Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, whole genome shotgun sequence
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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 53 of 147
Found at i:10181974 original size:22 final size:22
Alignment explanation
Indices: 10181946--10181992 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 22
10181936 ATATATACTT
10181946 TTTTATTATTTTT-TATCTTTTA
1 TTTTATTATTTTTGTAT-TTTTA
10181968 TTTTATTATTTTTGTATTTTTA
1 TTTTATTATTTTTGTATTTTTA
10181990 TTT
1 TTT
10181993 GTCTAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (22 bp):
TTTTATTATTTTTGTATTTTTA
Found at i:10181976 original size:8 final size:7
Alignment explanation
Indices: 10181946--10181992 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
10181936 ATATATACTT
10181946 TTTTATTA
1 TTTT-TTA
10181954 TTTTTTA
1 TTTTTTA
*
10181961 TCTTTTA
1 TTTTTTA
10181968 TTTTATTA
1 TTTT-TTA
10181976 TTTTTGTA
1 TTTTT-TA
10181984 -TTTTTA
1 TTTTTTA
10181990 TTT
1 TTT
10181993 GTCTAATTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
6 2 0.06
7 19 0.56
8 13 0.38
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (7 bp):
TTTTTTA
Found at i:10182368 original size:25 final size:25
Alignment explanation
Indices: 10182339--10182392 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
10182329 CTGGGAGTGA
*
10182339 GAAAAAATTTTT-AGAAATTTTTGG
1 GAAAAAATTTTTCAAAAATTTTTGG
*
10182363 TGAAAAATTTTTTCAAAAATTTTTGG
1 -GAAAAAATTTTTCAAAAATTTTTGG
10182389 GAAA
1 GAAA
10182393 TTTTCAGATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.43, C:0.02, G:0.15, T:0.41
Consensus pattern (25 bp):
GAAAAAATTTTTCAAAAATTTTTGG
Found at i:10182936 original size:10 final size:10
Alignment explanation
Indices: 10182904--10183050 Score: 76
Period size: 10 Copynumber: 14.7 Consensus size: 10
10182894 TTTTGAATTC
10182904 TTTATTTATT
1 TTTATTTATT
* *
10182914 TGT-TTTATC
1 TTTATTTATT
10182923 TTTATTTATT
1 TTTATTTATT
10182933 TTTATTTATT
1 TTTATTTATT
*
10182943 AGATTAGATTTATT
1 ---TT-TATTTATT
* *
10182957 TAATATTTTTT
1 T-TTATTTATT
10182968 CTTTATCTTATT
1 -TTTAT-TTATT
10182980 TTTA-TT-TT
1 TTTATTTATT
* *
10182988 TGT-TTTACT
1 TTTATTTATT
*
10182997 TTTCTTTAATT
1 TTTATTT-ATT
10183008 TTT-TTTATT
1 TTTATTTATT
10183017 TTTATTTATT
1 TTTATTTATT
* *
10183027 TTCACTT-TT
1 TTTATTTATT
10183036 TTTA-TTA-T
1 TTTATTTATT
10183044 TTTATTT
1 TTTATTT
10183051 TCTTTAAAGA
Statistics
Matches: 105, Mismatches: 17, Indels: 31
0.69 0.11 0.20
Matches are distributed among these distances:
8 13 0.12
9 25 0.24
10 34 0.32
11 19 0.18
12 5 0.05
13 2 0.02
14 7 0.07
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.73
Consensus pattern (10 bp):
TTTATTTATT
Found at i:10183012 original size:46 final size:46
Alignment explanation
Indices: 10182904--10183028 Score: 121
Period size: 47 Copynumber: 2.7 Consensus size: 46
10182894 TTTTGAATTC
*
10182904 TTTATTT-ATTTGTTTTATCTTTATTTATTTTTATTTATTAGATTAGA
1 TTTATTTAATTT-TTTT-TCTTTATTTATTTTTATTTATTAGATTACA
* * *
10182951 TTTATTTAATATTTTTTCTTTATCTTATTTTTATTT-TT-GTTTTACT
1 TTTATTTAATTTTTTTTCTTTAT-TTATTTTTATTTATTAG-ATTACA
* *
10182997 TTTCTTTAATTTTTTTTATTTTTATTTATTTT
1 TTTATTTAA-TTTTTTT-TCTTTATTTATTTT
10183029 CACTTTTTTT
Statistics
Matches: 66, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
45 1 0.02
46 20 0.30
47 36 0.55
48 9 0.14
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (46 bp):
TTTATTTAATTTTTTTTCTTTATTTATTTTTATTTATTAGATTACA
Found at i:10183017 original size:37 final size:33
Alignment explanation
Indices: 10182962--10183051 Score: 92
Period size: 37 Copynumber: 2.6 Consensus size: 33
10182952 TTATTTAATA
* * *
10182962 TTTTTTCT-TTATCTTATTTTTATTTTTGTTTTAC
1 TTTTTT-TATTATTTTATTTTTATTTAT-TTTCAC
*
10182996 TTTTCTTTAATTTTTTTTATTTTTATTTATTTTCAC
1 TTTT-TTT-A-TTATTTTATTTTTATTTATTTTCAC
10183032 TTTTTTTATTATTTTATTTT
1 TTTTTTTATTATTTTATTTT
10183052 CTTTAAAGAA
Statistics
Matches: 47, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
33 11 0.23
34 6 0.13
35 5 0.11
36 9 0.19
37 16 0.34
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (33 bp):
TTTTTTTATTATTTTATTTTTATTTATTTTCAC
Found at i:10183047 original size:23 final size:25
Alignment explanation
Indices: 10183007--10183052 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
10182997 TTTCTTTAAT
*
10183007 TTTTTTTATTTTTATTTATTTTCAC
1 TTTTTTTATTTATATTTATTTTCAC
10183032 TTTTTTTA-TTAT-TTTATTTTC
1 TTTTTTTATTTATATTTATTTTC
10183053 TTTAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 3 0.15
25 8 0.40
ACGTcount: A:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (25 bp):
TTTTTTTATTTATATTTATTTTCAC
Found at i:10183140 original size:60 final size:59
Alignment explanation
Indices: 10183060--10183543 Score: 636
Period size: 60 Copynumber: 8.2 Consensus size: 59
10183050 TTCTTTAAAG
* *
10183060 AAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAATTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
* *
10183120 AAAAATAAATTTTCAAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAATTTTC-AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * *
10183180 GAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAATTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
* *** *
10183240 AAAAATAAAATTTCAAAAAAAGGGTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAATTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * *
10183298 AAAGATCAAAATTTCCAAAAAATTATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAATTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
* *
10183358 GAAAATCAAAATTTTC--AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT--AAATTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
*** *
10183417 AAAAATAAATTTTCAAAAAAAGGGTTTTGA-GGAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAATAAATTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
* * * *
10183475 AAAGATCAAAATTTCCAAAAAAATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTT
1 AAAAAT-AAATTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
10183535 AAAAA-AAAT
1 AAAAATAAAT
10183544 ATATATAATA
Statistics
Matches: 372, Mismatches: 43, Indels: 20
0.86 0.10 0.05
Matches are distributed among these distances:
57 8 0.02
58 69 0.19
59 118 0.32
60 163 0.44
61 14 0.04
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (59 bp):
AAAAATAAATTTTCAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:10183306 original size:118 final size:118
Alignment explanation
Indices: 10183060--10183669 Score: 705
Period size: 118 Copynumber: 5.0 Consensus size: 118
10183050 TTCTTTAAAG
10183060 AAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 AAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
* * *
10183125 TAAATTTTCAAAAAAAAAGATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
66 TAAAATTTC--AAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
*
10183180 GAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
1 AAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
*
10183245 TAAAATTTCAAAAAAAGGGTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
66 TAAAATTTCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* * *
10183298 AAAGATCAAAATTTCCAAAAAATTATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAA
1 AAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
*
10183363 TCAAAATTTTCAAAAAATA--TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT
66 T-AAAA-TTTCAAAAAA-AGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
* *** *
10183417 AAAAAT--AAATTTTCAAAAAAAGGGTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAG
1 AAAAATCAAAATTTCCAAAAAAATATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAA
**
10183479 ATCAAAATTTCCAAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTT
65 AT-AAAATTT-CAAAAAAAGGTTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTT
** *
10183535 AAAAA--AAATATATATAATAAAATAAATTTTCAAAAACATATTTTTGGGAAAAAGTTGAAAGTA
1 AAAAATCAAA-AT-T-T-CCAAAA-AAA---T-------AT-TTTTAGGGAAA-AGTTGAAAGTA
* *
10183598 TCAATTTTCCTTAGAAATAAATTTTCAAAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCA
49 TCAATTTTCCTTAAAAATAAAATTTC---AAAAAAAGG-TTTTTGAGGAAAAGTTGAAAGTATCA
10183663 ATTTTCC
110 ATTTTCC
10183670 CTACACAAAA
Statistics
Matches: 428, Mismatches: 30, Indels: 47
0.85 0.06 0.09
Matches are distributed among these distances:
116 5 0.01
117 63 0.15
118 141 0.33
119 44 0.10
120 83 0.19
121 2 0.00
122 4 0.01
123 3 0.01
133 1 0.00
134 15 0.04
135 28 0.07
136 7 0.02
137 29 0.07
138 3 0.01
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.33
Consensus pattern (118 bp):
AAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAA
TAAAATTTCAAAAAAAGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT
Found at i:10183456 original size:177 final size:177
Alignment explanation
Indices: 10183092--10183669 Score: 816
Period size: 177 Copynumber: 3.1 Consensus size: 177
10183082 ATATTTTTAG
* * * * *
10183092 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTCAAAAAAAAAGATTTTTGGGGAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATCAAAATTTC-CAAAAAAATATTTTTAGGGAA
* *
10183156 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAAAATATTTTTAGGGAAAAGTT
65 AAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTC-AAAAAATATTTTTGGGGAAAAGTT
*
10183221 GAAAGTATCAATTTTCCTTAAAAATAAAATTTCAAAAAAAGGGTTTTGA
129 GAAAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGGGTTTTGA
*
10183270 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATCAAAATTTCCAAAAAATTATTTTTAGGGAAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATCAAAATTTCCAAAAAAATATTTTTAGGGAAA
10183335 AGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAAATATTTTTGGGGAAAAGTTGA
66 AGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAAATATTTTTGGGGAAAAGTTGA
10183400 AAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGGGTTTTGA
131 AAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGGGTTTTGA
*
10183447 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATCAAAATTTCCAAAAAAATATTTTTAGGAAAA
1 GGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATCAAAATTTCCAAAAAAATATTTTTAGGGAAA
* *
10183512 AGTTGAAAGTATCAATTTTCCTTAAAAAAAATATATATAATAAAATAAATTTTCAAAAACATATT
66 AGTTGAAAGTATCAATTTTCC-T--------T-GA-A-AAT--CA-AAATTTTCAAAAA-ATATT
* * *
10183577 TTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAAAAAAAGGATTTTT
115 TTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTTC---AAAAAAAGG-GTTTT
10183642 GA
176 GA
10183644 GGAAAAGTTGAAAGTATCAATTTTCC
1 GGAAAAGTTGAAAGTATCAATTTTCC
10183670 CTACACAAAA
Statistics
Matches: 363, Mismatches: 16, Indels: 23
0.90 0.04 0.06
Matches are distributed among these distances:
177 155 0.43
178 90 0.25
179 7 0.02
186 1 0.00
187 1 0.00
188 1 0.00
189 3 0.01
191 1 0.00
192 13 0.04
193 50 0.14
196 9 0.02
197 32 0.09
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.33
Consensus pattern (177 bp):
GGAAAAGTTGAAAGTATCAATTTTCCTTAAAGATCAAAATTTCCAAAAAAATATTTTTAGGGAAA
AGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTTCAAAAAATATTTTTGGGGAAAAGTTGA
AAGTATCAATTTTCCTTAAAAATAAATTTTCAAAAAAAGGGTTTTGA
Found at i:10183559 original size:135 final size:136
Alignment explanation
Indices: 10183418--10183669 Score: 361
Period size: 135 Copynumber: 1.9 Consensus size: 136
10183408 ATTTTCCTTA
*
10183418 AAAATAAATTTTCAAAAAAAGGGTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTA-AAGAT
1 AAAATAAATTTTCAAAAAAAGAGTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAGAA-AT
* *
10183481 CAAAATTTC-CAAAAAAA-TATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAA
64 -AAAATTTCAAAAAAAAAGGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAA
10183543 TATATATAAT
127 TATATATAAT
* * *
10183553 AAAATAAATTTTCAAAAACATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAA
1 AAAATAAATTTTCAAAAAAAGAGTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAA
*
10183618 ATTTTCAAAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
66 AATTTC-AAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
10183670 CTACACAAAA
Statistics
Matches: 104, Mismatches: 7, Indels: 10
0.86 0.06 0.08
Matches are distributed among these distances:
134 9 0.09
135 53 0.51
136 9 0.09
137 30 0.29
138 3 0.03
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.33
Consensus pattern (136 bp):
AAAATAAATTTTCAAAAAAAGAGTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAA
AATTTCAAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAAAATATA
TATAAT
Found at i:10183616 original size:58 final size:60
Alignment explanation
Indices: 10183554--10183669 Score: 166
Period size: 62 Copynumber: 1.9 Consensus size: 60
10183544 ATATATAATA
* *
10183554 AAATAAATTTTC-AAAAACA-TATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAG
1 AAATAAATTTTCAAAAAAAAGGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAG
10183612 AAATAAATTTTCAAAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
1 AAATAAATTTTC--AAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCC
10183670 CTACACAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
58 12 0.24
61 6 0.12
62 31 0.61
63 2 0.04
ACGTcount: A:0.46, C:0.08, G:0.13, T:0.34
Consensus pattern (60 bp):
AAATAAATTTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAG
Found at i:10183723 original size:13 final size:13
Alignment explanation
Indices: 10183707--10183732 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10183697 CATTCCTTTC
10183707 TATTTTGATTTTT
1 TATTTTGATTTTT
10183720 TATTTTGATTTTT
1 TATTTTGATTTTT
10183733 CTTTAACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TATTTTGATTTTT
Found at i:10186710 original size:15 final size:15
Alignment explanation
Indices: 10186687--10186721 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
10186677 TTTTCACTCA
*
10186687 TGTGTGCCAGCCTCT
1 TGTGCGCCAGCCTCT
10186702 TGTGCGCCAGCCTCT
1 TGTGCGCCAGCCTCT
10186717 TGTGC
1 TGTGC
10186722 CACAAGTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.34, G:0.29, T:0.31
Consensus pattern (15 bp):
TGTGCGCCAGCCTCT
Found at i:10189093 original size:78 final size:78
Alignment explanation
Indices: 10188964--10189118 Score: 242
Period size: 78 Copynumber: 2.0 Consensus size: 78
10188954 GACACCTAAT
* *
10188964 AAGTTTGGATTTAAGTCTCAATTTATATATAATATCATATCCACACATTCTT-TCAATGT-AGAT
1 AAGTTTGGATTTAAGTCTCAATTTATATATAATACCATATCCACACATTCTTCT-AATGTGA-AA
10189027 TTGGGGGCGTTACAC
64 TTGGGGGCGTTACAC
*
10189042 AAGTTTGGGTTTAAGTCTCAATTTATATATAATACCATATCCACACATTCTTCTAATGTGAAATT
1 AAGTTTGGATTTAAGTCTCAATTTATATATAATACCATATCCACACATTCTTCTAATGTGAAATT
*
10189107 GGGGGTGTTACA
66 GGGGGCGTTACA
10189119 ATCTCCTCAC
Statistics
Matches: 71, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
78 69 0.97
79 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (78 bp):
AAGTTTGGATTTAAGTCTCAATTTATATATAATACCATATCCACACATTCTTCTAATGTGAAATT
GGGGGCGTTACAC
Found at i:10189354 original size:109 final size:109
Alignment explanation
Indices: 10189158--10189355 Score: 290
Period size: 109 Copynumber: 1.8 Consensus size: 109
10189148 TGTCAAGTTA
* *
10189158 AATCCAACCACAGGACCAATATCACACCAGACATTGGGATTCTAAAAGTGACTCCCCACCATCTA
1 AATCCAACCACAGGACCAAGATCACACCAGACATTGGGATTCTAAAAGTGACTCCCCACCATATA
10189223 GCACCTAGTAACGCCCACGATGTAGTACTTAGCTTTTGTCGTCG
66 GCACCTAGTAACGCCCACGATGTAGTACTTAGCTTTTGTCGTCG
* * * * * *
10189267 AATCCAATCACAGGACCAAGATCATACCAGACGTTGAGG-TTTTAGAAGTGGCTCCCCACCATAT
1 AATCCAACCACAGGACCAAGATCACACCAGACATTG-GGATTCTAAAAGTGACTCCCCACCATAT
* *
10189331 AGCACCTAGTAACTCCCATGATGTA
65 AGCACCTAGTAACGCCCACGATGTA
10189356 ACACTTACTT
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
109 76 0.97
110 2 0.03
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (109 bp):
AATCCAACCACAGGACCAAGATCACACCAGACATTGGGATTCTAAAAGTGACTCCCCACCATATA
GCACCTAGTAACGCCCACGATGTAGTACTTAGCTTTTGTCGTCG
Found at i:10194858 original size:51 final size:51
Alignment explanation
Indices: 10194802--10194898 Score: 194
Period size: 51 Copynumber: 1.9 Consensus size: 51
10194792 GAAAGTGGAA
10194802 CAATAACTCCTTTGAGACAAACCGAAAGAATTGGTTGACACTCTTAAGGAT
1 CAATAACTCCTTTGAGACAAACCGAAAGAATTGGTTGACACTCTTAAGGAT
10194853 CAATAACTCCTTTGAGACAAACCGAAAGAATTGGTTGACACTCTTA
1 CAATAACTCCTTTGAGACAAACCGAAAGAATTGGTTGACACTCTTA
10194899 CGATCACCTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (51 bp):
CAATAACTCCTTTGAGACAAACCGAAAGAATTGGTTGACACTCTTAAGGAT
Found at i:10197312 original size:11 final size:10
Alignment explanation
Indices: 10197290--10197370 Score: 65
Period size: 12 Copynumber: 7.5 Consensus size: 10
10197280 TATTACTAGT
*
10197290 AATAATATAA
1 AATAACATAA
10197300 AATAACAATAAA
1 AATAAC-AT-AA
*
10197312 AATAACA-AT
1 AATAACATAA
*
10197321 AATATCATAAA
1 AATAACAT-AA
10197332 AATAACATAAAA
1 AATAACAT--AA
10197344 AATAACATAA
1 AATAACATAA
10197354 AACTCAACATAA
1 AA-T-AACATAA
10197366 AATAA
1 AATAA
10197371 ATCAAAATCA
Statistics
Matches: 59, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
9 7 0.12
10 11 0.19
11 13 0.22
12 28 0.47
ACGTcount: A:0.69, C:0.10, G:0.00, T:0.21
Consensus pattern (10 bp):
AATAACATAA
Found at i:10197315 original size:12 final size:11
Alignment explanation
Indices: 10197298--10197367 Score: 72
Period size: 12 Copynumber: 6.3 Consensus size: 11
10197288 GTAATAATAT
10197298 AAAATAACAATA
1 AAAATAAC-ATA
10197310 AAAATAAC--A
1 AAAATAACATA
* *
10197319 ATAATATCATA
1 AAAATAACATA
10197330 AAAATAACATAA
1 AAAATAACAT-A
10197342 AAAATAACATA
1 AAAATAACATA
*
10197353 AAACTCAACATA
1 AAAAT-AACATA
10197365 AAA
1 AAA
10197368 TAAATCAAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
9 7 0.14
11 14 0.29
12 28 0.57
ACGTcount: A:0.70, C:0.11, G:0.00, T:0.19
Consensus pattern (11 bp):
AAAATAACATA
Found at i:10198204 original size:10 final size:11
Alignment explanation
Indices: 10198189--10198217 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
10198179 GAAACAAAAA
10198189 TTTTTTTGACT
1 TTTTTTTGACT
10198200 TTTTTTTGACT
1 TTTTTTTGACT
10198211 TTTTTTT
1 TTTTTTT
10198218 AAAGGTTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.07, G:0.07, T:0.79
Consensus pattern (11 bp):
TTTTTTTGACT
Found at i:10198442 original size:39 final size:39
Alignment explanation
Indices: 10198399--10198843 Score: 190
Period size: 40 Copynumber: 11.3 Consensus size: 39
10198389 TTTTTAAAGA
* * * *
10198399 AAATTTGAAAGGCTCTTTTAAACAAAGGCTATGAACTTT
1 AAATTTAAAAGGCTCATCTAAACAAAGGCAATGAACTTT
* * * *
10198438 AAATTCAAAAAGCTCATCTGACCAAAGGCAATGAACTTT
1 AAATTTAAAAGGCTCATCTAAACAAAGGCAATGAACTTT
* * * **
10198477 AAATTTAAAAGTCTTC-TCT-CACAAAAGTCAACAAACTTT
1 AAATTTAAAAGGC-TCATCTAAAC-AAAGGCAATGAACTTT
* *
10198516 AAATGTTAAAAGGCTTC-TCTCACCAAAGGCAATGAACTTT
1 AAAT-TTAAAAGGC-TCATCTAAACAAAGGCAATGAACTTT
* * * ** *
10198556 AAATTCAAAAATG-T-AACTTTTACTAGAGGCAATGAACTTT
1 AAATT-TAAAAGGCTCATC-TAAAC-AAAGGCAATGAACTTT
* * * * * **
10198596 AAATATTAAAAGGCTCCTCTCACCAAAAGTAACAAACTTT
1 AAAT-TTAAAAGGCTCATCTAAACAAAGGCAATGAACTTT
* * * * *
10198636 AAATGTTAAAAGACTCCTCTTACCAGAGGCAATGAACTTT
1 AAAT-TTAAAAGGCTCATCTAAACAAAGGCAATGAACTTT
* * * * * *
10198676 AAATTCAAAATGCTTCCTCT-CACTAGAGGCAATGAATTTT
1 AAATTTAAAAGGC-TCATCTAAAC-AAAGGCAATGAACTTT
* **
10198716 AAATGTTAAAAGGCTCCT-TTCACAAGAGGC-ATGAACTTT
1 AAAT-TTAAAAGGCTCATCTAAACAA-AGGCAATGAACTTT
* * * * * *
10198755 AAATTCAAAAGTCTCCTCT-CACTAGAGGCAACGAACTTT
1 AAATTTAAAAGGCTCATCTAAAC-AAAGGCAATGAACTTT
* * * * * *
10198794 AAATTCAAAAAGGGTTATTTAACCAAAGGCAA-CAACTTT
1 AAATT-TAAAAGGCTCATCTAAACAAAGGCAATGAACTTT
10198833 AAATATTAAAA
1 AAAT-TTAAAA
10198844 ATCTAAGAAG
Statistics
Matches: 310, Mismatches: 74, Indels: 44
0.72 0.17 0.10
Matches are distributed among these distances:
38 21 0.07
39 114 0.37
40 161 0.52
41 13 0.04
42 1 0.00
ACGTcount: A:0.41, C:0.18, G:0.12, T:0.28
Consensus pattern (39 bp):
AAATTTAAAAGGCTCATCTAAACAAAGGCAATGAACTTT
Found at i:10198533 original size:40 final size:39
Alignment explanation
Indices: 10198420--10198803 Score: 321
Period size: 40 Copynumber: 9.7 Consensus size: 39
10198410 GCTCTTTTAA
* * * * *
10198420 ACAA-AGGCTATGAACTTTAAATTCAAAAAGCTCATCTG
1 ACAAGAGGCAATGAACTTTAAATTTAAAAGGCTCCTCTC
* *
10198458 ACCAA-AGGCAATGAACTTTAAATTTAAAAGTCTTCTCTC
1 A-CAAGAGGCAATGAACTTTAAATTTAAAAGGCTCCTCTC
* * ** *
10198497 ACAAAAGTCAACAAACTTTAAATGTTAAAAGGCTTCTCTC
1 ACAAGAGGCAATGAACTTTAAAT-TTAAAAGGCTCCTCTC
* * * * *
10198537 ACCAA-AGGCAATGAACTTTAAATTCAAAAATG-TAACTTTT
1 A-CAAGAGGCAATGAACTTTAAATT-TAAAAGGCT-CCTCTC
*
10198577 ACTAGAGGCAATGAACTTTAAATATTAAAAGGCTCCTCTC
1 ACAAGAGGCAATGAACTTTAAAT-TTAAAAGGCTCCTCTC
* * ** * *
10198617 ACCAA-AAGTAACAAACTTTAAATGTTAAAAGACTCCTCTT
1 A-CAAGAGGCAATGAACTTTAAAT-TTAAAAGGCTCCTCTC
* * *
10198657 ACCAGAGGCAATGAACTTTAAATTCAAAATGCTTCCTCTC
1 ACAAGAGGCAATGAACTTTAAATTTAAAAGGC-TCCTCTC
* * *
10198697 ACTAGAGGCAATGAATTTTAAATGTTAAAAGGCTCCTTTC
1 ACAAGAGGCAATGAACTTTAAAT-TTAAAAGGCTCCTCTC
* *
10198737 ACAAGAGGC-ATGAACTTTAAATTCAAAAGTCTCCTCTC
1 ACAAGAGGCAATGAACTTTAAATTTAAAAGGCTCCTCTC
* * *
10198775 ACTAGAGGCAACGAACTTTAAATTCAAAA
1 ACAAGAGGCAATGAACTTTAAATTTAAAA
10198804 AGGGTTATTT
Statistics
Matches: 278, Mismatches: 54, Indels: 27
0.77 0.15 0.08
Matches are distributed among these distances:
38 25 0.09
39 88 0.32
40 151 0.54
41 14 0.05
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (39 bp):
ACAAGAGGCAATGAACTTTAAATTTAAAAGGCTCCTCTC
Found at i:10198645 original size:120 final size:119
Alignment explanation
Indices: 10198421--10198843 Score: 453
Period size: 120 Copynumber: 3.6 Consensus size: 119
10198411 CTCTTTTAAA
* * *
10198421 CAAAGGCTATGAACTTTAAATTCAAAAA-GCTCATCTGACCAAAGGCAATGAACTTTAAAT-TTA
1 CAAAGGCAATGAACTTTAAATTCAAAAATGCTTATCTAACCAAAGGCAATGAACTTTAAATATTA
* * * *
10198484 AAAGTCTTCTCTCACAAAAGTCAACAAACTTTAAATGTTAAAAGGCTTCTCTCAC
66 AAAGGCTCCTCTCACAAAAGT-AACAAACTTTAAATGTTAAAAGACTCCTCTCAC
* * * * *
10198539 CAAAGGCAATGAACTTTAAATTCAAAAATG-TAACTTTTACTAGAGGCAATGAACTTTAAATATT
1 CAAAGGCAATGAACTTTAAATTCAAAAATGCTTA-TCTAACCAAAGGCAATGAACTTTAAATATT
*
10198603 AAAAGGCTCCTCTCACCAAAAGTAACAAACTTTAAATGTTAAAAGACTCCTCTTAC
65 AAAAGGCTCCTCTCA-CAAAAGTAACAAACTTTAAATGTTAAAAGACTCCTCTCAC
* * * * * * *
10198659 CAGAGGCAATGAACTTTAAATTC-AAAATGCTTCCTCTCACTAGAGGCAATGAATTTTAAATGTT
1 CAAAGGCAATGAACTTTAAATTCAAAAATGCTT-ATCTAACCAAAGGCAATGAACTTTAAATATT
* * ** ** * *
10198723 AAAAGGCTCCTTTCACAAGAGGCATGAACTTTAAAT-TCAAAAGTCTCCTCTCAC
65 AAAAGGCTCCTCTCACAAAAGTAACAAACTTTAAATGTTAAAAGACTCCTCTCAC
* * * * * * *
10198777 TAGAGGCAACGAACTTTAAATTCAAAAAGGGTTATTTAACCAAAGGCAA-CAACTTTAAATATTA
1 CAAAGGCAATGAACTTTAAATTCAAAAATGCTTATCTAACCAAAGGCAATGAACTTTAAATATTA
10198841 AAA
66 AAA
10198844 ATCTAAGAAG
Statistics
Matches: 259, Mismatches: 39, Indels: 15
0.83 0.12 0.05
Matches are distributed among these distances:
117 15 0.06
118 76 0.29
119 53 0.20
120 108 0.42
121 7 0.03
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.28
Consensus pattern (119 bp):
CAAAGGCAATGAACTTTAAATTCAAAAATGCTTATCTAACCAAAGGCAATGAACTTTAAATATTA
AAAGGCTCCTCTCACAAAAGTAACAAACTTTAAATGTTAAAAGACTCCTCTCAC
Found at i:10198995 original size:41 final size:39
Alignment explanation
Indices: 10198941--10199058 Score: 141
Period size: 40 Copynumber: 2.9 Consensus size: 39
10198931 TTAAAAAGTT
* *
10198941 TCTTTGACTAAAGGCTATGAAACTTTAAATATTAAAAGGC
1 TCTTTGACCAAAGGCAATGAAACTTTAAAT-TTAAAAGGC
10198981 TCTTCTGACCAAAGGCAAT-AAACTTTAAATTTCAAAAGGC
1 TCTT-TGACCAAAGGCAATGAAACTTTAAATTT-AAAAGGC
* *
10199021 TCCTTTTACCAGAGGCAATG-AACTTTAAATGTTAAAAG
1 T-CTTTGACCAAAGGCAATGAAACTTTAAAT-TTAAAAG
10199059 CCTGAAAGGC
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
39 2 0.03
40 50 0.72
41 17 0.25
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (39 bp):
TCTTTGACCAAAGGCAATGAAACTTTAAATTTAAAAGGC
Found at i:10211658 original size:3 final size:3
Alignment explanation
Indices: 10211652--10211740 Score: 160
Period size: 3 Copynumber: 29.7 Consensus size: 3
10211642 TTTTAAAGGT
*
10211652 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
10211700 CAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10211741 TAAACCAAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 82 1.00
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10213304 original size:30 final size:28
Alignment explanation
Indices: 10213264--10213340 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
10213254 AATATTATAA
* *
10213264 ATAATTTTAAATTATAATAAAATATTTGAT
1 ATAATATTAAATTATAA-AAAAT-TTTAAT
* * *
10213294 GTGATATTAAATTTTAAAAAATTTTAAT
1 ATAATATTAAATTATAAAAAATTTTAAT
10213322 ATAATATATAAATTATAAA
1 ATAATAT-TAAATTATAAA
10213341 TTTATAAATT
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
28 10 0.26
29 15 0.39
30 13 0.34
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (28 bp):
ATAATATTAAATTATAAAAAATTTTAAT
Found at i:10214077 original size:12 final size:13
Alignment explanation
Indices: 10214052--10214082 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
10214042 CAATTTATCA
10214052 ATTTAAATTTTTT
1 ATTTAAATTTTTT
10214065 ATTTAAA-TTTTT
1 ATTTAAATTTTTT
10214077 ATTTAA
1 ATTTAA
10214083 TTATTTTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (13 bp):
ATTTAAATTTTTT
Found at i:10215126 original size:17 final size:16
Alignment explanation
Indices: 10215095--10215125 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10215085 AAATAGGGAT
10215095 ATAAAAAAAATTTTTG
1 ATAAAAAAAATTTTTG
*
10215111 ATAAAAATAATTTTT
1 ATAAAAAAAATTTTT
10215126 TTCAACTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATAAAAAAAATTTTTG
Found at i:10215510 original size:19 final size:20
Alignment explanation
Indices: 10215478--10215516 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
10215468 AAATATTTAA
10215478 ATATTAAAAATTTAT-TTTT
1 ATATTAAAAATTTATATTTT
* *
10215497 ATATTAATATTTTATATTTT
1 ATATTAAAAATTTATATTTT
10215517 TAGAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTAAAAATTTATATTTT
Found at i:10221253 original size:2 final size:2
Alignment explanation
Indices: 10221246--10221283 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10221236 TGTTTTCCTT
10221246 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10221284 GGGCTTCATG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10224565 original size:2 final size:2
Alignment explanation
Indices: 10224560--10224589 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10224550 CAAAGCTTTA
10224560 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
10224590 GTAATACAAT
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:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10226676 original size:51 final size:51
Alignment explanation
Indices: 10226620--10226716 Score: 194
Period size: 51 Copynumber: 1.9 Consensus size: 51
10226610 GAAAGTGGAA
10226620 CAATAACTCCTTTGAGACAAACCGAAAGAATTGGTTGACACTCTTAAGGAT
1 CAATAACTCCTTTGAGACAAACCGAAAGAATTGGTTGACACTCTTAAGGAT
10226671 CAATAACTCCTTTGAGACAAACCGAAAGAATTGGTTGACACTCTTA
1 CAATAACTCCTTTGAGACAAACCGAAAGAATTGGTTGACACTCTTA
10226717 CGATCACCTC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.26
Consensus pattern (51 bp):
CAATAACTCCTTTGAGACAAACCGAAAGAATTGGTTGACACTCTTAAGGAT
Found at i:10229172 original size:23 final size:24
Alignment explanation
Indices: 10229146--10229192 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
10229136 TAATAACAAT
*
10229146 AATATCATAAAAAT-AACATAAAA
1 AATAACATAAAAATCAACATAAAA
*
10229169 AATAACATAAAACTCAACATAAAA
1 AATAACATAAAAATCAACATAAAA
10229193 TAAATCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 12 0.57
24 9 0.43
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (24 bp):
AATAACATAAAAATCAACATAAAA
Found at i:10229187 original size:12 final size:11
Alignment explanation
Indices: 10229146--10229192 Score: 58
Period size: 12 Copynumber: 4.1 Consensus size: 11
10229136 TAATAACAAT
*
10229146 AATATCATAAA
1 AATAACATAAA
10229157 AATAACATAAAA
1 AATAACAT-AAA
10229169 AATAACATAAA
1 AATAACATAAA
*
10229180 ACTCAACATAAA
1 AAT-AACATAAA
10229192 A
1 A
10229193 TAAATCAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
11 12 0.38
12 20 0.62
ACGTcount: A:0.68, C:0.13, G:0.00, T:0.19
Consensus pattern (11 bp):
AATAACATAAA
Found at i:10230375 original size:40 final size:39
Alignment explanation
Indices: 10230263--10230686 Score: 321
Period size: 40 Copynumber: 10.7 Consensus size: 39
10230253 CTCTTTTAAA
* * * * * *
10230263 CAAAGGCTATGAACTTTAAATTCAAAAAGCTCATCTGAC
1 CAAAGGCAACGAACTTTAAATTTAAAAGGCTCCTCTCAC
* * *
10230302 CAAAGGCAACGAACTTTAAATTCAAAAGTCTTCTCTCAC
1 CAAAGGCAACGAACTTTAAATTTAAAAGGCTCCTCTCAC
* * * *
10230341 AAAAGTCAACAAACTTTAAATGTTAAAAGGCTTCTCTCAC
1 CAAAGGCAACGAACTTTAAAT-TTAAAAGGCTCCTCTCAC
* * * * * *
10230381 CAAAGGCAATGAACTTTAAATTCAAAAATG-TAACTTTTAC
1 CAAAGGCAACGAACTTTAAATT-TAAAAGGCT-CCTCTCAC
* * *
10230421 TAGAGGCAATGAACTTTAAATATTAAAAGGCTCCTCTCAC
1 CAAAGGCAACGAACTTTAAAT-TTAAAAGGCTCCTCTCAC
* * * *
10230461 CAAAAGTAACAAACTTTAAATGTTAAAAGGCTCCTCTTAC
1 CAAAGGCAACGAACTTTAAAT-TTAAAAGGCTCCTCTCAC
* * * *
10230501 CAGAGGCAATGAACTTTAAATTCAAAATGCTCCTCTCAC
1 CAAAGGCAACGAACTTTAAATTTAAAAGGCTCCTCTCAC
* * * * *
10230540 CAGAGACAATGAACTTTAAATGTTAAAAGGCTCATTTCA-
1 CAAAGGCAACGAACTTTAAAT-TTAAAAGGCTCCTCTCAC
* * **
10230579 CAAGAGGCAATGAACTTTAAATTCAAAAATCTCCTCTCAC
1 CAA-AGGCAACGAACTTTAAATTTAAAAGGCTCCTCTCAC
* * * * ** * *
10230619 TAGAGACAACGAACTTTAAATTCAAAAAGGCTTATTTTAC
1 CAAAGGCAACGAACTTTAAATT-TAAAAGGCTCCTCTCAC
*
10230659 CAAAGGCAACAAACTTTAAATATTAAAA
1 CAAAGGCAACGAACTTTAAAT-TTAAAA
10230687 ATCTAAGAAG
Statistics
Matches: 303, Mismatches: 72, Indels: 19
0.77 0.18 0.05
Matches are distributed among these distances:
39 118 0.39
40 182 0.60
41 3 0.01
ACGTcount: A:0.42, C:0.20, G:0.12, T:0.27
Consensus pattern (39 bp):
CAAAGGCAACGAACTTTAAATTTAAAAGGCTCCTCTCAC
Found at i:10230399 original size:79 final size:78
Alignment explanation
Indices: 10230248--10230679 Score: 379
Period size: 79 Copynumber: 5.5 Consensus size: 78
10230238 AGAAAATTTG
* * *
10230248 AAAGGC-TCTTTTAAACAA-AGGCTATGAACTTTAAATTCAAAAAGCTCATCTGACCAAAGGCAA
1 AAAGGCTTCTTTT--ACAAGAGGCAATGAACTTTAAATTCAAAAAGCTCCTCTCACCAAAGGCAA
10230311 CGAACTTTAAATTCA
64 CGAACTTTAAATTCA
* * * * * ** * * * *
10230326 AAAGTCTTCTCTCACAAAAGTCAACAAACTTTAAATGTTAAAAGGCTTCTCTCACCAAAGGCAAT
1 AAAGGCTTCTTTTACAAGAGGCAATGAACTTTAAAT-TCAAAAAGCTCCTCTCACCAAAGGCAAC
10230391 GAACTTTAAATTCAA
65 GAACTTTAAATTC-A
* * * * * * *
10230406 AAATG-TAACTTTTACTAGAGGCAATGAACTTTAAATATTAAAAGGCTCCTCTCACCAAAAGTAA
1 AAAGGCT-TCTTTTACAAGAGGCAATGAACTTTAAAT-TCAAAAAGCTCCTCTCACCAAAGGCAA
* *
10230470 CAAACTTTAAATGTTA
64 CGAACTTTAAAT-TCA
* * * * * * *
10230486 AAAGGCTCCTCTTACCAGAGGCAATGAACTTTAAATTCAAAATGCTCCTCTCACCAGAGACAATG
1 AAAGGCTTCTTTTACAAGAGGCAATGAACTTTAAATTCAAAAAGCTCCTCTCACCAAAGGCAACG
*
10230551 AACTTTAAATGTTA
66 AACTTTAAAT-TCA
* * * * *
10230565 AAAGGC-TCATTTCACAAGAGGCAATGAACTTTAAATTCAAAAATCTCCTCTCACTAGAGACAAC
1 AAAGGCTTC-TTTTACAAGAGGCAATGAACTTTAAATTCAAAAAGCTCCTCTCACCAAAGGCAAC
10230629 GAACTTTAAATTCAA
65 GAACTTTAAATTC-A
* **
10230644 AAAGGCTTATTTTACCAA-AGGCAACAAACTTTAAAT
1 AAAGGCTTCTTTTA-CAAGAGGCAATGAACTTTAAAT
10230680 ATTAAAAATC
Statistics
Matches: 288, Mismatches: 55, Indels: 21
0.79 0.15 0.06
Matches are distributed among these distances:
77 4 0.01
78 21 0.07
79 167 0.58
80 94 0.33
81 2 0.01
ACGTcount: A:0.41, C:0.20, G:0.12, T:0.27
Consensus pattern (78 bp):
AAAGGCTTCTTTTACAAGAGGCAATGAACTTTAAATTCAAAAAGCTCCTCTCACCAAAGGCAACG
AACTTTAAATTCA
Found at i:10230837 original size:41 final size:39
Alignment explanation
Indices: 10230783--10230900 Score: 132
Period size: 40 Copynumber: 2.9 Consensus size: 39
10230773 TTAAAAAGTT
* *
10230783 TCTTTGACTAAAGGCTATGAAACTTTAAATATTAAAAGGC
1 TCTTTGACCAAAGGCAATGAAACTTTAAAT-TTAAAAGGC
*
10230823 TCTTCTGACCAAAGGCAAT-AAACTTTAAATTCCAAAAGGC
1 TCTT-TGACCAAAGGCAATGAAACTTTAAATT-TAAAAGGC
* *
10230863 TCCTTTTACCAGAGGCAATG-AACTTTAAATGTTAAAAG
1 T-CTTTGACCAAAGGCAATGAAACTTTAAAT-TTAAAAG
10230901 CCTGAAAGGC
Statistics
Matches: 67, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
39 1 0.01
40 50 0.75
41 16 0.24
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (39 bp):
TCTTTGACCAAAGGCAATGAAACTTTAAATTTAAAAGGC
Found at i:10244365 original size:3 final size:3
Alignment explanation
Indices: 10244359--10244399 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
10244349 TTTTAAAGGT
10244359 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
10244400 TAAACCAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:10247751 original size:17 final size:16
Alignment explanation
Indices: 10247720--10247750 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10247710 AAATAGGGAT
10247720 ATAAAAAAAATTTTTG
1 ATAAAAAAAATTTTTG
*
10247736 ATAAAAATAATTTTT
1 ATAAAAAAAATTTTT
10247751 TTCAACTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (16 bp):
ATAAAAAAAATTTTTG
Found at i:10248135 original size:19 final size:20
Alignment explanation
Indices: 10248103--10248141 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
10248093 AAATATTTAA
10248103 ATATTAAAAATTTAT-TTTT
1 ATATTAAAAATTTATATTTT
* *
10248122 ATATTAATATTTTATATTTT
1 ATATTAAAAATTTATATTTT
10248142 TAGAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (20 bp):
ATATTAAAAATTTATATTTT
Found at i:10250152 original size:21 final size:20
Alignment explanation
Indices: 10250114--10250156 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
10250104 TTGAAAAATT
*
10250114 ATTTTTATATTAATATTTTAA
1 ATTTTTAAATTAATA-TTTAA
10250135 ATTTTTAGAATTAA-ATTTAA
1 ATTTTTA-AATTAATATTTAA
10250155 AT
1 AT
10250157 AAAAATAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 7 0.35
21 8 0.40
22 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
ATTTTTAAATTAATATTTAA
Found at i:10251892 original size:21 final size:21
Alignment explanation
Indices: 10251868--10251912 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
10251858 AAGTGAAACC
10251868 ACCCAAACCAGAACCACCCAA
1 ACCCAAACCAGAACCACCCAA
10251889 ACCCAAACCAGAACCACCCAA
1 ACCCAAACCAGAACCACCCAA
10251910 ACC
1 ACC
10251913 ACCAAATCCG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.47, C:0.49, G:0.04, T:0.00
Consensus pattern (21 bp):
ACCCAAACCAGAACCACCCAA
Found at i:10251897 original size:15 final size:14
Alignment explanation
Indices: 10251863--10251898 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 14
10251853 AGAAGAAGTG
10251863 AAACCACCCAAACC
1 AAACCACCCAAACC
10251877 AGAACCACCCAAACCC
1 A-AACCACCCAAA-CC
10251893 AAACCA
1 AAACCA
10251899 GAACCACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 1 0.05
15 16 0.80
16 3 0.15
ACGTcount: A:0.50, C:0.47, G:0.03, T:0.00
Consensus pattern (14 bp):
AAACCACCCAAACC
Found at i:10251952 original size:18 final size:18
Alignment explanation
Indices: 10251931--10251986 Score: 112
Period size: 18 Copynumber: 3.1 Consensus size: 18
10251921 CGAATCCAAA
10251931 TCCAATTGTATGCCATTG
1 TCCAATTGTATGCCATTG
10251949 TCCAATTGTATGCCATTG
1 TCCAATTGTATGCCATTG
10251967 TCCAATTGTATGCCATTG
1 TCCAATTGTATGCCATTG
10251985 TC
1 TC
10251987 AGCAACAACC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.21, C:0.23, G:0.16, T:0.39
Consensus pattern (18 bp):
TCCAATTGTATGCCATTG
Found at i:10261078 original size:31 final size:28
Alignment explanation
Indices: 10261022--10261080 Score: 82
Period size: 31 Copynumber: 2.0 Consensus size: 28
10261012 TATATATAAA
10261022 TTTTAAAATAATTATAAAATAATTTTAT
1 TTTTAAAATAATTATAAAATAATTTTAT
*
10261050 TTTTAATATAAATTATAATATATAATTTTAT
1 TTTTAAAAT-AATTATAA-A-ATAATTTTAT
10261081 CTTCAACTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 8 0.30
29 8 0.30
30 1 0.04
31 10 0.37
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (28 bp):
TTTTAAAATAATTATAAAATAATTTTAT
Found at i:10262493 original size:21 final size:21
Alignment explanation
Indices: 10262468--10262512 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
10262458 TATATAAAAA
* *
10262468 TTTATTGATAGATTTATCAAT
1 TTTATCGATAAATTTATCAAT
*
10262489 TTTATCGATAAATTTATTAAT
1 TTTATCGATAAATTTATCAAT
10262510 TTT
1 TTT
10262513 GTGAACGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.56
Consensus pattern (21 bp):
TTTATCGATAAATTTATCAAT
Found at i:10263704 original size:2 final size:2
Alignment explanation
Indices: 10263699--10263737 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
10263689 CATAGACACA
10263699 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10263738 TTTGATGCAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10264977 original size:9 final size:8
Alignment explanation
Indices: 10264962--10264995 Score: 52
Period size: 8 Copynumber: 4.2 Consensus size: 8
10264952 AAGATATATT
10264962 TAAAAAAA
1 TAAAAAAA
10264970 TAAAAAAA
1 TAAAAAAA
10264978 TAAAAAAA
1 TAAAAAAA
10264986 -AAACAAAA
1 TAAA-AAAA
10264994 TA
1 TA
10264996 TATTTTAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
7 3 0.12
8 20 0.83
9 1 0.04
ACGTcount: A:0.85, C:0.03, G:0.00, T:0.12
Consensus pattern (8 bp):
TAAAAAAA
Found at i:10265392 original size:3 final size:3
Alignment explanation
Indices: 10265384--10265408 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10265374 AAACTAATAA
10265384 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
10265409 GAAAAAAAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:10278012 original size:30 final size:29
Alignment explanation
Indices: 10277943--10278017 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
10277933 TAAAAATTCA
10277943 ATAATCAATTAAATTTATGATATTTTATT
1 ATAATCAATTAAATTTATGATATTTTATT
10277972 ATAATCAATTAAATCTTAT-ATATTTTATT
1 ATAATCAATTAAAT-TTATGATATTTTATT
* *
10278001 TTGATTCAATTAAATTT
1 AT-AATCAATTAAATTT
10278018 TTAAACATAT
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
29 27 0.64
30 15 0.36
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (29 bp):
ATAATCAATTAAATTTATGATATTTTATT
Found at i:10278073 original size:30 final size:29
Alignment explanation
Indices: 10277995--10278075 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 29
10277985 TCTTATATAT
*
10277995 TTTATTTTGATTCAATTAAATTTTTAAACA
1 TTTATTTTCA-TCAATTAAATTTTTAAACA
* *
10278025 TATATTTTCATCAAATTAAATTTTTAAATA
1 TTTATTTTCATC-AATTAAATTTTTAAACA
*
10278055 TTTATTTTCACTCGATTAAAT
1 TTTATTTTCA-TCAATTAAAT
10278076 CCTCAATTGA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
29 2 0.05
30 40 0.91
31 2 0.05
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTATTTTCATCAATTAAATTTTTAAACA
Found at i:10288714 original size:19 final size:19
Alignment explanation
Indices: 10288669--10288716 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
10288659 AATTAACACA
*
10288669 TATAAATAAAATAATAAAT
1 TATAATTAAAATAATAAAT
*
10288688 TTTAATTAAAATAATAAAAT
1 TATAATTAAAATAAT-AAAT
10288708 TAT-ATTAAA
1 TATAATTAAA
10288717 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 19 0.76
20 6 0.24
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TATAATTAAAATAATAAAT
Found at i:10288749 original size:17 final size:17
Alignment explanation
Indices: 10288702--10288751 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
10288692 ATTAAAATAA
10288702 TAAAATTATATTAAATT
1 TAAAATTATATTAAATT
* *
10288719 TAAATTTTTATTAAATT
1 TAAAATTATATTAAATT
10288736 TACAAATTAT-TTAAAT
1 TA-AAATTATATTAAAT
10288752 AAAATATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
17 23 0.82
18 5 0.18
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
TAAAATTATATTAAATT
Found at i:10289809 original size:15 final size:15
Alignment explanation
Indices: 10289789--10289818 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10289779 TATTCTATAT
10289789 ATTTTTAATAAATAA
1 ATTTTTAATAAATAA
*
10289804 ATTTTTATTAAATAA
1 ATTTTTAATAAATAA
10289819 TATATTATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTTAATAAATAA
Found at i:10289839 original size:25 final size:26
Alignment explanation
Indices: 10289810--10289886 Score: 70
Period size: 25 Copynumber: 3.0 Consensus size: 26
10289800 ATAAATTTTT
10289810 ATTAAATAATATATTAT-TATTTTAA
1 ATTAAATAATATATTATATATTTTAA
* *
10289835 ATTAATTAA-A-ATTAATATATTTTTA
1 ATTAAATAATATATT-ATATATTTTAA
* *
10289860 ATTAAAAAAATATATTAATACATTTTA
1 ATT-AAATAATATATT-ATATATTTTA
10289887 TAAAATATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
23 3 0.07
24 3 0.07
25 18 0.44
26 4 0.10
27 1 0.02
28 12 0.29
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTAAATAATATATTATATATTTTAA
Found at i:10289873 original size:20 final size:21
Alignment explanation
Indices: 10289836--10289875 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
10289826 TTATTTTAAA
*
10289836 TTAATTAAAATTAATATATTT
1 TTAATTAAAATAAATATATTT
10289857 TTAATTAAAA-AAATATATT
1 TTAATTAAAATAAATATATT
10289876 AATACATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TTAATTAAAATAAATATATTT
Found at i:10290639 original size:53 final size:53
Alignment explanation
Indices: 10290569--10290672 Score: 126
Period size: 53 Copynumber: 2.0 Consensus size: 53
10290559 TATATCGACA
10290569 TAAAAATATGAAATATATT-TTTT-A-ATTTTATTAAATTTATAT-ATAGTTATTG
1 TAAAAATATGAAATATATTATTTTCATATTTTATT---TTTATATCATAGTTATTG
* *
10290621 TAAAAATTTTAAATTATATTATTTTCATATTTTATTTTTATATCATAGTTAT
1 TAAAAATATGAAA-TATATTATTTTCATATTTTATTTTTATATCATAGTTAT
10290673 ATTATATTAT
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
52 11 0.24
53 13 0.29
54 12 0.27
55 1 0.02
56 8 0.18
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (53 bp):
TAAAAATATGAAATATATTATTTTCATATTTTATTTTTATATCATAGTTATTG
Found at i:10291626 original size:21 final size:22
Alignment explanation
Indices: 10291588--10291629 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10291578 AAATTAAAAA
* *
10291588 TATTGATAGTAATGAAATTAAT
1 TATTGATAATAATAAAATTAAT
10291610 TATT-ATAATAATAAAATTAA
1 TATTGATAATAATAAAATTAA
10291630 AATAAGTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.40
Consensus pattern (22 bp):
TATTGATAATAATAAAATTAAT
Found at i:10292209 original size:13 final size:12
Alignment explanation
Indices: 10292179--10292218 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
10292169 AATTATATCA
10292179 TTTATATCATA-
1 TTTATATCATAT
10292190 TTTATATCATAT
1 TTTATATCATAT
*
10292202 TATTATATTATAT
1 T-TTATATCATAT
10292215 TTTA
1 TTTA
10292219 AATTATCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.42
12 4 0.15
13 11 0.42
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATATCATAT
Found at i:10293778 original size:54 final size:54
Alignment explanation
Indices: 10293693--10293808 Score: 178
Period size: 54 Copynumber: 2.1 Consensus size: 54
10293683 GCTGCTGCTG
* * * ** *
10293693 CTGCTGTTGCTGAGGCTTGGCAGTGGGAGCTGTTGCAGGGTGTTTCCTGTCTGC
1 CTGCTGCTGCTGAGGCTTGGCAGCGGCAGCTGTCACAGGGTGTTTCCTGTCAGC
10293747 CTGCTGCTGCTGAGGCTTGGCAGCGGCAGCTGTCACAGGGTGTTTCCTGTCAGC
1 CTGCTGCTGCTGAGGCTTGGCAGCGGCAGCTGTCACAGGGTGTTTCCTGTCAGC
10293801 CTGCTGCT
1 CTGCTGCT
10293809 TCTCGAGCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.09, C:0.25, G:0.36, T:0.30
Consensus pattern (54 bp):
CTGCTGCTGCTGAGGCTTGGCAGCGGCAGCTGTCACAGGGTGTTTCCTGTCAGC
Found at i:10297447 original size:44 final size:44
Alignment explanation
Indices: 10297384--10297469 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
10297374 AAATAAAAAA
10297384 ATTATTTTATTTTGATAAGATTAGTTGAAATTAATAGCTAAGAT
1 ATTATTTTATTTTGATAAGATTAGTTGAAATTAATAGCTAAGAT
10297428 ATTATTTTATTTTGATAAGATTAGTTGAAATTAATAGCTAAG
1 ATTATTTTATTTTGATAAGATTAGTTGAAATTAATAGCTAAG
10297470 TGCAACCAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.45
Consensus pattern (44 bp):
ATTATTTTATTTTGATAAGATTAGTTGAAATTAATAGCTAAGAT
Found at i:10298766 original size:21 final size:20
Alignment explanation
Indices: 10298708--10298765 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
10298698 AAATATGAAA
10298708 AAAATTTT-ATATTATA-AT
1 AAAATTTTAATATTATATAT
10298726 AAAATTTTAATATTATATAT
1 AAAATTTTAATATTATATAT
* *
10298746 AAAA-TTTATTATTACATAT
1 AAAATTTTAATATTATATAT
10298765 A
1 A
10298766 TTACATGTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
18 8 0.22
19 22 0.61
20 6 0.17
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
AAAATTTTAATATTATATAT
Found at i:10299916 original size:2 final size:2
Alignment explanation
Indices: 10299909--10299937 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10299899 TCTTTTGTCA
10299909 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10299938 ACCATAATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10301412 original size:33 final size:32
Alignment explanation
Indices: 10301375--10301467 Score: 89
Period size: 33 Copynumber: 2.8 Consensus size: 32
10301365 GATATAATAA
10301375 TTATATATAATTTAATAAAATAAAAAATATATT
1 TTATATATAATTTAATAAAATAAAAAATA-ATT
* * * * *
10301408 TTATATTTTATGTTAA-AATTATGAAACATAATT
1 TTATATATAAT-TTAATAA-AATAAAAAATAATT
*
10301441 TTATATAAAATTTAATAAATATAAAAA
1 TTATATATAATTTAATAAA-ATAAAAA
10301468 TTTTAATATT
Statistics
Matches: 45, Mismatches: 11, Indels: 8
0.70 0.17 0.12
Matches are distributed among these distances:
32 4 0.09
33 29 0.64
34 12 0.27
ACGTcount: A:0.54, C:0.01, G:0.02, T:0.43
Consensus pattern (32 bp):
TTATATATAATTTAATAAAATAAAAAATAATT
Found at i:10312773 original size:2 final size:2
Alignment explanation
Indices: 10312760--10312799 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
10312750 CCATATTTCC
*
10312760 AT AT AG 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
10312800 CTTGCCTGGG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:10313978 original size:28 final size:29
Alignment explanation
Indices: 10313938--10313993 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
10313928 ATGTCATTTT
* *
10313938 AATTAACAAATTTATAATTC-AAATATCG
1 AATTAAAAAATTTATAAATCTAAATATCG
*
10313966 AATTAAAAAATTTTTAAATCTAAATATC
1 AATTAAAAAATTTATAAATCTAAATATC
10313994 ACATTAGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 17 0.71
29 7 0.29
ACGTcount: A:0.52, C:0.09, G:0.02, T:0.38
Consensus pattern (29 bp):
AATTAAAAAATTTATAAATCTAAATATCG
Found at i:10314365 original size:13 final size:14
Alignment explanation
Indices: 10314342--10314373 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
10314332 TTGATAATTT
10314342 TAAATATAATATAA
1 TAAATATAATATAA
10314356 TAAA-ATAATATAA
1 TAAATATAATATAA
10314369 -AAATA
1 TAAATA
10314374 ATTATATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 3 0.18
13 10 0.59
14 4 0.24
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
TAAATATAATATAA
Found at i:10320507 original size:10 final size:11
Alignment explanation
Indices: 10320461--10320508 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
10320451 ATATATAATT
10320461 TAAAATTTTAA
1 TAAAATTTTAA
*
10320472 TAAAATTAT-A
1 TAAAATTTTAA
10320482 TATAAA-TTTAA
1 TA-AAATTTTAA
10320493 TAAAATTTTAA
1 TAAAATTTTAA
10320504 -AAAAT
1 TAAAAT
10320509 AATTTTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
10 13 0.41
11 19 0.59
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAAAATTTTAA
Found at i:10322929 original size:14 final size:15
Alignment explanation
Indices: 10322899--10322931 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10322889 CGGTGATACG
*
10322899 ATAAAAAATATATAA
1 ATAAAAAATATAAAA
10322914 ATAAAAAA-ATAAAA
1 ATAAAAAATATAAAA
10322928 ATAA
1 ATAA
10322932 TATAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAAAAATATAAAA
Found at i:10322950 original size:18 final size:17
Alignment explanation
Indices: 10322929--10322978 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
10322919 AAAATAAAAA
*
10322929 TAATATAATTATAAATTT
1 TAATAAAATTATAAA-TT
*
10322947 TAATAAAAATTATGAATT
1 TAAT-AAAATTATAAATT
10322965 TAATAAAATT-TAAA
1 TAATAAAATTATAAA
10322979 AAATATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 3 0.11
17 6 0.21
18 10 0.36
19 9 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAATAAAATTATAAATT
Found at i:10322959 original size:19 final size:18
Alignment explanation
Indices: 10322935--10322972 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10322925 AAAATAATAT
10322935 AATTATAAATTTTAATAAA
1 AATTATAAA-TTTAATAAA
*
10322954 AATTATGAATTTAATAAA
1 AATTATAAATTTAATAAA
10322972 A
1 A
10322973 TTTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AATTATAAATTTAATAAA
Found at i:10323059 original size:15 final size:15
Alignment explanation
Indices: 10323004--10323060 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 15
10322994 TTTTATATCG
*
10323004 ATATAAATTA-TGAT
1 ATATAAATTATTAAT
10323018 ATAT-AATT-TTAAT
1 ATATAAATTATTAAT
**
10323031 ATA-AAA-TACGAAT
1 ATATAAATTATTAAT
10323044 ATATAAATTATTAAT
1 ATATAAATTATTAAT
10323059 AT
1 AT
10323061 TTTACACAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
12 1 0.03
13 18 0.55
14 7 0.21
15 7 0.21
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (15 bp):
ATATAAATTATTAAT
Found at i:10328273 original size:29 final size:30
Alignment explanation
Indices: 10328232--10328298 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
10328222 ACTCTTACGT
* * *
10328232 TTTATTATAATTA-ATTAAATCGTCGAATA
1 TTTATTTTAATTATAATAAATCGTCAAATA
* * *
10328261 TTTATTTTCATTATAATAAATCTTTAAATA
1 TTTATTTTAATTATAATAAATCGTCAAATA
10328291 TTTATTTT
1 TTTATTTT
10328299 TATTTAGTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 11 0.35
30 20 0.65
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (30 bp):
TTTATTTTAATTATAATAAATCGTCAAATA
Found at i:10330741 original size:2 final size:2
Alignment explanation
Indices: 10330734--10330764 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10330724 TGTACCAATC
10330734 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10330765 CTTTGATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10334907 original size:35 final size:36
Alignment explanation
Indices: 10334847--10334918 Score: 137
Period size: 35 Copynumber: 2.0 Consensus size: 36
10334837 ATTGATCCTT
10334847 ACCTTTAAGTGCCATTTTACCTTTCATTGCAGGAGA
1 ACCTTTAAGTGCCATTTTACCTTTCATTGCAGGAGA
10334883 ACCTTTAAGTGCC-TTTTACCTTTCATTGCAGGAGA
1 ACCTTTAAGTGCCATTTTACCTTTCATTGCAGGAGA
10334918 A
1 A
10334919 TTTTAGTTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 23 0.64
36 13 0.36
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (36 bp):
ACCTTTAAGTGCCATTTTACCTTTCATTGCAGGAGA
Found at i:10342828 original size:15 final size:15
Alignment explanation
Indices: 10342797--10342839 Score: 61
Period size: 17 Copynumber: 2.8 Consensus size: 15
10342787 TCATTTTAAA
10342797 AAATTTTATATTCATTT
1 AAATTTTAT-TT-ATTT
10342814 AAATTTTATTTATTT
1 AAATTTTATTTATTT
10342829 AAA-TTTATTTA
1 AAATTTTATTTA
10342840 ATTATAATGT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.31
15 7 0.27
16 2 0.08
17 9 0.35
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (15 bp):
AAATTTTATTTATTT
Found at i:10347056 original size:24 final size:23
Alignment explanation
Indices: 10347014--10347078 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
10347004 AAAATTAAAA
*
10347014 TATAATAA-AATAATT-TAAATT
1 TATAATAATAATATTTATAAATT
10347035 TATAATAATAATTATTTATAAATT
1 TATAATAATAA-TATTTATAAATT
*
10347059 TAATAA-AATAAAATTTATAA
1 T-ATAATAATAATATTTATAA
10347079 TATAAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.21
22 2 0.05
23 12 0.32
24 12 0.32
25 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATAATAATATTTATAAATT
Found at i:10347598 original size:155 final size:160
Alignment explanation
Indices: 10347369--10347685 Score: 439
Period size: 155 Copynumber: 2.0 Consensus size: 160
10347359 ATGAATTTAG
* * * *
10347369 ATATATTTTTAAAATAATTTTTTTTAGTAAAAATATTTATATAATTTTTATCATTGAATAAGTAT
1 ATATATTTTTAAAATAAATATTTTTAGTAAAAATATTTATATAATTTTTATCATTAAATAAATAT
* * *
10347434 CGATTAAATTTTAATTATAAATATTTTTAAT-T-TTTAT-ATATTATTGATTTTCATATTAAACT
66 CGATCAAATTTAAATTATAAATATTTTTAATATATTTATCATATTATTGATTTTCACATTAAACT
* *
10347496 TTATCATCTATTAGTTTA-AATTTTTATTA
131 TTATCATCTATCAATTTATAATTTTTATTA
* * *
10347525 ATATATTTTTTAGATAAATATTTTTATTAAAAATATTTCA-A-AATTTTTATCATTAAATAAATA
1 ATATATTTTTAAAATAAATATTTTTAGTAAAAATATTT-ATATAATTTTTATCATTAAATAAATA
* *
10347588 TGGATCAAATTTAAATTATAAATATTTTTAATAATATTTTTCATATTATTGATTTTCACATTAAA
65 TCGATCAAATTTAAATTATAAATATTTTTAAT-ATATTTATCATATTATTGATTTTCACATTAAA
*
10347653 CTTTATCATCTATCAATTTATATTTTTTATTA
129 CTTTATCATCTATCAATTTATAATTTTTATTA
10347685 A
1 A
10347686 AATTTATTAA
Statistics
Matches: 140, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
155 49 0.35
156 34 0.24
157 2 0.01
158 4 0.03
159 40 0.29
160 11 0.08
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (160 bp):
ATATATTTTTAAAATAAATATTTTTAGTAAAAATATTTATATAATTTTTATCATTAAATAAATAT
CGATCAAATTTAAATTATAAATATTTTTAATATATTTATCATATTATTGATTTTCACATTAAACT
TTATCATCTATCAATTTATAATTTTTATTA
Found at i:10347733 original size:159 final size:153
Alignment explanation
Indices: 10347411--10347719 Score: 358
Period size: 155 Copynumber: 2.0 Consensus size: 153
10347401 ATATTTATAT
* * * *
10347411 AATTTTTATCATTGAATAAGTATCGATTAAATTTTAATTATAAATATTTTTAATTTTTATATATT
1 AATTTTTATCATTAAATAAATATCGATCAAATTTAAATTATAAATATTTTTAATTTTTATATATT
* * *
10347476 ATTGATTTTCATATTAAACTTTATCATCTATTAGTTTAAATTTTTATTAATATATTTTTTAGATA
66 ATTGATTTTCACATTAAACTTTATCATCTATCAATTTAAATTTTTATTAATATA--TTTTAGATA
* ** * *
10347541 AATATTTTTATTAAAAATATTTCAA
129 AATATTTTAAAAAAAAAAACTTCAA
* *
10347566 AATTTTTATCATTAAATAAATATGGATCAAATTTAAATTATAAATATTTTTAATAATATTTTTCA
1 AATTTTTATCATTAAATAAATATCGATCAAATTTAAATTATAAATATTTTTAAT--T-TTTAT-A
*
10347631 TATTATTGATTTTCACATTAAACTTTATCATCTATCAATTTATATTTTTTATTAA-A-A-TTTA-
62 TATTATTGATTTTCACATTAAACTTTATCATCTATCAATTTA-AATTTTTATTAATATATTTTAG
*
10347692 TTAAATCA-TTTAAAAAAAAAAACCTTCA
126 ATAAAT-ATTTTAAAAAAAAAAA-CTTCA
10347720 TGAGCTTTAT
Statistics
Matches: 131, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
154 15 0.11
155 58 0.44
157 1 0.01
158 5 0.04
159 41 0.31
160 11 0.08
ACGTcount: A:0.40, C:0.06, G:0.03, T:0.50
Consensus pattern (153 bp):
AATTTTTATCATTAAATAAATATCGATCAAATTTAAATTATAAATATTTTTAATTTTTATATATT
ATTGATTTTCACATTAAACTTTATCATCTATCAATTTAAATTTTTATTAATATATTTTAGATAAA
TATTTTAAAAAAAAAAACTTCAA
Found at i:10351721 original size:27 final size:28
Alignment explanation
Indices: 10351690--10351748 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
10351680 TTTATCAAAT
*
10351690 TTATAT-ATCATTTTTAT-TAATTTTAAA
1 TTATATCA-CATTTATATATAATTTTAAA
* *
10351717 TTATATCACATTTATATATATTTTTATA
1 TTATATCACATTTATATATAATTTTAAA
10351745 TTAT
1 TTAT
10351749 TTTATGTCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 14 0.52
28 13 0.48
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (28 bp):
TTATATCACATTTATATATAATTTTAAA
Found at i:10352086 original size:17 final size:16
Alignment explanation
Indices: 10352057--10352090 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10352047 AAATTGTAAA
10352057 TATTAAAATTTAAATT
1 TATTAAAATTTAAATT
*
10352073 TATTTAAATATTAAATT
1 TATTAAAAT-TTAAATT
10352090 T
1 T
10352091 TAAAAATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTAAAATTTAAATT
Found at i:10353249 original size:12 final size:12
Alignment explanation
Indices: 10353232--10353266 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
10353222 ATCAGAAATG
10353232 AAAAACAGAGCA
1 AAAAACAGAGCA
*
10353244 AAAAACAGAGTA
1 AAAAACAGAGCA
10353256 AAGAAACAGAG
1 AA-AAACAGAG
10353267 ACACCAACCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 13 0.62
13 8 0.38
ACGTcount: A:0.66, C:0.11, G:0.20, T:0.03
Consensus pattern (12 bp):
AAAAACAGAGCA
Found at i:10354078 original size:20 final size:19
Alignment explanation
Indices: 10354031--10354080 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
10354021 AATTGTATAT
10354031 TTTTAAATT-TTTTATTTA
1 TTTTAAATTATTTTATTTA
* * *
10354049 TATTATATTATTTTATTATG
1 TTTTAAATTATTTTATT-TA
10354069 TTTTAAATTATT
1 TTTTAAATTATT
10354081 AAATTTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
18 7 0.28
19 7 0.28
20 11 0.44
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (19 bp):
TTTTAAATTATTTTATTTA
Found at i:10354096 original size:53 final size:52
Alignment explanation
Indices: 10353976--10354109 Score: 130
Period size: 53 Copynumber: 2.5 Consensus size: 52
10353966 AATTTATTTT
*
10353976 TTTAAAATTTTGTTAAGTTTATATGTATTTATTGTTAAATTTTTAAATTGTATAT
1 TTTAAAATTTT-TT-A-TTTATATGTATTTATTGTTAAATTTTTAAATTGTATAA
* * *
10354031 TTTTAAATTTTTTATTTATAT-TATATTATT-TTATTATGTTTTAAATTAT-TAAA
1 TTTAAAATTTTTTATTTATATGTAT-TTATTGTTA-AAT-TTTTAAATTGTAT-AA
*
10354084 TTTAAAATTTTTTATATAATATGTAT
1 TTTAAAATTTTTTAT-TTATATGTAT
10354110 GTGCGAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
51 6 0.09
52 15 0.22
53 26 0.39
54 7 0.10
55 13 0.19
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (52 bp):
TTTAAAATTTTTTATTTATATGTATTTATTGTTAAATTTTTAAATTGTATAA
Found at i:10354488 original size:25 final size:25
Alignment explanation
Indices: 10354460--10354507 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
10354450 ATTATACAAA
10354460 TAAAAAATTAAAAAATAATATAATT
1 TAAAAAATTAAAAAATAATATAATT
** * *
10354485 TAAAATTTTAATAAATATTATAA
1 TAAAAAATTAAAAAATAATATAA
10354508 ATAAATTTAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
TAAAAAATTAAAAAATAATATAATT
Found at i:10356333 original size:2 final size:2
Alignment explanation
Indices: 10356326--10356350 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10356316 CATCCTTTTG
10356326 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10356351 TAGTTATGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10358831 original size:31 final size:31
Alignment explanation
Indices: 10358796--10358860 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
10358786 GTGTAGATTA
*
10358796 TAAATGTTAAAATTCAAATTATAATCCTAAT
1 TAAATGTTAAAATTCAAATTATAAACCTAAT
*
10358827 TAAATGTTAAAATTCGAATTATAAACCTAAT
1 TAAATGTTAAAATTCAAATTATAAACCTAAT
10358858 TAA
1 TAA
10358861 TTTTTTTAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.49, C:0.09, G:0.05, T:0.37
Consensus pattern (31 bp):
TAAATGTTAAAATTCAAATTATAAACCTAAT
Found at i:10359983 original size:13 final size:12
Alignment explanation
Indices: 10359953--10359992 Score: 55
Period size: 11 Copynumber: 3.3 Consensus size: 12
10359943 AATTATATCA
10359953 TTTATATCATA-
1 TTTATATCATAT
10359964 TTTATATCATAT
1 TTTATATCATAT
*
10359976 TATTATATTATAT
1 T-TTATATCATAT
10359989 TTTA
1 TTTA
10359993 AATTATCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.42
12 4 0.15
13 11 0.42
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (12 bp):
TTTATATCATAT
Found at i:10361558 original size:54 final size:56
Alignment explanation
Indices: 10361473--10361590 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 56
10361463 GCTGCTGCTG
* * * ** *
10361473 CTGCTGTTGCTGAGGCTTGGCAGTGGGAGCTGTTGCAGGGTGTTT-CCTGTCTG-C
1 CTGCTGCTGCTGAGGCTTGGCAGCGGCAGCTGTCACAGGGTGTTTCCCTGTCAGCC
10361527 CTGCTGCTGCTGAGGCTTGGCAGCGGCAGCTGTCACAGGGTGTTTCCCTGTCAGCC
1 CTGCTGCTGCTGAGGCTTGGCAGCGGCAGCTGTCACAGGGTGTTTCCCTGTCAGCC
10361583 CTGCTGCT
1 CTGCTGCT
10361591 TCTCGAGCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
54 40 0.71
55 7 0.12
56 9 0.16
ACGTcount: A:0.08, C:0.26, G:0.36, T:0.30
Consensus pattern (56 bp):
CTGCTGCTGCTGAGGCTTGGCAGCGGCAGCTGTCACAGGGTGTTTCCCTGTCAGCC
Found at i:10362709 original size:33 final size:33
Alignment explanation
Indices: 10362667--10362733 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
10362657 ATGCACAGAA
10362667 AAAAGTTGAAAAAAGGGAGCACAAACACCAACT
1 AAAAGTTGAAAAAAGGGAGCACAAACACCAACT
*
10362700 AAAAGTTGAAAAAAGGGATCACAAACACCAACT
1 AAAAGTTGAAAAAAGGGAGCACAAACACCAACT
10362733 A
1 A
10362734 TAAAATCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.55, C:0.18, G:0.16, T:0.10
Consensus pattern (33 bp):
AAAAGTTGAAAAAAGGGAGCACAAACACCAACT
Found at i:10365281 original size:44 final size:44
Alignment explanation
Indices: 10365218--10365303 Score: 172
Period size: 44 Copynumber: 2.0 Consensus size: 44
10365208 AAATAAAAAA
10365218 ATTATTTTATTTTGATAAGATTAGTTGAAATTAATAGCTAAGAT
1 ATTATTTTATTTTGATAAGATTAGTTGAAATTAATAGCTAAGAT
10365262 ATTATTTTATTTTGATAAGATTAGTTGAAATTAATAGCTAAG
1 ATTATTTTATTTTGATAAGATTAGTTGAAATTAATAGCTAAG
10365304 TGCAACCAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.38, C:0.02, G:0.14, T:0.45
Consensus pattern (44 bp):
ATTATTTTATTTTGATAAGATTAGTTGAAATTAATAGCTAAGAT
Found at i:10365721 original size:2 final size:2
Alignment explanation
Indices: 10365714--10365742 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
10365704 AAAGAGTTAC
10365714 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
10365743 AAAGATTGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10366574 original size:18 final size:18
Alignment explanation
Indices: 10366551--10366587 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10366541 AAATATGAAA
10366551 AAAAATTTA-TATTATAAT
1 AAAAATTTATTATTA-AAT
10366569 AAAAATTTATTATTAAAT
1 AAAAATTTATTATTAAAT
10366587 A
1 A
10366588 TATTACATGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAATTTATTATTAAAT
Found at i:10367032 original size:16 final size:16
Alignment explanation
Indices: 10367013--10367043 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10367003 TTCATTCTAA
*
10367013 AAATTTGACATTCAAC
1 AAATTTGAAATTCAAC
10367029 AAATTTGAAATTCAA
1 AAATTTGAAATTCAA
10367044 ATTCCAATAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.32
Consensus pattern (16 bp):
AAATTTGAAATTCAAC
Found at i:10367352 original size:15 final size:14
Alignment explanation
Indices: 10367331--10367367 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
10367321 TTTCGATATT
10367331 ATTTTTTTATTTGA
1 ATTTTTTTATTTGA
**
10367345 ATTTTTTTATTTTT
1 ATTTTTTTATTTGA
10367359 ATTTTTTTA
1 ATTTTTTTA
10367368 AGTTTTTGAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (14 bp):
ATTTTTTTATTTGA
Found at i:10375802 original size:17 final size:18
Alignment explanation
Indices: 10375772--10375805 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10375762 TGTCATTTGC
*
10375772 TTAATATATCATATAATT
1 TTAATATATAATATAATT
10375790 TTAA-ATATAATATAAT
1 TTAATATATAATATAAT
10375806 AATATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (18 bp):
TTAATATATAATATAATT
Found at i:10375863 original size:24 final size:25
Alignment explanation
Indices: 10375835--10375893 Score: 68
Period size: 28 Copynumber: 2.3 Consensus size: 25
10375825 AATCGATTTA
10375835 AAATTT-TAATAAAAAATTATATAT
1 AAATTTATAATAAAAAATTATATAT
10375859 AAATTTAAAATAATAAAAAATTATAT-T
1 AAATTT---ATAATAAAAAATTATATAT
*
10375886 TAATTTAT
1 AAATTTAT
10375894 TAACATGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
24 8 0.27
27 6 0.20
28 16 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (25 bp):
AAATTTATAATAAAAAATTATATAT
Found at i:10380542 original size:2 final size:2
Alignment explanation
Indices: 10380525--10380558 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
10380515 CCATATTACC
* *
10380525 AT AT AG AT AA 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
10380559 CTTGCCTGGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (2 bp):
AT
Found at i:10381100 original size:9 final size:9
Alignment explanation
Indices: 10381086--10381115 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
10381076 AATATTTTAT
10381086 TAATTAAAA
1 TAATTAAAA
10381095 TAATTAAAA
1 TAATTAAAA
10381104 TATATTAAAA
1 TA-ATTAAAA
10381114 TA
1 TA
10381116 TAAAAATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:10381112 original size:10 final size:10
Alignment explanation
Indices: 10381088--10381117 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
10381078 TATTTTATTA
10381088 ATTAAAATA-
1 ATTAAAATAT
10381097 ATTAAAATAT
1 ATTAAAATAT
10381107 ATTAAAATAT
1 ATTAAAATAT
10381117 A
1 A
10381118 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:10381129 original size:19 final size:20
Alignment explanation
Indices: 10381085--10381131 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
10381075 AAATATTTTA
*
10381085 TTAATTAAAATAATTAAAAT
1 TTAATTAAAATAATAAAAAT
*
10381105 AT-ATTAAAAT-ATAAAAAT
1 TTAATTAAAATAATAAAAAT
10381123 TTAATTAAA
1 TTAATTAAA
10381132 TTTGTAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 8 0.35
19 14 0.61
20 1 0.04
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
TTAATTAAAATAATAAAAAT
Found at i:10381433 original size:12 final size:12
Alignment explanation
Indices: 10381416--10381440 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10381406 AATTCAGAAA
10381416 GGGGATAATTAT
1 GGGGATAATTAT
10381428 GGGGATAATTAT
1 GGGGATAATTAT
10381440 G
1 G
10381441 ATCCTATTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (12 bp):
GGGGATAATTAT
Found at i:10381891 original size:26 final size:27
Alignment explanation
Indices: 10381862--10381915 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
10381852 CATCATTTTA
* *
10381862 ATTAACAAATTTATAATTC-AAATATC
1 ATTAAAAAATTTATAAATCTAAATATC
*
10381888 ATTAAAAAATTTTTAAATCTAAATATC
1 ATTAAAAAATTTATAAATCTAAATATC
10381915 A
1 A
10381916 CATTAGATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 16 0.67
27 8 0.33
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (27 bp):
ATTAAAAAATTTATAAATCTAAATATC
Found at i:10390950 original size:14 final size:15
Alignment explanation
Indices: 10390920--10390952 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
10390910 CGGTGATACG
*
10390920 ATAAAAAATATATAA
1 ATAAAAAATATAAAA
10390935 ATAAAAAA-ATAAAA
1 ATAAAAAATATAAAA
10390949 ATAA
1 ATAA
10390953 TATAATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 9 0.53
15 8 0.47
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
ATAAAAAATATAAAA
Found at i:10390971 original size:18 final size:17
Alignment explanation
Indices: 10390950--10390999 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
10390940 AAAATAAAAA
*
10390950 TAATATAATTATAAATTT
1 TAATAAAATTATAAA-TT
*
10390968 TAATAAAAATTATGAATT
1 TAAT-AAAATTATAAATT
10390986 TAATAAAATT-TAAA
1 TAATAAAATTATAAA
10391000 AAATATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
16 3 0.11
17 6 0.21
18 10 0.36
19 9 0.32
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
TAATAAAATTATAAATT
Found at i:10390980 original size:19 final size:18
Alignment explanation
Indices: 10390956--10390993 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
10390946 AAAATAATAT
10390956 AATTATAAATTTTAATAAA
1 AATTATAAA-TTTAATAAA
*
10390975 AATTATGAATTTAATAAA
1 AATTATAAATTTAATAAA
10390993 A
1 A
10390994 TTTAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
AATTATAAATTTAATAAA
Found at i:10391080 original size:15 final size:15
Alignment explanation
Indices: 10391025--10391081 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 15
10391015 TTTTATATCG
*
10391025 ATATAAATTA-TGAT
1 ATATAAATTATTAAT
10391039 ATAT-AATT-TTAAT
1 ATATAAATTATTAAT
**
10391052 ATA-AAA-TACGAAT
1 ATATAAATTATTAAT
10391065 ATATAAATTATTAAT
1 ATATAAATTATTAAT
10391080 AT
1 AT
10391082 TTTACACAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
12 1 0.03
13 18 0.55
14 7 0.21
15 7 0.21
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (15 bp):
ATATAAATTATTAAT
Found at i:10396396 original size:30 final size:30
Alignment explanation
Indices: 10396347--10396414 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
10396337 TTTATTATAA
* *
10396347 TTAATTAAATCGTCGAATATCTATTTTTAT
1 TTAATTAAATCGTCAAATATCTATTTTTAC
* * * *
10396377 TTAATTAAATCTTTAAATATTTTTTTTTAC
1 TTAATTAAATCGTCAAATATCTATTTTTAC
*
10396407 TTAGTTAA
1 TTAATTAA
10396415 GCCATCAATT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.34, C:0.07, G:0.04, T:0.54
Consensus pattern (30 bp):
TTAATTAAATCGTCAAATATCTATTTTTAC
Found at i:10398905 original size:2 final size:2
Alignment explanation
Indices: 10398898--10398924 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
10398888 TGTACCAATC
10398898 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
10398925 CTTTGATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10401422 original size:15 final size:15
Alignment explanation
Indices: 10401367--10401423 Score: 52
Period size: 13 Copynumber: 4.1 Consensus size: 15
10401357 TTTTATATCG
*
10401367 ATATAAATTA-TGAT
1 ATATAAATTATTAAT
10401381 ATAT-AATT-TTAAT
1 ATATAAATTATTAAT
**
10401394 ATA-AAA-TACGAAT
1 ATATAAATTATTAAT
10401407 ATATAAATTATTAAT
1 ATATAAATTATTAAT
10401422 AT
1 AT
10401424 TTTACACAAC
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
12 1 0.03
13 18 0.55
14 7 0.21
15 7 0.21
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.42
Consensus pattern (15 bp):
ATATAAATTATTAAT
Found at i:10406635 original size:29 final size:30
Alignment explanation
Indices: 10406594--10406660 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 30
10406584 ACTCTTACGT
* * *
10406594 TTTATTATAATTA-ATTAAATCGTCGAATA
1 TTTATTTTAATTATAATAAATCGTCAAATA
* * *
10406623 TTTATTTTCATTATAATAAATCTTTAAATA
1 TTTATTTTAATTATAATAAATCGTCAAATA
10406653 TTTATTTT
1 TTTATTTT
10406661 TATTTAGTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
29 11 0.35
30 20 0.65
ACGTcount: A:0.37, C:0.06, G:0.03, T:0.54
Consensus pattern (30 bp):
TTTATTTTAATTATAATAAATCGTCAAATA
Found at i:10409117 original size:2 final size:2
Alignment explanation
Indices: 10409110--10409142 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10409100 TGTACCAATC
10409110 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10409143 CTTTGATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10413482 original size:205 final size:202
Alignment explanation
Indices: 10413133--10413501 Score: 621
Period size: 205 Copynumber: 1.8 Consensus size: 202
10413123 GTAACTTGAG
**
10413133 TGAAAATTTACATTTTTGGTGATAAGAATTGCATTATTTTTTAACTTACCAGGATTGGAACTAAG
1 TGAAAATTTACATTTTTACTGATAAGAATTGCATTATTTTTTAACTTACCAGGATTGGAACTAAG
10413198 AATCCAGCGCTCTACCAACAGTCCACGCAGCTGTTGGCATAAGAACAGCATAATTGATCCTTACC
66 AATCCAGCGCTCTACCAACAGTCCACGCAGCTGTTGGCATAAGAACAGCATAATTGATCCTTACC
* *
10413263 TTTAAGTGCCATTTTACTTTTCATTGCAGGAGAATTTTAGTAGGAGAATTTCAGTAATGTTCAGC
131 TTTAAGTGCCATTTTACCTTTCAATGCAGGAGAATTTTAGTAGGAGAATTTCAGTAATGTTCAGC
10413328 AAGAGAA
196 AAGAGAA
* *
10413335 TGAAAATTTACATTTTTACTGATAAGAATTGCATTATTTTTTAGCTTACCACCAGGATTGGATCT
1 TGAAAATTTACATTTTTACTGATAAGAATTGCATTATTTTTTAACTT---ACCAGGATTGGAACT
* *
10413400 AAGAATTCAGCGCTCTACCAACAGTCCACGCGGCTGTTGGCATAAGAACAGCATAATTGATCCTT
63 AAGAATCCAGCGCTCTACCAACAGTCCACGCAGCTGTTGGCATAAGAACAGCATAATTGATCCTT
* *
10413465 ACTTTTGAGTGCCATTTTACCTTTCAATGCAGGAGAA
128 ACCTTTAAGTGCCATTTTACCTTTCAATGCAGGAGAA
10413502 CTTCAGTAAT
Statistics
Matches: 154, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
202 44 0.29
205 110 0.71
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (202 bp):
TGAAAATTTACATTTTTACTGATAAGAATTGCATTATTTTTTAACTTACCAGGATTGGAACTAAG
AATCCAGCGCTCTACCAACAGTCCACGCAGCTGTTGGCATAAGAACAGCATAATTGATCCTTACC
TTTAAGTGCCATTTTACCTTTCAATGCAGGAGAATTTTAGTAGGAGAATTTCAGTAATGTTCAGC
AAGAGAA
Found at i:10421163 original size:14 final size:15
Alignment explanation
Indices: 10421134--10421168 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
10421124 AAATATTTTG
10421134 TATTTATTTAAAATT
1 TATTTATTTAAAATT
10421149 TATTTATTT-AAATT
1 TATTTATTTAAAATT
10421163 TATTTA
1 TATTTA
10421169 ATTATATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.55
15 9 0.45
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATTTATTTAAAATT
Found at i:10421261 original size:19 final size:19
Alignment explanation
Indices: 10421237--10421273 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
10421227 GAACGAATTT
10421237 ATTTAACTTAATTGAAATG
1 ATTTAACTTAATTGAAATG
*
10421256 ATTTAATTTAATTGAAAT
1 ATTTAACTTAATTGAAAT
10421274 AAACATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.43, C:0.03, G:0.08, T:0.46
Consensus pattern (19 bp):
ATTTAACTTAATTGAAATG
Found at i:10425356 original size:24 final size:23
Alignment explanation
Indices: 10425314--10425378 Score: 73
Period size: 23 Copynumber: 2.9 Consensus size: 23
10425304 AAAATTAAAA
*
10425314 TATAATAA-AATAATT-TAAATT
1 TATAATAATAATATTTATAAATT
10425335 TATAATAATAATTATTTATAAATT
1 TATAATAATAA-TATTTATAAATT
*
10425359 TAATAA-AATAAAATTTATAA
1 T-ATAATAATAATATTTATAA
10425379 TATAAATATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
21 8 0.21
22 2 0.05
23 12 0.32
24 12 0.32
25 4 0.11
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (23 bp):
TATAATAATAATATTTATAAATT
Found at i:10425837 original size:15 final size:14
Alignment explanation
Indices: 10425817--10425858 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
10425807 ATTAGTTTAA
10425817 ATTTTTTATTAATAT
1 ATTTTTTATTAA-AT
*
10425832 ATTTTTTAGATAAAT
1 ATTTTTTA-TTAAAT
10425847 A-TTTTTATTAAA
1 ATTTTTTATTAAA
10425859 AATATTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 4 0.17
14 6 0.25
15 11 0.46
16 3 0.12
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
ATTTTTTATTAAAT
Found at i:10425966 original size:159 final size:156
Alignment explanation
Indices: 10425672--10425987 Score: 422
Period size: 159 Copynumber: 2.0 Consensus size: 156
10425662 ATGAATTTAG
* * * *
10425672 ATATATTTTTAAAATAATTTTTTTTAGTAAAAATATTTATATAATTTTTATCATTGAATAAGTAT
1 ATATATTTTTAAAATAAATATTTTTAGTAAAAATATTTATATAATTTTTATCATTAAATAAATAT
* * *
10425737 CGATTAAATTTTAATTATAAATATTTTTAATTTTATATATTATTGATTTTCATATTAAACTTTAT
66 CGATCAAATTTAAATTATAAATATTTTTAATTTTATATATTATTGATTTTCACATTAAACTTTAT
* *
10425802 CATCTATTAGTTTAAATTTTTTATTA
131 CATCTATCAATTTAAATTTTTTATTA
* * *
10425828 ATATATTTTTTAGATAAATATTTTTATTAAAAATATTTCA-A-AA-TTTTATCATTAAATAAATA
1 ATATATTTTTAAAATAAATATTTTTAGTAAAAATATTT-ATATAATTTTTATCATTAAATAAATA
* *
10425890 TGGATCAAATTTAAATTATAAATATTTTTAATAATATTTTTCATATTATTGATTTTCACATTAAA
65 TCGATCAAATTTAAATTATAAATA-TTTT--TAAT-TTTAT-ATATTATTGATTTTCACATTAAA
*
10425955 CTTTATCATCTATCAATTTATATTTTTTATTA
125 CTTTATCATCTATCAATTTAAATTTTTTATTA
10425987 A
1 A
10425988 AATTTATTAA
Statistics
Matches: 139, Mismatches: 15, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
154 38 0.27
155 6 0.04
156 34 0.24
157 5 0.04
158 4 0.03
159 52 0.37
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (156 bp):
ATATATTTTTAAAATAAATATTTTTAGTAAAAATATTTATATAATTTTTATCATTAAATAAATAT
CGATCAAATTTAAATTATAAATATTTTTAATTTTATATATTATTGATTTTCACATTAAACTTTAT
CATCTATCAATTTAAATTTTTTATTA
Found at i:10430377 original size:17 final size:16
Alignment explanation
Indices: 10430348--10430381 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
10430338 AAATTGTAAA
10430348 TATTAAAATTTAAATT
1 TATTAAAATTTAAATT
*
10430364 TATTTAAATATTAAATT
1 TATTAAAAT-TTAAATT
10430381 T
1 T
10430382 TAAAAGTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
TATTAAAATTTAAATT
Found at i:10432357 original size:13 final size:14
Alignment explanation
Indices: 10432332--10432360 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
10432322 TTAAAATTTC
10432332 TTATTTATATTATA
1 TTATTTATATTATA
10432346 TTATTT-TATTATA
1 TTATTTATATTATA
10432359 TT
1 TT
10432361 TTAAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TTATTTATATTATA
Done.