Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold31
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: 2401195
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 123915 characters in sequence are not A, C, G, or T
File 13 of 16
Found at i:1910655 original size:11 final size:11
Alignment explanation
Indices: 1910641--1910676 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
1910631 TAATCTTCAC
1910641 AAAAAAAACAA
1 AAAAAAAACAA
1910652 AAAAAAAACAA
1 AAAAAAAACAA
1910663 AAAACAAAA-AA
1 AAAA-AAAACAA
1910674 AAA
1 AAA
1910677 GGGAAAAACC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 20 0.83
12 4 0.17
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:1911676 original size:31 final size:31
Alignment explanation
Indices: 1911638--1911748 Score: 176
Period size: 31 Copynumber: 3.7 Consensus size: 31
1911628 AAAAAAAAAA
1911638 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
1911669 AAAGTCCACGACTCAGTGGCAATCTCTT-T-
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTC
*
1911698 AAAGTCCACGACTCAGTGGC-AT-TTTGTCTC
1 AAAGTCCACGACTCAGTGGCAATCTCT-TCTC
1911728 AAAGTCCACGACTCAGTGGCA
1 AAAGTCCACGACTCAGTGGCA
1911749 TTTTTTTCTT
Statistics
Matches: 75, Mismatches: 1, Indels: 8
0.89 0.01 0.10
Matches are distributed among these distances:
27 2 0.03
28 3 0.04
29 21 0.28
30 21 0.28
31 28 0.37
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTC
Found at i:1911807 original size:90 final size:91
Alignment explanation
Indices: 1911638--1911813 Score: 203
Period size: 90 Copynumber: 1.9 Consensus size: 91
1911628 AAAAAAAAAA
* * * *
1911638 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGTCCACGACTCAGTGGCAATCTCTTTAAAGT
1 AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAACTCAGTGGCAACCTCTTTAAAGC
*
1911703 CCACGACTCAGTGGCA-TTTTGTCTC
66 CCACAACTCAGTGGCACTTTTGTCTC
* * * * * * *
1911728 AAAGTCCACGACTCAGTGGCATTTTTTTCTTTAAAGCCCATAACTCCGTGGCACCCT-TTTAAAG
1 AAAGTCCACGACTCAGTGGCAATCTCTTC-TCAAAGCCCACAACTCAGTGGCAACCTCTTTAAAG
* *
1911792 CCCACAATTCCGTGGCACTTTT
65 CCCACAACTCAGTGGCACTTTT
1911814 TTTATCTTTA
Statistics
Matches: 70, Mismatches: 14, Indels: 3
0.80 0.16 0.03
Matches are distributed among these distances:
90 46 0.66
91 24 0.34
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (91 bp):
AAAGTCCACGACTCAGTGGCAATCTCTTCTCAAAGCCCACAACTCAGTGGCAACCTCTTTAAAGC
CCACAACTCAGTGGCACTTTTGTCTC
Found at i:1911858 original size:27 final size:27
Alignment explanation
Indices: 1911820--1911871 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
1911810 TTTTTTTATC
*
1911820 TTTAAGTCCACAACTCCGTGGCACCCG
1 TTTAAGCCCACAACTCCGTGGCACCCG
1911847 TTTAAGCCCACAACTCCGTGGCACC
1 TTTAAGCCCACAACTCCGTGGCACC
1911872 TTCTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.38, G:0.17, T:0.21
Consensus pattern (27 bp):
TTTAAGCCCACAACTCCGTGGCACCCG
Found at i:1911865 original size:61 final size:61
Alignment explanation
Indices: 1911728--1911970 Score: 219
Period size: 61 Copynumber: 3.9 Consensus size: 61
1911718 ATTTTGTCTC
* * * * *
1911728 AAAGTCCACGACTCAGTGGCA--TTTTTTTCTTTAAAGCCCATAACTCCGTGGCACCCTTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTTTCTTT-AAGCCCACAACTCCGTGGCACCCGTTT
* *
1911788 AAAGCCCACAATTCCGTGGCACTTTTTTTATCTTTAAGTCCACAACTCCGTGGCACCCGTTT
1 AAAGCCCACAACTCCGTGGCACTTTTTTT-TCTTTAAGCCCACAACTCCGTGGCACCCGTTT
*
1911850 -AAGCCCACAACTCCGTGGCACCTTCTTCTTTTC--AAAGCCCACAACTCCGTGGCACCTTCTTC
1 AAAGCCCACAACTCCGTGGCA-CTT-TT-TTTTCTTTAAGCCCACAACTCCGTGGCA-C--C--C
*
1911912 TTTT
58 GTTT
** * * *
1911916 AAAGCCCACAACTTTGTGGCAC-TCTTTTCCTTTAAAGCCCACAACTACGTGGCAC
1 AAAGCCCACAACTCCGTGGCACTTTTTTTTCTTT-AAGCCCACAACTCCGTGGCAC
1911971 TCTTTTCCTT
Statistics
Matches: 151, Mismatches: 17, Indels: 25
0.78 0.09 0.13
Matches are distributed among these distances:
60 17 0.11
61 38 0.25
62 34 0.23
63 13 0.09
64 5 0.03
65 2 0.01
66 24 0.16
67 18 0.12
ACGTcount: A:0.23, C:0.33, G:0.14, T:0.30
Consensus pattern (61 bp):
AAAGCCCACAACTCCGTGGCACTTTTTTTTCTTTAAGCCCACAACTCCGTGGCACCCGTTT
Found at i:1911925 original size:33 final size:33
Alignment explanation
Indices: 1911757--1912133 Score: 294
Period size: 33 Copynumber: 11.7 Consensus size: 33
1911747 CATTTTTTTC
*
1911757 TTTAAAGCCCATAACTCCGTGGCA-C--C--CT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
* * *
1911785 TTTAAAGCCCACAATTCCGTGGCA-CTTTTTTT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
* * *
1911817 ATCTTTAAGTCCACAACTCCGTGGCA-C--C--CG
1 -T-TTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1911847 TTT-AAGCCCACAACTCCGTGGCACCTTCTTCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
1911879 TTTCAAAGCCCACAACTCCGTGGCACCTTCTTCT
1 TTT-AAAGCCCACAACTCCGTGGCACCTTCTTCT
** *
1911913 TTTAAAGCCCACAACTTTGTGGCACTCTT-TTCC
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTCTTCT
*
1911946 TTTAAAGCCCACAACTACGTGGCACTCTT-TTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-CT
* *
1911980 TCT-AAGCCCACGACTCCGTGGCA-C--C--CT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
* * *
1912007 TTT-AAGTCCACGACTCCGTGGCACTCTTTTTCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-CTTCTT-CT
* *
1912041 TCT-AAGCCCACAACTCCGTGGCACTCTTTTTTCCCT
1 TTTAAAGCCCACAACTCCGTGGCAC-C-TTCTT--CT
*
1912077 TTTAAAGCCCACAACTCCGTGGCACCTTGTTCT
1 TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
* * *
1912110 TTTTAAGTCCACAACTTCGTGGCA
1 TTTAAAGCCCACAACTCCGTGGCA
1912134 TCTTTCACCC
Statistics
Matches: 291, Mismatches: 32, Indels: 47
0.79 0.09 0.13
Matches are distributed among these distances:
27 42 0.14
28 26 0.09
29 2 0.01
30 1 0.00
31 1 0.00
32 5 0.02
33 94 0.32
34 84 0.29
35 9 0.03
36 6 0.02
37 21 0.07
ACGTcount: A:0.21, C:0.34, G:0.14, T:0.31
Consensus pattern (33 bp):
TTTAAAGCCCACAACTCCGTGGCACCTTCTTCT
Found at i:1912017 original size:27 final size:27
Alignment explanation
Indices: 1911977--1912036 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
1911967 GCACTCTTTT
*
1911977 CCTTCTAAGCCCACGACTCCGTGGCAC
1 CCTTTTAAGCCCACGACTCCGTGGCAC
*
1912004 CCTTTTAAGTCCACGACTCCGTGGCAC
1 CCTTTTAAGCCCACGACTCCGTGGCAC
*
1912031 TCTTTT
1 CCTTTT
1912037 TCCTTCTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.17, C:0.38, G:0.17, T:0.28
Consensus pattern (27 bp):
CCTTTTAAGCCCACGACTCCGTGGCAC
Found at i:1912161 original size:71 final size:71
Alignment explanation
Indices: 1912001--1912158 Score: 198
Period size: 70 Copynumber: 2.3 Consensus size: 71
1911991 GACTCCGTGG
* * *
1912001 CACCCTTTT-AAGTCCACGACTCCGTGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCAC
1 CACCCTTTTAAAGCCCACAACTCCGTGGCACTCTTGTTCCTTCTAAGCCCACAACTCCGTGGCAC
1912065 TCTTTT
66 TCTTTT
** * * * *
1912071 TTCCCTTTTAAAGCCCACAACTCCGTGGCAC-CTTGTTCTTTTTAAGTCCACAACTTCGTGGCA-
1 CACCCTTTTAAAGCCCACAACTCCGTGGCACTCTTGTTCCTTCTAAGCCCACAACTCCGTGGCAC
1912134 TC-TTT
66 TCTTTT
1912139 CACCCTTTCTAAAGCCCACA
1 CACCCTTT-TAAAGCCCACA
1912159 CAAGTCGGTG
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
68 9 0.12
69 13 0.17
70 34 0.45
71 19 0.25
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.33
Consensus pattern (71 bp):
CACCCTTTTAAAGCCCACAACTCCGTGGCACTCTTGTTCCTTCTAAGCCCACAACTCCGTGGCAC
TCTTTT
Found at i:1912177 original size:33 final size:32
Alignment explanation
Indices: 1912140--1912352 Score: 270
Period size: 33 Copynumber: 6.5 Consensus size: 32
1912130 GGCATCTTTC
1912140 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTTTCTAAAGCCCACACAAGTCGGTGGC-A
1912173 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCA
1 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGCA
*
1912206 A-CCTTCCTCTAAAGCCCACACAAGTTGGTGGCA
1 ACCCTT--TCTAAAGCCCACACAAGTCGGTGGCA
* *
1912239 ATCCCTTCCCAAAGCCCACACAAGTCGGTGGCA
1 A-CCCTTTCTAAAGCCCACACAAGTCGGTGGCA
* * *
1912272 ACCCTTTTCCAAAGCCCCCACAAGTTGGTGGCA
1 ACCC-TTTCTAAAGCCCACACAAGTCGGTGGCA
* *
1912305 ACCATTCTCTAAAGCCCACACAAGTCGGTGGTA
1 ACCCTT-TCTAAAGCCCACACAAGTCGGTGGCA
1912338 ACCC-TTCT-AAGCCCA
1 ACCCTTTCTAAAGCCCA
1912353 ATATAGCTGG
Statistics
Matches: 161, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
30 7 0.04
31 3 0.02
32 10 0.06
33 112 0.70
34 25 0.16
35 4 0.02
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (32 bp):
ACCCTTTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:1912305 original size:99 final size:99
Alignment explanation
Indices: 1912140--1912344 Score: 306
Period size: 99 Copynumber: 2.1 Consensus size: 99
1912130 GGCATCTTTC
* * *
1912140 ACCCTTTCTAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTCGGTGGC
1 ACCCTTCCCAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCCAAAGCCCACACAAGTCGGTGGC
*
1912205 AACC-TTCCTCTAAAGCCCACACAAGTTGGTGGCA
66 AACCATT-CTCTAAAGCCCACACAAGTCGGTGGCA
* * *
1912239 ATCCCTTCCCAAAGCCCACACAAGTCGGTGGC-AACCCTTTTCCAAAGCCCCCACAAGTTGGTGG
1 A-CCCTTCCCAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCCAAAGCCCACACAAGTCGGTGG
*
1912303 CAACCATTCTCTAAAGCCCACACAAGTCGGTGGTA
65 CAACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
1912338 ACCCTTC
1 ACCCTTC
1912345 TAAGCCCAAT
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
98 6 0.06
99 60 0.62
100 30 0.31
ACGTcount: A:0.27, C:0.36, G:0.18, T:0.20
Consensus pattern (99 bp):
ACCCTTCCCAAAGCCCACACAAGTCGGTGGCAAACCCTTCTCCAAAGCCCACACAAGTCGGTGGC
AACCATTCTCTAAAGCCCACACAAGTCGGTGGCA
Found at i:1912423 original size:49 final size:49
Alignment explanation
Indices: 1912345--1913048 Score: 888
Period size: 49 Copynumber: 14.7 Consensus size: 49
1912335 GTAACCCTTC
* * * * *
1912345 TAAGCCCAATATAGCTGGCCCTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1912394 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1912443 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1912492 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1912541 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1912590 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * *
1912639 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* *
1912688 TAAGACCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1912737 TAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * *
1912780 TAAG-CCTGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCC-AATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1912829 TAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA----C-T-TT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * *
1912872 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
1912921 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
* * * * * *
1912964 TAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
*
1913013 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1913049 ACATCCTTTT
Statistics
Matches: 565, Mismatches: 70, Indels: 40
0.84 0.10 0.06
Matches are distributed among these distances:
42 2 0.00
43 109 0.19
44 1 0.00
45 3 0.01
47 3 0.01
48 1 0.00
49 444 0.79
50 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTT
Found at i:1912797 original size:43 final size:43
Alignment explanation
Indices: 1912734--1913057 Score: 299
Period size: 43 Copynumber: 7.1 Consensus size: 43
1912724 GCACCTTCAT
* * *
1912734 CTTTAAGTCCAATGTAGCTGGCCTTGAATTAGCACATTGGCAC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
1912777 CTTTAAG-CCTGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCC-AATATCGCTGGCCTTGAATCAGCACATTGGCA----C
* *
1912824 ATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
1912869 TTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C
* *
1912916 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCAC
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * *
1912961 CTTTAAGCCCGATATCGCTGGCCTTGAATCAGCATATTGGCATCTTC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C
* * * *
1913008 ATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 --CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C
1913054 CTTT
1 CTTT
1913058 TTCTCATCTT
Statistics
Matches: 232, Mismatches: 29, Indels: 39
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.01
43 109 0.47
44 4 0.02
45 2 0.01
46 2 0.01
47 3 0.01
49 108 0.47
50 2 0.01
ACGTcount: A:0.24, C:0.24, G:0.19, T:0.33
Consensus pattern (43 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:1912846 original size:92 final size:91
Alignment explanation
Indices: 1912701--1913057 Score: 597
Period size: 92 Copynumber: 3.9 Consensus size: 91
1912691 GACCAATGTA
* * * *
1912701 GCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATTAG
1 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1912766 CACATTGGCACCTTTAAGCCTGATATC
66 CACATTGGCACCTTTAAGCC-GATATC
*
1912793 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
* *
1912858 CACATTGGCACTTTTAAGTCCAATATC
66 CACATTGGCACCTTTAAG-CCGATATC
1912885 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
1912950 CACATTGGCACCTTTAAGCCCGATATC
66 CACATTGGCACCTTTAAG-CCGATATC
*
1912977 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAG
1 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
*
1913042 CACATTGACATCCTTT
66 CACATTGGCA-CCTTT
1913058 TTCTCATCTT
Statistics
Matches: 250, Mismatches: 13, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
92 243 0.97
93 7 0.03
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.32
Consensus pattern (91 bp):
GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAG
CACATTGGCACCTTTAAGCCGATATC
Found at i:1915827 original size:12 final size:12
Alignment explanation
Indices: 1915810--1915835 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
1915800 TATGTCATCA
1915810 TAACGCCAATCT
1 TAACGCCAATCT
1915822 TAACGCCAATCT
1 TAACGCCAATCT
1915834 TA
1 TA
1915836 CTCCCATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.31, G:0.08, T:0.27
Consensus pattern (12 bp):
TAACGCCAATCT
Found at i:1916068 original size:27 final size:27
Alignment explanation
Indices: 1916032--1916133 Score: 114
Period size: 28 Copynumber: 3.7 Consensus size: 27
1916022 TCTTTTTTCA
*
1916032 AAGTCCACAACTTTGTGGCACCCTTTT
1 AAGTCCACAACTTCGTGGCACCCTTTT
* *
1916059 AAGTCTACAACTCCGTGGCACCCTTTTT
1 AAGTCCACAACTTCGTGGCACCC-TTTT
* * *
1916087 AAGTACACAAATTCGTGGCACGCCTTTCA
1 AAGTCCACAACTTCGTGGCAC-CCTTT-T
*
1916116 AAGTCCACAACTCCGTGG
1 AAGTCCACAACTTCGTGG
1916134 TACATTTTTC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
27 20 0.33
28 24 0.39
29 17 0.28
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.27
Consensus pattern (27 bp):
AAGTCCACAACTTCGTGGCACCCTTTT
Found at i:1916096 original size:28 final size:28
Alignment explanation
Indices: 1916032--1916792 Score: 238
Period size: 32 Copynumber: 25.2 Consensus size: 28
1916022 TCTTTTTTCA
**
1916032 AAGTCCACAACTTTGTGGCACCC-TTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTT
*
1916059 AAGTCTACAACTCCGTGGCACCCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTT
* * * **
1916087 AAGTACACAAATTCGTGGCACGCCTTTCA
1 AAGTCCACAACTCCGTGGCAC-CCTTTTT
* **
1916116 AAGTCCACAACTCCGTGGTACATTTTTCTT
1 AAGTCCACAACTCCGTGGCAC-CCTTT-TT
* * *
1916146 CAAAGTCCATAACTCCGTGCCA-TCTTTTT
1 --AAGTCCACAACTCCGTGGCACCCTTTTT
* * *
1916175 AAGTCCACAACTCCGCGCCACCTATTTCTT
1 AAGTCCACAACTCCGTGGCACC-CTTT-TT
* ** *
1916205 CAAAGTCCATAACTTTGTGGCACCTTTTTCTT
1 --AAGTCCACAACTCCGTGGCACC-CTTT-TT
* *
1916237 CAAAGTCCACTACTCCGTAGCACCC-TTTT
1 --AAGTCCACAACTCCGTGGCACCCTTTTT
* *** * *
1916266 AAGTCCACGACTTAATTGCATCCTTTTTTTTCCTT
1 AAGTCCACAACTCCGTGGCA-CC----CTTT--TT
* * ** *
1916301 AAAGCCCACGACTCAATGGCATCCTTTTTTTTCTT
1 -AAGTCCACAACTCCGTGGCA-CC----CTTT-TT
* * *
1916336 CAAAGTCCACGACTTCGTGGCATCC-TTTT
1 --AAGTCCACAACTCCGTGGCACCCTTTTT
** *
1916365 AAGTCC-CTAACTTTGTGGTACCCTTTTT
1 AAGTCCAC-AACTCCGTGGCACCCTTTTT
* **
1916393 AAGTCCACAACTCCATGGCACATTTTTCTTTT
1 AAGTCCACAACTCCGTGGCAC---CCT-TTTT
*
1916425 AAGTCCACAACTCCGTGGTACCCTTTTT
1 AAGTCCACAACTCCGTGGCACCCTTTTT
* * * *
1916453 AAGTCCACAACTTCATGGTACCTTTTTATTT
1 AAGTCCACAACTCCGTGGCACC--CTT-TTT
**
1916484 AAAGTCCACAACTCCGTGGCACTTTTTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTTT
*
1916513 AAAGTCCACAACTCTGTGGCACCC-TTTT
1 -AAGTCCACAACTCCGTGGCACCCTTTTT
* **
1916541 AAGTCTACAACTCCGTGGCACATTTTTCTT
1 AAGTCCACAACTCCGTGGCAC-CCTTT-TT
* * *
1916571 CAAAGTACACAACTTCGTGGCACCTTTTTT
1 --AAGTCCACAACTCCGTGGCACCCTTTTT
* * * *
1916601 CAAAGTCAACAACTCTGTGGCATCTCTTTTA
1 --AAGTCCACAACTCCGTGGCA-CCCTTTTT
* * *
1916632 AAGTCTACAACTCCGAGGCACCTTTTTCTT
1 AAGTCCACAACTCCGTGGCACC-CTTT-TT
* * * *
1916662 CAAAGTCCATAACTTCGTGACACCTTTTTCTT
1 --AAGTCCACAACTCCGTGGCACC-CTTT-TT
* * *
1916694 CAAAGTCCACAACTTCGTGGTACCTTTTTT
1 --AAGTCCACAACTCCGTGGCACCCTTTTT
* * **
1916724 AAAGTCCATAACTTCGTGGCACTTTTTTCTT
1 -AAGTCCACAACTCCGTGGCAC-CCTTT-TT
* * *
1916755 CAAAGTCCATAATTCTGTGGCACCCTTTTT
1 --AAGTCCACAACTCCGTGGCACCCTTTTT
1916785 AAAGTCCA
1 -AAGTCCA
1916793 TACAAGTCGG
Statistics
Matches: 576, Mismatches: 114, Indels: 86
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.00
27 89 0.15
28 71 0.12
29 110 0.19
30 46 0.08
31 22 0.04
32 184 0.32
33 2 0.00
35 6 0.01
36 45 0.08
ACGTcount: A:0.24, C:0.29, G:0.13, T:0.35
Consensus pattern (28 bp):
AAGTCCACAACTCCGTGGCACCCTTTTT
Found at i:1916132 original size:29 final size:28
Alignment explanation
Indices: 1916027--1916133 Score: 117
Period size: 27 Copynumber: 3.8 Consensus size: 28
1916017 TGGCATCTTT
**
1916027 TTTCAAAGTCCACAACTTTGTGGCACCC
1 TTTCAAAGTCCACAACTCCGTGGCACCC
* *
1916055 TTT-TAAGTCTACAACTCCGTGGCACCC
1 TTTCAAAGTCCACAACTCCGTGGCACCC
** * * *
1916082 TTTTTAAGTACACAAATTCGTGGCACGCC
1 TTTCAAAGTCCACAACTCCGTGGCAC-CC
1916111 TTTCAAAGTCCACAACTCCGTGG
1 TTTCAAAGTCCACAACTCCGTGG
1916134 TACATTTTTC
Statistics
Matches: 64, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
27 23 0.36
28 21 0.33
29 20 0.31
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (28 bp):
TTTCAAAGTCCACAACTCCGTGGCACCC
Found at i:1916143 original size:29 final size:28
Alignment explanation
Indices: 1916016--1916189 Score: 95
Period size: 27 Copynumber: 6.0 Consensus size: 28
1916006 GACAACCCTA
* **
1916016 GTGGCATCTTTTTTCAAAGTCCACAACTTT
1 GTGGCA-CATTTTT-AAAGTCCACAACTCC
** *
1916046 GTGGCACCCTTTT-AAGTCTACAACTCC
1 GTGGCACATTTTTAAAGTCCACAACTCC
* * * *
1916073 GTGGCACCCTTTTT-AAGTACACAAATTC
1 GTGGCA-CATTTTTAAAGTCCACAACTCC
** *
1916101 GTGGCACGCCTTTCAAAGTCCACAACTCC
1 GTGGCAC-ATTTTTAAAGTCCACAACTCC
* *
1916130 GTGGTACATTTTTCTTCAAAGTCCATAACTCC
1 GTGGCACA--TTT-TT-AAAGTCCACAACTCC
*
1916162 GT-GC-CATCTTTTTAAGTCCACAACTCC
1 GTGGCACAT-TTTTAAAGTCCACAACTCC
1916189 G
1 G
1916190 CGCCACCTAT
Statistics
Matches: 113, Mismatches: 23, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
27 32 0.28
28 29 0.26
29 24 0.21
30 10 0.09
31 2 0.02
32 16 0.14
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.32
Consensus pattern (28 bp):
GTGGCACATTTTTAAAGTCCACAACTCC
Found at i:1916153 original size:32 final size:32
Alignment explanation
Indices: 1916112--1916777 Score: 289
Period size: 32 Copynumber: 21.8 Consensus size: 32
1916102 TGGCACGCCT
*
1916112 TTCAAAGTCCACAACTCCGTGGTACATTTTTC
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* *
1916144 TTCAAAGTCCATAACTCCGT-GC-CATCTTT-
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* * * *
1916173 TT--AAGTCCACAACTCCGCGCCACCTATTTC
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* ** *
1916203 TTCAAAGTCCATAACTTTGTGGCACCTTTTTC
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* * **
1916235 TTCAAAGTCCACTACTCCGTAGCAC--CCTT-
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* *** * * *
1916264 TT--AAGTCCACGACTTAATTGCATCCTTTTTT
1 TTCAAAGTCCACAACTCCGTGGCA-CATTTTTC
* * ** *
1916295 TTCCTTAAAGCCCACGACTCAATGGCATCCTTTTTTTTC
1 TT-C--AAAGTCCACAACTCCGTGGCA--C--ATTTTTC
* * **
1916334 TTCAAAGTCCACGACTTCGTGG--CATCCTT-
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
** * **
1916363 TT--AAGTCC-CTAACTTTGTGGTAC-CCTTT-
1 TTCAAAGTCCAC-AACTCCGTGGCACATTTTTC
*
1916391 TT--AAGTCCACAACTCCATGGCACATTTTTC
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
** * **
1916421 TTTTAAGTCCACAACTCCGTGGTAC-CCTTT-
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* * * * *
1916451 TT--AAGTCCACAACTTCATGGTACCTTTTTA
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
*
1916481 TTTAAAGTCCACAACTCCGTGGCAC-TTTTT-
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* **
1916511 TT-AAAGTCCACAACTCTGTGGCAC--CCTT-
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
*
1916539 TT--AAGTCTACAACTCCGTGGCACATTTTTC
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* * *
1916569 TTCAAAGTACACAACTTCGTGGCAC-CTTTT-
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* * *
1916599 TTCAAAGTCAACAACTCTGTGG--CATCTCTT-
1 TTCAAAGTCCACAACTCCGTGGCACAT-TTTTC
* * *
1916629 TT-AAAGTCTACAACTCCGAGGCACCTTTTTC
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* * * *
1916660 TTCAAAGTCCATAACTTCGTGACACCTTTTTC
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* * *
1916692 TTCAAAGTCCACAACTTCGTGGTAC-CTTTT-
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* * *
1916722 TT-AAAGTCCATAACTTCGTGGCACTTTTTTC
1 TTCAAAGTCCACAACTCCGTGGCACATTTTTC
* * *
1916753 TTCAAAGTCCATAATTCTGTGGCAC
1 TTCAAAGTCCACAACTCCGTGGCAC
1916778 CCTTTTTAAA
Statistics
Matches: 492, Mismatches: 99, Indels: 86
0.73 0.15 0.13
Matches are distributed among these distances:
26 1 0.00
27 62 0.13
28 46 0.09
29 78 0.16
30 57 0.12
31 25 0.05
32 182 0.37
36 32 0.07
37 1 0.00
38 1 0.00
39 7 0.01
ACGTcount: A:0.24, C:0.28, G:0.12, T:0.36
Consensus pattern (32 bp):
TTCAAAGTCCACAACTCCGTGGCACATTTTTC
Found at i:1916233 original size:91 final size:91
Alignment explanation
Indices: 1916016--1916784 Score: 583
Period size: 91 Copynumber: 8.5 Consensus size: 91
1916006 GACAACCCTA
* ** * *
1916016 GTGGCATC-TTTT-TTCAAAGTCCACAACTTTGTGGCACC--CTT-TT--AAGTCTACAACTCCG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCCG
* * *
1916074 TGGCACCCTTTTTAAGTACACAAATTC
66 TGGCA-CCTTTTTAAGTCCACAACTCC
* * * *
1916101 GTGGCACGC---CT-TTCAAAGTCCACAACTCCGTGGTACATTTTTCTTCAAAGTCCATAACTCC
1 GTGGCAC-CTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCC
* *
1916162 GTGCCATCTTTTTAAGTCCACAACTCC
65 GTGGCACCTTTTTAAGTCCACAACTCC
* * * * ** *
1916189 GCGCCACCTATTTCTTCAAAGTCCATAACTTTGTGGCACCTTTTTCTTCAAAGTCCACTACTCCG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCCG
* * * **
1916254 TAGCACCCTTTTAAGTCCACGACTTA
66 TGGCACCTTTTTAAGTCCACAACTCC
* * * * * **
1916280 ATTGCATCCTTTTTTTTCCTTAAAGCCCACGACTCAATGGCATCCTTTTTTTTCTTCAAAGTCCA
1 GTGGCA-CCTTTTTCTT-C--AAAGTCCACAACTCCGTGGCA-CC---TTTTTCTTCAAAGTCCA
* * **
1916345 CGACTTCGTGGCATCC-TTTTAAGTCC-CTAACTTT
58 CAACTCCGTGGCA-CCTTTTTAAGTCCAC-AACTCC
* * * * **
1916379 GTGGTACC-CTTT-TT--AAGTCCACAACTCCATGGCACATTTTTCTTTTAAGTCCACAACTCCG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCCG
* *
1916440 TGGTACCCTTTTTAAGTCCACAACTTC
66 TGGCA-CCTTTTTAAGTCCACAACTCC
* * * * *
1916467 ATGGTACCTTTTTATTTAAAGTCCACAACTCCGTGGCA-CTTTTT-TT-AAAGTCCACAACTCTG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCCG
* *
1916529 TGGCACCCTTTTAAGTCTACAACTCC
66 TGGCACCTTTTTAAGTCCACAACTCC
* * * * *
1916555 GTGGCACATTTTTCTTCAAAGTACACAACTTCGTGGCACC-TTTT-TTCAAAGTCAACAACTCTG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCCG
* *
1916618 TGGCATCTCTTTTAAAGTCTACAACTCC
66 TGGCA-C-CTTTTTAAGTCCACAACTCC
* * * * *
1916646 GAGGCACCTTTTTCTTCAAAGTCCATAACTTCGTGACACCTTTTTCTTCAAAGTCCACAACTTCG
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCCG
* * *
1916711 TGGTACCTTTTTTAAAGTCCATAACTTC
66 TGGCACC-TTTTT-AAGTCCACAACTCC
* * * *
1916739 GTGGCACTTTTTTCTTCAAAGTCCATAATTCTGTGGCACCCTTTTT
1 GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCA-CCTTTTT
1916785 AAAGTCCATA
Statistics
Matches: 547, Mismatches: 102, Indels: 61
0.77 0.14 0.09
Matches are distributed among these distances:
84 23 0.04
85 6 0.01
86 3 0.01
87 30 0.05
88 99 0.18
89 60 0.11
90 7 0.01
91 141 0.26
92 36 0.07
93 64 0.12
94 7 0.01
95 15 0.03
96 4 0.01
97 3 0.01
98 3 0.01
99 44 0.08
100 2 0.00
ACGTcount: A:0.23, C:0.28, G:0.13, T:0.36
Consensus pattern (91 bp):
GTGGCACCTTTTTCTTCAAAGTCCACAACTCCGTGGCACCTTTTTCTTCAAAGTCCACAACTCCG
TGGCACCTTTTTAAGTCCACAACTCC
Found at i:1916323 original size:36 final size:36
Alignment explanation
Indices: 1916270--1916364 Score: 122
Period size: 36 Copynumber: 2.6 Consensus size: 36
1916260 CCTTTTAAGT
* *
1916270 CCACGACTTAATTGCATCCTTTTTTTTCCTT-AAAGC
1 CCACGACTCAATGGCATCCTTTTTTTT-CTTCAAAGC
*
1916306 CCACGACTCAATGGCATCCTTTTTTTTCTTCAAAGT
1 CCACGACTCAATGGCATCCTTTTTTTTCTTCAAAGC
*
1916342 CCACGACTTC-GTGGCATCCTTTT
1 CCACGAC-TCAATGGCATCCTTTT
1916365 AAGTCCCTAA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
35 3 0.06
36 48 0.91
37 2 0.04
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (36 bp):
CCACGACTCAATGGCATCCTTTTTTTTCTTCAAAGC
Found at i:1916427 original size:60 final size:60
Alignment explanation
Indices: 1916360--1916526 Score: 219
Period size: 60 Copynumber: 2.8 Consensus size: 60
1916350 TCGTGGCATC
**
1916360 CTTTTAAGTCC-CTAACTTTGTGGTACCCTTTTTAAGTCCACAACTCCATGGCACATTTTT
1 CTTTTAAGTCCAC-AACTCCGTGGTACCCTTTTTAAGTCCACAACTCCATGGCACATTTTT
* * *
1916420 CTTTTAAGTCCACAACTCCGTGGTACCCTTTTTAAGTCCACAACTTCATGGTACCTTTTT
1 CTTTTAAGTCCACAACTCCGTGGTACCCTTTTTAAGTCCACAACTCCATGGCACATTTTT
* * * **
1916480 ATTTAAAGTCCACAACTCCGTGGCACTTTTTTTAAAGTCCACAACTC
1 CTTTTAAGTCCACAACTCCGTGGTACCCTTTTT-AAGTCCACAACTC
1916527 TGTGGCACCC
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
60 81 0.86
61 13 0.14
ACGTcount: A:0.24, C:0.28, G:0.11, T:0.37
Consensus pattern (60 bp):
CTTTTAAGTCCACAACTCCGTGGTACCCTTTTTAAGTCCACAACTCCATGGCACATTTTT
Found at i:1916751 original size:61 final size:61
Alignment explanation
Indices: 1916016--1916792 Score: 356
Period size: 61 Copynumber: 12.9 Consensus size: 61
1916006 GACAACCCTA
* * * * *
1916016 GTGGCA-TCTTTT-TTCAAAGTCCACAACTTTGTGGCACC-CTTTT-AAGTCTACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACCTTTTTTAAAGTCCACAACTTC
** * * * * *
1916073 GTGGCAC-CCTTT-TT--AAGTACACAAATTCGTGGCACGC-CTTTCAAAGTCCACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCAC-CTTTTTTAAAGTCCACAACTTC
* * * * * * *
1916130 GTGGTACATTTTTCTTCAAAGTCCATAACTCCGTGCCATC-TTTTT-AAGTCCACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACCTTTTTTAAAGTCCACAACTTC
* * * * * * * *
1916189 GCGCCACCTATTTCTTCAAAGTCCATAACTTTGTGGCACCTTTTTCTTCAAAGTCCACTACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACC-TTTT-TT-AAAGTCCACAACTTC
* ** * ** * * *
1916253 GTAGCAC--CCTT-TT--AAGTCCACGACTTAATTGCATCCTTTTTTTTCCTTAAAGCCCACGAC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCA-CC----TTTT--TTAAAGTCCACAAC
1916313 -TC
59 TTC
* *
1916315 AATGGCATCCTTTTTTTTCTTCAAAGTCCACGACTTCGTGGCATCC--TTTT-AAGTCC-CTAAC
1 -GTGGCA--C--TTTTTTCTTCAAAGTCCACAACTTCGTGGCA-CCTTTTTTAAAGTCCAC-AAC
*
1916376 TTT
59 TTC
* ** * * * * *
1916379 GTGGTAC-CCTTT-TT--AAGTCCACAACTCCATGGCACATTTTTCTTTTAAGTCCACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCAC--CTTT-TTTAAAGTCCACAACTTC
* ** * * *
1916439 GTGGTAC-CCTTT-TT--AAGTCCACAACTTCATGGTACCTTTTTATTTAAAGTCCACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACC--TTT-TTTAAAGTCCACAACTTC
* * *
1916499 GTGGCAC-TTTTT-TT-AAAGTCCACAAC-TCTGTGGCACC-CTTTT-AAGTCTACAACTCC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTC-GTGGCACCTTTTTTAAAGTCCACAACTTC
* * *
1916555 GTGGCACATTTTTCTTCAAAGTACACAACTTCGTGGCACCTTTTTTCAAAGTCAACAAC-TC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACCTTTTTT-AAAGTCCACAACTTC
* * * * * *
1916616 TGTGGCA-TCTCTT-TT-AAAGTCTACAACTCCGAGGCACCTTTTTCTTCAAAGTCCATAACTTC
1 -GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACC-TTTT-TT-AAAGTCCACAACTTC
* * * *
1916678 GTGACACCTTTTTCTTCAAAGTCCACAACTTCGTGGTACCTTTTTTAAAGTCCATAACTTC
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACCTTTTTTAAAGTCCACAACTTC
* *
1916739 GTGGCACTTTTTTCTTCAAAGTCCATAA-TTCTGTGGCACCCTTTTTAAAGTCCA
1 GTGGCACTTTTTTCTTCAAAGTCCACAACTTC-GTGGCACCTTTTTTAAAGTCCA
1916793 TACAAGTCGG
Statistics
Matches: 567, Mismatches: 98, Indels: 106
0.74 0.13 0.14
Matches are distributed among these distances:
54 1 0.00
55 35 0.06
56 25 0.04
57 41 0.07
58 10 0.02
59 103 0.18
60 97 0.17
61 121 0.21
62 29 0.05
63 36 0.06
64 42 0.07
65 1 0.00
66 2 0.00
69 2 0.00
70 2 0.00
72 20 0.04
ACGTcount: A:0.24, C:0.28, G:0.13, T:0.35
Consensus pattern (61 bp):
GTGGCACTTTTTTCTTCAAAGTCCACAACTTCGTGGCACCTTTTTTAAAGTCCACAACTTC
Found at i:1916902 original size:64 final size:65
Alignment explanation
Indices: 1916771--1917060 Score: 255
Period size: 64 Copynumber: 4.6 Consensus size: 65
1916761 CCATAATTCT
* ** * * * *
1916771 GTGGCACCCTTTTTAAAGTCCATACAAGTCG-GTGACAACC-CTTTCTAAAGCCCACACAAGTCA
1 GTGGCAACCTTTCAAAAGCCCACACAAGTCGAGTGGCAACCTTTTTCTAAAGCCCACACAAGTCA
* * * * *
1916834 GTGGCAACCTTTCAAAATCCCACACAAGTCGA-TGGCAACTTTTTTCTAAAGCCTATACAAGTCG
1 GTGGCAACCTTTCAAAAGCCCACACAAGTCGAGTGGCAACCTTTTTCTAAAGCCCACACAAGTCA
* * *
1916898 GTGGCAACCCTTCAAAAGCCCACACCAA-TC-ATTGGCAACCCTTGTTCTAAA----ACACAAGT
1 GTGGCAACCTTTCAAAAGCCCACA-CAAGTCGAGTGGCAA-CCTTTTTCTAAAGCCCACACAAGT
1916957 CA
64 CA
* *
1916959 GTGGCAAACCTTT-AACAAGCCCACACAAGT-TAGTGGCAACCCTTTTC-AAAGCCCACACAAGT
1 GTGGC-AACCTTTCAA-AAGCCCACACAAGTCGAGTGGCAACCTTTTTCTAAAGCCCACACAAGT
*
1917021 CG
64 CA
* * *
1917023 GTAGCAACCCTCTCAAAAGCCCACACTAGTCG-GTGGCA
1 GTGGCAA-CCTTTCAAAAGCCCACACAAGTCGAGTGGCA
1917061 TCTCTTTCTC
Statistics
Matches: 184, Mismatches: 27, Indels: 31
0.76 0.11 0.13
Matches are distributed among these distances:
60 3 0.02
61 24 0.13
62 23 0.12
63 34 0.18
64 85 0.46
65 15 0.08
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (65 bp):
GTGGCAACCTTTCAAAAGCCCACACAAGTCGAGTGGCAACCTTTTTCTAAAGCCCACACAAGTCA
Found at i:1917075 original size:32 final size:32
Alignment explanation
Indices: 1916771--1917075 Score: 196
Period size: 32 Copynumber: 9.7 Consensus size: 32
1916761 CCATAATTCT
* * * *
1916771 GTGGC-ACCCTTTTTAAAGTCCATACAAGTCG
1 GTGGCAACCCTTTCTCAAGCCCACACAAGTCG
* * *
1916802 GTGACAACCCTTTCTAAAGCCCACACAAGTCA
1 GTGGCAACCCTTTCTCAAGCCCACACAAGTCG
** *
1916834 GTGGCAA-CCTTTCAAAATCCCACACAAGTCG
1 GTGGCAACCCTTTCTCAAGCCCACACAAGTCG
* ** * * *
1916865 ATGGCAACTTTTTTCTAAAGCCTATACAAGTCG
1 GTGGCAAC-CCTTTCTCAAGCCCACACAAGTCG
** *
1916898 GTGGCAACCC-TTCAAAAGCCCACACCAA-TCA
1 GTGGCAACCCTTTCTCAAGCCCACA-CAAGTCG
* * *
1916929 TTGGCAACCCTTGT-TCTAA---AACACAAGTCA
1 GTGGCAACCCTT-TCTC-AAGCCCACACAAGTCG
* ** **
1916959 GTGGCAAACCTTTAACAAGCCCACACAAGTTA
1 GTGGCAACCCTTTCTCAAGCCCACACAAGTCG
1916991 GTGGCAACCCTTT-TCAAAGCCCACACAAGTCG
1 GTGGCAACCCTTTCTC-AAGCCCACACAAGTCG
* * ** *
1917023 GTAGCAACCCTCTCAAAAGCCCACACTAGTCG
1 GTGGCAACCCTTTCTCAAGCCCACACAAGTCG
* *
1917055 GTGGCATCTCTTTCTCAAGCC
1 GTGGCAACCCTTTCTCAAGCC
1917076 TAATGTCATT
Statistics
Matches: 213, Mismatches: 47, Indels: 27
0.74 0.16 0.09
Matches are distributed among these distances:
29 6 0.03
30 17 0.08
31 54 0.25
32 108 0.51
33 28 0.13
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.22
Consensus pattern (32 bp):
GTGGCAACCCTTTCTCAAGCCCACACAAGTCG
Found at i:1917220 original size:113 final size:114
Alignment explanation
Indices: 1917006--1917224 Score: 332
Period size: 113 Copynumber: 1.9 Consensus size: 114
1916996 AACCCTTTTC
* * *
1917006 AAAGCCCACACAAGTCGGTAGCAACCCTCTCAAAAGCCCACACTAGTCGGTGGCATCTCTTTCTC
1 AAAGCCCACACAAGTCGATAGAAACCCTCTCAAAAGCCCACACAAGTCGGTGGCATCTCTTTCTC
* * *
1917071 AAGCCTAATGTCATTGGCCTTGAATTAACAGATTGGCACTTGTTAAATT
66 AAGCCCAATGTCATTGGCCTTGAATCAACACATTGGCACTTGTTAAATT
* * *
1917120 AAAGCCCACACAAGTTGATGGAAACCCTCTCAAAAGCCCACACAAGTTGGT-GCATCTCTTTCTC
1 AAAGCCCACACAAGTCGATAGAAACCCTCTCAAAAGCCCACACAAGTCGGTGGCATCTCTTTCTC
* *
1917184 AAGCCCAGTGTCGTTGGCCTTGAATCAACACATTGGCACTT
66 AAGCCCAATGTCATTGGCCTTGAATCAACACATTGGCACTT
1917225 ATCAAATCTT
Statistics
Matches: 94, Mismatches: 11, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
113 49 0.52
114 45 0.48
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (114 bp):
AAAGCCCACACAAGTCGATAGAAACCCTCTCAAAAGCCCACACAAGTCGGTGGCATCTCTTTCTC
AAGCCCAATGTCATTGGCCTTGAATCAACACATTGGCACTTGTTAAATT
Found at i:1917244 original size:58 final size:58
Alignment explanation
Indices: 1917176--1917287 Score: 170
Period size: 58 Copynumber: 1.9 Consensus size: 58
1917166 TTGGTGCATC
* * * *
1917176 TCTTTCTCAAGCCCAGTGTCGTTGGCCTTGAATCAACACATTGGCACTTATCAAATCT
1 TCTTTCTCAAGCCCAATGTCGCTGGCCATGAATCAACACATTGACACTTATCAAATCT
* *
1917234 TCTTTCTCAAGCCTAATGTCGCTGGCCATGAATCAACACATTGACACTTGTCAA
1 TCTTTCTCAAGCCCAATGTCGCTGGCCATGAATCAACACATTGACACTTATCAA
1917288 CACATTGACA
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
58 48 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (58 bp):
TCTTTCTCAAGCCCAATGTCGCTGGCCATGAATCAACACATTGACACTTATCAAATCT
Found at i:1917289 original size:18 final size:18
Alignment explanation
Indices: 1917266--1917305 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
1917256 TGGCCATGAA
1917266 TCAACACATTGACACTTG
1 TCAACACATTGACACTTG
1917284 TCAACACATTGACACTTG
1 TCAACACATTGACACTTG
1917302 TCAA
1 TCAA
1917306 ATCTTCTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.35, C:0.28, G:0.10, T:0.28
Consensus pattern (18 bp):
TCAACACATTGACACTTG
Found at i:1917380 original size:52 final size:52
Alignment explanation
Indices: 1917317--1917726 Score: 385
Period size: 52 Copynumber: 7.9 Consensus size: 52
1917307 TCTTCTTTCC
* *
1917317 TATCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACGTTGGCACTCTTCT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
* * * *
1917369 TATCTCTAAGTCCAATGTCATTGGCCTTGAATCAGCACATTGGCACGCTGCT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
* * *
1917421 TATCTCTAAGT-CAATGTCACTGGCCTTGAATCAACACATTAGCACTCTTCT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
* ** * ** * * *
1917472 CATCTTTAAGTCTGATATCGTTGGCCTTTAATTAGCATATTGGCAC-CTTTCAT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTC-TTC-T
* * * * *
1917525 TTTCTTTCAGTCTAATGTCACTGGCCTTGAATCAGCACATTAGCACTTTTCT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
* ** * ** * * *
1917577 CATCTTTAAGTCTGATATCGTTGGCCTTGAGTCAGCATATTGGCAGT-TTCAT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTC-T
* * * * *
1917629 TTTCTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATTGACACCCTTAT
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
* * * ** *
1917681 CATCTTTAAGTCTAGTGTCACAAGCCTTGAATCTGCACATTGGCAC
1 TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCAC
1917727 ATTTGTCTAG
Statistics
Matches: 285, Mismatches: 67, Indels: 12
0.78 0.18 0.03
Matches are distributed among these distances:
51 48 0.17
52 196 0.69
53 41 0.14
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.36
Consensus pattern (52 bp):
TATCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTGGCACTCTTCT
Found at i:1917570 original size:105 final size:105
Alignment explanation
Indices: 1917319--1917693 Score: 481
Period size: 104 Copynumber: 3.6 Consensus size: 105
1917309 TTCTTTCCTA
* * * * * **
1917319 TCTTTAAGTCCAATGTCACTGGCCTTAAATCAGCACGTTGGCACTCTTCTTATCTCTAAGTCCAA
1 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTCTTCTCATCTTTAAGTCTGA
* * * * *
1917384 TGTCATTGGCCTTGAATCAGCACATTGGCACGC-TGC-TTA
66 TATCGTTGGCCTTGAATCAGCATATTGGCAC-CTTTCATTT
* *
1917423 TCTCTAAGT-CAATGTCACTGGCCTTGAATCAACACATTAGCACTCTTCTCATCTTTAAGTCTGA
1 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTCTTCTCATCTTTAAGTCTGA
* *
1917487 TATCGTTGGCCTTTAATTAGCATATTGGCACCTTTCATTT
66 TATCGTTGGCCTTGAATCAGCATATTGGCACCTTTCATTT
* * *
1917527 TCTTTCAGTCTAATGTCACTGGCCTTGAATCAGCACATTAGCACTTTTCTCATCTTTAAGTCTGA
1 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTCTTCTCATCTTTAAGTCTGA
* *
1917592 TATCGTTGGCCTTGAGTCAGCATATTGGCA-GTTTCATTT
66 TATCGTTGGCCTTGAATCAGCATATTGGCACCTTTCATTT
* * *
1917631 TCTTTAAGTCCAATGTCACTAGCCTTGAATCAGCACATT-GACACCCTTATCATCTTTAAGTCT
1 TCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAG-CACTCTTCTCATCTTTAAGTCT
1917694 AGTGTCACAA
Statistics
Matches: 236, Mismatches: 31, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
102 1 0.00
103 76 0.32
104 80 0.34
105 79 0.33
ACGTcount: A:0.23, C:0.25, G:0.15, T:0.37
Consensus pattern (105 bp):
TCTTTAAGTCCAATGTCACTGGCCTTGAATCAGCACATTAGCACTCTTCTCATCTTTAAGTCTGA
TATCGTTGGCCTTGAATCAGCATATTGGCACCTTTCATTT
Found at i:1922075 original size:32 final size:31
Alignment explanation
Indices: 1921990--1922091 Score: 159
Period size: 31 Copynumber: 3.3 Consensus size: 31
1921980 TCATTATATT
*
1921990 GATACATTCTGGGTTTTGACCCAAATATATC
1 GATACATTCTGGGTTTTGACCCAAATGTATC
* *
1922021 AATACATTCTAGGTTTTGACCCAAATGTATC
1 GATACATTCTGGGTTTTGACCCAAATGTATC
*
1922052 GATACATTCTGGGTTTTTGACCCAAATGTATT
1 GATACATTCTGGG-TTTTGACCCAAATGTATC
1922084 GATACATT
1 GATACATT
1922092 TTTCAATGTA
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
31 39 0.61
32 25 0.39
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.37
Consensus pattern (31 bp):
GATACATTCTGGGTTTTGACCCAAATGTATC
Found at i:1923780 original size:28 final size:27
Alignment explanation
Indices: 1923747--1923816 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
1923737 ATAAAATCGA
*
1923747 GGTTGGAGCATCCTTTAGAAAATAACAG
1 GGTTGGAGCATCCTTCA-AAAATAACAG
*
1923775 GGTTGGA-CTATCCACTCAAAAATAACAG
1 GGTTGGAGC-ATCC-TTCAAAAATAACAG
*
1923803 GGTTGGAGTATCCT
1 GGTTGGAGCATCCT
1923817 CGATGGTGAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
27 1 0.03
28 32 0.91
29 2 0.06
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (27 bp):
GGTTGGAGCATCCTTCAAAAATAACAG
Found at i:1923891 original size:28 final size:29
Alignment explanation
Indices: 1923837--1923894 Score: 73
Period size: 28 Copynumber: 2.0 Consensus size: 29
1923827 AATTAGTGTT
*
1923837 TTAGAAATAAAACCGGGTTAGATTATCCCC
1 TTAGAAAT-AAACCGGGTTAGAGTATCCCC
* *
1923867 TTAGAAAT-AACGGGGTTGGAGTATCCCC
1 TTAGAAATAAACCGGGTTAGAGTATCCCC
1923895 GATGGTGGAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 17 0.68
30 8 0.32
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (29 bp):
TTAGAAATAAACCGGGTTAGAGTATCCCC
Found at i:1923955 original size:80 final size:79
Alignment explanation
Indices: 1923794--1924242 Score: 351
Period size: 79 Copynumber: 5.7 Consensus size: 79
1923784 ATCCACTCAA
* * *
1923794 AAATAACAGGGTTGGAGTATCCTCGATGGT-GAAAATTAGTGTTTTAGAAATAAAA-CCGGGTTA
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTA
* *
1923857 GATTATCCCCTTAG
66 GAGTATCCCCCTAG
* * * * *
1923871 AAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAAATCGGTGCTTTAGAGATAAAATCGAGGTT
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGG-AAAATCAGTGTTTTAGAAATAAAATCGGGGTT
1923936 AGAGTATCCCCCTAG
65 AGAGTATCCCCCTAG
** * * *
1923951 AAATAACAGGACTAGAGTATCCTCAATGGTGGAAAATCAGTGTTTTAGAAATAAAA-CTGGGGTT
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATC-GGGGTT
* * *
1924015 GGAGTAT-CCCATTG
65 AGAGTATCCCCCTAG
* * * ** * * *
1924029 AAAATAACAGGATTGAAATATCCCTAATGGTGGAAAAATCGGTGCTTTGGAGAA-AAAA-CTGGG
1 -AAATAACAGGGTTGGAGTATCCCCGATGGTGG-AAAATCAGTGTTTTAGA-AATAAAATC-GGG
*
1924092 GTTAGAGTA-CCTCCTCA-
62 GTTAGAGTATCCCCCT-AG
* ** * * * * * * * *
1924109 AAAAAATGGGGTTAGATTATCCCCGATGGTAGAAAATTAATTTTTTAAAAAT-AAATCGGGGTTG
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTA
*
1924173 GAGTAT-CCCCTCAA
66 GAGTATCCCCCT-AG
** * * * *
1924187 AAATAATGGGGTTGGAGTAACCCCGATGATGAAAAATCGGTGTTTTAGAAATAAAA
1 AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAA
1924243 CATCAATGAA
Statistics
Matches: 291, Mismatches: 67, Indels: 26
0.76 0.17 0.07
Matches are distributed among these distances:
77 50 0.17
78 58 0.20
79 103 0.35
80 78 0.27
81 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (79 bp):
AAATAACAGGGTTGGAGTATCCCCGATGGTGGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTA
GAGTATCCCCCTAG
Found at i:1924059 original size:159 final size:157
Alignment explanation
Indices: 1923794--1924100 Score: 402
Period size: 159 Copynumber: 1.9 Consensus size: 157
1923784 ATCCACTCAA
** * * *
1923794 AAATAACAGGGTTGGAGTATCCTCGATGGTGAAAATTAGTGTTTTAGAAATAAAACCGGGTTAGA
1 AAATAACAGGACTAGAGTATCCTCAATGGTGAAAATCAGTGTTTTAGAAATAAAACCGGGTTAGA
* * * * * * * *
1923859 TTATCCCCTTAGAAATAACGGGGTTGGAGTATCCCCGATGGTGGAAAAATCGGTGCTTTAGAGAT
66 GTATCCCATTAGAAATAACAGGATTGAAATATCCCCAATGGTGGAAAAATCGGTGCTTTAGAGAA
1923924 AAAA-TCGAGGTTAGAGTATCCCCCTAG
131 AAAACT-GAGGTTAGAGTATCCCCCTAG
* *
1923951 AAATAACAGGACTAGAGTATCCTCAATGGTGGAAAATCAGTGTTTTAGAAATAAAACTGGGGTTG
1 AAATAACAGGACTAGAGTATCCTCAATGGT-GAAAATCAGTGTTTTAGAAATAAAAC-CGGGTTA
* *
1924016 GAGTATCCCATT-GAAAATAACAGGATTGAAATATCCCTAATGGTGGAAAAATCGGTGCTTTGGA
64 GAGTATCCCATTAG-AAATAACAGGATTGAAATATCCCCAATGGTGGAAAAATCGGTGCTTTAGA
*
1924080 GAAAAAACTGGGGTTAGAGTA
128 GAAAAAACTGAGGTTAGAGTA
1924101 CCTCCTCAAA
Statistics
Matches: 128, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
157 26 0.20
158 26 0.20
159 75 0.59
160 1 0.01
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (157 bp):
AAATAACAGGACTAGAGTATCCTCAATGGTGAAAATCAGTGTTTTAGAAATAAAACCGGGTTAGA
GTATCCCATTAGAAATAACAGGATTGAAATATCCCCAATGGTGGAAAAATCGGTGCTTTAGAGAA
AAAACTGAGGTTAGAGTATCCCCCTAG
Found at i:1924201 original size:28 final size:30
Alignment explanation
Indices: 1924155--1924210 Score: 89
Period size: 28 Copynumber: 1.9 Consensus size: 30
1924145 TTAATTTTTT
*
1924155 AAAAATAAATCGGGGTTGGAGTATCCCCTC
1 AAAAATAAATCGGGGTTGGAGTAACCCCTC
1924185 AAAAAT-AAT-GGGGTTGGAGTAACCCC
1 AAAAATAAATCGGGGTTGGAGTAACCCC
1924211 GATGATGAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 16 0.64
29 3 0.12
30 6 0.24
ACGTcount: A:0.36, C:0.18, G:0.25, T:0.21
Consensus pattern (30 bp):
AAAAATAAATCGGGGTTGGAGTAACCCCTC
Found at i:1926798 original size:11 final size:11
Alignment explanation
Indices: 1926782--1926915 Score: 67
Period size: 11 Copynumber: 12.8 Consensus size: 11
1926772 GTCCTTAAAA
1926782 AAAAAAAAACG
1 AAAAAAAAACG
1926793 AAAAAAAAACG
1 AAAAAAAAACG
*
1926804 --AAAAAAATG
1 AAAAAAAAACG
* *
1926813 ---AAAAACCA
1 AAAAAAAAACG
1926821 AAAAAAAAACG
1 AAAAAAAAACG
** *
1926832 ACGAAAAAATG
1 AAAAAAAAACG
1926843 AAAAACCAAAA--
1 AAAAA--AAAACG
1926854 AAAAAAAAA--
1 AAAAAAAAACG
* *
1926863 AAAACAAAAGG
1 AAAAAAAAACG
1926874 AAAAAAAAAC-
1 AAAAAAAAACG
1926884 AAACAAAAAAC-
1 AAA-AAAAAACG
1926895 AATAAAAAAAC-
1 AA-AAAAAAACG
1926906 AAACAAAAAA
1 AAA-AAAAAA
1926916 AAGGGGGTCC
Statistics
Matches: 99, Mismatches: 14, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
8 5 0.05
9 20 0.20
10 4 0.04
11 65 0.66
12 1 0.01
13 4 0.04
ACGTcount: A:0.81, C:0.10, G:0.06, T:0.02
Consensus pattern (11 bp):
AAAAAAAAACG
Found at i:1926828 original size:31 final size:30
Alignment explanation
Indices: 1926793--1926862 Score: 113
Period size: 30 Copynumber: 2.3 Consensus size: 30
1926783 AAAAAAAACG
1926793 AAAAAAAAACGAAAAAAATGAAAAACCAAAA
1 AAAAAAAAACG-AAAAAATGAAAAACCAAAA
**
1926824 AAAAAACGACGAAAAAATGAAAAACCAAAA
1 AAAAAAAAACGAAAAAATGAAAAACCAAAA
1926854 AAAAAAAAA
1 AAAAAAAAA
1926863 AAAACAAAAG
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
30 26 0.74
31 9 0.26
ACGTcount: A:0.80, C:0.10, G:0.07, T:0.03
Consensus pattern (30 bp):
AAAAAAAAACGAAAAAATGAAAAACCAAAA
Found at i:1926854 original size:1 final size:1
Alignment explanation
Indices: 1926850--1926917 Score: 55
Period size: 1 Copynumber: 68.0 Consensus size: 1
1926840 ATGAAAAACC
* ** * * * * * *
1926850 AAAAAAAAAAAAAAAAACAAAAGGAAAAAAAAACAAACAAAAAACAATAAAAAAACAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1926915 AAA
1 AAA
1926918 GGGGGTCCGG
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 51 1.00
ACGTcount: A:0.87, C:0.09, G:0.03, T:0.01
Consensus pattern (1 bp):
A
Found at i:1926856 original size:39 final size:36
Alignment explanation
Indices: 1926778--1926916 Score: 106
Period size: 39 Copynumber: 3.7 Consensus size: 36
1926768 CGGCGTCCTT
1926778 AAAAAAAAAAAAACGAAAAAAAAACGAAAAAAATGAA
1 AAAAAAAAAAAAACGAAAAAAAAACGAAAAAAA-GAA
** *
1926815 AAACCAAAAAAAAAACGACGAAAAAATGAAAAACCAA-AA
1 AAA--AAAAAAAAAACGAAAAAAAAACGAAAAA--AAGAA
*
1926854 AAAAAAAAAAAAAC-AAAAGGAAAAA--AAAACAAACAA
1 AAAAAAAAAAAAACGAAAA--AAAAACGAAAA-AAAGAA
*
1926890 AAAACAATAAAAAAACAAACAAAAAAA
1 AAAA-AA-AAAAAAACGAA-AAAAAAA
1926917 AGGGGGTCCG
Statistics
Matches: 85, Mismatches: 5, Indels: 23
0.75 0.04 0.20
Matches are distributed among these distances:
35 2 0.02
36 12 0.14
37 17 0.20
38 18 0.21
39 32 0.38
40 2 0.02
41 2 0.02
ACGTcount: A:0.82, C:0.10, G:0.06, T:0.02
Consensus pattern (36 bp):
AAAAAAAAAAAAACGAAAAAAAAACGAAAAAAAGAA
Found at i:1926877 original size:31 final size:30
Alignment explanation
Indices: 1926793--1926904 Score: 100
Period size: 30 Copynumber: 3.6 Consensus size: 30
1926783 AAAAAAAACG
**
1926793 AAAAAAAAACGAAAAAAATGAAAAACCAAA
1 AAAAAAAAAAAAAAAAAATGAAAAACCAAA
** **
1926823 AAAAAAACGACGAAAAAATGAAAAACCAAA
1 AAAAAAAAAAAAAAAAAATGAAAAACCAAA
* *
1926853 AAAAAAAAAAAAAACAAAAGGAAAAA-AAAA
1 AAAAAAAAAAAAAA-AAAATGAAAAACCAAA
1926883 CAAACAAAAAACAATAAAAAAA
1 -AAA-AAAAAA-AA-AAAAAAA
1926905 CAAACAAAAA
Statistics
Matches: 66, Mismatches: 11, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
30 38 0.58
31 13 0.20
32 6 0.09
33 6 0.09
34 3 0.05
ACGTcount: A:0.81, C:0.10, G:0.06, T:0.03
Consensus pattern (30 bp):
AAAAAAAAAAAAAAAAAATGAAAAACCAAA
Found at i:1928399 original size:29 final size:29
Alignment explanation
Indices: 1928360--1928466 Score: 137
Period size: 29 Copynumber: 3.7 Consensus size: 29
1928350 TCACCCTTCA
*
1928360 AAAGTCCACAAGTCAGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
*
1928389 AAAGCCCACAAGTCGGTGGCATTTTTTTC
1 AAAGCCCACAAGTCAGTGGCATTTTTTTC
***
1928418 GAAAGCCCACAAGTCAGTGGCA--ACCTTC
1 -AAAGCCCACAAGTCAGTGGCATTTTTTTC
*
1928446 AAAGCCCACAAATCAGTGGCA
1 AAAGCCCACAAGTCAGTGGCA
1928467 CCCTTTTCCG
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
27 20 0.29
28 3 0.04
29 27 0.39
30 20 0.29
ACGTcount: A:0.31, C:0.26, G:0.20, T:0.23
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCATTTTTTTC
Found at i:1928461 original size:27 final size:27
Alignment explanation
Indices: 1928419--1928562 Score: 135
Period size: 27 Copynumber: 5.0 Consensus size: 27
1928409 ATTTTTTTCG
*
1928419 AAAGCCCACAAGTCAGTGGCAACCTTC
1 AAAGCCCACAAATCAGTGGCAACCTTC
*
1928446 AAAGCCCACAAATCAGTGGCACCCTTTTCC
1 AAAGCCCACAAATCAGTGGCAACC--TT-C
* **
1928476 GAAGCCCACACAAGTTGGTGGCAAACCCTTCTC
1 AAAGCCCACA-AA-TCAGTGGC-AA-CC-T-TC
*
1928509 TAAAGCCCACAAGTCAGTGGCAACCTTC
1 -AAAGCCCACAAATCAGTGGCAACCTTC
*
1928537 AAAGCCCACAAATCAGTGGCACCCTT
1 AAAGCCCACAAATCAGTGGCAACCTT
1928563 TTCCGAAGCC
Statistics
Matches: 96, Mismatches: 12, Indels: 18
0.76 0.10 0.14
Matches are distributed among these distances:
27 46 0.48
28 2 0.02
29 3 0.03
30 12 0.12
31 4 0.04
32 12 0.12
33 5 0.05
34 12 0.12
ACGTcount: A:0.31, C:0.34, G:0.17, T:0.17
Consensus pattern (27 bp):
AAAGCCCACAAATCAGTGGCAACCTTC
Found at i:1928474 original size:57 final size:57
Alignment explanation
Indices: 1928386--1928562 Score: 164
Period size: 57 Copynumber: 3.0 Consensus size: 57
1928376 TGGCATTTTT
* ***
1928386 TTCAAAGCCCACAAGTCGGTGGCATTTTTTTCGAAAGCCCACAAGTCAGTGGCAACC
1 TTCAAAGCCCACAAGTCAGTGGCAACCTTTTCGAAAGCCCACAAGTCAGTGGCAACC
* * **
1928443 TTCAAAGCCCACAAATCAGTGGCACCCTTTTCCG-AAGCCCACACAAGTTGGTGGCAAACCC
1 TTCAAAGCCCACAAGTCAGTGGCAACCTTTT-CGAAAG-CC-CACAAGTCAGTGGC-AA-CC
* *
1928504 TTCTCTAAAGCCCACAAGTCAGTGGCAACC--TTC-AAAGCCCACAAATCAGTGGCACCC
1 -T-TC-AAAGCCCACAAGTCAGTGGCAACCTTTTCGAAAGCCCACAAGTCAGTGGCAACC
1928561 TT
1 TT
1928563 TTCCGAAGCC
Statistics
Matches: 98, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
55 1 0.01
56 1 0.01
57 31 0.32
58 5 0.05
59 23 0.23
60 4 0.04
61 6 0.06
62 3 0.03
63 2 0.02
64 22 0.22
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.20
Consensus pattern (57 bp):
TTCAAAGCCCACAAGTCAGTGGCAACCTTTTCGAAAGCCCACAAGTCAGTGGCAACC
Found at i:1928639 original size:31 final size:31
Alignment explanation
Indices: 1928477--1928978 Score: 559
Period size: 31 Copynumber: 15.8 Consensus size: 31
1928467 CCCTTTTCCG
*
1928477 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTA
1 AAGCCCACACAAGTTGGTGGC-AACCC-CCTC-A
** *
1928511 AAG-CC-CACAAGTCAGTGGCAA--CCTTCA
1 AAGCCCACACAAGTTGGTGGCAACCCCCTCA
** ** *
1928538 AAGCCCACA-AA-TCAGTGGC-ACCCTTTTCCG
1 AAGCCCACACAAGTTGGTGGCAACCC-CCT-CA
*
1928568 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTA
1 AAGCCCACACAAGTTGGTGGC-AACCC-CCTC-A
1928602 AAGCCCACACAAGTTGGTGGCAACCCCCTCA
1 AAGCCCACACAAGTTGGTGGCAACCCCCTCA
* * *
1928633 AAGCCCACACAAGTCGATGGCAACCCCCTTA
1 AAGCCCACACAAGTTGGTGGCAACCCCCTCA
*
1928664 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTA
1 AAGCCCACACAAGTTGGTGGC-AACCC-CCTC-A
*
1928698 AAGCCCATACAAGTTGGTGGCAACCCCCTCA
1 AAGCCCACACAAGTTGGTGGCAACCCCCTCA
* * *
1928729 AAGCCCACACAAGTCGATGGCAACCCCCTTA
1 AAGCCCACACAAGTTGGTGGCAACCCCCTCA
*
1928760 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTA
1 AAGCCCACACAAGTTGGTGGC-AACCC-CCTC-A
1928794 AAGCCCACACAAGTTGGTGGCAACCCCCTCA
1 AAGCCCACACAAGTTGGTGGCAACCCCCTCA
* *
1928825 AAGCCCACACAAGTCGATGGCAACCCCCTCA
1 AAGCCCACACAAGTTGGTGGCAACCCCCTCA
*
1928856 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTA
1 AAGCCCACACAAGTTGGTGGC-AACCC-CCTC-A
1928890 AAGCCCACACAAGTTGGTGGCAACCCCCTCA
1 AAGCCCACACAAGTTGGTGGCAACCCCCTCA
* * *
1928921 AAGCCCACACAAGTCGATGGCAACCCTCTCTA
1 AAGCCCACACAAGTTGGTGGCAACCCCCTC-A
*
1928953 AAGCCCACACAAGTCGGTGGCAACCC
1 AAGCCCACACAAGTTGGTGGCAACCC
1928979 TTCTAAGCCC
Statistics
Matches: 408, Mismatches: 39, Indels: 44
0.83 0.08 0.09
Matches are distributed among these distances:
26 1 0.00
27 12 0.03
28 7 0.02
29 5 0.01
30 10 0.02
31 176 0.43
32 71 0.17
33 30 0.07
34 96 0.24
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.16
Consensus pattern (31 bp):
AAGCCCACACAAGTTGGTGGCAACCCCCTCA
Found at i:1928701 original size:96 final size:96
Alignment explanation
Indices: 1928477--1928982 Score: 823
Period size: 96 Copynumber: 5.3 Consensus size: 96
1928467 CCCTTTTCCG
** *
1928477 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAG-CC-CACAAGTCAGTGGCAA--CCTTCA
1 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTCA
** *
1928538 AAGCCCACA-AA-TC-AGTGGC-ACCCTTTTCCG
66 AAGCCCACACAAGTCGA-TGGCAACCCCCTT--A
1928568 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTCA
1 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTCA
1928633 AAGCCCACACAAGTCGATGGCAACCCCCTTA
66 AAGCCCACACAAGTCGATGGCAACCCCCTTA
*
1928664 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCATACAAGTTGGTGGCAACCCCCTCA
1 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTCA
1928729 AAGCCCACACAAGTCGATGGCAACCCCCTTA
66 AAGCCCACACAAGTCGATGGCAACCCCCTTA
1928760 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTCA
1 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTCA
*
1928825 AAGCCCACACAAGTCGATGGCAACCCCCTCA
66 AAGCCCACACAAGTCGATGGCAACCCCCTTA
1928856 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTCA
1 AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTCA
*
1928921 AAGCCCACACAAGTCGATGGCAACCCTCTCTA
66 AAGCCCACACAAGTCGATGGCAACCCCCT-TA
*
1928953 AAGCCCACACAAGTCGGTGGC-AACCCTTCT
1 AAGCCCACACAAGTTGGTGGCAAACCCTTCT
1928983 AAGCCCAATG
Statistics
Matches: 394, Mismatches: 12, Indels: 13
0.94 0.03 0.03
Matches are distributed among these distances:
91 37 0.09
92 2 0.01
93 14 0.04
95 14 0.04
96 293 0.74
97 27 0.07
98 7 0.02
ACGTcount: A:0.30, C:0.36, G:0.18, T:0.16
Consensus pattern (96 bp):
AAGCCCACACAAGTTGGTGGCAAACCCTTCTCTAAAGCCCACACAAGTTGGTGGCAACCCCCTCA
AAGCCCACACAAGTCGATGGCAACCCCCTTA
Found at i:1929044 original size:49 final size:49
Alignment explanation
Indices: 1928982--1929259 Score: 388
Period size: 49 Copynumber: 5.7 Consensus size: 49
1928972 GCAACCCTTC
* *
1928982 TAAGCCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
1929031 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
*
1929080 TAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGG---C---ATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * *
1929123 TAAGTCCAATGTAGCTGACCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
* * *
1929172 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACC-TTT--ATCTT
*
1929224 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTG
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTG
1929260 ACATCATTTT
Statistics
Matches: 202, Mismatches: 18, Indels: 15
0.86 0.08 0.06
Matches are distributed among these distances:
43 39 0.19
46 2 0.01
49 122 0.60
50 2 0.01
52 37 0.18
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTATCTT
Found at i:1929136 original size:43 final size:43
Alignment explanation
Indices: 1929075--1929264 Score: 173
Period size: 43 Copynumber: 4.1 Consensus size: 43
1929065 TGGCACCTTT
*
1929075 ATCTTTAAGACCAATGTAGCTGGCCTTGAATCAGCACATTGGC
1 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
* *
1929118 ATCTTTAAGTCCAATGTAGCTGACCTTGACTCAGCACATTGGCACCTTC
1 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGG------C
* **
1929167 ATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCC
1 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGC--A----CA---TTGGC
* *
1929219 ATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGAC
1 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
1929262 ATC
1 ATC
1929265 ATTTTTCATC
Statistics
Matches: 120, Mismatches: 12, Indels: 30
0.74 0.07 0.19
Matches are distributed among these distances:
43 45 0.38
46 2 0.02
49 33 0.28
50 1 0.01
51 1 0.01
52 34 0.28
55 2 0.02
58 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.17, T:0.31
Consensus pattern (43 bp):
ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGC
Found at i:1929156 original size:92 final size:92
Alignment explanation
Indices: 1929026--1929202 Score: 318
Period size: 92 Copynumber: 1.9 Consensus size: 92
1929016 TGGCACCTTT
* * *
1929026 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGACCAATG
1 ATCTTTAAGTCCAATGTAGCTGACCTTGACTCAGCACATTGGCACCTTCATCTTTAAGACCAATA
1929091 TAGCTGGCCTTGAATCAGCACATTGGC
66 TAGCTGGCCTTGAATCAGCACATTGGC
*
1929118 ATCTTTAAGTCCAATGTAGCTGACCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCAATA
1 ATCTTTAAGTCCAATGTAGCTGACCTTGACTCAGCACATTGGCACCTTCATCTTTAAGACCAATA
1929183 TAGCTGGCCTTGAATCAGCA
66 TAGCTGGCCTTGAATCAGCA
1929203 TATCGGCACC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 81 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (92 bp):
ATCTTTAAGTCCAATGTAGCTGACCTTGACTCAGCACATTGGCACCTTCATCTTTAAGACCAATA
TAGCTGGCCTTGAATCAGCACATTGGC
Found at i:1929305 original size:56 final size:53
Alignment explanation
Indices: 1929117--1929307 Score: 185
Period size: 49 Copynumber: 3.6 Consensus size: 53
1929107 AGCACATTGG
* * * * *
1929117 CATCTTTAAGTCCAATGTAGCTGACCTTGACTCAGCACATTGGCACC---T-T
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCT
* *
1929166 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTC-
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCT
* * * *
1929218 CATCTTTAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATCATTTTTCAT
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACA-C-CTTTTC-T
* * * *
1929274 CATCTTTAAGCCCAATATCGTTGGCCATGAATCA
1 CATCTTTAAGTCCAATATAGCTGGCCTTGAATCA
1929308 ACATATTGGC
Statistics
Matches: 117, Mismatches: 17, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
49 42 0.36
52 41 0.35
53 1 0.01
54 5 0.04
56 28 0.24
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (53 bp):
CATCTTTAAGTCCAATATAGCTGGCCTTGAATCAGCACATCGACACCTTTTCT
Found at i:1930223 original size:33 final size:33
Alignment explanation
Indices: 1930186--1930252 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1930176 TTCAACGATT
1930186 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
1930219 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
1930252 T
1 T
1930253 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:1930224 original size:13 final size:13
Alignment explanation
Indices: 1930206--1930230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1930196 CATAAAATGT
1930206 TGTATCGATACAA
1 TGTATCGATACAA
1930219 TGTATCGATACA
1 TGTATCGATACA
1930231 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:1930311 original size:13 final size:13
Alignment explanation
Indices: 1930293--1930317 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1930283 ATTACTCAAA
1930293 TGTATCGATACAT
1 TGTATCGATACAT
1930306 TGTATCGATACA
1 TGTATCGATACA
1930318 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:1930419 original size:52 final size:52
Alignment explanation
Indices: 1930326--1930449 Score: 214
Period size: 52 Copynumber: 2.4 Consensus size: 52
1930316 CACTGATCTT
*
1930326 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1930377 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
1930429 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
1930450 CTTTTCATAT
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
51 19 0.28
52 50 0.72
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:1933944 original size:20 final size:18
Alignment explanation
Indices: 1933919--1933984 Score: 50
Period size: 20 Copynumber: 3.7 Consensus size: 18
1933909 TGCCTGAATA
1933919 TATCGATACATTGAGAAATG
1 TATCGATACATT-A-AAATG
1933939 TATCG--ACA-T-AAATG
1 TATCGATACATTAAAATG
**
1933953 TATCGATACATTTACTTATG
1 TATCGATACA-TTA-AAATG
1933973 TATCGATACATT
1 TATCGATACATT
1933985 TCCTTGGCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
14 10 0.26
16 3 0.08
17 1 0.03
18 4 0.11
19 2 0.05
20 18 0.47
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (18 bp):
TATCGATACATTAAAATG
Found at i:1945295 original size:20 final size:20
Alignment explanation
Indices: 1945246--1945298 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
1945236 TGGTGTATTG
1945246 ATGTATCAATACATAAAGCC
1 ATGTATCAATACATAAAGCC
*
1945266 ATAAGTATCAATACAATGAAG-C
1 AT--GTATCAATAC-ATAAAGCC
1945288 ATGTATCAATA
1 ATGTATCAATA
1945299 TCAAGAACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
20 11 0.38
22 13 0.45
23 5 0.17
ACGTcount: A:0.47, C:0.15, G:0.11, T:0.26
Consensus pattern (20 bp):
ATGTATCAATACATAAAGCC
Found at i:1948933 original size:15 final size:17
Alignment explanation
Indices: 1948915--1948952 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
1948905 TAAAAAAATT
1948915 ATTAAATTAT-T-AAAA
1 ATTAAATTATGTAAAAA
*
1948930 ATTAAATTTTGTAAAAA
1 ATTAAATTATGTAAAAA
1948947 ATTAAA
1 ATTAAA
1948953 AAATATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
16 1 0.05
17 10 0.50
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (17 bp):
ATTAAATTATGTAAAAA
Found at i:1949333 original size:16 final size:16
Alignment explanation
Indices: 1949293--1949338 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
1949283 TATCATTATT
*
1949293 ATATATTTTATTATATA
1 ATATATTTTA-TATTTA
1949310 ATA-A--TTATATTTA
1 ATATATTTTATATTTA
1949323 ATATATTTTATATTTA
1 ATATATTTTATATTTA
1949339 TAAAAATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
13 8 0.32
14 4 0.16
16 10 0.40
17 3 0.12
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATATTTTATATTTA
Found at i:1949349 original size:27 final size:30
Alignment explanation
Indices: 1949293--1949367 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 30
1949283 TATCATTATT
*
1949293 ATATATTTTAT-TATATAATAATTATATTTA
1 ATATATTTTATATTTATAATAA-TATATTTA
1949323 ATATATTTTATATTTATAA-AA-AT-TTTA
1 ATATATTTTATATTTATAATAATATATTTA
*
1949350 ATA-AATTTATAATTTATA
1 ATATATTTTAT-ATTTATA
1949368 TTATATAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.15
27 14 0.34
28 2 0.05
30 13 0.32
31 6 0.15
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (30 bp):
ATATATTTTATATTTATAATAATATATTTA
Found at i:1949413 original size:33 final size:32
Alignment explanation
Indices: 1949324--1949406 Score: 98
Period size: 32 Copynumber: 2.5 Consensus size: 32
1949314 TTATATTTAA
* *
1949324 TATATTTTATATTTATAAAAATTTTAATAAATT
1 TATAATTTATA-TTATATAAATTTTAATAAATT
1949357 TATAATTTATATTATATAAATTTTAA-AATATT
1 TATAATTTATATTATATAAATTTTAATAA-ATT
1949389 TA-AATATTGATATTATAT
1 TATAAT-TT-ATATTATAT
1949407 TTATTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 6
0.85 0.04 0.11
Matches are distributed among these distances:
31 5 0.11
32 21 0.47
33 19 0.42
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (32 bp):
TATAATTTATATTATATAAATTTTAATAAATT
Found at i:1950032 original size:22 final size:22
Alignment explanation
Indices: 1949990--1950032 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
1949980 TTTTTTCAAA
* *
1949990 TAATTAAATTTGAATTTTTAAT
1 TAATTAAAATTGAATTATTAAT
1950012 TAATTAAAATT-ATATTATTAA
1 TAATTAAAATTGA-ATTATTAA
1950033 ATCAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
TAATTAAAATTGAATTATTAAT
Found at i:1950107 original size:20 final size:20
Alignment explanation
Indices: 1950070--1950108 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
1950060 ATAATTGATA
* *
1950070 AATATTTAGTGTTAAAATTT
1 AATATTTAATATTAAAATTT
*
1950090 AATATTTAATATTTAAATT
1 AATATTTAATATTAAAATT
1950109 ATTTTTAATT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (20 bp):
AATATTTAATATTAAAATTT
Found at i:1952371 original size:20 final size:22
Alignment explanation
Indices: 1952326--1952377 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
1952316 CATTACCAAA
1952326 TGTATCGATACATGTTTACAAT
1 TGTATCGATACATGTTTACAAT
1952348 TGTATCGATACAT-TTCT-C-AT
1 TGTATCGATACATGTT-TACAAT
1952368 TGTATCGATA
1 TGTATCGATA
1952378 TATTCTGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
20 12 0.41
21 3 0.10
22 14 0.48
ACGTcount: A:0.29, C:0.15, G:0.13, T:0.42
Consensus pattern (22 bp):
TGTATCGATACATGTTTACAAT
Found at i:1958225 original size:79 final size:79
Alignment explanation
Indices: 1957912--1958239 Score: 374
Period size: 79 Copynumber: 4.2 Consensus size: 79
1957902 GATAATAACA
* * * * * *
1957912 GGGTTGGAGTATCCCC-CAGAAAATAACAGGGTTGGAGTATCCCCGGTTATGAAAAATTGATGAT
1 GGGTTGGAGTATCCCCTC-GGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTT
** *
1957976 TGGGAAATAAAATCG
65 TTAGAAATAAAACCG
* * * * *
1957991 GGATTAGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATA-TT
1 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAA-AGTT
* **
1958055 CTAGAAATAAAGTCG
65 TTAGAAATAAAACCG
** *
1958070 GGGTTGGAGTATCCCCTCGGAGGTAATGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTT
1 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTT
1958135 TAGAAATAAAACCG
66 TAGAAATAAAACCG
* * * * *
1958149 GGGTTGGAGTATCCTCGCGGAAACAACGGGGTTAGAGTATCCCCGATTATGAGAAATTAAAGTTT
1 GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTT
*
1958214 TAGAAATAAAACCA
66 TAGAAATAAAACCG
*
1958228 TGGTT-GAGTATC
1 GGGTTGGAGTATC
1958240 ATCGATTATG
Statistics
Matches: 210, Mismatches: 36, Indels: 7
0.83 0.14 0.03
Matches are distributed among these distances:
78 8 0.04
79 201 0.96
80 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.26
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTT
TAGAAATAAAACCG
Found at i:1958258 original size:50 final size:51
Alignment explanation
Indices: 1958177--1958290 Score: 160
Period size: 50 Copynumber: 2.3 Consensus size: 51
1958167 GGAAACAACG
*
1958177 GGGTTAGAGTATCCCCGATTATGAGAAATTAA-AGTTTTAGAAATAAAACCA
1 GGGTTAGAGTATCACCGATTATGAGAAATTAATA-TTTTAGAAATAAAACCA
* * *
1958228 TGGTT-GAGTATCATCGATTATGAGAAATTAATATTTTAGAAATAAAACCG
1 GGGTTAGAGTATCACCGATTATGAGAAATTAATATTTTAGAAATAAAACCA
*
1958278 GGGTTGGAGTATC
1 GGGTTAGAGTATC
1958291 CCCTCGGAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
50 44 0.79
51 12 0.21
ACGTcount: A:0.38, C:0.10, G:0.22, T:0.31
Consensus pattern (51 bp):
GGGTTAGAGTATCACCGATTATGAGAAATTAATATTTTAGAAATAAAACCA
Found at i:1958265 original size:129 final size:130
Alignment explanation
Indices: 1958099--1958368 Score: 411
Period size: 129 Copynumber: 2.1 Consensus size: 130
1958089 GAGGTAATGG
* *
1958099 GGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCT
1 GGTTGGAGTATCACCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
1958164 CGCGGAAACAACGGGGTTA-GAGTATCCCCGATTATGAGAAATTAAAGTTTTAGAAATAAAACCA
66 CGCGGAAACAACGGGG-TAGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCA
1958228 T
130 T
* *
1958229 GGTT-GAGTATCATCGATTATGAGAAATTAATA-TTTTAGAAATAAAACCGGGGTTGGAGTATCC
1 GGTTGGAGTATCACCGATTATGAAAAATTAA-AGTTTTAGAAATAAAACCGGGGTTGGAGTATCC
* * * *
1958292 CCTCGGAAATAACGGGGTAGGAGTATCCCCGATTATGAAAAATTTAAGTTTTAGAAATAAAACCG
65 CCGCGGAAACAACGGGGTAGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCA
*
1958357 G
130 T
1958358 GGTTGGAGTAT
1 GGTTGGAGTAT
1958369 GCCCGCGGAA
Statistics
Matches: 127, Mismatches: 10, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
128 2 0.02
129 114 0.90
130 11 0.09
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.27
Consensus pattern (130 bp):
GGTTGGAGTATCACCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
CGCGGAAACAACGGGGTAGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCAT
Found at i:1958383 original size:208 final size:208
Alignment explanation
Indices: 1958036--1958434 Score: 665
Period size: 208 Copynumber: 1.9 Consensus size: 208
1958026 AGTATCCCCA
** ** *
1958036 ATTATGAGAAATCAATATTCTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCGGAGGTAATGGGG
1 ATTATGAGAAATCAATATTCTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGG
*
1958101 TTGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCG
66 TAGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCG
* * *
1958166 CGGAAACAACGGGGTTAGAGTATCCCCGATTATGAGAAATTAAAGTTTTAGAAATAAAACCATGG
131 CGGAAACAACGGGGTTAGAATATCCACGATTATGAAAAATTAAAGTTTTAGAAATAAAACCATGG
1958231 TTGAGTATCATCG
196 TTGAGTATCATCG
* *
1958244 ATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGG
1 ATTATGAGAAATCAATATTCTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGG
*
1958309 TAGGAGTATCCCCGATTATGAAAAATTTAAGTTTTAGAAATAAAACCGGGGTTGGAGTATGCC-C
66 TAGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGTAT-CCTC
*
1958373 GCGGAAACAACGGGGTTGGAATATCCACGATTATGAAAAATTAAAGTTTTAGAAATAAAACC
130 GCGGAAACAACGGGGTTAGAATATCCACGATTATGAAAAATTAAAGTTTTAGAAATAAAACC
1958435 GGAGTTGGAG
Statistics
Matches: 177, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
208 175 0.99
209 2 0.01
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.26
Consensus pattern (208 bp):
ATTATGAGAAATCAATATTCTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGG
TAGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCG
CGGAAACAACGGGGTTAGAATATCCACGATTATGAAAAATTAAAGTTTTAGAAATAAAACCATGG
TTGAGTATCATCG
Found at i:1958462 original size:287 final size:288
Alignment explanation
Indices: 1957979--1958527 Score: 818
Period size: 287 Copynumber: 1.9 Consensus size: 288
1957969 TGATGATTGG
* * *
1957979 GAAATAAAATCGGGATTAGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCAATTATGAG
1 GAAATAAAACCGGGATTAGAGTATCCCCTCGGAAATAACGGGGTAGGAGTATCCCCAATTATGAA
** * *** * *
1958044 AAATCAATATTCTAGAAATAAAGTCGGGGTTGGAGTATCCCCTCGGAGGTAATGGGGTTGGAGTA
66 AAATCAATATTCTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAATA
* * * *
1958109 TCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCGCGGAAACA
131 TCCACGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGCAGAAACA
*
1958174 ACGGGGTTAGAGTATCCCCGATTATGAGAAATTAA-AGTTTTAGAAATAAAACCATGGTT-GAGT
196 ACGGGGTTAGAGTATCCCCGATTATGAGAAATTAATA-TTTTAGAAATAAAACCAGGGTTAGAGT
1958237 ATCATCGATTATGAGAAATTAATATTTTA
260 ATCATCGATTATGAGAAATTAATATTTTA
* * *
1958266 GAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTAGGAGTATCCCCGATTATGAA
1 GAAATAAAACCGGGATTAGAGTATCCCCTCGGAAATAACGGGGTAGGAGTATCCCCAATTATGAA
* *
1958331 AAATTTAAGT-TT-TAGAAATAAAACCGGGGTTGGAGTATGCCCGCGGAAACAACGGGGTTGGAA
66 AAA-TCAA-TATTCTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAA
*
1958394 TATCCACGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGTAGAAA
129 TATCCACGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGCAGAAA
* * *
1958459 CAACGGGGTTGGAGTATCCTCGATTATGAGAAATTAATATTTTAGAAATAAAACGAGGGTTAGAG
194 CAACGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCAGGGTTAGAG
1958524 TATC
259 TATC
1958528 CCCTCAGAAA
Statistics
Matches: 233, Mismatches: 25, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
287 219 0.94
288 13 0.06
289 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.25, T:0.26
Consensus pattern (288 bp):
GAAATAAAACCGGGATTAGAGTATCCCCTCGGAAATAACGGGGTAGGAGTATCCCCAATTATGAA
AAATCAATATTCTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAATA
TCCACGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGAGTTGGAGTATCCCCGCAGAAACA
ACGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCAGGGTTAGAGTA
TCATCGATTATGAGAAATTAATATTTTA
Found at i:1958561 original size:366 final size:368
Alignment explanation
Indices: 1957880--1958606 Score: 939
Period size: 366 Copynumber: 2.0 Consensus size: 368
1957870 ATATGTCCCG
* * *
1957880 ATGAGAAATTTAATATTTTGGAGATAATAACAGGGTTGGAGTATCCCCCAGAAAATAACAGGGTT
1 ATGAGAAATTTAATATTTTAGAAATAATAACAGGGTTGGAGTATCCCCCAGAAAATAACAGGGTA
* * * * *
1957945 GGAGTATCCCCGGTTATGAAAAATTGATGATTGGGAAATAAAATCGGGATTAGAGTATCCCCTCG
66 GGAGTATCCCCGATTATGAAAAATTGAAGATTGAGAAATAAAACCGGGATTAGAGTATCCCCGCG
* * * * ** *
1958010 GAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTCTAGAAATAAAGTCGGGGTT
131 GAAACAACGGGGTTGGAATATCCACAATTATGAAAAATCAATATTCTAGAAATAAAACCGGAGTT
* *** *
1958075 GGAGTATCCCCTCGGAGGTAATGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAA
196 GGAGTATCCCCTCAGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAA
* * * *
1958140 ATAAAACCGGGGTTGGAGTATCCTCGCGGAAACAACGGGGTTAGAGTATCCCCGATTATGAGAAA
261 ATAAAACCGGGGTTAGAGTATCCCCGCAGAAACAACGGGGTTAGAGTATCCCCGATTATGAAAAA
*
1958205 TTAAAGTTTTAGAAATAAAACCATGGTT-GAGTATCATCGATT
326 TTAAAGTTTTAGAAATAAAACCAGGGTTGGAGTATCATCGATT
* * *
1958247 ATGAGAAA-TTAATATTTTAGAAATAA-AACCGGGGTTGGAGTATCCCCTC-GGAAATAACGGGG
1 ATGAGAAATTTAATATTTTAGAAATAATAA-CAGGGTTGGAGTATCCCC-CAGAAAATAACAGGG
* * * * * *
1958309 TAGGAGTATCCCCGATTATGAAAAATTTAAGTTTTAGAAATAAAACCGGGGTTGGAGTATGCCCG
64 TAGGAGTATCCCCGATTATGAAAAATTGAAGATTGAGAAATAAAACCGGGATTAGAGTATCCCCG
* * *
1958374 CGGAAACAACGGGGTTGGAATATCCACGATTATGAAAAATTAA-AGTTTTAGAAATAAAACCGGA
129 CGGAAACAACGGGGTTGGAATATCCACAATTATGAAAAATCAATA-TTCTAGAAATAAAACCGGA
* *
1958438 GTTGGAGTATCCCCGT-AGAAACAACGGGGTTGGAGTATCCTCGATTATGAGAAATTAATA-TTT
193 GTTGGAGTATCCCC-TCAGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAA-AGTTT
* * *
1958501 TAGAAATAAAA-CGAGGGTTAGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTAT
256 TAGAAATAAAACCG-GGGTTAGAGTATCCCCGCAGAAACAACGGGGTTAGAGTATCCCCGATTAT
* * *
1958565 GAAAAATTGAAGTTTTAGAAATAACACCGGGGTTGGAGTATC
320 GAAAAATTAAAGTTTTAGAAATAAAACCAGGGTTGGAGTATC
1958607 CCCGCGGAAA
Statistics
Matches: 308, Mismatches: 45, Indels: 14
0.84 0.12 0.04
Matches are distributed among these distances:
365 5 0.02
366 285 0.93
367 18 0.06
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (368 bp):
ATGAGAAATTTAATATTTTAGAAATAATAACAGGGTTGGAGTATCCCCCAGAAAATAACAGGGTA
GGAGTATCCCCGATTATGAAAAATTGAAGATTGAGAAATAAAACCGGGATTAGAGTATCCCCGCG
GAAACAACGGGGTTGGAATATCCACAATTATGAAAAATCAATATTCTAGAAATAAAACCGGAGTT
GGAGTATCCCCTCAGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAA
ATAAAACCGGGGTTAGAGTATCCCCGCAGAAACAACGGGGTTAGAGTATCCCCGATTATGAAAAA
TTAAAGTTTTAGAAATAAAACCAGGGTTGGAGTATCATCGATT
Found at i:1958706 original size:28 final size:29
Alignment explanation
Indices: 1958671--1958743 Score: 114
Period size: 28 Copynumber: 2.6 Consensus size: 29
1958661 GAAATAAAAT
* *
1958671 CGGGGTTGGAGTATCCCT-TCAGAAATAA
1 CGGGGTTGGAGTATCCCTCGCAGAAACAA
1958699 CGGGGTTGGAGTAT-CCTCGCAGAAACAA
1 CGGGGTTGGAGTATCCCTCGCAGAAACAA
1958727 CGGGGTTGGAGTATCCC
1 CGGGGTTGGAGTATCCC
1958744 CAATTATGAG
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
27 3 0.07
28 36 0.88
29 2 0.05
ACGTcount: A:0.25, C:0.21, G:0.33, T:0.22
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCTCGCAGAAACAA
Found at i:1958708 original size:107 final size:107
Alignment explanation
Indices: 1958592--1958794 Score: 318
Period size: 107 Copynumber: 1.9 Consensus size: 107
1958582 GAAATAACAC
* * *
1958592 CGGGGTTGGAGTATCCCCGCGGAAACAATAGGGTTAGAGTATCCCCGATTATGAGAAATT-AATA
1 CGGGGTTGGAGTATCCCCGCAGAAACAACAGGGTTAGAGTATCCCCAATTATGAGAAATTGAA-A
*
1958656 TTTTAGAAATAAAATCGGGGTTGGAGTATCCCTTCAGAAATAA
65 TTTTAGAAATAAAATCGGGGTTAGAGTATCCCTTCAGAAATAA
* * * *
1958699 CGGGGTTGGAGTATCCTCGCAGAAACAACGGGGTTGGAGTATCCCCAATTATGAGAAATTGAAGT
1 CGGGGTTGGAGTATCCCCGCAGAAACAACAGGGTTAGAGTATCCCCAATTATGAGAAATTGAAAT
1958764 TTTAGAAATAAAATCGGGGTTAGAGTATCCC
66 TTTAGAAATAAAATCGGGGTTAGAGTATCCC
1958795 CGATTATGAG
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
107 85 0.98
108 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.27, T:0.26
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCGCAGAAACAACAGGGTTAGAGTATCCCCAATTATGAGAAATTGAAAT
TTTAGAAATAAAATCGGGGTTAGAGTATCCCTTCAGAAATAA
Found at i:1958795 original size:51 final size:51
Alignment explanation
Indices: 1958727--1958846 Score: 179
Period size: 51 Copynumber: 2.4 Consensus size: 51
1958717 GCAGAAACAA
* *
1958727 CGGGGTTGGAGTATCCCCAATTATGAGAAATTGAA-GTTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATT-AATATTTTAGAAATAAAAC
* *
1958778 CGGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAC
1 CGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAAC
*
1958829 CGGGGTTGGAGCATCCCC
1 CGGGGTTGGAGTATCCCC
1958847 TCAGAAATAA
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
50 2 0.03
51 60 0.97
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCAATTATGAGAAATTAATATTTTAGAAATAAAAC
Found at i:1959047 original size:79 final size:79
Alignment explanation
Indices: 1958229--1959048 Score: 860
Period size: 79 Copynumber: 10.4 Consensus size: 79
1958219 ATAAAACCAT
** * *
1958229 GGTT-GAGTATCATCGATTATGAGAAATT-AATATTTTAGAAATAAAACCGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGAA-GTTTTAGAAATAAAACCGGGGTTGGAGTATCC
* * *
1958292 CCTCGGAAATAACGG
65 CCGCAGAAACAACGG
* * *
1958307 GGTAGGAGTATCCCCGATTATGAAAAATTTAAGTTTTAGAAATAAAACCGGGGTTGGAGTATGCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
1958372 CGCGGAAACAACGG
66 CGCAGAAACAACGG
* * * *
1958386 GGTTGGAATATCCACGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGAGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
1958451 CGTAGAAACAACGG
66 CGCAGAAACAACGG
* * * *
1958465 GGTTGGAGTATCCTCGATTATGAGAAATT-AATATTTTAGAAATAAAA-CGAGGGTTAGAGTATC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGAA-GTTTTAGAAATAAAACCG-GGGTTGGAGTATC
* *
1958528 CCCTCAGAAATAACGG
64 CCCGCAGAAACAACGG
*
1958544 GGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAACACCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
* **
1958609 CGCGGAAACAATAG
66 CGCAGAAACAACGG
* * * *
1958623 GGTTAGAGTATCCCCGATTATGAGAAATT-AATATTTTAGAAATAAAATCGGGGTTGGAGTATCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGAA-GTTTTAGAAATAAAACCGGGGTTGGAGTATCC
** *
1958687 CTTCAGAAATAACGG
65 CCGCAGAAACAACGG
* * * **** * ** *** *
1958702 GGTTGGAGTATCCTCG--CA-GAAACAACGGGGTTGGAGTATCCCCAATTATGA--GAAATTGAA
1 GGTTGGAGTATCCCCGATTATGAAA-AA-----TTGAAGT-TTTAGAAATAAAACCGGGGTTGGA
*** *
1958762 GT-T-TTAG-A-AATAAAATCGG
59 GTATCCCCGCAGAA-ACAA-CGG
* * * *
1958781 GGTTAGAGTATCCCCGATTATGAGAAATT-AATATTTTAGAAATAAAACCGGGGTTGGAGCATCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGAA-GTTTTAGAAATAAAACCGGGGTTGGAGTATCC
* *
1958845 CCTCAGAAATAACGG
65 CCGCAGAAACAACGG
*
1958860 GGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCT
1 GGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
*
1958925 CGCGGAAACAACGG
66 CGCAGAAACAACGG
1958939 GGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
* *
1959004 CGCGGAGACAACGG
66 CGCAGAAACAACGG
1959018 GGTTGGAGTATCCCCGATTATGAAAAATTGA
1 GGTTGGAGTATCCCCGATTATGAAAAATTGA
1959049 GAAACTTAAC
Statistics
Matches: 613, Mismatches: 101, Indels: 55
0.80 0.13 0.07
Matches are distributed among these distances:
75 7 0.01
76 6 0.01
77 11 0.02
78 14 0.02
79 537 0.88
80 13 0.02
81 12 0.02
82 6 0.01
83 7 0.01
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (79 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCC
CGCAGAAACAACGG
Found at i:1960325 original size:41 final size:41
Alignment explanation
Indices: 1960268--1960349 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
1960258 TGTCTCCCAT
*
1960268 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTGTTGTA
1 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTATTGTA
1960309 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTATTGTA
1 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTATTGTA
1960350 AGTTCCCACC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.16, C:0.22, G:0.11, T:0.51
Consensus pattern (41 bp):
TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTATTGTA
Found at i:1961007 original size:40 final size:41
Alignment explanation
Indices: 1960961--1961064 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 41
1960951 CCCACTTTTT
*
1960961 TTGAGGACAAAGAAAAAGAG-AATGAAATAG-GTCCTGCTCC
1 TTGAGGACAAAGAAAAAGAGAAAAGAAA-AGTGTCCTGCTCC
* * *
1961001 TTGAGGACAAAGGAAAAGAAGAAAAGGAAAGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAG-AGAAAAGAAAAGTGTCCTGCTCC
*
1961043 TTGAGGATAAAGTGAAAAAGAG
1 TTGAGGACAAA--GAAAAAGAG
1961065 TACGTCTCAT
Statistics
Matches: 53, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
40 17 0.32
41 4 0.08
42 24 0.45
43 2 0.04
44 6 0.11
ACGTcount: A:0.44, C:0.11, G:0.28, T:0.17
Consensus pattern (41 bp):
TTGAGGACAAAGAAAAAGAGAAAAGAAAAGTGTCCTGCTCC
Found at i:1961295 original size:61 final size:60
Alignment explanation
Indices: 1961200--1961576 Score: 443
Period size: 61 Copynumber: 6.3 Consensus size: 60
1961190 AAAGGAGTGT
* *
1961200 GTCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGTCTTTGAAAAGAAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAAAAGGC
* * *
1961261 GTCCTGCTCTTTGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCGAAAAG-AAA-GC
1 GTCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTTGTGTGGGCTTT---AAAAGAAAAGGC
* * *
1961322 ATCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* * * *
1961383 GCCCTACTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-AAGAAAGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGAA-AAGGC
* * *
1961443 ATCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAA-GAAAAGGC
* *
1961504 GTCCTGCTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTT-----CAAAGGC
1 GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
1961558 GTCCTGCTCTTTGAGGACT
1 GTCCTGCTCTTTGAGGACT
1961577 AAAGGGTGAA
Statistics
Matches: 274, Mismatches: 30, Indels: 31
0.82 0.09 0.09
Matches are distributed among these distances:
54 24 0.09
58 4 0.01
59 2 0.01
60 80 0.29
61 151 0.55
62 7 0.03
63 6 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (60 bp):
GTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGAAAAGGC
Found at i:1961450 original size:182 final size:182
Alignment explanation
Indices: 1961202--1961556 Score: 506
Period size: 182 Copynumber: 2.0 Consensus size: 182
1961192 AGGAGTGTGT
* * *
1961202 CCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGTCTTTGAAAAGAAAAGGCGTCCTG
1 CCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTG
* *
1961267 CTCTTTGAGGACTG-GAAGATGCCACCAACTAGTGTGGGATTTGCGAAAA-GA-AA-GCATCCTG
66 CTCTTTAAGGACTGAAAAG-TGCCACCAACTAGTGTGGGATTT---AAAAGGAGAAGGCATCCTG
1961328 CTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGCGC
127 CTCTTTGAGGACTG-AAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGCGC
*
1961385 CCTACTCTTTGAGGACTG-AAGGTGCCACCAACTTGTGTGGGCTTTGAAAA-AAGAAAGCATCCT
1 CCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAA-AAAGCATCCT
* * *
1961448 GCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCTGCTC
65 GCTCTTTAAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTAAAAGGAGAAGGCATCCTGCTC
* * *
1961513 TTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTCAAAGG
130 TTTGAGGACTGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGG
1961557 CGTCCTGCTC
Statistics
Matches: 155, Mismatches: 12, Indels: 12
0.87 0.07 0.07
Matches are distributed among these distances:
179 4 0.03
180 2 0.01
181 34 0.22
182 94 0.61
183 21 0.14
ACGTcount: A:0.28, C:0.21, G:0.27, T:0.25
Consensus pattern (182 bp):
CCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTG
CTCTTTAAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTAAAAGGAGAAGGCATCCTGCTCT
TTGAGGACTGAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGCGC
Found at i:1961463 original size:121 final size:121
Alignment explanation
Indices: 1961201--1961550 Score: 567
Period size: 121 Copynumber: 2.9 Consensus size: 121
1961191 AAGGAGTGTG
* * *
1961201 TCCTACTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGTCTTTGAAAA-GAAAAGGCGTCC
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTT-AAAAGGAGAAGGCGTCC
* * * **
1961265 TGCTCTTTGAGGACTGGAAGATGCCACCAACTAGTGTGGGATTTGCGAAAAGAAAGCA
65 TGCTCTTTGAGGACT-GAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCA
* *
1961323 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTATGTGGGCTTTAAAAGGAGAAGGCGCCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
*
1961388 ACTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCA
66 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCA
*
1961444 TCCTGCTCTTTAAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
1961509 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT
66 GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTT
1961551 CAAAGGCGTC
Statistics
Matches: 212, Mismatches: 15, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
121 144 0.68
122 68 0.32
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (121 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGAAGGCGTCCT
GCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAAAGAAAGCA
Found at i:1961659 original size:94 final size:94
Alignment explanation
Indices: 1961492--1961676 Score: 286
Period size: 94 Copynumber: 2.0 Consensus size: 94
1961482 GTGGGCTTTA
*
1961492 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTCAAAGG
1 AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
*
1961557 CGTCCTGCTCTTTGAGGACT-AAAGGGTG
66 AGTCCTGCTCTTTGAGGACTGAAAGGGTG
*
1961585 AAAGGAG-AGAGCGTCTTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTTAAA
1 AAAGGAGAAG-GCGTCCTGCTCTTTGAGGACT--GAAGGTGCCACCAACTTGTGTGGGCTTTAAA
*
1961648 AGGAGTTCTGCTCTTTGAGGACTGAAAGG
63 AGGAGTCCTGCTCTTTGAGGACTGAAAGG
1961677 TGCCACCAAT
Statistics
Matches: 84, Mismatches: 4, Indels: 6
0.89 0.04 0.06
Matches are distributed among these distances:
92 2 0.02
93 27 0.32
94 47 0.56
95 8 0.10
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.25
Consensus pattern (94 bp):
AAAGGAGAAGGCGTCCTGCTCTTTGAGGACTGAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGG
AGTCCTGCTCTTTGAGGACTGAAAGGGTG
Found at i:1961797 original size:61 final size:56
Alignment explanation
Indices: 1961595--1962022 Score: 465
Period size: 55 Copynumber: 7.4 Consensus size: 56
1961585 AAAGGAGAGA
* *
1961595 GCGTCTTGCTCTTTGAGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
* * *
1961650 GAGTTCTGCTCTTTGAGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTG-AAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
*
1961705 GCGTCCTGCTCTTTGAAGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AA----AAG
* *
1961766 GCGTCCTGCTCTTTGGGGACTAGGAA-GTGCCACCAACTTGTGTGGGCTTT-AAAAG
1 GCGTCCTGCTCTTTGAGGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
* * * *
1961821 GAGTCCTGCTTTTTAAGGACTGAAAGGTGCCA-CAACTTGTGTAGGCTTTG-AAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
* * * *
1961875 GTGTCCTGCTCTTTGAAGACTGAAAGGAGCCACCAACTTGTGTGGACTTTGAAAGGCGAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTG-AA----AAG
* * * *
1961936 GCGTCCTACTCTTTGAAGACTGATAGGTGCCACCAACTTGTATGGGCTTTGAAAGGAAAAG
1 GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTT-----GAAAAG
1961997 GCGTCCTGCTCTTTGAGGACTAGAAA
1 GCGTCCTGCTCTTTGAGGACT-GAAA
1962023 AGTGGAAGAA
Statistics
Matches: 315, Mismatches: 34, Indels: 41
0.81 0.09 0.11
Matches are distributed among these distances:
54 53 0.17
55 134 0.43
57 2 0.01
59 2 0.01
61 115 0.37
62 6 0.02
65 2 0.01
66 1 0.00
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (56 bp):
GCGTCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAG
Found at i:1961936 original size:170 final size:171
Alignment explanation
Indices: 1961595--1961992 Score: 631
Period size: 170 Copynumber: 2.3 Consensus size: 171
1961585 AAAGGAGAGA
* *
1961595 GCGTCTTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTTCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* * *
1961660 CTTTGAGGACTGAAAGGTGCCACCAATTTGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAAGAC
66 CTTTAAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAAGAC
* *
1961725 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGCGAAG
131 TGAAAGGAGCCACCAACTTGTGTGGACTTTGAAAGGCGAAG
*
1961766 GCGTCCTGCTCTTTGGGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
1 GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
* *
1961831 TTTTAAGGACTGAAAGGTGCCA-CAACTTGTGTAGGCTTTGAAAGGTGTCCTGCTCTTTGAAGAC
66 CTTTAAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAAGAC
1961895 TGAAAGGAGCCACCAACTTGTGTGGACTTTGAAAGGCGAAG
131 TGAAAGGAGCCACCAACTTGTGTGGACTTTGAAAGGCGAAG
* * * *
1961936 GCGTCCTACTCTTTGAAGACT--GATAGGTGCCACCAACTTGTATGGGCTTTGAAAGGA
1 GCGTCCTGCTCTTTGAGGACTAGGA-A-GTGCCACCAACTTGTGTGGGCTTTAAAAGGA
1961993 AAAGGCGTCC
Statistics
Matches: 210, Mismatches: 15, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
168 2 0.01
169 1 0.00
170 125 0.60
171 82 0.39
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (171 bp):
GCGTCCTGCTCTTTGAGGACTAGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAGTCCTGCT
CTTTAAGGACTGAAAGGTGCCACCAACTTGTGTAGGCTTTGAAAGGCGTCCTGCTCTTTGAAGAC
TGAAAGGAGCCACCAACTTGTGTGGACTTTGAAAGGCGAAG
Found at i:1963015 original size:21 final size:21
Alignment explanation
Indices: 1962964--1963015 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
1962954 AAGCAGATTC
* * *
1962964 TTTTCTTTTCTGTCTTTTTCG
1 TTTTTTTTTTTGTATTTTTCG
* *
1962985 TTGTTTTTTTTGTATTTTTTG
1 TTTTTTTTTTTGTATTTTTCG
1963006 TTTTTTTTTT
1 TTTTTTTTTT
1963016 AGAAAAGAAG
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.02, C:0.08, G:0.10, T:0.81
Consensus pattern (21 bp):
TTTTTTTTTTTGTATTTTTCG
Found at i:1975662 original size:158 final size:157
Alignment explanation
Indices: 1975384--1975746 Score: 376
Period size: 158 Copynumber: 2.3 Consensus size: 157
1975374 ATATGTCCCG
* * *
1975384 ATGAGAAATTTAATATTTTGGAGATAATAACGGGGTTGGAGTATCCCCTGAAAATAACGGGGTTG
1 ATGAGAAA-TCAATATTCTGGAAATAATAACGGGGTTGGAGTATCCCCTGAAAATAACGGGGTTG
* * * * * *
1975449 GAGTATCCTCTGTTGTGAAAAATCGATGATTGGGAAATAAAATCAGGATTAGAGTATCCCCTCGA
65 GAGTATCATCTGTTATGAAAAATCGAAGATTGAGAAATAAAACCAGGATTAGAGTATCCCCGCGA
* *
1975514 AAATAACGGGTTTGGAGTATCCCCAACT
130 AAACAACGGGGTTGGAGTATCCCCAACT
* * ** *
1975542 ATGAGAAATCAATATTCTGGAAATAA-AGCTGGGGTTGGAGTATCCCCTCGGAGGTAATGGGGTT
1 ATGAGAAATCAATATTCTGGAAATAATAAC-GGGGTTGGAGTATCCCCT-GAAAATAACGGGGTT
* * * * * *
1975606 GGAGTATCATC-GATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGC
64 GGAGTATCATCTG-TTATGAAAAATCGAAGATTGAGAAATAAAACCAGGATTAGAGTATCCCCGC
* * *
1975670 GGAAACAACGGGGTTGGAGTATCCCCGATT
128 GAAAACAACGGGGTTGGAGTATCCCCAACT
* **
1975700 ATGAGAAATTGAAGT-TT-TATAAATAA-AACCGGGGTTGGAGTATCCCC
1 ATGAGAAA-TCAA-TATTCTGGAAATAATAA-CGGGGTTGGAGTATCCCC
1975747 GATTATGAGA
Statistics
Matches: 170, Mismatches: 29, Indels: 12
0.81 0.14 0.06
Matches are distributed among these distances:
156 2 0.01
157 34 0.20
158 127 0.75
159 6 0.04
160 1 0.01
ACGTcount: A:0.33, C:0.14, G:0.26, T:0.27
Consensus pattern (157 bp):
ATGAGAAATCAATATTCTGGAAATAATAACGGGGTTGGAGTATCCCCTGAAAATAACGGGGTTGG
AGTATCATCTGTTATGAAAAATCGAAGATTGAGAAATAAAACCAGGATTAGAGTATCCCCGCGAA
AACAACGGGGTTGGAGTATCCCCAACT
Found at i:1975747 original size:79 final size:79
Alignment explanation
Indices: 1975414--1975747 Score: 325
Period size: 79 Copynumber: 4.2 Consensus size: 79
1975404 GAGATAATAA
* * * * *
1975414 CGGGGTTGGAGTATCCCC-TGAAAATAACGGGGTTGGAGTATCCTCTG-TTGTGAAAAATCGATG
1 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCC-CCGATTATGAAAAATTGAAG
* ** *
1975477 ATTGGGAAATAAAAT
65 TTTTAGAAATAAAAC
* * * * * * * * *
1975492 CAGGATTAGAGTATCCCCTCGAAAATAACGGGTTTGGAGTATCCCCAACTATGAGAAA-TCAA-T
1 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGT
* *
1975555 ATTCTGGAAATAAAGC
66 -TT-TAGAAATAAAAC
* * * ** * **
1975571 TGGGGTTGGAGTATCCCCTCGGAGGTAATGGGGTTGGAGTATCATCGATTATGAAAAATTGAAGT
1 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGT
1975636 TTTAGAAATAAAAC
66 TTTAGAAATAAAAC
* * *
1975650 CGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGAAGT
1 CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGT
*
1975715 TTTATAAATAAAAC
66 TTTAGAAATAAAAC
1975729 CGGGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
1975748 ATTATGAGAA
Statistics
Matches: 206, Mismatches: 44, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
78 19 0.09
79 181 0.88
80 5 0.02
81 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.26
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGCGAAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGT
TTTAGAAATAAAAC
Found at i:1975754 original size:51 final size:51
Alignment explanation
Indices: 1975678--1975797 Score: 197
Period size: 51 Copynumber: 2.4 Consensus size: 51
1975668 GCGGAAACAA
* *
1975678 CGGGGTTGGAGTATCCCCGATTATGAGAAATTGAA-GTTTTATAAATAAAAC
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATT-AATATTTTAGAAATAAAAC
*
1975729 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAC
1975780 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1975798 TCGAAAACAA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
50 2 0.03
51 63 0.97
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAAC
Found at i:1975769 original size:130 final size:130
Alignment explanation
Indices: 1975600--1975873 Score: 426
Period size: 130 Copynumber: 2.1 Consensus size: 130
1975590 CGGAGGTAAT
* *
1975600 GGGGTTGGAGTATCATCGATTATGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTATC
1 GGGGTTGGAGTATCACCGATTATGAAAAATTGAAATTTTAGAAATAAAACCGGGGTTGGAGTATC
* * *
1975665 CCCGCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGAAGTTTTATAAATA-AAAC
66 CCCGCGAAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAA-AGAAAC
1975729 C
130 C
* * *
1975730 GGGGTTGGAGTATCCCCGATTATGAGAAATT-AATATTTTAGAAATAAAATCGGGGTTGGAGTAT
1 GGGGTTGGAGTATCACCGATTATGAAAAATTGAA-ATTTTAGAAATAAAACCGGGGTTGGAGTAT
*
1975794 CCCCTCGAAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAAAGAAAC
65 CCCCGCGAAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAAAGAAAC
*
1975859 T
130 C
1975860 GGGGTTGGAGTATC
1 GGGGTTGGAGTATC
1975874 TCCGCGGAAA
Statistics
Matches: 132, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
129 3 0.02
130 129 0.98
ACGTcount: A:0.34, C:0.13, G:0.27, T:0.27
Consensus pattern (130 bp):
GGGGTTGGAGTATCACCGATTATGAAAAATTGAAATTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCGCGAAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAAAGAAACC
Found at i:1975812 original size:79 final size:78
Alignment explanation
Indices: 1975729--1976217 Score: 646
Period size: 79 Copynumber: 6.2 Consensus size: 78
1975719 TAAATAAAAC
* *
1975729 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAA-ATTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
1975794 CCCCTCGAAAACAA
65 CCCCGCGGAAACAA
* *
1975808 CGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAA-AGAAACTGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATT-AAATTTTAGAAATA-AAACCGGGGTTGGAGTA
*
1975872 TCTCCGCGGAAACAA
64 TCCCCGCGGAAACAA
1975887 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGTTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAAA-TTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
1975952 CCTCGCGGAAATAA
65 CCCCGCGGAAACAA
* * * * *
1975966 CGGGGTTAGAGTATCCTCGATTATGAGAAATT---TTTTAGAAATAAAATCGGGGTTAGAGTATC
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAAATTTTAGAAATAAAACCGGGGTTGGAGTATC
* * ** *
1976028 TCCTCAAAAATAA
66 CCCGCGGAAACAA
*
1976041 CGGGGTTGGAGTATCCCCGATTAT-AAAATATTGAAGTTTTAGAAATAAAACCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCGATTATGAAAA-ATT-AAATTTTAGAAATAAAACCGGGGTTGGAGTA
*
1976105 TCCTCGCGGAAACAA
64 TCCCCGCGGAAACAA
* * *
1976120 CAGGGTTAGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAAAAATTAA-ATTTTAGAAATAAAACCGGGGTTGGAGTAT
* *
1976185 CCCCTCGGAAATAA
65 CCCCGCGGAAACAA
1976199 CGGGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
1976218 CGGAAACAAC
Statistics
Matches: 357, Mismatches: 42, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
74 3 0.01
75 61 0.17
78 5 0.01
79 282 0.79
80 6 0.02
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (78 bp):
CGGGGTTGGAGTATCCCCGATTATGAAAAATTAAATTTTAGAAATAAAACCGGGGTTGGAGTATC
CCCGCGGAAACAA
Found at i:1975815 original size:209 final size:209
Alignment explanation
Indices: 1975520--1975953 Score: 665
Period size: 209 Copynumber: 2.1 Consensus size: 209
1975510 TCGAAAATAA
* *
1975520 CGGGTTTGGAGTATCCCCAACTATGAGAAATCAATATTCTGGAAATAAAGCTGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCAACTATGAGAAATCAATATTCTAGAAATAAAGCTGGGGTTGGAGTAT
* *** * *
1975585 CCCCTCGGAGGTAATGGGGTTGGAGTATCATCGATTATGAAAAATTGAAGTTTTAGAAATA-AAA
66 CCCCTCGAAAACAACGGGGTTGGAGTATCACCGATTATGAAAAATTGAAGTTTTAGAAA-AGAAA
* *
1975649 CCGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAGAAATTGAAG
130 CCGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAG
*
1975714 TTTTATAAATAAAAC
195 TTTTAGAAATAAAAC
* * * * *
1975729 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAA-ATCGGGGTTGGAGTA
1 CGGGGTTGGAGTATCCCCAACTATGAGAAATCAATATTCTAGAAATAAAGCT-GGGGTTGGAGTA
*
1975793 TCCCCTCGAAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAAAGAAA
65 TCCCCTCGAAAACAACGGGGTTGGAGTATCACCGATTATGAAAAATTGAAGTTTTAGAAAAGAAA
* *
1975858 CTGGGGTTGGAGTATCTCCGCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAG
130 CCGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAG
1975923 TTTTAGAAATAAAAC
195 TTTTAGAAATAAAAC
1975938 CGGGGTTGGAGTATCC
1 CGGGGTTGGAGTATCC
1975954 TCGCGGAAAT
Statistics
Matches: 204, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
208 2 0.01
209 202 0.99
ACGTcount: A:0.33, C:0.14, G:0.27, T:0.26
Consensus pattern (209 bp):
CGGGGTTGGAGTATCCCCAACTATGAGAAATCAATATTCTAGAAATAAAGCTGGGGTTGGAGTAT
CCCCTCGAAAACAACGGGGTTGGAGTATCACCGATTATGAAAAATTGAAGTTTTAGAAAAGAAAC
CGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAAAGT
TTTAGAAATAAAAC
Found at i:1976062 original size:233 final size:236
Alignment explanation
Indices: 1975729--1976217 Score: 776
Period size: 233 Copynumber: 2.1 Consensus size: 236
1975719 TAAATAAAAC
*
1975729 CGGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAGAAATAAAATCGGGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATT-ATATTTTAGAAATAAAATCGGGGTTAGAGTAT
*
1975794 CCCCTCGAAAACAACGGGGTTGGAGTATCCCCGATTATGAAAA-ATTGAAGTTTTAGAAA-AGAA
65 CCCCTCAAAAACAACGGGGTTGGAGTATCCCCGATTAT-AAAATATTGAAGTTTTAGAAATA-AA
* * *
1975857 ACTGGGGTTGGAGTAT-CTCCGCGGAAACAACGGGGTTGGAGTATCCCCGATTATGAAAAATTAA
128 ACCGGGGTTGGAGTATCCT-CGCGGAAACAACAGGGTTAGAGTATCCCCGATTATGAAAAATTAA
*
1975921 -AGTTTTAGAAATAAAACCGGGGTTGGAGTATCCTCGCGGAAATAA
192 TA-TTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGGAAATAA
* *
1975966 CGGGGTTAGAGTATCCTCGATTATGAGAAA-T-T-TTTTAGAAATAAAATCGGGGTTAGAGTATC
1 CGGGGTTGGAGTATCCCCGATTATGAGAAATTATATTTTAGAAATAAAATCGGGGTTAGAGTATC
* *
1976028 TCCTCAAAAATAACGGGGTTGGAGTATCCCCGATTATAAAATATTGAAGTTTTAGAAATAAAACC
66 CCCTCAAAAACAACGGGGTTGGAGTATCCCCGATTATAAAATATTGAAGTTTTAGAAATAAAACC
*
1976093 GGGGTTGGAGTATCCTCGCGGAAACAACAGGGTTAGAGTATCCCCGATTATGAGAAATTAATATT
131 GGGGTTGGAGTATCCTCGCGGAAACAACAGGGTTAGAGTATCCCCGATTATGAAAAATTAATATT
*
1976158 TTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
196 TTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGGAAATAA
1976199 CGGGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
1976218 CGGAAACAAC
Statistics
Matches: 234, Mismatches: 14, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
232 4 0.02
233 196 0.84
234 5 0.02
236 1 0.00
237 28 0.12
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (236 bp):
CGGGGTTGGAGTATCCCCGATTATGAGAAATTATATTTTAGAAATAAAATCGGGGTTAGAGTATC
CCCTCAAAAACAACGGGGTTGGAGTATCCCCGATTATAAAATATTGAAGTTTTAGAAATAAAACC
GGGGTTGGAGTATCCTCGCGGAAACAACAGGGTTAGAGTATCCCCGATTATGAAAAATTAATATT
TTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGGAAATAA
Found at i:1976205 original size:28 final size:28
Alignment explanation
Indices: 1976171--1976244 Score: 130
Period size: 28 Copynumber: 2.6 Consensus size: 28
1976161 GAAATAAAAC
* *
1976171 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGCGGAAACAA
1976199 CGGGGTTGGAGTATCCCCGCGGAAACAA
1 CGGGGTTGGAGTATCCCCGCGGAAACAA
1976227 CGGGGTTGGAGTATCCCC
1 CGGGGTTGGAGTATCCCC
1976245 AATTATGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 44 1.00
ACGTcount: A:0.22, C:0.24, G:0.35, T:0.19
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGCGGAAACAA
Found at i:1976221 original size:107 final size:107
Alignment explanation
Indices: 1976092--1976324 Score: 403
Period size: 107 Copynumber: 2.2 Consensus size: 107
1976082 GAAATAAAAC
* *
1976092 CGGGGTTGGAGTATCCTCGCGGAAACAACAGGGTTAGAGTATCCCCGATTATGAGAAATTAATAT
1 CGGGGTTGGAGTATCCCCGCGGAAACAACAGGGTTAGAGTATCCCCAATTATGAGAAATTAATAT
*
1976157 TTTAGAAATAAAACCGGGGTTGGAGTATCCCCTCGGAAATAA
66 TTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAA
* * *
1976199 CGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCAATTATGAGAATTTAATAT
1 CGGGGTTGGAGTATCCCCGCGGAAACAACAGGGTTAGAGTATCCCCAATTATGAGAAATTAATAT
*
1976264 TTTAGAAATAAAACTGAGGTTGGAGTATCCCCTCGGAAATAA
66 TTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAA
1976306 CGGGGTTGGAGTATCCCCG
1 CGGGGTTGGAGTATCCCCG
1976325 ATTATGAAAA
Statistics
Matches: 119, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
107 119 1.00
ACGTcount: A:0.30, C:0.18, G:0.27, T:0.24
Consensus pattern (107 bp):
CGGGGTTGGAGTATCCCCGCGGAAACAACAGGGTTAGAGTATCCCCAATTATGAGAAATTAATAT
TTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCGGAAATAA
Found at i:1976233 original size:186 final size:186
Alignment explanation
Indices: 1976039--1976399 Score: 530
Period size: 186 Copynumber: 1.9 Consensus size: 186
1976029 CCTCAAAAAT
* * *
1976039 AACGGGGTTGGAGTATCCCCGATTAT-AAAATATTGAA-GTTTTAGAAATAAAACCGGGGTTGGA
1 AACGGGGTTGGAGTATCCCCAATTATGAAAAT-TT-AATATTTTAGAAATAAAACCGAGGTTGGA
* *
1976102 GTATCCTCGCGGAAACAACAGGGTTAGAGTATCCCCGATTATGAGAAATT-AATATTTTAGAAAT
64 GTATCCCCGCGGAAACAACAGGGTTAGAGTATCCCCGATTATGAAAAATTGAA-ATTTTAGAAAT
* *
1976166 AAAACCGGGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGCGGAAAC
128 AAAACCGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCGCGGAAAC
* *
1976225 AACGGGGTTGGAGTATCCCCAATTATGAGAATTTAATATTTTAGAAATAAAACTGAGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCAATTATGAAAATTTAATATTTTAGAAATAAAACCGAGGTTGGAGT
* * * * *
1976290 ATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAA
66 ATCCCCGCGGAAACAACAGGGTTAGAGTATCCCCGATTATGAAAAATTGAAATTTTAGAAATAAA
* *
1976355 ACTGGGGTTGGAGTATCCCCGCTGAAACAACGGGGTTGGAGTATC
131 ACCGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATC
1976400 TCTAATTATG
Statistics
Matches: 156, Mismatches: 16, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
185 2 0.01
186 148 0.95
187 6 0.04
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (186 bp):
AACGGGGTTGGAGTATCCCCAATTATGAAAATTTAATATTTTAGAAATAAAACCGAGGTTGGAGT
ATCCCCGCGGAAACAACAGGGTTAGAGTATCCCCGATTATGAAAAATTGAAATTTTAGAAATAAA
ACCGGGGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCGCGGAAAC
Found at i:1976290 original size:79 final size:78
Alignment explanation
Indices: 1976202--1976418 Score: 317
Period size: 79 Copynumber: 2.7 Consensus size: 78
1976192 GAAATAACGG
* *
1976202 GGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCAATTATGAGAATTTAATATTTT
1 GGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCAATTATGAAAATTGAA-ATTTT
1976267 AGAAATAAAACTGA
65 AGAAATAAAACTGA
* * * *
1976281 GGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAAGTTTT
1 GGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCAATTATG-AAAATTGAAATTTT
*
1976346 AGAAATAAAACTGG
65 AGAAATAAAACTGA
* * *
1976360 GGTTGGAGTATCCCCGCTGAAACAACGGGGTTGGAGTATCTCTAATTATGAAAAATTGA
1 GGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCAATTATG-AAAATTGA
1976419 GAAACTTAAC
Statistics
Matches: 124, Mismatches: 13, Indels: 2
0.89 0.09 0.01
Matches are distributed among these distances:
79 117 0.94
80 7 0.06
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.27
Consensus pattern (78 bp):
GGTTGGAGTATCCCCGCGGAAACAACGGGGTTGGAGTATCCCCAATTATGAAAATTGAAATTTTA
GAAATAAAACTGA
Found at i:1977701 original size:41 final size:41
Alignment explanation
Indices: 1977644--1977725 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
1977634 TGTCTCCCAT
1977644 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTGTTGTA
1 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTGTTGTA
1977685 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTGTTGTA
1 TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTGTTGTA
1977726 AGTTCCCACC
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.15, C:0.22, G:0.12, T:0.51
Consensus pattern (41 bp):
TGCATTTTTTTATTTCCTTTCCCATGCTGCCAATTGTTGTA
Found at i:1979704 original size:58 final size:57
Alignment explanation
Indices: 1979642--1980091 Score: 336
Period size: 58 Copynumber: 7.8 Consensus size: 57
1979632 AAAATATACG
* * * *
1979642 AAATTACATGAAAGTCCCTAAATTATCGAAAATGACCTAAATGATATCAAAGTTCATA
1 AAATTACATCAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATCAAA-TTCATA
* ** * * *
1979700 AAATTGCATCCGAGTCCCTAAGTAAGGGAAAATGACCTAAATGACATCAAAATTCATA
1 AAATTACATCAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATC-AAATTCATA
* * * * *
1979758 AAATTGCATCAAAAT-CCTAAGTCATGGAAAATTACCTAAATGACATCAACATTC-TT
1 AAATTACATCAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATCAA-ATTCATA
* * ** * * *
1979814 AAATTGCAGCAAAGTCTGTAGATCATGGGAAATAACCTAAATGACATCAAAATTCATA
1 AAATTACATCAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATC-AAATTCATA
* * * * **
1979872 AAATTACATCAAAGTTCCTAAGTCAGGGAAATTGATGTAAATGACATCAACATTCATA
1 AAATTACATCAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATCAA-ATTCATA
* * * * * *
1979930 AAATTACATCAAAATCCTTAGATCATGGAAAATGAACTAAATTACATTAAGATTCATA
1 AAATTACATCAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATCAA-ATTCATA
* * * * * * * *
1979988 AAATGACATAAAAATCCTTAAGTCATGGAAATTGA-GTAAAATGACA-AAAGGATTCATA
1 AAATTACATCAAAGTCCCTAAATCATGGAAAATGACCT-AAATGACATCAA--ATTCATA
* * * * *
1980046 AAATGACAT-AGAAGTCCTTAAGTCATAGAAAGTGA-CTAAAATGACA
1 AAATTACATCA-AAGTCCCTAAATCATGGAAAATGACCT-AAATGACA
1980092 AAAAGTATGC
Statistics
Matches: 321, Mismatches: 62, Indels: 18
0.80 0.15 0.04
Matches are distributed among these distances:
56 16 0.05
57 69 0.21
58 233 0.73
59 3 0.01
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (57 bp):
AAATTACATCAAAGTCCCTAAATCATGGAAAATGACCTAAATGACATCAAATTCATA
Found at i:1979801 original size:57 final size:57
Alignment explanation
Indices: 1979669--1980018 Score: 355
Period size: 58 Copynumber: 6.1 Consensus size: 57
1979659 CTAAATTATC
* * ** * * *
1979669 GAAAATGACCTAAATGATATCAAAGTTCATAAAATTGCATCCGAGTCCCTAAGTAAGG
1 GAAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCAAAAT-CCTAAGTCATG
1979727 GAAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCAAAATCCTAAGTCATG
1 GAAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCAAAATCCTAAGTCATG
* * * * * *
1979784 GAAAATTACCTAAATGACATCAACATTC-TTAAATTGCAGCAAAGT-CTGTAGATCATG
1 GAAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCAAAATCCT-AAG-TCATG
* * * * *
1979841 GGAAATAACCTAAATGACATCAAAATTCATAAAATTACATCAAAGTTCCTAAGTCAGG
1 GAAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCAAA-ATCCTAAGTCATG
* ** * * *
1979899 GAAATTGATGTAAATGACATCAACATTCATAAAATTACATCAAAATCCTTAGATCATG
1 GAAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCAAAATCCTAAG-TCATG
* * * * *
1979957 GAAAATGAACTAAATTACATTAAGATTCATAAAA-TGACATAAAAATCCTTAAGTCATG
1 GAAAATGACCTAAATGACATCAAAATTCATAAAATTG-CATCAAAATCC-TAAGTCATG
1980015 GAAA
1 GAAA
1980019 TTGAGTAAAA
Statistics
Matches: 244, Mismatches: 40, Indels: 16
0.81 0.13 0.05
Matches are distributed among these distances:
55 2 0.01
56 16 0.07
57 72 0.30
58 146 0.60
59 6 0.02
60 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (57 bp):
GAAAATGACCTAAATGACATCAAAATTCATAAAATTGCATCAAAATCCTAAGTCATG
Found at i:1980008 original size:29 final size:28
Alignment explanation
Indices: 1979923--1980009 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 28
1979913 TGACATCAAC
*
1979923 ATTCATAAAATTACATCAAAATCCTT-AG
1 ATTCATAAAATGACAT-AAAATCCTTAAG
* *
1979951 A-TCATGGAAAATGA-ACTAAATTACATTAAG
1 ATTCAT--AAAATGACA-TAAAAT-CCTTAAG
1979981 ATTCATAAAATGACATAAAAATCCTTAAG
1 ATTCATAAAATGACAT-AAAATCCTTAAG
1980010 TCATGGAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 15
0.70 0.08 0.23
Matches are distributed among these distances:
27 4 0.09
28 6 0.13
29 24 0.52
30 8 0.17
31 4 0.09
ACGTcount: A:0.49, C:0.14, G:0.08, T:0.29
Consensus pattern (28 bp):
ATTCATAAAATGACATAAAATCCTTAAG
Found at i:1980141 original size:59 final size:58
Alignment explanation
Indices: 1979926--1980155 Score: 200
Period size: 58 Copynumber: 3.9 Consensus size: 58
1979916 CATCAACATT
* * ** *
1979926 CATAAAATTACATCAAAATCCTT-AGATCATGGAAAATGAACT-AAATTACATTAA-GATT
1 CATAAAATGACAT-AAAATCCTTAAG-TCATGGAAAATG-ACTAAAATGACAAAAAGGATG
* * *
1979984 CATAAAATGACATAAAAATCCTTAAGTCATGGAAATTGAGTAAAATGAC-AAAAGGATT
1 CATAAAATGACAT-AAAATCCTTAAGTCATGGAAAATGACTAAAATGACAAAAAGGATG
* * * *
1980042 CATAAAATGACATAGAAGTCCTTAAGTCATAGAAAGTGACTAAAATGACAAAAAGTATG
1 CATAAAATGACATA-AAATCCTTAAGTCATGGAAAATGACTAAAATGACAAAAAGGATG
* * * * *
1980101 CTTGAAAT-ACCATGAAAATCCCTATGTCATGGAAAATGACTAAGATGACATAAAA
1 CATAAAATGA-CAT-AAAATCCTTAAGTCATGGAAAATGACTAAAATGACA-AAAA
1980156 ATGCTTCAAA
Statistics
Matches: 143, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
57 5 0.03
58 86 0.60
59 47 0.33
60 5 0.03
ACGTcount: A:0.48, C:0.13, G:0.14, T:0.25
Consensus pattern (58 bp):
CATAAAATGACATAAAATCCTTAAGTCATGGAAAATGACTAAAATGACAAAAAGGATG
Found at i:1980899 original size:12 final size:13
Alignment explanation
Indices: 1980870--1980905 Score: 56
Period size: 12 Copynumber: 2.8 Consensus size: 13
1980860 ATCACTTTCC
*
1980870 TTTCTCTCTTTGT
1 TTTCTCTCTTTAT
1980883 TTTCTCT-TTTAT
1 TTTCTCTCTTTAT
1980895 TTTCTCTCTTT
1 TTTCTCTCTTT
1980906 TTGCTCTCTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.52
13 10 0.48
ACGTcount: A:0.03, C:0.22, G:0.03, T:0.72
Consensus pattern (13 bp):
TTTCTCTCTTTAT
Found at i:1981476 original size:15 final size:15
Alignment explanation
Indices: 1981448--1981484 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
1981438 GCGGTGAAAA
*
1981448 GAAAGAAAACTTGGGT
1 GAAA-AAAAATTGGGT
1981464 GAAAAAAAATTGGGT
1 GAAAAAAAATTGGGT
1981479 GAAAAA
1 GAAAAA
1981485 GCTTATTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.54, C:0.03, G:0.27, T:0.16
Consensus pattern (15 bp):
GAAAAAAAATTGGGT
Found at i:1983405 original size:69 final size:69
Alignment explanation
Indices: 1983332--1983476 Score: 182
Period size: 69 Copynumber: 2.1 Consensus size: 69
1983322 GGAAGCTGGA
* ** * * *
1983332 GTTGCTATCGGTTGCTTGTGGAGGCTACTACTGTGCTCGTGGAGTTGTTGCCAGTTGCTCGTGGA
1 GTTGCTATCAGTTGCTCATGGAAGCTACTACTGTGCTCATGGAGTTGCTGCCAGTTGCTCGTGGA
*
1983397 AGGT
66 AGCT
* * * *
1983401 GTTGCTGTTAGTTGCTCATGGAAGCTACTGCTGTGCTCATGGAGTTGCTGCCGGTTGCTCGTGGA
1 GTTGCTATCAGTTGCTCATGGAAGCTACTACTGTGCTCATGGAGTTGCTGCCAGTTGCTCGTGGA
1983466 AGCT
66 AGCT
*
1983470 GCTGCTA
1 GTTGCTA
1983477 CTGTGGAAGC
Statistics
Matches: 63, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.12, C:0.19, G:0.34, T:0.34
Consensus pattern (69 bp):
GTTGCTATCAGTTGCTCATGGAAGCTACTACTGTGCTCATGGAGTTGCTGCCAGTTGCTCGTGGA
AGCT
Found at i:1983432 original size:26 final size:26
Alignment explanation
Indices: 1983384--1983434 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
1983374 AGTTGTTGCC
* * **
1983384 AGTTGCTCGTGGAAGGTGTTGCTGTT
1 AGTTGCTCATGGAAGCTACTGCTGTT
1983410 AGTTGCTCATGGAAGCTACTGCTGT
1 AGTTGCTCATGGAAGCTACTGCTGT
1983435 GCTCATGGAG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.16, C:0.16, G:0.33, T:0.35
Consensus pattern (26 bp):
AGTTGCTCATGGAAGCTACTGCTGTT
Found at i:1983504 original size:47 final size:47
Alignment explanation
Indices: 1983440--1983538 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 47
1983430 GCTGTGCTCA
*
1983440 TGGAGTTGCTGCCGGTTGCTCGTGGAAGCTGCTGCTACTGTGGAAGC
1 TGGAGTTGCTGCCGGTTGCTCATGGAAGCTGCTGCTACTGTGGAAGC
* **
1983487 TGGAGTTGCTGCTGGTTGCTCATGGAAGCTGCTGCTGTTGTGGAAGC
1 TGGAGTTGCTGCCGGTTGCTCATGGAAGCTGCTGCTACTGTGGAAGC
1983534 TGGAG
1 TGGAG
1983539 GAGGCTCGAG
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.13, C:0.18, G:0.39, T:0.29
Consensus pattern (47 bp):
TGGAGTTGCTGCCGGTTGCTCATGGAAGCTGCTGCTACTGTGGAAGC
Found at i:1987032 original size:52 final size:52
Alignment explanation
Indices: 1986962--1987082 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1986952 GAAAATTTAT
*
1986962 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1987014 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1987066 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1987083 AAGATCAGTG
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:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1987095 original size:52 final size:51
Alignment explanation
Indices: 1986962--1987102 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1986952 GAAAATTTAT
1986962 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1987014 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1987066 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1987103 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1987109 original size:13 final size:13
Alignment explanation
Indices: 1987091--1987115 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1987081 CAAAGATCAG
1987091 TGTATCGATACAA
1 TGTATCGATACAA
1987104 TGTATCGATACA
1 TGTATCGATACA
1987116 TGTGAGTAAT
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:1987199 original size:13 final size:13
Alignment explanation
Indices: 1987181--1987205 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1987171 CAAAAAAATA
1987181 TGTATCGATACAT
1 TGTATCGATACAT
1987194 TGTATCGATACA
1 TGTATCGATACA
1987206 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1987201 original size:33 final size:33
Alignment explanation
Indices: 1987159--1987225 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1987149 AGTAGCTTAA
1987159 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1987192 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1987225 A
1 A
1987226 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1988258 original size:49 final size:49
Alignment explanation
Indices: 1988116--1988774 Score: 796
Period size: 49 Copynumber: 13.6 Consensus size: 49
1988106 GATGTCAACG
* * *
1988116 TGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATA
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATA
* * *
1988168 TGCTGATTCAAGGCCAGCTATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
*
1988211 TGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
1988260 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1988303 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
1988352 TGCTGATTCAAGGCCAGCGATATTGGACTT-AA-A-G--G-TGCCAATG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
1988395 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1988444 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * *
1988493 TGCTAAGTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* * * * *
1988542 TGCTGATTCAAGGCCAACGATATTGGACTTAAAGATGAAGGTGCCAATA
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
* *
1988591 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATA
* * *
1988643 TGCTGAGTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATG
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
*
1988692 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATA
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATA
* * *
1988744 TGCTGATTCAAGGCCAGCTATATTGGGCTTA
1 TGCTGAGTCAAGGCCAGCTACATTGGACTTA
1988775 GAGGGGTTGC
Statistics
Matches: 543, Mismatches: 40, Indels: 48
0.86 0.06 0.08
Matches are distributed among these distances:
43 104 0.19
44 8 0.01
45 3 0.01
46 5 0.01
47 2 0.00
48 8 0.01
49 294 0.54
50 3 0.01
51 3 0.01
52 113 0.21
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
TGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATA
Found at i:1988289 original size:92 final size:92
Alignment explanation
Indices: 1988115--1988774 Score: 870
Period size: 92 Copynumber: 6.9 Consensus size: 92
1988105 GGATGTCAAC
* * *
1988115 GTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-GAAGA--TGCCAATATGCTGATTCAAG
1988180 GCCAGCTATATTGGACTTAAAGGTGCCAAT
63 GCCAGCTATATTGGACTTAAAGGTGCCAAT
*
1988210 GTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
*
1988275 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCTATATTGGACTTAAAGGTGCCAAT
1988302 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
*
1988367 AGCGATATTGGACTTAAAGGTGCCAAT
66 AGCTATATTGGACTTAAAGGTGCCAAT
* * *
1988394 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
*
1988459 AGCTACATTGGACTTAAAGATGAAGATGCCAAT
66 AGCTATATTGGACTT-AA-A-G--G-TGCCAAT
* * * * *
1988492 ATGCTAAGTCAAGGCCAACGATATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
* *
1988557 AACGATATTGGACTTAAAGATGAAGGTGCCAAT
66 AGCTATATTGGACTT----A--AAGGTGCCAAT
* * * *
1988590 ATGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATGTGCTGAGTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
1988655 GCCAGCTATATTGGACTTAAAGATGAAGGTGCCAAT
63 GCCAGCTATATTGGACTT----A--AAGGTGCCAAT
*
1988691 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGCCAATATGCTGATTCAAG
1 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGATGCCAATATGCTGATTCAAG
*
1988756 GCCAGCTATATTGGGCTTA
63 GCCAGCTATATTGGACTTA
1988775 GAGGGGTTGC
Statistics
Matches: 517, Mismatches: 34, Indels: 26
0.90 0.06 0.05
Matches are distributed among these distances:
92 215 0.42
93 2 0.00
94 5 0.01
95 37 0.07
97 2 0.00
98 116 0.22
99 2 0.00
101 136 0.26
102 1 0.00
103 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (92 bp):
GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCC
AGCTATATTGGACTTAAAGGTGCCAAT
Found at i:1988966 original size:34 final size:34
Alignment explanation
Indices: 1988841--1989795 Score: 904
Period size: 34 Copynumber: 28.9 Consensus size: 34
1988831 GGGCTTTGGG
*
1988841 AAGGAAAAAAGATGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAAG-TGCCACGGAGTTGTGGGCTTTAA
1988875 AAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AA-GGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
* *
1988911 AA-GAAACAAGTGCCACGGAGTTGTGGGC-TTAG
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* *
1988943 AAGGAAAAATAGTGCCACAGAGTTGTGGGC-TTAG
1 AAGGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
* *
1988977 AAGGAAAAGAGTGCCACGTAGTTGTGGGCTTT-A
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
*
1989010 AAGGAAAAGAGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AA
*
1989045 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
* * *
1989081 AAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTT-A
1 AAGGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
*
1989115 AA-G-----AGTGCCACGGAGTCGTGGGCTTTGAA
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AA
1989144 AAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTTTAA
1 AAG-GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
*
1989180 ACA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 A-AGGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AA
*
1989215 AAGAGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AAG-GAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
*
1989251 ACA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 A-AGGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AA
*
1989286 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
*
1989322 AA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTGAA
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTT-AA
*
1989356 AAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTAA
1 AA-GGAAAAA-AGTGCCACGGAGTTGTGGGCTTTAA
*
1989392 AA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAA
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* *
1989425 AAAGAAAAAGGTGCCACGGAGTTGTGGGC-TTAA
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* *
1989458 ACGG------GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* * **
1989485 AGATGAAAAAAGTGCCACAGAAATGTGGGCTTTAA
1 A-AGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
*
1989520 AAGG------GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* *
1989547 AGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAA
1 A-AGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
*
1989582 AAGG------GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* *
1989609 AGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAA
1 A-AGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
*
1989644 AAGG------GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* *
1989671 AGATGAAAAAAGTGCCACGGAATTGTGGGCTTTAA
1 A-AGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
*
1989706 AAGG------GTGCCACGGAGTTGTGGAC-TTAA
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* *
1989733 AAGGAACAAGGTGCCACGGAGTTGTGGGCTTT-A
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
* * *
1989766 AA-GAAAAAA-TGCCACTGAGTCGTGGACTTT
1 AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTT
1989796 GAGACAAAAT
Statistics
Matches: 778, Mismatches: 69, Indels: 151
0.78 0.07 0.15
Matches are distributed among these distances:
27 66 0.08
28 73 0.09
29 3 0.00
31 19 0.02
32 10 0.01
33 148 0.19
34 206 0.26
35 94 0.12
36 50 0.06
37 109 0.14
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (34 bp):
AAGGAAAAAAGTGCCACGGAGTTGTGGGCTTTAA
Found at i:1989073 original size:70 final size:69
Alignment explanation
Indices: 1988846--1989795 Score: 946
Period size: 62 Copynumber: 14.4 Consensus size: 69
1988836 TTGGGAAGGA
* *
1988846 AAAAAGA-TGCCACGGAGTTGTGGAC-TTAAAAGGGAAAAAGAGTGCCACGGAGTTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1988909 AAAAG
65 AAAAG
* * *
1988914 AAACA-AGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAATAGTGCCACAGAGTTGTGGGC-TTA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
*
1988976 GAAG
66 AAAG
* * *
1988980 GAAAAGAGTGCCACGTAGTTGTGGGCTTT-AAAGG-AAAAGAGTGCCACGGAGTTGTGGGCTTTG
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT-
1989043 AAAAGGG
65 AAAA--G
* * *
1989050 AAAAAGAGTGCCACAGAGTTGTGGGCTTTAAAAAGAAAAAGTGTGCCACAGAGTTGTGGGCTTT-
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
1989114 ----
66 AAAG
* *
1989114 --AAAGAGTGCCACGGAGTCGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACGGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG-GAAAAAGAGTGCCACAGAGTTGTGGGCTT
1989177 TAAACAG
64 TAAA-AG
1989184 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGAGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAAG-GAAAAAGAGTGCCACAGAGTTGTGGGCTT
1989248 TAAACAG
64 TAAA-AG
1989255 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1989319 TAAAAG
64 TAAAAG
1989325 AAAAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT-AAAA-GGAAAAAGAGTGCCACAGAGTTGTGGGCTT
1989389 TAAAAG
64 TAAAAG
* *
1989395 AAAAAG-GTGCCACGGAGTTGTGGGCTTTAAAAAGAAAAAG-GTGCCACGGAGTTGTGGGC-TTA
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
*
1989457 AACG
66 AAAG
* * **
1989461 -----G-GTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-AGTGCCACAGAAATGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1989518 AAAAG
65 AAAAG
* * * *
1989523 -----G-GTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1989580 AAAAG
65 AAAAG
* * * *
1989585 -----G-GTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1989642 AAAAG
65 AAAAG
* * * *
1989647 -----G-GTGCCACGGAGTTGTGGAC-TTAAAGATGAAAAA-AGTGCCACGGAATTGTGGGCTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAA-AGGAAAAAGAGTGCCACAGAGTTGTGGGCTTT
1989704 AAAAG
65 AAAAG
* * *
1989709 -----G-GTGCCACGGAGTTGTGGAC-TTAAAAGGAACAAG-GTGCCACGGAGTTGTGGGCTTT-
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
1989765 AAAG
66 AAAG
* * *
1989769 AAAAA-A-TGCCACTGAGTCGTGGACTTT
1 AAAAAGAGTGCCACGGAGTTGTGGGCTTT
1989796 GAGACAAAAT
Statistics
Matches: 809, Mismatches: 42, Indels: 65
0.88 0.05 0.07
Matches are distributed among these distances:
60 9 0.01
61 69 0.09
62 240 0.30
63 4 0.00
64 44 0.05
65 2 0.00
66 38 0.05
67 70 0.09
68 38 0.05
69 4 0.00
70 127 0.16
71 133 0.16
72 31 0.04
ACGTcount: A:0.33, C:0.13, G:0.33, T:0.21
Consensus pattern (69 bp):
AAAAAGAGTGCCACGGAGTTGTGGGCTTTAAAAGGAAAAAGAGTGCCACAGAGTTGTGGGCTTTA
AAAG
Found at i:1989125 original size:27 final size:27
Alignment explanation
Indices: 1989087--1989140 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1989077 TTAAAAAGAA
* *
1989087 AAAGTGTGCCACAGAGTTGTGGGCTTT
1 AAAGAGTGCCACAGAGTCGTGGGCTTT
*
1989114 AAAGAGTGCCACGGAGTCGTGGGCTTT
1 AAAGAGTGCCACAGAGTCGTGGGCTTT
1989141 GAAAAGAGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.22, C:0.17, G:0.35, T:0.26
Consensus pattern (27 bp):
AAAGAGTGCCACAGAGTCGTGGGCTTT
Found at i:1989806 original size:30 final size:31
Alignment explanation
Indices: 1989711--1989828 Score: 121
Period size: 30 Copynumber: 3.8 Consensus size: 31
1989701 TTTAAAAGGG
* * * **
1989711 TGCCACGGAGTTGTGGACTTAAAAGGAACAAGG
1 TGCCACTGAGTCGTGGACTTTAAA-GAA-AAAA
* * *
1989744 TGCCACGGAGTTGTGGGCTTTAAAGAAAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAA
* *
1989775 TGCCACTGAGTCGTGGACTTT-GAGACAAAA
1 TGCCACTGAGTCGTGGACTTTAAAGAAAAAA
1989805 TGCCACTGAGTCGTGGACTTTAAA
1 TGCCACTGAGTCGTGGACTTTAAA
1989829 AAGGTATTTG
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
30 28 0.38
31 21 0.28
32 3 0.04
33 22 0.30
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTAAAGAAAAAA
Found at i:1991107 original size:6 final size:6
Alignment explanation
Indices: 1991054--1991086 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
1991044 CTTTGCACCC
1991054 TTTTT- TTTTTG TTTTTG TTTTTG TTTTT- TTTTT
1 TTTTTG TTTTTG TTTTTG TTTTTG TTTTTG TTTTT
1991087 TTGACTCTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (6 bp):
TTTTTG
Found at i:1998108 original size:52 final size:52
Alignment explanation
Indices: 1998038--1998158 Score: 224
Period size: 52 Copynumber: 2.3 Consensus size: 52
1998028 GAAAATTTAT
*
1998038 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
*
1998090 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
1998142 CTGCATGTATCGATACA
1 CTGCATGTATCGATACA
1998159 AAGATCAGTG
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:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (52 bp):
CTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAATTTGC
Found at i:1998171 original size:52 final size:51
Alignment explanation
Indices: 1998038--1998178 Score: 212
Period size: 52 Copynumber: 2.7 Consensus size: 51
1998028 GAAAATTTAT
1998038 CTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
* *
1998090 CTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAATTTGC
1 CTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAATTTGC
*
1998142 CTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 CTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
1998179 ATGTATCGAT
Statistics
Matches: 82, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
51 2 0.02
52 80 0.98
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.33
Consensus pattern (51 bp):
CTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAATTTGC
Found at i:1998185 original size:13 final size:13
Alignment explanation
Indices: 1998167--1998191 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1998157 CAAAGATCAG
1998167 TGTATCGATACAA
1 TGTATCGATACAA
1998180 TGTATCGATACA
1 TGTATCGATACA
1998192 TGTGAGTAAT
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:1998275 original size:13 final size:13
Alignment explanation
Indices: 1998257--1998281 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1998247 CAAAAAAATA
1998257 TGTATCGATACAT
1 TGTATCGATACAT
1998270 TGTATCGATACA
1 TGTATCGATACA
1998282 ACATTTTATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1998277 original size:33 final size:33
Alignment explanation
Indices: 1998235--1998301 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1998225 AGTAGCTTAA
1998235 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1998268 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1998301 A
1 A
1998302 AATCGTTGAA
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:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Done.