Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold33
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: 2032796
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 48244 characters in sequence are not A, C, G, or T
File 13 of 13
Found at i:1925478 original size:19 final size:21
Alignment explanation
Indices: 1925454--1925515 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
1925444 TTTTTTATTA
1925454 AAAAATTAT-AAT-TTAAAAT
1 AAAAATTATAAATATTAAAAT
1925473 AAAAATTATAAATATTAAAATT
1 AAAAATTATAAATATTAAAA-T
*
1925495 TAAAATT-TAAATTCATTAAAA
1 AAAAATTATAAA-T-ATTAAAA
1925516 ATAATTATAT
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
19 9 0.24
20 3 0.08
21 10 0.27
22 8 0.22
23 7 0.19
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAAATTATAAATATTAAAAT
Found at i:1925494 original size:15 final size:13
Alignment explanation
Indices: 1925455--1925507 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
1925445 TTTTTATTAA
*
1925455 AAAATTATAATTT
1 AAAATTAAAATTT
*
1925468 AAAATAAAAATTAT
1 AAAATTAAAATT-T
1925482 AAATATTAAAATTT
1 AAA-ATTAAAATTT
*
1925496 AAAATTTAAATT
1 AAAATTAAAATT
1925508 CATTAAAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
13 18 0.53
14 8 0.24
15 8 0.24
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:1925946 original size:2 final size:2
Alignment explanation
Indices: 1925941--1925970 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1925931 TTTTCCACAC
1925941 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1925971 GGTCATTATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1926970 original size:19 final size:19
Alignment explanation
Indices: 1926948--1926986 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1926938 ATTTTTACAA
*
1926948 TTTTTTTAACAATACGTAC
1 TTTTTTTAACAACACGTAC
*
1926967 TTTTTTTAACGACACGTAC
1 TTTTTTTAACAACACGTAC
1926986 T
1 T
1926987 ATATTCTCCG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.18, G:0.08, T:0.46
Consensus pattern (19 bp):
TTTTTTTAACAACACGTAC
Found at i:1929135 original size:10 final size:10
Alignment explanation
Indices: 1929120--1929151 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
1929110 CTTATATTAC
1929120 TATTAAAAAA
1 TATTAAAAAA
1929130 TATT--AAAA
1 TATTAAAAAA
1929138 TATTAAAAAA
1 TATTAAAAAA
1929148 TATT
1 TATT
1929152 TTTATATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 8 0.40
10 12 0.60
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
TATTAAAAAA
Found at i:1930360 original size:21 final size:21
Alignment explanation
Indices: 1930322--1930362 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1930312 ATTAAAACAA
*
1930322 AAACAAATAACATAAATAAAT
1 AAACAAATAAAATAAATAAAT
1930343 AAACAAATCAAAAT-AATAAA
1 AAACAAAT-AAAATAAATAAA
1930363 ATATAAGCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (21 bp):
AAACAAATAAAATAAATAAAT
Found at i:1931219 original size:51 final size:50
Alignment explanation
Indices: 1931140--1931237 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 50
1931130 TATATACATA
* *
1931140 ATTTTAATATATAATATTATAATATTTA-TAAAATTTTAAATAAATATATG
1 ATTTTAATATATAATATTATAATATTTATTAAAAATATAAA-AAATATATG
*
1931190 ATTTTAGTATAATATATATT-TAATATTTATTAAAAATATAAAAAATAT
1 ATTTTAATAT-ATA-ATATTATAATATTTATTAAAAATATAAAAAATAT
1931238 TTTTAAAAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
50 9 0.21
51 18 0.43
52 15 0.36
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (50 bp):
ATTTTAATATATAATATTATAATATTTATTAAAAATATAAAAAATATATG
Found at i:1931251 original size:19 final size:21
Alignment explanation
Indices: 1931210--1931277 Score: 86
Period size: 20 Copynumber: 3.2 Consensus size: 21
1931200 AATATATATT
1931210 TAATATTTATTAAAAATATAAAA
1 TAATATTT-TT-AAAATATAAAA
1931233 -AATATTTTTAAAA-ATAAAA
1 TAATATTTTTAAAATATAAAA
* *
1931252 TAATAATTTTAAAATATAATA
1 TAATATTTTTAAAATATAAAA
1931273 TAATA
1 TAATA
1931278 CGAATCAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
19 6 0.15
20 16 0.39
21 12 0.29
22 7 0.17
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAATATTTTTAAAATATAAAA
Found at i:1932417 original size:17 final size:17
Alignment explanation
Indices: 1932395--1932427 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1932385 CTTACTTTTT
1932395 TAATTATTATATAAATA
1 TAATTATTATATAAATA
1932412 TAATTATTATATAAAT
1 TAATTATTATATAAAT
1932428 TATTTAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAATTATTATATAAATA
Found at i:1935178 original size:22 final size:23
Alignment explanation
Indices: 1935150--1935205 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
1935140 TGGACATGTT
1935150 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
1935172 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
1935195 AAAAATGCATG
1 AAAAATGCATG
1935206 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:1936160 original size:20 final size:20
Alignment explanation
Indices: 1936113--1936187 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1936103 AAAAAGACAT
*
1936113 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1936132 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1936153 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1936173 AATGTATCGATACAT
1 AATGTATCGATACAT
1936188 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1936181 original size:40 final size:39
Alignment explanation
Indices: 1936110--1936187 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1936100 GGTAAAAAGA
* *
1936110 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1936149 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1936188 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1936764 original size:32 final size:32
Alignment explanation
Indices: 1936715--1937021 Score: 515
Period size: 32 Copynumber: 9.6 Consensus size: 32
1936705 AAAATGGTGA
* * * **
1936715 TTTGAAAAGGGTTGCCACTGGCTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1936747 TTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1936779 TTTGAAATGAGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
1936811 TTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1936843 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1936875 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1936907 TTTGAAATGGGTTGCCACCGACTTGTGTTGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1936939 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1936971 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1937003 TTTGAAATGGGTTGCCACC
1 TTTGAAATGGGTTGCCACC
1937022 TTGCTTGAAT
Statistics
Matches: 260, Mismatches: 15, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 260 1.00
ACGTcount: A:0.16, C:0.19, G:0.34, T:0.32
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1936820 original size:64 final size:64
Alignment explanation
Indices: 1936715--1937173 Score: 582
Period size: 64 Copynumber: 6.9 Consensus size: 64
1936705 AAAATGGTGA
* * * ** *
1936715 TTTGAAAAGGGTTGCCACTGGCTTGCATGGGCTTTTAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1936779 TTTGAAATGAGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTGGGT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1936843 TTTGGAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1936907 TTTGAAATGGGTTGCCACCGACTTGTGTTGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1936971 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCTTG-CTTGAATGTC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC--GACTTG--TGT-
***
1937035 CTAC
61 GGGC
*
1937039 TTGTGGTGATGGGCTTTGGAAT-GGTTGCCACCGACTTGTGTGGGCTTTG-AATGGGTTGCCACT
1 -T-T--TGA----------AATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
1937102 GACTTGTGTGGGC
52 GACTTGTGTGGGC
*
1937115 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTG
1937174 GGCTTAAAAG
Statistics
Matches: 348, Mismatches: 25, Indels: 44
0.83 0.06 0.11
Matches are distributed among these distances:
62 3 0.01
63 27 0.08
64 247 0.71
65 4 0.01
66 1 0.00
67 3 0.01
68 1 0.00
69 1 0.00
70 1 0.00
72 6 0.02
74 1 0.00
75 1 0.00
76 1 0.00
77 3 0.01
78 1 0.00
79 4 0.01
80 13 0.04
81 27 0.08
82 3 0.01
ACGTcount: A:0.15, C:0.18, G:0.34, T:0.33
Consensus pattern (64 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1936889 original size:96 final size:96
Alignment explanation
Indices: 1936715--1937173 Score: 584
Period size: 96 Copynumber: 4.6 Consensus size: 96
1936705 AAAATGGTGA
* * * ** *
1936715 TTTGAAAAGGGTTGCCACTGGCTTGCATGGGCTTTTAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
*
1936780 TTGAAATGAGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
1936811 TTTGGAATGGGTTGCCACCGACTTGTGTGGGTTTTGGAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1936876 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1936907 TTTGAAATGGGTTGCCACCGACTTGTGTTGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
1936972 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
66 TTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1937003 TTTGAAATGGGTTGCCACCTTG-CTTGAATGTCCTACTTGTGG-TGATGGGCTTTGGAAT-GGTT
1 TTTGAAATGGGTTGCCACC--GACTTG--TG-------TG-GGCT--T------TGAAATGGGTT
*
1937065 GCCACCGACTTGTGTGGGCTTTG-AATGGGTTGCCACTGACTTGTGTGGGC
46 GCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
1937115 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTG
1937174 GGCTTAAAAG
Statistics
Matches: 321, Mismatches: 19, Indels: 47
0.83 0.05 0.12
Matches are distributed among these distances:
94 5 0.02
95 17 0.05
96 197 0.61
97 4 0.01
98 1 0.00
99 2 0.01
100 1 0.00
101 2 0.01
102 3 0.01
106 2 0.01
107 2 0.01
108 1 0.00
109 2 0.01
110 1 0.00
111 4 0.01
112 45 0.14
113 27 0.08
114 5 0.02
ACGTcount: A:0.15, C:0.18, G:0.34, T:0.33
Consensus pattern (96 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCT
TTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:1937116 original size:144 final size:146
Alignment explanation
Indices: 1936902--1937165 Score: 487
Period size: 144 Copynumber: 1.8 Consensus size: 146
1936892 CCGACTTGTG
*
1936902 TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTTGGCTTTGAAATGGGTTGCCACCGACTTGTGT
1 TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGT
1936967 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCTTGCTTGAAT
66 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCTTGCTTGAAT
1937032 GTCCTACTTGTGGTGA
131 GTCCTACTTGTGGTGA
* *
1937048 TGGGCTTTGGAAT-GGTTGCCACCGACTTGTGTGGGCTTTG-AATGGGTTGCCACTGACTTGTGT
1 TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGT
1937111 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
66 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACC
1937166 GAGTTGTGGG
Statistics
Matches: 115, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
144 77 0.67
145 26 0.23
146 12 0.10
ACGTcount: A:0.15, C:0.19, G:0.33, T:0.33
Consensus pattern (146 bp):
TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGT
GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCTTGCTTGAAT
GTCCTACTTGTGGTGA
Found at i:1937129 original size:32 final size:32
Alignment explanation
Indices: 1937048--1937173 Score: 211
Period size: 32 Copynumber: 4.0 Consensus size: 32
1937038 CTTGTGGTGA
*
1937048 TGGGCTTTGGAAT-GGTTGCCACCGACTTGTG
1 TGGGCTTTGAAATGGGTTGCCACCGACTTGTG
*
1937079 TGGGCTTTG-AATGGGTTGCCACTGACTTGTG
1 TGGGCTTTGAAATGGGTTGCCACCGACTTGTG
1937110 TGGGCTTTGAAATGGGTTGCCACCGACTTGTG
1 TGGGCTTTGAAATGGGTTGCCACCGACTTGTG
*
1937142 TGGGCTTTGAAATGGGTTGCCACCGAGTTGTG
1 TGGGCTTTGAAATGGGTTGCCACCGACTTGTG
1937174 GGCTTAAAAG
Statistics
Matches: 90, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
30 3 0.03
31 35 0.39
32 52 0.58
ACGTcount: A:0.14, C:0.17, G:0.36, T:0.33
Consensus pattern (32 bp):
TGGGCTTTGAAATGGGTTGCCACCGACTTGTG
Found at i:1937137 original size:63 final size:63
Alignment explanation
Indices: 1937048--1937173 Score: 209
Period size: 63 Copynumber: 2.0 Consensus size: 63
1937038 CTTGTGGTGA
* *
1937048 TGGGCTTTGGAATGGTTGCCACCGACTTGTGTGGGCTTTG-AATGGGTTGCCACTGACTTGTG
1 TGGGCTTTGAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTG
*
1937110 TGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGAGTTGTG
1 TGGGCTTTGAAAT-GGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTG
1937174 GGCTTAAAAG
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
62 12 0.20
63 27 0.46
64 20 0.34
ACGTcount: A:0.14, C:0.17, G:0.36, T:0.33
Consensus pattern (63 bp):
TGGGCTTTGAAATGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTG
Found at i:1937196 original size:27 final size:27
Alignment explanation
Indices: 1937159--1937837 Score: 1054
Period size: 27 Copynumber: 24.9 Consensus size: 27
1937149 TGAAATGGGT
* * *
1937159 TGCCACCGAGTTGTGGGCTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1937186 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1937213 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1937240 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1937267 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1937294 TGCCACGGAGTTGTGGACTTAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
1937321 TGCTACGGAGTTGTGGACTTAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1937348 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1937375 TGCCACGGAGTTGTGGACTTAAAAGAGA
1 TGCCACGGAGTTGTGGACTTAAAAG-GG
1937403 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1937430 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1937457 TGCCACGGAGTTGTGGACTTAAAGAAGG
1 TGCCACGGAGTTGTGGACTTAAA-AGGG
*
1937485 TGCCACGGAGTTGTGGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
** *
1937513 CACTACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1937540 TGCCACGGAGTTGTGGACTTTGAAA-GG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
1937567 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1937594 TGCCACGGAGTTGTGGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
*
1937622 TGCCACGGAGTTGTGGACTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1937649 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
1937676 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1937703 TGCCACGGAGTTGTGGACTTTAAAAGAG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
1937731 TGCCACGAAGTTGTGGATTTAAAAGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
1937758 TGCCACGGAGTTGTGGATTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* * *
1937785 TGGCACAGAGTTGTGGACTTTAAAAGGA
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
1937813 TGCCACGGAGTTGTGGACTTCAAAA
1 TGCCACGGAGTTGTGGACTT-AAAA
1937838 AGAAATGCCA
Statistics
Matches: 605, Mismatches: 38, Indels: 17
0.92 0.06 0.03
Matches are distributed among these distances:
26 5 0.01
27 448 0.74
28 147 0.24
29 5 0.01
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:1937458 original size:82 final size:81
Alignment explanation
Indices: 1937159--1937837 Score: 1051
Period size: 82 Copynumber: 8.3 Consensus size: 81
1937149 TGAAATGGGT
* * *
1937159 TGCCACCGAGTTGTGGGCTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
*
1937224 TGTGGACTTAAAAGGG
66 TGTGGACTTAAAAGAG
1937240 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1937305 TGTGGACTTAAAA-AGG
66 TGTGGACTTAAAAGA-G
* * *
1937321 TGCTACGGAGTTGTGGACTTAAAAAGGTGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1937386 TGTGGACTTAAAAGAG
66 TGTGGACTTAAAAGAG
1937402 ATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 -TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1937467 TTGTGGACTT-AAAGAAGG
65 TTGTGGACTTAAAAG-A-G
* ** *
1937485 TGCCACGGAGTTGTGGACTTTAAAAGAGCACTACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
1937550 TTGTGGACTTTGAAAG-G
65 TTGTGGAC-TTAAAAGAG
* *
1937567 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAGTGCCACGGAG
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAG
1937632 TTGTGGACTTAAAAGAG
65 TTGTGGACTTAAAAGAG
1937649 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1937714 TGTGGACTTTAAAAGAG
66 TGTGGAC-TTAAAAGAG
* * * * * *
1937731 TGCCACGAAGTTGTGGATTTAAAAGAGTGCCACGGAGTTGTGGATTTAAAAGGGTGGCACAGAGT
1 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
1937796 TGTGGACTTTAAAAG-G
66 TGTGGAC-TTAAAAGAG
1937812 ATGCCACGGAGTTGTGGACTTCAAAA
1 -TGCCACGGAGTTGTGGACTT-AAAA
1937838 AGAAATGCCA
Statistics
Matches: 554, Mismatches: 31, Indels: 24
0.91 0.05 0.04
Matches are distributed among these distances:
81 212 0.38
82 281 0.51
83 55 0.10
84 2 0.00
85 4 0.01
ACGTcount: A:0.28, C:0.14, G:0.34, T:0.23
Consensus pattern (81 bp):
TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
TGTGGACTTAAAAGAG
Found at i:1945400 original size:22 final size:23
Alignment explanation
Indices: 1945372--1945427 Score: 105
Period size: 22 Copynumber: 2.5 Consensus size: 23
1945362 TGGACATGTT
1945372 AAAAATGCATGAAACATAAT-AA
1 AAAAATGCATGAAACATAATAAA
1945394 AAAAATGCATGAAACATAATAAA
1 AAAAATGCATGAAACATAATAAA
1945417 AAAAATGCATG
1 AAAAATGCATG
1945428 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 20 0.61
23 13 0.39
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (23 bp):
AAAAATGCATGAAACATAATAAA
Found at i:1946382 original size:20 final size:20
Alignment explanation
Indices: 1946335--1946409 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1946325 AAAAAGACAT
*
1946335 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1946354 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1946375 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1946395 AATGTATCGATACAT
1 AATGTATCGATACAT
1946410 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1946403 original size:40 final size:39
Alignment explanation
Indices: 1946332--1946409 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1946322 GGTAAAAAGA
* *
1946332 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1946371 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1946410 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1948539 original size:19 final size:19
Alignment explanation
Indices: 1948515--1948552 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
1948505 TAAATGGTAT
* *
1948515 ATTCTTATTTCAAAAATAC
1 ATTCTTATATAAAAAATAC
1948534 ATTCTTATATAAAAAATAC
1 ATTCTTATATAAAAAATAC
1948553 CAAGGAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.47, C:0.13, G:0.00, T:0.39
Consensus pattern (19 bp):
ATTCTTATATAAAAAATAC
Found at i:1950151 original size:19 final size:20
Alignment explanation
Indices: 1950110--1950157 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1950100 AAACCTAACG
*
1950110 AAAAAAATAATGCAAAACTA
1 AAAAAAATAAAGCAAAACTA
* *
1950130 AAAAAAATAAAGTACAAC-A
1 AAAAAAATAAAGCAAAACTA
1950149 AAAAAAATA
1 AAAAAAATA
1950158 TTACAAGATC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.75, C:0.08, G:0.04, T:0.12
Consensus pattern (20 bp):
AAAAAAATAAAGCAAAACTA
Found at i:1950234 original size:15 final size:16
Alignment explanation
Indices: 1950201--1950239 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
1950191 AAATAATATT
**
1950201 AAAAAAATAACTTCTC
1 AAAAAAATAAAGTCTC
1950217 AAAAAAATAAAGTC-C
1 AAAAAAATAAAGTCTC
1950232 AAAAAAAT
1 AAAAAAAT
1950240 TAATACTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.67, C:0.13, G:0.03, T:0.18
Consensus pattern (16 bp):
AAAAAAATAAAGTCTC
Found at i:1950687 original size:29 final size:27
Alignment explanation
Indices: 1950655--1950718 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 27
1950645 CGATATTGTT
1950655 ATAAAAAAATATAATAATAAATTAAAATA
1 ATAAAAAAATATAATAA-AAATTAAAA-A
* *
1950684 ATAAAAAAAATATATTTAAAATTAAAAA
1 AT-AAAAAAATATAATAAAAATTAAAAA
1950712 ATAAAAA
1 ATAAAAA
1950719 TAAAAAATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
27 5 0.16
28 3 0.09
29 11 0.34
30 13 0.41
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (27 bp):
ATAAAAAAATATAATAAAAATTAAAAA
Found at i:1950736 original size:34 final size:31
Alignment explanation
Indices: 1950678--1950747 Score: 79
Period size: 34 Copynumber: 2.2 Consensus size: 31
1950668 ATAATAAATT
*
1950678 AAAATAATAAAAAAAATATATTTAAAATTA-A
1 AAAATAAAAAAAAAAATATATTT-AAATTATA
*
1950709 AAAATAAAAATAAAAAATTATTTTTTAAATTATA
1 AAAATAAAAA-AAAAAA-TA-TATTTAAATTATA
1950743 AAAAT
1 AAAAT
1950748 TTTTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 9 0.27
32 6 0.18
33 8 0.24
34 10 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (31 bp):
AAAATAAAAAAAAAAATATATTTAAATTATA
Found at i:1951111 original size:19 final size:19
Alignment explanation
Indices: 1951071--1951112 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
1951061 TTTGAAGTAA
*
1951071 ATTTTTAATATATTATTAT
1 ATTTTTAATATATTAATAT
1951090 ATTTTTAATATATTTAAT-T
1 ATTTTTAATATA-TTAATAT
1951109 ATTT
1 ATTT
1951113 ATTTATTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (19 bp):
ATTTTTAATATATTAATAT
Found at i:1951176 original size:18 final size:18
Alignment explanation
Indices: 1951137--1951176 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
1951127 ATATTTATAT
*
1951137 ATAAAATTAATTTGTTAT
1 ATAAAATTAATTTGTTAA
1951155 ATAAAATTAATTT-TTCAA
1 ATAAAATTAATTTGTT-AA
1951173 ATAA
1 ATAA
1951177 TTTATTATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 2 0.10
18 18 0.90
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (18 bp):
ATAAAATTAATTTGTTAA
Found at i:1951814 original size:15 final size:16
Alignment explanation
Indices: 1951794--1951823 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1951784 ATGTTAACTT
1951794 TATATT-TTATTCTAC
1 TATATTGTTATTCTAC
1951809 TATATTGTTATTCTA
1 TATATTGTTATTCTA
1951824 AGTGTAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.27, C:0.10, G:0.03, T:0.60
Consensus pattern (16 bp):
TATATTGTTATTCTAC
Found at i:1953856 original size:8 final size:8
Alignment explanation
Indices: 1953840--1953901 Score: 58
Period size: 8 Copynumber: 7.8 Consensus size: 8
1953830 TGTTTTTATA
*
1953840 ATATATTT
1 ATATTTTT
1953848 ATATTTTT
1 ATATTTTT
1953856 AATATTTTT
1 -ATATTTTT
*
1953865 AAATATTTT
1 ATAT-TTTT
1953874 ATATTTTT
1 ATATTTTT
1953882 AT-TTTATT
1 ATATTT-TT
1953890 A-ATTTTT
1 ATATTTTT
1953897 -TATTT
1 ATATTT
1953902 AAATTAAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
7 9 0.20
8 22 0.48
9 15 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (8 bp):
ATATTTTT
Found at i:1953860 original size:17 final size:17
Alignment explanation
Indices: 1953833--1953899 Score: 68
Period size: 17 Copynumber: 3.9 Consensus size: 17
1953823 ACTTCTGTGT
*
1953833 TTTTATAATATATTTATA
1 TTTT-TAATATTTTTATA
*
1953851 TTTTTAATATTTTTAAA
1 TTTTTAATATTTTTATA
1953868 TATTTT-ATATTTTTAT-
1 T-TTTTAATATTTTTATA
1953884 TTTATTAAT-TTTTTAT
1 TTT-TTAATATTTTTAT
1953900 TTAAATTAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
15 2 0.05
16 10 0.23
17 23 0.53
18 8 0.19
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTAATATTTTTATA
Found at i:1953869 original size:10 final size:9
Alignment explanation
Indices: 1953833--1953898 Score: 54
Period size: 9 Copynumber: 7.7 Consensus size: 9
1953823 ACTTCTGTGT
1953833 TTTTATAATA
1 TTTT-TAATA
*
1953843 TATTT-ATA
1 TTTTTAATA
1953851 TTTTTAATA
1 TTTTTAATA
1953860 TTTTTAA-A
1 TTTTTAATA
1953868 TATTTT-ATA
1 T-TTTTAATA
1953877 TTTTT-AT-
1 TTTTTAATA
1953884 TTTATTAAT-
1 TTT-TTAATA
1953893 TTTTTA
1 TTTTTA
1953899 TTTAAATTAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
7 3 0.06
8 21 0.43
9 22 0.45
10 3 0.06
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTTTAATA
Found at i:1954021 original size:39 final size:39
Alignment explanation
Indices: 1953978--1954054 Score: 95
Period size: 39 Copynumber: 2.0 Consensus size: 39
1953968 AATATTTAAC
*
1953978 AAATATAAAATAATATATAT-TAATATTT-CATTATTAATA
1 AAATAT-AAATAATATATATATAAT-TTTACATTAATAATA
* *
1954017 AAATATATATAATTTATATATAATTTTACATTAATAAT
1 AAATATAAATAATATATATATAATTTTACATTAATAAT
1954055 TTTAATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 14 0.42
39 19 0.58
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (39 bp):
AAATATAAATAATATATATATAATTTTACATTAATAATA
Found at i:1954186 original size:17 final size:18
Alignment explanation
Indices: 1954164--1954203 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
1954154 TTATAATATC
*
1954164 TAATTTTATA-TTTATTA
1 TAATTTTAAATTTTATTA
1954181 TAATTTTAAATTTTATTA
1 TAATTTTAAATTTTATTA
*
1954199 AAATT
1 TAATT
1954204 AACCTCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TAATTTTAAATTTTATTA
Found at i:1954687 original size:10 final size:11
Alignment explanation
Indices: 1954649--1954687 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
1954639 TTTTTTACCT
*
1954649 CTCTTTTTTTC
1 CTCTGTTTTTC
*
1954660 CCCTGTTTTTC
1 CTCTGTTTTTC
1954671 CTCTGTTTTTC
1 CTCTGTTTTTC
1954682 CT-TGTT
1 CTCTGTT
1954688 CATCAACATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
10 4 0.16
11 21 0.84
ACGTcount: A:0.00, C:0.28, G:0.08, T:0.64
Consensus pattern (11 bp):
CTCTGTTTTTC
Found at i:1959144 original size:20 final size:20
Alignment explanation
Indices: 1959114--1959159 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1959104 TATATGATTA
* * *
1959114 AAATATTTTTAATTTAAATTT
1 AAAT-TTTTTAAATAAAAATT
1959135 AAATTTTTTAAATAAAAATT
1 AAATTTTTTAAATAAAAATT
1959155 AAATT
1 AAATT
1959160 AAATTTAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 18 0.82
21 4 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
AAATTTTTTAAATAAAAATT
Found at i:1959327 original size:19 final size:19
Alignment explanation
Indices: 1959303--1959364 Score: 76
Period size: 19 Copynumber: 3.3 Consensus size: 19
1959293 TATTTAAATT
1959303 TTAAAATTTAATAAAAAAA
1 TTAAAATTTAATAAAAAAA
*
1959322 TTAAAA-TTAAT-TAAAAA
1 TTAAAATTTAATAAAAAAA
1959339 TTAAAATTTTAA-AAAATAAA
1 TTAAAA-TTTAATAAAA-AAA
1959359 TTAAAA
1 TTAAAA
1959365 AATAATATGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
17 11 0.30
18 5 0.14
19 12 0.32
20 9 0.24
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TTAAAATTTAATAAAAAAA
Found at i:1967153 original size:35 final size:35
Alignment explanation
Indices: 1967101--1967171 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
1967091 TGAGTTAGCC
1967101 AAGATTCAAAAGCAGGTTCAATACTTAAATTTTCT
1 AAGATTCAAAAGCAGGTTCAATACTTAAATTTTCT
* *
1967136 AAGATTCAAGAGTAGGTTCAATACTTAAATTTTCT
1 AAGATTCAAAAGCAGGTTCAATACTTAAATTTTCT
1967171 A
1 A
1967172 TCTTTTTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (35 bp):
AAGATTCAAAAGCAGGTTCAATACTTAAATTTTCT
Found at i:1968801 original size:20 final size:20
Alignment explanation
Indices: 1968749--1968804 Score: 55
Period size: 20 Copynumber: 2.8 Consensus size: 20
1968739 GGTTAGTACA
*
1968749 CTATGTT-TTTTATACTCTTT
1 CTATGTTGTTTTAT-GTCTTT
1968769 -TA-GTGTGTATTTATGTCTTT
1 CTATGT-TGT-TTTATGTCTTT
1968789 CTATGTTGTTTTATGT
1 CTATGTTGTTTTATGT
1968805 TTTTGTTTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
18 2 0.07
19 3 0.10
20 13 0.43
21 10 0.33
22 2 0.07
ACGTcount: A:0.14, C:0.09, G:0.14, T:0.62
Consensus pattern (20 bp):
CTATGTTGTTTTATGTCTTT
Found at i:1970049 original size:75 final size:77
Alignment explanation
Indices: 1969925--1970150 Score: 223
Period size: 78 Copynumber: 2.9 Consensus size: 77
1969915 GAAAAAAAAA
* * *
1969925 TTTTA-TTTTTACTTTATTTGTAAATGATGTATTTAAAGTGA-T-TCATATTTA-TACCT-AATT
1 TTTTATTTTTTATTTTATTTGTAAATAATGTATTTAAA-TGAGTGT-GTATTTAGT-CCTAAATT
*
1969985 TGT-TTGA-GAAAATT
63 T-TAATGATGAAAATT
* **
1969999 TTTTATTTTTTATTTTATTAGTAAATAATGTATTTAAATGAGTGTGTATTTAGTTTTAAATTTTA
1 TTTTATTTTTTATTTTATTTGTAAATAATGTATTTAAATGAGTGTGTATTTAGTCCTAAATTTT-
*
1970064 AATGATTAAAATT
65 AATGATGAAAATT
* * **
1970077 TTTTATTTTTTGTTTTATTTGTAAATAATGTATTTAAAAGAGTGTGTGTATTTAGTTTTAAATTT
1 TTTTATTTTTTATTTTATTTGTAAATAATGTATTTAAATGA--GTGTGTATTTAGTCCTAAATTT
1970142 TAAATGATG
64 T-AATGATG
1970151 TATTTAAAAT
Statistics
Matches: 130, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
74 8 0.06
75 38 0.29
76 7 0.05
77 3 0.02
78 44 0.34
80 30 0.23
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (77 bp):
TTTTATTTTTTATTTTATTTGTAAATAATGTATTTAAATGAGTGTGTATTTAGTCCTAAATTTTA
ATGATGAAAATT
Found at i:1970094 original size:78 final size:79
Alignment explanation
Indices: 1969993--1970149 Score: 271
Period size: 78 Copynumber: 2.0 Consensus size: 79
1969983 TTTGTTTGAG
*
1969993 AAAATTTTTTATTTTTTATTTTATTAGTAAATAATGTATTTAAATGA-GTGTGTATTTAGTTTTA
1 AAAATTTTTTATTTTTTATTTTATTAGTAAATAATGTATTTAAAAGAGGTGTGTATTTAGTTTTA
1970057 AATTTTAAATGATT
66 AATTTTAAATGATT
* *
1970071 AAAATTTTTTATTTTTTGTTTTATTTGTAAATAATGTATTTAAAAGAGTGTGTGTATTTAGTTTT
1 AAAATTTTTTATTTTTTATTTTATTAGTAAATAATGTATTTAAAAGAG-GTGTGTATTTAGTTTT
1970136 AAATTTTAAATGAT
65 AAATTTTAAATGAT
1970150 GTATTTAAAA
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
78 44 0.59
80 30 0.41
ACGTcount: A:0.34, C:0.00, G:0.11, T:0.55
Consensus pattern (79 bp):
AAAATTTTTTATTTTTTATTTTATTAGTAAATAATGTATTTAAAAGAGGTGTGTATTTAGTTTTA
AATTTTAAATGATT
Found at i:1975472 original size:41 final size:41
Alignment explanation
Indices: 1975413--1975493 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
1975403 TATAAAATTG
1975413 AACTGATTTGAACCGAATTTCATTGTTTCCGACCAGTTTGT
1 AACTGATTTGAACCGAATTTCATTGTTTCCGACCAGTTTGT
*
1975454 AACTGATTTGAACTGAATTTCATTGTTTCCGACCAGTTTG
1 AACTGATTTGAACCGAATTTCATTGTTTCCGACCAGTTTG
1975494 GTTTTTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.40
Consensus pattern (41 bp):
AACTGATTTGAACCGAATTTCATTGTTTCCGACCAGTTTGT
Found at i:1980121 original size:2 final size:2
Alignment explanation
Indices: 1980114--1980158 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
1980104 CTGTCATGCC
1980114 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1980156 AT A
1 AT A
1980159 GCTTTGGTGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1980600 original size:12 final size:13
Alignment explanation
Indices: 1980579--1980629 Score: 61
Period size: 13 Copynumber: 3.9 Consensus size: 13
1980569 AATGCTTTTT
1980579 ATATTATTATTTA
1 ATATTATTATTTA
*
1980592 ATATT-TTATTTTTT
1 ATATTATTA--TTTA
1980606 ATATTATTATTTA
1 ATATTATTATTTA
1980619 ATATT-TTATTT
1 ATATTATTATTT
1980630 TTTACCAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 9 0.27
13 13 0.39
14 8 0.24
15 3 0.09
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTATTATTTA
Found at i:1980604 original size:27 final size:27
Alignment explanation
Indices: 1980574--1980633 Score: 120
Period size: 27 Copynumber: 2.2 Consensus size: 27
1980564 ACATCAATGC
1980574 TTTTTATATTATTATTTAATATTTTAT
1 TTTTTATATTATTATTTAATATTTTAT
1980601 TTTTTATATTATTATTTAATATTTTAT
1 TTTTTATATTATTATTTAATATTTTAT
1980628 TTTTTA
1 TTTTTA
1980634 CCAATTAGTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (27 bp):
TTTTTATATTATTATTTAATATTTTAT
Found at i:1980606 original size:15 final size:15
Alignment explanation
Indices: 1980582--1980633 Score: 65
Period size: 15 Copynumber: 3.7 Consensus size: 15
1980572 GCTTTTTATA
1980582 TTATTATTTAATATT
1 TTATTATTTAATATT
*
1980597 TTATT-TTT--TATA
1 TTATTATTTAATATT
1980609 TTATTATTTAATATT
1 TTATTATTTAATATT
*
1980624 TTATTTTTTA
1 TTATTATTTA
1980634 CCAATTAGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
12 8 0.26
13 3 0.10
14 3 0.10
15 17 0.55
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTATTTAATATT
Found at i:1981154 original size:2 final size:2
Alignment explanation
Indices: 1981149--1981191 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1981139 ATGTGTGTGC
1981149 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1981191 A
1 A
1981192 GTGGGTTTAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1981417 original size:15 final size:16
Alignment explanation
Indices: 1981381--1981417 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
1981371 AGATTTAATT
1981381 TAAAATGAATTTGAAA
1 TAAAATGAATTTGAAA
1981397 TAAAAT-AATTT-AAA
1 TAAAATGAATTTGAAA
1981411 TATAAAT
1 TA-AAAT
1981418 TTAACACATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 5 0.25
15 9 0.45
16 6 0.30
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.35
Consensus pattern (16 bp):
TAAAATGAATTTGAAA
Found at i:1985995 original size:21 final size:22
Alignment explanation
Indices: 1985950--1986003 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
1985940 TGGACATGTT
1985950 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
1985972 AAAAATGCATGAAACATAAT-A
1 AAAAATGCATGAAACATAATAA
1985993 AAAAATGCATG
1 AAAAATGCATG
1986004 GTCAAAGGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 12 0.38
22 20 0.62
ACGTcount: A:0.61, C:0.09, G:0.11, T:0.19
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:1986963 original size:20 final size:20
Alignment explanation
Indices: 1986916--1986990 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
1986906 AAAAAGACAT
*
1986916 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
1986935 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
1986956 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
1986976 AATGTATCGATACAT
1 AATGTATCGATACAT
1986991 CAGGGTATGA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:1986984 original size:40 final size:39
Alignment explanation
Indices: 1986913--1986990 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
1986903 GGTAAAAAGA
* *
1986913 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
1986952 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
1986991 CAGGGTATGA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:1987925 original size:29 final size:29
Alignment explanation
Indices: 1987504--1988904 Score: 1379
Period size: 28 Copynumber: 49.6 Consensus size: 29
1987494 AAAGTGGTGA
*
1987504 TTTGAAAAGGGTTGCCATTGACTTGCATGGGC
1 TTTGAAAAGGG-TGCCACTGACTTG--TGGGC
*
1987536 TTT-AAAAGGGTGCCACTAACTTGCGTGGGC
1 TTTGAAAAGGGTGCCACTGACTT--GTGGGC
** * *
1987566 TTTG-AAAGAATGCCACTAACTCGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* *
1987594 TTTG-AAAGGATGCCACTAACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1987622 TTTG-AAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* * **
1987650 TTTGAAAA-GGTACCATTGACTTGCGTAAGC
1 TTTGAAAAGGGTGCCACTGACTT--GTGGGC
1987680 TTT-AAAAGGAGTGCCACTGACTTGTGTGGGC
1 TTTGAAAAGG-GTGCCACTGAC-T-TGTGGGC
1987711 TTT-AAAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* *
1987739 TTTGAAAA-AGTGCCACTGAATTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* * *
1987767 TTCG-CAATGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1987795 TTCG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1987823 TTCG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* *
1987851 TCTG-AAAGGGTGCCACTAACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1987879 TCTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1987907 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* * *
1987936 TTTG-AAAGGAGTTCCACTAACTTGTGAGC
1 TTTGAAAAGG-GTGCCACTGACTTGTGGGC
* *
1987965 TTTGAAAAGAGTGCCACTGATTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1987994 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
1988023 TTTG-AAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGG-GTGCCACTGACTTGTGGGC
* *
1988052 TTTG-AAAGGGTGCCACTGAGTTGTGGGT
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
1988080 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1988108 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* * *
1988137 TTTGAAAAGAGTGCCACTAATTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
1988166 TTTG-AAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGG-GTGCCACTGACTTGTGGGC
1988195 TTTG-AAAGGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGG-GTGCCACTGACTTGTGGGC
*
1988224 TTTG-AAAGGAGTGCCACTAACTTGTGGGC
1 TTTGAAAAGG-GTGCCACTGACTTGTGGGC
1988253 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1988281 TTTGAAAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
1988310 TTTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
1988338 TTTG---A---TGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
1988361 TTT-AAAAGGGTGCCACTGACTTGCGTGGGC
1 TTTGAAAAGGGTGCCACTGACTT--GTGGGC
* *
1988391 TTTG-AAAGGATGCCACTGACTCGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1988419 TTTG-AAAGAGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1988447 TTTG-AAA-GGTGCCACTGACTCGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* *
1988474 TTTGAAAA-GGTACCACTGACTCGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
1988502 -TTG-AAAGGGTGCCACTGACTTGTGGGC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* * * * * *
1988529 TTT-AAAAAGATGCCACAGAGTTCTGGAC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* * * * * *
1988557 --TCAAAAAGGTGCCACGGAGTTATGGAC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* *
1988584 TTTGAAAAGGGTGCCACTGAGTTGTGGAC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* *
1988613 TTT--AAAGGGTGCCA-TGGAGTTGTGGAC
1 TTTGAAAAGGGTGCCACT-GACTTGTGGGC
* * * *
1988640 -TT-AAAAGGATGCCACGGAGTTGTGGAC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* *
1988667 TTT-AAAAGGGTGCCAC-GATGTTGTGGAC
1 TTTGAAAAGGGTGCCACTGA-CTTGTGGGC
* *
1988695 TTT-AAAAGGGTGCCAC-GATGTTGTGGAC
1 TTTGAAAAGGGTGCCACTGA-CTTGTGGGC
* * *
1988723 TTT--AAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* * * *
1988750 -TT-AAAAGGATGCCACGGAGTTGTGGAC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* *
1988777 TTT-AAAAGGGTGCCAC-GATGTTGTGGAC
1 TTTGAAAAGGGTGCCACTGA-CTTGTGGGC
* * * *
1988805 -TT-AAAAGGGTGCCACGGAGTGGTGGAC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
* * * *
1988832 TTTAAAAAGGGTGCCACGGAGTTGTGGAC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
** * * * *
1988861 TTT-AAAAGCATGCTACGGAGTTGTGGAC
1 TTTGAAAAGGGTGCCACTGACTTGTGGGC
*
1988889 TTT-AAAAGGATGCCAC
1 TTTGAAAAGGGTGCCAC
1988905 GGAGTTATGG
Statistics
Matches: 1229, Mismatches: 93, Indels: 98
0.87 0.07 0.07
Matches are distributed among these distances:
23 21 0.02
25 1 0.00
26 10 0.01
27 181 0.15
28 549 0.45
29 351 0.29
30 81 0.07
31 29 0.02
32 5 0.00
33 1 0.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (29 bp):
TTTGAAAAGGGTGCCACTGACTTGTGGGC
Found at i:1988039 original size:201 final size:200
Alignment explanation
Indices: 1987504--1988904 Score: 1433
Period size: 201 Copynumber: 7.1 Consensus size: 200
1987494 AAAGTGGTGA
* * *
1987504 TTTGAAAAGGGTTGCCATTGACTTGCATGGGCTTTAAAAGGGTGCCACTAACTTGCGTGGGCTTT
1 TTTGAAAAGGG-TGCCACTGACTTG--TGGGCTTTGAAAGAGTGCCACTAACTT--GTGGGCTTT
* * * * *
1987569 G-AAAGAATGCCACTAACTCGTGGGCTTTGAAAGGA-TGCCACTAACTTGTGGGCTTTGAAA-GA
61 GAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGA
* * * ** *
1987631 GTGCCACTGACTTGTGGGCTTTGAAAAGGTACCATTGACTTGCGTAAGCTTTAAAAGGAGTGCCA
126 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT--GTGGGCTTTGAAAGG-GTGCCA
1987696 CTGACTTGTGTGGGC
188 CTGAC-T-TGTGGGC
* * *
1987711 TTT-AAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAAGTGCCACTGAA-TTGTGGGCTTCGCAA
1 TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACT-AACTTGTGGGCTTTGAAA
* * * *
1987774 TG-GTGCCACTGACTTGTGGGCTTCG-AAAGGGTGCCACTGACTTGTGGGCTTCGAAAGG-GTGC
65 AGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGC
* * *
1987836 CACTGACTTGTGGGCTCTGAAAGGGTGCCACTAACTTGTGGGCTCTGAAAGGGTGCCACTGACTT
130 CACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
1987901 GTGGGC
195 GTGGGC
* * *
1987907 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTTCCACTAACTTGTGAGCTTTGAAA
1 TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAA-GAGTGCCACTAACTTGTGGGCTTTGAAA
*
1987972 AGAGTGCCACTGATTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGC
65 AGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGC
* *
1988037 CACTGACTTGTGGGCTTTGAAAGGGTGCCACTGAGTTGTGGGTTTTGAAAGGGTGCCACTGACTT
130 CACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTT
1988102 GTGGGC
195 GTGGGC
* *
1988108 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTAATTTGTGGGCTTTGAAA
1 TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGAGTGCCACTAACTTGTGGGCTTTGAAA
* *
1988173 GGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGC
65 AGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGC
* *
1988238 CACTAACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACT
130 CACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGACT
1988303 TGTGGGC
194 TGTGGGC
*
1988310 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTT----GA-TGCCACTGACTTGTGGGCTTT-AAAA
1 TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGGCTTTGAAAA
* * *
1988368 GGGTGCCACTGACTTGCGTGGGCTTTGAAAGGA-TGCCACTGACTCGTGGGCTTTGAAA-GAGTG
66 GAGTGCCACTGACTT--GTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTG
* * *
1988431 CCACTGACTTGTGGGCTTTGAAA-GGTGCCACTGACTCGTGGGCTTTGAAAAGGTACCACTGACT
129 CCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACT
*
1988495 CGTGGGC
194 TGTGGGC
* * * * **
1988502 -TTG-AAAGGGTGCCACTGACTTGTGGGCTTT-AAAAAGATGCCAC-AGAGTTCTGGAC-TCAAA
1 TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAG-TGCCACTA-ACTTGTGGGCTTTGAA
* * * * * * *
1988562 AAG-GTGCCACGGAGTTATGGACTTTGAAAAGGGTGCCACTGAGTTGTGGACTTT-AAAGG-GTG
64 AAGAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTG
* * * * * * * *
1988624 CCA-TGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGGGTGCCAC-GAT
129 CCACT-GACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA-
* *
1988686 GTTGTGGAC
192 CTTGTGGGC
* * * ** * *
1988695 TTT-AAAAGGGTGCCAC-GATGTTGTGGACTTT-AAAGGGTGCCACGGAGTTGTGGAC-TT-AAA
1 TTTGAAAAGGGTGCCACTGA-CTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGGCTTTGAAA
* * * * * * *
1988755 AG-GATGCCACGGAGTTGTGGACTTT-AAAAGGGTGCCAC-GATGTTGTGGAC-TTAAAAGG-GT
65 AGAG-TGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGA-CTTGTGGGCTTTGAAAGGAGT
* * * * * * * * * ** * *
1988815 GCCACGGAGTGGTGGACTTTAAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGCATGCTACGGA
128 GCCACTGACTTGTGGGCTTT-GAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGA
* *
1988880 GTTGTGGAC
192 CTTGTGGGC
*
1988889 TTT-AAAAGGATGCCAC
1 TTTGAAAAGGGTGCCAC
1988905 GGAGTTATGG
Statistics
Matches: 1052, Mismatches: 105, Indels: 87
0.85 0.08 0.07
Matches are distributed among these distances:
191 34 0.03
192 77 0.07
193 127 0.12
194 153 0.15
195 57 0.05
196 46 0.04
197 34 0.03
198 32 0.03
199 32 0.03
200 34 0.03
201 347 0.33
202 34 0.03
203 21 0.02
204 2 0.00
205 12 0.01
206 7 0.01
207 3 0.00
ACGTcount: A:0.23, C:0.17, G:0.32, T:0.27
Consensus pattern (200 bp):
TTTGAAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGAGTGCCACTAACTTGTGGGCTTTGAAAA
GAGTGCCACTGACTTGTGGGCTTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGAGTGCC
ACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTG
TGGGC
Found at i:1990278 original size:36 final size:36
Alignment explanation
Indices: 1990238--1990312 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 36
1990228 TGTTGTTCCC
1990238 TTTTTT-T-ATTTTGCTTTTGCACTTTTTTCTTT-TCA
1 TTTTTTGTGATTTTGCTTTTG-ACTTTTTT-TTTGTCA
*
1990273 TTTTTTGTGCTTTTGCTTTTGACTTTTTTTTTGTCA
1 TTTTTTGTGATTTTGCTTTTGACTTTTTTTTTGTCA
1990309 TTTT
1 TTTT
1990313 GAAGGGAACT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
35 9 0.25
36 16 0.44
37 11 0.31
ACGTcount: A:0.07, C:0.12, G:0.09, T:0.72
Consensus pattern (36 bp):
TTTTTTGTGATTTTGCTTTTGACTTTTTTTTTGTCA
Found at i:1992040 original size:6 final size:6
Alignment explanation
Indices: 1992031--1992057 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1992021 TAAAAATTAA
1992031 AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAA
1992058 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:1992270 original size:49 final size:50
Alignment explanation
Indices: 1992186--1992298 Score: 183
Period size: 49 Copynumber: 2.3 Consensus size: 50
1992176 AATAGAAAAT
* *
1992186 GCATGCATGGGAAAGCATAAAGATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAACACAAAGATTGCAATTGGAGACAAAACATGCAGAG
*
1992236 GCATGCATGGGAAAACACAAA-ATTGCAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAACACAAAGATTGCAATTGGAGACAAAACATGCAGAG
*
1992285 ACATGCATGGGAAA
1 GCATGCATGGGAAA
1992299 TGAAAAAAGC
Statistics
Matches: 59, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
49 40 0.68
50 19 0.32
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.15
Consensus pattern (50 bp):
GCATGCATGGGAAAACACAAAGATTGCAATTGGAGACAAAACATGCAGAG
Found at i:1993907 original size:51 final size:50
Alignment explanation
Indices: 1993852--1993978 Score: 150
Period size: 53 Copynumber: 2.5 Consensus size: 50
1993842 CAATTGCTCG
1993852 TAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTCCTT-
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTT--TTA
* **
1993903 TAATCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCA
1 TAATC--GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTT-A
*
1993956 CAATCGGGGATACTCCAACCCCG
1 TAATCGGGGATACTCCAACCCCG
1993979 TTATTTCCGA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
51 25 0.37
53 41 0.61
54 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (50 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTA
Found at i:1994040 original size:79 final size:79
Alignment explanation
Indices: 1993907--1994377 Score: 773
Period size: 79 Copynumber: 6.0 Consensus size: 79
1993897 TTCCTTTAAT
* * *
1993907 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
1993972 AACCCCGTTATTTC
66 AACCCCGTTATTTC
*
1993986 CGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
1994051 AATCCCGTTATTTC
66 AACCCCGTTATTTC
* *
1994065 TGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
1994130 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * * *
1994144 CGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCACAATCGGGGATGCTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
1994208 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * *
1994222 CGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
1994287 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* *
1994301 CGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
1994366 AACCCCGTTATT
66 AACCCCGTTATT
1994378 ATCTCCAAAA
Statistics
Matches: 366, Mismatches: 25, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
78 73 0.20
79 293 0.80
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
AACCCCGTTATTTC
Found at i:1994326 original size:236 final size:237
Alignment explanation
Indices: 1993906--1994377 Score: 838
Period size: 236 Copynumber: 2.0 Consensus size: 237
1993896 TTTCCTTTAA
1993906 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1993971 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
66 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
* *
1994036 AATCGGGGATACTCCAATCCCGTTATTTCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
131 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
1994101 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
196 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
*
1994143 TCGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCACAATCGGGGATGCTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
* * * * *
1994207 CAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCAT
66 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
*
1994272 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAA
131 AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
* *
1994337 CATCAATTTTTCATAATCGGGGATACTCTAACCCCGTTATT
196 CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATT
1994378 ATCTCCAAAA
Statistics
Matches: 224, Mismatches: 11, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
236 201 0.90
237 23 0.10
ACGTcount: A:0.26, C:0.25, G:0.15, T:0.33
Consensus pattern (237 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
AATCGGGGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAA
CACCAATTTTTCATAATCGGGGATACTCCAACCCCGTTATTT
Found at i:2007844 original size:60 final size:60
Alignment explanation
Indices: 2007751--2008374 Score: 761
Period size: 60 Copynumber: 10.3 Consensus size: 60
2007741 CTTTCACCCT
*
2007751 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTAGTGGCACC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC
* *
2007811 TTTAGTCTTCAAAGAGCAGGACG-CTTTCGCCTTTTAAAGCCCACACAAGCTGGTGGCACC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGCTGGTGGCACC
*
2007871 TTTAGTCCTCAAAGAGCATGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC
* * * * * *
2007931 TTTAGTCTTCAAAGAGCAGGAC-ACTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGCTGGTGGCACC
* *
2007991 TTTCCGGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACC
1 TTT--AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC
**
2008053 TTTTCAGTTCCTC--A-A--AGGA--CCTTCGCCTTTT-AAG-CCACACAAGCTGGTGGCACC
1 -TTT-AG-TCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC
2008107 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC
* * * * * *
2008167 TTTAGTCTTCAAAGAGCAGGAC-ACTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
1 TTTAGTCCTCAAAGAGCAGGACGCCTTT-TCCTTTTAAAGCCCACACAAGCTGGTGGCAC-C
* * *
2008228 TTTCAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACCCAAGTTGGTGGCACT
1 TTT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGCTGGTGGCACC
* * * *
2008289 TTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTTAAAAAGCCTACACGAGTTGGTGGCACC
1 TTT--AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT--AAAGCCCACACAAGCTGGTGGCACC
*
2008353 TTCCAGTCCTCAAAGAGCAGGA
1 TT-TAGTCCTCAAAGAGCAGGA
2008375 TATACTTTAT
Statistics
Matches: 495, Mismatches: 43, Indels: 49
0.84 0.07 0.08
Matches are distributed among these distances:
51 5 0.01
52 2 0.00
53 4 0.01
54 21 0.04
55 3 0.01
56 13 0.03
58 14 0.03
59 15 0.03
60 225 0.45
61 16 0.03
62 116 0.23
63 38 0.08
64 23 0.05
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (60 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC
Found at i:2007964 original size:120 final size:120
Alignment explanation
Indices: 2007751--2008374 Score: 847
Period size: 120 Copynumber: 5.2 Consensus size: 120
2007741 CTTTCACCCT
*
2007751 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTAGTGGCACCTTTAG
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAG
* *
2007816 TCTTCAAAGAGCAGGACGCTTTCGCCTTTTAAAGCCCACACAAGCTGGTGGCACC
66 TCTTCAAAGAGCAGGACACTTTCGCCTTTTAAAGCCCACACAAGTTGGTGGCACC
*
2007871 TTTAGTCCTCAAAGAGCATGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAG
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAG
* *
2007936 TCTTCAAAGAGCAGGACACTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACT
66 TCTTCAAAGAGCAGGACACTTTCGCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
2007991 TTTCCGGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTT
1 TTT--AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACC-TT
* *
2008056 TCAGTTCCTC--A-A--AGGAC-C-TTCGCCTTTT-AAG-CCACACAAGCTGGTGGCACC
63 T-AG-TCTTCAAAGAGCAGGACACTTTCGCCTTTTAAAGCCCACACAAGTTGGTGGCACC
2008107 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAG
1 TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAG
* *
2008172 TCTTCAAAGAGCAGGACACTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTT
66 TCTTCAAAGAGCAGGACACTTTCGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-C
* * *
2008228 TTTCAGTCCTCAAAGAGCAGGACGCCTTTT-CTTTTCAAAGCCCACCCAAGTTGGTGGCACTTTT
1 TTT-AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT-AAAGCCCACACAAGCTGGTGGCACCTTT
* * * * * *
2008292 CCAGTCCTCAAAGAGCAGGACGCCTTT-TCTTTTTAAAAAGCCTACACGAGTTGGTGGCACC
64 --AGTCTTCAAAGAGCAGGAC-ACTTTCGCCTTTT--AAAGCCCACACAAGTTGGTGGCACC
*
2008353 TTCCAGTCCTCAAAGAGCAGGA
1 TT-TAGTCCTCAAAGAGCAGGA
2008375 TATACTTTAT
Statistics
Matches: 450, Mismatches: 31, Indels: 41
0.86 0.06 0.08
Matches are distributed among these distances:
111 4 0.01
112 2 0.00
113 4 0.01
114 56 0.12
116 26 0.06
117 4 0.01
118 18 0.04
119 4 0.01
120 140 0.31
121 8 0.02
122 106 0.24
123 4 0.01
124 24 0.05
125 28 0.06
126 22 0.05
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (120 bp):
TTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAG
TCTTCAAAGAGCAGGACACTTTCGCCTTTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:2008174 original size:236 final size:239
Alignment explanation
Indices: 2007754--2008304 Score: 909
Period size: 236 Copynumber: 2.3 Consensus size: 239
2007744 TCACCCTTTT
* *
2007754 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTAGTGGCACC-TTT-AGT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGT
*
2007817 CTTCAAAGAGCAGGACGCTTTCGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCA
66 CCTC--A-A--AGGACGCTTTCGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCA
*
2007882 AAGAGCATGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAG
126 AAGAGCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAG
2007947 CAGGACACTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCC
191 CAGGACACTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCC
*
2007996 GGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAG-
2008061 TCCTCAAAGGAC-C-TTCGCCTTTT-AAG-CCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGA
65 TCCTCAAAGGACGCTTTCGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGA
2008122 GCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGG
130 GCAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGG
*
2008187 ACACTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTC
195 ACACTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCC
* * *
2008232 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACCCAAGTTGGTGGCA-CTTTTCCAG
1 AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTT-CAG
2008296 TCCTCAAAG
65 TCCTCAAAG
2008305 AGCAGGACGC
Statistics
Matches: 295, Mismatches: 10, Indels: 15
0.92 0.03 0.05
Matches are distributed among these distances:
235 14 0.05
236 197 0.67
237 3 0.01
238 10 0.03
239 1 0.00
240 5 0.02
242 55 0.19
243 4 0.01
244 2 0.01
245 4 0.01
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.26
Consensus pattern (239 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGT
CCTCAAAGGACGCTTTCGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAG
CAGGACGCCTTTTCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGA
CACTTTCGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCC
Found at i:2009072 original size:6 final size:6
Alignment explanation
Indices: 2009063--2009089 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
2009053 TAAAAATTAA
2009063 AAATTC AAATTC AAATTC AAATTC AAA
1 AAATTC AAATTC AAATTC AAATTC AAA
2009090 AAATAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (6 bp):
AAATTC
Found at i:2009282 original size:50 final size:49
Alignment explanation
Indices: 2009220--2009382 Score: 272
Period size: 50 Copynumber: 3.3 Consensus size: 49
2009210 AATAGAAAAT
2009220 GCATGCATGGGAAAGCATAAAGATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAA-ATTGCAATTGGAGACAAAACATGCAGAG
* * *
2009270 GCATGCATGGGAAAACACAAAATTGCAATTGGAGACAAAACATGCGGAG
1 GCATGCATGGGAAAGCATAAAATTGCAATTGGAGACAAAACATGCAGAG
2009319 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCAT-AAAATTGCAATTGGAGACAAAACATGCAGAG
*
2009369 ACATGCATGGGAAA
1 GCATGCATGGGAAA
2009383 TGAAAAAAGC
Statistics
Matches: 105, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
49 43 0.41
50 62 0.59
ACGTcount: A:0.43, C:0.15, G:0.27, T:0.15
Consensus pattern (49 bp):
GCATGCATGGGAAAGCATAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:2011032 original size:52 final size:50
Alignment explanation
Indices: 2010934--2011059 Score: 157
Period size: 52 Copynumber: 2.5 Consensus size: 50
2010924 CAATTGCTCG
2010934 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTT-
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT--TTA
* **
2010985 TAATCGAGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTTTTCA
1 TAATCG-GGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTT-A
*
2011037 CAATCGGGGATACTCCAACCCCG
1 TAATCGGGGATACTCCAACCCCG
2011060 TTATTTCCGA
Statistics
Matches: 67, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
50 2 0.03
51 27 0.40
52 38 0.57
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (50 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTTTA
Found at i:2011123 original size:79 final size:79
Alignment explanation
Indices: 2010992--2011459 Score: 758
Period size: 79 Copynumber: 5.9 Consensus size: 79
2010982 CTTTAATCGA
* * *
2010992 GGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
2011057 CCGTTATTTCCGAG
66 CCGTTATTTCCGAG
* *
2011071 GGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAATC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
* *
2011136 CCATTATTTCTGAG
66 CCGTTATTTCCGAG
*
2011150 GGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
*
2011215 CCGTTATTTTCGAG
66 CCGTTATTTCCGAG
* * * *
2011229 GGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCACAATCGGGGATGCTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
*
2011293 CCGTTATTTTCGAG
66 CCGTTATTTCCGAG
* * *
2011307 GGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCCAACC
1 GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
2011372 CCGTTATTTCCGAG
66 CCGTTATTTCCGAG
*
2011386 GGGAATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCTAAC
1 GGG-ATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAAC
2011451 CCCGTTATT
65 CCCGTTATT
2011460 ATCTCCAAAA
Statistics
Matches: 361, Mismatches: 26, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
78 73 0.20
79 222 0.61
80 66 0.18
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (79 bp):
GGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCCAACC
CCGTTATTTCCGAG
Found at i:2011347 original size:157 final size:158
Alignment explanation
Indices: 2010988--2011459 Score: 779
Period size: 157 Copynumber: 3.0 Consensus size: 158
2010978 TTTCCTTTAA
*
2010988 TCGA-GGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTC
2011052 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
66 CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
* *
2011117 AATCGGGGATACTCCAATCCCATTA-TT
131 AATCGGGGATACTCCAACCCCGTTATTT
* **
2011144 TCTGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACT
1 TC-GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACT
* * *
2011209 CCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCA
65 CCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCA
* *
2011273 CAATCGGGGATGCTCCAACCCCGTTATTT
130 TAATCGGGGATACTCCAACCCCGTTATTT
*
2011302 TCGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTC
1 TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTC
*
2011367 CAACCCCGTTATTTCCGAGGGGAATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCA
66 CAACCCCGTTATTTCCGAGGGG-ATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCA
*
2011432 TAATCGGGGATACTCTAACCCCGTTATT
130 TAATCGGGGATACTCCAACCCCGTTATT
2011460 ATCTCCAAAA
Statistics
Matches: 290, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
156 2 0.01
157 128 0.44
158 111 0.38
159 49 0.17
ACGTcount: A:0.27, C:0.25, G:0.15, T:0.33
Consensus pattern (158 bp):
TCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCATAATCGGGGATACTC
CAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCAT
AATCGGGGATACTCCAACCCCGTTATTT
Found at i:2023851 original size:1 final size:1
Alignment explanation
Indices: 2023845--2023869 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
2023835 CTTCTCTTCT
2023845 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
2023870 CCGAAAGGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:2024997 original size:60 final size:60
Alignment explanation
Indices: 2024871--2025654 Score: 979
Period size: 60 Copynumber: 12.9 Consensus size: 60
2024861 AGAGTAGGAC
* ** *
2024871 GCCTTTTAAAGCCCACAC-AGTTGGTGGCATTTTTCTAGTCCTCAAAGAGTAGGACGCCTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCA-CCTTC-AGTCCTCAAAGAGCAGGACGCCTTT
* * *
2024932 TCCTTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCTTCAAAGAGCAGGACG-CTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
*
2024991 CGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTT
1 -GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * *
2025052 TCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACG-CTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * * *
2025111 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCGGTCCTCAAAGAGCAGGACGCCTTT
1 -GCCTTTTAAAGCCCACACAAGCTGGTGGCAC-CTT-CAGTCCTCAAAGAGCAGGACGCCTTT
* * * *
2025174 TCCTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAA-AGCAGGACACCTTC
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACC--TTCAGTCCTCAAAGAGCAGGACGCCTTT
*
2025235 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * * *
2025295 TCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTTC
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* *
2025355 GCCTTTTTAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * * *
2025415 TCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGAC-ACTTT
1 GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * *
2025474 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTT
1 -GCCTTTTAAAGCCCACACAAGCTGGTGGCAC--CTTCAGTCCTCAAAGAGCAGGACGCCTTT
* * * * *
2025537 -TCTTTTCAAAGCCCACGCAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGATGCCTTT
1 GCCTTTT-AAAGCCCACACAAGCTGGTGGCAC-CTT-CAGTCCTCAAAGAGCAGGACGCCTTT
* * * *
2025599 -TCTTTTCAAAAAGCCCACACGAGTTGGTGGCACCTTCCAGTCTTCAAAGAGCAGGA
1 GCCTTTT---AAAGCCCACACAAGCTGGTGGCACCTT-CAGTCCTCAAAGAGCAGGA
2025655 TACACTTTAT
Statistics
Matches: 643, Mismatches: 62, Indels: 34
0.87 0.08 0.05
Matches are distributed among these distances:
59 24 0.04
60 350 0.54
61 76 0.12
62 140 0.22
63 31 0.05
64 22 0.03
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.25
Consensus pattern (60 bp):
GCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACGCCTTT
Found at i:2025065 original size:120 final size:120
Alignment explanation
Indices: 2024870--2025654 Score: 1096
Period size: 120 Copynumber: 6.5 Consensus size: 120
2024860 AAGAGTAGGA
** *
2024870 CGCCTTTTAAAGCCCACAC-AGTTGGTGGCATTTTTCTAGTCCTCAAAGAGTAGGACGCCTTTTC
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTC
* * *
2024934 CTTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCTTCAAAGAGCAGGACGCTTT
64 CTTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACTTT
*
2024991 CGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* * *
2025056 TTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACGCTTT
66 TTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACTTT
* * *
2025111 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTCCGGTCCTCAAAGAGCAGGACGCCTTTTC
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT--AGTCCTCAAAGAGCAGGACGCCTTTTC
* *
2025176 CTTTCAAAGCCCACACAAGCTGGTGGCACCTTTTCAGTCCTCAAA-AGCAGGACACCTT
64 CTTTTAAAGCCCACACAAGCTGGTGGCACC--TTCAGTCCTCAAAGAGCAGGACACTTT
*
2025234 CGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* *
2025299 TTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTT
66 TTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACTTT
* *
2025354 CGCCTTTTTAAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
* *
2025419 TTTAAAGCCCACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTT
66 TTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACTTT
* *
2025474 CGCCTTTCAAAGCCCACACAAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTT-
1 CGCCTTTTAAAGCCCACACAAGTTGGTGGCAC-CTTT-AGTCCTCAAAGAGCAGGACGCCTTTTC
* * *
2025538 CTTTTCAAAGCCCACGCAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGATGC-CTTT
64 CTTTT-AAAGCCCACACAAGCTGGTGGCAC-CTT-CAGTCCTCAAAGAGCAGGA--CACTTT
* * * *
2025599 --TCTTTTCAAAAAGCCCACACGAGTTGGTGGCACCTTCCAGTCTTCAAAGAGCAGGA
1 CGCCTTTT---AAAGCCCACACAAGTTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGA
2025655 TACACTTTAT
Statistics
Matches: 607, Mismatches: 40, Indels: 30
0.90 0.06 0.04
Matches are distributed among these distances:
119 13 0.02
120 272 0.45
121 84 0.14
122 113 0.19
123 50 0.08
124 28 0.05
125 23 0.04
126 24 0.04
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (120 bp):
CGCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
TTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAGAGCAGGACACTTT
Found at i:2025579 original size:363 final size:364
Alignment explanation
Indices: 2024870--2025654 Score: 1281
Period size: 363 Copynumber: 2.1 Consensus size: 364
2024860 AAGAGTAGGA
** *
2024870 CGCCTTTTAAAGCCCACACAGTTGGTGGCATTTTTCTAGTCCTCAAAGAGTAGGACGCCTTTTCC
1 CGCCTTTTAAAGCCCACACAGTTGGTGGCA-CCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCC
* * * *
2024935 TTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCTTCAAAGAGCAGGACGCTTTCGCCTTTTA
65 TTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTTTTA
2025000 AAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCC
130 AAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCC
*
2025065 CACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACGCTTTCGCCTTTCAAAGCCCACAC
195 CACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCGCCTTTCAAAGCCCACAC
*
2025130 AAGTTGGTGGCACTTTTCCGGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAG
260 AAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAG
2025195 CTGGTGGCACCTTTTCAGTCCTCAAA-AGCAGGACACCTT
325 CTGGTGGCACCTTTTCAGTCCTCAAAGAGCAGGACACCTT
*
2025234 CGCCTTTTAAAGCCCACACAAGCTGGTGGCACCTT-TAGTCCTCAAAGAGCAGGACGCCTTTTCC
1 CGCCTTTTAAAGCCCACAC-AGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCC
* *
2025298 TTTTAAAGCCCACACAAGCTGGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTTTTT
65 TTTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTTTTA
2025363 AAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCC
130 AAGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCC
2025428 CACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCGCCTTTCAAAGCCCACAC
195 CACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCGCCTTTCAAAGCCCACAC
* * *
2025493 AAGTTGGTGGCACTTTTTCAGTCCTCAAAGAGCAGGACGCCTTTTCTTTTCAAAGCCCACGCAAG
260 AAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAG
* **
2025558 TTGGTGGCA-CTTTTCCAGTCCTCAAAGAGCAGGATGCCTT
325 CTGGTGGCACCTTTT-CAGTCCTCAAAGAGCAGGACACCTT
** * *
2025598 -TTCTTTTCAAAAAGCCCACACGAGTTGGTGGCACCTTCCAGTCTTCAAAGAGCAGGA
1 CGCCTTTT---AAAGCCCACAC-AGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGA
2025655 TACACTTTAT
Statistics
Matches: 390, Mismatches: 24, Indels: 11
0.92 0.06 0.03
Matches are distributed among these distances:
362 5 0.01
363 301 0.77
364 32 0.08
365 10 0.03
366 25 0.06
367 17 0.04
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.25
Consensus pattern (364 bp):
CGCCTTTTAAAGCCCACACAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCT
TTTAAAGCCCACACAAGCTAGTGGCACCTTCAGTCCTCAAAAAGCAGGACACCTTCGCCTTTTAA
AGCCCACACAAGCTGGTGGCACCTTTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAAAGCCC
ACACAAGCTGGTGGCACCTTTAGTCTTCAAAGAGCAGGACACTTTCGCCTTTCAAAGCCCACACA
AGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTCAAAGCCCACACAAGC
TGGTGGCACCTTTTCAGTCCTCAAAGAGCAGGACACCTT
Found at i:2026376 original size:12 final size:12
Alignment explanation
Indices: 2026359--2026385 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
2026349 TAAAAATTAA
2026359 AAATTCAAATTC
1 AAATTCAAATTC
2026371 AAATTCAAATTC
1 AAATTCAAATTC
2026383 AAA
1 AAA
2026386 AAATAATAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.30
Consensus pattern (12 bp):
AAATTCAAATTC
Found at i:2026683 original size:49 final size:50
Alignment explanation
Indices: 2026515--2026675 Score: 247
Period size: 50 Copynumber: 3.3 Consensus size: 50
2026505 AATAGAAAAT
*
2026515 GCATGCATGGGAAAGCATAAAGATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
* * * *
2026565 GCATGCATGGGAAA--ACACAAATTGCAATTAGAGACAAAACATGC-GGG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
2026612 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
1 GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
*
2026662 ACATGCATGGGAAA
1 GCATGCATGGGAAA
2026676 TGAAAAAAGC
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
47 16 0.16
48 26 0.27
49 27 0.28
50 29 0.30
ACGTcount: A:0.43, C:0.15, G:0.27, T:0.16
Consensus pattern (50 bp):
GCATGCATGGGAAAGCATAAAAATTGCAATTGGAGACAAAACATGCAGAG
Found at i:2027304 original size:37 final size:39
Alignment explanation
Indices: 2027226--2027325 Score: 116
Period size: 43 Copynumber: 2.5 Consensus size: 39
2027216 CTCCAGTAGC
2027226 CAACGACTGCAACTCCAGCACGCAACAACAGCAGCAACTCCAG
1 CAACGACTGCAACTCCAGCACG--ACAACAGCAG--ACTCCAG
2027269 CAACGACTGCAACTCCAGCACG-CAACAGCAG-CTCCAG
1 CAACGACTGCAACTCCAGCACGACAACAGCAGACTCCAG
* *
2027306 CGA-GAGCAGCAACTCCAGCA
1 CAACGA-CTGCAACTCCAGCA
2027326 GGTAGCAATT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
36 2 0.04
37 21 0.39
40 9 0.17
43 22 0.41
ACGTcount: A:0.35, C:0.39, G:0.19, T:0.07
Consensus pattern (39 bp):
CAACGACTGCAACTCCAGCACGACAACAGCAGACTCCAG
Found at i:2027321 original size:18 final size:18
Alignment explanation
Indices: 2027255--2027325 Score: 74
Period size: 18 Copynumber: 3.9 Consensus size: 18
2027245 ACGCAACAAC
2027255 AGCAGCAACTCCAGCAACG
1 AGCAGCAACTCCAGC-ACG
*
2027274 A-CTGCAACTCCAGCACG
1 AGCAGCAACTCCAGCACG
* *
2027291 CAACAGCAGCTCCAGCGA-G
1 -AGCAGCAACTCCAGC-ACG
2027310 AGCAGCAACTCCAGCA
1 AGCAGCAACTCCAGCA
2027326 GGTAGCAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
17 4 0.09
18 26 0.59
19 13 0.30
20 1 0.02
ACGTcount: A:0.34, C:0.38, G:0.21, T:0.07
Consensus pattern (18 bp):
AGCAGCAACTCCAGCACG
Found at i:2028360 original size:53 final size:50
Alignment explanation
Indices: 2028252--2028377 Score: 139
Period size: 53 Copynumber: 2.4 Consensus size: 50
2028242 AATTGCTCGT
* *
2028252 AATCGGAGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCCTTT
1 AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTT-CTTC
* **
2028303 AATCGAGGGGATACTCCAACCCCGGTTTTA-TTTCTAAAATATTAATTT-TTCAC
1 AATC--GGGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTCTT--C
2028356 AATCGGGGATACTCCAACCCCG
1 AATCGGGGATACTCCAACCCCG
2028378 TTATTTCCGA
Statistics
Matches: 65, Mismatches: 5, Indels: 10
0.81 0.06 0.12
Matches are distributed among these distances:
51 24 0.37
52 4 0.06
53 37 0.57
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.31
Consensus pattern (50 bp):
AATCGGGGATACTCCAACCCCGGTTTTATTTTCAAAACACCAATTTCTTC
Found at i:2028439 original size:79 final size:79
Alignment explanation
Indices: 2028306--2028775 Score: 755
Period size: 79 Copynumber: 6.0 Consensus size: 79
2028296 TTCCTTTAAT
* * *
2028306 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
2028371 AACCCCGTTATTTC
66 AACCCCGTTATTTC
*
2028385 CGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
2028450 AATCCCGTTATTTC
66 AACCCCGTTATTTC
* * *
2028464 TGAGGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
*
2028529 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * *
2028543 CGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
* *
2028607 AACCTCGTTATTTT
66 AACCCCGTTATTTC
* * * *
2028621 TGAGGGGATACTCCAACCCCGG-TTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
2028685 AACCCCGTTATTTC
66 AACCCCGTTATTTC
*
2028699 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
2028764 AACCCCGTTATT
66 AACCCCGTTATT
2028776 ATCTCCAAAA
Statistics
Matches: 362, Mismatches: 28, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
78 144 0.40
79 218 0.60
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAATCGGGGATACTCC
AACCCCGTTATTTC
Found at i:2028650 original size:30 final size:28
Alignment explanation
Indices: 2028596--2028651 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 28
2028586 TTTCACAATC
*
2028596 GGGGATACTCCAACCTCGTTATTTTTGA
1 GGGGATACTCCAACCCCGTTATTTTTGA
2028624 GGGGATACTCCAACCCCGGTTTATTTTT
1 GGGGATACTCCAACCCC-G-TTATTTTT
2028652 AAAATATTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
28 16 0.64
29 1 0.04
30 8 0.32
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTATTTTTGA
Found at i:2028726 original size:157 final size:156
Alignment explanation
Indices: 2028307--2028775 Score: 787
Period size: 157 Copynumber: 3.0 Consensus size: 156
2028297 TCCTTTAATC
* *
2028307 GAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCCA
1 GAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCCA
2028372 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTTCATAA
66 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAACATCAATTTTTCATAA
2028437 TCGGGGATACTCCAATCCCGTTATTTCT
130 TCGGGGATACTCCAA-CCCGTTATTTCT
* **
2028465 GAGGGGATACTCCAACCCCGGTTTTATTTTTAAAACACCAATTTTTCATAATCGGGGATACTCCA
1 GAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCCA
* * * *
2028530 ACCCCGTTATTTTCGAGGGGATACTCCAACCCCGGTTTATTTCTAAAATATTAATTTTTCACAAT
66 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTATTTCTAAAACATCAATTTTTCATAAT
*
2028595 CGGGGATACTCCAACCTCGTTATTTTT
131 CGGGGATACTCCAACC-CGTTATTTCT
2028622 GAGGGGATACTCCAACCCCGG-TTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCCA
1 GAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCCA
2028686 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCATAA
66 ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGG-TTTATTTCTAAAACATCAATTTTTCATAA
*
2028751 TCGGGGATACTCTAACCCCGTTATT
130 TCGGGGATACTCCAA-CCCGTTATT
2028776 ATCTCCAAAA
Statistics
Matches: 290, Mismatches: 18, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
156 76 0.26
157 118 0.41
158 96 0.33
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (156 bp):
GAGGGGATACTCCAACCCCGGTTTTATTTTTAAAATATTAATTTTTCATAATCGGGGATACTCCA
ACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTATTTCTAAAACATCAATTTTTCATAAT
CGGGGATACTCCAACCCGTTATTTCT
Done.