Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold11
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: 5230303
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 140504 characters in sequence are not A, C, G, or T
File 3 of 29
Found at i:272330 original size:30 final size:31
Alignment explanation
Indices: 272294--272375 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
272284 ATACCTTTTT
272294 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
272324 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
272355 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
272376 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:272459 original size:34 final size:34
Alignment explanation
Indices: 272411--273140 Score: 702
Period size: 34 Copynumber: 21.9 Consensus size: 34
272401 CCGTGGCACC
*
272411 CTTTAAAGCCCACAATTCCGTGGCACTTTTTTCAT
1 CTTTAAAGCCCACAACTCCGTGGCACTTTTTTC-T
* *
272446 CTTT-AAGTCCACAACTCCGTGGCAC-----CCT
1 CTTTAAAGCCCACAACTCCGTGGCACTTTTTTCT
* *
272474 -TTTAAAGCCCACAATTCTGTGGCACTTTTTTCAT
1 CTTTAAAGCCCACAACTCCGTGGCACTTTTTTC-T
*
272508 CTTT-AAGTCCACAACTCCGTGGCAC------C-
1 CTTTAAAGCCCACAACTCCGTGGCACTTTTTTCT
*
272534 CGTTT-AAGCCCACAACTCCGTGGCACCTTTTTCT
1 C-TTTAAAGCCCACAACTCCGTGGCACTTTTTTCT
*
272568 -TTT-AAGCCCACAACTCCGTGGCACCTTTTTCT
1 CTTTAAAGCCCACAACTCCGTGGCACTTTTTTCT
* *
272600 -TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 CTTTAAAGCCCACAACTCCGTGGCACT-TTTTTCT
*
272634 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 C-TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCT
* *
272670 -TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 CTTTAAAGCCCACAACTCCGTGGCACT-TTTTTCT
*
272704 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 C-TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCT
* *
272740 GTTTTAAAGCCCACAACTCCGTGGCACTCTTTTCT
1 -CTTTAAAGCCCACAACTCCGTGGCACTTTTTTCT
*
272775 CTTTTCAAAGCCCACGACTCCGTGGCA-------CT
1 C-TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCT
* *
272804 CTTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 CTTTAAAGCCCACAACTCCGTGGCACTTTTTTCT
* *
272838 -TTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 CTTT-AAAGCCCACAACTCCGTGGCACT-TTTTTCT
*
272873 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 C-TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCT
* * * *
272909 GTTTAAAGCCCACAACTCTGTGGCACCTTCTTCT
1 CTTTAAAGCCCACAACTCCGTGGCACTTTTTTCT
* *
272943 -TTTCAAAGCCCACGACTCTGTGGCAC-----TCT
1 CTTT-AAAGCCCACAACTCCGTGGCACTTTTTTCT
* *
272972 TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT
1 CTTTAAAGCCCACAACTCCGTGGCACTTTTTTCT
* *
273006 GTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTAAAGCCCACAACTCCGTGGCACT-TTTTTCT
273041 CTTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCT
1 C-TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCT
*
273077 -TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTAAAGCCCACAACTCCGTGGCACT-TTTTTCT
* *
273111 CTTTTAAGTCCACAACTCCGTGGCATCTTT
1 CTTTAAAGCCCACAACTCCGTGGCA-CTTT
273141 CTCCCTTCTC
Statistics
Matches: 593, Mismatches: 50, Indels: 104
0.79 0.07 0.14
Matches are distributed among these distances:
26 1 0.00
27 46 0.08
28 23 0.04
29 27 0.05
30 3 0.01
32 35 0.06
33 72 0.12
34 162 0.27
35 76 0.13
36 58 0.10
37 90 0.15
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.33
Consensus pattern (34 bp):
CTTTAAAGCCCACAACTCCGTGGCACTTTTTTCT
Found at i:272660 original size:70 final size:68
Alignment explanation
Indices: 272324--273140 Score: 889
Period size: 70 Copynumber: 12.4 Consensus size: 68
272314 ATTTTGTCTC
* * * * *
272324 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-CTTGTTCCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
272386 TTT
66 TTT
* * *
272389 -AAGTCCACAACTCCGTGGCACC-----C-TTTAAAGCCCACAATTCCGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
272446 CTTT
66 -TTT
* * * *
272450 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
272508 CTTT
66 -TTT
* *
272512 -AAGTCCACAACTCCGTGGCACC-----CGTTT-AAGCCCACAACTCCGTGGCAC-CTTTTT-CT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
272568 TTT
66 TTT
*
272571 -AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CC
272635 TTTT
65 TTTT
*
272639 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-C
272704 CTTTT
64 CTTTT
272709 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTTAAAGCCCACAACTCCGTGGCACTC-TTTT
1 -AAAGCCCACAACTCCGTGGCACCTTTTTC--TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
272773 CTCTTTT
63 C-CTTTT
* *
272780 CAAAGCCCACGACTCCGTGGCA-C----TC-TTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-C
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
272837 TTTT
65 TTTT
*
272841 CAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTT
1 -AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTTT
272905 TT-CTGTTT
61 TTCCT-TTT
* * * *
272913 AAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCTGTGGCACTC----T--
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCC
272972 TTTT
65 TTTT
272976 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT-C
273041 CTTTT
64 CTTTT
*
273046 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-C
273111 CTTTT
64 CTTTT
* *
273116 -AAGTCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
273141 CTCCCTTCTC
Statistics
Matches: 680, Mismatches: 31, Indels: 79
0.86 0.04 0.10
Matches are distributed among these distances:
59 24 0.04
60 32 0.05
61 75 0.11
62 64 0.09
63 82 0.12
64 26 0.04
65 21 0.03
66 8 0.01
67 2 0.00
68 53 0.08
69 2 0.00
70 151 0.22
71 110 0.16
72 30 0.04
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.32
Consensus pattern (68 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
TTT
Found at i:272840 original size:168 final size:168
Alignment explanation
Indices: 272640--273140 Score: 820
Period size: 168 Copynumber: 3.0 Consensus size: 168
272630 TTCCCTTTTC
272640 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
272705 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTTAAAGCCCACAACTCCGTGGCACTCT
66 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTTAAAGCCCACAACTCCGTGGCACTCT
272770 TTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTCTTT
131 TTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTCTTT
*
272808 AAAGCCCACAACTCCGTGGCACCTTCTTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCTGTGGCACTCTTTTTCC
*
272873 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG-TTTAAAGCCCACAACTCTGTGGCAC-C
65 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTTAAAGCCCACAACTCCGTGGCACTC
* *
272936 TTCT-TCTTTTCAAAGCCCACGACTCTGTGGCACTCTTTTT
130 TTTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTC--TTT
*
272976 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
*
273041 CTTTTCAAAGCCCACAACTCCGTGGCA-CTTTTT-TCTTTTAAAGCCCACAACTCCGTGGCACTC
65 CTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTTAAAGCCCACAACTCCGTGGCACTC
* * *
273104 TTTTTCCCTTTT--AAGTCCACAACTCCGTGGCA-TCTTT
130 -TTTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTCTTT
273141 CTCCCTTCTC
Statistics
Matches: 312, Mismatches: 13, Indels: 19
0.91 0.04 0.06
Matches are distributed among these distances:
165 3 0.01
166 31 0.10
167 36 0.12
168 163 0.52
169 74 0.24
170 5 0.02
ACGTcount: A:0.20, C:0.34, G:0.13, T:0.32
Consensus pattern (168 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTTAAAGCCCACAACTCCGTGGCACTCT
TTTCTCTTTTCAAAGCCCACGACTCCGTGGCACTCTTT
Found at i:273159 original size:105 final size:102
Alignment explanation
Indices: 272539--273161 Score: 738
Period size: 105 Copynumber: 6.1 Consensus size: 102
272529 GCACCCGTTT
* *
272539 AAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
* *
272603 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCA
66 AAAGCCCACAACTCCGTGGCA-TCTTTCTCCCTTTTCA
* *
272641 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CC-
* * **
272706 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTT-A
63 TTT-AAAGCCCACAACTCCGTGGCATCTTTCTCCCTTTTCA
*
272746 AAGCCCACAACTCCGTGGCACTCTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-C----T-C
1 AAGCCCACAACTCCGTGGCACT-TTTT-TCTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCC
* *
272805 TTTAAAGCCCACAACTCCGTGGCA-CCTTCT-TCTTTTCA
63 TTTAAAGCCCACAACTCCGTGGCATCTTTCTCCCTTTTCA
*
272843 AAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
1 AAGCCCACAACTCCGTGGCACT-TTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
* * * *
272908 TGTTTAAAGCCCACAACTCTGTGGCA-CCTTCT-TCTTTTCA
62 -CTTTAAAGCCCACAACTCCGTGGCATCTTTCTCCCTTTTCA
* * * *
272948 AAGCCCACGACTCTGTGGCAC---TCT-TTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC-CTT
*
273009 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
65 TAAAGCCCACAACTCCGTGGCA-TCTTTCTCCCTTTTCA
273048 AAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCT
* * *
273113 TTTAAGTCCACAACTCCGTGGCATCTTTCTCCCTTCTCTA
64 TTAAAGCCCACAACTCCGTGGCATCTTTCTCCCTTTTC-A
273153 AAGCCCACA
1 AAGCCCACA
273162 CAAGTCGGTG
Statistics
Matches: 463, Mismatches: 30, Indels: 53
0.85 0.05 0.10
Matches are distributed among these distances:
96 6 0.01
97 85 0.18
98 51 0.11
99 8 0.02
100 27 0.06
101 2 0.00
102 33 0.07
103 23 0.05
104 45 0.10
105 118 0.25
106 20 0.04
107 26 0.06
108 19 0.04
ACGTcount: A:0.20, C:0.35, G:0.13, T:0.32
Consensus pattern (102 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
AAAGCCCACAACTCCGTGGCATCTTTCTCCCTTTTCA
Found at i:273228 original size:33 final size:33
Alignment explanation
Indices: 273143--273282 Score: 210
Period size: 33 Copynumber: 4.2 Consensus size: 33
273133 GCATCTTTCT
273143 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGC-AA
* *
273177 CCATTCTCTAAAGCCCACACAAGTTGGTGGCAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
* *
273210 TCCCTTC-CCAAAGCCCACACAAGTTGGTGGCAA
1 -CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
273243 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
273276 CCCTTCT
1 CCCTTCT
273283 AAGCCCAATA
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
32 5 0.05
33 57 0.59
34 34 0.35
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (33 bp):
CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:273263 original size:66 final size:68
Alignment explanation
Indices: 273142--273282 Score: 234
Period size: 66 Copynumber: 2.1 Consensus size: 68
273132 GGCATCTTTC
* *
273142 TCCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCATTCTCTAAAGCCCACACAAGTTGGTGG
1 TCCCTTCTCCAAAGCCCACACAAGTCGGTGGCAAACCATTCTCTAAAGCCCACACAAGTCGGTGG
273207 CAA
66 CAA
*
273210 TCCCTTC-CCAAAGCCCACACAAGTTGGTGGC-AACCATTCTCTAAAGCCCACACAAGTCGGTGG
1 TCCCTTCTCCAAAGCCCACACAAGTCGGTGGCAAACCATTCTCTAAAGCCCACACAAGTCGGTGG
273273 CAA
66 CAA
273276 -CCCTTCT
1 TCCCTTCT
273283 AAGCCCAATA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
65 6 0.09
66 34 0.49
67 22 0.32
68 7 0.10
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.21
Consensus pattern (68 bp):
TCCCTTCTCCAAAGCCCACACAAGTCGGTGGCAAACCATTCTCTAAAGCCCACACAAGTCGGTGG
CAA
Found at i:273615 original size:49 final size:49
Alignment explanation
Indices: 273282--273607 Score: 423
Period size: 49 Copynumber: 6.8 Consensus size: 49
273272 GCAACCCTTC
* *
273282 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
273331 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
273379 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
273422 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
273471 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
273520 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
273569 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
273608 TCTTTATCAC
Statistics
Matches: 244, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
43 40 0.16
45 1 0.00
48 43 0.18
49 160 0.66
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:273703 original size:49 final size:49
Alignment explanation
Indices: 273624--273911 Score: 385
Period size: 49 Copynumber: 6.0 Consensus size: 49
273614 TCACTTTTCT
*
273624 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * * * *
273673 CACCTTCACCATTAAGTCCAATATAACTGGCCTTGAATCAGCATATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
273722 CACCTTCATCTTTAAGCCCAATGTAGCTGGCCTTG-ATCAGCACATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
273770 CACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * * *
273817 -A----CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
273861 CACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CACC--TT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
273912 ACATCCTTTT
Statistics
Matches: 207, Mismatches: 22, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
43 37 0.18
44 1 0.00
45 1 0.00
46 1 0.00
47 30 0.14
48 27 0.13
49 73 0.35
52 37 0.18
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (49 bp):
CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
Found at i:273712 original size:116 final size:116
Alignment explanation
Indices: 273508--273723 Score: 297
Period size: 116 Copynumber: 1.9 Consensus size: 116
273498 AGCACATTGG
* * * *
273508 CACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAG
1 CACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAG
***
273573 CCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCT
66 CCCAATATAACTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCT
* * * * *
273624 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAG
1 CACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAG
* * *
273689 TCCAATATAACTGGCCTTGAATCAGCATATTGGCA
66 CCCAATATAACTGGCCGTGAATCAACATATTGGCA
273724 CCTTCATCTT
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
116 85 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (116 bp):
CACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAG
CCCAATATAACTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCT
Found at i:273839 original size:43 final size:43
Alignment explanation
Indices: 273731--273920 Score: 175
Period size: 43 Copynumber: 4.1 Consensus size: 43
273721 GCACCTTCAT
* *
273731 CTTTAAGCCCAATGTAGCTGGCCTTG-ATCAGCACATTGGCACCTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A---CAC
273778 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
* * * *
273821 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A-------CAC
*
273873 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA-C
273917 CTTT
1 CTTT
273921 TTCATCATCT
Statistics
Matches: 121, Mismatches: 11, Indels: 25
0.77 0.07 0.16
Matches are distributed among these distances:
43 39 0.32
44 5 0.04
45 1 0.01
46 1 0.01
47 26 0.21
48 11 0.09
50 1 0.01
51 1 0.01
52 36 0.30
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
Found at i:273894 original size:95 final size:91
Alignment explanation
Indices: 273731--273920 Score: 283
Period size: 95 Copynumber: 2.0 Consensus size: 91
273721 GCACCTTCAT
* *
273731 CTTTAAGCCCAATGTAGCTGGCCTTGATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAGC
1 CTTTAAGCCCAATATAGCTAGCCTTGATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAGC
273796 TGGCCTTGAATCAGCACATTGACA-C
66 TGGCCTTGAATCAGCACATTGACATC
* * *
273821 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGCCCAATATAGCTAGCCTTG-ATCAGCACATTGGCACC---T-CATCTTTAAGTCCAAT
273886 GTAGCTGGCCTTGAATCAGCACATTGACATC
61 GTAGCTGGCCTTGAATCAGCACATTGACATC
273917 CTTT
1 CTTT
273921 TTCATCATCT
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
90 23 0.26
91 16 0.18
94 1 0.01
95 44 0.49
96 5 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (91 bp):
CTTTAAGCCCAATATAGCTAGCCTTGATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAGC
TGGCCTTGAATCAGCACATTGACATC
Found at i:273899 original size:52 final size:53
Alignment explanation
Indices: 273821--273980 Score: 178
Period size: 52 Copynumber: 3.0 Consensus size: 53
273811 ACATTGACAC
*
273821 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCACAT
* * * *
273873 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCA-CAT
* * * * * *
273929 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCAC
273981 TTTTCTCATC
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
52 37 0.42
53 2 0.02
54 9 0.10
55 4 0.05
56 36 0.41
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCACAT
Found at i:273951 original size:56 final size:56
Alignment explanation
Indices: 273821--274157 Score: 259
Period size: 67 Copynumber: 5.7 Consensus size: 56
273811 ACATTGACAC
* * *
273821 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCA-CC-TTTTC--CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
* *
273873 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
* * * * * *
273929 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TCATC
273994 AT
55 AT
*
273996 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
* * * * * * *
274052 CTTTAAGCCCAATATCGTTGCCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TCATC
274117 AT
55 AT
* *
274119 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
274158 GCTTATCATC
Statistics
Matches: 225, Mismatches: 34, Indels: 38
0.76 0.11 0.13
Matches are distributed among these distances:
52 37 0.16
53 2 0.01
54 5 0.02
56 70 0.31
57 2 0.01
58 3 0.01
59 5 0.02
60 1 0.00
61 3 0.01
62 6 0.03
63 2 0.01
64 7 0.03
65 3 0.01
66 2 0.01
67 77 0.34
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.37
Consensus pattern (56 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
Found at i:274089 original size:123 final size:123
Alignment explanation
Indices: 273870--274157 Score: 531
Period size: 123 Copynumber: 2.3 Consensus size: 123
273860 GCACCTTTTC
*
273870 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAA
1 CATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAA
*
273935 GCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
66 GCCCAATATCGTTGCCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
273993 CATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAA
1 CATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAA
274058 GCCCAATATCGTTGCCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
66 GCCCAATATCGTTGCCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
* * *
274116 CATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTG
274158 GCTTATCATC
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 160 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.37
Consensus pattern (123 bp):
CATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAA
GCCCAATATCGTTGCCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
Found at i:275006 original size:33 final size:33
Alignment explanation
Indices: 274964--275033 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
274954 TTCAACGATT
274964 TGTATCGATACATAAAATGTCGTATCGATACAA
1 TGTATCGATACATAAAATGTCGTATCGATACAA
*** * *
274997 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTCGTATCGATACAA
275030 TGTA
1 TGTA
275034 AGCTACTGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTCGTATCGATACAA
Found at i:275091 original size:13 final size:13
Alignment explanation
Indices: 275073--275097 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
275063 ATTACTCACA
275073 TGTATCGATACAT
1 TGTATCGATACAT
275086 TGTATCGATACA
1 TGTATCGATACA
275098 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:275162 original size:52 final size:52
Alignment explanation
Indices: 275106--275226 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
275096 CACTGATCTT
*
275106 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
275158 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
275210 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
275227 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:278486 original size:21 final size:21
Alignment explanation
Indices: 278461--278503 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
278451 CATGTCAGGA
278461 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
278482 GCATCTCGTCATGCAATGAAT
1 GCATCTCGTCATGCAATGAAT
278503 G
1 G
278504 TCATTTTGAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (21 bp):
GCATCTCGTCATGCAATGAAT
Found at i:282488 original size:1 final size:1
Alignment explanation
Indices: 282482--282514 Score: 57
Period size: 1 Copynumber: 33.0 Consensus size: 1
282472 TAATCTTCAC
*
282482 AAAAAAAAAAAAAAAAAAAAAAAAAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
282515 CCCCTTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:0.97, C:0.00, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:283487 original size:30 final size:31
Alignment explanation
Indices: 283451--283532 Score: 112
Period size: 30 Copynumber: 2.7 Consensus size: 31
283441 ATACCTTTTT
283451 AAAGTCCACGACTCAGTGGCATTTTGTC-TC
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* *
283481 AAAGTCCACGACTCAGTGGCATTTTTTCTTT
1 AAAGTCCACGACTCAGTGGCATTTTGTCTTC
* * *
283512 AAAGCCCACAACTCCGTGGCA
1 AAAGTCCACGACTCAGTGGCA
283533 CCTTGTTCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
30 27 0.59
31 19 0.41
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCATTTTGTCTTC
Found at i:283616 original size:34 final size:34
Alignment explanation
Indices: 283448--284300 Score: 756
Period size: 34 Copynumber: 25.8 Consensus size: 34
283438 CAAATACCTT
* * * *
283448 TTTAAAGTCCACGACTCAGTGGCA-TTTTGTCTC
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* * *
283481 ---AAAGTCCACGACTCAGTGGCA--TTTTT-TC
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
283509 TTTAAAGCCCACAACTCCGTGGCACCTTGTTC-C
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* * *
283542 TTTTAAGTCCACAACTCCGTGGCAC-----CCT-
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
*
283570 TTTAAAGCCCACAATTCCGTGGCACTTTTTTCATC
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TC
* *
283605 TTT-AAGTCCACAACTCCGTGGCAC-----CCT-
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
283632 TTTAAAGCCCACAATTCTGTGGCACTTTTTTCATC
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTC-TC
*
283667 TTT-AAGTCCACAACTCCGTGGCAC------C-C
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
283693 GTTT-AAGCCCACAACTCCGTGGCACCTTTTTCTT
1 -TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
*
283727 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
283760 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC
*
283795 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT-
1 -TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
283830 TTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC
* *
283865 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG
1 -TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTC
283901 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTC
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC
*
283936 TTTTCAAAGCCCACGACTCCGTGGCA-------CTC
1 -TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
283965 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT-
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
283998 TTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 TTT-AAAGCCCACAACTCCGTGGCACT-TTTTTCTC
* *
284034 TTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCTG
1 -TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTC
* * *
284070 TTTAAAGCCCACAACTCTGTGGCACCTTCTTCT-
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
* * *
284103 TTTCAAAGCCCACGACTCTGTGGCAC-----TCTT
1 TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTC
* *
284133 TTTAAAGCCCACAACTCCGTGGCACCTTTTTCTG
1 TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
*
284167 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC
284202 TTTTCAAAGCCCACAACTCCGTGGCACTTTTTTCT-
1 -TTT-AAAGCCCACAACTCCGTGGCACTTTTTTCTC
*
284237 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 TTTAAAGCCCACAACTCCGTGGCACT-TTTTTCTC
* *
284272 TTTTAAGTCCACAACTCCGTGGCATCTTT
1 TTTAAAGCCCACAACTCCGTGGCA-CTTT
284301 CTCCCTTCTC
Statistics
Matches: 692, Mismatches: 62, Indels: 130
0.78 0.07 0.15
Matches are distributed among these distances:
26 1 0.00
27 46 0.07
28 48 0.07
29 31 0.04
30 24 0.03
31 18 0.03
33 108 0.16
34 214 0.31
35 54 0.08
36 38 0.05
37 110 0.16
ACGTcount: A:0.21, C:0.33, G:0.13, T:0.33
Consensus pattern (34 bp):
TTTAAAGCCCACAACTCCGTGGCACTTTTTTCTC
Found at i:283705 original size:27 final size:27
Alignment explanation
Indices: 283667--283718 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
283657 TTTTTTCATC
*
283667 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
283694 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
283719 TTTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:283814 original size:70 final size:68
Alignment explanation
Indices: 283481--284300 Score: 923
Period size: 70 Copynumber: 12.4 Consensus size: 68
283471 ATTTTGTCTC
* * * * *
283481 AAAGTCCACGACTCAGTGGCA-TTTTTTC-TTTAAAGCCCACAACTCCGTGGCAC-CTTGTTCCT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
283543 TTT
66 TTT
* * *
283546 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCCGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
283604 CTTT
66 -TTT
* * * *
283608 -AAGTCCACAACTCCGTGGCACC-----CTTTTAAAGCCCACAATTCTGTGGCACT-TTTTTCAT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
283666 CTTT
66 -TTT
* * *
283670 -AAGTCCACAACTCCGTGGCACC-----CGTTT-AAGCCCACAACTCCGTGGCAC-CTTTTTCTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
283727 TTT
66 TTT
*
283730 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-CC
283795 TTTT
65 TTTT
*
283799 CAAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-C
283864 CTTTT
64 CTTTT
283869 CAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTTC
283934 TCTTTT
64 -CTTTT
* *
283940 CAAAGCCCACGACTCCGTGGCA-C----TC-TTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-C
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
283997 TTTT
65 TTTT
*
284001 CAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCAC-CTTT
1 -AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTT-AAAGCCCACAACTCCGTGGCACTCTTT
284065 TT-CTGTTT
61 TTCCT-TTT
* * * *
284073 AAAGCCCACAACTCTGTGGCACCTTCTTCTTTTCAAAGCCCACGACTCTGTGGCACTC----T--
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCC
284132 TTTT
65 TTTT
284136 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 AAAGCCCACAACTCCGTGGCACCTTTTTCT-TTTAAAGCCCACAACTCCGTGGCACTCTTTTT-C
284201 CTTTT
64 CTTTT
*
284206 CAAAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 -AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTT-C
284271 CTTTT
64 CTTTT
* *
284276 -AAGTCCACAACTCCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
284301 CTCCCTTCTC
Statistics
Matches: 685, Mismatches: 32, Indels: 73
0.87 0.04 0.09
Matches are distributed among these distances:
60 4 0.01
61 102 0.15
62 90 0.13
63 59 0.09
64 47 0.07
65 1 0.00
66 6 0.01
67 22 0.03
68 54 0.08
69 7 0.01
70 153 0.22
71 137 0.20
72 3 0.00
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.33
Consensus pattern (68 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCT
TTT
Found at i:284149 original size:97 final size:100
Alignment explanation
Indices: 283697--284321 Score: 647
Period size: 105 Copynumber: 6.1 Consensus size: 100
283687 GCACCCGTTT
283697 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCT-T
1 AAGCCCACAACTCCGTGGCA-C---TTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGT
* *
283761 TTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCA
62 TTAAAGCCCACAACTCCGTGGCACTCTTCTT-CCTTTTCA
* *
283801 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAGCCCACAACTCTGTGGCACTCTTTTTCCCT
1 AAGCCCACAACTCCGTGGCA-C-TTCT-TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTT--CT
*
283866 -TTTCAAAGCCCACAACTCCGTGGCAC-CTT-TTTCTGTTT-A
60 GTTT-AAAGCCCACAACTCCGTGGCACTCTTCTTCCT-TTTCA
*
283905 AAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTCAAAGCCCACGACTCCGTGGCA-C----TC
1 AAGCCCACAACTCCGTGGCA--C---TTCT-TTTT-AAAGCCCACAACTCCGTGGCACCTTTTTC
283965 --TTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-CTTTTCA
59 TGTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCTTTTCA
* *
284003 AAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTTC
1 AAGCCCACAACTCCGTGGCA--C---TT--CTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTC
*
284068 TGTTTAAAGCCCACAACTCTGTGGCAC-CTTCTT-CTTTTCA
59 TGTTTAAAGCCCACAACTCCGTGGCACTCTTCTTCCTTTTCA
* *
284108 AAGCCCACGACTCTGTGGCAC-TCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAA
1 AAGCCCACAACTCCGTGGCACTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAA
*
284172 AGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
66 AGCCCACAACTCCGTGGCACTCTTCTT-CCTTTTCA
* **
284208 AAGCCCACAACTCCGTGGCACTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 AAGCCCACAACTCCGTGGCAC--TTCT-TTTTAAAGCCCACAACTCCGTGGCAC-CTTTTTCTGT
* * * *
284273 TTTAAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTCTCTA
62 TTAAAGCCCACAACTCCGTGGCACTC-TTCTTCCTTTTC-A
284313 AAGCCCACA
1 AAGCCCACA
284322 CAAGTCGGTG
Statistics
Matches: 464, Mismatches: 26, Indels: 61
0.84 0.05 0.11
Matches are distributed among these distances:
97 63 0.14
98 80 0.17
99 10 0.02
100 29 0.06
102 5 0.01
103 30 0.06
104 85 0.18
105 104 0.22
106 9 0.02
107 30 0.06
108 19 0.04
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.32
Consensus pattern (100 bp):
AAGCCCACAACTCCGTGGCACTTCTTTTTAAAGCCCACAACTCCGTGGCACCTTTTTCTGTTTAA
AGCCCACAACTCCGTGGCACTCTTCTTCCTTTTCA
Found at i:284388 original size:33 final size:33
Alignment explanation
Indices: 284303--284442 Score: 210
Period size: 33 Copynumber: 4.2 Consensus size: 33
284293 GCATCTTTCT
284303 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGC-AA
* *
284337 CCATTCTCTAAAGCCCACACAAGTTGGTGGCAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
* *
284370 TCCCTTC-CCAAAGCCCACACAAGTTGGTGGCAA
1 -CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
284403 CCATTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
284436 CCCTTCT
1 CCCTTCT
284443 AAGCCCAATA
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
32 5 0.05
33 57 0.59
34 34 0.35
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.20
Consensus pattern (33 bp):
CCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:284423 original size:66 final size:68
Alignment explanation
Indices: 284302--284442 Score: 234
Period size: 66 Copynumber: 2.1 Consensus size: 68
284292 GGCATCTTTC
* *
284302 TCCCTTCTCTAAAGCCCACACAAGTCGGTGGCAAACCATTCTCTAAAGCCCACACAAGTTGGTGG
1 TCCCTTCTCCAAAGCCCACACAAGTCGGTGGCAAACCATTCTCTAAAGCCCACACAAGTCGGTGG
284367 CAA
66 CAA
*
284370 TCCCTTC-CCAAAGCCCACACAAGTTGGTGGC-AACCATTCTCTAAAGCCCACACAAGTCGGTGG
1 TCCCTTCTCCAAAGCCCACACAAGTCGGTGGCAAACCATTCTCTAAAGCCCACACAAGTCGGTGG
284433 CAA
66 CAA
284436 -CCCTTCT
1 TCCCTTCT
284443 AAGCCCAATA
Statistics
Matches: 69, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
65 6 0.09
66 34 0.49
67 22 0.32
68 7 0.10
ACGTcount: A:0.28, C:0.35, G:0.17, T:0.21
Consensus pattern (68 bp):
TCCCTTCTCCAAAGCCCACACAAGTCGGTGGCAAACCATTCTCTAAAGCCCACACAAGTCGGTGG
CAA
Found at i:284775 original size:49 final size:49
Alignment explanation
Indices: 284442--284767 Score: 423
Period size: 49 Copynumber: 6.8 Consensus size: 49
284432 GCAACCCTTC
* *
284442 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * *
284491 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
284539 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
*
284582 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
284631 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* *
284680 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
* * * * *
284729 TAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA
284768 TCTTTATCAC
Statistics
Matches: 244, Mismatches: 27, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
43 40 0.16
45 1 0.00
48 43 0.18
49 160 0.66
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.29
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTT
Found at i:284863 original size:49 final size:49
Alignment explanation
Indices: 284784--285071 Score: 385
Period size: 49 Copynumber: 6.0 Consensus size: 49
284774 TCACTTTTCT
*
284784 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * * * *
284833 CACCTTCACCATTAAGTCCAATATAACTGGCCTTGAATCAGCATATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
284882 CACCTTCATCTTTAAGCCCAATGTAGCTGGCCTTG-ATCAGCACATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
284930 CACC-TCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
* * * *
284977 -A----CACCTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGG
1 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
*
285021 CACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 CACC--TT-CATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
285072 ACATCCTTTT
Statistics
Matches: 207, Mismatches: 22, Indels: 17
0.84 0.09 0.07
Matches are distributed among these distances:
43 37 0.18
44 1 0.00
45 1 0.00
46 1 0.00
47 30 0.14
48 27 0.13
49 73 0.35
52 37 0.18
ACGTcount: A:0.26, C:0.27, G:0.17, T:0.31
Consensus pattern (49 bp):
CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG
Found at i:284872 original size:116 final size:116
Alignment explanation
Indices: 284668--284883 Score: 297
Period size: 116 Copynumber: 1.9 Consensus size: 116
284658 AGCACATTGG
* * * *
284668 CACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAG
1 CACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAG
***
284733 CCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCT
66 CCCAATATAACTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCT
* * * * *
284784 CACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAG
1 CACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAG
* * *
284849 TCCAATATAACTGGCCTTGAATCAGCATATTGGCA
66 CCCAATATAACTGGCCGTGAATCAACATATTGGCA
284884 CCTTCATCTT
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
116 85 1.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.31
Consensus pattern (116 bp):
CACCTTCACCATTAAGCCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCACCATTAAG
CCCAATATAACTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCT
Found at i:284999 original size:43 final size:43
Alignment explanation
Indices: 284891--285080 Score: 175
Period size: 43 Copynumber: 4.1 Consensus size: 43
284881 GCACCTTCAT
* *
284891 CTTTAAGCCCAATGTAGCTGGCCTTG-ATCAGCACATTGGCACCTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A---CAC
284938 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
* * * *
284981 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A-------CAC
*
285033 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA-C
285077 CTTT
1 CTTT
285081 TTCATCATCT
Statistics
Matches: 121, Mismatches: 11, Indels: 25
0.77 0.07 0.16
Matches are distributed among these distances:
43 39 0.32
44 5 0.04
45 1 0.01
46 1 0.01
47 26 0.21
48 11 0.09
50 1 0.01
51 1 0.01
52 36 0.30
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACAC
Found at i:285054 original size:95 final size:91
Alignment explanation
Indices: 284891--285080 Score: 283
Period size: 95 Copynumber: 2.0 Consensus size: 91
284881 GCACCTTCAT
* *
284891 CTTTAAGCCCAATGTAGCTGGCCTTGATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAGC
1 CTTTAAGCCCAATATAGCTAGCCTTGATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAGC
284956 TGGCCTTGAATCAGCACATTGACA-C
66 TGGCCTTGAATCAGCACATTGACATC
* * *
284981 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGCCCAATATAGCTAGCCTTG-ATCAGCACATTGGCACC---T-CATCTTTAAGTCCAAT
285046 GTAGCTGGCCTTGAATCAGCACATTGACATC
61 GTAGCTGGCCTTGAATCAGCACATTGACATC
285077 CTTT
1 CTTT
285081 TTCATCATCT
Statistics
Matches: 89, Mismatches: 5, Indels: 6
0.89 0.05 0.06
Matches are distributed among these distances:
90 23 0.26
91 16 0.18
94 1 0.01
95 44 0.49
96 5 0.06
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (91 bp):
CTTTAAGCCCAATATAGCTAGCCTTGATCAGCACATTGGCACCTCATCTTTAAGTCCAATGTAGC
TGGCCTTGAATCAGCACATTGACATC
Found at i:285059 original size:52 final size:53
Alignment explanation
Indices: 284981--285140 Score: 178
Period size: 52 Copynumber: 3.0 Consensus size: 53
284971 ACATTGACAC
*
284981 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCACAT
* * * *
285033 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-CC-TTTTCA-CAT
* * * * * *
285089 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCAC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTT-TCAC
285141 TTTTCTCATC
Statistics
Matches: 88, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
52 37 0.42
53 2 0.02
54 9 0.10
55 4 0.05
56 36 0.41
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (53 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTTCACAT
Found at i:285111 original size:56 final size:56
Alignment explanation
Indices: 284981--285317 Score: 259
Period size: 67 Copynumber: 5.7 Consensus size: 56
284971 ACATTGACAC
* * *
284981 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCA-CC-TTTTC--CAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
* *
285033 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
* * * * * *
285089 CTTTAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TCATC
285154 AT
55 AT
*
285156 CTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
* * * * * * *
285212 CTTTAAGCCCAATATCGTTGCCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCATC
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATT-G-A-C---ATC-C-TTT-T--TCATC
285277 AT
55 AT
* *
285279 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTG
285318 GCTTATCATC
Statistics
Matches: 225, Mismatches: 34, Indels: 38
0.76 0.11 0.13
Matches are distributed among these distances:
52 37 0.16
53 2 0.01
54 5 0.02
56 70 0.31
57 2 0.01
58 3 0.01
59 5 0.02
60 1 0.00
61 3 0.01
62 6 0.03
63 2 0.01
64 7 0.03
65 3 0.01
66 2 0.01
67 77 0.34
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.37
Consensus pattern (56 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCAT
Found at i:285249 original size:123 final size:123
Alignment explanation
Indices: 285030--285317 Score: 531
Period size: 123 Copynumber: 2.3 Consensus size: 123
285020 GCACCTTTTC
*
285030 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAA
1 CATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAA
*
285095 GCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
66 GCCCAATATCGTTGCCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
285153 CATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAA
1 CATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAA
285218 GCCCAATATCGTTGCCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
66 GCCCAATATCGTTGCCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
* * *
285276 CATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTG
1 CATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTG
285318 GCTTATCATC
Statistics
Matches: 160, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 160 1.00
ACGTcount: A:0.26, C:0.24, G:0.12, T:0.37
Consensus pattern (123 bp):
CATCTTTAAGTTCAATATAGCTGGCCTTGAATCAGCACATTGACATCCTTTTTCATCATCTTTAA
GCCCAATATCGTTGCCCATGAATCAACATATTGGCATCTTTATCACTTTTCTCATCAT
Found at i:286165 original size:33 final size:33
Alignment explanation
Indices: 286123--286192 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
286113 TTCAACGATT
286123 TGTATCGATACATAAAATGTCGTATCGATACAA
1 TGTATCGATACATAAAATGTCGTATCGATACAA
*** * *
286156 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTCGTATCGATACAA
286189 TGTA
1 TGTA
286193 AGCTACTGCC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.34, C:0.13, G:0.14, T:0.39
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTCGTATCGATACAA
Found at i:286250 original size:13 final size:13
Alignment explanation
Indices: 286232--286256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
286222 ATTACTCACA
286232 TGTATCGATACAT
1 TGTATCGATACAT
286245 TGTATCGATACA
1 TGTATCGATACA
286257 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:286321 original size:52 final size:52
Alignment explanation
Indices: 286265--286385 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
286255 CACTGATCTT
*
286265 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
286317 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
286369 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
286386 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 67 1.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:292541 original size:20 final size:20
Alignment explanation
Indices: 292516--292558 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
292506 ATTTTACCCA
292516 GATGTATCGATACATTATTC
1 GATGTATCGATACATTATTC
*
292536 GATGTATTGATACATTATTC
1 GATGTATCGATACATTATTC
292556 GAT
1 GAT
292559 ACATGCAGGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.30, C:0.12, G:0.16, T:0.42
Consensus pattern (20 bp):
GATGTATCGATACATTATTC
Found at i:300940 original size:20 final size:20
Alignment explanation
Indices: 300917--301027 Score: 150
Period size: 20 Copynumber: 5.5 Consensus size: 20
300907 AAGTACCCAG
300917 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
300937 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
300957 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
* * *
300977 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
*
300997 ATGTATCGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
301017 ATGTATCGATA
1 ATGTATCGATA
301028 TATTCTATCT
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 76 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:300977 original size:40 final size:40
Alignment explanation
Indices: 300917--301027 Score: 213
Period size: 40 Copynumber: 2.8 Consensus size: 40
300907 AAGTACCCAG
*
300917 ATGTATCGATACATTTTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
300957 ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
1 ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
300997 ATGTATCGATACATTCTTCAATGTATCGATA
1 ATGTATCGATACATTCTTCAATGTATCGATA
301028 TATTCTATCT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
40 70 1.00
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.39
Consensus pattern (40 bp):
ATGTATCGATACATTCTTCAATGTATCGATACATGTATGA
Found at i:305210 original size:20 final size:20
Alignment explanation
Indices: 305172--305212 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
305162 GAAAGGGCCA
*
305172 TTTTTTTTATTGATGTTCAT
1 TTTTTTTTATTGATATTCAT
* *
305192 TTTTTTTTCTTGCTATTCAT
1 TTTTTTTTATTGATATTCAT
305212 T
1 T
305213 CCCATTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.12, C:0.10, G:0.07, T:0.71
Consensus pattern (20 bp):
TTTTTTTTATTGATATTCAT
Found at i:314854 original size:13 final size:12
Alignment explanation
Indices: 314836--314901 Score: 71
Period size: 12 Copynumber: 5.4 Consensus size: 12
314826 CTTTACACCC
*
314836 AAAAAAAACCAA
1 AAAAAAAAACAA
314848 AAAAAAAAACAA
1 AAAAAAAAACAA
314860 AAAAAAAAA-AA
1 AAAAAAAAACAA
*
314871 ACAAAAAAACCAA
1 A-AAAAAAAACAA
* *
314884 GAAAAAATAGCAA
1 -AAAAAAAAACAA
314897 AAAAA
1 AAAAA
314902 GAAAGGGGTC
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
11 3 0.06
12 32 0.68
13 11 0.23
14 1 0.02
ACGTcount: A:0.85, C:0.11, G:0.03, T:0.02
Consensus pattern (12 bp):
AAAAAAAAACAA
Found at i:314856 original size:15 final size:14
Alignment explanation
Indices: 314836--314879 Score: 63
Period size: 15 Copynumber: 3.1 Consensus size: 14
314826 CTTTACACCC
*
314836 AAAAAAAAC-CAAA
1 AAAAAAAACAAAAA
314849 AAAAAAAACAAAAAA
1 AAAAAAAAC-AAAAA
314864 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
314878 AA
1 AA
314880 CCAAGAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
13 9 0.32
14 7 0.25
15 12 0.43
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAA
Found at i:314899 original size:1 final size:1
Alignment explanation
Indices: 314836--314879 Score: 52
Period size: 1 Copynumber: 44.0 Consensus size: 1
314826 CTTTACACCC
** * *
314836 AAAAAAAACCAAAAAAAAAAACAAAAAAAAAAAAAACAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
314880 CCAAGAAAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.91, C:0.09, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:316161 original size:29 final size:29
Alignment explanation
Indices: 316121--316458 Score: 461
Period size: 29 Copynumber: 11.7 Consensus size: 29
316111 TGTTCATCCC
* *
316121 TTTCAAAGCCCAAAATTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
316150 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
316178 TTTCAAAGCCCACAATTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
316207 TTTCAAAGCCCACAAGTCAGCGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
316235 TTTCAAAGCCCACAAGTCAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
316264 TTTCAAAGCCCACAAATCATTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
316293 TTTCAAAGCCCACACGAGTCGGTGGCAACTAT
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
316325 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
316354 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
** *
316382 TTTCAAAGTGCACAAGTCAGTGGCA-TCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
316410 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
316439 TTT-AAAGCCCATGCAAGTCA
1 TTTCAAAGCCCA--CAAGTCA
316459 TCAAAGCCCA
Statistics
Matches: 274, Mismatches: 26, Indels: 17
0.86 0.08 0.05
Matches are distributed among these distances:
28 108 0.39
29 125 0.46
30 16 0.06
31 7 0.03
32 18 0.07
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.23
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:316190 original size:28 final size:28
Alignment explanation
Indices: 316118--316960 Score: 592
Period size: 28 Copynumber: 29.6 Consensus size: 28
316108 GAATGTTCAT
* *
316118 CCCTTTCAAAGCCCAAAATTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
316146 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
316175 CCCTTTCAAAGCCCACAATTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
316203 CTCTTTTCAAAGCCCACAAGTCAGCGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
316232 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
316260 TTCTTTTCAAAGCCCACAAATCATTGGCA
1 -CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
316289 CTCTTTTCAAAGCCCACACGAGTCGGTGGCAA
1 C-CCTTTCAAAGCCCACA--AGTCAGTGGC-A
**
316321 CTATTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
*
316350 CTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
**
316379 CCCTTTCAAAGTGCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
316407 TCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * ***
316435 CTCTTTTAAAGCCCATGCAAGTCA-TCAAA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * *** *
316464 GCCC--ACAAA----TC-AGT--GGCACT
1 -CCCTTTCAAAGCCCACAAGTCAGTGGCA
*** ** * *
316484 TTTTTCAAAACCCACA-AGTCAGT--G-GCAC-
1 CCCTTTCAAAGCC-CACA---AGTCAGTG-GCA
** * ** * * *
316512 CTTTTTAAAGCTCGCAAATCAGT--G-GCAC-
1 CCCTTTCAA-AGCCCACA--AGTCAGTG-GCA
* * *
316540 TCTTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
316568 TCCTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
316596 CCCTTTCAAAGCCCATGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCA--CAAGTCAGTGGCA
* * * *
316626 TCCTTTCAAAGCCCACAAATTAGTAGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
** *
316654 CTTTTTTCAAAACCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
316683 CCCTTTCAAAGCCCATAAGTTAGTGACA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
316711 CTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* *
316740 TCCTTTCAAAGCCCACAAGTCATTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
316768 CCCTTTCAAAGCCCACGTAAGTCAGTGGCA
1 CCCTTTCAAAGCCCAC--AAGTCAGTGGCA
316798 CCCTTTCAAAGCCCACAAGTTC-GTGGCA
1 CCCTTTCAAAGCCCACAAG-TCAGTGGCA
* *
316826 CTCTTTTCAAAGCCCATAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
316855 CCTTTTCAAAACCCACAAGTCAGTTGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
316883 CCCTTTCAAAGCCCACAAGTCAGTAGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* **
316911 CTCTTTTCAAAGCCCACATGAGTTGGTGGCAA
1 C-CCTTTCAAAGCCCACA--AGTCAGTGGC-A
*
316943 CTCTTTTCAAAGCCCACA
1 C-CCTTTCAAAGCCCACA
316961 CGAGTTGGTC
Statistics
Matches: 672, Mismatches: 101, Indels: 80
0.79 0.12 0.09
Matches are distributed among these distances:
20 2 0.00
21 6 0.01
22 1 0.00
25 3 0.00
27 6 0.01
28 315 0.47
29 216 0.32
30 72 0.11
31 14 0.02
32 37 0.06
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:316206 original size:57 final size:57
Alignment explanation
Indices: 316118--316960 Score: 998
Period size: 57 Copynumber: 14.8 Consensus size: 57
316108 GAATGTTCAT
* *
316118 CCCTTTCAAAGCCCAAAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
316175 CCCTTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGCGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
316232 CCCTTTCAAAGCCCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAATCATTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
316289 CTCTTTTCAAAGCCCACACGAGTCGGTGGCAACTATTTTCAAAGCCCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * **
316350 CTCTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGTGCACAAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
316407 TCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTT-AAAG-CC-CATG-CAAGT--CA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTC-AGTGGCA
* * *
316459 -----TCAAAGCCCACAAATCAGTGGCACTTTTTTCAAAACCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * * *
316511 CCTTTTTAAAGCTCGCAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
316568 TCCTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCATGCAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA--CAAGTCAGTGGCA
* * * * * *
316626 TCCTTTCAAAGCCCACAAATTAGTAGCACTTTTTTCAAAACCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
316683 CCCTTTCAAAGCCCATAAGTTAGTGACACTCTTTTCAAAGCCCACAAGTTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
316740 TCCTTTCAAAGCCCACAAGTCATTGGCAC-CCTTTCAAAGCCCACGTAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC--AAGTCAGTGGCA
*
316798 CCCTTTCAAAGCCCACAAGTTC-GTGGCACTCTTTTCAAAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAG-TCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
316855 CCTTTTCAAAACCCACAAGTCAGTTGCAC-CCTTTCAAAGCCCACAAGTCAGTAGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* **
316911 CTCTTTTCAAAGCCCACATGAGTTGGTGGCAACTCTTTTCAAAGCCCACA
1 C-CCTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCACA
316961 CGAGTTGGTC
Statistics
Matches: 679, Mismatches: 77, Indels: 56
0.84 0.09 0.07
Matches are distributed among these distances:
47 28 0.04
48 3 0.00
49 2 0.00
50 6 0.01
51 1 0.00
52 4 0.01
53 1 0.00
54 6 0.01
55 1 0.00
56 85 0.13
57 340 0.50
58 90 0.13
59 42 0.06
60 11 0.02
61 59 0.09
ACGTcount: A:0.29, C:0.31, G:0.16, T:0.24
Consensus pattern (57 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:316481 original size:47 final size:46
Alignment explanation
Indices: 316412--316504 Score: 134
Period size: 47 Copynumber: 2.0 Consensus size: 46
316402 TGGCATCCTT
* *
316412 TCAAAGCCCACAAGTCAGTGGCACTCTTTT-AAAGCCCATGCAAGTCA
1 TCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAACCCA--CAAGTCA
*
316459 TCAAAGCCCACAAATCAGTGGCACTTTTTTCAAAACCCACAAGTCA
1 TCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAACCCACAAGTCA
316505 GTGGCACCTT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
46 7 0.17
47 28 0.67
48 7 0.17
ACGTcount: A:0.34, C:0.30, G:0.14, T:0.22
Consensus pattern (46 bp):
TCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAACCCACAAGTCA
Found at i:316535 original size:104 final size:104
Alignment explanation
Indices: 316356--316791 Score: 340
Period size: 115 Copynumber: 4.0 Consensus size: 104
316346 GGCACTCTTT
* ***
316356 TCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGTGCACAAGTCAGTGGCATCCTTTCAAAGCCC
1 TCAAAGCCCACAAATCAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCATCCTTTCAAAGCCC
*
316421 ACAAGTCAGTGGCACTCTTTT-AAAGCCCATGCAAGTCA
66 ACAAATCAGTGGCACTCTTTTCAAAGCCCATGCAAGTCA
** *
316459 TCAAAGCCCACAAATCAGTGGCACTTTTTTCAAAACCCACAAGTCAGTGGCA-CCTTTTTAAAGC
1 TCAAAGCCCACAAATCAGTGGCAC-CCTTTCAAAACCCACAAGTCAGTGGCATCC-TTTCAAAGC
* * * **
316523 TCGCAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA
64 CCACAAATCAGTGGCACTCTTTTCAAAG-CC-CATGCAAGT--CA
* *
316568 TCCTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCATGCAAGTCAGTGGCATCCTTTC
1 -----TCAAAGCCCACAAATCAGTGGCACCCTTTCAAAACCCA--CAAGTCAGTGGCATCCTTTC
* * * * *
316633 AAAGCCCACAAATTAGTAGCACTTTTTTCAAAACCCACAAGTC-AGTGGCA
59 AAAGCCCACAAATCAGTGGCACTCTTTTC-AAAGCC-CATG-CAAGT--CA
* * * * * * *
316683 CCCTTTCAAAGCCCATAAGTTAGTGACACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCA
1 -----TCAAAGCCCACAAATCAGTGGCAC-CCTTTCAAAACCCACAAGTCAGTGGCATCCTTTCA
* * * * *
316748 AAGCCCACAAGTCATTGGCAC-CCTTTCAAAGCCCACGTAAGTCA
60 AAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCATGCAAGTCA
316792 GTGGCACCCT
Statistics
Matches: 274, Mismatches: 40, Indels: 32
0.79 0.12 0.09
Matches are distributed among these distances:
103 25 0.09
104 50 0.18
105 4 0.01
106 2 0.01
107 6 0.02
109 4 0.01
111 6 0.02
112 5 0.02
113 15 0.05
114 60 0.22
115 79 0.29
116 18 0.07
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.24
Consensus pattern (104 bp):
TCAAAGCCCACAAATCAGTGGCACCCTTTCAAAACCCACAAGTCAGTGGCATCCTTTCAAAGCCC
ACAAATCAGTGGCACTCTTTTCAAAGCCCATGCAAGTCA
Found at i:316745 original size:172 final size:170
Alignment explanation
Indices: 316459--316928 Score: 683
Period size: 172 Copynumber: 2.7 Consensus size: 170
316449 ATGCAAGTCA
* *
316459 TCAAAGCCCACAAATCAGTGGCACTTTTTTCAAAACCCACAAGTCAGTGGCACCTTTTTAAAGCT
1 TCAAAGCCCACAAATTAGTGGCACTTTTTTCAAAACCCACAAGTCAGTGGCACCTTTTCAAAGC-
316524 CGCAAA-TCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGT
65 C-CAAAGTCAGT-GCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGT
* *
316588 CAGTGGCACCCTTTCAAAGCCCATGCAAGTCAGTGGCATCCTT
128 CAGTGGCACCCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTT
* *
316631 TCAAAGCCCACAAATTAGTAGCACTTTTTTCAAAACCCACAAGTCAGTGGCACCCTTTCAAAGCC
1 TCAAAGCCCACAAATTAGTGGCACTTTTTTCAAAACCCACAAGTCAGTGGCACCTTTTCAAAGCC
*
316696 CATAAGTTAGTGACACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTC
66 CA-AAGTCAGTG-CACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTC
* *
316761 ATTGGCACCCTTTCAAAGCCCACGTAAGTCAGTGGCACCCTT
129 AGTGGCACCCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTT
* * * * * *
316803 TCAAAGCCCACAAGTTCGTGGCACTCTTTTCAAAGCCCATAAGTCAGTGGCACCTTTTCAAAACC
1 TCAAAGCCCACAAATTAGTGGCACTTTTTTCAAAACCCACAAGTCAGTGGCACCTTTTCAAAGCC
* * * *
316868 CACAAGTCAGTTGCAC-CCTTTCAAAGCCCACAAGTCAGTAGCACTCTTTTCAAAGCCCACA
66 CA-AAGTCAG-TGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA-TCCTTTCAAAGCCCACA
316929 TGAGTTGGTG
Statistics
Matches: 270, Mismatches: 23, Indels: 10
0.89 0.08 0.03
Matches are distributed among these distances:
170 2 0.01
171 28 0.10
172 238 0.88
173 2 0.01
ACGTcount: A:0.30, C:0.31, G:0.16, T:0.24
Consensus pattern (170 bp):
TCAAAGCCCACAAATTAGTGGCACTTTTTTCAAAACCCACAAGTCAGTGGCACCTTTTCAAAGCC
CAAAGTCAGTGCACTCTTTTCAAAGCCCACAAGTTAGTGGCATCCTTTCAAAGCCCACAAGTCAG
TGGCACCCTTTCAAAGCCCACGCAAGTCAGTGGCACCCTT
Found at i:317581 original size:20 final size:20
Alignment explanation
Indices: 317558--317628 Score: 97
Period size: 20 Copynumber: 3.5 Consensus size: 20
317548 AAGTACCCAG
317558 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * *
317578 ATGTATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* *
317598 ATGTATTGATACATTCTTCA
1 ATGTATCGATACATTTTTCA
317618 ATGTATCGATA
1 ATGTATCGATA
317629 TATTCTATCT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.32, C:0.13, G:0.14, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:320979 original size:2 final size:2
Alignment explanation
Indices: 320974--321005 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
320964 AAAAATAGAA
320974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
321006 TGCTTACAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:322773 original size:21 final size:20
Alignment explanation
Indices: 322745--322785 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
322735 TTATTATTTA
**
322745 AATATTAAAATTGTAATATT
1 AATATTAAAATAATAATATT
322765 AATATTTAAAATAATAATATT
1 AATA-TTAAAATAATAATATT
322786 TAAATATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
AATATTAAAATAATAATATT
Found at i:322782 original size:15 final size:15
Alignment explanation
Indices: 322759--322789 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
322749 TTAAAATTGT
*
322759 AATATTAATATTTAA
1 AATAATAATATTTAA
322774 AATAATAATATTTAA
1 AATAATAATATTTAA
322789 A
1 A
322790 TATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAATAATATTTAA
Found at i:324369 original size:36 final size:36
Alignment explanation
Indices: 324307--324380 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 36
324297 TTTAAATATT
324307 AAAATAATATTTTTATTTTTAATTATA-AAATT-TA
1 AAAATAATATTTTTATTTTTAATTATATAAATTGTA
*
324341 AAAAT-ATTTTTTTAATATTTTAACTTATATAAATTGTA
1 AAAATAATATTTTT-AT-TTTTAA-TTATATAAATTGTA
324379 AA
1 AA
324381 TTCAAATCTC
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
33 7 0.21
34 7 0.21
35 6 0.18
36 5 0.15
37 5 0.15
38 4 0.12
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (36 bp):
AAAATAATATTTTTATTTTTAATTATATAAATTGTA
Found at i:332037 original size:15 final size:14
Alignment explanation
Indices: 332008--332055 Score: 53
Period size: 15 Copynumber: 3.2 Consensus size: 14
331998 TTTTTTTATT
332008 TATTACAATTTAAAA
1 TATTA-AATTTAAAA
332023 GTA-TAAATATTAAAA
1 -TATTAAAT-TTAAAA
332038 TATTAAATTTAATAA
1 TATTAAATTTAA-AA
332053 TAT
1 TAT
332056 ATGAACTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
14 9 0.31
15 18 0.62
16 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (14 bp):
TATTAAATTTAAAA
Found at i:332281 original size:51 final size:51
Alignment explanation
Indices: 332205--332306 Score: 159
Period size: 51 Copynumber: 2.0 Consensus size: 51
332195 AATCTAGGCT
* *
332205 TTAACTATCCATAGAAAATTATTAATCAATAAAATATGCTTCAGTCATTCA
1 TTAACCATCCATAGAAAATTATTAATCAATAAAATATGCTTCAATCATTCA
* * *
332256 TTAACCATCCATAGAAAATTATTAATCACTAATATGTGCTTCAATCATTCA
1 TTAACCATCCATAGAAAATTATTAATCAATAAAATATGCTTCAATCATTCA
332307 GTTCATACTT
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (51 bp):
TTAACCATCCATAGAAAATTATTAATCAATAAAATATGCTTCAATCATTCA
Found at i:337431 original size:50 final size:50
Alignment explanation
Indices: 337343--337597 Score: 241
Period size: 50 Copynumber: 5.1 Consensus size: 50
337333 GTTGTCATAA
* * * * *
337343 TTGATTATT-TTTCACCAACCTTTAACAATAAAGAGAGGTAGTCGTAACTG
1 TTGACTATTCTTT-ACCAACCTTTGACAATAGAGAGAGGTAGCCGTAATTG
* * *
337393 TTGACTATTCTTTACCAACTTTTGACAATCGAGAGAGGT-GACCGTAATTA
1 TTGACTATTCTTTACCAACCTTTGACAATAGAGAGAGGTAG-CCGTAATTG
* * *
337443 TTAACTATTCTTCACCAACC-TTGACAATTGAGAGAGGTAGCCGTAATTG
1 TTGACTATTCTTTACCAACCTTTGACAATAGAGAGAGGTAGCCGTAATTG
* * * * **
337492 TTGA-TGATT-TTTCACCAACCTTTAACAATTGAGAGAGATAACTATAATTG
1 TTGACT-ATTCTTT-ACCAACCTTTGACAATAGAGAGAGGTAGCCGTAATTG
* * * * *
337542 TTGACTATTCTTCACTAACCTTTGACAATAAAGAGAGGTGGTCGTAATTG
1 TTGACTATTCTTTACCAACCTTTGACAATAGAGAGAGGTAGCCGTAATTG
337592 TTGACT
1 TTGACT
337598 CTAGCCAACC
Statistics
Matches: 166, Mismatches: 31, Indels: 16
0.78 0.15 0.08
Matches are distributed among these distances:
48 3 0.02
49 39 0.23
50 118 0.71
51 6 0.04
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (50 bp):
TTGACTATTCTTTACCAACCTTTGACAATAGAGAGAGGTAGCCGTAATTG
Found at i:337509 original size:99 final size:100
Alignment explanation
Indices: 337348--337597 Score: 308
Period size: 99 Copynumber: 2.5 Consensus size: 100
337338 CATAATTGAT
* * * *
337348 TATTTTTCACCAACCTTTAACAATAAAGAGAGGTAGTCGTAACTGTTGACTATTCTTTACCAACT
1 TATTCTTCACCAACCTTTGACAATAAAGAGAGGTAGTCGTAATTGTTGACTATTCTTTACCAACC
* * * *
337413 TTTGACAATCGAGAGAGGTGACCGTAATTATTAAC
66 TTTAACAATCGAGAGAGATAACCATAATTATTAAC
** *
337448 TATTCTTCACCAACC-TTGACAATTGAGAGAGGTAGCCGTAATTGTTGA-TGATT-TTTCACCAA
1 TATTCTTCACCAACCTTTGACAATAAAGAGAGGTAGTCGTAATTGTTGACT-ATTCTTT-ACCAA
* * * *
337510 CCTTTAACAATTGAGAGAGATAACTATAATTGTTGAC
64 CCTTTAACAATCGAGAGAGATAACCATAATTATTAAC
* *
337547 TATTCTTCACTAACCTTTGACAATAAAGAGAGGTGGTCGTAATTGTTGACT
1 TATTCTTCACCAACCTTTGACAATAAAGAGAGGTAGTCGTAATTGTTGACT
337598 CTAGCCAACC
Statistics
Matches: 126, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
98 4 0.03
99 78 0.62
100 43 0.34
101 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (100 bp):
TATTCTTCACCAACCTTTGACAATAAAGAGAGGTAGTCGTAATTGTTGACTATTCTTTACCAACC
TTTAACAATCGAGAGAGATAACCATAATTATTAAC
Found at i:342030 original size:50 final size:50
Alignment explanation
Indices: 341972--342231 Score: 362
Period size: 50 Copynumber: 5.2 Consensus size: 50
341962 AGGTGTTGCC
*
341972 ATTGTTGACTATTCTTCACTAACCTTTGACAATAGAGAGAGGTGG-TCATA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCT-ATA
* * *
342022 ATTATTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGG-TCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCT-ATA
* * *
342072 ATTGTTGATTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCTGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCTATA
* * * *
342122 ATTGTTGACGATTCTTCACTAATCTTTGACAATTGAGAGAGGTGGCTATA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCTATA
* **
342172 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGACCGTA
1 ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCTATA
342222 ATTGTTGACT
1 ATTGTTGACT
342232 CTAGGCAACC
Statistics
Matches: 190, Mismatches: 19, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
50 189 0.99
51 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (50 bp):
ATTGTTGACTATTCTTCACCAACCTTTGACAATAGAGAGAGGTGGCTATA
Found at i:342609 original size:30 final size:31
Alignment explanation
Indices: 342554--342615 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
342544 TGATTAACTT
* *
342554 TAAATTTTATTTTAAATGGTCAAATATTAAA
1 TAAAATTTATTTTAAATGGTCAAATAGTAAA
* *
342585 TAAAATTT-TTTTAACTGGTGAAATAGTAAA
1 TAAAATTTATTTTAAATGGTCAAATAGTAAA
342615 T
1 T
342616 TCAATAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.44
Consensus pattern (31 bp):
TAAAATTTATTTTAAATGGTCAAATAGTAAA
Found at i:342835 original size:436 final size:436
Alignment explanation
Indices: 342192--343051 Score: 1508
Period size: 436 Copynumber: 2.0 Consensus size: 436
342182 ATTCTTCACC
* * *
342192 AACCTTTGACAATAGAGAGAGGTGACCGTAATTGTTGACTCTAGGCAACCTAAGCATGGCTATAA
1 AACCTCTGACAATAAAGAGAGATGACCGTAATTGTTGACTCTAGGCAACCTAAGCATGGCTATAA
* *
342257 ATAGCCATTCAAGTTCATTTATTTGATGTATCCTAGAATTGAGAGAAGTAAAATCCTTTGTCTTT
66 ATAGCCATTCAAGTTCATTTATTTGATATATCCTAGAATTGAGAGAAATAAAATCCTTTGTCTTT
*
342322 GTCCGTAGACGTAAGCTTTACGTCGAACCACGTAATTTTGTGTCTTTTATTGTGTGTGCTTGTTT
131 GTCCGTAGACGTAAGCTTTACGCCGAACCACGTAATTTTGTGTCTTTTATTGTGTGTGCTTGTTT
* *
342387 TTCATTTTTTTTAATTTTATTTTAACTGTAGCCCTACTCTACCCATCAATGCACTAACATCAATG
196 TTCATTTTTTTTAATTTTATTTTAACTATAGCCCTACTCTACCCATCAATGCACTAACATCAATA
*
342452 ATTGTATTTATTGAATTTGCAATTGCTCAACGTGATTCATAGCTCGATCAGTCAGTTTCAGAACG
261 ATTGTATTTACTGAATTTGCAATTGCTCAACGTGATTCATAGCTCGATCAGTCAGTTTCAGAACG
* *
342517 AGCTTTTCCATTGTGAACGAATTAAAGTGATTAACTTTAAATTTTATTTTAAATGGTCAAATATT
326 AGCCTTTCCATTGTGAACGAATTAAAATGATTAACTTTAAATTTTATTTTAAATGGTCAAATATT
* *
342582 AAATAAAATTTTTTTAACTGGTGAAATAGTAAATTCAATAAATTTT
391 AAATAAAAATTTTTTAACCGGTGAAATAGTAAATTCAATAAATTTT
342628 AACCTCTGACAATAAAGAGAGATGACCGTAATTGTTGACTCTAGGCAACCTAAGCATGGCTATAA
1 AACCTCTGACAATAAAGAGAGATGACCGTAATTGTTGACTCTAGGCAACCTAAGCATGGCTATAA
*
342693 ATAGCCATTTAAGTTCATTTATTTGATATATCCTAGAATTGAGAGAAATAAAATCCTTTGTCTTT
66 ATAGCCATTCAAGTTCATTTATTTGATATATCCTAGAATTGAGAGAAATAAAATCCTTTGTCTTT
* *
342758 GTCCGT-GAACGT-AGACTTTACGCCGAACTACGTAATTTTGTGTTTTTTATTGTGTGTGCTTGT
131 GTCCGTAG-ACGTAAG-CTTTACGCCGAACCACGTAATTTTGTGTCTTTTATTGTGTGTGCTTGT
*
342821 TTTTTATTTTTTTTAATTTTATTTTAACTATAGCCCTACTCTACCCATCAATGCACTAACATCAA
194 TTTTCATTTTTTTTAATTTTATTTTAACTATAGCCCTACTCTACCCATCAATGCACTAACATCAA
342886 TAATTGTATTTACTGAATTTGCAATTGCTCAACGTGATTCATAGCTCGATCAGTCAGTTTCAGAA
259 TAATTGTATTTACTGAATTTGCAATTGCTCAACGTGATTCATAGCTCGATCAGTCAGTTTCAGAA
* **
342951 CGAGCCTTTCCATTGTGAATGAATTAAAATGATTAACTTTTTATTTTATTTTAAATGGTCAAATA
324 CGAGCCTTTCCATTGTGAACGAATTAAAATGATTAACTTTAAATTTTATTTTAAATGGTCAAATA
343016 TTAAATAAAAATTTTTTAACCGGTGAAATAGTAAAT
389 TTAAATAAAAATTTTTTAACCGGTGAAATAGTAAAT
343052 GAAATTTGTT
Statistics
Matches: 402, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
435 3 0.01
436 399 0.99
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.39
Consensus pattern (436 bp):
AACCTCTGACAATAAAGAGAGATGACCGTAATTGTTGACTCTAGGCAACCTAAGCATGGCTATAA
ATAGCCATTCAAGTTCATTTATTTGATATATCCTAGAATTGAGAGAAATAAAATCCTTTGTCTTT
GTCCGTAGACGTAAGCTTTACGCCGAACCACGTAATTTTGTGTCTTTTATTGTGTGTGCTTGTTT
TTCATTTTTTTTAATTTTATTTTAACTATAGCCCTACTCTACCCATCAATGCACTAACATCAATA
ATTGTATTTACTGAATTTGCAATTGCTCAACGTGATTCATAGCTCGATCAGTCAGTTTCAGAACG
AGCCTTTCCATTGTGAACGAATTAAAATGATTAACTTTAAATTTTATTTTAAATGGTCAAATATT
AAATAAAAATTTTTTAACCGGTGAAATAGTAAATTCAATAAATTTT
Found at i:343045 original size:30 final size:31
Alignment explanation
Indices: 343011--343086 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
343001 TTAAATGGTC
343011 AAATATTAAATAAAAATT-TTTTAACCGG-T
1 AAATATTAAATAAAAATTGTTTTAACCGGAT
* * * **
343040 GAAATAGTAAATGAAATTTGTTTTAATTGGAT
1 -AAATATTAAATAAAAATTGTTTTAACCGGAT
343072 AAATATTAAATAAAA
1 AAATATTAAATAAAA
343087 TTCGTTGTAA
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
30 15 0.41
31 21 0.57
32 1 0.03
ACGTcount: A:0.50, C:0.03, G:0.11, T:0.37
Consensus pattern (31 bp):
AAATATTAAATAAAAATTGTTTTAACCGGAT
Found at i:343705 original size:29 final size:30
Alignment explanation
Indices: 343651--343707 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
343641 ACATAATAAT
* *
343651 TTTAATTAAAATAATATATTATTATTTAAA
1 TTTAATTAAAATAATATATAAATATTTAAA
*
343681 TTTAATTATAA-AATATATAAATATTTA
1 TTTAATTAAAATAATATATAAATATTTA
343708 TAAATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
TTTAATTAAAATAATATATAAATATTTAAA
Found at i:344266 original size:33 final size:33
Alignment explanation
Indices: 344220--344384 Score: 110
Period size: 33 Copynumber: 5.4 Consensus size: 33
344210 TTTGTCAGAA
344220 AATTCCATCAAAAATATTTTAAATGCTAATAGT
1 AATTCCATCAAAAATATTTTAAATGCTAATAGT
* * * *
344253 AATTCCATTAAAAAGTCTTGT---TG-GAATA-T
1 AATTCCATCAAAAA-TATTTTAAATGCTAATAGT
*
344282 --TTCC-TCAAAAATATTTTAAATGTTAATAGT
1 AATTCCATCAAAAATATTTTAAATGCTAATAGT
* * *
344312 AATTCCATTAAAAA-GTTTT--GT-C-AGA-A--
1 AATTCCATCAAAAATATTTTAAATGCTA-ATAGT
*
344338 AATTTCATCAAAAATATTTTAAATGCTAATAGT
1 AATTCCATCAAAAATATTTTAAATGCTAATAGT
*
344371 AATTCCATTAAAAA
1 AATTCCATCAAAAA
344385 GCCTTGTCAG
Statistics
Matches: 96, Mismatches: 18, Indels: 36
0.64 0.12 0.24
Matches are distributed among these distances:
25 4 0.04
26 18 0.19
27 8 0.08
28 4 0.04
29 7 0.07
30 8 0.08
31 4 0.04
32 8 0.08
33 31 0.32
34 4 0.04
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.38
Consensus pattern (33 bp):
AATTCCATCAAAAATATTTTAAATGCTAATAGT
Found at i:344290 original size:59 final size:59
Alignment explanation
Indices: 344203--344415 Score: 322
Period size: 59 Copynumber: 3.6 Consensus size: 59
344193 TATTCCTAAC
* *
344203 AAAAAGTTTTGTCAGAAAATTCCATCAAAAATATTTTAAATGCTAATAGTAATTCCATT
1 AAAAAGTCTTGTCAGAAATTTCCATCAAAAATATTTTAAATGCTAATAGTAATTCCATT
** *
344262 AAAAAGTCTTGTTGGAATATTTCC-TCAAAAATATTTTAAATGTTAATAGTAATTCCATT
1 AAAAAGTCTTGTCAGAA-ATTTCCATCAAAAATATTTTAAATGCTAATAGTAATTCCATT
*
344321 AAAAAGTTTTGTCAGAAAATTT-CATCAAAAATATTTTAAATGCTAATAGTAATTCCATT
1 AAAAAGTCTTGTCAG-AAATTTCCATCAAAAATATTTTAAATGCTAATAGTAATTCCATT
* *
344380 AAAAAGCCTTGTCAGAAAATTCCATCAAAAATATTT
1 AAAAAGTCTTGTCAGAAATTTCCATCAAAAATATTT
344416 CCATAAAAAA
Statistics
Matches: 138, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
58 6 0.04
59 125 0.91
60 7 0.05
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (59 bp):
AAAAAGTCTTGTCAGAAATTTCCATCAAAAATATTTTAAATGCTAATAGTAATTCCATT
Found at i:344411 original size:118 final size:118
Alignment explanation
Indices: 344203--344415 Score: 365
Period size: 118 Copynumber: 1.8 Consensus size: 118
344193 TATTCCTAAC
344203 AAAAAGTTTTGTCAGAAAATTCCATCAAAAATATTTTAAATGCTAATAGTAATTCCATTAAAAAG
1 AAAAAGTTTTGTCAGAAAATTCCATCAAAAATATTTTAAATGCTAATAGTAATTCCATTAAAAAG
* ** *
344268 TCTTGTTGGAATATTTCCTCAAAAATATTTTAAATGTTAATAGTAATTCCATT
66 CCTTGTCAGAATAATTCCTCAAAAATATTTTAAATGTTAATAGTAATTCCATT
*
344321 AAAAAGTTTTGTCAGAAAATTTCATCAAAAATATTTTAAATGCTAATAGTAATTCCATTAAAAAG
1 AAAAAGTTTTGTCAGAAAATTCCATCAAAAATATTTTAAATGCTAATAGTAATTCCATTAAAAAG
344386 CCTTGTCAGAA-AATTCCATCAAAAATATTT
66 CCTTGTCAGAATAATTCC-TCAAAAATATTT
344416 CCATAAAAAA
Statistics
Matches: 89, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
117 5 0.06
118 84 0.94
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (118 bp):
AAAAAGTTTTGTCAGAAAATTCCATCAAAAATATTTTAAATGCTAATAGTAATTCCATTAAAAAG
CCTTGTCAGAATAATTCCTCAAAAATATTTTAAATGTTAATAGTAATTCCATT
Found at i:357155 original size:19 final size:19
Alignment explanation
Indices: 357117--357155 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
357107 GATATCATTT
*
357117 TTAGAATATTTTTTACAGA
1 TTAGAATAATTTTTACAGA
357136 TTAGATATAATTTTTA-AGA
1 TTAGA-ATAATTTTTACAGA
357155 T
1 T
357156 ATTTTTATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (19 bp):
TTAGAATAATTTTTACAGA
Found at i:359517 original size:41 final size:40
Alignment explanation
Indices: 359461--359549 Score: 115
Period size: 41 Copynumber: 2.2 Consensus size: 40
359451 ATTTTCTTGA
* * * * *
359461 TTATATATTTTCATTTTATTTAATTGTATTTTATTTATTTT
1 TTATATATGTACATTTTAGTTAATTGTA-TTTATTTAATCT
*
359502 TTATATATGTACATTTTAGTTGATTGTATTTATTTAATCT
1 TTATATATGTACATTTTAGTTAATTGTATTTATTTAATCT
359542 TTATATAT
1 TTATATAT
359550 TTATTACAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 18 0.43
41 24 0.57
ACGTcount: A:0.27, C:0.03, G:0.06, T:0.64
Consensus pattern (40 bp):
TTATATATGTACATTTTAGTTAATTGTATTTATTTAATCT
Found at i:359636 original size:21 final size:22
Alignment explanation
Indices: 359594--359646 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 22
359584 AATTAATTAT
*
359594 TCAAATTAAAAATATTTAAATA
1 TCAAATTAAAAATATATAAATA
*
359616 TCAAA-TAAAAATA-ATATA-A
1 TCAAATTAAAAATATATAAATA
359635 T-AAATTAAAAAT
1 TCAAATTAAAAAT
359647 TAAAAAGCAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
18 3 0.11
19 9 0.32
20 3 0.11
21 8 0.29
22 5 0.18
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
TCAAATTAAAAATATATAAATA
Found at i:361069 original size:50 final size:50
Alignment explanation
Indices: 361014--361173 Score: 153
Period size: 50 Copynumber: 3.2 Consensus size: 50
361004 TATTGTTCAT
* * * *
361014 CAACTTTTGACAATCGAGAG-AGATGACTGTAATTATTGATGATTTTTTAC
1 CAACTTTTGACAATCGAGAGAAG-TGACTATAATTATCGACGATTCTTTAC
* * *
361064 TAACTTTTGATAATCGAGAGAAGTGACTATAATTGTCGACGATTCTTTAC
1 CAACTTTTGACAATCGAGAGAAGTGACTATAATTATCGACGATTCTTTAC
* * * * * * *
361114 CAACCTTTGACAATTGAGAGAAGTG-GTCATAATTGTTGACTATTCTTCAC
1 CAACTTTTGACAATCGAGAGAAGTGACT-ATAATTATCGACGATTCTTTAC
*
361164 CAACCTTTGA
1 CAACTTTTGA
361174 GAATAAAAAA
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 90 0.97
51 2 0.02
ACGTcount: A:0.31, C:0.16, G:0.17, T:0.36
Consensus pattern (50 bp):
CAACTTTTGACAATCGAGAGAAGTGACTATAATTATCGACGATTCTTTAC
Found at i:361194 original size:50 final size:50
Alignment explanation
Indices: 361084--361200 Score: 130
Period size: 50 Copynumber: 2.3 Consensus size: 50
361074 TAATCGAGAG
* * * * *
361084 AAGTGA-CTATAATTGTCGACGATTCTTTACCAACCTTTGACAATTGAGAG
1 AAGTGATC-ATAATTGTTGACGATTCTTCACCAACCTTTGACAATTAAAAA
* * *
361134 AAGTGGTCATAATTGTTGACTATTCTTCACCAACCTTTGAGAA-TAAAAA
1 AAGTGATCATAATTGTTGACGATTCTTCACCAACCTTTGACAATTAAAAA
361183 AATGTGATCATAATTGTT
1 AA-GTGATCATAATTGTT
361201 AATTCTAAGC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
49 5 0.09
50 50 0.89
51 1 0.02
ACGTcount: A:0.34, C:0.15, G:0.16, T:0.34
Consensus pattern (50 bp):
AAGTGATCATAATTGTTGACGATTCTTCACCAACCTTTGACAATTAAAAA
Found at i:361576 original size:34 final size:34
Alignment explanation
Indices: 361538--361620 Score: 139
Period size: 34 Copynumber: 2.4 Consensus size: 34
361528 GTGAAGCATA
361538 TTAGGTGTGTTAGGTGATGTATTTAGTGAAAATG
1 TTAGGTGTGTTAGGTGATGTATTTAGTGAAAATG
* *
361572 TTAGGTGTGTTAGGTGATGTATTTGGTGAGAATG
1 TTAGGTGTGTTAGGTGATGTATTTAGTGAAAATG
*
361606 TTAGGTGTATTAGGT
1 TTAGGTGTGTTAGGT
361621 AATATGTTAG
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 46 1.00
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (34 bp):
TTAGGTGTGTTAGGTGATGTATTTAGTGAAAATG
Found at i:361634 original size:34 final size:33
Alignment explanation
Indices: 361538--361635 Score: 101
Period size: 34 Copynumber: 2.9 Consensus size: 33
361528 GTGAAGCATA
* *
361538 TTAGGTGTGTTAGGTGATGTATTTA-GTGAAAATG
1 TTAGGTGTGTTAGGT-A-ATATTTAGGTGAGAATG
*
361572 TTAGGTGTGTTAGGTGATGTATTT-GGTGAGAATG
1 TTAGGTGTGTTAGGT-A-ATATTTAGGTGAGAATG
*
361606 TTAGGTGTATTAGGTAATATGTTAGGTGAG
1 TTAGGTGTGTTAGGTAATAT-TTAGGTGAG
361636 CAAGATATTT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
32 3 0.05
33 3 0.05
34 52 0.90
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (33 bp):
TTAGGTGTGTTAGGTAATATTTAGGTGAGAATG
Found at i:362943 original size:383 final size:383
Alignment explanation
Indices: 362236--363003 Score: 1518
Period size: 383 Copynumber: 2.0 Consensus size: 383
362226 GGGAGATTAT
362236 TGCCGAGATCGAGACTACACTACCACCAGAAGAAGAAGTTGCTAATGTTAGAAAATGGAAGATAA
1 TGCCGAGATCGAGACTACACTACCACCAGAAGAAGAAGTTGCTAATGTTAGAAAATGGAAGATAA
362301 AAGTTGGCAAAGCCATGTTTGCCATTAAAACCACCATTGAAGAAGAAATGATGGAGCACATCAGG
66 AAGTTGGCAAAGCCATGTTTGCCATTAAAACCACCATTGAAGAAGAAATGATGGAGCACATCAGG
*
362366 GAAGCTACCACACCAAAGCAAGCTTGGGATCTTCTTACTTTACGATTTGCAAAGAAGAATGATGC
131 GAAGCTACCACACCAAAGCAAGCCTGGGATCTTCTTACTTTACGATTTGCAAAGAAGAATGATGC
362431 AAGGCTACAGTTGCTGGAGAATGAACTAATGTCTATCTCACAACGAGATATGACAATTAGTCAGT
196 AAGGCTACAGTTGCTGGAGAATGAACTAATGTCTATCTCACAACGAGATATGACAATTAGTCAGT
*
362496 ATTTTACAAAGGTGAAATCCATCTGTAGAGAAATTGCTGAGTTGGATGAGGCATCCAAAATTGTT
261 ATTTTACAAAGGTGAAATCAATCTGTAGAGAAATTGCTGAGTTGGATGAGGCATCCAAAATTGTT
362561 AGTGACAGAATGAGACAGATCATCACACACGGATTGCGACTAGAGTATAGAGGATTTA
326 AGTGACAGAATGAGACAGATCATCACACACGGATTGCGACTAGAGTATAGAGGATTTA
362619 TGCCGAGATCGAGACTACACTACCACCAGAAGAAGAAGTTGCTAATGTTAGAAAATGGAAGATAA
1 TGCCGAGATCGAGACTACACTACCACCAGAAGAAGAAGTTGCTAATGTTAGAAAATGGAAGATAA
362684 AAGTTGGCAAAGCCATGTTTGCCATTAAAACCACCATTGAAGAAGAAATGATGGAGCACATCAGG
66 AAGTTGGCAAAGCCATGTTTGCCATTAAAACCACCATTGAAGAAGAAATGATGGAGCACATCAGG
362749 GAAGCTACCACACCAAAGCAAGCCTGGGATCTTCTTACTTTACGATTTGCAAAGAAGAATGATGC
131 GAAGCTACCACACCAAAGCAAGCCTGGGATCTTCTTACTTTACGATTTGCAAAGAAGAATGATGC
362814 AAGGCTACAGTTGCTGGAGAATGAACTAATGTCTATCTCACAACGAGATATGACAATTAGTCAGT
196 AAGGCTACAGTTGCTGGAGAATGAACTAATGTCTATCTCACAACGAGATATGACAATTAGTCAGT
362879 ATTTTACAAAGGTGAAATCAATCTGTAGAGAAATTGCTGAGTTGGATGAGGCATCCAAAATTGTT
261 ATTTTACAAAGGTGAAATCAATCTGTAGAGAAATTGCTGAGTTGGATGAGGCATCCAAAATTGTT
362944 AGTGACAGAATGAGACAGATCATCACACACGGATTGCGACTAGAGTATAGAGGATTTA
326 AGTGACAGAATGAGACAGATCATCACACACGGATTGCGACTAGAGTATAGAGGATTTA
363002 TG
1 TG
363004 GCTGCAGTTC
Statistics
Matches: 383, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
383 383 1.00
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (383 bp):
TGCCGAGATCGAGACTACACTACCACCAGAAGAAGAAGTTGCTAATGTTAGAAAATGGAAGATAA
AAGTTGGCAAAGCCATGTTTGCCATTAAAACCACCATTGAAGAAGAAATGATGGAGCACATCAGG
GAAGCTACCACACCAAAGCAAGCCTGGGATCTTCTTACTTTACGATTTGCAAAGAAGAATGATGC
AAGGCTACAGTTGCTGGAGAATGAACTAATGTCTATCTCACAACGAGATATGACAATTAGTCAGT
ATTTTACAAAGGTGAAATCAATCTGTAGAGAAATTGCTGAGTTGGATGAGGCATCCAAAATTGTT
AGTGACAGAATGAGACAGATCATCACACACGGATTGCGACTAGAGTATAGAGGATTTA
Found at i:366596 original size:717 final size:717
Alignment explanation
Indices: 365217--366652 Score: 2647
Period size: 717 Copynumber: 2.0 Consensus size: 717
365207 TTCTTAAACC
*
365217 AAAGGATTTGAAACCCATATCATGCAAATGGGTATACAAGATCAAGACTCGTCCAAATGGCTCTG
1 AAAGGATGTGAAACCCATATCATGCAAATGGGTATACAAGATCAAGACTCGTCCAAATGGCTCTG
365282 TTGAAAGGTATAAAGCTCGACTAGTAGCACGAGGTTTTTCACAGCAGTATGGATTGGACTATGAT
66 TTGAAAGGTATAAAGCTCGACTAGTAGCACGAGGTTTTTCACAGCAGTATGGATTGGACTATGAT
*
365347 GAGACCTTTAGTCCAGTAGCAAAGATTGCAACAGCTCGTGTTCTGTTGGCATTAGCTACAAGTAA
131 GAGACCTTTAGTCCAGTAGCAAAGATTGCAACAGCTCATGTTCTGTTGGCATTAGCTACAAGTAA
*
365412 GTCCTGGAACTTGTGGTAGATGGATGTGAAAAATGCTTTTCTGAATGGAGAGCTTGATCGAGATG
196 GTCCTGGAACTTGTGGTAGATGGATGTGAAAAATGCTTTTCTGAATAGAGAGCTTGATCGAGATG
* *
365477 TGTACATGGAACAACCAAAAGGATTCGAGAATGAGATCTATCCTGATCATGTTTGCAAGCTGAAG
261 TGTACATGGAACAACCAAAAGGATTCGAGAATGAGATCTATCCTGATCATGTTTCCAAGCTGAAA
*
365542 AAAGTGCTCTATGGGTTGAAACAAGCTCCTAGAGCATGGTATGGCAAAATTGCAGAGTTTCTCAT
326 AAAGCGCTCTATGGGTTGAAACAAGCTCCTAGAGCATGGTATGGCAAAATTGCAGAGTTTCTCAT
*
365607 TCACACTGGCTATGTAGTTGCACCAGCTGGCTCTAGCTTATTTGTGAAAGTTAGAGAAGAAAAGC
391 TCACACTGGCTATGTAGTTGCACCAGCTGACTCTAGCTTATTTGTGAAAGTTAGAGAAGAAAAGC
*
365672 TAGCAATTATTCTTGTTTATGTGGATAATCTTATTATCACTGAAGATAATGTAAAAGAAATCCAC
456 TAGCAATTATTCTTGTTTATGTGGATAATCTTATTATCACTGAAGATAATATAAAAGAAATCCAC
365737 CAAACTAAGGAGAATTTACCAGTTTGCTTTCAAATGAAAGAACTCGGAGAGCTGAATCACTTTCT
521 CAAACTAAGGAGAATTTACCAGTTTGCTTTCAAATGAAAGAACTCGGAGAGCTGAATCACTTTCT
*
365802 TGGATTAGAAGTGGAGCGAACACTAGAAGGGTTGTTCTTGTGTCAAGAAAAATATGCAAGAAATC
586 TGGATTAGAAATGGAGCGAACACTAGAAGGGTTGTTCTTGTGTCAAGAAAAATATGCAAGAAATC
* *
365867 TTCTTTAAAAATATGGGACATTTGATTGCAAACCTCTTTCTATTCCAATAGAGGTGAACTCAAAA
651 TTCTTAAAAAATATGGGACATTTGATTGCAAACATCTTTCTATTCCAATAGAGGTGAACTCAAAA
365932 TT
716 TT
* *
365934 AAAGGATGTGAAACCCATATCATGCAAATGGGTATACAAGATCAAGACTCGTCTAGATGGCTCTG
1 AAAGGATGTGAAACCCATATCATGCAAATGGGTATACAAGATCAAGACTCGTCCAAATGGCTCTG
365999 TTGAAAGGTATAAAGCTCGACTAGTAGCACGAGGTTTTTCACAGCAGTATGGATTGGACTATGAT
66 TTGAAAGGTATAAAGCTCGACTAGTAGCACGAGGTTTTTCACAGCAGTATGGATTGGACTATGAT
*
366064 GAGACCTTTAGTCCAGTAGCAAAGATTGCAACAGTTCATGTTCTGTTGGCATTAGCTACAAGTAA
131 GAGACCTTTAGTCCAGTAGCAAAGATTGCAACAGCTCATGTTCTGTTGGCATTAGCTACAAGTAA
* *
366129 GTCTTGGAACTTGTGGTAGATGGATGTGAAAAATGCTTTTCTGAATAGAGAGCTTGATTGAGATG
196 GTCCTGGAACTTGTGGTAGATGGATGTGAAAAATGCTTTTCTGAATAGAGAGCTTGATCGAGATG
366194 TGTACATGGAACAACCAAAAGGATTCGAGAATGAGATCTATCCTGATCATGTTTCCAAGCTGAAA
261 TGTACATGGAACAACCAAAAGGATTCGAGAATGAGATCTATCCTGATCATGTTTCCAAGCTGAAA
*
366259 AAAGCGCTCTATGGGTTGAAACAAGCTCCTAGAGCATGGTATGTCAAAATTGCAGAGTTTCTCAT
326 AAAGCGCTCTATGGGTTGAAACAAGCTCCTAGAGCATGGTATGGCAAAATTGCAGAGTTTCTCAT
* * *
366324 TCACAGTGGCTATGTAGTTGCACCAGCTGACTTTAGCTTATTTGTGAAAGTTAGAGAAGGAAAGC
391 TCACACTGGCTATGTAGTTGCACCAGCTGACTCTAGCTTATTTGTGAAAGTTAGAGAAGAAAAGC
*
366389 TAGCAATTATTCTTGTTTATGTGGATAATCTTATTATCACTGAAGATGATATAAAAGAAATCCAC
456 TAGCAATTATTCTTGTTTATGTGGATAATCTTATTATCACTGAAGATAATATAAAAGAAATCCAC
*
366454 CAAACTAAGGAGAATTTATCAGTTTGCTTTCAAATGAAAGAACTCGGAGAGCTGAATCACTTTCT
521 CAAACTAAGGAGAATTTACCAGTTTGCTTTCAAATGAAAGAACTCGGAGAGCTGAATCACTTTCT
*
366519 TGGATTGGAAATGGAGCGAACACTAGAAGGGTTGTTCTTGTGTCAAGAAAAATATGCAAGAAATC
586 TGGATTAGAAATGGAGCGAACACTAGAAGGGTTGTTCTTGTGTCAAGAAAAATATGCAAGAAATC
**
366584 TTCTTAAAAAATATGGGATGTTTGATTGCAAACATCTTTCTATTCCAATAGAGGTGAACTCAAAA
651 TTCTTAAAAAATATGGGACATTTGATTGCAAACATCTTTCTATTCCAATAGAGGTGAACTCAAAA
366649 TT
716 TT
366651 AA
1 AA
366653 GCATATTAGA
Statistics
Matches: 694, Mismatches: 25, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
717 694 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.29
Consensus pattern (717 bp):
AAAGGATGTGAAACCCATATCATGCAAATGGGTATACAAGATCAAGACTCGTCCAAATGGCTCTG
TTGAAAGGTATAAAGCTCGACTAGTAGCACGAGGTTTTTCACAGCAGTATGGATTGGACTATGAT
GAGACCTTTAGTCCAGTAGCAAAGATTGCAACAGCTCATGTTCTGTTGGCATTAGCTACAAGTAA
GTCCTGGAACTTGTGGTAGATGGATGTGAAAAATGCTTTTCTGAATAGAGAGCTTGATCGAGATG
TGTACATGGAACAACCAAAAGGATTCGAGAATGAGATCTATCCTGATCATGTTTCCAAGCTGAAA
AAAGCGCTCTATGGGTTGAAACAAGCTCCTAGAGCATGGTATGGCAAAATTGCAGAGTTTCTCAT
TCACACTGGCTATGTAGTTGCACCAGCTGACTCTAGCTTATTTGTGAAAGTTAGAGAAGAAAAGC
TAGCAATTATTCTTGTTTATGTGGATAATCTTATTATCACTGAAGATAATATAAAAGAAATCCAC
CAAACTAAGGAGAATTTACCAGTTTGCTTTCAAATGAAAGAACTCGGAGAGCTGAATCACTTTCT
TGGATTAGAAATGGAGCGAACACTAGAAGGGTTGTTCTTGTGTCAAGAAAAATATGCAAGAAATC
TTCTTAAAAAATATGGGACATTTGATTGCAAACATCTTTCTATTCCAATAGAGGTGAACTCAAAA
TT
Found at i:367482 original size:34 final size:34
Alignment explanation
Indices: 367433--367517 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
367423 TTAATTTCTT
*
367433 TGTTAAGTGTGTTAGGTGATGTATTTGGTGAGAA
1 TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
*
367467 TGTTAGGTGTATTAGGTGATGTATTTGGTGAGAA
1 TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
367501 TGTTAGGTGTGTTAGGT
1 TGTTAGGTGTGTTAGGT
367518 AATATGTTAA
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.42
Consensus pattern (34 bp):
TGTTAGGTGTGTTAGGTGATGTATTTGGTGAGAA
Found at i:371957 original size:50 final size:50
Alignment explanation
Indices: 371897--372102 Score: 315
Period size: 50 Copynumber: 4.1 Consensus size: 50
371887 GTTGTCATTA
*
371897 TTGACTATTCTTCACCAACCTTTGATAATCGAGAGAGGTGGCCGTAATTG
1 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTAATTG
* *
371947 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGATGGCTGTAATTG
1 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTAATTG
* * *
371997 TTGA-TGATTCTTCACCAACCTTTGACAATTGAGAGAGGTGACCATAATTG
1 TTGACT-ATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTAATTG
* * *
372047 TTGACTATTCTTCACCAACCTTTGATAATAGAAAGAGGTGGCCGTAATTG
1 TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTAATTG
372097 TTGACT
1 TTGACT
372103 CTAAGCAACT
Statistics
Matches: 141, Mismatches: 13, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
49 1 0.01
50 139 0.99
51 1 0.01
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (50 bp):
TTGACTATTCTTCACCAACCTTTGACAATCGAGAGAGGTGGCCGTAATTG
Found at i:373782 original size:49 final size:49
Alignment explanation
Indices: 373698--373798 Score: 175
Period size: 49 Copynumber: 2.1 Consensus size: 49
373688 AGCTAACTTT
*
373698 GTTCAATTGCCTTGTACGATATCGATCATGACTAGTTAAACAAGTGCAG
1 GTTCAATTGCCTTGTACGATATCGAACATGACTAGTTAAACAAGTGCAG
* *
373747 GTTCAATTGCCTTGTACGATATTGAACATGCCTAGTTAAACAAGTGCAG
1 GTTCAATTGCCTTGTACGATATCGAACATGACTAGTTAAACAAGTGCAG
373796 GTT
1 GTT
373799 TATGTTAAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.32
Consensus pattern (49 bp):
GTTCAATTGCCTTGTACGATATCGAACATGACTAGTTAAACAAGTGCAG
Found at i:375964 original size:40 final size:37
Alignment explanation
Indices: 375901--376000 Score: 121
Period size: 40 Copynumber: 2.6 Consensus size: 37
375891 TTTTTTTCAC
375901 TTTTTTTTTCTTTCTTTTCAATTTTTCTCTTCTTTTT
1 TTTTTTTTTCTTTCTTTTCAATTTTTCTCTTCTTTTT
* *
375938 TTTTTTTTTGCTTTCTAATTTTAATTTTTTTCTTCTTTTT
1 TTTTTTTTT-CTTTCT--TTTCAATTTTTCTCTTCTTTTT
375978 TTTTCATTTTTCATTT-TTTTCAA
1 TTTT--TTTTTC-TTTCTTTTCAA
376001 AGAATCAAAG
Statistics
Matches: 54, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
37 9 0.17
38 6 0.11
39 5 0.09
40 24 0.44
41 2 0.04
42 8 0.15
ACGTcount: A:0.10, C:0.13, G:0.01, T:0.76
Consensus pattern (37 bp):
TTTTTTTTTCTTTCTTTTCAATTTTTCTCTTCTTTTT
Found at i:377049 original size:41 final size:41
Alignment explanation
Indices: 376983--377062 Score: 106
Period size: 41 Copynumber: 2.0 Consensus size: 41
376973 TATTCAAATT
* * *
376983 AAAATCAGAAACTCTTGTTTTATAAGGCATGGGCACATTAA
1 AAAAACAGAAACTCTCGTTTGATAAGGCATGGGCACATTAA
* **
377024 AAAAACAGAAGCTCTCGTTTGATAAGGTGTGGGCACATT
1 AAAAACAGAAACTCTCGTTTGATAAGGCATGGGCACATT
377063 CTATTAAAAG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.36, C:0.15, G:0.21, T:0.28
Consensus pattern (41 bp):
AAAAACAGAAACTCTCGTTTGATAAGGCATGGGCACATTAA
Found at i:381355 original size:23 final size:24
Alignment explanation
Indices: 381311--381361 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 24
381301 ACACTAAAAT
* *
381311 TTTAAATAATAGTAATTAATTAA-
1 TTTAAATAAAAATAATTAATTAAG
* *
381334 TTTAAATAAAAATATTTTATTAAG
1 TTTAAATAAAAATAATTAATTAAG
381358 TTTA
1 TTTA
381362 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (24 bp):
TTTAAATAAAAATAATTAATTAAG
Found at i:381625 original size:31 final size:29
Alignment explanation
Indices: 381590--381675 Score: 102
Period size: 29 Copynumber: 2.9 Consensus size: 29
381580 AAATAATAAC
*
381590 TAAAAATTAAATATACTTTTTTATCAAACAT
1 TAAAAAATAAATATA-TTTTTTAT-AAACAT
* * *
381621 TAAAAAATAAATAAATGTTTT-TAAATAT
1 TAAAAAATAAATATATTTTTTATAAACAT
381649 TAAAAAAATAAATATATTTTTTATAAA
1 T-AAAAAATAAATATATTTTTTATAAA
381676 AATTTAAGAG
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
28 6 0.13
29 19 0.40
30 9 0.19
31 13 0.28
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.41
Consensus pattern (29 bp):
TAAAAAATAAATATATTTTTTATAAACAT
Found at i:384812 original size:21 final size:21
Alignment explanation
Indices: 384766--384840 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
384756 GCTTGTCTCG
*
384766 TGTCAACCAGGAACAGATTTA
1 TGTCAACCAGGAACAGGTTTA
*
384787 AGTCAACCAGGAACAGGTTGT-
1 TGTCAACCAGGAACAGGTT-TA
** *
384808 TGTC-ATTAGAAACAGGTTTA
1 TGTCAACCAGGAACAGGTTTA
*
384828 TGTCGACCAGGAA
1 TGTCAACCAGGAA
384841 GAAGTTGTTG
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 1 0.02
20 15 0.36
21 25 0.60
22 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.24
Consensus pattern (21 bp):
TGTCAACCAGGAACAGGTTTA
Found at i:390934 original size:13 final size:13
Alignment explanation
Indices: 390916--390941 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
390906 TGCCTTTTTA
390916 ATCATTACTACAT
1 ATCATTACTACAT
390929 ATCATTACTACAT
1 ATCATTACTACAT
390942 TGGCGAGCCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (13 bp):
ATCATTACTACAT
Found at i:395602 original size:32 final size:33
Alignment explanation
Indices: 395565--395642 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 33
395555 ATAAATAAAA
395565 TTAAAAAATTATTAAAT-TTTATTT-TTTATTT
1 TTAAAAAATTATTAAATGTTTATTTATTTATTT
* * *
395596 TT-TAAAATTATTATATGTTTGTTTATTTATTT
1 TTAAAAAATTATTAAATGTTTATTTATTTATTT
*
395628 TTAAAATATT-TTAAA
1 TTAAAAAATTATTAAA
395643 AAAGTGATAA
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
30 12 0.32
31 8 0.21
32 13 0.34
33 5 0.13
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (33 bp):
TTAAAAAATTATTAAATGTTTATTTATTTATTT
Found at i:395603 original size:30 final size:31
Alignment explanation
Indices: 395569--395634 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
395559 ATAAAATTAA
395569 AAAATTATTAAAT-TTTATTT-TTTATTTTTT
1 AAAATTATTAAATGTTTATTTATTTA-TTTTT
* *
395599 AAAATTATTATATGTTTGTTTATTTATTTTT
1 AAAATTATTAAATGTTTATTTATTTATTTTT
395630 AAAAT
1 AAAAT
395635 ATTTTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
30 12 0.38
31 16 0.50
32 4 0.12
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (31 bp):
AAAATTATTAAATGTTTATTTATTTATTTTT
Found at i:401925 original size:22 final size:23
Alignment explanation
Indices: 401900--401949 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 23
401890 ACTTAAAGGT
*
401900 ATTTTAAT-TTCGAGCTAATCAA
1 ATTTTAATATTCAAGCTAATCAA
* *
401922 A-TTTAATATTTAAGTTAATCAA
1 ATTTTAATATTCAAGCTAATCAA
401944 ATTTTA
1 ATTTTA
401950 GTTATTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 6 0.26
22 13 0.57
23 4 0.17
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (23 bp):
ATTTTAATATTCAAGCTAATCAA
Found at i:402246 original size:15 final size:16
Alignment explanation
Indices: 402228--402262 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
402218 CTTAAGTTTA
*
402228 TTAAATTT-AATTATT
1 TTAAATTTGAATCATT
402243 TTAAATTTGAATCATT
1 TTAAATTTGAATCATT
402259 TTAA
1 TTAA
402263 GCTAATTGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (16 bp):
TTAAATTTGAATCATT
Found at i:402292 original size:182 final size:183
Alignment explanation
Indices: 401983--402321 Score: 529
Period size: 182 Copynumber: 1.9 Consensus size: 183
401973 TAAGTTTAAG
401983 TCAATTCAATTTAACACTTGAATTAATCAAGTTCGGATTAATTAAGTTTAGCACTTAAGTTTATT
1 TCAATTCAATTTAACACTTGAATTAATCAAGTTCGGATTAATTAAGTTTAGCACTTAAGTTTATT
* ** ** * *
402048 AAGTTTGGTTATTTTAGGTTTGAATCATTTTGAGCTAGTTGTTTAGGTTATTTTGGATTTGAATT
66 AAATTTAATTATTTTAAATTTGAATCATTTTAAGCTAATTGTTTAGGTTATTTTGGATTTGAATT
* *
402113 ATTACGAGTTTAATTCATTTC-AAGTTCGGGTTGATTTCATTTCAAGTTTTGA
131 ATTACGAGTTAAATTAATTTCTAAGTTCGGGTTGATTTCATTTCAAGTTTTGA
*
402165 TCAATTCAATTTAACACTTGAATTAATCCAGTTCGGATTAATTAAGTTTAGCACTTAAGTTTATT
1 TCAATTCAATTTAACACTTGAATTAATCAAGTTCGGATTAATTAAGTTTAGCACTTAAGTTTATT
**
402230 AAATTTAATTATTTTAAATTTGAATCATTTTAAGCTAATTGTTT-GGATTATTTTTTATTTGAAT
66 AAATTTAATTATTTTAAATTTGAATCATTTTAAGCTAATTGTTTAGG-TTATTTTGGATTTGAAT
**
402294 TATTTTGAGTTAAATTAATTTCTAAGTT
130 TATTACGAGTTAAATTAATTTCTAAGTT
402322 TAGGTTGACT
Statistics
Matches: 141, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
181 2 0.01
182 134 0.95
183 5 0.04
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (183 bp):
TCAATTCAATTTAACACTTGAATTAATCAAGTTCGGATTAATTAAGTTTAGCACTTAAGTTTATT
AAATTTAATTATTTTAAATTTGAATCATTTTAAGCTAATTGTTTAGGTTATTTTGGATTTGAATT
ATTACGAGTTAAATTAATTTCTAAGTTCGGGTTGATTTCATTTCAAGTTTTGA
Found at i:404226 original size:22 final size:22
Alignment explanation
Indices: 404198--404242 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
404188 TTTTGGAGTT
404198 TCAAACAATAAAGATGAATCAA
1 TCAAACAATAAAGATGAATCAA
404220 TCAAACAATAAAGATGAATCAA
1 TCAAACAATAAAGATGAATCAA
404242 T
1 T
404243 TCAACTTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.58, C:0.13, G:0.09, T:0.20
Consensus pattern (22 bp):
TCAAACAATAAAGATGAATCAA
Found at i:405793 original size:21 final size:21
Alignment explanation
Indices: 405767--405828 Score: 72
Period size: 21 Copynumber: 3.0 Consensus size: 21
405757 GTCAACCAGG
*
405767 AATAGGTTGTTGTTGACTAGA
1 AATAGGTTGTTGTCGACTAGA
*
405788 AATAGGTT-TATGTCGACTAGG
1 AATAGGTTGT-TGTCGACTAGA
* *
405809 AATAGGCTGTTGTCAACTAG
1 AATAGGTTGTTGTCGACTAG
405829 GAGTAGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 1 0.03
21 33 0.94
22 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.27, T:0.34
Consensus pattern (21 bp):
AATAGGTTGTTGTCGACTAGA
Found at i:405828 original size:42 final size:42
Alignment explanation
Indices: 405749--405852 Score: 118
Period size: 42 Copynumber: 2.5 Consensus size: 42
405739 AACCGGGAAC
* * * **
405749 AGATTTAAGTCAACCAGGAATAGGTTGTTGTTGACTAGAAAT
1 AGATTTATGTCGACCAGGAATAGGCTGTTGTCAACTAGAAAT
* * * *
405791 AGGTTTATGTCGACTAGGAATAGGCTGTTGTCAACTAGGAGT
1 AGATTTATGTCGACCAGGAATAGGCTGTTGTCAACTAGAAAT
*
405833 AGATTTATGTTGACCAGGAA
1 AGATTTATGTCGACCAGGAA
405853 AACAGAAGAC
Statistics
Matches: 50, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 50 1.00
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.31
Consensus pattern (42 bp):
AGATTTATGTCGACCAGGAATAGGCTGTTGTCAACTAGAAAT
Found at i:405829 original size:21 final size:20
Alignment explanation
Indices: 405757--405830 Score: 67
Period size: 21 Copynumber: 3.5 Consensus size: 20
405747 ACAGATTTAA
*
405757 GTCAACCAGGAATAGGTTGTT
1 GTCAACTAGGAATAGG-TGTT
** * *
405778 GTTGACTAGAAATAGGTTTAT
1 GTCAACTAGGAATAGGTGT-T
*
405799 GTCGACTAGGAATAGGCTGTT
1 GTCAACTAGGAATAGG-TGTT
405820 GTCAACTAGGA
1 GTCAACTAGGA
405831 GTAGATTTAT
Statistics
Matches: 42, Mismatches: 9, Indels: 4
0.76 0.16 0.07
Matches are distributed among these distances:
20 2 0.05
21 38 0.90
22 2 0.05
ACGTcount: A:0.30, C:0.12, G:0.28, T:0.30
Consensus pattern (20 bp):
GTCAACTAGGAATAGGTGTT
Found at i:415518 original size:18 final size:19
Alignment explanation
Indices: 415497--415539 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
415487 AAATTAATAA
*
415497 ATTAAA-TAATATTATTTT
1 ATTAAATTAAAATTATTTT
415515 ATTAAAATTAAAATTATTTT
1 ATT-AAATTAAAATTATTTT
415535 -TTAAA
1 ATTAAA
415540 ATTTTTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 6 0.27
19 5 0.23
20 11 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTAAATTAAAATTATTTT
Found at i:415582 original size:29 final size:29
Alignment explanation
Indices: 415540--415600 Score: 86
Period size: 29 Copynumber: 2.1 Consensus size: 29
415530 ATTTTTTAAA
* * *
415540 ATTTTTTATGAGATAATATTATATAATTT
1 ATTTTTAATAAGATAAAATTATATAATTT
*
415569 ATTTTTAATAAGATAAAATTATTTAATTT
1 ATTTTTAATAAGATAAAATTATATAATTT
415598 ATT
1 ATT
415601 AAAAAATATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (29 bp):
ATTTTTAATAAGATAAAATTATATAATTT
Found at i:416511 original size:33 final size:30
Alignment explanation
Indices: 416454--416528 Score: 89
Period size: 33 Copynumber: 2.4 Consensus size: 30
416444 ATAAAATTAA
416454 AAAATTATTAAATTTTATTTTTTATTTTTT
1 AAAATTATTAAATTTTATTTTTTATTTTTT
* *
416484 AAAATTATTATATGTTTTGTTTATTTATTTTTT
1 AAAATTATTA-A-ATTTTATTT-TTTATTTTTT
416517 AAATATT-TTAAA
1 AAA-ATTATTAAA
416529 AAAGTGATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
30 10 0.26
31 1 0.03
32 8 0.21
33 16 0.42
34 3 0.08
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.63
Consensus pattern (30 bp):
AAAATTATTAAATTTTATTTTTTATTTTTT
Found at i:422416 original size:16 final size:16
Alignment explanation
Indices: 422380--422412 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
422370 TAAGTATTTT
*
422380 ATAATTTTTTATATAA
1 ATAATATTTTATATAA
422396 ATAATATTTTA-ATAA
1 ATAATATTTTATATAA
422411 AT
1 AT
422413 TAATGATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
ATAATATTTTATATAA
Found at i:422621 original size:15 final size:16
Alignment explanation
Indices: 422597--422630 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
422587 TAAAAAATAA
422597 AAAAATTAAATTAAAT
1 AAAAATTAAATTAAAT
*
422613 AAAAA-TAAATTATAT
1 AAAAATTAAATTAAAT
422628 AAA
1 AAA
422631 TTTTTTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAAAATTAAATTAAAT
Found at i:425389 original size:80 final size:80
Alignment explanation
Indices: 425246--425403 Score: 257
Period size: 78 Copynumber: 2.0 Consensus size: 80
425236 AAAAGTCTTC
*
425246 ACTTAAAAGTCTTGCCTTTGGTCAAATCAAAAAATAGTTACAAGTATTTCTCTTTTCCTTATATA
1 ACTTAAAAGTCTTGCCTTTGGTCAAATCAAAAAATAGTGACAAGTATTTCTCTTTTCCTTATATA
425311 TTAGATAGTCACAAT
66 TTAGATAGTCACAAT
* * * *
425326 ACTTAAAAGTCTTGGCTTTGGTCAAATC-AAAACTAG-GACAATTATTTCTCTTTTCTTTATATA
1 ACTTAAAAGTCTTGCCTTTGGTCAAATCAAAAAATAGTGACAAGTATTTCTCTTTTCCTTATATA
425389 TTAGATAGTCACAAT
66 TTAGATAGTCACAAT
425404 TTTTCTGTGG
Statistics
Matches: 73, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
78 39 0.53
79 7 0.10
80 27 0.37
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (80 bp):
ACTTAAAAGTCTTGCCTTTGGTCAAATCAAAAAATAGTGACAAGTATTTCTCTTTTCCTTATATA
TTAGATAGTCACAAT
Found at i:427321 original size:25 final size:26
Alignment explanation
Indices: 427274--427327 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
427264 TAAACCCTTA
*
427274 AAAATTCTTAGAAATTAATCATTTGC
1 AAAATTCTTAGAAATTAATCATTGGC
*
427300 AAAATT-TTA-AAATTTCATCATTGGC
1 AAAATTCTTAGAAA-TTAATCATTGGC
427325 AAA
1 AAA
427328 TCGCAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 16 0.64
26 6 0.24
ACGTcount: A:0.44, C:0.11, G:0.07, T:0.37
Consensus pattern (26 bp):
AAAATTCTTAGAAATTAATCATTGGC
Found at i:428001 original size:52 final size:53
Alignment explanation
Indices: 427937--428056 Score: 138
Period size: 52 Copynumber: 2.3 Consensus size: 53
427927 TCTGGAATAA
* ** * *
427937 AAATGTATCGATACATTTTTTTATTGTATCGATACATT-CTGAG-TTTTGACCC
1 AAATGTATCGATACATTTCTACATTGTATCGATACATTCCAG-GTTTTTGAACC
* *
427989 AAATGTATCGATATA-TTCTACATTGTATGGATACATTCCAGGTTTTTGAACC
1 AAATGTATCGATACATTTCTACATTGTATCGATACATTCCAGGTTTTTGAACC
*
428041 AAATGTATCGACACAT
1 AAATGTATCGATACAT
428057 GCATGCAAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
51 19 0.34
52 37 0.66
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (53 bp):
AAATGTATCGATACATTTCTACATTGTATCGATACATTCCAGGTTTTTGAACC
Found at i:430297 original size:50 final size:50
Alignment explanation
Indices: 430222--430356 Score: 209
Period size: 50 Copynumber: 2.7 Consensus size: 50
430212 TTTCAAAATT
* *
430222 TGTATCGATACATTCTTCATTGTATCGATACATTCTG-GCTTTTACCTAGA
1 TGTATCGATACATTATTCATTGTATCGATACATTCTGAG-TTTTACCCAGA
*
430272 TGTATCGATACATTATTCATTGTATCGATATATTCTGAGTTTTACCCAGA
1 TGTATCGATACATTATTCATTGTATCGATACATTCTGAGTTTTACCCAGA
* *
430322 TGTATCGATACATTTTTCAATGTATCGATACATTC
1 TGTATCGATACATTATTCATTGTATCGATACATTC
430357 CGACATTTTT
Statistics
Matches: 78, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
50 77 0.99
51 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.42
Consensus pattern (50 bp):
TGTATCGATACATTATTCATTGTATCGATACATTCTGAGTTTTACCCAGA
Found at i:432483 original size:28 final size:28
Alignment explanation
Indices: 432441--432514 Score: 96
Period size: 28 Copynumber: 2.6 Consensus size: 28
432431 TTTCACAATC
* *
432441 GGGGATATTCTAACCCCGTTA-TTTCTGA
1 GGGGATACTCCAACCCCGTTATTTTC-GA
**
432469 GGGGATACTCCAACCCTATTATTTTCGA
1 GGGGATACTCCAACCCCGTTATTTTCGA
432497 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
432515 ATTTTATTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 35 0.90
29 4 0.10
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTCGA
Found at i:432562 original size:51 final size:52
Alignment explanation
Indices: 432497--432609 Score: 165
Period size: 52 Copynumber: 2.2 Consensus size: 52
432487 TTATTTTCGA
* * * *
432497 GGGGATACTCCAACCCCGATTTTATTTC-CAAAACATCAATTTTCCACAATC
1 GGGGATACTTCAACCCCCACTTTATTTCTAAAAACATCAATTTTCCACAATC
* *
432548 GGGGATACTTCAACCCCCACTTTATTTCTAAAAACATCAATTTTTCATAATC
1 GGGGATACTTCAACCCCCACTTTATTTCTAAAAACATCAATTTTCCACAATC
432600 GGGGATACTT
1 GGGGATACTT
432610 AAACTCCATT
Statistics
Matches: 55, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
51 25 0.45
52 30 0.55
ACGTcount: A:0.31, C:0.26, G:0.12, T:0.32
Consensus pattern (52 bp):
GGGGATACTTCAACCCCCACTTTATTTCTAAAAACATCAATTTTCCACAATC
Found at i:432686 original size:79 final size:79
Alignment explanation
Indices: 432548--432833 Score: 304
Period size: 79 Copynumber: 3.6 Consensus size: 79
432538 TTCCACAATC
* ** * * **
432548 GGGGATACTTCAACCCCCACTTTATTTCTAAAAACATCAATTTTTCATAATCGGGGATACTTAAA
1 GGGGATACTCCAACCCTAATTTTATTTCT-AAAACATCAATTTTTCATAATCGAGGATACTCCAA
* *
432613 CTCCATTGTTTTCGA
65 CTCCATTATTTTTGA
** *
432628 GGGGATACTCCAACCCTGGTTTTATTTCTAAAACATTAATTTTTCATAATCGAGGATACTCCAAC
1 GGGGATACTCCAACCCTAATTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAAC
* *
432693 CCCGTTATTTTTGA
66 TCCATTATTTTTGA
* * ** *
432707 GGGGATACTCCAA-CCTCAATTTTATTTCCAAAACATCGATTTTTCACCATTGAGGATACTCCAA
1 GGGGATACTCCAACCCT-AATTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAA
432771 CTCCATTATTTTTGA
65 CTCCATTATTTTTGA
* * * * * * *
432786 AGGGATACTCTAACCCCATTTTTATCTCTAAAATATTAAATTTTTCAT
1 GGGGATACTCCAACCCTAATTTTATTTCTAAAACA-TCAATTTTTCAT
432834 CGGGGGATAT
Statistics
Matches: 170, Mismatches: 33, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
78 3 0.02
79 132 0.78
80 35 0.21
ACGTcount: A:0.30, C:0.22, G:0.12, T:0.37
Consensus pattern (79 bp):
GGGGATACTCCAACCCTAATTTTATTTCTAAAACATCAATTTTTCATAATCGAGGATACTCCAAC
TCCATTATTTTTGA
Found at i:435864 original size:13 final size:13
Alignment explanation
Indices: 435846--435875 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
435836 TTCTTTTTTA
*
435846 AAAAAATAAAAAT
1 AAAAAATAAAAAG
435859 AAAAAATAAAAAG
1 AAAAAATAAAAAG
435872 AAAA
1 AAAA
435876 TTGAAAACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.87, C:0.00, G:0.03, T:0.10
Consensus pattern (13 bp):
AAAAAATAAAAAG
Found at i:439799 original size:68 final size:64
Alignment explanation
Indices: 439669--439800 Score: 174
Period size: 68 Copynumber: 2.0 Consensus size: 64
439659 ATCCCTATTG
* * * *
439669 ATGAGCTTGGGGTTTTCGGCATGAAGGTATGCCCACGGGCAATACCTCTGTCAATTTCAAGCTT
1 ATGAGCTTGGGCTTTTCGGCATGAAGGTATGCCCACCGGCAATACCGCTGTCAATTTAAAGCTT
* *
439733 ATGAGCTTGGGCTTTTTGGCATGAAGGTATTTTAGCCCACCGGCAATGCCGCTGTCAATTTAAAG
1 ATGAGCTTGGGCTTTTCGGCATGAAGGTA---T-GCCCACCGGCAATACCGCTGTCAATTTAAAG
439798 CTT
62 CTT
439801 TATTTACATG
Statistics
Matches: 58, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
64 27 0.47
67 1 0.02
68 30 0.52
ACGTcount: A:0.22, C:0.21, G:0.26, T:0.31
Consensus pattern (64 bp):
ATGAGCTTGGGCTTTTCGGCATGAAGGTATGCCCACCGGCAATACCGCTGTCAATTTAAAGCTT
Found at i:440109 original size:5 final size:5
Alignment explanation
Indices: 440101--440137 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
440091 AAATTAAATC
440101 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AT-AT ATA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA
440138 TTTTTCTGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATAAT
Found at i:441768 original size:16 final size:16
Alignment explanation
Indices: 441747--441782 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
441737 ATAAGTTTTA
441747 ATTATTTTAAATTCAG
1 ATTATTTTAAATTCAG
* *
441763 ATTATTTTAAGTTTAG
1 ATTATTTTAAATTCAG
441779 ATTA
1 ATTA
441783 ATCTAATTTA
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:0.36, C:0.03, G:0.08, T:0.53
Consensus pattern (16 bp):
ATTATTTTAAATTCAG
Found at i:441819 original size:15 final size:15
Alignment explanation
Indices: 441799--441828 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
441789 TTTAATACTC
441799 GAATTAATCAAATTT
1 GAATTAATCAAATTT
441814 GAATTAATCAAATTT
1 GAATTAATCAAATTT
441829 AGTATTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (15 bp):
GAATTAATCAAATTT
Found at i:441835 original size:22 final size:22
Alignment explanation
Indices: 441810--441851 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
441800 AATTAATCAA
*
441810 ATTTGAATTAATCAAATTTAGT
1 ATTTAAATTAATCAAATTTAGT
* *
441832 ATTTAAATTTATCAAGTTTA
1 ATTTAAATTAATCAAATTTA
441852 ATCATTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTTAAATTAATCAAATTTAGT
Found at i:441924 original size:15 final size:16
Alignment explanation
Indices: 441890--441929 Score: 55
Period size: 16 Copynumber: 2.5 Consensus size: 16
441880 TAATTGTTTG
441890 AATTATTTTAGATTTA
1 AATTATTTTAGATTTA
*
441906 AATTATTTT-GATTTT
1 AATTATTTTAGATTTA
441921 AATTCATTT
1 AATT-ATTT
441930 CAAATTTAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.60
Consensus pattern (16 bp):
AATTATTTTAGATTTA
Found at i:444138 original size:257 final size:257
Alignment explanation
Indices: 443682--444192 Score: 1004
Period size: 257 Copynumber: 2.0 Consensus size: 257
443672 TGGCCGAACC
443682 TCGTTAAATCTTTGGTGTTCTGTTTCTTCTTTTCTTGTCTTTATTTTTCAATAGCTTGTAGGTGG
1 TCGTTAAATCTTTGGTGTTCTGTTTCTTCTTTTCTTGTCTTTATTTTTCAATAGCTTGTAGGTGG
443747 AATATCCACTGATTCCACCACAATTGGTATCAGAGCCAAGTTACTCTGAGTATGCTCTGTGGTTG
66 AATATCCACTGATTCCACCACAATTGGTATCAGAGCCAAGTTACTCTGAGTATGCTCTGTGGTTG
443812 CAGCTTAGGCTGATCCTCCACAACAGAAAAGATATCATTGGGCTATTGTATTGGCAAGGCAAGCT
131 CAGCTTAGGCTGATCCTCCACAACAGAAAAGATATCATTGGGCTATTGTATTGGCAAGGCAAGCT
443877 ATTGGAGAATTTGTGATTCCAAAATGAGTTTGACATCAGCTGTATCAACATCTTCATCAACA
196 ATTGGAGAATTTGTGATTCCAAAATGAGTTTGACATCAGCTGTATCAACATCTTCATCAACA
*
443939 TCGTTAAATCTTTGGTGTTCTGTTTCTTCTTTTCTTGTCTTTATTTTTCGATAGCTTGTAGGTGG
1 TCGTTAAATCTTTGGTGTTCTGTTTCTTCTTTTCTTGTCTTTATTTTTCAATAGCTTGTAGGTGG
*
444004 AATATCCGCTGATTCCACCACAATTGGTATCAGAGCCAAGTTACTCTGAGTATGCTCTGTGGTTG
66 AATATCCACTGATTCCACCACAATTGGTATCAGAGCCAAGTTACTCTGAGTATGCTCTGTGGTTG
444069 CAGCTTAGGCTGATCCTCCACAACAGAAAAGATATCATTGGGCTATTGTATTGGCAAGGCAAGCT
131 CAGCTTAGGCTGATCCTCCACAACAGAAAAGATATCATTGGGCTATTGTATTGGCAAGGCAAGCT
444134 ATTGGAGAATTTGTGATTCCAAAATGAGTTTGACATCAGCTGTATCAACATCTTCATCA
196 ATTGGAGAATTTGTGATTCCAAAATGAGTTTGACATCAGCTGTATCAACATCTTCATCA
444193 GCACCTATTT
Statistics
Matches: 252, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
257 252 1.00
ACGTcount: A:0.25, C:0.19, G:0.20, T:0.36
Consensus pattern (257 bp):
TCGTTAAATCTTTGGTGTTCTGTTTCTTCTTTTCTTGTCTTTATTTTTCAATAGCTTGTAGGTGG
AATATCCACTGATTCCACCACAATTGGTATCAGAGCCAAGTTACTCTGAGTATGCTCTGTGGTTG
CAGCTTAGGCTGATCCTCCACAACAGAAAAGATATCATTGGGCTATTGTATTGGCAAGGCAAGCT
ATTGGAGAATTTGTGATTCCAAAATGAGTTTGACATCAGCTGTATCAACATCTTCATCAACA
Found at i:445031 original size:109 final size:108
Alignment explanation
Indices: 444837--445065 Score: 413
Period size: 109 Copynumber: 2.1 Consensus size: 108
444827 CTCAGAACTG
*
444837 GAAGAAGGGAAACATGGGGAGATCAAAGTCGAAACCCAGACTGGGAAAAGATGAATGCGCCTTTT
1 GAAGAAGGGAAACAGGGGGAGATCAAAGTCGAAACCCAGACTGGGAAAAGATGAATGCGCCTTTT
444902 GTCATGAGAAAGGTCATTGGAAGAAAGATTGTCCAAAGTTGAA
66 GTCATGAGAAAGGTCATTGGAAGAAAGATTGTCCAAAGTTGAA
444945 GAATGAAGGGAAACAGGGGGAGATCAAAGTCGAAACCCAGACTGGGAAAAGATGAATGCGCCTTT
1 GAA-GAAGGGAAACAGGGGGAGATCAAAGTCGAAACCCAGACTGGGAAAAGATGAATGCGCCTTT
* *
445010 TGTCGTGAGAAAGGTCATTGGAAGAAAGATTGTCTAAAGTTGAA
65 TGTCATGAGAAAGGTCATTGGAAGAAAGATTGTCCAAAGTTGAA
*
445054 GAAGAAAGGAAA
1 GAAGAAGGGAAA
445066 AGCTGCTTCA
Statistics
Matches: 116, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
108 11 0.09
109 105 0.91
ACGTcount: A:0.40, C:0.12, G:0.31, T:0.18
Consensus pattern (108 bp):
GAAGAAGGGAAACAGGGGGAGATCAAAGTCGAAACCCAGACTGGGAAAAGATGAATGCGCCTTTT
GTCATGAGAAAGGTCATTGGAAGAAAGATTGTCCAAAGTTGAA
Found at i:450447 original size:13 final size:13
Alignment explanation
Indices: 450429--450453 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
450419 CAAAGATCAG
450429 TGTATCGATACAA
1 TGTATCGATACAA
450442 TGTATCGATACA
1 TGTATCGATACA
450454 TTTGAGTAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:450466 original size:21 final size:21
Alignment explanation
Indices: 450440--450517 Score: 156
Period size: 21 Copynumber: 3.7 Consensus size: 21
450430 GTATCGATAC
450440 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
450461 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
450482 AATGTATCGATACATTTGAGT
1 AATGTATCGATACATTTGAGT
450503 AATGTATCGATACAT
1 AATGTATCGATACAT
450518 ATTCTTGGCA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 57 1.00
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGAGT
Found at i:450558 original size:13 final size:13
Alignment explanation
Indices: 450540--450623 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
450530 AGCTTCGTAG
450540 CGATACATTGTAT
1 CGATACATTGTAT
450553 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
450572 CGATACATTGTAT
1 CGATACATTGTAT
450585 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
450604 CGATACATTGTAT
1 CGATACATTGTAT
450617 CGATACA
1 CGATACA
450624 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 26 0.44
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.32
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:450572 original size:19 final size:19
Alignment explanation
Indices: 450548--450662 Score: 137
Period size: 19 Copynumber: 6.7 Consensus size: 19
450538 AGCGATACAT
*
450548 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
450567 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
450580 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
450599 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
450612 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
450631 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
450650 TGTATCGATACAA
1 TGTATCGATACAA
450663 ATTGTTGAAA
Statistics
Matches: 83, Mismatches: 1, Indels: 24
0.77 0.01 0.22
Matches are distributed among these distances:
13 18 0.22
14 2 0.02
16 11 0.13
18 2 0.02
19 50 0.60
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Done.