
35511554 CTTCAATCTACTCCGCTGCTGCTTAAAGAGACAA-AGCT-TGGT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * *
35511596 GGCTTAAATCTACTTCCCACTA-T-CTT-GGAAAGATAATATTTGAC-GT
1 --CTTTAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACAAT
* *
35511642 ATTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * * * * ***
35511686 CTTCAACCTTCTCCGCTGCTGCTCAGAGAGACAAGA-CT-TTGT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * *
35511728 GGCTTAAATCTGCTTCCCACTA-T-CTT-GGAAAGATAAGATTTGTC-AT
1 --CTTTAATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCT-ACAAT
* * *
35511774 CTTTGATCTGCTCCACTACTACTTAAGGAGATAAGATCTACAAT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * * * * * ***
35511818 CTTTAACCTTCTCCTCTGCTGCTCAGAGAGACAAG-GCT-TTGT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * * * *
35511860 GGCTTAAATCTGCTTCCTACTA-T-CTT-GGAAAGATAAGATTTGCCAT
1 --CTTTAATCTGC-TCC-ACTACTGCTTAGG-GAGATAAGATCTACAAT
* * *
35511906 CTTTAATCTACTCCACTACTGCTTAAGGAGATAAGGTCTACAAT
1 CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
35511950 CTT
1 CTT
35511953 CAACCTACTC
Statistics
Matches: 356, Mismatches: 131, Indels: 88
0.62 0.23 0.15
Matches are distributed among these distances:
42 26 0.07
43 25 0.07
44 265 0.74
45 21 0.06
46 19 0.05
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (44 bp):
CTTTAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
Found at i:35513009 original size:44 final size:44
Alignment explanation
Indices: 35512835--35513146 Score: 104
Period size: 44 Copynumber: 7.1 Consensus size: 44
35512825 GCCATCTTTG
* *
35512835 ATCTACTCCACTACTGCTTAGGGAGATAAAATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* * * * * * * * ** *
35512879 ACCTACTCCGCTGCTGCTCAGGGAGACAAG-GCTTGGC-GGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATC-T-ACAATCTTCA
* * * * ** *
35512923 ATCTACTTCCCACTA-T-CTT-GGAAAGATAAGATTTGCCGTCTTCG
1 ATCTGC-T-CCACTACTGCTTAGG-GAGATAAGATCTACAATCTTCA
35512967 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
* * * * * * * ** *
35513011 ACCTTCTCCGCTGCTGCTCAGAGAGACAAGA-CT-TTATGGCTTAA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT--CTTCA
* * * * * * **
35513055 ATCCGTTTCCTACTA-T-CTT-GGAAAGATAAGATTTGCCATCTTTG
1 ATCTG-CTCC-ACTACTGCTTAGG-GAGATAAGATCTACAATCTTCA
* *
35513099 ATCTGCTCCACTACTTCTTAGGGAGATAAGATCTACAATCTTTA
1 ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
35513143 ATCT
1 ATCT
35513147 ACTACGCTGC
Statistics
Matches: 187, Mismatches: 61, Indels: 40
0.65 0.21 0.14
Matches are distributed among these distances:
42 12 0.06
43 14 0.07
44 141 0.75
45 12 0.06
46 8 0.04
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCA
Found at i:35514416 original size:11 final size:10
Alignment explanation
Indices: 35514402--35514448 Score: 55
Period size: 9 Copynumber: 4.9 Consensus size: 10
35514392 TTGCTTCTCT
35514402 TTTCATTTTTC
1 TTTC-TTTTTC
35514413 TTTCTTTTTC
1 TTTCTTTTTC
*
35514423 TTT-TCTTTC
1 TTTCTTTTTC
35514432 TTTC-TTTTC
1 TTTCTTTTTC
35514441 TTT-TTTTT
1 TTTCTTTTT
35514449 TTGAAAAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
9 19 0.59
10 9 0.28
11 4 0.12
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTCTTTTTC
Found at i:35514417 original size:18 final size:17
Alignment explanation
Indices: 35514396--35514445 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 17
35514386 CTCCTTTTGC
35514396 TTCTCTTTTCATTTTTCT
1 TTCTCTTTTC-TTTTTCT
35514414 TTCT-TTTTC-TTTTCT
1 TTCTCTTTTCTTTTTCT
35514429 TTCTTTCTTTTCTTTTT
1 TTC--TCTTTTCTTTTT
35514446 TTTTTGAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 9 0.32
17 6 0.21
18 9 0.32
19 4 0.14
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (17 bp):
TTCTCTTTTCTTTTTCT
Found at i:35514445 original size:19 final size:19
Alignment explanation
Indices: 35514409--35514444 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
35514399 TCTTTTCATT
35514409 TTTCTTTCTTTTTCTTTTC
1 TTTCTTTCTTTTTCTTTTC
35514428 TTTCTTTC-TTTTCTTTT
1 TTTCTTTCTTTTTCTTTT
35514445 TTTTTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (19 bp):
TTTCTTTCTTTTTCTTTTC
Found at i:35518909 original size:52 final size:51
Alignment explanation
Indices: 35518811--35518915 Score: 122
Period size: 51 Copynumber: 2.0 Consensus size: 51
35518801 TTATAAAACT
* * *
35518811 TATATATATAAAATACATAATGCATTTATGAAAACAAGGAAAATATAAATA
1 TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
* * * *
35518862 TATACATATAAAATATATTCATGCATTTA-CAAAAAAATGAAATATATAAGTA
1 TATACATATAAAATACA-TAATGCATTTATCAAAAAAAGGAAA-ATATAAATA
35518914 TA
1 TA
35518916 ATATAAAACG
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
51 25 0.56
52 20 0.44
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (51 bp):
TATACATATAAAATACATAATGCATTTATCAAAAAAAGGAAAATATAAATA
Found at i:35519204 original size:15 final size:14
Alignment explanation
Indices: 35519184--35519225 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
35519174 ATGTAGGTAG
35519184 TATAATAATATATAA
1 TATAATAATA-ATAA
35519199 TATAATAATAATAA
1 TATAATAATAATAA
*
35519213 AATTAATAA-AATA
1 TA-TAATAATAATA
35519226 GACTAAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
TATAATAATAATAA
Found at i:35519675 original size:23 final size:24
Alignment explanation
Indices: 35519649--35519695 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
35519639 AAAGTAAATC
35519649 TCTAAGATTATA-AAATCATATCT
1 TCTAAGATTATATAAATCATATCT
* *
35519672 TCTAAGATTGTATATATCATATCT
1 TCTAAGATTATATAAATCATATCT
35519696 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (24 bp):
TCTAAGATTATATAAATCATATCT
Found at i:35519698 original size:21 final size:21
Alignment explanation
Indices: 35519672--35519728 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
35519662 AATCATATCT
35519672 TCTAAGATTGTATATATCATA
1 TCTAAGATTGTATATATCATA
*
35519693 TCTAAGATTGCATATATCATA
1 TCTAAGATTGTATATATCATA
35519714 TCTAAGATTGTATAT
1 TCTAAGATTGTATAT
35519729 CCTCGAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (21 bp):
TCTAAGATTGTATATATCATA
Found at i:35519928 original size:43 final size:43
Alignment explanation
Indices: 35519794--35520198 Score: 326
Period size: 43 Copynumber: 9.4 Consensus size: 43
35519784 GCGTCACTAA
* * * * *
35519794 CTTTAGCGGCG-TTTTTAGAAATAAACGCTGCTAAAGACCAAGAC
1 CTTTAGCGGCGCTTTTCAG--ACAAACGCCGCTAAAGACCATGAT
* * ** *
35519838 CTTTAGCGGCGC-TTTC-GCCACAAATGCCTCTAAAGGTCATGGT
1 CTTTAGCGGCGCTTTTCAG--ACAAACGCCGCTAAAGACCATGAT
* *
35519881 CTTTAGTGGCGCTTTTCAGACAAACGCCGCTAAAGACCATGAC
1 CTTTAGCGGCGCTTTTCAGACAAACGCCGCTAAAGACCATGAT
* *
35519924 CTTTAGCGGCGCTTATTCGGA-AAACGCCACTAAAGACCATGA-
1 CTTTAGCGGCGCTT-TTCAGACAAACGCCGCTAAAGACCATGAT
* * * *
35519966 CATTTTAGCGGCGCATTTCCTG-CAAACGTCGCTAAAGACCTTGAT
1 C--TTTAGCGGCGC-TTTTCAGACAAACGCCGCTAAAGACCATGAT
* * * * *
35520011 CTTTAACGACGCTTTTACAGA-AAACGCTGCTAAATACCCTGAT
1 CTTTAGCGGCGCTTTT-CAGACAAACGCCGCTAAAGACCATGAT
* *
35520054 CTTTAGCGGCGCTTTTCTCG-CAAACGCCGCTAAAGACCATTAT
1 CTTTAGCGGCGCTTTTC-AGACAAACGCCGCTAAAGACCATGAT
* * * * *
35520097 CTTTAGCGACGCTTTT-ACCACAAATGCCGCTAAAGATCATTAT
1 CTTTAGCGGCGCTTTTCA-GACAAACGCCGCTAAAGACCATGAT
* * *
35520140 CTTTAGCGACGCTTTT-ACCACAAACGCCGCTAAAGACCATTAT
1 CTTTAGCGGCGCTTTTCA-GACAAACGCCGCTAAAGACCATGAT
*
35520183 CTTTAGCGGAGCTTTT
1 CTTTAGCGGCGCTTTT
35520199 TTTAAAAACG
Statistics
Matches: 295, Mismatches: 51, Indels: 31
0.78 0.14 0.08
Matches are distributed among these distances:
42 5 0.02
43 231 0.78
44 55 0.19
45 4 0.01
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCAGACAAACGCCGCTAAAGACCATGAT
Found at i:35520592 original size:21 final size:21
Alignment explanation
Indices: 35520536--35520606 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
35520526 TTTTATGCTG
* * *
35520536 CTCTGTTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGTTGCAGC
*
35520557 CTCTACTTCCCTCGTTGCAGC
1 CTCTGCTTCCCTCGTTGCAGC
* *
35520578 CTCTGCTTCTCTCGTTGCCGC
1 CTCTGCTTCCCTCGTTGCAGC
*
35520599 ATCTGCTT
1 CTCTGCTT
35520607 TAAGCAGCTG
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.06, C:0.39, G:0.17, T:0.38
Consensus pattern (21 bp):
CTCTGCTTCCCTCGTTGCAGC
Found at i:35525874 original size:9 final size:9
Alignment explanation
Indices: 35525857--35526132 Score: 206
Period size: 9 Copynumber: 31.8 Consensus size: 9
35525847 TATGTATTAA
*
35525857 GTAAATTAT
1 GTAAGTTAT
35525866 GTAAGTTAT
1 GTAAGTTAT
*
35525875 GTACGTGTA-
1 GTAAGT-TAT
35525884 -TAAGTTAT
1 GTAAGTTAT
35525892 GTAAGTTAT
1 GTAAGTTAT
*
35525901 GT-A-TTAA
1 GTAAGTTAT
*
35525908 GTAAGCTAT
1 GTAAGTTAT
* *
35525917 GTAACTTGT
1 GTAAGTTAT
35525926 GT-A-TTAT
1 GTAAGTTAT
35525933 GTAAGTTAT
1 GTAAGTTAT
35525942 GTAAGTTAT
1 GTAAGTTAT
** *
35525951 CAAAGTAAT
1 GTAAGTTAT
**
35525960 GTATCTTAT
1 GTAAGTTAT
35525969 GTAAG-T-T
1 GTAAGTTAT
35525976 GTAAGTTAT
1 GTAAGTTAT
*
35525985 -TATGTATTAT
1 GTAAG--TTAT
35525995 GTAAGTTAT
1 GTAAGTTAT
35526004 GTAAGTTAT
1 GTAAGTTAT
35526013 GT-A-TTAT
1 GTAAGTTAT
*
35526020 GTAGGTTAT
1 GTAAGTTAT
*
35526029 GTAAGATAT
1 GTAAGTTAT
*
35526038 TTAAGTTAT
1 GTAAGTTAT
*
35526047 GTAAGTTTT
1 GTAAGTTAT
35526056 GT-A-TTAT
1 GTAAGTTAT
35526063 GTAAGTTAT
1 GTAAGTTAT
35526072 GTAAGTTAT
1 GTAAGTTAT
* *
35526081 GTATGCTAT
1 GTAAGTTAT
35526090 GT-A-TTAT
1 GTAAGTTAT
35526097 GTAAGTTGTTAT
1 GTAA---GTTAT
*
35526109 GTTA-TTAT
1 GTAAGTTAT
35526117 GTAAGTTAT
1 GTAAGTTAT
*
35526126 GCAAGTT
1 GTAAGTT
35526133 TATATATAAG
Statistics
Matches: 208, Mismatches: 37, Indels: 44
0.72 0.13 0.15
Matches are distributed among these distances:
7 34 0.16
8 24 0.12
9 134 0.64
10 6 0.03
11 3 0.01
12 7 0.03
ACGTcount: A:0.32, C:0.03, G:0.20, T:0.46
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:35525877 original size:25 final size:25
Alignment explanation
Indices: 35525846--35526132 Score: 208
Period size: 25 Copynumber: 11.1 Consensus size: 25
35525836 TGATATATAT
* *
35525846 TTATGTATTAAGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* * *
35525871 TTATGTACGTGTATAAGTTATGTAAG
1 TTATGTA-TTATGTAAGTTATGTAAG
* * *
35525897 TTATGTATTAAGTAAGCTATGTAAC
1 TTATGTATTATGTAAGTTATGTAAG
*
35525922 TTGTGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
** * **
35525947 TTATCAAAGTAATGTATCTTATGTAAG
1 TTAT-GTA-TTATGTAAGTTATGTAAG
*
35525974 TTGTAAGTTATTATGT-A-TTATGTAAG
1 -T-TATG-TATTATGTAAGTTATGTAAG
*
35526000 TTATGTAAGTTATGT-A-TTATGTAGG
1 TTATGT-A-TTATGTAAGTTATGTAAG
* *
35526025 TTATGTAAGATATTTAAGTTATGTAAG
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
35526052 TTTTGTATTATGTAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
35526077 TTATGTATGCTATGT-A-TTATGTAAGTTG
1 TTATGTAT--TATGTAAGTTATGTAA---G
*
35526105 TTATGTTATTATGTAAGTTATGCAAG
1 TTATG-TATTATGTAAGTTATGTAAG
35526131 TT
1 TT
35526133 TATATATAAG
Statistics
Matches: 208, Mismatches: 36, Indels: 35
0.75 0.13 0.13
Matches are distributed among these distances:
23 1 0.00
24 4 0.02
25 103 0.50
26 36 0.17
27 38 0.18
28 13 0.06
29 13 0.06
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Found at i:35525963 original size:34 final size:32
Alignment explanation
Indices: 35525861--35526103 Score: 164
Period size: 34 Copynumber: 7.4 Consensus size: 32
35525851 TATTAAGTAA
*
35525861 ATTATGTAAGTTATGTACGTGTA-TAAGTTATGT
1 ATTATGTAAGTTATGTAAGT-TATTAAG-TATGT
* * * *
35525894 AAGTTATGT-A-TTAAGTAAGCTATGTAACTTGTGT
1 -A-TTATGTAAGTTATGTAAGTTAT-TAA-GTATGT
*
35525928 ATTATGTAAGTTATGTAAGTTATCAAAGTAATGT
1 ATTATGTAAGTTATGTAAGTTAT-TAAGT-ATGT
35525962 ATCTTATGTAAG-T-TGTAAGTTA-T---TATGT
1 A--TTATGTAAGTTATGTAAGTTATTAAGTATGT
*
35525990 ATTATGTAAGTTATGTAAGTTATGT-ATTATGT
1 ATTATGTAAGTTATGTAAGTTAT-TAAGTATGT
* * *
35526022 AGGTTATGTAAGATATTTAAGTTATGTAAGTTTTGT
1 A--TTATGTAAGTTATGTAAGTTAT-TAAG-TATGT
*
35526058 ATTATGTAAGTTATGTAAGTTATGTATGCTATGT
1 ATTATGTAAGTTATGTAAGTTAT-TAAG-TATGT
35526092 ATTATGTAAGTT
1 ATTATGTAAGTT
35526104 GTTATGTTAT
Statistics
Matches: 169, Mismatches: 21, Indels: 38
0.74 0.09 0.17
Matches are distributed among these distances:
26 9 0.05
27 1 0.01
28 14 0.08
29 1 0.01
30 1 0.01
32 14 0.08
33 10 0.06
34 97 0.57
35 8 0.05
36 14 0.08
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (32 bp):
ATTATGTAAGTTATGTAAGTTATTAAGTATGT
Found at i:35525989 original size:19 final size:19
Alignment explanation
Indices: 35525965--35526003 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35525955 GTAATGTATC
35525965 TTATGTAAGT-TGTAAGTTA
1 TTATGT-AGTATGTAAGTTA
*
35525984 TTATGTATTATGTAAGTTA
1 TTATGTAGTATGTAAGTTA
35526003 T
1 T
35526004 GTAAGTTATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
TTATGTAGTATGTAAGTTA
Found at i:35526050 original size:43 final size:43
Alignment explanation
Indices: 35525888--35526076 Score: 170
Period size: 43 Copynumber: 4.4 Consensus size: 43
35525878 CGTGTATAAG
* ** * *
35525888 TTATGTAAGTTATGT-A-TTAAGTAAGCTATGTAACTTGTGTA
1 TTATGTAAGTTATGTAAGATATCTAAGTTATGTAACTTATGTA
* * * *
35525929 TTATGTAAGTTATGTAAGTTATCAAAGTAATGTATCTTATGTAA
1 TTATGTAAGTTATGTAAGATATCTAAGTTATGTAACTTATGT-A
* * * *
35525973 GT-TGTAAGTTAT-TATGTATTATGTAAGTTATGTAAGTTATGTA
1 TTATGTAAGTTATGTAAG-A-TATCTAAGTTATGTAACTTATGTA
* * * *
35526016 TTATGTAGGTTATGTAAGATATTTAAGTTATGTAAGTTTTGTA
1 TTATGTAAGTTATGTAAGATATCTAAGTTATGTAACTTATGTA
35526059 TTATGTAAGTTATGTAAG
1 TTATGTAAGTTATGTAAG
35526077 TTATGTATGC
Statistics
Matches: 120, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
41 15 0.12
42 4 0.03
43 68 0.57
44 30 0.25
45 3 0.03
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (43 bp):
TTATGTAAGTTATGTAAGATATCTAAGTTATGTAACTTATGTA
Found at i:35526230 original size:16 final size:16
Alignment explanation
Indices: 35526206--35526260 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 16
35526196 TATAAAAAAT
*
35526206 TTATATAAGTTATGTA
1 TTATGTAAGTTATGTA
35526222 TTATGTAAG----GTA
1 TTATGTAAGTTATGTA
**
35526234 ACATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
35526250 TTATGTAAGTT
1 TTATGTAAGTT
35526261 TACATATAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
12 10 0.33
16 20 0.67
ACGTcount: A:0.35, C:0.02, G:0.18, T:0.45
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:35526482 original size:13 final size:13
Alignment explanation
Indices: 35526464--35526628 Score: 109
Period size: 13 Copynumber: 12.5 Consensus size: 13
35526454 TAAATTTTAG
*
35526464 TAAGTAATGTATT
1 TAAGTAATATATT
*
35526477 TAAGTAACATATT
1 TAAGTAATATATT
*
35526490 TAAGTAATAAATT
1 TAAGTAATATATT
** *
35526503 TAAACAA-ATTTT
1 TAAGTAATATATT
*
35526515 AGTAAGTAATGTATT
1 --TAAGTAATATATT
* **
35526530 TGAGTAGCATATT
1 TAAGTAATATATT
*
35526543 TAAGTAATAAATT
1 TAAGTAATATATT
** *
35526556 TAACCAA-ATTTT
1 TAAGTAATATATT
* *
35526568 AGTAAGTAGTGTATT
1 --TAAGTAATATATT
*
35526583 TAAGTAATTTATT
1 TAAGTAATATATT
35526596 TAAGTAATATATT
1 TAAGTAATATATT
*
35526609 CAAGTAATATATT
1 TAAGTAATATATT
*
35526622 AAAGTAA
1 TAAGTAA
35526629 ATTTTAGTAA
Statistics
Matches: 112, Mismatches: 34, Indels: 12
0.71 0.22 0.08
Matches are distributed among these distances:
12 6 0.05
13 91 0.81
14 9 0.08
15 6 0.05
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.41
Consensus pattern (13 bp):
TAAGTAATATATT
Found at i:35526513 original size:23 final size:23
Alignment explanation
Indices: 35526482--35526572 Score: 65
Period size: 23 Copynumber: 3.7 Consensus size: 23
35526472 GTATTTAAGT
*
35526482 AACATATTTAAGTAATAAATTTA
1 AACAAATTTAAGTAATAAATTTA
*
35526505 AACAAATTTTAGTAAGTAATGTATTTGA
1 AACAAATTTAAGTAA-TAA---ATTT-A
* *
35526533 GTAGCATATTTAAGTAATAAATTTA
1 --AACAAATTTAAGTAATAAATTTA
* *
35526558 ACCAAATTTTAGTAA
1 AACAAATTTAAGTAA
35526573 GTAGTGTATT
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
23 25 0.47
24 3 0.06
25 1 0.02
26 4 0.08
27 4 0.08
28 1 0.02
29 3 0.06
30 12 0.23
ACGTcount: A:0.46, C:0.05, G:0.10, T:0.38
Consensus pattern (23 bp):
AACAAATTTAAGTAATAAATTTA
Found at i:35526520 original size:53 final size:53
Alignment explanation
Indices: 35526455--35526604 Score: 246
Period size: 53 Copynumber: 2.8 Consensus size: 53
35526445 ATATATACTT
35526455 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
* * *
35526508 AAATTTTAGTAAGTAATGTATTTGAGTAGCATATTTAAGTAATAAATTTAACC
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
* **
35526561 AAATTTTAGTAAGTAGTGTATTTAAGTAATTTATTTAAGTAATA
1 AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATA
35526605 TATTCAAGTA
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 89 1.00
ACGTcount: A:0.43, C:0.03, G:0.12, T:0.41
Consensus pattern (53 bp):
AAATTTTAGTAAGTAATGTATTTAAGTAACATATTTAAGTAATAAATTTAAAC
Found at i:35526686 original size:21 final size:22
Alignment explanation
Indices: 35526662--35526705 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
35526652 GTAAGTAATG
*
35526662 TAAGTCATGTAA-ATATATATT
1 TAAGTCATGTAAGATATAAATT
35526683 TAAGTCATGTAAGATATAAATT
1 TAAGTCATGTAAGATATAAATT
35526705 T
1 T
35526706 TAAAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (22 bp):
TAAGTCATGTAAGATATAAATT
Found at i:35526727 original size:13 final size:13
Alignment explanation
Indices: 35526709--35526733 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35526699 TAAATTTTAA
35526709 AAAATTATATATT
1 AAAATTATATATT
35526722 AAAATTATATAT
1 AAAATTATATAT
35526734 ATATTAGTAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTATATATT
Found at i:35526777 original size:20 final size:19
Alignment explanation
Indices: 35526754--35526802 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 19
35526744 TAAGTATAAA
*
35526754 GAAAATTGTAAAAATATATT
1 GAAAATTATAAAAA-ATATT
*
35526774 GAAAA-TATAATAAATATT
1 GAAAATTATAAAAAATATT
35526792 GAAAATATATA
1 GAAAAT-TATA
35526803 TTAACTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 10 0.40
19 6 0.24
20 9 0.36
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
GAAAATTATAAAAAATATT
Found at i:35529467 original size:84 final size:80
Alignment explanation
Indices: 35529193--35529488 Score: 238
Period size: 83 Copynumber: 3.5 Consensus size: 80
35529183 TTCCAACTCC
* * * * * * *
35529193 GAAATGGCGCCGCATTGTGAAAATGTATTAAATATTTCCGGCGTTTTCTCAAAAAACGCCAGTAT
1 GAAACGGCG-CGCATTGAG-AAATTTAATAAATATTTGCGGCGTTTCCT-AAAAAACGCCACTAT
* * *
35529258 CCAAATTTTTTCACTAAA
63 CCAATTTTTTTCAATACA
* * * *
35529276 GAAACGGCGTCGCATTGAGAGACTTAATAAATCATTTGTGGTGTTTTCCTAAAAAACGCCACTAT
1 GAAACGGCG-CGCATTGAGAAATTTAATAAAT-ATTTGCGGCG-TTTCCTAAAAAACGCCACTAT
*
35529341 CCAATTTTATTTCCAGTACA
63 CCAATTTT-TTT-CAATACA
* * * *
35529361 TAAACGACGC-CAATCAGGAAATTTAATAAATCATTTGCGGCGTTTCCGTAAAAAACGCCACTAT
1 GAAACGGCGCGCATTGA-GAAATTTAATAAAT-ATTTGCGGCGTTTCC-TAAAAAACGCCACTAT
*
35529425 -CAATTTTTTTCAAATACG
63 CCAATTTTTTTC-AATACA
* *
35529443 GAAACGGCGACGCATTG-GCAAAATTTAGTAAGTATTTGCGGCGTTT
1 GAAACGGCG-CGCATTGAG--AAATTTAATAAATATTTGCGGCGTTT
35529489 TCTTTCAAAA
Statistics
Matches: 171, Mismatches: 31, Indels: 22
0.76 0.14 0.10
Matches are distributed among these distances:
81 1 0.01
82 24 0.14
83 74 0.43
84 60 0.35
85 12 0.07
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.30
Consensus pattern (80 bp):
GAAACGGCGCGCATTGAGAAATTTAATAAATATTTGCGGCGTTTCCTAAAAAACGCCACTATCCA
ATTTTTTTCAATACA
Found at i:35530988 original size:41 final size:41
Alignment explanation
Indices: 35530914--35531296 Score: 441
Period size: 41 Copynumber: 9.4 Consensus size: 41
35530904 ACACTTCCCC
* * * *
35530914 AAAAACACCGCTAAAGGTCTGCGCACTAGCGGCGCTTCTTT
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* * *
35530955 AAAAACGCCGCTAAAGGTCTGTTCATTAACGGCGTTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* *
35530996 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCCTCATG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* * *
35531037 AAAAAAGACGCTAAAGGTCTGCTCATTAGCGGCGC-TCAATG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTC-TTG
* * * *
35531078 AAAAACGCCGCTAAAGATCTACTCATTAGCGGCGTTTCTTA
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* * * * *
35531119 AAAAATGCCGCTAAAGGTCTACTCATTAGCGACGCATCCTG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* * * *
35531160 -AAAACGCCACTAAAGGTCTGCTCATTAGCAGCGCATCCTG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
*
35531200 AAAAACGCCGCTAAAGGTCTACTCATTAGCGGCGCTTCTTG
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
* * * *
35531241 AAAAATGCCGCTAAATGTCTACTCATTAGCGACGCTT-TT-
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
35531280 AAAGAAGCGCCGCTAAA
1 AAA-AA-CGCCGCTAAA
35531297 TACCCTAAAG
Statistics
Matches: 295, Mismatches: 42, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
39 3 0.01
40 41 0.14
41 249 0.84
42 2 0.01
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (41 bp):
AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTTCTTG
Found at i:35531223 original size:122 final size:122
Alignment explanation
Indices: 35530914--35531275 Score: 492
Period size: 122 Copynumber: 3.0 Consensus size: 122
35530904 ACACTTCCCC
* * * * * **
35530914 AAAAACACCGCTAAAGGTCTGCGCACTAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGTCTGTTC
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGC-TCATGAAAAACGCCGCTAAAGGTCTACTC
* * * * *
35530979 ATTAACGGCGTTTCTTGAAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCCTCATG
65 ATTAGCGGCGTTTCTTGAAAAATGCCGCTAAAGGTCTACTCATTAGCGACGCATCATG
* * *
35531037 AAAAAAGACGCTAAAGGTCTGCTCATTAGCGGCGCTCAATGAAAAACGCCGCTAAAGATCTACTC
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTC-ATGAAAAACGCCGCTAAAGGTCTACTC
* *
35531102 ATTAGCGGCGTTTCTTAAAAAATGCCGCTAAAGGTCTACTCATTAGCGACGCATCCTG
65 ATTAGCGGCGTTTCTTGAAAAATGCCGCTAAAGGTCTACTCATTAGCGACGCATCATG
* * *
35531160 -AAAACGCCACTAAAGGTCTGCTCATTAGCAGCGCATCCTGAAAAACGCCGCTAAAGGTCTACTC
1 AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGC-TCATGAAAAACGCCGCTAAAGGTCTACTC
* *
35531224 ATTAGCGGCGCTTCTTGAAAAATGCCGCTAAATGTCTACTCATTAGCGACGC
65 ATTAGCGGCGTTTCTTGAAAAATGCCGCTAAAGGTCTACTCATTAGCGACGC
35531276 TTTTAAAGAA
Statistics
Matches: 211, Mismatches: 26, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
122 106 0.50
123 105 0.50
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (122 bp):
AAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCTCATGAAAAACGCCGCTAAAGGTCTACTCA
TTAGCGGCGTTTCTTGAAAAATGCCGCTAAAGGTCTACTCATTAGCGACGCATCATG
Found at i:35531294 original size:163 final size:162
Alignment explanation
Indices: 35530914--35531296 Score: 448
Period size: 163 Copynumber: 2.3 Consensus size: 162
35530904 ACACTTCCCC
* * * * * * **
35530914 AAAAACACCGCTAAAGGTCTGCGCACTAGCGGCGCTTCTTTAAAAACGCCGCTAAAGGTCTGTTC
1 AAAAACGCCGCTAAAGATCTACTCATTAGCGACGC-T-TTTAAAAACGCCGCTAAAGGTCTACTC
* ** * * * *
35530979 ATTAACGGCGTTTCTTGAAAAACGCCGCTAAAGGTCTGCTCATTAGCGGCGCCTCATGAAAAAAG
64 ATTAACGACGCATCCTGAAAAACGCCACTAAAGGTCTGCTCATTAGCAGCGCATCATGAAAAAAG
*
35531044 ACGCTAAAGGTCTGCTCATTAGCGGCGCTCAATG
129 ACGCTAAAGGTCTACTCATTAGCGGCGCTCAATG
* * *
35531078 AAAAACGCCGCTAAAGATCTACTCATTAGCGGCGTTTCTTAAAAAATGCCGCTAAAGGTCTACTC
1 AAAAACGCCGCTAAAGATCTACTCATTAGCGACGCTT-TT-AAAAACGCCGCTAAAGGTCTACTC
* * *
35531143 ATTAGCGACGCATCCTG-AAAACGCCACTAAAGGTCTGCTCATTAGCAGCGCATCCTGAAAAACG
64 ATTAACGACGCATCCTGAAAAACGCCACTAAAGGTCTGCTCATTAGCAGCGCATCATGAAAAAAG
* *
35531207 CCGCTAAAGGTCTACTCATTAGCGGCGCTTC-TTG
129 ACGCTAAAGGTCTACTCATTAGCGGCGC-TCAATG
*
35531241 AAAAATGCCGCTAAATG-TCTACTCATTAGCGACGCTTTTAAAGAAGCGCCGCTAAA
1 AAAAACGCCGCTAAA-GATCTACTCATTAGCGACGCTTTTAAA-AA-CGCCGCTAAA
35531297 TACCCTAAAG
Statistics
Matches: 187, Mismatches: 26, Indels: 13
0.83 0.12 0.06
Matches are distributed among these distances:
161 3 0.02
162 5 0.03
163 114 0.61
164 65 0.35
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (162 bp):
AAAAACGCCGCTAAAGATCTACTCATTAGCGACGCTTTTAAAAACGCCGCTAAAGGTCTACTCAT
TAACGACGCATCCTGAAAAACGCCACTAAAGGTCTGCTCATTAGCAGCGCATCATGAAAAAAGAC
GCTAAAGGTCTACTCATTAGCGGCGCTCAATG
Found at i:35532608 original size:43 final size:43
Alignment explanation
Indices: 35532530--35532652 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 43
35532520 TTTTCGATAA
*
35532530 GTGTTTTCGTGTAAGACCAC-ATCTAGGACGTTGGCATCGA-CTT
1 GTGTTTTCGTGTAAGACC-CTATCTGGGACGTTGGCATCGATC-T
35532573 GTGTTTTCGTGTAAGACCCTATCTGGGACAG-TGGCATCGATCT
1 GTGTTTTCGTGTAAGACCCTATCTGGGAC-GTTGGCATCGATCT
* * *
35532616 GTGATTACATGTAAGA-CCTCATCTGGGACGTTGGCAT
1 GTGTTTTCGTGTAAGACCCT-ATCTGGGACGTTGGCAT
35532653 TGTACGAGCC
Statistics
Matches: 71, Mismatches: 4, Indels: 10
0.84 0.05 0.12
Matches are distributed among these distances:
42 5 0.07
43 64 0.90
44 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.27, T:0.32
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCCTATCTGGGACGTTGGCATCGATCT
Found at i:35535670 original size:16 final size:17
Alignment explanation
Indices: 35535638--35535671 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
35535628 ATTATATAAT
35535638 TAATGATGATTAAATTA
1 TAATGATGATTAAATTA
*
35535655 TAATGAT-ATTAGATTA
1 TAATGATGATTAAATTA
35535671 T
1 T
35535672 TAAATAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (17 bp):
TAATGATGATTAAATTA
Found at i:35537140 original size:18 final size:19
Alignment explanation
Indices: 35537109--35537147 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
35537099 GTGTGTTGAA
* *
35537109 TACTGTTACTGTTACT-AT
1 TACTGCTACCGTTACTGAT
35537127 TACTGCTACCGTTACTGAT
1 TACTGCTACCGTTACTGAT
35537146 TA
1 TA
35537148 TTGTTTAGGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.44
Consensus pattern (19 bp):
TACTGCTACCGTTACTGAT
Found at i:35549362 original size:45 final size:45
Alignment explanation
Indices: 35549222--35549419 Score: 170
Period size: 45 Copynumber: 4.4 Consensus size: 45
35549212 TATTTTCCTG
* * * *
35549222 AAGTTGCAGTGGAGCAGATTAAAGCCAA-TAA-TCCTATCTCCCTA
1 AAGTTGCAGTGGAGCAGACTAAAG-AAAGCAAGTCTTATCTCCCTA
* *** ** * *
35549266 AAGTTGCAATGGAATGGA-TAAAAGTTA-CAAATCTTATCTCTCTA
1 AAGTTGCAGTGGAGCAGACT-AAAGAAAGCAAGTCTTATCTCCCTA
* * *
35549310 AAATTGCAGTAGAGCAGACTAAAGAAAGCAAGTCTTATCTCCCTG
1 AAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCTCCCTA
* * *
35549355 AAGTTGCAGTGGAGCTGACTTAAGAAAGCAAGTCTTATCCCCCTA
1 AAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCTCCCTA
* *
35549400 AAGTTGTAGTGGGGCAGACT
1 AAGTTGCAGTGGAGCAGACT
35549420 GAGGATAGCA
Statistics
Matches: 121, Mismatches: 29, Indels: 7
0.77 0.18 0.04
Matches are distributed among these distances:
43 4 0.03
44 46 0.38
45 71 0.59
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (45 bp):
AAGTTGCAGTGGAGCAGACTAAAGAAAGCAAGTCTTATCTCCCTA
Found at i:35549582 original size:44 final size:43
Alignment explanation
Indices: 35549477--35549781 Score: 145
Period size: 41 Copynumber: 6.9 Consensus size: 43
35549467 AGCTATAAAT
* * * * * * *
35549477 CACAGATCTTATCTCTCTTAAGTTACAGTAGAGCAGA-TCATGG
1 CACA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGC
* *
35549520 CA-AAT-CTGATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGC
1 CACAATCCT-ATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGC
* * *
35549562 CACTAATCCTATCTCCCTGAAGTTGCAAGTGGAGCGGATTAAAAC
1 CAC-AATCCTATCTCCCTGAAGTTGC-AGTGGAGCAGATTCAAGC
* * * * * * **
35549607 GATGAATCATATAC-CTCTGAAGTTGCAGTAGGTCGAATCAAATTCACCAAA
1 CA-CAATCCTAT-CTCCCTGAAGTTGCAGT--G--G-AGCAGATTCA--AGC
* * * * * * * *
35549658 GACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGA-TCATGG
1 CACA-ATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGC
* *
35549701 CA-AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGC
1 CACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGC
* *
35549743 CACCAATCCTATTTCCCTGAAGTTGCAGTGGAGCGGATT
1 CA-CAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATT
35549782 AAAACGATGA
Statistics
Matches: 202, Mismatches: 40, Indels: 39
0.72 0.14 0.14
Matches are distributed among these distances:
40 1 0.00
41 54 0.27
42 12 0.06
43 3 0.01
44 53 0.26
45 39 0.19
46 6 0.03
47 1 0.00
48 1 0.00
49 6 0.03
50 2 0.01
51 24 0.12
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.27
Consensus pattern (43 bp):
CACAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTCAAGC
Found at i:35549860 original size:180 final size:181
Alignment explanation
Indices: 35549478--35549954 Score: 669
Period size: 181 Copynumber: 2.6 Consensus size: 181
35549468 GCTATAAATC
* * * * *
35549478 ACAGATCTTATCTCTCTTAAGTTACAGTAGAGCAGATCATGGCAAATCTGATCTCTCTGAAGTTG
1 ACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCATGGCAAATCTTATCTCCCTGAAGTTG
*
35549543 CAGTGGAGCAGATTGAAGCCACTAATCCTATCTCCCTGAAGTTGCAAGTGGAGCGGATTAAAACG
66 CAGTGGAGCAGATTGAAGCCACCAATCCTATCTCCCTGAAGTTGCAAGTGGAGCGGATTAAAACG
*
35549608 ATGAATCATATACCTCTGAAGTTGCAGTAGGTCGAATCAAATTCACCAAAG
131 ATGAATCATAGACCTCTGAAGTTGCAGTAGGTCGAATCAAATTCACCAAAG
35549659 ACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCATGGCAAATCTTATCTCCCTGAAGTTG
1 ACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCATGGCAAATCTTATCTCCCTGAAGTTG
*
35549724 CAGTGGAGCAGATTGAAGCCACCAATCCTATTTCCCTGAAGTTGC-AGTGGAGCGGATTAAAACG
66 CAGTGGAGCAGATTGAAGCCACCAATCCTATCTCCCTGAAGTTGCAAGTGGAGCGGATTAAAACG
35549788 ATGAATCATAGACCTCTGAAGTTGCAGTAGGTC-AGATCAAATTCACCAAAG
131 ATGAATCATAGACCTCTGAAGTTGCAGTAGGTCGA-ATCAAATTCACCAAAG
* * * * *
35549839 ACA-AGTCTTATCTCCCTAAAGTTGCACT-GAACCAGACTAAAGATAGCAAATCTTA-CTTTCCT
1 ACAGA-TCTTATCTCTCTAAAGTTGCAGTAGAA-CAGA-T---CATGGCAAATCTTATC-TCCCT
* * * * *
35549901 GAAGTTGCAGTAGAGTAGATTGAAGCCATC-AGCCTTATCTCTCTGAAGTTGCAA
59 GAAGTTGCAGTGGAGCAGATTGAAGCCACCAATCC-TATCTCCCTGAAGTTGCAA
35549955 CGGAGCAGAC
Statistics
Matches: 267, Mismatches: 19, Indels: 16
0.88 0.06 0.05
Matches are distributed among these distances:
179 5 0.02
180 95 0.36
181 104 0.39
183 4 0.01
184 58 0.22
185 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (181 bp):
ACAGATCTTATCTCTCTAAAGTTGCAGTAGAACAGATCATGGCAAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGATTGAAGCCACCAATCCTATCTCCCTGAAGTTGCAAGTGGAGCGGATTAAAACG
ATGAATCATAGACCTCTGAAGTTGCAGTAGGTCGAATCAAATTCACCAAAG
Found at i:35549997 original size:89 final size:89
Alignment explanation
Indices: 35549845--35550015 Score: 229
Period size: 89 Copynumber: 1.9 Consensus size: 89
35549835 AAAGACAAGT
* *
35549845 CTTATCTCCCTAAAGTTGCACTGAACCAGACTAAAGATAGCAAATCTTACTTTCCTGAAGTTGCA
1 CTTATCTCCCTAAAGTTGCACTGAACCAGACTAAAGACAGAAAATCTTACTTTCCTGAAGTTGCA
35549910 GTAGAGTAGATTGAAGCCATCAGC
66 GTAGAGTAGATTGAAGCCATCAGC
* * * * * *
35549934 CTTATCTCTCTGAAGTTGCAAC-GGAGCAGACTGAAGACAGAAAATCTTA-TTTCCTTGATGTTG
1 CTTATCTCCCTAAAGTTGC-ACTGAACCAGACTAAAGACAGAAAATCTTACTTTCC-TGAAGTTG
*
35549997 CAGTGGAGTAGATTGAAGC
64 CAGTAGAGTAGATTGAAGC
35550016 GACAAATTCC
Statistics
Matches: 71, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
88 5 0.07
89 64 0.90
90 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.28
Consensus pattern (89 bp):
CTTATCTCCCTAAAGTTGCACTGAACCAGACTAAAGACAGAAAATCTTACTTTCCTGAAGTTGCA
GTAGAGTAGATTGAAGCCATCAGC
Found at i:35550014 original size:45 final size:44
Alignment explanation
Indices: 35549886--35550014 Score: 109
Period size: 44 Copynumber: 2.9 Consensus size: 44
35549876 TAAAGATAGC
* * *
35549886 AAATCTTACTTTCC-TGAAGTTGCAGTAGAGTAGATTGAAGCCAT
1 AAATCTTA-TTTCCTTGAAGTTGCAGTGGAGTAGATTGAAGACAA
* ** * ** * *
35549930 CAGCCTTATCT-CTCTGAAGTTGCAACGGAGCAGACTGAAGACAGA
1 AAATCTTATTTCCT-TGAAGTTGCAGTGGAGTAGATTGAAGACA-A
*
35549975 AAATCTTATTTCCTTGATGTTGCAGTGGAGTAGATTGAAG
1 AAATCTTATTTCCTTGAAGTTGCAGTGGAGTAGATTGAAG
35550015 CGACAAATTC
Statistics
Matches: 61, Mismatches: 20, Indels: 7
0.69 0.23 0.08
Matches are distributed among these distances:
42 1 0.02
43 2 0.03
44 28 0.46
45 28 0.46
46 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (44 bp):
AAATCTTATTTCCTTGAAGTTGCAGTGGAGTAGATTGAAGACAA
Found at i:35554856 original size:24 final size:22
Alignment explanation
Indices: 35554824--35554902 Score: 81
Period size: 22 Copynumber: 3.5 Consensus size: 22
35554814 ATAAATGTTG
*
35554824 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATATAATTAT
35554848 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATATAATTAT
* *
35554870 TTTAAGTTT-TCATGT-ATTAT
1 TTTAAATTTATCATATAATTAT
35554890 TCTTCAAATTTAT
1 T-TT-AAATTTAT
35554903 TATGTATTGT
Statistics
Matches: 48, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
20 6 0.12
21 7 0.15
22 23 0.48
23 1 0.02
24 11 0.23
ACGTcount: A:0.34, C:0.08, G:0.03, T:0.56
Consensus pattern (22 bp):
TTTAAATTTATCATATAATTAT
Found at i:35554868 original size:22 final size:21
Alignment explanation
Indices: 35554824--35554916 Score: 80
Period size: 22 Copynumber: 4.2 Consensus size: 21
35554814 ATAAATGTTG
35554824 TTTAAATTTATCACATATTATTAT
1 TTTAAATTTAT--CATA-TATTAT
35554848 TTTAAATTTATCATATAATTAT
1 TTTAAATTTATCATAT-ATTAT
* *
35554870 TTTAAGTTT-TCATGTATTAT
1 TTTAAATTTATCATATATTAT
* * *
35554890 TCTTCAAATTTATTATGTATTGT
1 T-TT-AAATTTATCATATATTAT
35554913 TTTA
1 TTTA
35554917 TATATTTTTA
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
20 6 0.10
21 9 0.15
22 24 0.40
23 10 0.17
24 11 0.18
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.57
Consensus pattern (21 bp):
TTTAAATTTATCATATATTAT
Found at i:35554930 original size:22 final size:23
Alignment explanation
Indices: 35554897--35554971 Score: 72
Period size: 22 Copynumber: 3.5 Consensus size: 23
35554887 TATTCTTCAA
35554897 ATTTATTATGTATTGTTTTATAT
1 ATTTATTATGTATTGTTTTATAT
**
35554920 ATTT-TTATGTA--AATTTA-A-
1 ATTTATTATGTATTGTTTTATAT
* *
35554938 ATTTATTACGTTTTGTTTTATAT
1 ATTTATTATGTATTGTTTTATAT
35554961 ATTT-TTATGTA
1 ATTTATTATGTA
35554972 AATTTAATAT
Statistics
Matches: 39, Mismatches: 8, Indels: 11
0.67 0.14 0.19
Matches are distributed among these distances:
18 4 0.10
19 6 0.15
20 4 0.10
21 4 0.10
22 13 0.33
23 8 0.21
ACGTcount: A:0.28, C:0.01, G:0.08, T:0.63
Consensus pattern (23 bp):
ATTTATTATGTATTGTTTTATAT
Found at i:35554943 original size:41 final size:41
Alignment explanation
Indices: 35554895--35554978 Score: 150
Period size: 41 Copynumber: 2.0 Consensus size: 41
35554885 ATTATTCTTC
*
35554895 AAATTTATTATGTATTGTTTTATATATTTTTATGTAAATTT
1 AAATTTATTACGTATTGTTTTATATATTTTTATGTAAATTT
*
35554936 AAATTTATTACGTTTTGTTTTATATATTTTTATGTAAATTT
1 AAATTTATTACGTATTGTTTTATATATTTTTATGTAAATTT
35554977 AA
1 AA
35554979 TATCATTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.32, C:0.01, G:0.07, T:0.60
Consensus pattern (41 bp):
AAATTTATTACGTATTGTTTTATATATTTTTATGTAAATTT
Found at i:35559114 original size:43 final size:42
Alignment explanation
Indices: 35559067--35559206 Score: 120
Period size: 42 Copynumber: 3.3 Consensus size: 42
35559057 TCCTAGGCAT
* * * *
35559067 GGTCTTACATGTAATCAAACAATGATGCCACTGTCCCAGATAG
1 GGTCTTACATGTAATCAAA-AACGACGCCAATGTCCCAGACAG
* * * * *
35559110 GGTCTTACACGTAATCATATACGACGCCAATGTTCCAGACAT
1 GGTCTTACATGTAATCAAAAACGACGCCAATGTCCCAGACAG
* * * *
35559152 GGTCTTACATGTAATTCTCAAATCGAGGCCAACGTCCCAGAC-G
1 GGTCTTACATGTAA-TC-AAAAACGACGCCAATGTCCCAGACAG
35559195 TGGTCTTACATG
1 -GGTCTTACATG
35559207 ATGTCATGTT
Statistics
Matches: 76, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
42 29 0.38
43 19 0.25
44 28 0.37
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
GGTCTTACATGTAATCAAAAACGACGCCAATGTCCCAGACAG
Found at i:35559166 original size:42 final size:42
Alignment explanation
Indices: 35559050--35559206 Score: 136
Period size: 43 Copynumber: 3.7 Consensus size: 42
35559040 CTCGTACAAT
* * * * * *
35559050 GCCAACGTCCTAGGCATGGTCTTACATGTAATCAAACAATGAT
1 GCCAATGTCCCAGACATGGTCTTACATGTAATCATA-AACGAC
* * * * *
35559093 GCCACTGTCCCAGATAGGGTCTTACACGTAATCATATACGAC
1 GCCAATGTCCCAGACATGGTCTTACATGTAATCATAAACGAC
* *
35559135 GCCAATGTTCCAGACATGGTCTTACATGTAATTC-TCAAATCGAG
1 GCCAATGTCCCAGACATGGTCTTACATGTAA-TCAT-AAA-CGAC
* *
35559179 GCCAACGTCCCAGACGTGGTCTTACATG
1 GCCAATGTCCCAGACATGGTCTTACATG
35559207 ATGTCATGTT
Statistics
Matches: 90, Mismatches: 21, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
42 30 0.33
43 32 0.36
44 28 0.31
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.25
Consensus pattern (42 bp):
GCCAATGTCCCAGACATGGTCTTACATGTAATCATAAACGAC
Found at i:35563538 original size:77 final size:78
Alignment explanation
Indices: 35563420--35563742 Score: 409
Period size: 77 Copynumber: 4.1 Consensus size: 78
35563410 AGAAATTAAA
* * *
35563420 AGTAAAATAAAAATCATTTCGGGATTGATTCTTGCCATTCAACGATTTTATTCCAAAATTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCTGCCATTCAACGATTTTATTCCAAATTTGTTTT
35563485 ATTTCCAAAAACG
66 ATTTCCAAAAACG
* * * *
35563498 AGTAAAAT-AAAATCGTTTCAGGATCGATTCCTGCCGTTCAATGATTTTATTCCAAATTTGTTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCTGCCATTCAACGATTTTATTCCAAATTTGTTTT
*
35563562 ATTTCCAAAAATG
66 ATTTCCAAAAACG
* * *
35563575 AGTAATATAAAAATCGTTTCGGGATTG-TTTCTCGTCATTCAACGATTTTATTCCAAATTTGTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCT-GCCATTCAACGATTTTATTCCAAATTTGTTT
*
35563639 TATTTCCAAAAAAATG
65 TATTTCC--AAAAACG
* * * * * * * *
35563655 AGTTAAATAAAAATCGTTTCGGAATTGATTCCTACCGTTTAATGATTTCATTCCAAATTTGGTTT
1 AGTAAAATAAAAATCGTTTCGGGATTGATTCCTGCCATTCAACGATTTTATTCCAAATTTGTTTT
35563720 ATTTCCAAAAACG
66 ATTTCCAAAAACG
*
35563733 AG-AAATTAAA
1 AGTAAAATAAA
35563743 TTAAATAAAA
Statistics
Matches: 211, Mismatches: 29, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
77 78 0.37
78 67 0.32
80 62 0.29
81 4 0.02
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (78 bp):
AGTAAAATAAAAATCGTTTCGGGATTGATTCCTGCCATTCAACGATTTTATTCCAAATTTGTTTT
ATTTCCAAAAACG
Found at i:35563614 original size:155 final size:157
Alignment explanation
Indices: 35563420--35563730 Score: 466
Period size: 155 Copynumber: 2.0 Consensus size: 157
35563410 AGAAATTAAA
*
35563420 AGTAAAATAAAAATCATTTCGGGATTGATTCTTGCCATTCAACGATTTTATTCCAAAATTGTTTT
1 AGTAAAATAAAAATCATTTCGGGATTGATTCTCGCCATTCAACGATTTTATTCCAAAATTGTTTT
* *
35563485 ATTTCC-AAAAACGAGTAAAAT-AAAATCGTTTCAGG-ATCGATTCCTGCCGTTCAATGATTTTA
66 ATTTCCAAAAAACGAGTAAAATAAAAATCGTTTC-GGAATCGATTCCTACCGTTCAATGATTTCA
*
35563547 TTCCAAATTTGTTTTATTTCCAAAAATG
130 TTCCAAATTTGGTTTATTTCCAAAAATG
* * * * *
35563575 AGTAATATAAAAATCGTTTCGGGATTGTTTCTCGTCATTCAACGATTTTATTCCAAATTTGTTTT
1 AGTAAAATAAAAATCATTTCGGGATTGATTCTCGCCATTCAACGATTTTATTCCAAAATTGTTTT
* * * *
35563640 ATTTCCAAAAAAATGAGTTAAATAAAAATCGTTTCGGAATTGATTCCTACCGTTTAATGATTTCA
66 ATTTCC-AAAAAACGAGTAAAATAAAAATCGTTTCGGAATCGATTCCTACCGTTCAATGATTTCA
35563705 TTCCAAATTTGGTTTATTTCCAAAAA
130 TTCCAAATTTGGTTTATTTCCAAAAA
35563731 CGAGAAATTA
Statistics
Matches: 139, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
155 65 0.47
157 15 0.11
158 59 0.42
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (157 bp):
AGTAAAATAAAAATCATTTCGGGATTGATTCTCGCCATTCAACGATTTTATTCCAAAATTGTTTT
ATTTCCAAAAAACGAGTAAAATAAAAATCGTTTCGGAATCGATTCCTACCGTTCAATGATTTCAT
TCCAAATTTGGTTTATTTCCAAAAATG
Found at i:35563889 original size:85 final size:84
Alignment explanation
Indices: 35563739--35563984 Score: 329
Period size: 85 Copynumber: 2.9 Consensus size: 84
35563729 AACGAGAAAT
* * *
35563739 TAAATTAAATAAAATCTGTTTCGGGATTT-ATTCCGTTGTTTAACAGGATTTTATTTGATTTTAT
1 TAAATTAAATAAAATCTGTTTCGGGATTTAACTCCGTCGTTTAACAAGATTTTATTTGATTTTAT
35563803 TTTGTTTCCAAATT-AGAA-
66 TTTGTTTCCAAATTCA-AAC
* * *
35563821 TATAATTAAATAAAATCTGTTTTGGGATTTAACCTCCGCCGTTTAACAATATTTTATTTGATTTT
1 TA-AATTAAATAAAATCTGTTTCGGGATTTAA-CTCCGTCGTTTAACAAGATTTTATTTGATTTT
*
35563886 ATTTTGTTTCTAAATTCAAAC
64 ATTTTGTTTCCAAATTCAAAC
* * * *
35563907 TAAATTAAATAAAATATGTTTCGGGATTT-ATTCCCGTCGTTTAACAAGATTTTATTTGATATTG
1 TAAATTAAATAAAATCTGTTTCGGGATTTAACT-CCGTCGTTTAACAAGATTTTATTTGATTTTA
35563971 TTTTGTTTCCAAAT
65 TTTTGTTTCCAAAT
35563985 AAAGATGTAA
Statistics
Matches: 143, Mismatches: 15, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
82 2 0.01
83 27 0.19
84 42 0.29
85 69 0.48
86 3 0.02
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.47
Consensus pattern (84 bp):
TAAATTAAATAAAATCTGTTTCGGGATTTAACTCCGTCGTTTAACAAGATTTTATTTGATTTTAT
TTTGTTTCCAAATTCAAAC
Found at i:35564001 original size:84 final size:83
Alignment explanation
Indices: 35563741--35564021 Score: 311
Period size: 85 Copynumber: 3.4 Consensus size: 83
35563731 CGAGAAATTA
* * *
35563741 AATTAAATAAAATCTGTTTCGGGATTTATT-CCGTTGTTTAACAGGATTTTATTTGATTTTATTT
1 AATTAAATAAAATATGTTTCGGGATTTATTCCCGTCGTTTAACAAGATTTTATTTGATTTTATTT
*
35563805 TGTTTCCAAAT-TAGAATAT
66 TGTTTCCAAATAAAG-AT-T
* * ** * *
35563824 AATTAAATAAAATCTGTTTTGGGATTTAACCTCCGCCGTTTAACAATATTTTATTTGATTTTATT
1 AATTAAATAAAATATGTTTCGGGATTTATTC-CCGTCGTTTAACAAGATTTTATTTGATTTTATT
* * *
35563889 TTGTTTCTAAATTCAAA-CTA
65 TTGTTTCCAAA-T-AAAGATT
* *
35563909 AATTAAATAAAATATGTTTCGGGATTTATTCCCGTCGTTTAACAAGATTTTATTTGATATTGTTT
1 AATTAAATAAAATATGTTTCGGGATTTATTCCCGTCGTTTAACAAGATTTTATTTGATTTTATTT
35563974 TGTTTCCAAATAAAGATGT
66 TGTTTCCAAATAAAGAT-T
* *
35563993 AATCAAATAATTATAT-TTT-GGGATTTATT
1 AATTAAATAA-AATATGTTTCGGGATTTATT
35564022 TTTGCCGTTG
Statistics
Matches: 166, Mismatches: 24, Indels: 16
0.81 0.12 0.08
Matches are distributed among these distances:
82 3 0.02
83 39 0.23
84 51 0.31
85 70 0.42
86 2 0.01
88 1 0.01
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (83 bp):
AATTAAATAAAATATGTTTCGGGATTTATTCCCGTCGTTTAACAAGATTTTATTTGATTTTATTT
TGTTTCCAAATAAAGATT
Found at i:35570379 original size:23 final size:22
Alignment explanation
Indices: 35570353--35570398 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
35570343 AATTAGAAAA
*
35570353 TCATATACTCCACCAAATAAATT
1 TCATATAC-CCAACAAATAAATT
* *
35570376 TCATCTACCCAACAACTAAATT
1 TCATATACCCAACAAATAAATT
35570398 T
1 T
35570399 GCTTTATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.41, C:0.28, G:0.00, T:0.30
Consensus pattern (22 bp):
TCATATACCCAACAAATAAATT
Found at i:35573939 original size:10 final size:10
Alignment explanation
Indices: 35573903--35573948 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
35573893 GCTGAAGGAG
35573903 AAGAAAGAAA
1 AAGAAAGAAA
* *
35573913 AGGAAAGCAGA
1 AAGAAAG-AAA
35573924 AA-AAAGAAA
1 AAGAAAGAAA
35573933 AAGAAAGAAA
1 AAGAAAGAAA
35573943 AAGAAA
1 AAGAAA
35573949 AAAGAAGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
9 4 0.13
10 23 0.77
11 3 0.10
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:35574036 original size:14 final size:14
Alignment explanation
Indices: 35574017--35574046 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
35574007 AGGGAAGGAA
35574017 AAAGAAAGAAAAAT
1 AAAGAAAGAAAAAT
*
35574031 AAAGAAAGAAAGAT
1 AAAGAAAGAAAAAT
35574045 AA
1 AA
35574047 TTTTTTTGGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.07
Consensus pattern (14 bp):
AAAGAAAGAAAAAT
Found at i:35574069 original size:20 final size:19
Alignment explanation
Indices: 35574044--35574082 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
35574034 GAAAGAAAGA
35574044 TAATTTTTTTGGTATTATTT
1 TAATTTTTTT-GTATTATTT
35574064 TAATTTTTTTGTATTATTT
1 TAATTTTTTTGTATTATTT
35574083 GTGTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.21, C:0.00, G:0.08, T:0.72
Consensus pattern (19 bp):
TAATTTTTTTGTATTATTT
Found at i:35574293 original size:16 final size:16
Alignment explanation
Indices: 35574258--35574293 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
35574248 AATGTTTATG
* *
35574258 AAAAAAATAAAATACG
1 AAAAAAATAAAAAACA
35574274 AAAAAAATAAAAAACA
1 AAAAAAATAAAAAACA
35574290 AAAA
1 AAAA
35574294 TAGTATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.83, C:0.06, G:0.03, T:0.08
Consensus pattern (16 bp):
AAAAAAATAAAAAACA
Found at i:35574970 original size:314 final size:311
Alignment explanation
Indices: 35574274--35575782 Score: 2186
Period size: 314 Copynumber: 4.8 Consensus size: 311
35574264 ATAAAATACG
* * * * ****
35574274 AAAAAAATAAAAAACAAAAATAGTATATTTATTGAAAGTAATAAAATC---TGGGAA-AAAAATA
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCAAAAAAAAAGAAAAATA
* *
35574335 CGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATTC
66 CGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATAC
*
35574400 ATTTCAAATATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTAT-TTTTTTGAA
131 ATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAA
*
35574464 AGTAATAAAATCCGAAAAAAAGAAAGATACGAACAAATGGCCAAAATAAGAGTTTTTTACTAAAT
196 AGTAATAAAATCC----AAAA-AAA-ATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAAT
35574529 TTATATAAAAAA-ACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATAT
255 TTATATAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATAT
** *
35574585 AAAATAATAAAATACGAAAATAGTAATATTTTTTGAAAGTAATAAAATC-TGAAAAAA-AAAGAT
1 AAAATAATAAAATACGAAAATAGT-ATATTTTTTGAAAGTAATAAAATCAAAAAAAAAGAAAAAT
* *
35574648 ACGAACAAATGGCCAAAATAAGAGTTTTTTACTAAATTTATATAAAAAAACGCACTAAATTAATA
65 ACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATA
35574713 CATTTCAAACATAATGTACTAAAATAATATAAAATAAT-AAATACGAAAATAGTATATTTTTTGA
130 CATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGA
* * *
35574777 AAGTAGTAAAATCCAAAAAAAATATGAACAAATGACCAAAATAAGGGTTTTTTACTAAATTTATA
195 AAGTAATAAAATCCAAAAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATA
*
35574842 TAAAAAAACACACTAAATTAATACATTTCAAACATTATGTACTAAAATAATAT
260 T-AAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATAT
35574895 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAAAAAAAAGAAAA
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAAT-C--AAAAAAAAAGAAAA
*
35574960 ATAGGAACAAATGGCCAAAATAAGGG-TTTTTACTAAATTTATATAAAAAAACACACTAAATTAA
63 ATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAA
* * *
35575024 TAAATTTTAAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAG--TATTTTTT
128 TACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTT
* *
35575087 GAAAGTAATAAAATCTGAAAAAAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAAT
193 GAAAGTAATAAAATC---CAAAAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAAT
* *
35575152 TTATATAAAAAACACACTAAATTACTACATTTGAAACATAATGTACTAAAATAATAT
255 TTATATAAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATAT
* ***
35575209 AAAATAATAAAATACGAAAAATAGTATATTATTTGAAAGTAATAAAATTC-GGGAAAAAGAAAAA
1 AAAATAATAAAATACG-AAAATAGTATATTTTTTGAAAGTAATAAAA-TCAAAAAAAAAGAAAAA
* * *
35575273 TACGAACAAAGGGACAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAATACACTAAATTAAT
64 TACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAAT
* * * *
35575337 ATATTTGAAACGTAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAATATATTTTTTG
129 ACATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTG
* *
35575402 AAAGTAATAAAATTCGACAAAAAGAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTCTTACT
194 AAAGTAATAAAA-TC--C---AA-A-AAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTACT
*
35575467 AAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACATTATGTACTAAAATAATAT
251 AAATTTATAT-AAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATAT
* * ** * *
35575529 AAAATAATAAAATACGAAAATAATATATTTTTTGTAAGTAATAAAATCTGAAAATAAGAAAAATC
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCAAAAAAAAAGAAAAATA
*
35575594 CGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAATACACTAAATTAATAC
66 CGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATAC
*
35575659 ATTTCAAACATTATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTAT-TTTTTTGAA
131 ATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAA
* *
35575723 AGTAATAAAATTCAGAAAAAAATACGAACAAAAT-GCTAAAATAAGGGTTTTTTACTAAAT
196 AGTAATAAAATCCA-AAAAAAATACGAAC-AAATGGCCAAAATAAGGGTTTTTTACTAAAT
35575783 ATGTTTTGAA
Statistics
Matches: 1095, Mismatches: 72, Indels: 61
0.89 0.06 0.05
Matches are distributed among these distances:
308 42 0.04
309 32 0.03
310 72 0.07
311 21 0.02
312 182 0.17
313 120 0.11
314 255 0.23
315 81 0.07
316 2 0.00
317 2 0.00
318 4 0.00
319 146 0.13
320 136 0.12
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (311 bp):
AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCAAAAAAAAAGAAAAATA
CGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATAC
ATTTCAAACATAATGTACTAAAATAATATAAAATAATAAAATACGAAAATAGTATATTTTTTGAA
AGTAATAAAATCCAAAAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATAT
AAAAAACACACTAAATTAATACATTTCAAACATAATGTACTAAAATAATAT
Found at i:35575328 original size:159 final size:156
Alignment explanation
Indices: 35574274--35575782 Score: 2219
Period size: 159 Copynumber: 9.6 Consensus size: 156
35574264 ATAAAATACG
* * * * **
35574274 AAAAAAATAAAAAACAAAAATAGTATATTTATTGAAAGTAATAAAATCTG--GGAAAAAAATACG
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATC-GAAAAAAAAAAATACG
*
35574337 AACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATTCAT
65 AACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACAT
*
35574402 TTCAAATATAATGTACTAAAATAATAT
130 TTCAAACATAATGTACTAAAATAATAT
35574429 AAAATAATAAAATACGAAAATAGTAT-TTTTTTGAAAGTAATAAAATCCGAAAAAAAGAAAGATA
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAAT-CGAAAAAAA-AAA-ATA
* *
35574493 CGAACAAATGGCCAAAATAAGAGTTTTTTACTAAATTTATAT-AAAAAA-ACACTAAATTAATAC
63 CGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATAC
35574556 ATTTCAAACATAATGTACTAAAATAATAT
128 ATTTCAAACATAATGTACTAAAATAATAT
*
35574585 AAAATAATAAAATACGAAAATAGTAATATTTTTTGAAAGTAATAAAATCTGAAAAAAAAAGATAC
1 AAAATAATAAAATACGAAAATAGT-ATATTTTTTGAAAGTAATAAAATC-GAAAAAAAAAAATAC
* * *
35574650 GAACAAATGGCCAAAATAAGAGTTTTTTACTAAATTTATATAAAAAAACGCACTAAATTAATACA
64 GAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACA
35574715 TTTCAAACATAATGTACTAAAATAATAT
129 TTTCAAACATAATGTACTAAAATAATAT
* * *
35574743 AAAATAAT-AAATACGAAAATAGTATATTTTTTGAAAGTAGTAAAATC---CAAAAAAAATATGA
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCGAAAAAAAAAAATACGA
* *
35574804 ACAAATGACCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATT
66 ACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATT
*
35574869 TCAAACATTATGTACTAAAATAATAT
131 TCAAACATAATGTACTAAAATAATAT
*
35574895 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCAAAAAAAAAAAGAAAA
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAAT-C----GAAAAAA-AAAA
* *
35574960 ATAGGAACAAATGGCCAAAATAAGGG-TTTTTACTAAATTTATATAAAAAAACACACTAAATTAA
60 ATACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAA
* * *
35575024 TAAATTTTAAACATTATGTACTAAAATAATAT
125 TACATTTCAAACATAATGTACTAAAATAATAT
35575056 AAAATAATAAAATACGAAAATAG--TATTTTTTGAAAGTAATAAAATCTG-AAAAAAAAAATACG
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATC-GAAAAAAAAAAATACG
*
35575118 AACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAACACACTAAATTACTACAT
65 AACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACAT
*
35575182 TTGAAACATAATGTACTAAAATAATAT
130 TTCAAACATAATGTACTAAAATAATAT
* *
35575209 AAAATAATAAAATACGAAAAATAGTATATTATTTGAAAGTAATAAAATTCGGGAAAAAGAAAAAT
1 AAAATAATAAAATACG-AAAATAGTATATTTTTTGAAAGTAATAAAA-TC--GAAAAAAAAAAAT
* *
35575274 ACGAACAAAGGGACAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAATACACTAAATTAATA
62 ACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATA
* * *
35575338 TATTTGAAACGTAATGTACTAAAATAATAT
127 CATTTCAAACATAATGTACTAAAATAATAT
*
35575368 AAAATAATAAAATACGAAAATAATATATTTTTTGAAAGTAATAAAATTCGACAAAAAGAGAAAAA
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAA-TCG--AAAAA-A-AAAAA
*
35575433 TACGAACAAAGGGCCAAAATAAGGGTTTCTTACTAAATTTATATAAAAAAACACACTAAATTAAT
61 TACGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAAT
*
35575498 ACATTTCAAACATTATGTACTAAAATAATAT
126 ACATTTCAAACATAATGTACTAAAATAATAT
* * *
35575529 AAAATAATAAAATACGAAAATAATATATTTTTTGTAAGTAATAAAATCTGAAAATAAGAAAAATC
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATC-GAAAA-AA-AAAAATA
* *
35575594 CGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAATACACTAAATTAATAC
63 CGAACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATAC
*
35575659 ATTTCAAACATTATGTACTAAAATAATAT
128 ATTTCAAACATAATGTACTAAAATAATAT
*
35575688 AAAATAATAAAATACGAAAATAGTAT-TTTTTTGAAAGTAATAAAATTC---AGAAAAAAATACG
1 AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAA-TCGAAAAAAAAAAATACG
** *
35575749 AACAAAATGCTAAAATAAGGGTTTTTTACTAAAT
65 AACAAAGGGCCAAAATAAGGGTTTTTTACTAAAT
35575783 ATGTTTTGAA
Statistics
Matches: 1255, Mismatches: 64, Indels: 72
0.90 0.05 0.05
Matches are distributed among these distances:
152 106 0.08
153 167 0.13
154 53 0.04
155 25 0.02
156 158 0.13
157 37 0.03
158 178 0.14
159 267 0.21
160 50 0.04
161 186 0.15
162 28 0.02
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (156 bp):
AAAATAATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCGAAAAAAAAAAATACGA
ACAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATT
TCAAACATAATGTACTAAAATAATAT
Found at i:35578034 original size:8 final size:8
Alignment explanation
Indices: 35578021--35578059 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
35578011 AATTTTTTTA
35578021 ATTACAAC
1 ATTACAAC
35578029 ATTACAAC
1 ATTACAAC
35578037 ATTACAAC
1 ATTACAAC
35578045 ATTAC-AC
1 ATTACAAC
*
35578052 ATAACAAC
1 ATTACAAC
35578060 TATAAGTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
7 6 0.21
8 23 0.79
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (8 bp):
ATTACAAC
Found at i:35578094 original size:8 final size:8
Alignment explanation
Indices: 35578081--35578122 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
35578071 GGGTGTTACA
35578081 ACAACATT
1 ACAACATT
35578089 ACAACATT
1 ACAACATT
*
35578097 ACAATATT
1 ACAACATT
*
35578105 AC-ACATA
1 ACAACATT
*
35578112 ACAACTTT
1 ACAACATT
35578120 ACA
1 ACA
35578123 GCATAAGCTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 5 0.18
8 23 0.82
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (8 bp):
ACAACATT
Found at i:35579610 original size:32 final size:32
Alignment explanation
Indices: 35579569--35579632 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
35579559 ATAGCCAAGT
35579569 CCCATCCACCTGCACAAACAGCTTGCAGTAGG
1 CCCATCCACCTGCACAAACAGCTTGCAGTAGG
35579601 CCCATCCACCTGCACAAACAGCTTGCAGTAGG
1 CCCATCCACCTGCACAAACAGCTTGCAGTAGG
35579633 GAAATACTCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.28, C:0.38, G:0.19, T:0.16
Consensus pattern (32 bp):
CCCATCCACCTGCACAAACAGCTTGCAGTAGG
Found at i:35580143 original size:29 final size:29
Alignment explanation
Indices: 35580110--35580172 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
35580100 CTGCCTTCCA
*
35580110 ACACTATCCAATATATACTGTCGGTTTAG
1 ACACTACCCAATATATACTGTCGGTTTAG
*
35580139 ACACTCCCCAATATATACTGTCGGTTTAG
1 ACACTACCCAATATATACTGTCGGTTTAG
35580168 ACACT
1 ACACT
35580173 GCGACTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.30, C:0.25, G:0.13, T:0.32
Consensus pattern (29 bp):
ACACTACCCAATATATACTGTCGGTTTAG
Found at i:35581763 original size:3 final size:3
Alignment explanation
Indices: 35581755--35581794 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
35581745 TTTTTAATCC
35581755 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
35581795 CCTTCTTTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:35582267 original size:25 final size:25
Alignment explanation
Indices: 35582234--35582322 Score: 70
Period size: 25 Copynumber: 3.4 Consensus size: 25
35582224 TAATGTTTGA
*
35582234 TATTATTATGTTTATAAATTTCAAG
1 TATTTTTATGTTTATAAATTTCAAG
* * ** * *
35582259 TATTTTTATATCTATATTTTTGATG
1 TATTTTTATGTTTATAAATTTCAAG
35582284 TTTGATATTATTATGTTTATAAATTTCAAG
1 --T-AT-TT-TTATGTTTATAAATTTCAAG
35582314 TATTTTTAT
1 TATTTTTAT
35582323 ATCTATATAT
Statistics
Matches: 46, Mismatches: 13, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
25 22 0.48
26 2 0.04
27 3 0.07
28 3 0.07
29 2 0.04
30 14 0.30
ACGTcount: A:0.30, C:0.03, G:0.08, T:0.58
Consensus pattern (25 bp):
TATTTTTATGTTTATAAATTTCAAG
Found at i:35582286 original size:55 final size:55
Alignment explanation
Indices: 35582221--35582330 Score: 211
Period size: 55 Copynumber: 2.0 Consensus size: 55
35582211 TATATTATTG
35582221 TTTTAATGTTTGATATTATTATGTTTATAAATTTCAAGTATTTTTATATCTATAT
1 TTTTAATGTTTGATATTATTATGTTTATAAATTTCAAGTATTTTTATATCTATAT
*
35582276 TTTTGATGTTTGATATTATTATGTTTATAAATTTCAAGTATTTTTATATCTATAT
1 TTTTAATGTTTGATATTATTATGTTTATAAATTTCAAGTATTTTTATATCTATAT
35582331 ATGTATTTTA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 54 1.00
ACGTcount: A:0.30, C:0.04, G:0.08, T:0.58
Consensus pattern (55 bp):
TTTTAATGTTTGATATTATTATGTTTATAAATTTCAAGTATTTTTATATCTATAT
Found at i:35584273 original size:40 final size:39
Alignment explanation
Indices: 35584229--35584353 Score: 125
Period size: 40 Copynumber: 3.2 Consensus size: 39
35584219 ATAATAGTTT
35584229 TTTTACTAAAAATAATACTAACTAACAATAATAATTAGGG
1 TTTTACTAAAAAT-ATACTAACTAACAATAATAATTAGGG
* *
35584269 TTTTACTAAAAATA-A-TAACTAACAATGAT-A-TAGTG
1 TTTTACTAAAAATATACTAACTAACAATAATAATTAGGG
*** *
35584304 TAAAAACTAACAATCATACTAACTAA-AATAATAATTAGGG
1 T-TTTACTAAAAAT-ATACTAACTAACAATAATAATTAGGG
35584344 TTTTTACTAA
1 -TTTTACTAA
35584354 TCCTGATAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
35 5 0.07
36 9 0.13
37 14 0.21
38 7 0.10
39 9 0.13
40 22 0.33
41 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.07, T:0.33
Consensus pattern (39 bp):
TTTTACTAAAAATATACTAACTAACAATAATAATTAGGG
Found at i:35584292 original size:37 final size:37
Alignment explanation
Indices: 35584203--35584303 Score: 109
Period size: 40 Copynumber: 2.7 Consensus size: 37
35584193 TAACTAACAC
* **
35584203 AATAATAAC-AATAATAATAATAGTTTTTTTACTAAA
1 AATAATAACTAACAATAATAATAGTGGTTTTACTAAA
35584239 AATAATACTAACTAACAATAATAATTAG-GGTTTTACTAAA
1 AAT-A-A-TAACTAACAATAATAA-TAGTGGTTTTACTAAA
*
35584279 AATAATAACTAACAATGAT-ATAGTG
1 AATAATAACTAACAATAATAATAGTG
35584304 TAAAAACTAA
Statistics
Matches: 55, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
35 3 0.05
36 5 0.09
37 14 0.25
38 2 0.04
39 5 0.09
40 23 0.42
41 3 0.05
ACGTcount: A:0.51, C:0.08, G:0.07, T:0.34
Consensus pattern (37 bp):
AATAATAACTAACAATAATAATAGTGGTTTTACTAAA
Found at i:35584638 original size:24 final size:21
Alignment explanation
Indices: 35584611--35584664 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
35584601 ATTTTTTTCC
35584611 TTCTCTTTCTTTCTCATTTCTCTA
1 TTCTCTTTC--TCTCATTT-TCTA
*
35584635 TTCTCTTTCTCTCATTTTCTT
1 TTCTCTTTCTCTCATTTTCTA
*
35584656 TTCTTTTTC
1 TTCTCTTTC
35584665 CAGCACCGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 11 0.39
22 8 0.29
24 9 0.32
ACGTcount: A:0.06, C:0.28, G:0.00, T:0.67
Consensus pattern (21 bp):
TTCTCTTTCTCTCATTTTCTA
Found at i:35584691 original size:3 final size:3
Alignment explanation
Indices: 35584677--35584714 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
35584667 GCACCGCCCT
* *
35584677 CTC CTT CTC CTC CTC TTC CTC CTC CTC CTC CTC CTC CT
1 CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CTC CT
35584715 TCTTCTTCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (3 bp):
CTC
Found at i:35584845 original size:39 final size:41
Alignment explanation
Indices: 35584776--35584872 Score: 135
Period size: 40 Copynumber: 2.4 Consensus size: 41
35584766 CGTTTGGACA
* **
35584776 AAAAACGCCGGTAAAAATAGAGCATTAGCGGC-TTTTTTTG
1 AAAAACGCCGCTAAAAATAGAGCATTAGCGGCGTTTTTCCG
*
35584816 AAAATCGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTTCCG
1 AAAAACGCCGCTAAAAATAGAGCATTAGCGGCGTTTTTCCG
*
35584856 AAAAACGCCGCAAAAAA
1 AAAAACGCCGCTAAAAA
35584873 CCTAAGCCCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
39 13 0.26
40 37 0.74
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAATAGAGCATTAGCGGCGTTTTTCCG
Found at i:35585367 original size:14 final size:15
Alignment explanation
Indices: 35585328--35585374 Score: 62
Period size: 14 Copynumber: 3.3 Consensus size: 15
35585318 TATTTTAAGG
*
35585328 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
*
35585343 TTTAGGAATTATGGA
1 TTTAGGGATTATGGA
35585358 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
35585371 TTTA
1 TTTA
35585375 AGGGTTGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 15 0.54
15 13 0.46
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:35585395 original size:21 final size:21
Alignment explanation
Indices: 35585361--35585416 Score: 60
Period size: 21 Copynumber: 2.6 Consensus size: 21
35585351 TTATGGATTA
*
35585361 GGGA-TTATGGTTTAAGGGTT
1 GGGATTTAAGGTTTAAGGGTT
*
35585381 GGGATTTAAGGTTTAGGGGTT
1 GGGATTTAAGGTTTAAGGGTT
*
35585402 AGGAGTTTAGAGGTT
1 GGGA-TTTA-AGGTT
35585417 AGACGTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 17 0.57
22 4 0.13
23 5 0.17
ACGTcount: A:0.21, C:0.00, G:0.41, T:0.38
Consensus pattern (21 bp):
GGGATTTAAGGTTTAAGGGTT
Found at i:35585411 original size:15 final size:15
Alignment explanation
Indices: 35585391--35585456 Score: 59
Period size: 15 Copynumber: 4.5 Consensus size: 15
35585381 GGGATTTAAG
35585391 GTTTAGGGGTTAGGA
1 GTTTAGGGGTTAGGA
*
35585406 GTTTAGAGGTTA-GA
1 GTTTAGGGGTTAGGA
*
35585420 CG-TTAGGGGTTAAGA
1 -GTTTAGGGGTTAGGA
*
35585435 G-TTAGGGATTTAGGA
1 GTTTAGGG-GTTAGGA
35585450 -TTTAGGG
1 GTTTAGGG
35585457 ATTCAGGGGT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
14 18 0.42
15 25 0.58
ACGTcount: A:0.24, C:0.02, G:0.41, T:0.33
Consensus pattern (15 bp):
GTTTAGGGGTTAGGA
Found at i:35585418 original size:22 final size:22
Alignment explanation
Indices: 35585376--35585467 Score: 50
Period size: 22 Copynumber: 4.2 Consensus size: 22
35585366 TATGGTTTAA
* *
35585376 GGGTTGGGATTTA-AGGTTTAG
1 GGGTTAGGATTTAGAGGATTAG
35585397 GGGTTAGGAGTTTAGAGG-TTAG
1 GGGTTAGGA-TTTAGAGGATTAG
** **
35585419 ACGTTAGGGGTTA-A-GAGTTAG
1 GGGTTAGGATTTAGAGGA-TTAG
*
35585440 GGATTTAGGATTTAG-GGATTCAG
1 GG-GTTAGGATTTAGAGGATT-AG
35585463 GGGTT
1 GGGTT
35585468 GGGTTAGGGT
Statistics
Matches: 52, Mismatches: 11, Indels: 15
0.67 0.14 0.19
Matches are distributed among these distances:
19 1 0.02
20 1 0.02
21 15 0.29
22 26 0.50
23 9 0.17
ACGTcount: A:0.23, C:0.02, G:0.41, T:0.34
Consensus pattern (22 bp):
GGGTTAGGATTTAGAGGATTAG
Found at i:35585430 original size:14 final size:13
Alignment explanation
Indices: 35585393--35585441 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
35585383 GATTTAAGGT
35585393 TTAGGGGTTAGGAG
1 TTAGGGGTTA-GAG
*
35585407 TTTAGAGGTTAGACG
1 -TTAGGGGTTAGA-G
35585422 TTAGGGGTTAAGAG
1 TTAGGGGTT-AGAG
35585436 TTAGGG
1 TTAGGG
35585442 ATTTAGGATT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 17 0.57
15 13 0.43
ACGTcount: A:0.24, C:0.02, G:0.43, T:0.31
Consensus pattern (13 bp):
TTAGGGGTTAGAG
Found at i:35585735 original size:21 final size:21
Alignment explanation
Indices: 35585691--35585735 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
35585681 GATTTAAGGT
* * *
35585691 TTAGAGGTTAGGGGTTAGGGG
1 TTAGACGTTAGGGGTTAAGAG
35585712 TTAGACGTTAGGGGTTAAGAG
1 TTAGACGTTAGGGGTTAAGAG
35585733 TTA
1 TTA
35585736 AGGATTTAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.24, C:0.02, G:0.42, T:0.31
Consensus pattern (21 bp):
TTAGACGTTAGGGGTTAAGAG
Found at i:35586015 original size:23 final size:24
Alignment explanation
Indices: 35585984--35586069 Score: 97
Period size: 23 Copynumber: 3.6 Consensus size: 24
35585974 AAACCATTTG
35585984 ATATA-TTTAAATAGAATTAATAA
1 ATATAGTTTAAATAGAATTAATAA
* * *
35586007 ATA-AGTTTAATTAAAATCTATTTAA
1 ATATAGTTTAAATAGAAT-TA-ATAA
35586032 ATATTAGTTTAAATAGAATTAATAA
1 ATA-TAGTTTAAATAGAATTAATAA
35586057 ATATA-TTTAAATA
1 ATATAGTTTAAATA
35586070 TTAGTTTAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
22 1 0.02
23 21 0.40
24 4 0.08
25 12 0.23
26 2 0.04
27 12 0.23
ACGTcount: A:0.52, C:0.01, G:0.05, T:0.42
Consensus pattern (24 bp):
ATATAGTTTAAATAGAATTAATAA
Found at i:35591280 original size:21 final size:22
Alignment explanation
Indices: 35591231--35591280 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
35591221 TTTAAATTTT
*
35591231 ATAAAAA-TATTCAAAAAGTTT
1 ATAAAAATTATTCAAAAAGTTC
35591252 A-AATAAATTATT-AAAAAGTTC
1 ATAA-AAATTATTCAAAAAGTTC
35591273 ATAAAAAT
1 ATAAAAAT
35591281 AAAAAAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
20 2 0.08
21 17 0.68
22 6 0.24
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (22 bp):
ATAAAAATTATTCAAAAAGTTC
Found at i:35591631 original size:19 final size:19
Alignment explanation
Indices: 35591600--35591638 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
35591590 TTATATGGAT
35591600 ATAATTATATAAAATAAAA
1 ATAATTATATAAAATAAAA
*
35591619 ATAATGTAT-TAAATTAAAA
1 ATAAT-TATATAAAATAAAA
35591638 A
1 A
35591639 GTTGGTATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
ATAATTATATAAAATAAAA
Found at i:35595277 original size:13 final size:13
Alignment explanation
Indices: 35595259--35595283 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
35595249 ACAAACAATA
35595259 AAATTTTCACACG
1 AAATTTTCACACG
35595272 AAATTTTCACAC
1 AAATTTTCACAC
35595284 ATAAATTAAC
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:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:35598214 original size:25 final size:24
Alignment explanation
Indices: 35598186--35598239 Score: 58
Period size: 23 Copynumber: 2.2 Consensus size: 24
35598176 AAAAAAACCT
*
35598186 AAAAAGCGTGCTATA-TAAGCAGAGG
1 AAAAA-CGAGCTATAGT-AGCAGAGG
*
35598211 -AAAATGAGCTATAGTAGCAGAGG
1 AAAAACGAGCTATAGTAGCAGAGG
35598234 AAAAAC
1 AAAAAC
35598240 TCTCAAAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
23 15 0.62
24 9 0.38
ACGTcount: A:0.48, C:0.11, G:0.26, T:0.15
Consensus pattern (24 bp):
AAAAACGAGCTATAGTAGCAGAGG
Found at i:35598267 original size:20 final size:20
Alignment explanation
Indices: 35598229--35598267 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
35598219 CTATAGTAGC
* * *
35598229 AGAGGAAAAACTCTCAAAGA
1 AGAGAAAAAACCCTAAAAGA
35598249 AGAGAAAAAACCCTAAAAG
1 AGAGAAAAAACCCTAAAAG
35598268 CTAATCCAGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.59, C:0.15, G:0.18, T:0.08
Consensus pattern (20 bp):
AGAGAAAAAACCCTAAAAGA
Found at i:35598671 original size:94 final size:93
Alignment explanation
Indices: 35598562--35599010 Score: 321
Period size: 94 Copynumber: 4.8 Consensus size: 93
35598552 TATTGTTAAA
* *
35598562 TCAATGTGAGATTAAAATGAACTTTTTAATAAAAATAATGAAGAAATTATCACTTATTTATAAAG
1 TCAATGTGGGATTAAAATTAACTTTTTAATAAAAATAATGAAGAAATTATCACTTATTTATAAAG
*
35598627 TAAATGTGATATATGAGAGTGTTCTCTAG
66 TAAATGTGATATATAAGAGTGTT-TCTAG
* * * *
35598656 TCAACGTGTGATTAAAAATTAACTATTTAATAAAAATAATGAAGAAATT-TACACTGATTTATAA
1 TCAATGTGGGATT-AAAATTAACTTTTTAATAAAAATAATGAAGAAATTAT-CACTTATTTATAA
* * *
35598720 GGTAAGTGT-AT-TCATGAGAGTGTTCTCTCA-
64 AGTAAATGTGATAT-ATAAGAGTGTT-TCT-AG
* * * * * *** * * *
35598750 CCAAGGTGGGATGAAAATTAACTTTTT-TTAAAGGAT--T--A-AAATTAATTTTTTAATAAAAA
1 TCAATGTGGGATTAAAATTAACTTTTTAATAAA-AATAATGAAGAAATT-ATCACTTATTTATAA
* * * * *
35598809 TAGTGAAGAAGTAAGTTATAAAAGAAT-TTTCTAT
64 -AGT-AA-ATGT--GATATATAAGAGTGTTTCTAG
* * * *
35598843 TCAATGTGGGATAAAAATTAACTTTTTAATGAAAATAGTGAAGAAATTATCACTTAATTAT-AAG
1 TCAATGTGGGATTAAAATTAACTTTTTAATAAAAATAATGAAGAAATTATCACTTATTTATAAAG
* * *
35598907 ATAAATGTCAGATATAAGAGTATTTCTTAG
66 -TAAATGTGATATATAAGAGTGTTTC-TAG
* * * * *
35598937 TCAATGTGGGATTAAAGTTAACTTTTTAATGAAAATAGT-AAAAAAGTTGTCACTTATTTATAAA
1 TCAATGTGGGATTAAAATTAACTTTTTAATAAAAATAATGAAGAAA-TTATCACTTATTTATAAA
35599001 GTAAATGTGA
65 GTAAATGTGA
35599011 GACGAGACTT
Statistics
Matches: 277, Mismatches: 52, Indels: 52
0.73 0.14 0.14
Matches are distributed among these distances:
88 5 0.02
89 7 0.03
90 3 0.01
91 3 0.01
92 15 0.05
93 54 0.19
94 106 0.38
95 67 0.24
96 3 0.01
97 9 0.03
98 5 0.02
ACGTcount: A:0.43, C:0.06, G:0.15, T:0.36
Consensus pattern (93 bp):
TCAATGTGGGATTAAAATTAACTTTTTAATAAAAATAATGAAGAAATTATCACTTATTTATAAAG
TAAATGTGATATATAAGAGTGTTTCTAG
Found at i:35598780 original size:95 final size:95
Alignment explanation
Indices: 35598571--35598776 Score: 262
Period size: 95 Copynumber: 2.2 Consensus size: 95
35598561 ATCAATGTGA
* *
35598571 GATT-AAAATGAACTTTTTAATAAAAATAATGAAGAAATTATCACTTATTTATAAAGTAAATGTG
1 GATTAAAAATTAACTTTTTAATAAAAATAATGAAGAAATTATCACTGATTTATAAAGTAAATGTG
* *
35598635 ATATATGAGAGTGTTCTCTAGTCAACGTGT
66 ATATATGAGAGTGTTCTCTAGCCAACGTGG
* * *
35598665 GATTAAAAATTAACTATTTAATAAAAATAATGAAGAAATT-TACACTGATTTATAAGGTAAGTGT
1 GATTAAAAATTAACTTTTTAATAAAAATAATGAAGAAATTAT-CACTGATTTATAAAGTAAATGT
*
35598729 -AT-TCATGAGAGTGTTCTCTCA-CCAAGGTGG
65 GATAT-ATGAGAGTGTTCTCT-AGCCAACGTGG
*
35598759 GA-TGAAAATTAACTTTTT
1 GATTAAAAATTAACTTTTT
35598777 TTAAAGGATT
Statistics
Matches: 98, Mismatches: 10, Indels: 9
0.84 0.09 0.08
Matches are distributed among these distances:
93 15 0.15
94 30 0.31
95 53 0.54
ACGTcount: A:0.41, C:0.08, G:0.16, T:0.35
Consensus pattern (95 bp):
GATTAAAAATTAACTTTTTAATAAAAATAATGAAGAAATTATCACTGATTTATAAAGTAAATGTG
ATATATGAGAGTGTTCTCTAGCCAACGTGG
Found at i:35598801 original size:22 final size:23
Alignment explanation
Indices: 35598758--35598802 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 23
35598748 CACCAAGGTG
35598758 GGATGAAAATTAACTTTTTTTAAA
1 GGATGAAAATTAAC-TTTTTTAAA
*
35598782 GGATTAAAATTAA-TTTTTTAA
1 GGATGAAAATTAACTTTTTTAA
35598803 TAAAAATAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
24 12 0.60
ACGTcount: A:0.42, C:0.02, G:0.11, T:0.44
Consensus pattern (23 bp):
GGATGAAAATTAACTTTTTTAAA
Done.