Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2
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: 5794061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 68655 characters in sequence are not A, C, G, or T
File 7 of 38
Found at i:1050061 original size:35 final size:34
Alignment explanation
Indices: 1049959--1050531 Score: 595
Period size: 35 Copynumber: 16.8 Consensus size: 34
1049949 TTTTTTCTTC
* *
1049959 AAAGCCCACAACTTCGTGGCACC-TTTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1049991 AAAGCCCACAACTCCGTGGCACCTTTTTCTGTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* *
1050025 AAATCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
*
1050060 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
*
1050097 AAAGCCCACAACTCCGTGGAACCTTTTTC-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
*
1050130 AAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
* *
1050165 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTC
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
1050202 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1050236 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTT--CTTTTT
* *
1050273 AAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACC-T-TTTTCTTTTT
*
1050309 -AAGCCCACAACTCCGCGGCACC-----C-TTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
1050336 -AAGTCCACGACTCCGTGGCA-CTCTTTTC-CTTT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTTT
* * *
1050368 AAAGCCCACAACTACGTGGCA-CTCTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCACCT-TTTTCTTTTT
* *
1050402 -AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTT
*
1050436 -AAGCCCACAACTCCATGGCACTCTTTTTTTCCTTTTT
1 AAAGCCCACAACTCCGTGGCAC-C--TTTTT-CTTTTT
* * *
1050473 AAAGCCCACAACTCTGTGGTACCTTGTTCTTTTT
1 AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
* * *
1050507 -AAGTCCACAACTTCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACCTTT
1050532 CACCCTCTCT
Statistics
Matches: 469, Mismatches: 44, Indels: 55
0.83 0.08 0.10
Matches are distributed among these distances:
26 1 0.00
27 20 0.04
28 1 0.00
32 26 0.06
33 91 0.19
34 98 0.21
35 102 0.22
36 22 0.05
37 86 0.18
38 22 0.05
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.34
Consensus pattern (34 bp):
AAAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
Found at i:1050156 original size:105 final size:103
Alignment explanation
Indices: 1049959--1050531 Score: 660
Period size: 105 Copynumber: 5.6 Consensus size: 103
1049949 TTTTTTCTTC
*
1049959 AAAGCCCACAACTTCGTGGCAC-C-TTTTCCTTT-AAAGCCCACAACTCCGTGGCACCTTTTTCT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
* * *
1050021 GTTTAAATCCCACAACTCTGTGGCACACTTTTTCTTTTT
66 -TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
*
1050060 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGAACCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CC-TTTCAAAGCCCACAACTCCGTGGCACCTTTTT
* *
1050125 CTTTTAAAGCCCACAACTCTGTGGCACACTTTTTCTTTTT
64 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
*
1050165 AAAGCCCACAACTCTGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTT-CC-TTTCAAAGCCCACAACTCCGTGGCACCTTTTT
1050230 CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTT
64 C-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTT--CTTTTT
* *
1050273 AAAGCCCACAACTCCGTGGCAC-CTTCTTTTCC-TTCTAAGCCCACAACTCCGCGGCACC-----
1 AAAGCCCACAACTCCGTGGCACTC-T-TTTTCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTT
* * *
1050331 CTTTT-AAGTCCACGACTCCGTGGCACTC-TTTTC-CTTT
64 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
* *
1050368 AAAGCCCACAACTACGTGGCACTC-TTTTCC-TTCTAAGCCCACAACTCCGTGGCACTCTTTTTC
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-
* *
1050431 CTTCT-AAGCCCACAACTCCATGGCACTCTTTTTTTCCTTTTT
64 CTTTTAAAGCCCACAACTCCGTGGCACTC--TTTTT-CTTTTT
* * * ** * * *
1050473 AAAGCCCACAACTCTGTGGTAC-CTTGTT-CTTTTTAAGTCCACAACTTCGTGGCATCTTT
1 AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTCAAAGCCCACAACTCCGTGGCACCTTT
1050532 CACCCTCTCT
Statistics
Matches: 419, Mismatches: 28, Indels: 47
0.85 0.06 0.10
Matches are distributed among these distances:
93 30 0.07
94 1 0.00
95 24 0.06
96 2 0.00
98 4 0.01
99 21 0.05
100 28 0.07
101 22 0.05
102 1 0.00
103 8 0.02
104 9 0.02
105 150 0.36
106 84 0.20
107 1 0.00
108 30 0.07
109 4 0.01
ACGTcount: A:0.21, C:0.34, G:0.12, T:0.34
Consensus pattern (103 bp):
AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCT
TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTTTTT
Found at i:1050343 original size:27 final size:27
Alignment explanation
Indices: 1050303--1050362 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
1050293 ACCTTCTTTT
*
1050303 CCTTCTAAGCCCACAACTCCGCGGCAC
1 CCTTTTAAGCCCACAACTCCGCGGCAC
* * *
1050330 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGCGGCAC
*
1050357 TCTTTT
1 CCTTTT
1050363 CCTTTAAAGC
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.40, G:0.15, T:0.27
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGCGGCAC
Found at i:1050373 original size:60 final size:62
Alignment explanation
Indices: 1050269--1050449 Score: 215
Period size: 60 Copynumber: 2.8 Consensus size: 62
1050259 CTTTTTCCCT
1050269 TTTTAAAGCCCACAACTCCGTGGCACCTTCTTTTCCTTCTAAGCCCACAACTCCGCGGCA-C-CC
1 TTTT-AAGCCCACAACTCCGTGGCA-C-TCTTTTCCTTCTAAGCCCACAACTCCGCGGCACCTCC
* * * *
1050332 TTTTAAGTCCACGACTCCGTGGCACTCTTTTCCTT-TAAAGCCCACAACTACGTGGCACTCTTTT
1 TTTTAAGCCCACAACTCCGTGGCACTCTTTTCCTTCT-AAGCCCACAACTCCGCGGCAC-C---T
1050396 CC
61 CC
*
1050398 TTCTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCC
1 TTTTAAGCCCACAACTCCGTGGCACTC-TTTTCCTTCTAAGCCCACAACTCC
1050450 ATGGCACTCT
Statistics
Matches: 101, Mismatches: 8, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
59 1 0.01
60 28 0.28
61 1 0.01
62 19 0.19
63 4 0.04
66 26 0.26
67 21 0.21
68 1 0.01
ACGTcount: A:0.20, C:0.38, G:0.12, T:0.29
Consensus pattern (62 bp):
TTTTAAGCCCACAACTCCGTGGCACTCTTTTCCTTCTAAGCCCACAACTCCGCGGCACCTCC
Found at i:1050636 original size:49 final size:49
Alignment explanation
Indices: 1050572--1051931 Score: 1434
Period size: 49 Copynumber: 27.7 Consensus size: 49
1050562 GCAACCCTTC
* * * *
1050572 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1050621 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1050670 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1050719 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGG------CATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1050762 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1050811 TAAGTCCAATGTAGCTGGCCTTGACTCAACACATTGG------CATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1050854 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1050903 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCCCCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1050952 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1051001 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1051050 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1051099 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1051148 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1051197 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1051246 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1051295 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1051344 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1051393 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1051436 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACATTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCAC--CTT-CATCTT
* * * *
1051488 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-CC----T-TCATCTT
* * * * * * *
1051543 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCA-C-CT-TCA-TCTT
* * * * * * **
1051596 CTCA-TCATCATTTTTAAG-T--CC--AATATC-GCTGGCCTTGAATCAGCATATTGGCATCTT
1 -TAAGTC--CA-ATAT-AGCTGGCCTTGA-ATCAGC--ACATTG-----GCACCTT--CATCTT
* * * *
1051653 CATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 ------TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1051708 TAAGTCCAATATCGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1051757 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1051805 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1051848 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACC--TT-CATCTT
* *
1051900 TAAGTTCAATGTAGCTGGCCTTGAATCAGCAC
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCAC
1051932 GTTGACATCC
Statistics
Matches: 1100, Mismatches: 146, Indels: 127
0.80 0.11 0.09
Matches are distributed among these distances:
43 156 0.14
45 2 0.00
48 45 0.04
49 718 0.65
50 2 0.00
52 74 0.07
53 9 0.01
54 7 0.01
55 44 0.04
56 5 0.00
57 11 0.01
58 2 0.00
59 5 0.00
60 3 0.00
61 2 0.00
62 8 0.01
63 4 0.00
64 3 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (49 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1050746 original size:98 final size:98
Alignment explanation
Indices: 1050572--1051931 Score: 1662
Period size: 98 Copynumber: 13.8 Consensus size: 98
1050562 GCAACCCTTC
* * *
1050572 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCCTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1050637 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
*
1050670 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1050735 GGCCTTGACTCAGCACATTGG------CATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
1050762 TAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
1050827 GGCCTTGACTCAACACATTGG------CATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
1050854 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTTTAAGACCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
1050919 GGCCTTGACTCAGCACATTGGCCCCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
1050952 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTCCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1051017 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
1051050 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCCTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1051115 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
1051148 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1051213 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
1051246 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1051311 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
1051344 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
1051409 GGCCTTGAATCAGCACATTGGCA----C--CTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
1051436 TAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCAC--CTT-CATCTTTAAGTCCAATGTA
* * *
1051501 GCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTT
63 GCTGGCCTTGACTCAGCACATTGGCA-CC----T-TCATCTT
* * * * * * *
1051543 TAAGCCCAATATCGTTGGCCATGAATCAACATATTGGCATCTTTATCACTCTTCTCA-TCATCAT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA-C-CT-TCA-TCTT-TAAGTC--CA-
* * ** * * * ** **
1051607 TTTTAAGTCCAATATCGCTGGCCT-TG-A-ATCAGCATATTGGCATCTTCATCTT
58 ATGT-AG--C--TGGC-CTTGACTCAGCACATTGGCACCTT--CA------TCTT
* * * * * * *
1051659 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATATCGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
1051724 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* * *
1051757 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TCACCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
*
1051821 GGCCTTGAATCAGCACATTGGCA----C--CTT
66 GGCCTTGACTCAGCACATTGGCACCTTCATCTT
* *
1051848 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAATGTA
1 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACC--TT-CATCTTTAAGTCCAATGTA
*
1051913 GCTGGCCTTGAATCAGCAC
63 GCTGGCCTTGACTCAGCAC
1051932 GTTGACATCC
Statistics
Matches: 1130, Mismatches: 82, Indels: 103
0.86 0.06 0.08
Matches are distributed among these distances:
91 41 0.04
92 219 0.19
93 1 0.00
94 4 0.00
95 78 0.07
97 42 0.04
98 602 0.53
103 5 0.00
104 5 0.00
105 2 0.00
106 8 0.01
107 41 0.04
108 9 0.01
109 5 0.00
110 6 0.01
111 4 0.00
112 6 0.01
113 3 0.00
114 5 0.00
115 2 0.00
116 38 0.03
117 4 0.00
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.32
Consensus pattern (98 bp):
TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTAGCT
GGCCTTGACTCAGCACATTGGCACCTTCATCTT
Found at i:1051475 original size:43 final size:43
Alignment explanation
Indices: 1051341--1051475 Score: 162
Period size: 43 Copynumber: 3.0 Consensus size: 43
1051331 GCACCTTCAT
* * *
1051341 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGGCA----C
* *
1051388 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGGCAC
*
1051433 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCAC
1 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGGCAC
1051476 ATTTTCCATC
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
43 40 0.50
45 1 0.01
49 39 0.49
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (43 bp):
CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCACATTGGCAC
Found at i:1051562 original size:55 final size:52
Alignment explanation
Indices: 1051433--1051570 Score: 150
Period size: 52 Copynumber: 2.6 Consensus size: 52
1051423 ACATTGGCAC
* * *
1051433 CTTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACATTTTCCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
* * * *
1051485 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACA--CATTTTC-CAT
* * * *
1051540 CTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCA
1051571 ACATATTGGC
Statistics
Matches: 70, Mismatches: 13, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
52 36 0.51
54 6 0.09
55 28 0.40
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (52 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATTGACACATTTTCCAT
Found at i:1051758 original size:171 final size:170
Alignment explanation
Indices: 1051434--1051746 Score: 420
Period size: 171 Copynumber: 1.8 Consensus size: 170
1051424 CATTGGCACC
* *
1051434 TTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGCACATTTTCCATCTTTAAGTTCAATG
1 TTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGG-ACATCTTCCATCTTTAAGTCCAATG
* * * *
1051499 TAGCTGGCCTTGAATCAGCACGTTGACATCCTTTTTCTCATCTTTAAGCCCAATATCGTTGGCCA
65 TAGCTGGCCTTGAATCAGCACATTGACATCC---TTCTCACCATTAAGCCCAATATCGCTGGCCA
*
1051564 TGAATCAACATATTGGCATCTTTATCACTCTTCTCATCATCATT
127 TGAATCAACACATTGGCATCTTTATCACTCTTCTCATCATCATT
* *
1051608 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG-CATCTT-CATCTTTAAGTCCAATGT
1 TTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCAATGT
* * * * *
1051671 AGCTGGCCTTGACTCAGCACATTGGCA-CC-T-TCACCATTAAGTCCAATATCGCTGGCCTTGAC
66 AGCTGGCCTTGAATCAGCACATTGACATCCTTCTCACCATTAAGCCCAATATCGCTGGCCATGAA
*
1051733 TCAGCACATTGGCA
131 TCAACACATTGGCA
1051747 CCTTCATCTT
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
165 38 0.31
166 1 0.01
170 2 0.02
171 41 0.33
172 5 0.04
174 37 0.30
ACGTcount: A:0.25, C:0.26, G:0.15, T:0.34
Consensus pattern (170 bp):
TTTAAGTCCAATATAGCTAGCCTTGAATCAGCATATTGGACATCTTCCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGCACATTGACATCCTTCTCACCATTAAGCCCAATATCGCTGGCCATGAA
TCAACACATTGGCATCTTTATCACTCTTCTCATCATCATT
Found at i:1051863 original size:43 final size:43
Alignment explanation
Indices: 1051754--1051891 Score: 204
Period size: 43 Copynumber: 3.1 Consensus size: 43
1051744 GCACCTTCAT
1051754 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG-----CAC
1051802 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
* * *
1051845 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCAC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1051888 CTTT
1 CTTT
1051892 TCCATCTTTA
Statistics
Matches: 87, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
43 47 0.54
48 40 0.46
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (43 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1052904 original size:33 final size:33
Alignment explanation
Indices: 1052867--1052933 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1052857 TTCAACGATT
1052867 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1052900 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1052933 T
1 T
1052934 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:1052905 original size:13 final size:13
Alignment explanation
Indices: 1052887--1052911 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1052877 CATAAAATGT
1052887 TGTATCGATACAA
1 TGTATCGATACAA
1052900 TGTATCGATACA
1 TGTATCGATACA
1052912 TATTTTTTTG
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:1052994 original size:13 final size:13
Alignment explanation
Indices: 1052976--1053000 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1052966 ATTACTCACA
1052976 TGTATCGATACAT
1 TGTATCGATACAT
1052989 TGTATCGATACA
1 TGTATCGATACA
1053001 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:1053137 original size:52 final size:52
Alignment explanation
Indices: 1053009--1053129 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1052999 CACTGATCTT
*
1053009 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1053061 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1053113 TGTATCGATACATGCAG
1 TGTATCGATACATGCAG
1053130 ATAAATTTTC
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:1056986 original size:15 final size:15
Alignment explanation
Indices: 1056966--1056996 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1056956 ATTTCGTTTG
*
1056966 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1056981 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1056996 G
1 G
1056997 GACATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1061076 original size:13 final size:13
Alignment explanation
Indices: 1061058--1061083 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1061048 CAATTTTTTG
1061058 TGTATCGATACAT
1 TGTATCGATACAT
1061071 TGTATCGATACAT
1 TGTATCGATACAT
1061084 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1061168 original size:20 final size:20
Alignment explanation
Indices: 1061143--1061215 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
1061133 CATCCTTTTT
1061143 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
****
1061163 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACA-TTGCAAC
1061184 ATGTATCGATACATTGCAAC
1 ATGTATCGATACATTGCAAC
1061204 ATGTATCGATAC
1 ATGTATCGATAC
1061216 TTTGAATTGT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACATTGCAAC
Found at i:1061188 original size:21 final size:21
Alignment explanation
Indices: 1061122--1061198 Score: 86
Period size: 21 Copynumber: 3.7 Consensus size: 21
1061112 CTGCCAAGAA
*
1061122 ATGTATCGATACATCCTTTTT-
1 ATGTATCGATACAT-TTTTTTC
****
1061143 ATGTATCGATACA-TTGCAAC
1 ATGTATCGATACATTTTTTTC
1061163 ATGTATCGATACATTTTTTTC
1 ATGTATCGATACATTTTTTTC
1061184 ATGTATCGATACATT
1 ATGTATCGATACATT
1061199 GCAACATGTA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
19 1 0.02
20 13 0.29
21 31 0.69
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
ATGTATCGATACATTTTTTTC
Found at i:1061188 original size:41 final size:41
Alignment explanation
Indices: 1061122--1061215 Score: 163
Period size: 41 Copynumber: 2.3 Consensus size: 41
1061112 CTGCCAAGAA
1061122 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
*
1061163 ATGTATCGATACAT-TTTTTTCATGTATCGATACATTGCAAC
1 ATGTATCGATACATCCTTTTT-ATGTATCGATACATTGCAAC
1061204 ATGTATCGATAC
1 ATGTATCGATAC
1061216 TTTGAATTGT
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
40 5 0.10
41 46 0.90
ACGTcount: A:0.30, C:0.18, G:0.13, T:0.39
Consensus pattern (41 bp):
ATGTATCGATACATCCTTTTTATGTATCGATACATTGCAAC
Found at i:1070701 original size:59 final size:59
Alignment explanation
Indices: 1070601--1071945 Score: 1740
Period size: 59 Copynumber: 23.3 Consensus size: 59
1070591 GCTTTTTAGC
*
1070601 CCTCAAAGAGCAGGATGCCTTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGATGCC-TTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1070661 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
1070720 CCTCAAAGAGCGGGACGTCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
1070779 CCTCAAAGAGCGGGACGCCTTTTTTTTTAAAGCCCACACAAGTTGGTGGTACCTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
1070838 CCTCAAAGAGCGAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
1070897 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGCTGGTGGCAGCTTCATT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * * *
1070956 CCTCAAAAAGCGAGATGCCTTTTCTTTTAAAGCCCACACAAATTGGTGGCACCTTTAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
1071015 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
1071074 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGTACCTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1071133 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
*
1071192 CCTCAAAGAGCGAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
*
1071251 CCTCAAAGAGCGAGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
1071310 CCTCAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
1071369 CCTCAAAGAGCGGGACGCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* *
1071428 CTTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGATGGCACCTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * * *
1071487 CCTCAAAGAGTGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACGTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* * *
1071546 CCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGAACCTTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* * * ** **
1071607 CCCCAAAGAGCAGGA--CC---CCTTTCGAAGCCCACACAAGTTGGTGGCATTTTTCAAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTC-AGT
* * * ** **
1071663 CCCCAAAGAGCAGGA--CC---CCTTTCGAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
* **
1071718 CCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGG------CA-T
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
* **
1071765 CCTCAAAGAGCAGGACACC---TC--TTAAAGCCCACACAAGTTGGTGGCACCTTTCAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACC-TTCAGT
* * **
1071820 CCCCAAAGAGCAGGACT-CC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCCAGT
1 CCTCAAAGAGCGGGA-TGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTT-CAGT
* ** * * * *
1071875 CCTCAAAGAGC---ATGAC--ACCTTTCAAAGCCCACACGAGTTGGTGGCACTTTTTAGT
1 CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTCAGT
*
1071930 CCTCAAAGAGCAGGAT
1 CCTCAAAGAGCGGGAT
1071946 ACGCTTTATT
Statistics
Matches: 1179, Mismatches: 74, Indels: 66
0.89 0.06 0.05
Matches are distributed among these distances:
45 2 0.00
47 41 0.03
48 2 0.00
51 2 0.00
52 2 0.00
54 4 0.00
55 155 0.13
56 57 0.05
57 4 0.00
58 2 0.00
59 848 0.72
60 40 0.03
61 20 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (59 bp):
CCTCAAAGAGCGGGATGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAGT
Found at i:1072748 original size:19 final size:19
Alignment explanation
Indices: 1072724--1072791 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1072714 AATTCAACAA
1072724 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1072743 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1072758 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1072775 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1072792 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1072763 original size:13 final size:13
Alignment explanation
Indices: 1072745--1072769 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1072735 ACATAAGTTT
1072745 TGTATCGATACAA
1 TGTATCGATACAA
1072758 TGTATCGATACA
1 TGTATCGATACA
1072770 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1072767 original size:32 final size:32
Alignment explanation
Indices: 1072726--1072788 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1072716 TTCAACAATT
*
1072726 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1072758 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1072789 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1072849 original size:13 final size:13
Alignment explanation
Indices: 1072831--1072856 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1072821 CATTTTTCTG
1072831 TGTATCGATACAT
1 TGTATCGATACAT
1072844 TGTATCGATACAT
1 TGTATCGATACAT
1072857 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1072853 original size:33 final size:33
Alignment explanation
Indices: 1072811--1072877 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1072801 GCAAAGGAAA
***
1072811 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1072844 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1072877 T
1 T
1072878 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1075399 original size:51 final size:52
Alignment explanation
Indices: 1075223--1075773 Score: 246
Period size: 52 Copynumber: 10.4 Consensus size: 52
1075213 AATTCTCCAC
* * ** * * *
1075223 AATCGGGGATATTCCAACTCTAATTTTATTTTC-AAAACACTAA-TTTTCTAT
1 AATCGGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTTC-AT
* * * *
1075274 AATTGGGGATACTCCAACGCCGATTTTATTTCCAAAAAACACCAATTTCTTCAC
1 AATCGGGGATACTCCAACCCCGACTTTATTTCC-AAAAACACCAATTT-TTCAT
* ***
1075328 AATCGGGGATACTCCAACCCCGACTTTATTTCC-AAAATATTGATTTTTCAT
1 AATCGGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTTCAT
* ** * * *
1075379 AATCGGGGATCCTCCAACCCCGGTTTTATTGCTAAAACACTAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGACTTTATT--T----C-CAAAAACACCAATTTTTC-AT
* * * * *
1075439 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACAAATTTTTCAC
1 AATCGGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTTCAT
* * * * * *
1075491 AATCGGGGATACTCCAACCCCG--TTAATCAT-CAGGGATACTCCAACCCCGTTATTTC-C
1 AATCGGGGATACTCCAACCCCGACTTTAT-TTCCA--AAAACACCAA-----TT-TTTCAT
* ** ** * *** *
1075548 GA--GGGGATACTCCAACCCTTACTTTA-TTCTTAAAATATTGATTTCTCAT
1 AATCGGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTTCAT
* * * *
1075597 AATCGGGGATACTCCAACCCC-AGTTT-TATTGCTAAAACACCAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGACTTTAT-TTCCAAAAACACCAATTTTT-CAT
* * ** ** * *
1075649 AATCGGAGATACTCCAACTCCGGTTTTATTT-TTAAAACACCAATTTTCCTTT
1 AATCGGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTTC-AT
* * * * *
1075701 AATCGGGGATACTCCAGCTCCGATTTTATTTCCAAAATCACCAATTTTTTTCAC
1 AATCGGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAA--TTTTTCAT
*
1075755 AATCGAGGATACTCCAACC
1 AATCGGGGATACTCCAACC
1075774 TCGTTATTTC
Statistics
Matches: 374, Mismatches: 89, Indels: 71
0.70 0.17 0.13
Matches are distributed among these distances:
48 3 0.01
49 3 0.01
50 10 0.03
51 89 0.24
52 99 0.26
53 38 0.10
54 54 0.14
55 25 0.07
57 8 0.02
58 6 0.02
59 11 0.03
60 28 0.07
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (52 bp):
AATCGGGGATACTCCAACCCCGACTTTATTTCCAAAAACACCAATTTTTCAT
Found at i:1075406 original size:105 final size:106
Alignment explanation
Indices: 1075215--1075773 Score: 333
Period size: 105 Copynumber: 5.3 Consensus size: 106
1075205 AGTTTCACAA
* * * ** * *
1075215 TTCTCCACAATCGGGGATATTCCAACTCTAATTTTATTTTCAAAACACTAA-TTTTCTATAATTG
1 TTCTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-ATAATCG
* *
1075279 GGGATACTCCAACGCCGATTTTATTTCCAAAAAACACCAA-T
65 GGGATACTCCAACCCCGGTTTTATTTCCAAAAAACACCAACT
* * * *
1075320 TTCTTCACAATCGGGGATACTCCAACCCCGACTTTATTTCCAAAATATTGATTTTTCATAATCGG
1 TTCTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATCGG
* * * *
1075385 GGATCCTCCAACCCCGGTTTTATTGCTAAAACACTAAAACACCAATT
66 GGATACTCCAACCCCGGTTTTATT--T---CCA-AAAAACACCAACT
* * * * *
1075432 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAAAACAAATTTTTCACAATC
1 TT-CTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCC-AAAACACTAATTTTTCATAATC
* * ** * *
1075495 GGGGATACTCCAACCCC-G-TTAATCAT-CAGGGATACTCCAACCCCGT
64 GGGGATACTCCAACCCCGGTTTTAT-TTCCA-AAAAACACCAA---C-T
* ** * * * * * *
1075541 TAT-TTC-CGA--GGGGATACTCCAACCCTTACTTTA-TTCTTAAAATATTGATTTCTCATAATC
1 T-TCTTCACAATCGGGGATACTCCAACCCCGATTTTATTTC-CAAAACACTAATTTTTCATAATC
* * *
1075601 GGGGATACTCCAACCCCAGTTTTA-TTGC-TAAAACACCAA-T
64 GGGGATACTCCAACCCCGGTTTTATTTCCAAAAAACACCAACT
* * * ** * * *
1075641 TT-TTCCACAATCGGAGATACTCCAACTCCGGTTTTATTTTTAAAACACCAATTTTCCTTTAATC
1 TTCTT-CACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTC-ATAATC
* * * * *
1075705 GGGGATACTCCAGCTCCGATTTTATTTCC-AAAATCACCAATT
64 GGGGATACTCCAACCCCGGTTTTATTTCCAAAAAACACCAACT
* *
1075747 TTTTTCACAATCGAGGATACTCCAACC
1 TTCTTCACAATCGGGGATACTCCAACC
1075774 TCGTTATTTC
Statistics
Matches: 347, Mismatches: 77, Indels: 59
0.72 0.16 0.12
Matches are distributed among these distances:
99 3 0.01
100 3 0.01
101 2 0.01
103 29 0.08
104 27 0.08
105 97 0.28
106 64 0.18
107 25 0.07
108 5 0.01
109 4 0.01
110 7 0.02
111 42 0.12
112 36 0.10
113 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (106 bp):
TTCTTCACAATCGGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTTCATAATCGG
GGATACTCCAACCCCGGTTTTATTTCCAAAAAACACCAACT
Found at i:1075563 original size:28 final size:27
Alignment explanation
Indices: 1075495--1075565 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
1075485 TTTCACAATC
1075495 GGGGATACTCCAACCCCGTTAATCATCA
1 GGGGATACTCCAACCCCGTTAATCA-CA
*
1075523 -GGGATACTCCAACCCCGTTATTTC-CGA
1 GGGGATACTCCAACCCCGTTA-ATCAC-A
1075550 GGGGATACTCCAACCC
1 GGGGATACTCCAACCC
1075566 TTACTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
26 1 0.03
27 21 0.54
28 17 0.44
ACGTcount: A:0.25, C:0.34, G:0.20, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCACA
Found at i:1075784 original size:31 final size:28
Alignment explanation
Indices: 1075756--1075838 Score: 89
Period size: 28 Copynumber: 3.0 Consensus size: 28
1075746 TTTTTTCACA
*
1075756 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
* **
1075784 ATCGGGGATACTCCAACCCCGTTACCTC
1 ATCGAGGATACTCCAACCCCGTTATTTC
*
1075812 --CGAGGGGACACTCCAACCCCGTTATTT
1 ATCGA--GGATACTCCAACCCCGTTATTT
1075839 TCTCCAAAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.04
28 43 0.96
ACGTcount: A:0.23, C:0.34, G:0.18, T:0.25
Consensus pattern (28 bp):
ATCGAGGATACTCCAACCCCGTTATTTC
Found at i:1084735 original size:42 final size:42
Alignment explanation
Indices: 1084664--1085508 Score: 845
Period size: 42 Copynumber: 20.1 Consensus size: 42
1084654 CATTAAACTT
** * * *
1084664 CTGGAGACTTTTTTTTCCCTTAGTGTGCCTGTCGGTTTTAACC
1 CTGGAGAC-TTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
** * *
1084707 CTAAAAACTTTCCTTCCCTTAGTCTGCCTATCGGCTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
1084749 CTGGAGACTTTCATTTCCTTAGTCTGCTTGTCGACTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
1084791 CTAGAGACTTTCCTTCCCTCAGTCTGCCTGTCGACTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
1084833 TTAGAGACTTT-CTTTCCTCAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * * * *
1084874 TTGAAGACTTTTCTATCCCTTAGTCTACTTTTTGGCTTTGACC
1 CTGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
1084917 ATAGAGACTTTCCTACCCTTAGTTTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
*
1084959 CTGGAGACTTTCCTTCCCTCAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
1085001 CTGGAAACTTTTCTTCCCTAAGTCTGCCTATCGGCTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * *
1085043 CTAGAGACTTTTCTAT-CCTCATTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACC
* * **
1085085 CTCGAGACTTTTCTATCCCTTAGTCTGCCTGTCGATTTTGACC
1 CTGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACC
* * *
1085128 CTGGAGACTTT-CTTCCCTCAGTCTGCCTGTCAGTTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * * *
1085169 TTGGAGACTTTTCTATCCCTCAATCTGTCTGTCGACTTTGACC
1 CTGGAGACTTTCCT-TCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
1085212 CTGGAGACTTTACTTCCCTAAGTCTGTCTGTCAGCTTCGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
1085254 CTAGAGACTTTTCTACCCTTAGTCTGCCTGTCTGTTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* *
1085296 ATGAAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * * *
1085338 TTAGAGACTTTCTTTCCCTAAATCTACCTGTCGGCTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
* * * **
1085380 CTTGAGACTTT-TTTACCCTTAGTCTGCCTATCGATTTTGACC
1 CTGGAGACTTTCCTT-CCCTTAGTCTGCCTGTCGGCTTTGACC
* *
1085422 CTGGAGACTTT-CTTACCCTTAGTCTACCTGTCGGCTTTGATC
1 CTGGAGACTTTCCTT-CCCTTAGTCTGCCTGTCGGCTTTGACC
* * * * *
1085464 CTGGAGACTTTTCTACCCTCAATCTGCCTATCGGCTTTGACC
1 CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
1085506 CTG
1 CTG
1085509 AAGGCTGCCT
Statistics
Matches: 672, Mismatches: 122, Indels: 17
0.83 0.15 0.02
Matches are distributed among these distances:
41 75 0.11
42 490 0.73
43 107 0.16
ACGTcount: A:0.15, C:0.30, G:0.17, T:0.38
Consensus pattern (42 bp):
CTGGAGACTTTCCTTCCCTTAGTCTGCCTGTCGGCTTTGACC
Found at i:1086044 original size:19 final size:19
Alignment explanation
Indices: 1086020--1086064 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
1086010 AAGTAGAAAT
1086020 TAAAAATTAAAAAAAATAA
1 TAAAAATTAAAAAAAATAA
* *
1086039 TAAAAATTAATAGAAATAA
1 TAAAAATTAAAAAAAATAA
*
1086058 AAAAAAT
1 TAAAAAT
1086065 CATGAAATGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (19 bp):
TAAAAATTAAAAAAAATAA
Found at i:1086151 original size:31 final size:31
Alignment explanation
Indices: 1086113--1086176 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
1086103 CATGCAAGGA
*
1086113 AATGTAGCATGCAAACATGGGAGACACATGC
1 AATGTAGCATGCAAACATGGGAGACACAAGC
* *
1086144 AATGTAGCATGCAATCATGGGGGACACAAGC
1 AATGTAGCATGCAAACATGGGAGACACAAGC
1086175 AA
1 AA
1086177 ATGGAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.39, C:0.19, G:0.27, T:0.16
Consensus pattern (31 bp):
AATGTAGCATGCAAACATGGGAGACACAAGC
Found at i:1086743 original size:35 final size:35
Alignment explanation
Indices: 1086669--1086743 Score: 98
Period size: 35 Copynumber: 2.1 Consensus size: 35
1086659 AGCCTCCGAT
* * *
1086669 CCACGATCAAAGGATAGCTTCCAGCAACCTTCCAT
1 CCACGATCAAAGGATAGCTTCCAACAACCTCCCAC
*
1086704 CCACGATCAAAGGATAGCTTCCAAC-AGCTCCCAGC
1 CCACGATCAAAGGATAGCTTCCAACAACCTCCCA-C
1086739 CCACG
1 CCACG
1086744 GTCAGTTTCC
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
34 6 0.17
35 29 0.83
ACGTcount: A:0.31, C:0.37, G:0.16, T:0.16
Consensus pattern (35 bp):
CCACGATCAAAGGATAGCTTCCAACAACCTCCCAC
Found at i:1086906 original size:47 final size:46
Alignment explanation
Indices: 1086781--1086935 Score: 175
Period size: 46 Copynumber: 3.3 Consensus size: 46
1086771 CAAGAAACAA
* * ** *
1086781 CTTCCAGCATCAATTCCAATAGCCTCCAATCCATGATCAGAAGCAG
1 CTTCCAGCATCCATTCTAGCAGCCTCCAATCCACGATCAGAAGCAG
* * * * *
1086827 CTTCCAACATCCATTTTAGCAGCCTCCCATCCACGATCAAAAGATAG
1 CTTCCAGCATCCATTCTAGCAGCCTCCAATCCACGATCAGAAG-CAG
* ** *
1086874 CTTCTAGCATCCATTCTAGTGGCCTTCAATCCACGATCAGAAGCAG
1 CTTCCAGCATCCATTCTAGCAGCCTCCAATCCACGATCAGAAGCAG
1086920 CTTCCAGCATCCATTC
1 CTTCCAGCATCCATTC
1086936 CAACAGCTCC
Statistics
Matches: 88, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
46 51 0.58
47 37 0.42
ACGTcount: A:0.29, C:0.34, G:0.13, T:0.25
Consensus pattern (46 bp):
CTTCCAGCATCCATTCTAGCAGCCTCCAATCCACGATCAGAAGCAG
Found at i:1087036 original size:73 final size:73
Alignment explanation
Indices: 1086915--1087084 Score: 177
Period size: 73 Copynumber: 2.3 Consensus size: 73
1086905 CACGATCAGA
* * ** * *
1086915 AGCAGCTTCCAGCATCCATTCCA-ACAGCTCCTAGTCGACGGACATTTTCCAGAAGCA-TC-C-C
1 AGCAGCTTCCAGCATCCACTCCAGACAGCTCCCAACCCACGGACATTTTCCAGAAGAATTCACTC
1086976 CAGCAAGC
66 CAGCAAGC
*
1086984 AGCAGCTTCCAGCATCCACTCCAGTACGTAGCTCCCAACCCACGGACATTTTCCAGCAGAATTCA
1 AGCAGCTTCCAGCATCCACTCCAG-AC--AGCTCCCAACCCACGGACATTTTCCAGAAGAATTCA
*
1087049 CTCCAGCAAGT
63 CTCCAGCAAGC
* * *
1087060 TGCAGCTTTCAGCATTCCACCCCAG
1 AGCAGCTTCCAGCA-TCCACTCCAG
1087085 CAAGCAACAG
Statistics
Matches: 82, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
69 22 0.27
71 2 0.02
73 26 0.32
74 2 0.02
75 1 0.01
76 20 0.24
77 9 0.11
ACGTcount: A:0.26, C:0.37, G:0.16, T:0.20
Consensus pattern (73 bp):
AGCAGCTTCCAGCATCCACTCCAGACAGCTCCCAACCCACGGACATTTTCCAGAAGAATTCACTC
CAGCAAGC
Found at i:1087232 original size:26 final size:28
Alignment explanation
Indices: 1087164--1087232 Score: 88
Period size: 29 Copynumber: 2.5 Consensus size: 28
1087154 CAATAGCAGT
* *
1087164 AGTAACTCCCAACCTTCGAGCACTCCAAC
1 AGTAGCTCCCAGCCTTCGAGCACTCC-AC
*
1087193 AGCAGCTCCCAGCCTTCGAGCACT-C-C
1 AGTAGCTCCCAGCCTTCGAGCACTCCAC
1087219 AGTAGCTCCCAGCC
1 AGTAGCTCCCAGCC
1087233 CACGAGTACT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
26 14 0.39
28 1 0.03
29 21 0.58
ACGTcount: A:0.25, C:0.43, G:0.16, T:0.16
Consensus pattern (28 bp):
AGTAGCTCCCAGCCTTCGAGCACTCCAC
Found at i:1094843 original size:13 final size:13
Alignment explanation
Indices: 1094825--1094862 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
1094815 ATAATCCCCC
1094825 TGTATCGATACAG
1 TGTATCGATACAG
*
1094838 TGTATCGATACAT
1 TGTATCGATACAG
1094851 TGTATCGATACA
1 TGTATCGATACA
1094863 AAGAAAAATG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:1096966 original size:15 final size:15
Alignment explanation
Indices: 1096946--1096976 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1096936 ATTTCGTTTG
*
1096946 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
1096961 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
1096976 G
1 G
1096977 GATATTTTTA
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:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:1098775 original size:21 final size:21
Alignment explanation
Indices: 1098746--1098790 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1098736 AAGTTTTTAT
*
1098746 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
1098766 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
1098788 TTT
1 TTT
1098791 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:1100708 original size:32 final size:30
Alignment explanation
Indices: 1100672--1100730 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
1100662 GAAATCAAAT
1100672 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
1100704 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
1100731 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:1101030 original size:13 final size:13
Alignment explanation
Indices: 1101012--1101037 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1101002 ATATTTTTTG
1101012 TGTATCGATACAT
1 TGTATCGATACAT
1101025 TGTATCGATACAT
1 TGTATCGATACAT
1101038 ATTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1101048 original size:32 final size:33
Alignment explanation
Indices: 1100991--1101055 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 33
1100981 TACAAGCCAA
1100991 TGTATCGATACATATTTTTTGTGTATCGATACAT
1 TGTATCGATACATA-TTTTTGTGTATCGATACAT
1101025 TGTATCGATACATA-TTTTGTGTATCGATACA
1 TGTATCGATACATATTTTTGTGTATCGATACA
1101056 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
32 17 0.55
34 14 0.45
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (33 bp):
TGTATCGATACATATTTTTGTGTATCGATACAT
Found at i:1101049 original size:19 final size:19
Alignment explanation
Indices: 1100991--1101055 Score: 70
Period size: 19 Copynumber: 3.6 Consensus size: 19
1100981 TACAAGCCAA
1100991 TGTATCGATACATATTTTTTG
1 TGTATCGATACATA--TTTTG
1101012 TGTATCGATAC--A---T-
1 TGTATCGATACATATTTTG
1101025 TGTATCGATACATATTTTG
1 TGTATCGATACATATTTTG
1101044 TGTATCGATACA
1 TGTATCGATACA
1101056 AGTTTGGCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 14
0.73 0.00 0.27
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
15 1 0.03
18 1 0.03
19 13 0.34
21 11 0.29
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (19 bp):
TGTATCGATACATATTTTG
Found at i:1102806 original size:156 final size:153
Alignment explanation
Indices: 1102404--1103004 Score: 475
Period size: 154 Copynumber: 3.9 Consensus size: 153
1102394 TGGTGTAAGA
* * * * ** * * *
1102404 GTGATGACCTAAGACTCGATTTTAGAAATTACGAAAATGCCCCCATGAGG-TACCTTTGACGTAA
1 GTGATAACCTAAGACTCGATTCTAAAAAATACGAAAATGCCCTTAAG-GGATACCTTCGACGTAG
* * * * * *
1102468 AAGTGCCTGATACTCATAAAAGACCTTAAAAAGG-TAATAAAT-GAGATAAACCTATCCTAAATG
65 AAGTGCCTGATACCCCTAAAGGA-CTTAAAAAGGATAATAGATCG-GATGAACCTATCCTAAATA
* * * * *
1102531 CTCACCTTCGGCA-TAAAGCAGACTCG
128 CCCACCTTCGG-AGAAAAACGGACACG
* * * ** ** * * *
1102557 GTAACAACATAAGACTTTATTCTAAAAAATTATAAAAAAT--ACATATAGGCGATACCTTTGACG
1 GTGATAACCTAAGACTCGATTCTAAAAAA-TA-CGAAAATGCCCTTA-AGG-GATACCTTCGACG
* * * * *
1102620 TAAAAGTACC-GATACCCCTAAAAGAATTAAAAAGGATAACAGATCGGATGAACCTATCCTAAAT
62 TAGAAGTGCCTGATACCCCTAAAGGACTTAAAAAGGATAATAGATCGGATGAACCTATCCTAAAT
*
1102684 ACCCACCTTCGGTAGAAAAACGGACAAGG
127 ACCCACCTTCGG-AGAAAAACGGAC-ACG
* * * * * * * * * *
1102713 GTGATAACTTAGGACTCGATTCTAGAAAATTATGAAAATGTCCTTTATGGATACGTTTGATGTAG
1 GTGATAACCTAAGACTCGATTCTA-AAAAATACGAAAATGCCCTTAAGGGATACCTTCGACGTAG
* *
1102778 AAGTGTCTGATACCCCTAAAGGACTTAAAAAGGATAATAGA-CAGGATGAACCTATCCTATATAC
65 AAGTGCCTGATACCCCTAAAGGACTTAAAAAGGATAATAGATC-GGATGAACCTATCCTAAATAC
** * *
1102842 CCATTTTCGAGATAAAAACGGACCCG
129 CCACCTTCG-GAGAAAAACGGACACG
1102868 GTGATAACCTAAGACTCGATTCTAAAAAATACGAAAATGCCCTTAAGGGATACCTTCGACGTAGA
1 GTGATAACCTAAGACTCGATTCTAAAAAATACGAAAATGCCCTTAAGGGATACCTTCGACGTAGA
* * * ** * *
1102933 AGTGCCTGATACCCTTAAAGGACTTAAATA-TATTTTAGAAT-GGATGAACATATCCTAAATATC
66 AGTGCCTGATACCCCTAAAGGACTTAAAAAGGATAATAG-ATCGGATGAACCTATCCTAAATACC
1102996 CACCTTCGG
130 CACCTTCGG
1103005 CATAAAAGCA
Statistics
Matches: 353, Mismatches: 78, Indels: 35
0.76 0.17 0.08
Matches are distributed among these distances:
152 1 0.00
153 62 0.18
154 112 0.32
155 80 0.23
156 91 0.26
157 7 0.02
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (153 bp):
GTGATAACCTAAGACTCGATTCTAAAAAATACGAAAATGCCCTTAAGGGATACCTTCGACGTAGA
AGTGCCTGATACCCCTAAAGGACTTAAAAAGGATAATAGATCGGATGAACCTATCCTAAATACCC
ACCTTCGGAGAAAAACGGACACG
Found at i:1104761 original size:23 final size:23
Alignment explanation
Indices: 1104726--1104775 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
1104716 TGAATTTTGC
1104726 AAAACTAATTT-AATGAGAATTTA
1 AAAACTAATTTAAATGA-AATTTA
*
1104749 AAAAC-AATATTAAATGAATTTTA
1 AAAACTAAT-TTAAATGAAATTTA
1104772 AAAA
1 AAAA
1104776 TTTTAATTGC
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 3 0.12
23 16 0.67
24 5 0.21
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (23 bp):
AAAACTAATTTAAATGAAATTTA
Found at i:1104792 original size:60 final size:60
Alignment explanation
Indices: 1104722--1104841 Score: 240
Period size: 60 Copynumber: 2.0 Consensus size: 60
1104712 AAATTGAATT
1104722 TTGCAAAACTAATTTAATGAGAATTTAAAAACAATATTAAATGAATTTTAAAAATTTTAA
1 TTGCAAAACTAATTTAATGAGAATTTAAAAACAATATTAAATGAATTTTAAAAATTTTAA
1104782 TTGCAAAACTAATTTAATGAGAATTTAAAAACAATATTAAATGAATTTTAAAAATTTTAA
1 TTGCAAAACTAATTTAATGAGAATTTAAAAACAATATTAAATGAATTTTAAAAATTTTAA
1104842 ACAGGGTAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.52, C:0.05, G:0.07, T:0.37
Consensus pattern (60 bp):
TTGCAAAACTAATTTAATGAGAATTTAAAAACAATATTAAATGAATTTTAAAAATTTTAA
Found at i:1107534 original size:7 final size:7
Alignment explanation
Indices: 1107524--1107549 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
1107514 ATATTTAATA
1107524 AATTTAT
1 AATTTAT
1107531 AATTTAT
1 AATTTAT
1107538 AATTTAT
1 AATTTAT
1107545 AATTT
1 AATTT
1107550 TTTTAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
AATTTAT
Found at i:1108898 original size:80 final size:79
Alignment explanation
Indices: 1108604--1108902 Score: 260
Period size: 79 Copynumber: 3.8 Consensus size: 79
1108594 GGGGCTGAAA
* ** * * * * *
1108604 TATCCCCGATTGTGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTTGAGTATCCCC-TTGAAA
1 TATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATG-AA
1108668 ATAATGAGGTTGGAG
65 ATAATGAGGTTGGAG
* * * * * ** ***
1108683 TATCCCCGGTCGTGAAAAATCGATGATTAGGAAATAAAA-TTGAGATTGGAGTATCCCCTCGGAA
1 TATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGAG-TTGGAGTATCCCCGATGAA
* *
1108747 ATAACGGGGTTGGAG
65 ATAATGAGGTTGGAG
* * * ** ** * * *
1108762 TATCCCCAATTATGAGAAATCAACATTTTGGGAATAAAGCCGGGGTTGGAGTATCCCCGATGAAA
1 TATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATGAAA
1108827 TAATGAGGTTGGAG
66 TAATGAGGTTGGAG
* * *
1108841 TATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGAT
1 TATCCCCGATTGTGAAAAATTGATG-TTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGAT
1108903 TAAAAGAAAA
Statistics
Matches: 167, Mismatches: 49, Indels: 7
0.75 0.22 0.03
Matches are distributed among these distances:
78 2 0.01
79 130 0.78
80 35 0.21
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (79 bp):
TATCCCCGATTGTGAAAAATTGATGTTTTGGAAATAAAACCGGAGTTGGAGTATCCCCGATGAAA
TAATGAGGTTGGAG
Found at i:1108903 original size:52 final size:51
Alignment explanation
Indices: 1108834--1108966 Score: 169
Period size: 52 Copynumber: 2.6 Consensus size: 51
1108824 AAATAATGAG
* *
1108834 GTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAA-ATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTGGTG-TTTT-GAAGATAAAACCGGA
*** *
1108886 GTTGGAGTATCCCCGATTAAAAGAAAATTGGTGTTTTGAAGATAAAACCGGG
1 GTTGGAGTATCCCCGATTGTGA-AAAATTGGTGTTTTGAAGATAAAACCGGA
*
1108938 GTTGGAGTATCCCCGATTGTGGAAAATTG
1 GTTGGAGTATCCCCGATTGTGAAAAATTG
1108967 AGAGACTTAA
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
51 10 0.14
52 49 0.71
53 10 0.14
ACGTcount: A:0.31, C:0.11, G:0.28, T:0.31
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGAAGATAAAACCGGA
Found at i:1111360 original size:21 final size:21
Alignment explanation
Indices: 1111334--1111375 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1111324 GTATCGATAC
1111334 AATGTATCAATACATTTCCTT
1 AATGTATCAATACATTTCCTT
*
1111355 AATGTATCGATACATTTCCTT
1 AATGTATCAATACATTTCCTT
1111376 GGCAATAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.31, C:0.19, G:0.07, T:0.43
Consensus pattern (21 bp):
AATGTATCAATACATTTCCTT
Found at i:1111424 original size:19 final size:18
Alignment explanation
Indices: 1111400--1111462 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
1111390 AGCGATACAT
1111400 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1111419 TGTATCGATAC--A-TTA
1 TGTATCGATACAAACTTA
1111434 --TATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
1111451 TGTTTCGATACA
1 TGTATCGATACA
1111463 TTTTCTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 9 0.24
15 3 0.08
16 2 0.05
17 3 0.08
19 20 0.54
ACGTcount: A:0.37, C:0.17, G:0.11, T:0.35
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1111438 original size:32 final size:32
Alignment explanation
Indices: 1111392--1111464 Score: 119
Period size: 32 Copynumber: 2.3 Consensus size: 32
1111382 AGCTTCGTAG
*
1111392 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
* *
1111424 CGATACATTATATCGATACAACACTTATGTTT
1 CGATACATTATATCGATACAAAACTTATGTAT
1111456 CGATACATT
1 CGATACATT
1111465 TTCTGTTTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 38 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:1115631 original size:13 final size:13
Alignment explanation
Indices: 1115613--1115638 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1115603 CATTTTTCTG
1115613 TGTATCGATACAT
1 TGTATCGATACAT
1115626 TGTATCGATACAT
1 TGTATCGATACAT
1115639 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1115635 original size:33 final size:33
Alignment explanation
Indices: 1115593--1115659 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1115583 GCCAAGGAAA
***
1115593 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1115626 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1115659 T
1 T
1115660 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1118174 original size:28 final size:27
Alignment explanation
Indices: 1118110--1118182 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
1118100 CTTCACAATC
* *
1118110 GGGGATACTCTAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
1118137 GGGGATACTCCAACCCCGTTACTTCCA-A
1 GGGGATACTCCAACCCCGTTA-AT-CATA
1118165 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1118183 GCTTTATTCC
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 20 0.49
28 19 0.46
29 2 0.05
ACGTcount: A:0.25, C:0.34, G:0.21, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:1122418 original size:13 final size:13
Alignment explanation
Indices: 1122400--1122435 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
1122390 TTTCTTTCTT
1122400 TATTCTTTATTTC
1 TATTCTTTATTTC
1122413 TATTCTTT-TTTC
1 TATTCTTTATTTC
1122425 T-TT-TTTATTTC
1 TATTCTTTATTTC
1122436 CTTCCCCTCC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 3 0.14
11 6 0.27
12 5 0.23
13 8 0.36
ACGTcount: A:0.11, C:0.14, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTCTTTATTTC
Found at i:1122420 original size:20 final size:19
Alignment explanation
Indices: 1122390--1122427 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
1122380 TTTTGTTTCT
1122390 TTTCTTTCTTTATTCTTTA
1 TTTCTTTCTTTATTCTTTA
*
1122409 TTTCTATTCTTTTTTCTTT
1 TTTCT-TTCTTTATTCTTT
1122428 TTTATTTCCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTCTTTCTTTATTCTTTA
Found at i:1123812 original size:22 final size:22
Alignment explanation
Indices: 1123784--1123831 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
1123774 TTATTCTAAA
1123784 AATCCAAATCTAAAAGATGCAT
1 AATCCAAATCTAAAAGATGCAT
1123806 AATCCAAATCTAAAAGATGCAT
1 AATCCAAATCTAAAAGATGCAT
1123828 AATC
1 AATC
1123832 ATTTCTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (22 bp):
AATCCAAATCTAAAAGATGCAT
Found at i:1133955 original size:19 final size:18
Alignment explanation
Indices: 1133930--1133994 Score: 77
Period size: 19 Copynumber: 3.8 Consensus size: 18
1133920 GTTTCAACGA
1133930 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1133948 TGTTGTATCGAT--ATAA-
1 T-TTGTATCGATACATAAG
1133964 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1133980 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1133995 ATGTATCGCT
Statistics
Matches: 40, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
13 9 0.22
15 4 0.10
17 4 0.10
18 1 0.03
19 22 0.55
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1133968 original size:32 final size:32
Alignment explanation
Indices: 1133932--1134002 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
1133922 TTCAACGATT
*
1133932 TGTATCGATACATAAGTGTTGTATCGATATAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1133964 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
1133996 TGTATCG
1 TGTATCG
1134003 CTACGAAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1134122 original size:52 final size:52
Alignment explanation
Indices: 1134080--1134208 Score: 204
Period size: 52 Copynumber: 2.5 Consensus size: 52
1134070 CACTGATCTT
* * *
1134080 TGTATCAATACATGCAAGCAAATTTGCCCAAATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
* * *
1134132 TATATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
1134184 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
1134209 TCATATTTCG
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAAATGTATCGATACACTATAAAA
Found at i:1139135 original size:102 final size:102
Alignment explanation
Indices: 1139022--1139227 Score: 349
Period size: 102 Copynumber: 2.0 Consensus size: 102
1139012 GAAGTGAAAT
* * *
1139022 TTTCATAGTTTCTCGTTGATTTGAAAACATATAATTTTATGATATATGTGTAAATCGTAAGTTAT
1 TTTCATAGTTTCTCATTGACTTGAAAACATATAATTCTATGATATATGTGTAAATCGTAAGTTAT
* *
1139087 AATTGAATCATTTTATTGGTGATTTAAGTGAAGAGTA
66 AATTGAATCATTTTATTGATGATTTAAGGGAAGAGTA
*
1139124 TTTCATAGTTTCTCATTGACTTGAAAATATATAATTCTATGATATATGTGTAAATCGTAAGTTAT
1 TTTCATAGTTTCTCATTGACTTGAAAACATATAATTCTATGATATATGTGTAAATCGTAAGTTAT
*
1139189 AATTGAATTATTTTATTGATGATTTAAGGGAAGAGTA
66 AATTGAATCATTTTATTGATGATTTAAGGGAAGAGTA
1139226 TT
1 TT
1139228 AGTTAATGTA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 97 1.00
ACGTcount: A:0.34, C:0.06, G:0.16, T:0.44
Consensus pattern (102 bp):
TTTCATAGTTTCTCATTGACTTGAAAACATATAATTCTATGATATATGTGTAAATCGTAAGTTAT
AATTGAATCATTTTATTGATGATTTAAGGGAAGAGTA
Found at i:1140466 original size:19 final size:20
Alignment explanation
Indices: 1140435--1140481 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
1140425 ATTAATTTTA
1140435 ATAATAATATTTTTA-AAAT
1 ATAATAATATTTTTATAAAT
1140454 ATAATGAAT-TTTTTATAAAT
1 ATAAT-AATATTTTTATAAAT
*
1140474 TTAATAAT
1 ATAATAAT
1140482 CAATAATATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
19 14 0.56
20 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
ATAATAATATTTTTATAAAT
Found at i:1140549 original size:20 final size:19
Alignment explanation
Indices: 1140526--1140567 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 19
1140516 TTTAATAAAT
1140526 TTTAATAATT-TTAAAAATAA
1 TTTAA-AATTATT-AAAATAA
1140546 TTTAAAATTAATTAAAATAA
1 TTTAAAATT-ATTAAAATAA
1140566 TT
1 TT
1140568 ATTTTAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
19 4 0.20
20 14 0.70
21 2 0.10
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTAAAATTATTAAAATAA
Found at i:1140593 original size:44 final size:46
Alignment explanation
Indices: 1140524--1140614 Score: 109
Period size: 44 Copynumber: 2.0 Consensus size: 46
1140514 TTTTTAATAA
* **
1140524 ATTTTAATAATTTTAAAAATAATTTA-AAATTA-ATTAAAATAATT
1 ATTTTAATAATTTAAAAAATAATTTATAAATTACAAAAAAATAATT
1140568 ATTTTAATAA-TTAAAATTAAT-ATTTATAAATTACAAAAAAATAATT
1 ATTTTAATAATTTAAAA--AATAATTTATAAATTACAAAAAAATAATT
1140614 A
1 A
1140615 AAAATATCTA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
43 5 0.12
44 15 0.38
45 9 0.22
46 11 0.28
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (46 bp):
ATTTTAATAATTTAAAAAATAATTTATAAATTACAAAAAAATAATT
Found at i:1144040 original size:2 final size:2
Alignment explanation
Indices: 1144035--1144153 Score: 111
Period size: 2 Copynumber: 61.0 Consensus size: 2
1144025 TTCATATTTT
* * *
1144035 TA TA TA TA TA TA TA TA TA TA T- TA CA GA GA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
1144076 TA TA TA -A AA TA TA GA TA -A GT- TA TA TG TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * *
1144116 TA TA TA AA TA TA TA CA TA TA TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1144154 GCAGACTATA
Statistics
Matches: 96, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
1 4 0.04
2 92 0.96
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.42
Consensus pattern (2 bp):
TA
Found at i:1144695 original size:6 final size:6
Alignment explanation
Indices: 1144684--1144764 Score: 65
Period size: 6 Copynumber: 13.2 Consensus size: 6
1144674 GTAAAAAAAA
* * *
1144684 TTTCTT TTTCTT TTCCTT TTTCCT TTTCTT TTTCTT GTTCTT ATTTCTT
1 TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT TTTCTT -TTTCTT
* * * *
1144733 TCAT-TT TTTATT TTTCAT TTTGTT ATTTCTT T
1 T-TTCTT TTTCTT TTTCTT TTTCTT -TTTCTT T
1144765 CTTCACCCCT
Statistics
Matches: 58, Mismatches: 13, Indels: 8
0.73 0.16 0.10
Matches are distributed among these distances:
5 1 0.02
6 46 0.79
7 11 0.19
ACGTcount: A:0.06, C:0.16, G:0.02, T:0.75
Consensus pattern (6 bp):
TTTCTT
Found at i:1144750 original size:14 final size:15
Alignment explanation
Indices: 1144731--1144760 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
1144721 TTCTTATTTC
1144731 TTTCATTTT-TTATT
1 TTTCATTTTGTTATT
1144745 TTTCATTTTGTTATT
1 TTTCATTTTGTTATT
1144760 T
1 T
1144761 CTTTCTTCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.60
15 6 0.40
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTCATTTTGTTATT
Found at i:1144913 original size:16 final size:15
Alignment explanation
Indices: 1144862--1144912 Score: 68
Period size: 15 Copynumber: 3.4 Consensus size: 15
1144852 AATTTTTTTA
1144862 TTTTTT-AAAATACAT
1 TTTTTTCAAAATAC-T
*
1144877 TTTTTACAAAATACT
1 TTTTTTCAAAATACT
*
1144892 ATTTTTCAAAATACT
1 TTTTTTCAAAATACT
1144907 TTTTTT
1 TTTTTT
1144913 TTCATTTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
15 24 0.77
16 7 0.23
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (15 bp):
TTTTTTCAAAATACT
Found at i:1145735 original size:12 final size:12
Alignment explanation
Indices: 1145718--1145746 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
1145708 AATATATAAT
1145718 TTGGCTATTGTA
1 TTGGCTATTGTA
1145730 TTGGCTATTGTA
1 TTGGCTATTGTA
1145742 TTGGC
1 TTGGC
1145747 AAGCTATTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.14, C:0.10, G:0.28, T:0.48
Consensus pattern (12 bp):
TTGGCTATTGTA
Found at i:1149421 original size:4 final size:4
Alignment explanation
Indices: 1149405--1149441 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
1149395 GTCATTCCTG
*
1149405 TTTC TTTC CTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC T
1149442 GTGCAAGTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (4 bp):
TTTC
Found at i:1151008 original size:40 final size:42
Alignment explanation
Indices: 1150924--1151048 Score: 98
Period size: 40 Copynumber: 2.9 Consensus size: 42
1150914 TAAACAATTT
* * * * *
1150924 TAAACAAATAAAGAAATAAATTTTATT-ATTAGTTTTA-AATA
1 TAAATAAATAAACACATAAATATTATTAATTA-TATTATAATA
1150965 TAAA-ATAATAAA-ACATAAATATTATTAATTATATTATAA-A
1 TAAATA-AATAAACACATAAATATTATTAATTATATTATAATA
*
1151005 TAAATAAATAAATCACAAATAATAATATTGTTAATTATATTATA
1 TAAATAAATAAA-CAC--AT-A-AATATTATTAATTATATTATA
1151049 GTTGAACAAT
Statistics
Matches: 70, Mismatches: 4, Indels: 15
0.79 0.04 0.17
Matches are distributed among these distances:
40 28 0.40
41 17 0.24
42 2 0.03
44 2 0.03
45 1 0.01
46 20 0.29
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.38
Consensus pattern (42 bp):
TAAATAAATAAACACATAAATATTATTAATTATATTATAATA
Found at i:1152230 original size:51 final size:50
Alignment explanation
Indices: 1152109--1152253 Score: 150
Period size: 51 Copynumber: 2.8 Consensus size: 50
1152099 CTCCAATAAC
* * *
1152109 AGTAATATA-AAATAATAATAAAAAATTAAAAATTATTTTATACTAAATTCTAA
1 AGTACTATATAAA-AATAAT-AAAAATTAAAAA--AATTTATATTAAATTCTAA
* * *
1152162 ATTACTATTTAAGAATAATAAAAATTTAAAAAAATTTATATTAAA-TCTCAA
1 AGTACTATATAAAAATAATAAAAA-TTAAAAAAATTTATATTAAATTCT-AA
*
1152213 AGTACTATATAAAAATAATAAAAATTAAAAATATTATATAT
1 AGTACTATATAAAAATAATAAAAATTAAAAAAATT-TATAT
1152254 ATATATATAT
Statistics
Matches: 78, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
50 13 0.17
51 39 0.50
52 5 0.06
53 19 0.24
54 2 0.03
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (50 bp):
AGTACTATATAAAAATAATAAAAATTAAAAAAATTTATATTAAATTCTAA
Found at i:1152470 original size:22 final size:22
Alignment explanation
Indices: 1152420--1152492 Score: 60
Period size: 22 Copynumber: 3.3 Consensus size: 22
1152410 TAATTGAATG
*
1152420 TATATATGA-TAATAACTAA-ACA
1 TATATATGACT-ATAAC-AATATA
* *
1152442 TACATATGACTATAACAATATG
1 TATATATGACTATAACAATATA
* * *
1152464 TATATATGACTTTAATAGTATA
1 TATATATGACTATAACAATATA
1152486 TATATAT
1 TATATAT
1152493 ATATATATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
21 2 0.05
22 38 0.93
23 1 0.02
ACGTcount: A:0.47, C:0.08, G:0.07, T:0.38
Consensus pattern (22 bp):
TATATATGACTATAACAATATA
Found at i:1152522 original size:32 final size:32
Alignment explanation
Indices: 1152459--1152523 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
1152449 GACTATAACA
* * *
1152459 ATATGTATATATGACTTTAATAGTATATATAT
1 ATATATATATATGAATTTAATAGAATATATAT
*
1152491 ATATATATATATGAATTTAACTA-AATGTATAT
1 ATATATATATATGAATTTAA-TAGAATATATAT
1152523 A
1 A
1152524 GTAAAAATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 26 0.93
33 2 0.07
ACGTcount: A:0.45, C:0.03, G:0.08, T:0.45
Consensus pattern (32 bp):
ATATATATATATGAATTTAATAGAATATATAT
Found at i:1155806 original size:20 final size:20
Alignment explanation
Indices: 1155781--1155857 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
1155771 GTAAAAAGAC
*
1155781 AGAATGTATCGATAAATTGA
1 AGAATGTATCGATACATTGA
*
1155801 AGAATGTATCGATACATTCA
1 AGAATGTATCGATACATTGA
* *
1155821 TA-CATGTATCGATACGTTGA
1 -AGAATGTATCGATACATTGA
*
1155841 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
1155858 CTAGGTACTT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:1156709 original size:52 final size:52
Alignment explanation
Indices: 1156613--1157170 Score: 470
Period size: 52 Copynumber: 10.8 Consensus size: 52
1156603 AACAATACAT
*
1156613 ATATCAAATA-TTTTTAA--TTT-TTA-TTTTAAATAGTAATTCGAA-ATTTA
1 ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTC-AAGATTTA
* * * *
1156660 CCT-TAAAATGTTTTTTAATTTTTATTATTTTAAAATAGTAATTCAAAATTTA
1 -ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTCAAGATTTA
* ** * **
1156712 ATATAAAACATATTTAAAATTTTTTCTTATTTTT-AATAGT-ATATCATTATTTA
1 ATATAAAATAT-TTTTTAA-TTTTTATTATTTTTAAATAGTAAT-TCAAGATTTA
** * **
1156765 ATATAAAA-ATTTTAAAATTTTTTATTATTTTTAAATATTAATTTGAGATTTA
1 ATATAAAATATTTTTTAA-TTTTTATTATTTTTAAATAGTAATTCAAGATTTA
***
1156817 ATATAAAATATATTTTTAAATTTTTATTATTTTTAAATAGTAATTTGGGATTTA
1 ATATAAAATAT-TTTTT-AATTTTTATTATTTTTAAATAGTAATTCAAGATTTA
** *
1156871 ATATATTATATTTTTAAATTTTTATTA-TTTTAAATAGTAATTCAAGATTTA
1 ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTCAAGATTTA
** *
1156922 ATATAAAATATTTTAAAAATATTTTTATTATTTTTTAAATAGTAATTTAAGATTTA
1 ATATAAAATATTTT--TTA-ATTTTTATTA-TTTTTAAATAGTAATTCAAGATTTA
* * * * **
1156978 CTATTAAATATATTTTAATTTTTGTTATTTTGTAAAATAGTAATT-TGGATTTA
1 ATATAAAATATTTTTTAATTTTTATTATTTT-T-AAATAGTAATTCAAGATTTA
* * * * * * *
1157031 A-AT---TTTTTTTTTAA-TTTTATTATTTTGATATAATTATTCAAAATTTA
1 ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTCAAGATTTA
* * * * *
1157078 GTATGAAATA-TTTTT-ATTTTTATTATTTTTAAATGGTAATTTAGGATTTA
1 ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTCAAGATTTA
1157128 ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATT
1 ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATT
1157171 AGGGATTTAA
Statistics
Matches: 413, Mismatches: 67, Indels: 56
0.77 0.12 0.10
Matches are distributed among these distances:
46 8 0.02
47 10 0.02
48 21 0.05
49 9 0.02
50 41 0.10
51 66 0.16
52 91 0.22
53 53 0.13
54 78 0.19
55 2 0.00
56 34 0.08
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (52 bp):
ATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAATTCAAGATTTA
Found at i:1157170 original size:105 final size:103
Alignment explanation
Indices: 1156671--1157289 Score: 437
Period size: 105 Copynumber: 5.8 Consensus size: 103
1156661 CTTAAAATGT
* * ** * **
1156671 TTTTTAATTTTTATTATTTTAAAATAGTAATTCAAAATTTAATATAAAACATATTTAAAATTTTT
1 TTTTTAATTTTTATTATTTTTAAATAGTAATTTAGGATTTAATATAAAATAT-TTTTTAA-TTTT
* * ** *
1156736 TCTTATTTTT-AATAGT-ATATCATTATTTAATATAAAAA
64 TATTATTTTTAAATAGTAATATTAAAATTTAATATAAATA
* *
1156774 TTTTAAAATTTTTTATTATTTTTAAATATTAATTT-GAGATTTAATATAAAATATATTTTTAAAT
1 TTTT-TAA-TTTTTATTATTTTTAAATAGTAATTTAG-GATTTAATATAAAATAT-TTTTT-AAT
*** *
1156838 TTTTATTATTTTTAAATAGTAAT-TTGGGATTTAATATATTATA
61 TTTTATTATTTTTAAATAGTAATATTAAAATTTAATATA-AATA
* * **
1156881 TTTTTAAATTTTTATTA-TTTTAAATAGTAATTCAAGATTTAATATAAAATATTTTAAAAATATT
1 TTTTT-AATTTTTATTATTTTTAAATAGTAATTTAGGATTTAATATAAAATATTTT--TTA-ATT
* *
1156945 TTTATTATTTTTTAAATAGTAAT-TTAAGATTTACTATTAAATA
62 TTTATTA-TTTTTAAATAGTAATATTAAAATTTAATA-TAAATA
* * *
1156988 TATTTTAATTTTTGTTATTTTGTAAAATAGTAATTT-GGATTTAA-AT---TTTTTTTTTAA-TT
1 T-TTTTAATTTTTATTATTTT-T-AAATAGTAATTTAGGATTTAATATAAAATATTTTTTAATTT
* *
1157047 TTATTA-TTTT-GATA-TAATTATTCAAAATTTAGTATGAAATA
63 TTATTATTTTTAAATAGTAA-TATT-AAAATTTAATAT-AAATA
*
1157088 TTTTT-ATTTTTATTATTTTTAAATGGTAATTTAGGATTTAATATAAAATATTTTTTAATTTTTA
1 TTTTTAATTTTTATTATTTTTAAATAGTAATTTAGGATTTAATATAAAATATTTTTTAATTTTTA
* *
1157152 TTATTTTTAAATAGTAATTAGGGATTTAAATAGTAATTAGAGATTTAATA
66 TTATTTTTAAATAGTAA-T----A-TTAAA-A-T--TTA-ATA-TAAATA
* * * *
1157202 TAATTTTTTGTAATTTTTATTATTTTTAAACAATAATTTAGGATTTTATATAAAATA-TTTTTAA
1 T-TTTT-----AATTTTTATTATTTTTAAATAGTAATTTAGGATTTAATATAAAATATTTTTTAA
1157266 TTTTTTATTA-TTTTAAATAGTAAT
60 -TTTTTATTATTTTTAAATAGTAAT
1157290 TTAGGATAAT
Statistics
Matches: 417, Mismatches: 49, Indels: 84
0.76 0.09 0.15
Matches are distributed among these distances:
96 11 0.03
97 12 0.03
98 19 0.05
99 11 0.03
100 15 0.04
101 17 0.04
102 9 0.02
103 9 0.02
104 8 0.02
105 97 0.23
106 38 0.09
107 49 0.12
108 11 0.03
109 12 0.03
110 14 0.03
111 1 0.00
113 3 0.01
114 6 0.01
115 4 0.01
119 1 0.00
120 20 0.05
121 50 0.12
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (103 bp):
TTTTTAATTTTTATTATTTTTAAATAGTAATTTAGGATTTAATATAAAATATTTTTTAATTTTTA
TTATTTTTAAATAGTAATATTAAAATTTAATATAAATA
Found at i:1157181 original size:19 final size:19
Alignment explanation
Indices: 1157157--1157199 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
1157147 TTTTATTATT
*
1157157 TTTAAATAGTAATTAGGGA
1 TTTAAATAGTAATTAGAGA
1157176 TTTAAATAGTAATTAGAGA
1 TTTAAATAGTAATTAGAGA
1157195 TTTAA
1 TTTAA
1157200 TATAATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.16, T:0.40
Consensus pattern (19 bp):
TTTAAATAGTAATTAGAGA
Found at i:1157239 original size:69 final size:70
Alignment explanation
Indices: 1157105--1157247 Score: 195
Period size: 69 Copynumber: 2.0 Consensus size: 70
1157095 TTTTATTATT
* * *
1157105 TTTAAATGGTAATTTAGGATTTAATATAAAATATTTTTTAATTTTTATTATTTTTAAATAGTAA-
1 TTTAAATAGTAATTTAGGATTTAATAT-AAATATTTTTTAATTTTTATTATTTTTAAACAATAAT
1157169 TTAGGGA
65 TTA-GGA
1157176 TTTAAATAGTAA-TTAGAGATTTAATAT-AAT-TTTTTGTAATTTTTATTATTTTTAAACAATAA
1 TTTAAATAGTAATTTAG-GATTTAATATAAATATTTTT-TAATTTTTATTATTTTTAAACAATAA
1157238 TTTAGGA
64 TTTAGGA
1157245 TTT
1 TTT
1157248 TATATAAAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 8
0.86 0.04 0.10
Matches are distributed among these distances:
68 5 0.08
69 33 0.50
70 7 0.11
71 21 0.32
ACGTcount: A:0.38, C:0.01, G:0.10, T:0.52
Consensus pattern (70 bp):
TTTAAATAGTAATTTAGGATTTAATATAAATATTTTTTAATTTTTATTATTTTTAAACAATAATT
TAGGA
Found at i:1157290 original size:51 final size:49
Alignment explanation
Indices: 1157176--1157329 Score: 172
Period size: 51 Copynumber: 3.1 Consensus size: 49
1157166 TAATTAGGGA
1157176 TTTAAATAGTAA-TTAGAGATTTA-ATATAATTTTTTGTAA-TTTTTATTATT
1 TTTAAATAGTAATTTAG-GATTTATATATAA-TTTTT-TAATTTTTTATTA-T
* * *
1157226 TTTAAACAATAATTTAGGATTTTATATAAAATATTTTTAATTTTTTATTAT
1 TTTAAATAGTAATTTAGGA-TTTATATATAAT-TTTTTAATTTTTTATTAT
* *
1157277 TTTAAATAGTAATTTAGGA-TAATATATAATTGTTTAATTTTTTTATTAT
1 TTTAAATAGTAATTTAGGATTTATATATAATTTTTTAA-TTTTTTATTAT
1157326 TTTA
1 TTTA
1157330 TAATTAAAAA
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
48 6 0.07
49 24 0.27
50 12 0.13
51 30 0.33
52 18 0.20
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (49 bp):
TTTAAATAGTAATTTAGGATTTATATATAATTTTTTAATTTTTTATTAT
Found at i:1157319 original size:49 final size:50
Alignment explanation
Indices: 1157215--1157329 Score: 144
Period size: 49 Copynumber: 2.3 Consensus size: 50
1157205 TTTTTTGTAA
* *
1157215 TTTTTATTATTTTTAAACAATAATTTAGGATTTTATATAAAATATTTTTAAT
1 TTTTTATTA-TTTTAAACAATAATTTAGGA-TTAATATAAAATATGTTTAAT
* * *
1157267 TTTTTATTATTTTAAATAGTAATTTAGGA-TAATATATAAT-TGTTTAATT
1 TTTTTATTATTTTAAACAATAATTTAGGATTAATATAAAATATGTTTAA-T
1157316 TTTTTATTATTTTA
1 TTTTTATTATTTTA
1157330 TAATTAAAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
48 6 0.11
49 24 0.42
51 18 0.32
52 9 0.16
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.58
Consensus pattern (50 bp):
TTTTTATTATTTTAAACAATAATTTAGGATTAATATAAAATATGTTTAAT
Found at i:1157875 original size:20 final size:20
Alignment explanation
Indices: 1157850--1157904 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
1157840 TTTTGATATA
*
1157850 ATAAGTGACTGTATCAATAC
1 ATAAGTGAATGTATCAATAC
* *
1157870 ATAAGTGAATATATCAATGC
1 ATAAGTGAATGTATCAATAC
1157890 ATAAGTGAATGTATC
1 ATAAGTGAATGTATC
1157905 GATATATGCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (20 bp):
ATAAGTGAATGTATCAATAC
Found at i:1159002 original size:13 final size:13
Alignment explanation
Indices: 1158984--1159009 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1158974 TACAGCAAGT
1158984 ATGTATCGATACA
1 ATGTATCGATACA
1158997 ATGTATCGATACA
1 ATGTATCGATACA
1159010 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1161262 original size:21 final size:21
Alignment explanation
Indices: 1161229--1161273 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1161219 TTGCAAGTTG
*
1161229 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1161251 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1161271 AAA
1 AAA
1161274 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1163097 original size:15 final size:15
Alignment explanation
Indices: 1163077--1163107 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1163067 TAAAAATGTC
*
1163077 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1163092 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1163107 C
1 C
1163108 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1165204 original size:13 final size:13
Alignment explanation
Indices: 1165186--1165224 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
1165176 ACATTTTTCT
1165186 TTGTATCGATACA
1 TTGTATCGATACA
1165199 TTGTATCGATACA
1 TTGTATCGATACA
1165212 TTGTATCGATACA
1 TTGTATCGATACA
1165225 GGGTGATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1167790 original size:13 final size:13
Alignment explanation
Indices: 1167772--1167797 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1167762 TACAGCAAGT
1167772 ATGTATCGATACA
1 ATGTATCGATACA
1167785 ATGTATCGATACA
1 ATGTATCGATACA
1167798 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1168850 original size:97 final size:97
Alignment explanation
Indices: 1168700--1168884 Score: 255
Period size: 97 Copynumber: 1.9 Consensus size: 97
1168690 TTATTCACGA
* * *
1168700 GGATACTCCAACTCCATTCTTTTGAGAGGATACTCCAACCCTATTTTTAAACTTGTCAAGATTTA
1 GGATACTCCAACTCCATTCTTCTGAGAGGATACTCCAACCCTATTTTTAAACTTATCAAAATTTA
* *
1168765 AATATTATTTTTGCTTAAATTGTAATTATCAG
66 AATATTATTCTTGCCTAAATTGTAATTATCAG
* * * * *
1168797 GGATACTCCAAC-CCTATTCTTCTGAGGGGATAGTCTAACCCTGTTTTTGAACTTATCAAAATTT
1 GGATACTCCAACTCC-ATTCTTCTGAGAGGATACTCCAACCCTATTTTTAAACTTATCAAAATTT
*
1168861 AAATTTTATTCTTGCCTAAATTGT
65 AAATATTATTCTTGCCTAAATTGT
1168885 CATCGTCGAG
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
96 2 0.03
97 74 0.97
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.40
Consensus pattern (97 bp):
GGATACTCCAACTCCATTCTTCTGAGAGGATACTCCAACCCTATTTTTAAACTTATCAAAATTTA
AATATTATTCTTGCCTAAATTGTAATTATCAG
Found at i:1170232 original size:25 final size:25
Alignment explanation
Indices: 1170204--1170251 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1170194 TAGGCATAGC
* *
1170204 TATAACTTTTGGGATGTAAATTATG
1 TATAACGTTTGGGATGCAAATTATG
*
1170229 TATATCGTTTGGGATGCAAATTA
1 TATAACGTTTGGGATGCAAATTA
1170252 CATATATCTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.21, T:0.42
Consensus pattern (25 bp):
TATAACGTTTGGGATGCAAATTATG
Found at i:1170257 original size:25 final size:25
Alignment explanation
Indices: 1170211--1170264 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
1170201 AGCTATAACT
* **
1170211 TTTGGGATGTAAATTATGTATATCG
1 TTTGGGATGCAAATTACATATATCG
*
1170236 TTTGGGATGCAAATTACATATATCT
1 TTTGGGATGCAAATTACATATATCG
1170261 TTTG
1 TTTG
1170265 TGAGTAATCC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.07, G:0.20, T:0.44
Consensus pattern (25 bp):
TTTGGGATGCAAATTACATATATCG
Found at i:1172248 original size:79 final size:79
Alignment explanation
Indices: 1172105--1172299 Score: 200
Period size: 79 Copynumber: 2.5 Consensus size: 79
1172095 GACGGGGTTT
* ** * *
1172105 GAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCCCCGGTTGTGAAAAATCGATGATTAGGAAA
1 GAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAA
1172170 TAAAATCAAGATTG
66 TAAAATCAAGATTG
* * * *
1172184 GAGTATCCCCTCGGAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-ATTTTGGAA
1 GAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGA-TTAGGAA
* ** *
1172248 AT-AAAGCTGGGGTTG
65 ATAAAATC-AAGATTG
**
1172263 GAGTAT-CCCTC-AGAGGTAACGGGGTTGGAGTATCCCC
1 GAGTATCCCCTCGA-AAATAACGGGGTTGGAGTATCCCC
1172300 GATGAAATAA
Statistics
Matches: 96, Mismatches: 17, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
78 31 0.32
79 65 0.68
ACGTcount: A:0.31, C:0.16, G:0.27, T:0.26
Consensus pattern (79 bp):
GAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAAAAATCAATGATTAGGAAA
TAAAATCAAGATTG
Found at i:1172294 original size:27 final size:28
Alignment explanation
Indices: 1172256--1172330 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 28
1172246 AAATAAAGCT
**
1172256 GGGGTTGGAGTATCCCTC-A-GAGGTAAC
1 GGGGTTGGAGTATCCC-CGATGAAATAAC
1172283 GGGGTTGGAGTATCCCCGATGAAATAAC
1 GGGGTTGGAGTATCCCCGATGAAATAAC
* *
1172311 GAGGTTGGAGTATCCTCGAT
1 GGGGTTGGAGTATCCCCGAT
1172331 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
26 1 0.02
27 17 0.40
28 24 0.57
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (28 bp):
GGGGTTGGAGTATCCCCGATGAAATAAC
Found at i:1172383 original size:52 final size:51
Alignment explanation
Indices: 1172313--1172708 Score: 288
Period size: 52 Copynumber: 7.6 Consensus size: 51
1172303 GAAATAACGA
* * * *
1172313 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTGTTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTG-TTTTGGAAATAAAACCGG
* * * * *
1172365 AGCTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAACCGG
* * * *
1172417 GGTTGGAGTATACCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAACCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGG
* *** * *
1172468 GGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGG
**** * *** * * ***** * *
1172519 GGTTGGAGTATCCCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGA
1 GGTTGGAGTATCCCCGATTATG-AA--AAATTGGTGTTTTGGAAAT-AAA-ACCGG
* * * * *
1172575 GATTGGAGTATCCTCGATTGTGAAAAATTGGTGTCTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTGT-TTTGGAAATAAAACCGG
* * * *
1172627 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGGTGTTTTGGAAATAAAACCGG
* *
1172679 GGTTGGAGCATCCCCGATTATGAACAATTG
1 GGTTGGAGTATCCCCGATTATGAAAAATTG
1172709 AGAAACTTAA
Statistics
Matches: 252, Mismatches: 84, Indels: 17
0.71 0.24 0.05
Matches are distributed among these distances:
51 94 0.37
52 97 0.38
53 32 0.13
54 8 0.03
55 5 0.02
56 16 0.06
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.28
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTGTTTTGGAAATAAAACCGG
Found at i:1172572 original size:28 final size:28
Alignment explanation
Indices: 1172516--1172592 Score: 82
Period size: 28 Copynumber: 2.8 Consensus size: 28
1172506 GAAATAAAGC
*** **
1172516 CGGGGTTGGAGTATCCCCTCGGAGGTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
1172544 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
* * *
1172572 CGAGATTGGAGTATCCTCGAT
1 CGGGGTTGGAGTATCCCCGAT
1172593 TGTGAAAAAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.19, G:0.34, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:1172669 original size:262 final size:261
Alignment explanation
Indices: 1172205--1172707 Score: 907
Period size: 262 Copynumber: 1.9 Consensus size: 261
1172195 CGGAAATAAT
*
1172205 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCTGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
*
1172270 CCTCAGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGGTTGGAGTATCCTCGATTGTG
66 CCTCAGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGATTGGAGTATCCTCGATTGTG
*
1172335 AAAAATTGGTGTTTTTGGAAATAAAATCAGAGCTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
131 AAAAATTGGTGTCTTTGGAAATAAAATCAGAGCTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
* *
1172400 TTTGAAAATAAAACCGGGGTTGGAGTATACCCGATTGTGAAAAATTAGTGTTTTAGAAATAAAAC
196 TTTGAAAATAAAACCGGGGTTGGAGCATACCCGATTATGAAAAATTAGTGTTTTAGAAATAAAAC
1172465 C
261 C
*
1172466 GGGGTTGGAGTATCCCCGATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT-
*
1172531 CCCTCGGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGATTGGAGTATCCTCGATTGT
65 CCCTCAGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGATTGGAGTATCCTCGATTGT
*
1172596 GAAAAATTGGTGTCTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATTGGTG
130 GAAAAATTGGTGTCTTTGGAAATAAAATCAGAGCTGGAGTATCCCCGATTAAAGGAAAATTGGTG
* *
1172661 TTTTGAAAATAAAACCGGGGTTGGAGCATCCCCGATTATGAACAATT
195 TTTTGAAAATAAAACCGGGGTTGGAGCATACCCGATTATGAAAAATT
1172708 GAGAAACTTA
Statistics
Matches: 231, Mismatches: 10, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
261 62 0.27
262 169 0.73
ACGTcount: A:0.32, C:0.13, G:0.27, T:0.27
Consensus pattern (261 bp):
GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTATC
CCTCAGAGGTAACGGGGTTGGAGTATCCCCGATGAAATAACGAGATTGGAGTATCCTCGATTGTG
AAAAATTGGTGTCTTTGGAAATAAAATCAGAGCTGGAGTATCCCCGATTAAAGGAAAATTGGTGT
TTTGAAAATAAAACCGGGGTTGGAGCATACCCGATTATGAAAAATTAGTGTTTTAGAAATAAAAC
C
Found at i:1175085 original size:13 final size:13
Alignment explanation
Indices: 1175067--1175092 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1175057 ACAAAGATCG
1175067 ATGTATCGATACA
1 ATGTATCGATACA
1175080 ATGTATCGATACA
1 ATGTATCGATACA
1175093 TTTCCTTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1175103 original size:21 final size:21
Alignment explanation
Indices: 1175079--1175120 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1175069 GTATCGATAC
1175079 AATGTATCGATACATTTCCTT
1 AATGTATCGATACATTTCCTT
*
1175100 AATGTATCGATAGATTTCCTT
1 AATGTATCGATACATTTCCTT
1175121 GGCAGTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.43
Consensus pattern (21 bp):
AATGTATCGATACATTTCCTT
Found at i:1175155 original size:13 final size:13
Alignment explanation
Indices: 1175137--1175188 Score: 50
Period size: 13 Copynumber: 3.5 Consensus size: 13
1175127 AGCTTCGTAG
1175137 CGATACATTGTAT
1 CGATACATTGTAT
1175150 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
1175169 CGATACATTGTAT
1 CGATACATTGTAT
1175182 CGATACA
1 CGATACA
1175189 AAACTTATGT
Statistics
Matches: 33, Mismatches: 0, Indels: 12
0.73 0.00 0.27
Matches are distributed among these distances:
13 17 0.52
15 2 0.06
16 2 0.06
17 2 0.06
19 10 0.30
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:1175169 original size:19 final size:19
Alignment explanation
Indices: 1175145--1175230 Score: 85
Period size: 19 Copynumber: 4.7 Consensus size: 19
1175135 AGCGATACAT
1175145 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
1175164 TGTATCGATAC---A--T-
1 TGTATCGATACAAAACTTA
1175177 TGTATCGATACAAAACTTA
1 TGTATCGATACAAAACTTA
** *
1175196 TGTATCGATACATTTACTGAA
1 TGTATCGATACA-AAACT-TA
1175217 TGTATCGATACAAA
1 TGTATCGATACAAA
1175231 TTATTGAAAT
Statistics
Matches: 54, Mismatches: 5, Indels: 15
0.73 0.07 0.20
Matches are distributed among these distances:
13 11 0.20
14 1 0.02
16 2 0.04
18 1 0.02
19 23 0.43
20 3 0.06
21 13 0.24
ACGTcount: A:0.38, C:0.15, G:0.13, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAAAACTTA
Found at i:1175178 original size:32 final size:32
Alignment explanation
Indices: 1175137--1175209 Score: 146
Period size: 32 Copynumber: 2.3 Consensus size: 32
1175127 AGCTTCGTAG
1175137 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1175169 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
1175201 CGATACATT
1 CGATACATT
1175210 TACTGAATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:1175875 original size:14 final size:15
Alignment explanation
Indices: 1175856--1175888 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
1175846 GCAAACTAGC
1175856 AATGTTGAAACGA-A
1 AATGTTGAAACGAGA
1175870 AATGTTGAAACGAGA
1 AATGTTGAAACGAGA
1175885 AATG
1 AATG
1175889 AGCCAGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.48, C:0.06, G:0.24, T:0.21
Consensus pattern (15 bp):
AATGTTGAAACGAGA
Found at i:1178812 original size:33 final size:34
Alignment explanation
Indices: 1178750--1178813 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
1178740 CAAACCGTTT
1178750 TAAACCAAATCATATCACCTTTTCTTGTCAAAAA
1 TAAACCAAATCATATCACCTTTTCTTGTCAAAAA
* *
1178784 TAAATCAAATCGTATCACC-TTTCTTGTCAA
1 TAAACCAAATCATATCACCTTTTCTTGTCAA
1178814 GCAGACCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
33 11 0.39
34 17 0.61
ACGTcount: A:0.38, C:0.23, G:0.05, T:0.34
Consensus pattern (34 bp):
TAAACCAAATCATATCACCTTTTCTTGTCAAAAA
Found at i:1179125 original size:5 final size:5
Alignment explanation
Indices: 1179115--1179147 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
1179105 CAATGGCTTC
1179115 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1179148 TGTTGTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:1183499 original size:13 final size:13
Alignment explanation
Indices: 1183481--1183508 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
1183471 TACAAAAGAT
1183481 CAATGTATCGATA
1 CAATGTATCGATA
1183494 CAATGTATCGATA
1 CAATGTATCGATA
1183507 CA
1 CA
1183509 TTTAAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1183506 original size:34 final size:33
Alignment explanation
Indices: 1183463--1183529 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 33
1183453 AATTTTCAGC
1183463 TGTATCGATACA-AAAGATCAATGTATCGATACAA
1 TGTATCGATACATAAAG-T-AATGTATCGATACAA
*
1183497 TGTATCGATACATTTAAGTAATGTATCGATACA
1 TGTATCGATACA-TAAAGTAATGTATCGATACA
1183530 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 26 0.87
35 1 0.03
36 3 0.10
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.31
Consensus pattern (33 bp):
TGTATCGATACATAAAGTAATGTATCGATACAA
Found at i:1183587 original size:19 final size:18
Alignment explanation
Indices: 1183563--1183623 Score: 69
Period size: 19 Copynumber: 3.6 Consensus size: 18
1183553 CGATACATTA
1183563 TATCGATACAAAACTTATG
1 TATCGATAC-AAACTTATG
1183582 TATCGATAC--A--T-TG
1 TATCGATACAAACTTATG
1183595 TATCGATACAACACTTATG
1 TATCGATACAA-ACTTATG
1183614 TATCGATACA
1 TATCGATACA
1183624 GTTACGGTTT
Statistics
Matches: 36, Mismatches: 0, Indels: 12
0.75 0.00 0.25
Matches are distributed among these distances:
13 11 0.31
14 1 0.03
16 2 0.06
18 1 0.03
19 21 0.58
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (18 bp):
TATCGATACAAACTTATG
Found at i:1183599 original size:32 final size:32
Alignment explanation
Indices: 1183553--1183623 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
1183543 AGCTTCGTAG
1183553 CGATACATTATATCGATACAAAACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
* *
1183585 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTATATCGATACAAAACTTATGTAT
1183617 CGATACA
1 CGATACA
1183624 GTTACGGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (32 bp):
CGATACATTATATCGATACAAAACTTATGTAT
Found at i:1185477 original size:14 final size:15
Alignment explanation
Indices: 1185453--1185481 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
1185443 CAATTTAACC
1185453 AAAATTAAAATAAAT
1 AAAATTAAAATAAAT
1185468 AAAA-TAAAATAAAT
1 AAAATTAAAATAAAT
1185482 TTTTTCTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAATTAAAATAAAT
Found at i:1185567 original size:20 final size:21
Alignment explanation
Indices: 1185542--1185583 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
1185532 TTTAAACAAG
*
1185542 ATTATATAGAT-ATTAAATTA
1 ATTATATAAATAATTAAATTA
*
1185562 ATTATATAAATAATTAATTTA
1 ATTATATAAATAATTAAATTA
1185583 A
1 A
1185584 CCATATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
ATTATATAAATAATTAAATTA
Found at i:1187240 original size:79 final size:77
Alignment explanation
Indices: 1187101--1187723 Score: 318
Period size: 79 Copynumber: 7.9 Consensus size: 77
1187091 TGGGGATAAC
* * * *
1187101 AACGGGGCTGGAGTATCCTCGATTATGAAAAATC-AGTGTTCTAGAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCT-GATTGTG-AAAATCGA-TGTTTTAGAAATAAAACCGGGGTTGGAG
*
1187165 TATCCCCTCGGAAAT
63 TATCCCCTCGAAAAT
* * * *
1187180 AACAGGGTTGGAGTATCCATGATTATAGAAAATTGATGTTTT-GAAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCC-TGATTGT-GAAAATCGATGTTTTAG-AAATAAAACCGGGGTTGGAG
* *
1187244 TATCCTCTCAAAAAT
63 TATCCCCTCGAAAAT
* * * * **
1187259 AACGAGATTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGT
1 AACGGGGTTGGAGTAT-CCTGATTGT-GAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGT
* *
1187324 ATCCCCGCGAAAGT
64 ATCCCCTCGAAAAT
* * * ** * **
1187338 AATGGGGTCGGAGTATCCTCGATTGTGAGAAATCAAAATTTTAGAAATAAAGCCAAGGTTGGAGT
1 AACGGGGTTGGAGTATCCT-GATTGTGA-AAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGT
1187403 ATCCCCTCGAAAAT
64 ATCCCCTCGAAAAT
* * ** * * * ** *
1187417 AACGGGGTTGGAGCATCCTCGA---TG-AAAT-AATGGGGTT-GGAGT--ATCCCCGATTGTGAA
1 AACGGGGTTGGAGTATCCT-GATTGTGAAAATCGAT-GTTTTAGAAATAAAACCGGGGTTG-G-A
** **** *
1187474 AAATTGGTGTTTTGAAAAT
62 GTA-T--CCCCTCGAAAAT
* * * * *
1187493 AAAATCGGAGTTGGAGTATCCCCGATTGTGAAAAATTAGA-GTTTTAGAAATAAAGCCGGGGTTA
1 --AA-CGGGGTTGGAGTAT-CCTGATTGTG-AAAA-TCGATGTTTTAGAAATAAAACCGGGGTTG
*
1187557 GAGTATCCCCTCAAAAAT
60 GAGTATCCCCTCGAAAAT
* * * * * *
1187575 AACGGGGTTGGAGTATCCTCGATTATGAAAAAT-TAGTGTTTTGGGAATAAAATCGGGGTTAGAG
1 AACGGGGTTGGAGTATCCT-GATTGTG-AAAATCGA-TGTTTTAGAAATAAAACCGGGGTTGGAG
*
1187639 TATCCCCTCGGAAAT
63 TATCCCCTCGAAAAT
* * * * * * *
1187654 AATGGGATTGGAGTA-CCTCCGATTATGAAAAATTGATGTTTTGGAAATAAAACTGGGGTTAGAG
1 AACGGGGTTGGAGTATCCT--GATTGTG-AAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAG
1187718 TATCCC
63 TATCCC
1187724 GAGATGAAAA
Statistics
Matches: 418, Mismatches: 93, Indels: 66
0.72 0.16 0.11
Matches are distributed among these distances:
71 7 0.02
72 1 0.00
73 7 0.02
74 7 0.02
76 9 0.02
77 1 0.00
78 13 0.03
79 333 0.80
80 11 0.03
82 8 0.02
84 7 0.02
85 6 0.01
86 2 0.00
87 6 0.01
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (77 bp):
AACGGGGTTGGAGTATCCTGATTGTGAAAATCGATGTTTTAGAAATAAAACCGGGGTTGGAGTAT
CCCCTCGAAAAT
Found at i:1187427 original size:28 final size:29
Alignment explanation
Indices: 1187394--1187464 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
1187384 ATAAAGCCAA
1187394 GGTTGGAGTATCCCCTCGA-AAATAACGG
1 GGTTGGAGTATCCCCTCGAGAAATAACGG
* *
1187422 GGTTGGAGCAT--CCTCGATGAAATAATGG
1 GGTTGGAGTATCCCCTCGA-GAAATAACGG
1187450 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1187465 GATTGTGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
26 6 0.17
28 28 0.78
30 2 0.06
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.24
Consensus pattern (29 bp):
GGTTGGAGTATCCCCTCGAGAAATAACGG
Found at i:1187516 original size:51 final size:51
Alignment explanation
Indices: 1187451--1187566 Score: 162
Period size: 51 Copynumber: 2.3 Consensus size: 51
1187441 AAATAATGGG
* * *
1187451 GTTGGAGTATCCCCGATTGTGAAAAATTGGTGTTTT-GAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGAGTTTTAG-AAATAAAACCGGA
* *
1187502 GTTGGAGTATCCCCGATTGTGAAAAATTAGAGTTTTAGAAATAAAGCCGGG
1 GTTGGAGTATCCCCGATTGTGAAAAATTAGAGTTTTAGAAATAAAACCGGA
*
1187553 GTTAGAGTATCCCC
1 GTTGGAGTATCCCC
1187567 TCAAAAATAA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
51 57 0.98
52 1 0.02
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (51 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTAGAGTTTTAGAAATAAAACCGGA
Found at i:1187665 original size:158 final size:157
Alignment explanation
Indices: 1187101--1187723 Score: 444
Period size: 158 Copynumber: 3.9 Consensus size: 157
1187091 TGGGGATAAC
* * * *
1187101 AACGGGGCTGGAGTATCCTCGATTATGAAAAATCAGTGTTCTAGAAATAAAATCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCTCGATTATGAAAAAT-AGTGTTTTAGAAATAAAACCGGGGTTAGAGT
* **
1187166 ATCCCCTCGGAAATAACAGGG-TTGGAGTATCCATGATTAT-AGAAAATTGATGTTTT-GAAAAT
65 ATCCCCTCGGAAATAA-TGGGATTGGAGTATCCCCGATTATGA-AAAATTGATGTTTTAG-AAAT
* * *
1187228 AAAATCGGGGTTGGAGTATCCTCTCAAAAAT
127 AAAACCGGGGTTAGAGTATCCCCTCAAAAAT
* * * * * * * ** *
1187259 AACGAGATTGGAGTATCCCCGATTGTGGAAAATCGATGCTTTAGAAATAAGGCCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCTCGATTATGAAAAATAG-TGTTTTAGAAATAAAACCGGGGTTAGAGT
* * * * * * ** **
1187324 ATCCCCGC-GAAAGTAATGGGGTCGGAGTATCCTCGATTGTGAGAAATCAAAATTTTAGAAATAA
65 ATCCCCTCGGAAA-TAATGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAA
* ** * *
1187388 AGCCAAGGTTGGAGTATCCCCTCGAAAAT
129 AACCGGGGTTAGAGTATCCCCTCAAAAAT
* ** * * *** ** * *
1187417 AACGGGGTTGGAGCATCCTCG---ATGAAATAAT-G-GGGTT-GGAGTATCCCCGATTGTGA-AA
1 AACGGGGTTGGAGTATCCTCGATTATGAAA-AATAGTGTTTTAGAAATAAAACCG-GGGTTAGAG
* **** * * * *
1187475 AATTGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGAAAAATTAGA-GTTTTA
64 TA-T--CCCCTCGGAAAT--AATGGGA-TTGGAGTATCCCCGATTATGAAAAATT-GATGTTTTA
*
1187539 GAAATAAAGCCGGGGTTAGAGTATCCCCTCAAAAAT
122 GAAATAAAACCGGGGTTAGAGTATCCCCTCAAAAAT
* * *
1187575 AACGGGGTTGGAGTATCCTCGATTATGAAAAATTAGTGTTTTGGGAATAAAATCGGGGTTAGAGT
1 AACGGGGTTGGAGTATCCTCGATTATGAAAAA-TAGTGTTTTAGAAATAAAACCGGGGTTAGAGT
*
1187640 ATCCCCTCGGAAATAATGGGATTGGAGTA-CCTCCGATTATGAAAAATTGATGTTTTGGAAATAA
65 ATCCCCTCGGAAATAATGGGATTGGAGTATCC-CCGATTATGAAAAATTGATGTTTTAGAAATAA
*
1187704 AACTGGGGTTAGAGTATCCC
129 AACCGGGGTTAGAGTATCCC
1187724 GAGATGAAAA
Statistics
Matches: 349, Mismatches: 91, Indels: 50
0.71 0.19 0.10
Matches are distributed among these distances:
152 9 0.03
153 6 0.02
155 6 0.02
156 6 0.02
157 17 0.05
158 264 0.76
159 9 0.03
160 2 0.01
161 13 0.04
162 1 0.00
163 7 0.02
164 9 0.03
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (157 bp):
AACGGGGTTGGAGTATCCTCGATTATGAAAAATAGTGTTTTAGAAATAAAACCGGGGTTAGAGTA
TCCCCTCGGAAATAATGGGATTGGAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATAAAA
CCGGGGTTAGAGTATCCCCTCAAAAAT
Found at i:1190810 original size:61 final size:61
Alignment explanation
Indices: 1190716--1191191 Score: 511
Period size: 61 Copynumber: 7.9 Consensus size: 61
1190706 ATGAAATGGG
* * * * * **
1190716 TCCTGCTCCTTGGGGACTAGAAGGTGCCACCAACTTGTATGTGCTTTGCAAGGAGAAA-GCA
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCA
* * * * *
1190777 T-CTCACTTTTTGAGGACTGGAAAGTGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
1 TCCT-GCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * *
1190838 TCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * * * *
1190899 TCCTGCTCTTTGAGGACTAGTAAAGCGCCATCAACTTATGTGGGCTTTGAAAGGAGAAA-GCA
1 TCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCA
* * *
1190961 TCCTGCTCTTTGAGAACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
*
1191022 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * *
1191083 TCCTACTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----G-AAAGGCA
1 TCCTGCTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * ** * *
1191139 TCCTGCTTTTTGAAGACTGAAAAATACCACCAACTTGTATGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1191192 TGTCCTGCTC
Statistics
Matches: 354, Mismatches: 49, Indels: 25
0.83 0.11 0.06
Matches are distributed among these distances:
55 26 0.07
56 23 0.06
57 1 0.00
60 9 0.03
61 217 0.61
62 75 0.21
63 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
Found at i:1190989 original size:123 final size:121
Alignment explanation
Indices: 1190716--1191191 Score: 545
Period size: 123 Copynumber: 3.9 Consensus size: 121
1190706 ATGAAATGGG
* * * * ** *
1190716 TCCTGCTCCTTGGGGACTAGAAGGTGCCACCAACTTGTATGTGCTTTGCAAGGAGAAAGCAT-CT
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGCGTCCT
* * * * *
1190780 CACTTTTTGAGGACTGGAAAGTGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCG
65 -GCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* *
1190838 TCCTGCTTTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCGTCCT
* * * *
1190903 GCTCTTTGAGGACTAGTAAAGCGCCATCAACTTATGTGGGCTTTGAAAGGAGAAA-GCA
65 GCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGA-AAAGGCA
* *
1190961 TCCTGCTCTTTGAGAACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCGTCCT
1 TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAA-GCGTCCT
*
1191026 GCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
65 GCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
* * * * *
1191083 TCCTACTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----GAAAGGCATCCT
1 TCCTGCTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCGTCCT
* * * * *
1191143 GCTTTTTGAAGACT-GAAAAATACCACCAACTTGTATGGGCTTTAAAAGG
65 GCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1191192 TGTCCTGCTC
Statistics
Matches: 307, Mismatches: 40, Indels: 19
0.84 0.11 0.05
Matches are distributed among these distances:
116 1 0.00
117 47 0.15
118 4 0.01
121 6 0.02
122 111 0.36
123 135 0.44
124 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.26, T:0.27
Consensus pattern (121 bp):
TCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGCGTCCTG
CTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCA
Found at i:1191074 original size:184 final size:183
Alignment explanation
Indices: 1190715--1191136 Score: 630
Period size: 184 Copynumber: 2.3 Consensus size: 183
1190705 AATGAAATGG
* * * * * *
1190715 GTCCTGCTCCTTGGGGACTAGAAGGTGCCACCAACTTGTATGTGCTTTGCAAGGAGAAAGCATCT
1 GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCATCT
* * *
1190780 CACTTTTTGAGGACTGGAAAGTGTCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCT
66 CACTCTTTGAGAACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCT
*
1190845 TTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGC
131 CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGC
* * *
1190898 GTCCTGCTCTTTGAGGACTAGTAAAGCGCCATCAACTTATGTGGGCTTTGAAAGGAGAAAGCATC
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCATC
* * *
1190963 -CTGCTCTTTGAGAACTGGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAATGCGTCCTG
65 TC-ACTCTTTGAGAACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTG
*
1191027 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGC
129 CTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGC
* * *
1191082 ATCCTACTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1 GTCCTGCTCTTTGAGGACTAG-AAAGTGCCACCAACTTGTGTGGGCTTTGAAAGG
1191137 CATCCTGCTT
Statistics
Matches: 213, Mismatches: 24, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
183 20 0.09
184 193 0.91
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.26
Consensus pattern (183 bp):
GTCCTGCTCTTTGAGGACTAGAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAGAAAGCATCT
CACTCTTTGAGAACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCGTCCTGCT
CTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGAGCTTTAAAAGGAAAAGGC
Found at i:1191296 original size:55 final size:55
Alignment explanation
Indices: 1191233--1191415 Score: 258
Period size: 55 Copynumber: 3.3 Consensus size: 55
1191223 AGAGAGAGTG
* ** * *
1191233 TCCTGCTCTTTAAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
* * **
1191288 TCTTGCTCTTTGAGGACTGAAAAATGCCACCAACTTATGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
**
1191343 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTG
1 TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
*
1191398 TCCTACTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
1191416 AAAGGGTAAA
Statistics
Matches: 116, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 116 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (55 bp):
TCCTGCTCTTTGAGGACTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGCA
Found at i:1191338 original size:29 final size:28
Alignment explanation
Indices: 1191305--1191393 Score: 67
Period size: 29 Copynumber: 3.2 Consensus size: 28
1191295 CTTTGAGGAC
1191305 TGAAAAATGCCACCAACTTATGTGGGCTT
1 TGAAAAATGCCACCAACTT-TGTGGGCTT
** ** * * *
1191334 TGAAAGGTGTCCTGC-TCTTTGAGGAC--
1 TGAAAAATG-CCACCAACTTTGTGGGCTT
1191360 TGAAAAATGCCACCAACTTGTGTGGGCTT
1 TGAAAAATGCCACCAACTT-TGTGGGCTT
1191389 TGAAA
1 TGAAA
1191394 GGTGTCCTAC
Statistics
Matches: 41, Mismatches: 14, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
25 3 0.07
26 10 0.24
27 5 0.12
28 5 0.12
29 15 0.37
30 3 0.07
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (28 bp):
TGAAAAATGCCACCAACTTTGTGGGCTT
Found at i:1191378 original size:204 final size:204
Alignment explanation
Indices: 1191019--1191487 Score: 672
Period size: 204 Copynumber: 2.3 Consensus size: 204
1191009 AAAGGAAAAT
*
1191019 GCGTCCTGCTCTTTGAGGACTAGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCAT
1 GCGTCCTGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTT------AAAAGGCAT
* * * *
1191084 CCTACTTTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGCATCCTGCTTTT
59 CCTACTCTTTGAGGACTAGAAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCATCCTGCTCTT
*
1191149 TGAAGACTGAAAAATACCACCAACTTGTATGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTAA
124 TGAAGACTGAAAAATACCACCAACTTGTATGGGCTTTAAAAGGTGTCCTACTCTTTGAGGACTAA
1191214 AGGGTGAAAA-GAGAGA
189 AGGGT-AAAAGGAGAGA
* * * *
1191230 GTGTCCTGCTCTTTAAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCT
1 GCGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACT
** *
1191295 CTTTGAGGACT-GAAAAATGCCACCAACTTATGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGA
65 CTTTGAGGACTAGAAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCATCCTGCTCTTTGAAGA
* * *
1191359 CTGAAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTAAAGGGTA
130 CTGAAAAATACCACCAACTTGTATGGGCTTTAAAAGGTGTCCTACTCTTTGAGGACTAAAGGGTA
1191424 AAAGGAGAGA
195 AAAGGAGAGA
* *
1191434 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCAACAACTTATGTGGGCTTTAAAA
1 GCGTCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTAAAA
1191488 AGAGAAGGCG
Statistics
Matches: 235, Mismatches: 21, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
203 4 0.02
204 162 0.69
205 23 0.10
211 43 0.18
212 3 0.01
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.27
Consensus pattern (204 bp):
GCGTCCTGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTACTC
TTTGAGGACTAGAAAAATGCCACCAACTTATGTGGGCTTTGAAAGGCATCCTGCTCTTTGAAGAC
TGAAAAATACCACCAACTTGTATGGGCTTTAAAAGGTGTCCTACTCTTTGAGGACTAAAGGGTAA
AAGGAGAGA
Done.