Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 154 of 222
Found at i:49540968 original size:18 final size:17
Alignment explanation
Indices: 49540946--49540985 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
49540936 AAAAATTAGA
*
49540946 TAAATGATATACTTTAT
1 TAAATGATACACTTTAT
*
49540963 TCAAATTATACACTTTAT
1 T-AAATGATACACTTTAT
49540981 TAAAT
1 TAAAT
49540986 ATAATACAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.42, C:0.10, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAATGATACACTTTAT
Found at i:49541116 original size:26 final size:27
Alignment explanation
Indices: 49541080--49541151 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
49541070 ATGTAAATTA
*
49541080 AAAT-AGAAAAAAA-GATAATTGAAATG
1 AAATGAGAAAAAAATTA-AATTGAAATG
*
49541106 ACAA-GAGAAAAAAATTAAATTTAAATG
1 A-AATGAGAAAAAAATTAAATTGAAATG
49541133 AAATGAGAAAAAAATTAAA
1 AAATGAGAAAAAAATTAAA
49541152 ATGGAAAGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 3 0.08
27 36 0.90
28 1 0.03
ACGTcount: A:0.67, C:0.01, G:0.12, T:0.19
Consensus pattern (27 bp):
AAATGAGAAAAAAATTAAATTGAAATG
Found at i:49541134 original size:70 final size:69
Alignment explanation
Indices: 49541054--49541323 Score: 232
Period size: 70 Copynumber: 3.8 Consensus size: 69
49541044 TGAGAGAAAT
* *
49541054 TTTAATATGAAAAAAAATGTAAATTAAAATAGAAAAAAAGATAATTGAAATGACAAGAGAAAA-A
1 TTTAA-ATGAAAAAAAAT-TAAATTAAAATAGAAAAAAATATAATTTAAATGA-AAGAGAAAATA
49541118 AATTAAA
63 AATTAAA
* *
49541125 TTTAAATGAAATGAGAAAA--AAATTAAAATGGAAAGAAATATAATTTAAATGAAATGAGGAAGA
1 TTTAAATGAAA--A-AAAATTAAATTAAAATAGAAAAAAATATAATTTAAATGAAA-GA-G-A-A
49541188 AATTAAATTTAAA
59 AA-TAAA-TTAAA
* * *
49541201 TTTAAATGAAAAAAATAATTTAAA-TGAAATAAGAAAAAATTA-AATTTACATGAAA-A-AAAAT
1 TTTAAATG-AAAAAA-AA-TTAAATTAAAAT-AGAAAAAAATATAATTTAAATGAAAGAGAAAAT
*
49541262 AATTTAAA
62 AAATTAAA
* *
49541270 -TGAAATGAGAAAAAAAATTAAATTTAAATAGAAAAAAATATAATTTAAATGAAA
1 TTTAAAT--GAAAAAAAATTAAATTAAAATAGAAAAAAATATAATTTAAATGAAA
49541324 TGAAAATGGA
Statistics
Matches: 165, Mismatches: 14, Indels: 43
0.74 0.06 0.19
Matches are distributed among these distances:
67 15 0.09
68 24 0.15
69 13 0.08
70 41 0.25
71 9 0.05
72 3 0.02
73 7 0.04
74 2 0.01
75 7 0.04
76 13 0.08
77 20 0.12
78 11 0.07
ACGTcount: A:0.63, C:0.01, G:0.10, T:0.26
Consensus pattern (69 bp):
TTTAAATGAAAAAAAATTAAATTAAAATAGAAAAAAATATAATTTAAATGAAAGAGAAAATAAAT
TAAA
Found at i:49541162 original size:27 final size:27
Alignment explanation
Indices: 49541100--49541163 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
49541090 AAAGATAATT
*
49541100 GAAATGACAA-GAGAAAAAAATTAAATT
1 GAAATGA-AATGAGAAAAAAATTAAATG
*
49541127 TAAATGAAATGAGAAAAAAATTAAAATG
1 GAAATGAAATGAGAAAAAAATT-AAATG
49541155 GAAA-GAAAT
1 GAAATGAAAT
49541164 ATAATTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 2 0.06
27 23 0.72
28 7 0.22
ACGTcount: A:0.64, C:0.02, G:0.16, T:0.19
Consensus pattern (27 bp):
GAAATGAAATGAGAAAAAAATTAAATG
Found at i:49541299 original size:68 final size:69
Alignment explanation
Indices: 49541193--49541323 Score: 171
Period size: 68 Copynumber: 1.9 Consensus size: 69
49541183 GAAGAAATTA
* * *
49541193 AATTTAAATTTAAATGAAAAAAATAATTTAAATGAAATAAGAAAAAATTA-AATTTACATGAAAA
1 AATTTAAATTGAAATGAAAAAAATAATTTAAATGAAAT-AGAAAAAAATATAATTTAAATGAAAA
49541257 AAAAT
65 AAAAT
*
49541262 AATTTAAA-TGAAATGAGAAAAAA-AA-TTAAATTTAAATAGAAAAAAATATAATTTAAATGAAA
1 AATTTAAATTGAAATGA-AAAAAATAATTTAAA-TGAAATAGAAAAAAATATAATTTAAATGAAA
49541324 TGAAAATGGA
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
67 15 0.27
68 26 0.47
69 14 0.25
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.28
Consensus pattern (69 bp):
AATTTAAATTGAAATGAAAAAAATAATTTAAATGAAATAGAAAAAAATATAATTTAAATGAAAAA
AAAT
Found at i:49541306 original size:20 final size:20
Alignment explanation
Indices: 49541280--49541323 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
49541270 TGAAATGAGA
49541280 AAAAAAAT-TAAATTTAAATAG
1 AAAAAAATAT-AATTTAAAT-G
49541301 AAAAAAATATAATTTAAATG
1 AAAAAAATATAATTTAAATG
49541321 AAA
1 AAA
49541324 TGAAAATGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 4 0.18
21 17 0.77
22 1 0.05
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (20 bp):
AAAAAAATATAATTTAAATG
Found at i:49541338 original size:17 final size:17
Alignment explanation
Indices: 49541311--49541380 Score: 70
Period size: 17 Copynumber: 4.1 Consensus size: 17
49541301 AAAAAAATAT
*
49541311 AATTTAAATGAAATGAA
1 AATTGAAATGAAATGAA
* *
49541328 AATGGAAATGAAATGGA
1 AATTGAAATGAAATGAA
* * *
49541345 AATTTAAATTAAATG-G
1 AATTGAAATGAAATGAA
49541361 AATTGAAATAGAAATGAA
1 AATTGAAAT-GAAATGAA
49541379 AA
1 AA
49541381 GAAAAAAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 3
0.76 0.19 0.06
Matches are distributed among these distances:
16 8 0.20
17 31 0.76
18 2 0.05
ACGTcount: A:0.57, C:0.00, G:0.17, T:0.26
Consensus pattern (17 bp):
AATTGAAATGAAATGAA
Found at i:49541755 original size:19 final size:18
Alignment explanation
Indices: 49541733--49541771 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
49541723 GTATATTAGG
*
49541733 AAAAAATAAATTTAAATGA
1 AAAAAATAAA-TGAAATGA
*
49541752 AAAAAATTAATGAAATGA
1 AAAAAATAAATGAAATGA
49541770 AA
1 AA
49541772 TGTTAAATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (18 bp):
AAAAAATAAATGAAATGA
Found at i:49541770 original size:5 final size:5
Alignment explanation
Indices: 49541760--49541860 Score: 58
Period size: 5 Copynumber: 18.0 Consensus size: 5
49541750 GAAAAAAATT
* *
49541760 AATGA AATGA AATGTTA AATGAA ATATGA ATATGA AATGA AATGTA ATTTGT
1 AATGA AATGA AATG--A AATG-A A-ATGA A-ATGA AATGA AATG-A A-ATGA
** *
49541812 AATGA ATATGA AATGA AATGA GGTGTTA AATGA ATATAA AATGA AATGA
1 AATGA A-ATGA AATGA AATGA AATG--A AATGA A-ATGA AATGA AATGA
49541861 TGATTATGAA
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
5 41 0.54
6 22 0.29
7 13 0.17
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (5 bp):
AATGA
Found at i:49541778 original size:30 final size:30
Alignment explanation
Indices: 49541736--49541860 Score: 86
Period size: 30 Copynumber: 4.2 Consensus size: 30
49541726 TATTAGGAAA
49541736 AAAT-AAAT-TTAAATGAAA-A-AAATTAATG
1 AAATGAAATGTTAAATGAAATATAAA-T-ATG
*
49541764 AAATGAAATGTTAAATGAAATATGAATATG
1 AAATGAAATGTTAAATGAAATATAAATATG
* *
49541794 AAATGAAATG-TAATTTGTAATGAATATGAA-ATG
1 AAATGAAATGTTAA-ATG--A--AATATAAATATG
**
49541827 AAATGAGGTGTTAAATG-AATATAAA-ATG
1 AAATGAAATGTTAAATGAAATATAAATATG
49541855 AAATGA
1 AAATGA
49541861 TGATTATGAA
Statistics
Matches: 81, Mismatches: 6, Indels: 20
0.76 0.06 0.19
Matches are distributed among these distances:
28 20 0.25
29 7 0.09
30 25 0.31
31 2 0.02
32 3 0.04
33 13 0.16
34 11 0.14
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (30 bp):
AAATGAAATGTTAAATGAAATATAAATATG
Found at i:49541781 original size:12 final size:12
Alignment explanation
Indices: 49541762--49541831 Score: 56
Period size: 12 Copynumber: 6.0 Consensus size: 12
49541752 AAAAAATTAA
49541762 TGAAATGAAATG
1 TGAAATGAAATG
* *
49541774 TTAAATGAAATA
1 TGAAATGAAATG
49541786 TGAATATGAAA--
1 TGAA-ATGAAATG
* *
49541797 TGAAATGTAATT
1 TGAAATGAAATG
* *
49541809 TGTAATG-AATA
1 TGAAATGAAATG
49541820 TGAAATGAAATG
1 TGAAATGAAATG
49541832 AGGTGTTAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
10 5 0.11
11 13 0.28
12 22 0.48
13 6 0.13
ACGTcount: A:0.50, C:0.00, G:0.19, T:0.31
Consensus pattern (12 bp):
TGAAATGAAATG
Found at i:49541799 original size:35 final size:33
Alignment explanation
Indices: 49541762--49541832 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 33
49541752 AAAAAATTAA
*
49541762 TGAAATGAAATGTT-AAATGAAATATGAATATGAAA
1 TGAAATGAAAT-TTGAAAT-GAATATGAA-ATGAAA
* *
49541797 TGAAATGTAATTTGTAATGAATATGAAATGAAA
1 TGAAATGAAATTTGAAATGAATATGAAATGAAA
49541830 TGA
1 TGA
49541833 GGTGTTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 9 0.28
34 10 0.31
35 13 0.41
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.31
Consensus pattern (33 bp):
TGAAATGAAATTTGAAATGAATATGAAATGAAA
Found at i:49541843 original size:28 final size:27
Alignment explanation
Indices: 49541785--49541860 Score: 91
Period size: 28 Copynumber: 2.7 Consensus size: 27
49541775 TAAATGAAAT
*
49541785 ATGAATATGAAATGAAATGTAATTTGTA
1 ATGAATATGAAATGAAATG-AATTTGAA
*
49541813 ATGAATATGAAATGAAATGAGGTGTT-AA
1 ATGAATATGAAATGAAATGA-AT-TTGAA
*
49541841 ATGAATATAAAATGAAATGA
1 ATGAATATGAAATGAAATGA
49541861 TGATTATGAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
27 1 0.02
28 40 0.93
29 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.20, T:0.30
Consensus pattern (27 bp):
ATGAATATGAAATGAAATGAATTTGAA
Found at i:49541949 original size:20 final size:19
Alignment explanation
Indices: 49541895--49542002 Score: 98
Period size: 18 Copynumber: 5.6 Consensus size: 19
49541885 AAATGAAAAT
*
49541895 AAATTATAAATTTAAATG-
1 AAATAATAAATTTAAATGA
* *
49541913 AAATCAA-AAACTGAAATGA
1 AAAT-AATAAATTTAAATGA
49541932 AAATAA-AAATTTTGAAATGA
1 AAATAATAAA-TTT-AAATGA
49541952 GAAATAATTAAATTTAAATGGA
1 -AAATAA-TAAATTTAAAT-GA
*
49541974 AAATAATTAATTTAAATGA
1 AAATAATAAATTTAAATGA
49541993 AAAT-ATAAAT
1 AAATAATAAAT
49542003 GGAAAATTAA
Statistics
Matches: 75, Mismatches: 7, Indels: 16
0.77 0.07 0.16
Matches are distributed among these distances:
18 23 0.31
19 12 0.16
20 16 0.21
21 16 0.21
22 5 0.07
23 3 0.04
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (19 bp):
AAATAATAAATTTAAATGA
Found at i:49541970 original size:21 final size:20
Alignment explanation
Indices: 49541882--49541997 Score: 100
Period size: 21 Copynumber: 5.7 Consensus size: 20
49541872 TGGAATGACG
49541882 TTTAAATGAAAATAAATTATAAA
1 TTTAAATGAAAAT-AA-T-TAAA
49541905 TTTAAATG-AAATCAA--AAA
1 TTTAAATGAAAAT-AATTAAA
* *
49541923 CTGAAATGAAAATAA--AAA
1 TTTAAATGAAAATAATTAAA
49541941 TTTTGAAATGAGAAATAATTAAA
1 -TTT-AAATGA-AAATAATTAAA
49541964 TTTAAATGGAAAATAATT-AA
1 TTTAAAT-GAAAATAATTAAA
49541984 TTTAAATGAAAATA
1 TTTAAATGAAAATA
49541998 TAAATGGAAA
Statistics
Matches: 81, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
18 14 0.17
19 12 0.15
20 15 0.19
21 18 0.22
22 11 0.14
23 11 0.14
ACGTcount: A:0.59, C:0.02, G:0.09, T:0.31
Consensus pattern (20 bp):
TTTAAATGAAAATAATTAAA
Found at i:49542020 original size:17 final size:17
Alignment explanation
Indices: 49541957--49542025 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
49541947 AATGAGAAAT
49541957 AATTAAATTTAAATGGAAAA
1 AATT-AATTTAAATGG--AA
49541977 TAATTAATTTAAAT-GAA
1 -AATTAATTTAAATGGAA
49541994 AA-T-A--TAAATGGAA
1 AATTAATTTAAATGGAA
49542007 AATTAATTTAAATGGAA
1 AATTAATTTAAATGGAA
49542024 AA
1 AA
49542026 AAAATTCATT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 2 0.05
15 2 0.05
16 2 0.05
17 13 0.30
19 1 0.02
20 9 0.21
21 4 0.09
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (17 bp):
AATTAATTTAAATGGAA
Found at i:49542059 original size:5 final size:5
Alignment explanation
Indices: 49542049--49542124 Score: 73
Period size: 5 Copynumber: 14.6 Consensus size: 5
49542039 ATGTAGGTGT
* * *
49542049 AAATG AAATG AAATG AAAATAT AAATG AAATG AAAAG GAA-G AAATG AAATG
1 AAATG AAATG AAATG -AAAT-G AAATG AAATG AAATG AAATG AAATG AAATG
*
49542100 CAAATG AAATAC AAATG AAATG AAA
1 -AAATG AAAT-G AAATG AAATG AAA
49542125 AAAAAAAGGT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
4 3 0.05
5 39 0.66
6 17 0.29
ACGTcount: A:0.63, C:0.03, G:0.17, T:0.17
Consensus pattern (5 bp):
AAATG
Found at i:49542062 original size:22 final size:22
Alignment explanation
Indices: 49542048--49542124 Score: 81
Period size: 22 Copynumber: 3.6 Consensus size: 22
49542038 AATGTAGGTG
49542048 TAAATGAAATGAAATGAAAATA
1 TAAATGAAATGAAATGAAAATA
**
49542070 TAAATGAAATGAAA--AGGA-A
1 TAAATGAAATGAAATGAAAATA
*
49542089 GAAATGAAATGCAAATG-AAATA
1 TAAATGAAATG-AAATGAAAATA
*
49542111 CAAATGAAATGAAA
1 TAAATGAAATGAAA
49542125 AAAAAAAGGT
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
19 11 0.24
20 5 0.11
21 4 0.09
22 25 0.56
ACGTcount: A:0.62, C:0.03, G:0.17, T:0.18
Consensus pattern (22 bp):
TAAATGAAATGAAATGAAAATA
Found at i:49542106 original size:11 final size:10
Alignment explanation
Indices: 49542049--49542124 Score: 73
Period size: 11 Copynumber: 7.3 Consensus size: 10
49542039 ATGTAGGTGT
49542049 AAATGAAATG
1 AAATGAAATG
*
49542059 AAATGAAAATAT
1 AAATG-AAAT-G
49542071 AAATGAAATG
1 AAATGAAATG
* *
49542081 AAAAGGAA-G
1 AAATGAAATG
49542090 AAATGAAATG
1 AAATGAAATG
*
49542100 CAAATGAAATAC
1 -AAATGAAAT-G
49542112 AAATGAAATG
1 AAATGAAATG
49542122 AAA
1 AAA
49542125 AAAAAAAGGT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
9 7 0.13
10 15 0.28
11 26 0.49
12 5 0.09
ACGTcount: A:0.63, C:0.03, G:0.17, T:0.17
Consensus pattern (10 bp):
AAATGAAATG
Found at i:49542138 original size:41 final size:40
Alignment explanation
Indices: 49542049--49542141 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 40
49542039 ATGTAGGTGT
* *
49542049 AAATGAAATGAAATGAAAATATAAATGAAATGAAAAGGAAG
1 AAATGAAATGAAATGAAAATACAAATGAAATGAAAA-GAAA
49542090 AAATGAAATGCAAATG-AAATACAAATGAAATGAAAA-AAA
1 AAATGAAATG-AAATGAAAATACAAATGAAATGAAAAGAAA
49542129 AAAGGTGAAATGA
1 AAA--TGAAATGA
49542142 CATGTTAGGC
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
39 5 0.11
40 1 0.02
41 36 0.77
42 5 0.11
ACGTcount: A:0.63, C:0.02, G:0.18, T:0.16
Consensus pattern (40 bp):
AAATGAAATGAAATGAAAATACAAATGAAATGAAAAGAAA
Found at i:49542542 original size:23 final size:23
Alignment explanation
Indices: 49542499--49542542 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
49542489 GTATATTAGG
*
49542499 AAAAAAGTAATAAATTTAAATGA
1 AAAAAAGTAATAAATTCAAATGA
*
49542522 AAAAAATTAATGAAA-TCAAAT
1 AAAAAAGTAAT-AAATTCAAAT
49542543 ATTAAATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 15 0.83
24 3 0.17
ACGTcount: A:0.66, C:0.02, G:0.07, T:0.25
Consensus pattern (23 bp):
AAAAAAGTAATAAATTCAAATGA
Found at i:49542573 original size:23 final size:22
Alignment explanation
Indices: 49542546--49542623 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 22
49542536 ATCAAATATT
49542546 AAATGAAATATGAATAAGAAATG
1 AAATGAAATATG-ATAAGAAATG
* *
49542569 AAATGTAATTTG-TAATGAATATG
1 AAATGAAATATGATAA-GAA-ATG
*
49542592 AAATGAAATGATGATTATGAAATG
1 AAATGAAAT-ATGA-TAAGAAATG
49542616 AAAT-AAAT
1 AAATGAAAT
49542624 GTTTAAATGA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
21 3 0.07
22 3 0.07
23 25 0.56
24 9 0.20
25 3 0.07
26 2 0.04
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (22 bp):
AAATGAAATATGATAAGAAATG
Found at i:49542610 original size:19 final size:19
Alignment explanation
Indices: 49542583--49542619 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
49542573 GTAATTTGTA
49542583 ATGAATATGAAATGAAATG
1 ATGAATATGAAATGAAATG
*
49542602 ATGATTATGAAATGAAAT
1 ATGAATATGAAATGAAAT
49542620 AAATGTTTAA
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:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (19 bp):
ATGAATATGAAATGAAATG
Found at i:49542623 original size:28 final size:28
Alignment explanation
Indices: 49542555--49542624 Score: 81
Period size: 28 Copynumber: 2.5 Consensus size: 28
49542545 TAAATGAAAT
* *
49542555 ATGAATAAGAAATGAAATGTAATTTGTA
1 ATGAATATGAAATGAAATGTAATTTGAA
*
49542583 ATGAATATGAAATGAAATGATGATTATGAA
1 ATGAATATGAAATGAAATG-TAATT-TGAA
49542613 ATGAA-AT-AAATG
1 ATGAATATGAAATG
49542625 TTTAAATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
28 23 0.62
29 6 0.16
30 8 0.22
ACGTcount: A:0.51, C:0.00, G:0.19, T:0.30
Consensus pattern (28 bp):
ATGAATATGAAATGAAATGTAATTTGAA
Found at i:49542653 original size:17 final size:17
Alignment explanation
Indices: 49542605--49542654 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
49542595 TGAAATGATG
49542605 ATTATGAAATG-AAATAA
1 ATTAT-AAATGAAAATAA
*
49542622 ATGTTTAAATGAAAATAA
1 AT-TATAAATGAAAATAA
49542640 ATTATAAATGAAAAT
1 ATTATAAATGAAAAT
49542655 GAAAATAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 19 0.66
18 10 0.34
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (17 bp):
ATTATAAATGAAAATAA
Found at i:49542688 original size:16 final size:18
Alignment explanation
Indices: 49542651--49542689 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
49542641 TTATAAATGA
49542651 AAATGAAAATAAGAACTG
1 AAATGAAAATAAGAACTG
*
49542669 AAATGAAAA-AA-AATTG
1 AAATGAAAATAAGAACTG
49542685 AAATG
1 AAATG
49542690 GTAAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 2 0.10
18 9 0.45
ACGTcount: A:0.64, C:0.03, G:0.15, T:0.18
Consensus pattern (18 bp):
AAATGAAAATAAGAACTG
Found at i:49545465 original size:48 final size:48
Alignment explanation
Indices: 49545413--49545558 Score: 130
Period size: 48 Copynumber: 3.2 Consensus size: 48
49545403 ATACGCGAAA
49545413 ATATAAAAATGAAACATTAAATCCTAAACAACTATATTAAATTTACAG
1 ATATAAAAATGAAACATTAAATCCTAAACAACTATATTAAATTTACAG
* * * * * *
49545461 ATATAAAAAAT-AAA-A--ACATTCTAAGA-AA-T-TAATACA-TGA-AA
1 ATAT-AAAAATGAAACATTAAATCCTAA-ACAACTATATTAAATTTACAG
* * *
49545502 ATATAAAAATGATACCTTAAATCCTAAACAACTACATTAAATTTACAG
1 ATATAAAAATGAAACATTAAATCCTAAACAACTATATTAAATTTACAG
49545550 ATATAAAAA
1 ATATAAAAA
49545559 AAATAAAAAC
Statistics
Matches: 72, Mismatches: 15, Indels: 22
0.66 0.14 0.20
Matches are distributed among these distances:
40 6 0.08
41 7 0.10
42 2 0.03
43 6 0.08
44 10 0.14
45 10 0.14
46 5 0.07
47 3 0.04
48 17 0.24
49 6 0.08
ACGTcount: A:0.57, C:0.12, G:0.04, T:0.27
Consensus pattern (48 bp):
ATATAAAAATGAAACATTAAATCCTAAACAACTATATTAAATTTACAG
Found at i:49545481 original size:89 final size:90
Alignment explanation
Indices: 49545356--49545587 Score: 333
Period size: 89 Copynumber: 2.6 Consensus size: 90
49545346 TACAGATTAA
* * * *
49545356 ATTAAATTTATAGATACAAAAAAAAATACAAACATTCTAAGAAATTAATACGCGAAAATATAAAA
1 ATTAAATTTACAGAT--ATAAAAAAATAAAAACATTCTAAGAAATTAATACACGAAAATATAAAA
*
49545421 ATGAAACATTAAATCCTAAACAACTAT
64 ATGAAACATTAAATCCTAAACAACTAC
*
49545448 ATTAAATTTACAGATAT-AAAAAATAAAAACATTCTAAGAAATTAATACATGAAAATATAAAAAT
1 ATTAAATTTACAGATATAAAAAAATAAAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
* *
49545512 GATACCTTAAATCCTAAACAACTAC
66 GAAACATTAAATCCTAAACAACTAC
*
49545537 ATTAAATTTACAGATATAAAAAAAATAAAAACACTCTAAAGAAA-TAATACA
1 ATTAAATTTACAGATAT-AAAAAAATAAAAACATTCT-AAGAAATTAATACA
49545588 ATTATTTTGA
Statistics
Matches: 128, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
89 83 0.65
90 1 0.01
91 24 0.19
92 20 0.16
ACGTcount: A:0.58, C:0.12, G:0.05, T:0.25
Consensus pattern (90 bp):
ATTAAATTTACAGATATAAAAAAATAAAAACATTCTAAGAAATTAATACACGAAAATATAAAAAT
GAAACATTAAATCCTAAACAACTAC
Found at i:49546814 original size:9 final size:9
Alignment explanation
Indices: 49546800--49546830 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
49546790 GTTAAACGAA
49546800 TCGAGTTAT
1 TCGAGTTAT
*
49546809 TCGAGTTAA
1 TCGAGTTAT
49546818 TCGAGTTAT
1 TCGAGTTAT
49546827 TCGA
1 TCGA
49546831 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:49547285 original size:17 final size:16
Alignment explanation
Indices: 49547251--49547281 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49547241 CCTGTTTACT
*
49547251 TTCCCTCAAACTTTTA
1 TTCCCTAAAACTTTTA
49547267 TTCCCTAAAACTTTT
1 TTCCCTAAAACTTTT
49547282 TATTTTCCCC
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:0.26, C:0.29, G:0.00, T:0.45
Consensus pattern (16 bp):
TTCCCTAAAACTTTTA
Found at i:49547820 original size:5 final size:5
Alignment explanation
Indices: 49547810--49547836 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
49547800 CGAACAAATA
49547810 GATTC GATTC GATTC GATTC GATTC GA
1 GATTC GATTC GATTC GATTC GATTC GA
49547837 AATCCATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (5 bp):
GATTC
Found at i:49548225 original size:3 final size:3
Alignment explanation
Indices: 49548217--49548254 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
49548207 ATTCCACCAA
49548217 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
49548255 AGTATGCCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49557998 original size:43 final size:43
Alignment explanation
Indices: 49557942--49558076 Score: 173
Period size: 43 Copynumber: 3.1 Consensus size: 43
49557932 TTATGTGAAA
* ** *
49557942 AAACGCCGTTAAAGACCATGACCTTTAACGACGCTTTTATCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAACGACGCTTTTGTCAC
*
49557985 AAACGCCGCTAAAGGTCATGGTCC-TTAACGACGCTTTTGTCAC
1 AAACGCCGCTAAAGGTCAT-GACCTTTAACGACGCTTTTGTCAC
* * * *
49558028 AAACACCACTAAAGGTCATGAACTTTAGCGACGCTTTTGTCAC
1 AAACGCCGCTAAAGGTCATGACCTTTAACGACGCTTTTGTCAC
49558071 AAACGC
1 AAACGC
49558077 ATGTCCTTTA
Statistics
Matches: 79, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
42 2 0.03
43 74 0.94
44 3 0.04
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (43 bp):
AAACGCCGCTAAAGGTCATGACCTTTAACGACGCTTTTGTCAC
Found at i:49558221 original size:24 final size:23
Alignment explanation
Indices: 49558185--49558230 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
49558175 AATTATTTTA
49558185 ATAAAATAATATTTAT-TTTTATG
1 ATAAAATAATA-TTATGTTTTATG
*
49558208 ATAAATATTATATTATGTTTTAT
1 ATAAA-ATAATATTATGTTTTAT
49558231 TTTTTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (23 bp):
ATAAAATAATATTATGTTTTATG
Found at i:49558223 original size:23 final size:21
Alignment explanation
Indices: 49558176--49558230 Score: 58
Period size: 20 Copynumber: 2.5 Consensus size: 21
49558166 ATTTAAAAAA
*
49558176 ATTATTTTAATAAAATAATAT
1 ATTATTTTTATAAAATAATAT
*
49558197 -TTATTTTTATGATAAATATTAT
1 ATTATTTTTAT-A-AAATAATAT
49558219 ATTATGTTTTAT
1 ATTAT-TTTTAT
49558231 TTTTTAAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
20 9 0.32
21 1 0.04
22 8 0.29
23 4 0.14
24 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (21 bp):
ATTATTTTTATAAAATAATAT
Found at i:49560548 original size:21 final size:21
Alignment explanation
Indices: 49560515--49560560 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
49560505 GCATGTAAAA
*
49560515 AAACCAGACCAATATTAAGCT
1 AAACCAGACCAATACTAAGCT
* *
49560536 AAACTAGATCAATACTAAGCT
1 AAACCAGACCAATACTAAGCT
49560557 AAAC
1 AAAC
49560561 ATATATATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.50, C:0.22, G:0.09, T:0.20
Consensus pattern (21 bp):
AAACCAGACCAATACTAAGCT
Found at i:49566575 original size:4 final size:4
Alignment explanation
Indices: 49566566--49566591 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
49566556 ATAATGTCCC
49566566 AGGG AGGG AGGG AGGG AGGG AGGG AG
1 AGGG AGGG AGGG AGGG AGGG AGGG AG
49566592 AGAAAGCAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.73, T:0.00
Consensus pattern (4 bp):
AGGG
Found at i:49567727 original size:15 final size:15
Alignment explanation
Indices: 49567703--49567749 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
49567693 TAGTTAATTT
49567703 AAACCCTAAACCTTA
1 AAACCCTAAACCTTA
* *
49567718 AAATCCTAAACCATA
1 AAACCCTAAACCTTA
49567733 AAACCCTAAACCCTTA
1 AAACCCTAAA-CCTTA
49567749 A
1 A
49567750 CACATAACCT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 22 0.81
16 5 0.19
ACGTcount: A:0.49, C:0.32, G:0.00, T:0.19
Consensus pattern (15 bp):
AAACCCTAAACCTTA
Found at i:49567835 original size:22 final size:22
Alignment explanation
Indices: 49567793--49567835 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49567783 AAACTGCAAA
*
49567793 CCATAAATCATAACCCCTAAAC
1 CCATAAATCATAAACCCTAAAC
* *
49567815 CCATAATTCATAAACCTTAAA
1 CCATAAATCATAAACCCTAAA
49567836 ATAGTAACTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (22 bp):
CCATAAATCATAAACCCTAAAC
Found at i:49568272 original size:41 final size:41
Alignment explanation
Indices: 49568185--49568494 Score: 258
Period size: 41 Copynumber: 7.6 Consensus size: 41
49568175 AATTTTTTGT
* *
49568185 GGCGCTTTTTCAAAAATGCCGCTAAAA---TAGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAACCCT-GAGCATTAGC
*
49568224 GGCGCTTCTTCAAAAACGCCACTAAAACCCTGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
* * * * * * * *
49568265 AGTGCTTCATT-AAACATGCTGCTAAAGCCTTGAGCATCAGC
1 GGCGCTTC-TTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
* *
49568306 GGCGCTTCTTAAAAAATGCCGCTAAAACCCTGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
* * *
49568347 AGCGCTTTCAT-AAAAACGCCGCTAAAA--ATAGAGCATTAGC
1 GGCGC-TTCTTCAAAAACGCCGCTAAAACCCT-GAGCATTAGC
* * * * * * *
49568387 GGTGCTCCTTCAAAAATGCCTCTAAAGCCCTGAGTATTAAC
1 GGCGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
* * *
49568428 GACGCTTCTTCAAAAACGCTGCTAAAGCCCTGAGCATTAGC
1 GGCGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
* * *
49568469 GGTGCGTT-TTAAAAAACTCCGCTAAA
1 GGCGC-TTCTTCAAAAACGCCGCTAAA
49568495 GCCCCATGCA
Statistics
Matches: 214, Mismatches: 46, Indels: 20
0.76 0.16 0.07
Matches are distributed among these distances:
39 28 0.13
40 28 0.13
41 148 0.69
42 10 0.05
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.24
Consensus pattern (41 bp):
GGCGCTTCTTCAAAAACGCCGCTAAAACCCTGAGCATTAGC
Found at i:49568371 original size:82 final size:81
Alignment explanation
Indices: 49568214--49568494 Score: 291
Period size: 82 Copynumber: 3.4 Consensus size: 81
49568204 CGCTAAAATA
* * * *
49568214 GAGCATTAGCGGCGCTTCTTCAAAAACGCCACTAAAACCCTGAGCATTAGCAGTGCTTCATTAAA
1 GAGCATTAGCGGCGCTTCTTAAAAAATGCCGCTAAAACCCTGAGCATTAGCAGCGCTTCA-TAAA
* *
49568279 CATGCTGCTAAAGCCTT
65 AACGCTGCTAAAGCCTT
*
49568296 GAGCATCAGCGGCGCTTCTTAAAAAATGCCGCTAAAACCCTGAGCATTAGCAGCGCTTTCATAAA
1 GAGCATTAGCGGCGCTTCTTAAAAAATGCCGCTAAAACCCTGAGCATTAGCAGCGC-TTCATAAA
* ** *
49568361 AACGCCGCTAAA-AATA
65 AACGCTGCTAAAGCCTT
* * * * * * * *
49568377 GAGCATTAGCGGTGCTCCTTCAAAAATGCCTCTAAAGCCCTGAGTATTAAC-GACGCTTCTTCAA
1 GAGCATTAGCGGCGCTTCTTAAAAAATGCCGCTAAAACCCTGAGCATTAGCAG-CGCTTCAT-AA
*
49568441 AAACGCTGCTAAAGCCCT
64 AAACGCTGCTAAAGCCTT
*
49568459 GAGCATTAGCGGTGCGTT-TTAAAAAACT-CCGCTAAA
1 GAGCATTAGCGGCGC-TTCTTAAAAAA-TGCCGCTAAA
49568495 GCCCCATGCA
Statistics
Matches: 165, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
80 5 0.03
81 61 0.37
82 93 0.56
83 6 0.04
ACGTcount: A:0.32, C:0.26, G:0.19, T:0.23
Consensus pattern (81 bp):
GAGCATTAGCGGCGCTTCTTAAAAAATGCCGCTAAAACCCTGAGCATTAGCAGCGCTTCATAAAA
ACGCTGCTAAAGCCTT
Found at i:49568455 original size:163 final size:162
Alignment explanation
Indices: 49568196--49568494 Score: 399
Period size: 163 Copynumber: 1.8 Consensus size: 162
49568186 GCGCTTTTTC
* *
49568196 AAAAATGCCGCTAAAATAGAGCATTAGCGGCGCTTCTTCAAAAACGCCACTAAAACCCTGAGCAT
1 AAAAACGCCGCTAAAATAGAGCATTAGCGGCGCTCCTTCAAAAACGCCACTAAAACCCTGAGCAT
* * * * *
49568261 TAGCAGTGCTTCATTAAACATGCTGCTAAAGCCTTGAGCATCAGCGGCGC-TTCTTAAAAAA-TG
66 TAACAGCGCTTCATTAAAAACGCTGCTAAAGCCCTGAGCATCAGCGGCGCGTT-TTAAAAAACT-
49568324 CCGCTAAAACCCTGAGCATTAGCAGCGCTTTCAT
129 CCGCTAAAACCCTGAGCATTAGCAGCGCTTTCAT
* * * * *
49568358 AAAAACGCCGCTAAAAATAGAGCATTAGCGGTGCTCCTTCAAAAATGCCTCTAAAGCCCTGAGTA
1 AAAAACGCCGCT-AAAATAGAGCATTAGCGGCGCTCCTTCAAAAACGCCACTAAAACCCTGAGCA
* *
49568423 TTAAC-GACGCTTC-TTCAAAAACGCTGCTAAAGCCCTGAGCATTAGCGGTGCGTTTTAAAAAAC
65 TTAACAG-CGCTTCATT-AAAAACGCTGCTAAAGCCCTGAGCATCAGCGGCGCGTTTTAAAAAAC
49568486 TCCGCTAAA
128 TCCGCTAAA
49568495 GCCCCATGCA
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
162 14 0.12
163 101 0.86
164 3 0.03
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.23
Consensus pattern (162 bp):
AAAAACGCCGCTAAAATAGAGCATTAGCGGCGCTCCTTCAAAAACGCCACTAAAACCCTGAGCAT
TAACAGCGCTTCATTAAAAACGCTGCTAAAGCCCTGAGCATCAGCGGCGCGTTTTAAAAAACTCC
GCTAAAACCCTGAGCATTAGCAGCGCTTTCAT
Found at i:49577179 original size:24 final size:23
Alignment explanation
Indices: 49577133--49577179 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
49577123 CTAATTTATT
* *
49577133 TTCTTTTATTTACTTCTGGCAAG
1 TTCTTTTATTTAATTCTGACAAG
*
49577156 TTCTTTTAGTTTAATTTTGACAAG
1 TTCTTTTA-TTTAATTCTGACAAG
49577180 AAGAAACCCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.21, C:0.13, G:0.13, T:0.53
Consensus pattern (23 bp):
TTCTTTTATTTAATTCTGACAAG
Found at i:49583401 original size:19 final size:19
Alignment explanation
Indices: 49583352--49583401 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
49583342 CGTCCTGGTG
49583352 TTTCATTATTTTCATTGTCA
1 TTTC-TTATTTTCATTGTCA
*
49583372 ATT-TTAGTTTTCCA-TGTCA
1 TTTCTTA-TTTT-CATTGTCA
49583391 TTTCTTATTTT
1 TTTCTTATTTT
49583402 TATTCTTCCT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 3 0.12
19 15 0.60
20 7 0.28
ACGTcount: A:0.18, C:0.14, G:0.06, T:0.62
Consensus pattern (19 bp):
TTTCTTATTTTCATTGTCA
Found at i:49593329 original size:6 final size:6
Alignment explanation
Indices: 49593257--49593332 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
49593247 TTTATTTGTA
* * * * * *
49593257 TTATTT TTAATTT TAATTT ATCTTT TTATGT TTATGT TTATTT CTATTT
1 TTATTT TT-ATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
49593306 TTAGTTGT TT-TGTT TTATTT TTATTT T
1 TTA-TT-T TTAT-TT TTATTT TTATTT T
49593333 CTTGTACTTC
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
6 43 0.78
7 9 0.16
8 3 0.05
ACGTcount: A:0.17, C:0.03, G:0.07, T:0.74
Consensus pattern (6 bp):
TTATTT
Found at i:49594198 original size:21 final size:21
Alignment explanation
Indices: 49594172--49594211 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
49594162 ATAACTCAAT
*
49594172 TTTTATTGAGACTTTTTCTCG
1 TTTTATTGACACTTTTTCTCG
*
49594193 TTTTATTGACTCTTTTTCT
1 TTTTATTGACACTTTTTCT
49594212 GTCGAGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.15, G:0.10, T:0.62
Consensus pattern (21 bp):
TTTTATTGACACTTTTTCTCG
Found at i:49607824 original size:22 final size:23
Alignment explanation
Indices: 49607768--49607825 Score: 57
Period size: 22 Copynumber: 2.6 Consensus size: 23
49607758 TACATGAATG
*
49607768 TTGAGGTGTTAAATGCTGCAAAT
1 TTGAGGTGTTAAAAGCTGCAAAT
* * *
49607791 TATGATGT-TTAAAAGTTG-TAAT
1 T-TGAGGTGTTAAAAGCTGCAAAT
49607813 TTGAGGTGTTAAA
1 TTGAGGTGTTAAA
49607826 TACTACCAAC
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
21 5 0.18
22 9 0.32
23 9 0.32
24 5 0.18
ACGTcount: A:0.33, C:0.03, G:0.24, T:0.40
Consensus pattern (23 bp):
TTGAGGTGTTAAAAGCTGCAAAT
Found at i:49613409 original size:20 final size:20
Alignment explanation
Indices: 49613384--49613432 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
49613374 ATGGAGCTTA
*
49613384 TATAATATATTAAA-TCTATC
1 TATAATATACTAAACT-TATC
*
49613404 TCTAATATACTAAACTTATC
1 TATAATATACTAAACTTATC
49613424 TATAATATA
1 TATAATATA
49613433 ATGGGCTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.43
Consensus pattern (20 bp):
TATAATATACTAAACTTATC
Found at i:49614753 original size:26 final size:27
Alignment explanation
Indices: 49614681--49614765 Score: 88
Period size: 25 Copynumber: 3.3 Consensus size: 27
49614671 TAATTATTAT
* * *
49614681 TTTATTTTTATAATTTTCATATGTA-A
1 TTTATTTTTTTAATATACATATGTATA
*
49614707 -TTATTTTTTTAATATATATATGTATA
1 TTTATTTTTTTAATATACATATGTATA
* *
49614733 TTTATTTTTTT-ATGTACATATTTATA
1 TTTATTTTTTTAATATACATATGTATA
49614759 TTT-TTTT
1 TTTATTTT
49614766 AACTAATATT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
25 24 0.48
26 16 0.32
27 10 0.20
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (27 bp):
TTTATTTTTTTAATATACATATGTATA
Found at i:49614774 original size:21 final size:22
Alignment explanation
Indices: 49614735--49614776 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
49614725 TATGTATATT
**
49614735 TATTTTTTTATGTACATATTTA
1 TATTTTTTTAACTACATATTTA
49614757 TATTTTTTTAACTA-ATATTT
1 TATTTTTTTAACTACATATTT
49614777 TTCTCATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.64
Consensus pattern (22 bp):
TATTTTTTTAACTACATATTTA
Found at i:49615293 original size:27 final size:26
Alignment explanation
Indices: 49615247--49615297 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
49615237 ATGTCGTTGG
*
49615247 TTATTTTTTTATCTACATTAATTTCGT
1 TTATTTATTTATCTACATT-ATTTCGT
* *
49615274 TTATTTATTTATTTATATTATTTC
1 TTATTTATTTATCTACATTATTTC
49615298 TATGTCATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 5 0.24
27 16 0.76
ACGTcount: A:0.24, C:0.08, G:0.02, T:0.67
Consensus pattern (26 bp):
TTATTTATTTATCTACATTATTTCGT
Found at i:49621406 original size:36 final size:36
Alignment explanation
Indices: 49621357--49621432 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
49621347 GCAGAGCAGA
* *
49621357 TTAAAGCTAAGGGCAGCGAATCTTATCTCCCTAGCG
1 TTAAAGCTAAGGGCAGCCAATCTTATATCCCTAGCG
* *
49621393 TTAAAGCTGAGGGCAGCCAATCTTATATCCCTGGCG
1 TTAAAGCTAAGGGCAGCCAATCTTATATCCCTAGCG
49621429 TTAA
1 TTAA
49621433 GACTTGGAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.26
Consensus pattern (36 bp):
TTAAAGCTAAGGGCAGCCAATCTTATATCCCTAGCG
Found at i:49621677 original size:169 final size:169
Alignment explanation
Indices: 49621393--49621768 Score: 599
Period size: 169 Copynumber: 2.2 Consensus size: 169
49621383 CTCCCTAGCG
* * * *
49621393 TTAAAGCTGAGGGCAGCCAATCTTATATCCCTGGCGTTAAGACTTGGAATAGCTAAGGTGGAGCG
1 TTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTAGAATAGCTAAGGTGGAGCA
* *
49621458 GATTAAAGCTGTGGGCAGTGAATCCTATCTCTTTGGCATTATAGTGGAACAGATTAAAGCTAAAC
66 GATTAAAGCGGTGGGCAGTGAATCCTATCTCTTTGGCATTATAATGGAACAGATTAAAGCTAAAC
*
49621523 ATAGCGAATCTTGTTTCCCTAGCGTTGCAGCAGAGCAGA
131 ATAGCGAATCTTGTTTCCCTAGCGTTGCAACAGAGCAGA
* * *
49621562 TTAAAGCTGAGGGCAGCGAATCTTATCTTCCTGGCTTTAAGACTTAGAATAGCTGAGGTGGAGCA
1 TTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTAGAATAGCTAAGGTGGAGCA
* *
49621627 GATTACAGCGGTGGGCAGTGAATCCTATCTCTTTGGCATTATAATGGAACAGATTAAAGCTAAAG
66 GATTAAAGCGGTGGGCAGTGAATCCTATCTCTTTGGCATTATAATGGAACAGATTAAAGCTAAAC
* *
49621692 GTAGCGAATCTTGTTTCTCTAGCGTTGCAACAGAGCAGA
131 ATAGCGAATCTTGTTTCCCTAGCGTTGCAACAGAGCAGA
* * *
49621731 TTAAAGCTGAGGGCAACGAGTCTTATCTCACTGGCGTT
1 TTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGCGTT
49621769 GAGCGGATTA
Statistics
Matches: 188, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
169 188 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.27
Consensus pattern (169 bp):
TTAAAGCTGAGGGCAGCGAATCTTATCTCCCTGGCGTTAAGACTTAGAATAGCTAAGGTGGAGCA
GATTAAAGCGGTGGGCAGTGAATCCTATCTCTTTGGCATTATAATGGAACAGATTAAAGCTAAAC
ATAGCGAATCTTGTTTCCCTAGCGTTGCAACAGAGCAGA
Found at i:49621903 original size:147 final size:147
Alignment explanation
Indices: 49621622--49621906 Score: 419
Period size: 147 Copynumber: 1.9 Consensus size: 147
49621612 AGCTGAGGTG
* *
49621622 GAGCAGATTACAGCGGTGGGCAGTGAATCCTATCTCTTTGGCATTATAATGGAACAGATTAAAGC
1 GAGCAGATTAAAGCGGTGGGCAGCGAATCCTATCTCTTTGGCATTATAATGGAACAGATTAAAGC
* * * * * * * *
49621687 TAAAGGTAGCGAATCTTGTTTCTCTAGCGTTGCAACAGAGCAGATTAAAGCTGAGGGCAACGAGT
66 TAAAGGTAGCGAATCTTATGTCCCTAGCGTTGCAACAAAGCAGATTAAAGCTAAAGGCAACAAGC
49621752 CTTATCTCACTGGCGTT
131 CTTATCTCACTGGCGTT
* * *
49621769 GAGCGGATTAAAGCGGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGGAGCAGATTAAAGC
1 GAGCAGATTAAAGCGGTGGGCAGCGAATCCTATCTCTTTGGCATTATAATGGAACAGATTAAAGC
* *
49621834 TAAAGGTAGCGAATCTTATGTCCCTAGCGTTGCAGCAAAGTAGATTAAAGCTAAAGG-AAGCAAG
66 TAAAGGTAGCGAATCTTATGTCCCTAGCGTTGCAACAAAGCAGATTAAAGCTAAAGGCAA-CAAG
49621898 CCTTATCTC
130 CCTTATCTC
49621907 CCTGAGCAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
146 2 0.02
147 120 0.98
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (147 bp):
GAGCAGATTAAAGCGGTGGGCAGCGAATCCTATCTCTTTGGCATTATAATGGAACAGATTAAAGC
TAAAGGTAGCGAATCTTATGTCCCTAGCGTTGCAACAAAGCAGATTAAAGCTAAAGGCAACAAGC
CTTATCTCACTGGCGTT
Found at i:49621947 original size:44 final size:44
Alignment explanation
Indices: 49621898--49622020 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
49621888 AGGAAGCAAG
*
49621898 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAATATTGA-AGA
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATT-ACAGA
49621942 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGA
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGA
* * * * * *
49621986 TCTTATCTCCCTAAACAGTAGTGGAGCAGATTGAA
1 CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAA
49622021 GATGGCGAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
43 1 0.01
44 70 0.99
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.27
Consensus pattern (44 bp):
CCTTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAAATTACAGA
Found at i:49622163 original size:57 final size:56
Alignment explanation
Indices: 49622070--49622233 Score: 206
Period size: 57 Copynumber: 2.9 Consensus size: 56
49622060 ATTGAACCCA
* *
49622070 CTAGTCCTATCTCCCTT-GACAGTAGTGGAATAGATTGAAAATTACAGATCAAAGACC
1 CTAGTCCTATCT-CCTTGGACAGCAGTGGAATGGATTGAAAATTACAGATCAAAGA-C
* * * * *
49622127 CTAGTCCTATCTCCTTGGACAACAGAGGAGTGGATTGAAAATTACAAATCGAAGAC
1 CTAGTCCTATCTCCTTGGACAGCAGTGGAATGGATTGAAAATTACAGATCAAAGAC
*
49622183 CTCAGTCCTATTTCCTTGGACAGCAGTGGAATAGG-TTGAAAATTACAGATC
1 CT-AGTCCTATCTCCTTGGACAGCAGTGGAAT-GGATTGAAAATTACAGATC
49622234 TTATCTCCCT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
56 7 0.08
57 83 0.90
58 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (56 bp):
CTAGTCCTATCTCCTTGGACAGCAGTGGAATGGATTGAAAATTACAGATCAAAGAC
Found at i:49622759 original size:24 final size:24
Alignment explanation
Indices: 49622727--49622798 Score: 126
Period size: 24 Copynumber: 3.0 Consensus size: 24
49622717 TCCAAGCCCC
49622727 ATGTCCCTGACTTTGCAGTGGAGT
1 ATGTCCCTGACTTTGCAGTGGAGT
*
49622751 ATGTCCCTGACTTTGCAGTGGGGT
1 ATGTCCCTGACTTTGCAGTGGAGT
*
49622775 ATGTCCTTGACTTTGCAGTGGAGT
1 ATGTCCCTGACTTTGCAGTGGAGT
49622799 GGATTGGAGC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (24 bp):
ATGTCCCTGACTTTGCAGTGGAGT
Found at i:49624210 original size:20 final size:21
Alignment explanation
Indices: 49624173--49624212 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49624163 TATGTATATT
**
49624173 TATTTTTTATGTACATATTTA
1 TATTTTTTAACTACATATTTA
49624194 TATTTTTTAACTA-ATATTT
1 TATTTTTTAACTACATATTT
49624213 TTCTCATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.30, C:0.05, G:0.03, T:0.62
Consensus pattern (21 bp):
TATTTTTTAACTACATATTTA
Found at i:49625734 original size:24 final size:24
Alignment explanation
Indices: 49625707--49625756 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
49625697 TCTAGAATAG
*
49625707 TTAGAATTTATTAGTATAATATAT
1 TTAGAATTTATTAGCATAATATAT
* *
49625731 TTAGCATTTATTAGCATAATTTAT
1 TTAGAATTTATTAGCATAATATAT
49625755 TT
1 TT
49625757 GACCTATGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (24 bp):
TTAGAATTTATTAGCATAATATAT
Found at i:49632131 original size:20 final size:21
Alignment explanation
Indices: 49632086--49632132 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
49632076 ATATATTCCG
*
49632086 ACACATATCAATCACATATAA
1 ACACATATCAATCACATACAA
* *
49632107 GCACATAT-AATTACATACAA
1 ACACATATCAATCACATACAA
49632127 ACACAT
1 ACACAT
49632133 TTAGTCATAG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 15 0.68
21 7 0.32
ACGTcount: A:0.51, C:0.23, G:0.02, T:0.23
Consensus pattern (21 bp):
ACACATATCAATCACATACAA
Found at i:49640039 original size:6 final size:6
Alignment explanation
Indices: 49640030--49640056 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
49640020 GAAGAAACGG
49640030 AAAAAT AAAAAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAA
49640057 TAGTGAGGGA
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:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:49656811 original size:342 final size:342
Alignment explanation
Indices: 49656180--49656862 Score: 1143
Period size: 342 Copynumber: 2.0 Consensus size: 342
49656170 CATCCATTCC
* *
49656180 TAATCATTTTGTCTCTCACTTTGGAACCAACCAGTTCCAATCTAACTGAAGTGGAATCAAATTCC
1 TAATCATTTTGTCTCTCACTTTGGAACCAACAAGTTCCAATCCAACTGAAGTGGAATCAAATTCC
* *
49656245 AACTATTTATAATTCAGCCGCTAAAATTTTCTAATCTCCCATTGGAGTCCCACAATTTACTAGTC
66 AACTATTTATAATTCAGCCGCTAAAATTTTCTAACCTCCCATTGGAGCCCCACAATTTACTAGTC
*
49656310 CTTTCAATTTAATCCTAGATTTCCCAACTTTCGGGGTAATTAGGATAACCGGGAGTTACACACTC
131 CTTTCAATTTAATCCTAGATTTCCCAACTTTCGGGGTAATTAGGATAACCAGGAGTTACACACTC
* *
49656375 TCACTGTACCAATTGTTGATACAGAGTATAACAAAGGAGGAAGACAATGTGGAACAAGGAGGAGA
196 TCACTGCACCAATTGTTGATACAAAGTATAACAAAGGAGGAAGACAATGTGGAACAAGGAGGAGA
*
49656440 TCAAGGTGATCTAGTGGAGGCCGGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAGGA
261 TCAAGGTGATCTAGTGGAGGCCAGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAGGA
49656505 CAGACTGATTGAAAAGA
326 CAGACTGATTGAAAAGA
* *
49656522 TAATGATTTTGTCTCTCACTTTGGAACCAGCAAGTTCCAATCCAACTGAAGTGGAATCAAATTCC
1 TAATCATTTTGTCTCTCACTTTGGAACCAACAAGTTCCAATCCAACTGAAGTGGAATCAAATTCC
* * * ** *
49656587 AGCTATTTATAATTTAGCCGCTAAAATTTTCTAGCCTCTTATTGGAGCCCCGCAATTTACTAGTC
66 AACTATTTATAATTCAGCCGCTAAAATTTTCTAACCTCCCATTGGAGCCCCACAATTTACTAGTC
* * * *
49656652 CTTTCAATTTAATCCTAGCTTTCCTAACTTTCGGGGTAATTAGGGTAACCAGGAGTTTCACACTC
131 CTTTCAATTTAATCCTAGATTTCCCAACTTTCGGGGTAATTAGGATAACCAGGAGTTACACACTC
* *
49656717 TCACTGCACCAATTTTTGATACAAAGTATAACAAATGAGGAAGACAA-GATGGAACAAGGAGGAG
196 TCACTGCACCAATTGTTGATACAAAGTATAACAAAGGAGGAAGACAATG-TGGAACAAGGAGGAG
*
49656781 ATCAAGGTGATCTAGTGGAGGCCAGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAGAGG
260 ATCAAGGTGATCTAGTGGAGGCCAGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAGG
49656846 ACAGACTGATTGAAAAG
325 ACAGACTGATTGAAAAG
49656863 GTAAATGCTT
Statistics
Matches: 317, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
341 1 0.00
342 316 1.00
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.27
Consensus pattern (342 bp):
TAATCATTTTGTCTCTCACTTTGGAACCAACAAGTTCCAATCCAACTGAAGTGGAATCAAATTCC
AACTATTTATAATTCAGCCGCTAAAATTTTCTAACCTCCCATTGGAGCCCCACAATTTACTAGTC
CTTTCAATTTAATCCTAGATTTCCCAACTTTCGGGGTAATTAGGATAACCAGGAGTTACACACTC
TCACTGCACCAATTGTTGATACAAAGTATAACAAAGGAGGAAGACAATGTGGAACAAGGAGGAGA
TCAAGGTGATCTAGTGGAGGCCAGTTCATCTGTAGAGATCGAGAGCCAGAATAAGGACAAAAGGA
CAGACTGATTGAAAAGA
Found at i:49660100 original size:2 final size:2
Alignment explanation
Indices: 49660093--49660141 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
49660083 ATTGAAAACC
49660093 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
49660135 GA GA GA G
1 GA GA GA G
49660142 GGATATGGCG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:49662609 original size:15 final size:14
Alignment explanation
Indices: 49662589--49662621 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
49662579 TTTGTGTACC
49662589 CTTTTCAATAATTTT
1 CTTTTCAAT-ATTTT
49662604 CTTTTCAATATTTT
1 CTTTTCAATATTTT
49662618 -TTTT
1 CTTTT
49662622 GGACGGTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 5 0.28
15 9 0.50
ACGTcount: A:0.21, C:0.12, G:0.00, T:0.67
Consensus pattern (14 bp):
CTTTTCAATATTTT
Found at i:49663068 original size:15 final size:15
Alignment explanation
Indices: 49663048--49663086 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
49663038 ATACAATTAC
*
49663048 AAATAAAATATATTT
1 AAATAAAATATAATT
*
49663063 AAAT-AATTATAATT
1 AAATAAAATATAATT
49663077 AAATAAAATA
1 AAATAAAATA
49663087 AGCACAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAATAAAATATAATT
Found at i:49663559 original size:14 final size:14
Alignment explanation
Indices: 49663540--49663576 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
49663530 ATAGCTAAGC
* *
49663540 CCCCAACTCTTTTT
1 CCCCAAATCATTTT
49663554 CCCCAAATCATTTT
1 CCCCAAATCATTTT
49663568 CCCCAAATC
1 CCCCAAATC
49663577 CCTAACTTAA
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:0.24, C:0.43, G:0.00, T:0.32
Consensus pattern (14 bp):
CCCCAAATCATTTT
Found at i:49665072 original size:22 final size:21
Alignment explanation
Indices: 49665044--49665085 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
49665034 TGAATGGGGA
*
49665044 AGTGGAAGGATGGAAAGAGTAG
1 AGTGGAAAGATGGAAA-AGTAG
49665066 AGTGGAAAGATGGAAAAGTA
1 AGTGGAAAGATGGAAAAGTA
49665086 ATAAATTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.45, C:0.00, G:0.40, T:0.14
Consensus pattern (21 bp):
AGTGGAAAGATGGAAAAGTAG
Found at i:49667324 original size:24 final size:25
Alignment explanation
Indices: 49667277--49667335 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
49667267 TTGAATTCAA
* * **
49667277 TTTATTTCTTATATATTTTTATA-G
1 TTTATTACTTATATAATTGAATAGG
49667301 TTTATTACTTATATAATTGAATAGG
1 TTTATTACTTATATAATTGAATAGG
49667326 TTTATTACTT
1 TTTATTACTT
49667336 CAGTTTATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 19 0.63
25 11 0.37
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (25 bp):
TTTATTACTTATATAATTGAATAGG
Found at i:49668353 original size:37 final size:37
Alignment explanation
Indices: 49668312--49668388 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
49668302 GTGAGTTGTA
*
49668312 AGACTTAAATCATTCATTGCACAAGCTTGAAGATAGT
1 AGACTTAAATCATTCATTGCACAAGCTTAAAGATAGT
*
49668349 AGACTTAAATCATTCATTGTACAAGCTTAAAGATAGT
1 AGACTTAAATCATTCATTGCACAAGCTTAAAGATAGT
49668386 AGA
1 AGA
49668389 TTGTCTCTCT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.40, C:0.14, G:0.16, T:0.30
Consensus pattern (37 bp):
AGACTTAAATCATTCATTGCACAAGCTTAAAGATAGT
Found at i:49669913 original size:23 final size:23
Alignment explanation
Indices: 49669838--49669914 Score: 73
Period size: 23 Copynumber: 3.2 Consensus size: 23
49669828 TTAAATTCTA
49669838 TTTAATTATTATTTAAAAGAGTT
1 TTTAATTATTATTTAAAAGAGTT
* * * * **
49669861 TTGGATAAATAATAATTAAAACAGAA
1 TT---TAATTATTATTTAAAAGAGTT
49669887 TTTAATTATTATTTAAAAGAGTT
1 TTTAATTATTATTTAAAAGAGTT
49669910 TTTAA
1 TTTAA
49669915 ATTTCAAGAT
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
23 22 0.56
26 17 0.44
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.44
Consensus pattern (23 bp):
TTTAATTATTATTTAAAAGAGTT
Found at i:49671568 original size:12 final size:12
Alignment explanation
Indices: 49671551--49671576 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49671541 AAGAAGCTAG
49671551 GTTAAATTGTAA
1 GTTAAATTGTAA
49671563 GTTAAATTGTAA
1 GTTAAATTGTAA
49671575 GT
1 GT
49671577 CATATGAACT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.19, T:0.42
Consensus pattern (12 bp):
GTTAAATTGTAA
Found at i:49671783 original size:129 final size:129
Alignment explanation
Indices: 49671552--49671802 Score: 387
Period size: 129 Copynumber: 1.9 Consensus size: 129
49671542 AGAAGCTAGG
* * * *
49671552 TTAAATTGTAAGTTAAATTGTAAGTCATATGAACTTACTAAGCTTAAATGCTTACTCTGTGTTAT
1 TTAAATGGTAAGTTAAATTCTAAGTCACAGGAACTTACTAAGCTTAAATGCTTACTCTGTGTTAT
*
49671617 TTCCGTGTTTTATAGTGAATCAGAAGCTCGTTTGGGTTGGAAGCTTGTCGGAGCTATTACTTGA
66 TTCCGTGTTTTATAGTGAATCAGAAGCTCGTTCGGGTTGGAAGCTTGTCGGAGCTATTACTTGA
* *
49671681 TTAAATGGTAAGTTAAATTCTAAGTTACAGGAACTTACTAATCTTAAATGCTTACTCTGTGTTAC
1 TTAAATGGTAAGTTAAATTCTAAGTCACAGGAACTTACTAAGCTTAAATGCTTACTCTGTGTTA-
* * * *
49671746 TTT-TGTGTTTTATAGTGAATTAGAAGCTTGTTCGGGTTGGAAGCTTGTCGGGGCTAT
65 TTTCCGTGTTTTATAGTGAATCAGAAGCTCGTTCGGGTTGGAAGCTTGTCGGAGCTAT
49671803 ATCACACTAT
Statistics
Matches: 110, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
129 107 0.97
130 3 0.03
ACGTcount: A:0.27, C:0.12, G:0.22, T:0.40
Consensus pattern (129 bp):
TTAAATGGTAAGTTAAATTCTAAGTCACAGGAACTTACTAAGCTTAAATGCTTACTCTGTGTTAT
TTCCGTGTTTTATAGTGAATCAGAAGCTCGTTCGGGTTGGAAGCTTGTCGGAGCTATTACTTGA
Found at i:49674619 original size:161 final size:163
Alignment explanation
Indices: 49674278--49674766 Score: 786
Period size: 161 Copynumber: 3.0 Consensus size: 163
49674268 TCCATGGCAC
* *
49674278 AAGCACCAGTTAGGGCTTATGCTATTCGCACAAGAGATGATGCTTCTGCGCCAGATGTTATTACT
1 AAGCACCAGTTAGGGCTTATGCTATTCGCACACGAGAGGATGCTTCTGCGCCAGATGTTATTACT
*
49674343 GGTACTTTTTCTAGTTTTTTATACTGATATTACTGCTTTGATT-ACTCTGGGATCCACTCATTCA
66 GGTACTTTTTCTA-TTTTTTATACTGATATTACTGCTTTGATTGA-TCCGGGATCCACTCATTCA
49674407 TATGTGTGCACGAATTTAGTGTCTAGTAAGAATTT
129 TATGTGTGCACGAATTTAGTGTCTAGTAAGAATTT
*
49674442 AAGCACCAGTTAGGGCTTATGCTATTCGTACACGAGAGGATGCTTCTGCGCCAGATGTTATTACT
1 AAGCACCAGTTAGGGCTTATGCTATTCGCACACGAGAGGATGCTTCTGCGCCAGATGTTATTACT
* * * * *
49674507 GGTACTTTTTCTA-TTTTTATAATTACATTA-TGCTTTGATTGATCCGGGATCGAATCATTCATA
66 GGTACTTTTTCTATTTTTTATACTGATATTACTGCTTTGATTGATCCGGGATCCACTCATTCATA
*
49674570 TGTGTGCATGAATTTAGTGTCTAGTAAGAATTT
131 TGTGTGCACGAATTTAGTGTCTAGTAAGAATTT
* * ***
49674603 AAGCACCAGTTAGGGCTTATGCTATTTGCACACGAGAGGATGCCTCTGTAACAGATGTTATTACT
1 AAGCACCAGTTAGGGCTTATGCTATTCGCACACGAGAGGATGCTTCTGCGCCAGATGTTATTACT
*
49674668 GGTACTTTTTCTATTTTTTATACTGATATTACTGCTTTGATTGATCCAGGATCCACTCATTCATA
66 GGTACTTTTTCTATTTTTTATACTGATATTACTGCTTTGATTGATCCGGGATCCACTCATTCATA
*
49674733 TGTGTGCACGAATTTAGTGTCTATTAAGAATTT
131 TGTGTGCACGAATTTAGTGTCTAGTAAGAATTT
49674766 A
1 A
49674767 CCTATTGAGT
Statistics
Matches: 298, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
161 132 0.44
162 29 0.10
163 62 0.21
164 75 0.25
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (163 bp):
AAGCACCAGTTAGGGCTTATGCTATTCGCACACGAGAGGATGCTTCTGCGCCAGATGTTATTACT
GGTACTTTTTCTATTTTTTATACTGATATTACTGCTTTGATTGATCCGGGATCCACTCATTCATA
TGTGTGCACGAATTTAGTGTCTAGTAAGAATTT
Found at i:49677847 original size:11 final size:11
Alignment explanation
Indices: 49677831--49677856 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
49677821 ACAGAGAGAT
49677831 GAAAGAATTAA
1 GAAAGAATTAA
49677842 GAAAGAATTAA
1 GAAAGAATTAA
49677853 GAAA
1 GAAA
49677857 CAAGAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.15
Consensus pattern (11 bp):
GAAAGAATTAA
Found at i:49679336 original size:25 final size:25
Alignment explanation
Indices: 49679238--49679377 Score: 138
Period size: 25 Copynumber: 5.6 Consensus size: 25
49679228 TACTCCATAT
49679238 CTCGTAAGAGCATACCGATTTATAG
1 CTCGTAAGAGCATACCGATTTATAG
* * * *
49679263 TTTGTAAGAGCATACCAATTTATAA
1 CTCGTAAGAGCATACCGATTTATAG
* *
49679288 CTCTTAAAAGCATACCGATTTATAG
1 CTCGTAAGAGCATACCGATTTATAG
** *
49679313 CTCGTAAGAGCATATTGATCTATAG
1 CTCGTAAGAGCATACCGATTTATAG
* * *
49679338 CTC-AAATGAGCATGCCGATTCATAG
1 CTCGTAA-GAGCATACCGATTTATAG
* *
49679363 CTCATATGAGCATAC
1 CTCGTAAGAGCATAC
49679378 ACGTACATGA
Statistics
Matches: 89, Mismatches: 24, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
24 2 0.02
25 86 0.97
26 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (25 bp):
CTCGTAAGAGCATACCGATTTATAG
Found at i:49679950 original size:129 final size:129
Alignment explanation
Indices: 49679718--49679979 Score: 420
Period size: 129 Copynumber: 2.0 Consensus size: 129
49679708 TTATACTTAC
49679718 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTC
1 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTC
** * *
49679783 TTCTGTGTTATTTCCGTGTTTTATAGTGAACCAAAAGCTTG-TCTGGGTTGGAAGCTTGTCGGAG
66 TTCCATGTTATTTCCGTGTTTTATAGTGAACCAAAAGCTCGTTC-AGGTTGGAAGCTTGTCGGAG
49679847 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTA
1 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTT-
* * * *
49679912 C-TCCATGTTATTTTCGTGTTTTATAGTGAATCAGAAGCTCGTTCAGGTTGGAAGCTTTTCGGAG
65 CTTCCATGTTATTTCCGTGTTTTATAGTGAACCAAAAGCTCGTTCAGGTTGGAAGCTTGTCGGAG
49679976 CTAT
1 CTAT
49679980 ATCACTCTAT
Statistics
Matches: 123, Mismatches: 8, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
129 120 0.98
130 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (129 bp):
CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTC
TTCCATGTTATTTCCGTGTTTTATAGTGAACCAAAAGCTCGTTCAGGTTGGAAGCTTGTCGGAG
Found at i:49696076 original size:40 final size:40
Alignment explanation
Indices: 49696021--49696249 Score: 282
Period size: 40 Copynumber: 5.8 Consensus size: 40
49696011 GGTTTACTGG
* *
49696021 AGTACAAACAGGGGCATGAGAGTGCAATCAGGGATACCGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
** **
49696061 AGTACGGACAGGGGCACGAGAGTGTGATCAGGGGTACCGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
*
49696101 AGTACAAACAGGGGCACGGGAGTGCAATCAGGGGTACCGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
* ** *
49696141 AGTACAAATAGGGGCATAAGAGTGCAATCA-GGGTACAGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
* * ** *
49696180 AGTACAAATATGGGCACGTCAGTGCAAGCAGGGGTACCGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
*
49696220 AGTACAAACAGGGGCATGTA-AGTGCAATCA
1 AGTACAAACAGGGGCACG-AGAGTGCAATCA
49696250 TTCAATAATT
Statistics
Matches: 159, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 32 0.20
40 127 0.80
ACGTcount: A:0.35, C:0.17, G:0.34, T:0.14
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
Found at i:49696112 original size:20 final size:20
Alignment explanation
Indices: 49696089--49696233 Score: 91
Period size: 20 Copynumber: 7.3 Consensus size: 20
49696079 AGAGTGTGAT
49696089 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * *
49696109 CAGGGGCACGGGAGTGCAAT
1 CAGGGGTACCGAAGTACAAA
49696129 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
49696149 TAGGGGCATA-AG-AGTGCAAT
1 CAGGGG--TACCGAAGTACAAA
*
49696169 CA-GGGTACAGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * * *
49696188 TATGGGCA-CGTCAGTGCAAG
1 CAGGGGTACCG-AAGTACAAA
49696208 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
49696228 CAGGGG
1 CAGGGG
49696234 CATGTAAGTG
Statistics
Matches: 89, Mismatches: 29, Indels: 14
0.67 0.22 0.11
Matches are distributed among these distances:
17 2 0.02
18 2 0.02
19 11 0.12
20 69 0.78
21 3 0.03
22 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.34, T:0.12
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:49696213 original size:79 final size:80
Alignment explanation
Indices: 49696021--49696249 Score: 275
Period size: 79 Copynumber: 2.9 Consensus size: 80
49696011 GGTTTACTGG
* * ** **
49696021 AGTACAAACAGGGGCATGAG-AGTGCAATCAGGGATACCGAAGTACGGACAGGGGCACGAGAGTG
1 AGTACAAACAGGGGCACG-GCAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATAAGAGTG
** *
49696085 TGATCAGGGGTACCGA
65 CAATCAGGGGTACAGA
* *
49696101 AGTACAAACAGGGGCACGGGAGTGCAATCAGGGGTACCGAAGTACAAATAGGGGCATAAGAGTGC
1 AGTACAAACAGGGGCACGGCAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATAAGAGTGC
49696166 AATCA-GGGTACAGA
66 AATCAGGGGTACAGA
* * * * *
49696180 AGTACAAATATGGGCACGTCAGTGCAAGCAGGGGTACCGAAGTACAAACAGGGGCATGTA-AGTG
1 AGTACAAACAGGGGCACGGCAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCAT-AAGAGTG
49696244 CAATCA
65 CAATCA
49696250 TTCAATAATT
Statistics
Matches: 130, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
79 70 0.54
80 60 0.46
ACGTcount: A:0.35, C:0.17, G:0.34, T:0.14
Consensus pattern (80 bp):
AGTACAAACAGGGGCACGGCAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATAAGAGTGC
AATCAGGGGTACAGA
Found at i:49701918 original size:40 final size:39
Alignment explanation
Indices: 49701867--49701980 Score: 138
Period size: 40 Copynumber: 2.9 Consensus size: 39
49701857 GAAGAAGTGC
* *
49701867 CCCTGTTTGTACTTCAATACCCCTGAATGCACATCTGTG
1 CCCTATTTGTACTTCAGTACCCCTGAATGCACATCTGTG
* *
49701906 CCGCTATTTGTACTTCAGTACCCTTGAATGCACATTTGTG
1 CC-CTATTTGTACTTCAGTACCCCTGAATGCACATCTGTG
* * **
49701946 TCCCTATTTGCACTACAGTGTCCCTGAATGCACAT
1 -CCCTATTTGTACTTCAGTACCCCTGAATGCACAT
49701981 TTGTTCCCCT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
39 2 0.03
40 60 0.94
41 2 0.03
ACGTcount: A:0.21, C:0.29, G:0.16, T:0.34
Consensus pattern (39 bp):
CCCTATTTGTACTTCAGTACCCCTGAATGCACATCTGTG
Found at i:49701997 original size:40 final size:39
Alignment explanation
Indices: 49701887--49701999 Score: 122
Period size: 40 Copynumber: 2.8 Consensus size: 39
49701877 ACTTCAATAC
* * * * *
49701887 CCCTGAATGCACATCTGTGCCGCTATTTGTACTTCAGTA
1 CCCTGAATGCACATTTGTTCCCCTATTTGCACTACAGTA
*
49701926 CCCTTGAATGCACATTTGTGT-CCCTATTTGCACTACAGTGT
1 CCC-TGAATGCACATTTGT-TCCCCTATTTGCACTACAGT-A
49701967 CCCTGAATGCACATTTGTTCCCCTGA-TTGCACT
1 CCCTGAATGCACATTTGTTCCCCT-ATTTGCACT
49702000 TCGGTCCCCC
Statistics
Matches: 63, Mismatches: 6, Indels: 9
0.81 0.08 0.12
Matches are distributed among these distances:
39 4 0.06
40 55 0.87
41 4 0.06
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (39 bp):
CCCTGAATGCACATTTGTTCCCCTATTTGCACTACAGTA
Found at i:49702009 original size:20 final size:20
Alignment explanation
Indices: 49701986--49702070 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
49701976 CACATTTGTT
*
49701986 CCCCTGATTGCACTTCGGTC
1 CCCCTGATTGCACTTCGGTG
* * *
49702006 CCCCTAATTGCACTTTGGTA
1 CCCCTGATTGCACTTCGGTG
* **
49702026 CCCTTGATCACACATTC-GTG
1 CCCCTGATTGCAC-TTCGGTG
* *
49702046 CTCCTGATTGCACTTTGGTG
1 CCCCTGATTGCACTTCGGTG
49702066 CCCCT
1 CCCCT
49702071 ATTATGCATC
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
19 2 0.04
20 44 0.92
21 2 0.04
ACGTcount: A:0.14, C:0.35, G:0.18, T:0.33
Consensus pattern (20 bp):
CCCCTGATTGCACTTCGGTG
Found at i:49706945 original size:21 final size:20
Alignment explanation
Indices: 49706917--49706971 Score: 51
Period size: 21 Copynumber: 2.8 Consensus size: 20
49706907 AAGTATGTGA
49706917 AATT-ATGCTTAATTATATG
1 AATTCATGCTTAATTATATG
* * *
49706936 AATTTCATGCATATTTTATATT
1 AA-TTCATGCTTA-ATTATATG
49706958 AATTCATG-TTAATT
1 AATTCATGCTTAATT
49706972 TATTAATGTA
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
19 4 0.14
20 4 0.14
21 12 0.43
22 8 0.29
ACGTcount: A:0.35, C:0.07, G:0.07, T:0.51
Consensus pattern (20 bp):
AATTCATGCTTAATTATATG
Found at i:49711966 original size:21 final size:23
Alignment explanation
Indices: 49711922--49711968 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
49711912 AAAAGTTTAA
49711922 TCATCCTCCTCATCATCCATCTCT
1 TCATCCTCCTCATCATCCA-CTCT
*
49711946 TCATCCTCGTCATCA-CC-CTCT
1 TCATCCTCCTCATCATCCACTCT
49711967 TC
1 TC
49711969 TTCTCCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
23 2 0.09
24 14 0.64
ACGTcount: A:0.15, C:0.47, G:0.02, T:0.36
Consensus pattern (23 bp):
TCATCCTCCTCATCATCCACTCT
Found at i:49720758 original size:25 final size:25
Alignment explanation
Indices: 49720706--49720779 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
49720696 GTCATTAGGG
* ** *
49720706 TTACCGAT-TTCAACTTTTATGAGA
1 TTACCGATATTCAGCTCGTATGAGC
49720730 TTACCGATACTT-AGCTCGTATGAGC
1 TTACCGATA-TTCAGCTCGTATGAGC
*
49720755 TTACCGTTATTCAGCTCGTATGAGC
1 TTACCGATATTCAGCTCGTATGAGC
49720780 ATACATGTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
24 10 0.24
25 30 0.71
26 2 0.05
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (25 bp):
TTACCGATATTCAGCTCGTATGAGC
Found at i:49723841 original size:97 final size:94
Alignment explanation
Indices: 49723727--49724060 Score: 381
Period size: 97 Copynumber: 3.5 Consensus size: 94
49723717 TAAAAAAAAC
* **
49723727 AAAAAAAAATTTAGGTGCTGCCCTGTCAATGGCCGGCATGAGAATACGAAAAAAAAAATTTGGGT
1 AAAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACCA-AATACG--AAAAAAAATTTGGGT
* *
49723792 GTTGCCTTGTCAATGGCTGGCACCAGTATACG-
63 GTGGCC-TGTCAATGGCCGGCACCAGTATACGA
* * * *
49723824 AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCACCAGTAC-AAAAAAATTTTGGGTA
1 AAAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACCA--AATACGAAAAAAAATTTGGGT-
* *
49723888 CTGGCCTGTCAATGGCCGGCACCAGCAATACGA
63 GTGGCCTGTCAATGGCCGGCACCAG-TATACGA
*
49723921 AAAAAAAAATTT-GTGTGCTGGCCTGTCAATGGCCGGCACCAACAGTACG-AAAAAAATTTGTGT
1 AAAAAAAAATTTAG-GTGCTGGCCTGTCAATGGCCGGCACCAA-A-TACGAAAAAAAATTTGGGT
49723984 GCTGGCCTGTCAATGGCCGGCACCAGTATACGA
63 G-TGGCCTGTCAATGGCCGGCACCAGTATACGA
* *
49724017 AAAAAAAAATTTTAGGTGCTAGCCT-TCTAATGGCCGGCATCAAA
1 AAAAAAAAA-TTTAGGTGCTGGCCTGTC-AATGGCCGGCACCAAA
49724061 CTTTATATAT
Statistics
Matches: 205, Mismatches: 20, Indels: 25
0.82 0.08 0.10
Matches are distributed among these distances:
95 33 0.16
96 28 0.14
97 139 0.68
98 5 0.02
ACGTcount: A:0.34, C:0.21, G:0.24, T:0.22
Consensus pattern (94 bp):
AAAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACCAAATACGAAAAAAAATTTGGGTGTG
GCCTGTCAATGGCCGGCACCAGTATACGA
Found at i:49724022 original size:144 final size:143
Alignment explanation
Indices: 49723728--49724008 Score: 395
Period size: 144 Copynumber: 2.0 Consensus size: 143
49723718 AAAAAAAACA
* **
49723728 AAAAAAAATTTAGGTGCTGCCCTGTCAATGGCCGGCATGAGAATACGAAAAAAAAAATTTGGGTG
1 AAAAAAAATTTAGGTACTGCCCTGTCAATGGCCGGCACCAGAATACGAAAAAAAAAATTTGGGTG
* * **
49723793 TTGCCTTGTCAATGGCTGGCACCAGTATACGAAAAAAAAATTTGGGTGCTGGCCTATCAATGGCC
66 TGGCCTTGTCAATGGCCGGCACCAACATACG-AAAAAAAATTTGGGTGCTGGCCTATCAATGGCC
49723858 GGCACCACCAGTAC
130 GGCACCACCAGTAC
* * * *
49723872 AAAAAAATTTTGGGTACTGGCCTGTCAATGGCCGGCACCAGCAATACGAAAAAAAAAATTTGTGT
1 AAAAAAAATTTAGGTACTGCCCTGTCAATGGCCGGCACCAG-AATACGAAAAAAAAAATTTGGGT
* *
49723937 GCTGGCC-TGTCAATGGCCGGCACCAACAGTACG-AAAAAAATTTGTGTGCTGGCCTGTCAATGG
65 G-TGGCCTTGTCAATGGCCGGCACCAACA-TACGAAAAAAAATTTGGGTGCTGGCCTATCAATGG
49724000 CCGGCACCA
128 CCGGCACCA
49724009 GTATACGAAA
Statistics
Matches: 121, Mismatches: 13, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
144 72 0.60
145 41 0.34
146 8 0.07
ACGTcount: A:0.32, C:0.21, G:0.25, T:0.22
Consensus pattern (143 bp):
AAAAAAAATTTAGGTACTGCCCTGTCAATGGCCGGCACCAGAATACGAAAAAAAAAATTTGGGTG
TGGCCTTGTCAATGGCCGGCACCAACATACGAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCG
GCACCACCAGTAC
Found at i:49724049 original size:50 final size:48
Alignment explanation
Indices: 49723727--49724055 Score: 366
Period size: 47 Copynumber: 6.8 Consensus size: 48
49723717 TAAAAAAAAC
* * **
49723727 AAAAAAAAATTTAGGTGCTGCCCTGTCAATGGCCGGCATGAGAATACG
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGAATACG
* * *
49723775 AAAAAAAAAATTTGGGTG-TTGCCTTGTCAATGGCTGGCACCAGTATACG
1 -AAAAAAAAATTTGGGTGCTGGCC-TGTCAATGGCCGGCACCAGAATACG
* * *
49723824 AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCACCAGTAC-
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCA-GAATACG
* *
49723872 -AAAAAAATTTTGGGTACTGGCCTGTCAATGGCCGGCACCAGCAATACG
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAG-AATACG
*
49723920 AAAAAAAAAATTTGTGTGCTGGCCTGTCAATGGCCGGCACCA-ACAGTACG
1 -AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGA-A-TACG
* *
49723970 --AAAAAAATTTGTGTGCTGGCCTGTCAATGGCCGGCACCAGTATACG
1 AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGAATACG
* *
49724016 AAAAAAAAAATTTTAGGTGCTAGCCT-TCTAATGGCCGGCA
1 -AAAAAAAAA-TTTGGGTGCTGGCCTGTC-AATGGCCGGCA
49724056 TCAAACTTTA
Statistics
Matches: 240, Mismatches: 25, Indels: 29
0.82 0.09 0.10
Matches are distributed among these distances:
46 4 0.02
47 81 0.34
48 37 0.15
49 54 0.22
50 64 0.27
ACGTcount: A:0.33, C:0.21, G:0.24, T:0.22
Consensus pattern (48 bp):
AAAAAAAAATTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGAATACG
Found at i:49727818 original size:5 final size:5
Alignment explanation
Indices: 49727810--49727891 Score: 65
Period size: 5 Copynumber: 15.2 Consensus size: 5
49727800 TTTTTTCAGG
* * *
49727810 TCATT TCATTT TCATT TCATT TTATTT TTATT TCATT TCATT CTAATT
1 TCATT TCA-TT TCATT TCATT TCA-TT TCATT TCATT TCATT -TCATT
* *
49727858 TCATT TCCATT ACCATT TCCCTT TCATT TCATT T
1 TCATT T-CATT -TCATT T-CATT TCATT TCATT T
49727892 AAAATATATT
Statistics
Matches: 63, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
5 37 0.59
6 26 0.41
ACGTcount: A:0.20, C:0.21, G:0.00, T:0.60
Consensus pattern (5 bp):
TCATT
Found at i:49727823 original size:16 final size:16
Alignment explanation
Indices: 49727810--49727891 Score: 76
Period size: 16 Copynumber: 5.1 Consensus size: 16
49727800 TTTTTTCAGG
49727810 TCATTTCATTTTCATT
1 TCATTTCATTTTCATT
* *
49727826 TCATTTTATTTTTATT
1 TCATTTCATTTTCATT
* *
49727842 TCATTTCATTCTAATT
1 TCATTTCATTTTCATT
**
49727858 TCATTTCCATTACCATT
1 TCATTT-CATTTTCATT
*
49727875 TCCCTTTCA-TTTCATT
1 T-CATTTCATTTTCATT
49727891 T
1 T
49727892 AAAATATATT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
16 39 0.74
17 10 0.19
18 4 0.08
ACGTcount: A:0.20, C:0.21, G:0.00, T:0.60
Consensus pattern (16 bp):
TCATTTCATTTTCATT
Found at i:49727826 original size:11 final size:11
Alignment explanation
Indices: 49727810--49727891 Score: 62
Period size: 11 Copynumber: 7.5 Consensus size: 11
49727800 TTTTTTCAGG
49727810 TCATTTCATTT
1 TCATTTCATTT
49727821 TCATTTCATTT
1 TCATTTCATTT
*
49727832 T-ATTT-TTATT
1 TCATTTCAT-TT
*
49727842 TCATTTCATTC
1 TCATTTCATTT
*
49727853 TAATTTCATTT
1 TCATTTCATTT
* *
49727864 CCATTACCATTT
1 TCATT-TCATTT
* *
49727876 CCCTTTCA-TT
1 TCATTTCATTT
49727886 TCATTT
1 TCATTT
49727892 AAAATATATT
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
9 1 0.02
10 13 0.24
11 31 0.56
12 10 0.18
ACGTcount: A:0.20, C:0.21, G:0.00, T:0.60
Consensus pattern (11 bp):
TCATTTCATTT
Found at i:49727922 original size:21 final size:21
Alignment explanation
Indices: 49727898--49727962 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
49727888 ATTTAAAATA
49727898 TATTTTTTTTCAATTTCAATT
1 TATTTTTTTTCAATTTCAATT
*
49727919 TATTTTTTCTCAA-TTC-ATT
1 TATTTTTTTTCAATTTCAATT
*
49727938 TATATTATGTTTT-AATTTAAATT
1 TAT-TT-T-TTTTCAATTTCAATT
49727961 TA
1 TA
49727963 ACTTTTTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 6 0.17
20 5 0.14
21 15 0.42
22 5 0.14
23 5 0.14
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.63
Consensus pattern (21 bp):
TATTTTTTTTCAATTTCAATT
Found at i:49727943 original size:42 final size:43
Alignment explanation
Indices: 49727896--49727989 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
49727886 TCATTTAAAA
* *
49727896 TATATTTTTTTTCAATTTCAATTT-ATTTTTTCT-CAATTCATT
1 TATATTTTTTTT-AATTTAAATTTAACTTTTTCTGCAATTCATT
* *
49727938 TATATTATGTTTTAATTTAAATTTAACTTTTTCTGCATTTCATT
1 TATATT-TTTTTTAATTTAAATTTAACTTTTTCTGCAATTCATT
*
49727982 TAAATTTT
1 TATATTTT
49727990 CTATTTTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
42 16 0.37
43 14 0.33
44 13 0.30
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.62
Consensus pattern (43 bp):
TATATTTTTTTTAATTTAAATTTAACTTTTTCTGCAATTCATT
Found at i:49731138 original size:47 final size:48
Alignment explanation
Indices: 49731023--49731142 Score: 127
Period size: 48 Copynumber: 2.5 Consensus size: 48
49731013 ATTTTTTTTT
* * * * *
49731023 ATACTAGTGGTGCCAGCCTTTGAGAAGCCAGCACAAAAAAAAAATTTC
1 ATACTACTGGTGCCAACCATTGACATGCCAGCACAAAAAAAAAATTTC
* *
49731071 GTACTGCTGGTGCCAACCATTGACATGCCAGCACACAAAAAAAAA-TTC
1 ATACTACTGGTGCCAACCATTGACATGCCAGCACA-AAAAAAAAATTTC
* * *
49731119 ATA-TATTGGTGGCATCCATTGACA
1 ATACTACTGGTGCCAACCATTGACA
49731143 AGGTAGCACT
Statistics
Matches: 59, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
47 17 0.29
48 33 0.56
49 9 0.15
ACGTcount: A:0.37, C:0.23, G:0.18, T:0.23
Consensus pattern (48 bp):
ATACTACTGGTGCCAACCATTGACATGCCAGCACAAAAAAAAAATTTC
Found at i:49731189 original size:49 final size:49
Alignment explanation
Indices: 49731120--49731220 Score: 127
Period size: 49 Copynumber: 2.1 Consensus size: 49
49731110 AAAAAATTCA
* * *
49731120 TATATTGGTGGCATCCATTGACAAGG-TAGCACTC-AAAATTTTTTTTTCG
1 TATATTGGTGCCATCCATTGAC-AGGCCAGCACCCAAAAATTTTTTTTT-G
49731169 TATATTGGTGCCGA-CCATTGACAGGCCAGCACCCAAAAATTTTTTTTTG
1 TATATTGGTGCC-ATCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTG
49731218 TAT
1 TAT
49731221 TTTTTTAATT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
48 3 0.07
49 29 0.63
50 14 0.30
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.37
Consensus pattern (49 bp):
TATATTGGTGCCATCCATTGACAGGCCAGCACCCAAAAATTTTTTTTTG
Found at i:49737932 original size:12 final size:12
Alignment explanation
Indices: 49737915--49737939 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49737905 TTCATAGCTC
49737915 AAGTTTCAAATT
1 AAGTTTCAAATT
49737927 AAGTTTCAAATT
1 AAGTTTCAAATT
49737939 A
1 A
49737940 TCTACATATA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
AAGTTTCAAATT
Found at i:49737978 original size:18 final size:18
Alignment explanation
Indices: 49737955--49737989 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
49737945 ATATATGATC
49737955 GTATGAAT-TGTGATGTAA
1 GTATGAATATGT-ATGTAA
49737973 GTATGAATATGTATGTA
1 GTATGAATATGTATGTA
49737990 TTGACCCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (18 bp):
GTATGAATATGTATGTAA
Found at i:49741403 original size:18 final size:18
Alignment explanation
Indices: 49741380--49741415 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
49741370 CTATTGTGAA
49741380 AGATTATGCAAATTGGAC
1 AGATTATGCAAATTGGAC
49741398 AGATTATGCAAATTGGAC
1 AGATTATGCAAATTGGAC
49741416 TTACGAGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (18 bp):
AGATTATGCAAATTGGAC
Found at i:49742279 original size:243 final size:243
Alignment explanation
Indices: 49741848--49742335 Score: 940
Period size: 243 Copynumber: 2.0 Consensus size: 243
49741838 AATTATCCTT
*
49741848 TGAATTCAAAGTATATATGAGTATTTATATGGATTTCATAACTGGTTTGATATGCACTTAGGTAT
1 TGAATTCAAAGTATATATGAGTATATATATGGATTTCATAACTGGTTTGATATGCACTTAGGTAT
49741913 TTAAGTATAATTGGCATGGCAAATTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
66 TTAAGTATAATTGGCATGGCAAATTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
49741978 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
131 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
*
49742043 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTTTAC
196 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
*
49742091 TGAATTCAAAGTATATATGAGTATATATATGGATTTCATAATTGGTTTGATATGCACTTAGGTAT
1 TGAATTCAAAGTATATATGAGTATATATATGGATTTCATAACTGGTTTGATATGCACTTAGGTAT
49742156 TTAAGTATAATTGGCATGGCAAATTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
66 TTAAGTATAATTGGCATGGCAAATTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
*
49742221 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTTTGTCATGAATGAT
131 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
49742286 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
196 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
49742334 TG
1 TG
49742336 TTGTTATATG
Statistics
Matches: 241, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 241 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (243 bp):
TGAATTCAAAGTATATATGAGTATATATATGGATTTCATAACTGGTTTGATATGCACTTAGGTAT
TTAAGTATAATTGGCATGGCAAATTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
Found at i:49756471 original size:14 final size:15
Alignment explanation
Indices: 49756452--49756481 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49756442 TAAATTGAAA
49756452 TTTTA-TTTTTATTT
1 TTTTATTTTTTATTT
49756466 TTTTATTTTTTATTT
1 TTTTATTTTTTATTT
49756481 T
1 T
49756482 CAATCCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTATTTTTTATTT
Found at i:49759927 original size:153 final size:154
Alignment explanation
Indices: 49759649--49759960 Score: 495
Period size: 153 Copynumber: 2.0 Consensus size: 154
49759639 GGTTATATGC
* *
49759649 ACAATAAAATATTGTATAGTTAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTTGGCTAAT
1 ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTAGGCTAAT
* *
49759714 AAAGCTAAGTATCAGATAAAGTTCCATTTAGGGGGAATTAACAGATTGCAATTAGAACCAATA-T
66 AAAGCCAAGTATCAGATAAAGTTCCATTTAGGGGGAATAAACAGATTGCAATTAGAACCAATACT
* *
49759778 CTATGTCTATCAAAAATTTGCAAA
131 CTATGTCCATCAAAAAATTGCAAA
*
49759802 ACAATAAAATATTGTATTGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTAGGCTAAT
1 ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTAGGCTAAT
*
49759867 AAAGCCAAGTATCGGATCAAA-TTCCATTTA-GGGGAATAAAACAGATTGCAATTAGAACCAATA
66 AAAGCCAAGTATCAGAT-AAAGTTCCATTTAGGGGGAAT-AAACAGATTGCAATTAGAACCAATA
*
49759930 TCTCTATGTCCATCAAAAAATTGCAAT
129 -CTCTATGTCCATCAAAAAATTGCAAA
49759957 ACAA
1 ACAA
49759961 CTTGTATAAT
Statistics
Matches: 146, Mismatches: 9, Indels: 6
0.91 0.06 0.04
Matches are distributed among these distances:
152 7 0.05
153 110 0.75
154 3 0.02
155 26 0.18
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.33
Consensus pattern (154 bp):
ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTAGGCTAAT
AAAGCCAAGTATCAGATAAAGTTCCATTTAGGGGGAATAAACAGATTGCAATTAGAACCAATACT
CTATGTCCATCAAAAAATTGCAAA
Found at i:49762686 original size:17 final size:17
Alignment explanation
Indices: 49762664--49762698 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
49762654 ATCTACAAAT
49762664 CAAATCTTCTAAGATTA
1 CAAATCTTCTAAGATTA
*
49762681 CAAATCTTCTTAGATTA
1 CAAATCTTCTAAGATTA
49762698 C
1 C
49762699 TTCTCATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (17 bp):
CAAATCTTCTAAGATTA
Found at i:49766009 original size:26 final size:26
Alignment explanation
Indices: 49765980--49766061 Score: 84
Period size: 26 Copynumber: 3.2 Consensus size: 26
49765970 GATAGCTCGC
49765980 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
*
49766006 ATGTGTA-T-CGGATAGTG-ATGG-TCAC-
1 ATGTGTAGTAC-TAT-GTGCA-GGCT-ACT
49766031 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
49766057 ATGTG
1 ATGTG
49766062 AACCGGTATC
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
24 1 0.02
25 19 0.42
26 24 0.53
27 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.34
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:49766047 original size:51 final size:49
Alignment explanation
Indices: 49765922--49766061 Score: 190
Period size: 50 Copynumber: 2.8 Consensus size: 49
49765912 AGTGAAAGTT
* * *
49765922 ATGGTCACGTGTGTAGTATTATGTGCAGGCTACTATGCGTACCAGAATG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAATG
* * * *
49765971 ATAGCTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGGATAGTG
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGA-A-TG
49766023 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
49766062 AACCGGTATC
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
49 2 0.03
50 37 0.47
51 36 0.46
52 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.32
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAGAATG
Found at i:49766306 original size:16 final size:16
Alignment explanation
Indices: 49766285--49766316 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49766275 TGATTGAAAG
*
49766285 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
49766301 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
49766317 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:49772070 original size:51 final size:49
Alignment explanation
Indices: 49771944--49772073 Score: 149
Period size: 50 Copynumber: 2.6 Consensus size: 49
49771934 TGATGGTCAC
* *
49771944 GTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGCTCGCAT
1 GTGT-TAGTACTATGTGCAGGCTACTATGCGTACCAG-A-GATAGCTCGCAT
49771996 GTG-TAGTACTATGTGCAGGCTACTATGCGTACC-G-GATAGCTTCGATCAT
1 GTGTTAGTACTATGTGCAGGCTACTATGCGTACCAGAGATAGC-TCG--CAT
*
49772045 GTGTATAGTACAATGTGCAGGCTACTATG
1 GTGT-TAGTACTATGTGCAGGCTACTATG
49772074 TGTATTGGAT
Statistics
Matches: 70, Mismatches: 3, Indels: 11
0.83 0.04 0.13
Matches are distributed among these distances:
46 6 0.09
47 3 0.04
49 7 0.10
50 28 0.40
51 23 0.33
52 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (49 bp):
GTGTTAGTACTATGTGCAGGCTACTATGCGTACCAGAGATAGCTCGCAT
Found at i:49772105 original size:51 final size:52
Alignment explanation
Indices: 49771932--49772132 Score: 189
Period size: 51 Copynumber: 4.0 Consensus size: 52
49771922 TGAAAGTGAA
* * *
49771932 AGTGAT-GGTCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* * *
49771982 A-TGATAGCTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* * ** * * **
49772033 AGCT--TCGATCATGTGTATAGTACAATGTGCAGGCTACTATGTGTATTGGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
* * * *
49772084 AGTGAT-GGTCACATATGTAGTACTATGTGTAGGCAACTATGTGAACCGG
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGG
49772133 TATCATTAAT
Statistics
Matches: 118, Mismatches: 27, Indels: 11
0.76 0.17 0.07
Matches are distributed among these distances:
49 4 0.03
50 40 0.34
51 72 0.61
52 1 0.01
53 1 0.01
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.30
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAT
Found at i:49772371 original size:16 final size:16
Alignment explanation
Indices: 49772350--49772381 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49772340 TGATTGAAAG
*
49772350 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
49772366 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
49772382 GCAACAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:49783138 original size:5 final size:5
Alignment explanation
Indices: 49783128--49783206 Score: 52
Period size: 5 Copynumber: 15.8 Consensus size: 5
49783118 TGTTTTGCTA
* * ** ** *
49783128 TGTTC TGTTC TGTTC TATTC AGTAT- TGTTC TGCAC TGTTC CATTT TGTTC
1 TGTTC TGTTC TGTTC TGTTC TGT-TC TGTTC TGTTC TGTTC TGTTC TGTTC
* * *
49783178 TATTC TGCTC TATTC TGTTC TGTTC TGTT
1 TGTTC TGTTC TGTTC TGTTC TGTTC TGTT
49783207 TGAATTACGT
Statistics
Matches: 52, Mismatches: 20, Indels: 4
0.68 0.26 0.05
Matches are distributed among these distances:
4 1 0.02
5 50 0.96
6 1 0.02
ACGTcount: A:0.09, C:0.20, G:0.15, T:0.56
Consensus pattern (5 bp):
TGTTC
Found at i:49791551 original size:17 final size:17
Alignment explanation
Indices: 49791499--49791552 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
49791489 GTGATTGGAC
49791499 ATCCTTTTATCCTTAAT
1 ATCCTTTTATCCTTAAT
* *
49791516 AT-CTTTTCAT-GTATTAT
1 ATCCTTTT-ATCCT-TAAT
49791533 ATCCTTTTATCCTTAAT
1 ATCCTTTTATCCTTAAT
49791550 ATC
1 ATC
49791553 TAGATTGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 6 0.21
17 17 0.59
18 6 0.21
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.54
Consensus pattern (17 bp):
ATCCTTTTATCCTTAAT
Found at i:49794092 original size:42 final size:42
Alignment explanation
Indices: 49794045--49794143 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
49794035 GAAGTGAGAG
* *
49794045 CACACGGCCGTGTCATAGA-CTGTATAACTCACTTACTTGGCT
1 CACACGGCCGTGTCATA-ACCCGTATAACTCACTGACTTGGCT
* * *
49794087 CACACGGCTGTGTGC-TAACCCGTGTAACTCTCTGACTTGGCT
1 CACACGGCCGTGT-CATAACCCGTATAACTCACTGACTTGGCT
*
49794129 CACACAGCCGTGTCA
1 CACACGGCCGTGTCA
49794144 CAGGCTGTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.04
42 44 0.94
43 1 0.02
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (42 bp):
CACACGGCCGTGTCATAACCCGTATAACTCACTGACTTGGCT
Found at i:49794187 original size:54 final size:54
Alignment explanation
Indices: 49794086--49794208 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 54
49794076 CTTACTTGGC
* ** *
49794086 TCACACGGCTGTGTGCTAACCCGTGTAACTCTCTGACTTGGCTCACACAGCCGTG
1 TCACA-GGCTGTGTGCTAACCCGTGTAACTCACTGACTAAGCACACACAGCCGTG
* * *
49794141 TCACAGGCTGTGTGCTATCCCGTGTAACTCACTGACATAAG-ACACACGGTCGTG
1 TCACAGGCTGTGTGCTAACCCGTGTAACTCACTGAC-TAAGCACACACAGCCGTG
* *
49794195 TCTCAGACTGTGTG
1 TCACAGGCTGTGTG
49794209 AAACCTGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
54 51 0.88
55 7 0.12
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (54 bp):
TCACAGGCTGTGTGCTAACCCGTGTAACTCACTGACTAAGCACACACAGCCGTG
Found at i:49794671 original size:12 final size:12
Alignment explanation
Indices: 49794654--49794678 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
49794644 TAAAAATAGC
49794654 TTAGGAAAAAGT
1 TTAGGAAAAAGT
49794666 TTAGGAAAAAGT
1 TTAGGAAAAAGT
49794678 T
1 T
49794679 ATAAAAATTA
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:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (12 bp):
TTAGGAAAAAGT
Found at i:49798311 original size:20 final size:19
Alignment explanation
Indices: 49798288--49798363 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
49798278 GAACACGAGT
49798288 GTGCAATCACGGGCACCAGA
1 GTGCAATCA-GGGCACCAGA
* * * *
49798308 GTGCAGTCAGGGGAACAAA
1 GTGCAATCAGGGCACCAGA
*
49798327 TGTGCTATCAGAGGCACCAGA
1 -GTGCAATCAG-GGCACCAGA
*
49798348 GTGCATTCAGGAGCAC
1 GTGCAATCAGG-GCAC
49798364 GGATGTGCAA
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
19 8 0.19
20 28 0.67
21 6 0.14
ACGTcount: A:0.30, C:0.24, G:0.32, T:0.14
Consensus pattern (19 bp):
GTGCAATCAGGGCACCAGA
Found at i:49798318 original size:40 final size:40
Alignment explanation
Indices: 49798274--49798373 Score: 100
Period size: 40 Copynumber: 2.5 Consensus size: 40
49798264 CAAAGCTCAA
49798274 TCAGGAACACGAGTGTGCAATCACG-GGCACCAGAGTGCAG
1 TCAGGAACACGAGTGTGCAATCA-GAGGCACCAGAGTGCAG
* * *
49798314 TCAGGGGAACA--AATGTGCTATCAGAGGCACCAGAGTGCAT
1 TCA--GGAACACGAGTGTGCAATCAGAGGCACCAGAGTGCAG
*
49798354 TCAGGAGCACG-GATGTGCAA
1 TCAGGAACACGAG-TGTGCAA
49798374 ATAGGGACAC
Statistics
Matches: 48, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
38 5 0.10
39 1 0.02
40 36 0.75
42 6 0.12
ACGTcount: A:0.31, C:0.22, G:0.32, T:0.15
Consensus pattern (40 bp):
TCAGGAACACGAGTGTGCAATCAGAGGCACCAGAGTGCAG
Found at i:49798399 original size:20 final size:20
Alignment explanation
Indices: 49798374--49798439 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
49798364 GGATGTGCAA
49798374 ATAGGGACACCGAAGTGTTC
1 ATAGGGACACCGAAGTGTTC
* *
49798394 ATAGGGGCA-C--AGTTGTGC
1 ATAGGGACACCGAAG-TGTTC
*
49798412 AAACTGGGACACCGAAGTGTTC
1 ATA--GGGACACCGAAGTGTTC
49798434 ATAGGG
1 ATAGGG
49798440 GCACAGTTGT
Statistics
Matches: 34, Mismatches: 6, Indels: 12
0.65 0.12 0.23
Matches are distributed among these distances:
17 2 0.06
18 6 0.18
19 1 0.03
20 16 0.47
21 1 0.03
22 6 0.18
23 2 0.06
ACGTcount: A:0.29, C:0.18, G:0.33, T:0.20
Consensus pattern (20 bp):
ATAGGGACACCGAAGTGTTC
Found at i:49798422 original size:40 final size:40
Alignment explanation
Indices: 49798367--49798512 Score: 220
Period size: 40 Copynumber: 3.6 Consensus size: 40
49798357 GGAGCACGGA
*
49798367 TGTGCAAATAGGGACACCGAAGTGTTCATAGGGGCACAGT
1 TGTGCAAACAGGGACACCGAAGTGTTCATAGGGGCACAGT
*
49798407 TGTGCAAACTGGGACACCGAAGTGTTCATAGGGGCACAGT
1 TGTGCAAACAGGGACACCGAAGTGTTCATAGGGGCACAGT
* * *
49798447 TGTGCAAACAGGGACACCGAATTGTTTACAGGGGCACAGT
1 TGTGCAAACAGGGACACCGAAGTGTTCATAGGGGCACAGT
* * *
49798487 TGTGAAAACAGGGACATCAAAGTGTT
1 TGTGCAAACAGGGACACCGAAGTGTT
49798513 TTCAGGGGCA
Statistics
Matches: 96, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 96 1.00
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.21
Consensus pattern (40 bp):
TGTGCAAACAGGGACACCGAAGTGTTCATAGGGGCACAGT
Found at i:49798520 original size:80 final size:81
Alignment explanation
Indices: 49798353--49798533 Score: 222
Period size: 80 Copynumber: 2.3 Consensus size: 81
49798343 CCAGAGTGCA
* * * * * *
49798353 TTCAGGAGCACGGATGTGCAAATAGGGACACCGAAGTGTTCATAGGGGCACAGTTGTGCAAACTG
1 TTCAGGGGCACAGATGTGCAAACAGGGACACCGAAGTGTTCACAGGGGCACAGTTGTGAAAACAG
*
49798418 GGACACCGAAGTGTTC
66 GGACACCAAAGTGTTC
* * * *
49798434 AT-AGGGGCACAGTTGTGCAAACAGGGACACCGAATTGTTTACAGGGGCACAGTTGTGAAAACAG
1 TTCAGGGGCACAGATGTGCAAACAGGGACACCGAAGTGTTCACAGGGGCACAGTTGTGAAAACAG
*
49798498 GGACATCAAAGTGTT-
66 GGACACCAAAGTGTTC
* *
49798513 TTCAGGGGCACCGAGGTGCAA
1 TTCAGGGGCACAGATGTGCAA
49798534 TGAAATCACT
Statistics
Matches: 83, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.01
80 81 0.98
81 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.32, T:0.19
Consensus pattern (81 bp):
TTCAGGGGCACAGATGTGCAAACAGGGACACCGAAGTGTTCACAGGGGCACAGTTGTGAAAACAG
GGACACCAAAGTGTTC
Found at i:49799986 original size:53 final size:52
Alignment explanation
Indices: 49799887--49800077 Score: 136
Period size: 53 Copynumber: 3.8 Consensus size: 52
49799877 TGAGATGCTT
* * ** *
49799887 ACAAAAGCTCATGCTCTCAAAGGAGAACGTAGAGTG-GGACTTATAAAAAAACTC
1 ACAAAAGCCCATGCTCT-AAAGGAGCACACAGAGTGAGG-CTCAT-AAAAAACTC
*
49799941 ACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGGCTCAT-AAAAGCT-
1 ACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGGCTCATAAAAAACTC
* * *
49799991 -C--ATG--C-T-CT-TAAAGGAGCACACAGAGTGAGACTTATCACAAAAA-TC
1 ACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGGCTCAT-A-AAAAACTC
* ** *
49800036 ACAAAAGCCCATGCTCTTAAGGAGCACGTACAGTGAGGCTCA
1 ACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGGCTCA
49800078 CAATTGCTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 27
0.71 0.11 0.18
Matches are distributed among these distances:
42 25 0.23
43 2 0.02
44 2 0.02
45 5 0.05
46 1 0.01
47 2 0.02
48 2 0.02
49 1 0.01
50 1 0.01
51 7 0.07
52 2 0.02
53 39 0.36
54 18 0.17
ACGTcount: A:0.39, C:0.23, G:0.21, T:0.17
Consensus pattern (52 bp):
ACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGGCTCATAAAAAACTC
Found at i:49800012 original size:42 final size:41
Alignment explanation
Indices: 49799938--49800114 Score: 138
Period size: 42 Copynumber: 4.0 Consensus size: 41
49799928 TATAAAAAAA
49799938 CTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGG
1 CTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGG
* * *
49799979 CTCATAAAAGCTCATGCTCTTAAAGGAGCACACAGAGTGAGACTTATCA
1 CTCACAAAAGCCCATGCTC-TAAAGGAGCACACAGAGTGAG-------G
* ** *
49800028 CAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACGTACAGTGAGG
1 C-----TCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGG
** *
49800074 CTCACAATTGCTCATGCTCTGAAAGGAGCACACAGAGTGAG
1 CTCACAAAAGCCCATGCTCT-AAAGGAGCACACAGAGTGAG
49800115 ACTTATCACA
Statistics
Matches: 105, Mismatches: 17, Indels: 27
0.70 0.11 0.18
Matches are distributed among these distances:
41 33 0.31
42 37 0.35
46 1 0.01
49 1 0.01
53 17 0.16
54 16 0.15
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (41 bp):
CTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGG
Done.