Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004728.1 Hibiscus syriacus cultivar Beakdansim tig00010666_pilon, 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: 108654
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Found at i:3909 original size:6 final size:7
Alignment explanation
Indices: 3887--3923 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
3877 GTCAAAGGAA
3887 GTCAACG
1 GTCAACG
*
3894 TTCAACG
1 GTCAACG
3901 GTC-ACG
1 GTCAACG
3907 GTCAACG
1 GTCAACG
3914 GTCAACG
1 GTCAACG
3921 GTC
1 GTC
3924 GGGTCGGGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:3913 original size:13 final size:14
Alignment explanation
Indices: 3887--3923 Score: 58
Period size: 13 Copynumber: 2.7 Consensus size: 14
3877 GTCAAAGGAA
*
3887 GTCAACGTTCAACG
1 GTCAACGGTCAACG
3901 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
3914 GTCAACGGTC
1 GTCAACGGTC
3924 GGGTCGGGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 12 0.57
14 9 0.43
ACGTcount: A:0.24, C:0.30, G:0.27, T:0.19
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:3930 original size:5 final size:5
Alignment explanation
Indices: 3920--3952 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
3910 AACGGTCAAC
*
3920 GGTCG GGTCG GGTCG GGTC- AGTCG GGTCG GGTC
1 GGTCG GGTCG GGTCG GGTCG GGTCG GGTCG GGTC
3953 AGACCGGTCA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
4 3 0.12
5 22 0.88
ACGTcount: A:0.03, C:0.21, G:0.55, T:0.21
Consensus pattern (5 bp):
GGTCG
Found at i:3945 original size:14 final size:14
Alignment explanation
Indices: 3926--3954 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
3916 CAACGGTCGG
3926 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
3940 GTCGGGTCGGGTCA
1 GTCGGGTCGGGTCA
3954 G
1 G
3955 ACCGGTCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.21, G:0.52, T:0.21
Consensus pattern (14 bp):
GTCGGGTCGGGTCA
Found at i:3979 original size:19 final size:19
Alignment explanation
Indices: 3955--4009 Score: 83
Period size: 19 Copynumber: 2.9 Consensus size: 19
3945 GTCGGGTCAG
3955 ACCGGTCAAACCGGTTTGA
1 ACCGGTCAAACCGGTTTGA
* **
3974 ACCGGTCAAACCAGTCAGA
1 ACCGGTCAAACCGGTTTGA
3993 ACCGGTCAAACCGGTTT
1 ACCGGTCAAACCGGTTT
4010 CCAGCCTTCC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.29, G:0.24, T:0.18
Consensus pattern (19 bp):
ACCGGTCAAACCGGTTTGA
Found at i:3995 original size:10 final size:9
Alignment explanation
Indices: 3949--4007 Score: 64
Period size: 9 Copynumber: 6.3 Consensus size: 9
3939 AGTCGGGTCG
*
3949 GGTCAGACC
1 GGTCAAACC
3958 GGTCAAACC
1 GGTCAAACC
**
3967 GGTTTGAACC
1 GG-TCAAACC
3977 GGTCAAACC
1 GGTCAAACC
*
3986 AGTCAGAACC
1 GGTCA-AACC
3996 GGTCAAACC
1 GGTCAAACC
4005 GGT
1 GGT
4008 TTCCAGCCTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
9 26 0.63
10 15 0.37
ACGTcount: A:0.29, C:0.29, G:0.27, T:0.15
Consensus pattern (9 bp):
GGTCAAACC
Found at i:11045 original size:19 final size:19
Alignment explanation
Indices: 11023--11100 Score: 97
Period size: 19 Copynumber: 4.1 Consensus size: 19
11013 TCGGGTCGGG
11023 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
11042 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
11061 TC-GAACCGGTCGAAACCGG-
1 TCAG-ACCGGTC-AAACCGGT
* *
11080 TCAAACCGATCAGAACCGGT
1 TCAGACCGGTCA-AACCGGT
11100 T
1 T
11101 GAAAACCAGT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
18 2 0.04
19 42 0.81
20 8 0.15
ACGTcount: A:0.28, C:0.31, G:0.26, T:0.15
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:11051 original size:10 final size:9
Alignment explanation
Indices: 11021--11099 Score: 86
Period size: 10 Copynumber: 8.3 Consensus size: 9
11011 GGTCGGGTCG
*
11021 GGTCAGACC
1 GGTCAAACC
11030 GGTCAAACC
1 GGTCAAACC
*
11039 GGTTCAGACC
1 GG-TCAAACC
11049 GGTCAAACC
1 GGTCAAACC
*
11058 GGTTCGAACC
1 GG-TCAAACC
11068 GGTCGAAACC
1 GGTC-AAACC
11078 GGTCAAACC
1 GGTCAAACC
*
11087 GATCAGAACC
1 GGTCA-AACC
11097 GGT
1 GGT
11100 TGAAAACCAG
Statistics
Matches: 59, Mismatches: 7, Indels: 7
0.81 0.10 0.10
Matches are distributed among these distances:
9 29 0.49
10 30 0.51
ACGTcount: A:0.28, C:0.30, G:0.28, T:0.14
Consensus pattern (9 bp):
GGTCAAACC
Found at i:11078 original size:29 final size:29
Alignment explanation
Indices: 11022--11119 Score: 85
Period size: 29 Copynumber: 3.4 Consensus size: 29
11012 GTCGGGTCGG
*
11022 GTCAGACCGGTCAAACCGGTTC-AGACCG
1 GTCAAACCGGTCAAACCGGTTCAAGACCG
*
11050 GTCAAACCGGTTCGAACCGG-TCGAA-ACCG
1 GTCAAACCGG-TCAAACCGGTTC-AAGACCG
* * * *
11079 GTCAAACCGATCAGAACCGGTTGAAAACCA
1 GTCAAACCGGTCA-AACCGGTTCAAGACCG
*
11109 GTCTAACCGGT
1 GTCAAACCGGT
11120 TTCCAGCCCT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
28 13 0.23
29 29 0.52
30 14 0.25
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.15
Consensus pattern (29 bp):
GTCAAACCGGTCAAACCGGTTCAAGACCG
Found at i:11666 original size:14 final size:14
Alignment explanation
Indices: 11647--11673 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11637 GTTCTGAAAA
11647 TCAGAACCAAATGT
1 TCAGAACCAAATGT
11661 TCAGAACCAAATG
1 TCAGAACCAAATG
11674 CACGCTTATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.22, G:0.15, T:0.19
Consensus pattern (14 bp):
TCAGAACCAAATGT
Found at i:17665 original size:7 final size:8
Alignment explanation
Indices: 17648--17679 Score: 50
Period size: 7 Copynumber: 4.2 Consensus size: 8
17638 AATTTAGAGC
17648 CATTATCA
1 CATTATCA
17656 CATT-TCA
1 CATTATCA
17663 CATTATCA
1 CATTATCA
17671 CATT-TCA
1 CATTATCA
17678 CA
1 CA
17680 CTTTGAAGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 12 0.52
8 11 0.48
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (8 bp):
CATTATCA
Found at i:17668 original size:15 final size:15
Alignment explanation
Indices: 17648--17679 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17638 AATTTAGAGC
17648 CATTATCACATTTCA
1 CATTATCACATTTCA
17663 CATTATCACATTTCA
1 CATTATCACATTTCA
17678 CA
1 CA
17680 CTTTGAAGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.34, C:0.28, G:0.00, T:0.38
Consensus pattern (15 bp):
CATTATCACATTTCA
Found at i:22012 original size:3 final size:3
Alignment explanation
Indices: 22004--22058 Score: 67
Period size: 3 Copynumber: 18.0 Consensus size: 3
21994 TCTAATTTTA
* *
22004 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATGT -TT GTT AATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT -ATT ATT ATT
22050 ATT ATT ATT
1 ATT ATT ATT
22059 TTTGCAGGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
2 1 0.02
3 42 0.91
4 3 0.07
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:30215 original size:36 final size:35
Alignment explanation
Indices: 30133--30231 Score: 119
Period size: 36 Copynumber: 2.8 Consensus size: 35
30123 AGTTTCCTTC
* *
30133 GAAAACAAATTTTTTCTCGCTTGAGAC-AGTTCTT
1 GAAAACAAATTTTGTCTCGCTTGAGACAAGTTATT
* * *
30167 GAAAAACAAATTTTGTCTCACTTAAGACAATTTATCT
1 G-AAAACAAATTTTGTCTCGCTTGAGACAAGTTAT-T
*
30204 GAAAACAAATTTCGTCTCGCTTGAGACA
1 GAAAACAAATTTTGTCTCGCTTGAGACA
30232 TTTTTCCTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
34 1 0.02
35 23 0.43
36 28 0.52
37 2 0.04
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.33
Consensus pattern (35 bp):
GAAAACAAATTTTGTCTCGCTTGAGACAAGTTATT
Found at i:30324 original size:105 final size:106
Alignment explanation
Indices: 30205--30491 Score: 447
Period size: 106 Copynumber: 2.7 Consensus size: 106
30195 AATTTATCTG
30205 AAAACAAATTTCGTCTCGCTTGAGACA-TTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
*
30269 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTTTTTA
66 TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTA
* *
30310 AAAACAAATTTCGTCTCGCTTGGGACATTTTTTTCCTTTGA-AAACAAATTTTGAATTTGCTTCA
1 AAAACAAATTTCGTCTCGCTTGAGACA-TTTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCA
*
30374 CTTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTC
65 CTTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTA
* * * *
30416 AAAACAAATTTCGTCTCGCTTGAGACATTTTTTTCTATGAGATACAAA-TTTAAATTTG-TTGTA
1 AAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGCTT-CA
*
30479 TTTGAAACAAAAT
65 CTTGAAACAAAAT
30492 AAACACCTTT
Statistics
Matches: 167, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
104 2 0.01
105 59 0.35
106 94 0.56
107 12 0.07
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (106 bp):
AAAACAAATTTCGTCTCGCTTGAGACATTTTTTCCTTTGAGATACAAATTTTGAATTTGCTTCAC
TTGAAACAAAATTAATCTCACTTGAGATTGTTGTTTATTTA
Found at i:31423 original size:28 final size:28
Alignment explanation
Indices: 31377--31453 Score: 102
Period size: 28 Copynumber: 2.6 Consensus size: 28
31367 GAGACAGTTG
31377 CTTTTGAAACACATCATCTTTGGGTTTGTTT
1 CTTTTGAAACA-A--ATCTTTGGGTTTGTTT
*
31408 -TTCTTGAAACGAATCTTTGGGTTTGTTT
1 CTT-TTGAAACAAATCTTTGGGTTTGTTT
31436 CTTTTGAAACAAATCTTT
1 CTTTTGAAACAAATCTTT
31454 AATTTGGTTT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 30 0.71
29 2 0.05
30 3 0.07
31 7 0.17
ACGTcount: A:0.22, C:0.14, G:0.16, T:0.48
Consensus pattern (28 bp):
CTTTTGAAACAAATCTTTGGGTTTGTTT
Found at i:31554 original size:40 final size:40
Alignment explanation
Indices: 31499--31963 Score: 186
Period size: 40 Copynumber: 10.6 Consensus size: 40
31489 TGGCCAGCCA
* * *
31499 TCCTCATCATGTAGGAATCGTGTCATCCCCAGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGACC
* * **
31539 TCCTCATCACGTAGGAGCCGTGTCAACCATAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAG---ACCAGACC
* *
31581 GTCCTCATCACGTAGGAACCGTGTTATCACCTTCCTAAAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAACCGTGTCAT--CC--CC---AGA---CCAGACC
* * * * *
31632 TCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGACC
*
31672 TCCTCATCACGTAGGAGCCGTGTCA-CCCCTAGATAACCAG-CC
1 TCCTCATCACGTAGGAACCGTGTCATCCCC-AG---ACCAGACC
* *
31714 GTCCTCATCACGTAGGAACCGTGTTATTGCCTTCCTAAAGATGGCCAAGAAC
1 -TCCTCATCACGTAGGAACCGTGTCA-T-CC--CC---AGA---CC-AGACC
* * * * * *
31766 TCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAAATC
1 TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGACC
* *
31806 TCCTCATCACGTAGGAGCCGTTTCA-CCCCTAGATAACCA-ACC
1 TCCTCATCACGTAGGAACCGTGTCATCCCC-AG---ACCAGACC
* *
31848 GTCCTCATCACGTAGGAACCGTGTTATCACCTTCCTAAAGATGGCCAGAAC
1 -TCCTCATCACGTAGGAACCGTGTCAT--CC--CC---AGA---CCAGACC
* * * * *
31899 TCTTCATCACGTATGAGCCGTGTCATCCACC-GACCAAATC
1 TCCTCATCACGTAGGAACCGTGTCATCC-CCAGACCAGACC
31939 TCCTCATCACGTAGGAACCGTGTCA
1 TCCTCATCACGTAGGAACCGTGTCA
31964 CCCTTAGACG
Statistics
Matches: 323, Mismatches: 54, Indels: 96
0.68 0.11 0.20
Matches are distributed among these distances:
39 8 0.02
40 109 0.34
41 2 0.01
42 4 0.01
43 86 0.27
44 2 0.01
45 2 0.01
46 6 0.02
47 7 0.02
48 8 0.02
49 2 0.01
50 60 0.19
51 26 0.08
52 1 0.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.23
Consensus pattern (40 bp):
TCCTCATCACGTAGGAACCGTGTCATCCCCAGACCAGACC
Found at i:31589 original size:43 final size:43
Alignment explanation
Indices: 31531--32005 Score: 173
Period size: 43 Copynumber: 10.7 Consensus size: 43
31521 TCATCCCCAG
* *
31531 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCAACCATAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCATCCATAGATA
* * *
31574 ACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATCACCTTCCTAAAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTG---TCA---TCC-ATAGATA
* * * * ***
31624 GCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCG---
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCATCCATAGATA
* * *
31664 ACCAGATCTCCTCATCACGTAGGAGCCGTGTCACCCCTAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCATCCATAGATA
* * * *
31707 ACCAG-CCGTCCTCATCACGTAGGAACCGTGTTATTGCCTTCCTAAAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTG----T--CATCC-ATAGATA
* * * * ***
31757 GCCAAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCG---
1 ACC-AGACCTCCTCATCACGTAGGAGCCGTGTCATCCATAGATA
* * * * *
31798 ACCAAATCTCCTCATCACGTAGGAGCCGTTTCACCCCTAGATA
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCATCCATAGATA
* * *
31841 ACCA-ACCGTCCTCATCACGTAGGAACCGTGTTATCACCTTCCTAAAGATG
1 ACCAGACC-TCCTCATCACGTAGGAGCCGTG---TCA---TCC-ATAGATA
* * * * **
31891 GCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCACCG---
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCATCCATAGATA
* * * * * **
31931 ACCAAATCTCCTCATCACGTAGGAACCGTGTCACCCTTAGACG
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTCATCCATAGATA
* * * * *
31974 ACCCGAACTCTTCATCACGTATGAGCAGTGTC
1 ACCAGACCTCCTCATCACGTAGGAGCCGTGTC
32006 GTCCCCAACA
Statistics
Matches: 319, Mismatches: 76, Indels: 74
0.68 0.16 0.16
Matches are distributed among these distances:
40 92 0.29
41 2 0.01
42 4 0.01
43 104 0.33
44 7 0.02
45 4 0.01
46 6 0.02
47 8 0.03
49 7 0.02
50 60 0.19
51 24 0.08
52 1 0.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.23
Consensus pattern (43 bp):
ACCAGACCTCCTCATCACGTAGGAGCCGTGTCATCCATAGATA
Found at i:31832 original size:134 final size:133
Alignment explanation
Indices: 31480--31971 Score: 797
Period size: 133 Copynumber: 3.7 Consensus size: 133
31470 AAACCATAAC
* * * * ** * *
31480 TCCTAAAGATGGCCAG-CCATCCTCATCATGTAGGAATCGTGTCATCCCCAGACCAGATCTCCTC
1 TCCTAAAGATGGCCAGAAC-TCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAAATCTCCTC
* *
31544 ATCACGTAGGAGCCGTGTCAACCATAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
65 ATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
31609 ACCT
130 ACCT
*
31613 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAGATCTCCTCA
1 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAAATCTCCTCA
**
31678 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATTG
66 TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
31743 CCT
131 CCT
31746 TCCTAAAGATGGCCAAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAAATCTCCTC
1 TCCTAAAGATGGCC-AGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAAATCTCCTC
* *
31811 ATCACGTAGGAGCCGTTTCACCCCTAGATAACCAACCGTCCTCATCACGTAGGAACCGTGTTATC
65 ATCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATC
31876 ACCT
130 ACCT
*
31880 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCACCGACCAAATCTCCTCA
1 TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAAATCTCCTCA
* *
31945 TCACGTAGGAACCGTGTCACCCTTAGA
66 TCACGTAGGAGCCGTGTCACCCCTAGA
31972 CGACCCGAAC
Statistics
Matches: 337, Mismatches: 20, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
133 208 0.62
134 129 0.38
ACGTcount: A:0.26, C:0.33, G:0.18, T:0.23
Consensus pattern (133 bp):
TCCTAAAGATGGCCAGAACTCTTCATCACGTATGAGCCGTGTCATCCCCCGACCAAATCTCCTCA
TCACGTAGGAGCCGTGTCACCCCTAGATAACCAGCCGTCCTCATCACGTAGGAACCGTGTTATCA
CCT
Found at i:32179 original size:3 final size:3
Alignment explanation
Indices: 32171--32228 Score: 73
Period size: 3 Copynumber: 19.0 Consensus size: 3
32161 TCTAATTTTA
* *
32171 ATT ATT ATT ATT ATT GTT ATT ATT ATT ATGT -TT GTT AATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT -ATT ATT ATT
32217 ATT ATT ATT ATT
1 ATT ATT ATT ATT
32229 GCAGGCAAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
2 1 0.02
3 45 0.92
4 3 0.06
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:47664 original size:83 final size:84
Alignment explanation
Indices: 47450--48278 Score: 950
Period size: 84 Copynumber: 9.9 Consensus size: 84
47440 AAAACACCTT
* * *
47450 CAACAAAAGACCTTCGAGTTCAATTACACTCATCTCAAAGGCACATCATTTGCAGCATATCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
47515 GGCAAGAAGGGTTATCTGC
66 GGCAAGAAGGGCTATCTGC
* * * *
47534 CAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGACACATCATTTGTAGTATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* **
47599 GGAAAGAAGGGCTATCTAT
66 GGCAAGAAGGGCTATCTGC
* * ** * *
47618 CAAC-CAAGACCTTCGAGTTCGATTATACTCAGCTCAAAGGTGCATCATTTGTAGCATAGCTTAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
47682 GGCGAGAAGGGCTATCTGC
66 GGCAAGAAGGGCTATCTGC
* * * *
47701 CAACCAAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGACATATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* *
47766 GGCAATAAGGGCTACCTGC
66 GGCAAGAAGGGCTATCTGC
* * * * *
47785 CAACAAAAGACCTTCGAGTTCGAATACACTCAGCTCAAAGGCGCATCATTTACAACATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* * * *
47850 GGCTAGAAGGGTTATATGT
66 GGCAAGAAGGGCTATCTGC
*
47869 CAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACACCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
47933 GGCAAGAAGGGCTATCTGC
66 GGCAAGAAGGGCTATCTGC
* * ** * * *
47952 CAACAAAAGAGCTTCGAGTTCGATTA-ACTCAGCTCAAAAGCGTATCATTTACAACATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* * * *
48016 GGCTAGAAGAGTTATCTGT
66 GGCAAGAAGGGCTATCTGC
* * **
48035 CAAC-AAAGACCTTTGAGTTCGATTACACTCATCTCAAAGGCACATCATTTGCAGCATAGCTTTA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
48099 GGCGAGAAGGGCTATCTGC
66 GGCAAGAAGGGCTATCTGC
* * * * * * *
48118 CAACAAAAGACCTTCAAGTTCGATTACATTCAACTCAAATGCATATCAAATTTACAGCATAACTC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCTC
* * *
48183 AAGACGAGAAGGGTTATCTG-
64 AAGGCAAGAAGGGCTATCTGC
* * * * * * * * * *
48203 TAGTC-AAAGACCTTCGAGTTCGATTACATTCAACTCAGAGACAAATCATTTACAACTTAGCTCA
1 CA-ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCA
*
48267 ATGCAAGAAGGG
65 AGGCAAGAAGGG
48279 TTATTTGTCA
Statistics
Matches: 626, Mismatches: 112, Indels: 15
0.83 0.15 0.02
Matches are distributed among these distances:
82 19 0.03
83 265 0.42
84 273 0.44
85 38 0.06
86 31 0.05
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (84 bp):
CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
GGCAAGAAGGGCTATCTGC
Found at i:47738 original size:167 final size:167
Alignment explanation
Indices: 47450--48278 Score: 1043
Period size: 167 Copynumber: 5.0 Consensus size: 167
47440 AAAACACCTT
* * * * *
47450 CAACAAAAGACCTTCGAGTTCAATTACACTCATCTCAAAGGCACATCATTTGCAGCATATCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATCATTTACAGCATAACTCAA
* *
47515 GGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGACACAT
66 GGCGAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACAT
* * * **
47580 CATTTGTAGTATAGCTCAAGGAAAGAAGGGCTATCTAT
130 CATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
* * * ** * *
47618 CAAC-CAAGACCTTCGAGTTCGATTATACTCAGCTCAAAGGTGCATCATTTGTAGCATAGCTTAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATCATTTACAGCATAACTCAA
* * *
47682 GGCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGACATAT
66 GGCGAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACAT
* *
47747 CATTTGCAGCATAGCTCAAGGCAATAAGGGCTACCTGC
130 CATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
* *
47785 CAACAAAAGACCTTCGAGTTCGAATACACTCAGCTCAAAGGCGCATCATTTACAACATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATCATTTACAGCATAACTCAA
* * * * *
47850 GGCTAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACACC
66 GGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
47915 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
131 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
* * * *
47952 CAACAAAAGAGCTTCGAGTTCGATTA-ACTCAGCTCAAAAGCGTATCATTTACAACATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATCATTTACAGCATAACTCAA
* * * * * *
48016 GGCTAGAAGAGTTATCTGTCAACAAAGACCTTTGAGTTCGATTACACTCATCTCAAAGGCACATC
66 GGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
** *
48081 ATTTGCAGCATAGCTTTAGGCGAGAAGGGCTATCTGC
131 ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
* * * * **
48118 CAACAAAAGACCTTCAAGTTCGATTACATTCAACTCAAATGCATATCAAATTTACAGCATAACTC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATC--ATTTACAGCATAACTC
* * * * * * *
48183 AAGACGAGAAGGGTTATCTG-TAGTCAAAGACCTTCGAGTTCGATTACATTCAACTCAGAGACAA
64 AAGGCGAGAAGGGTTATCTGCCA-ACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACAC
* * * *
48247 ATCATTTACAACTTAGCTCAATGCAAGAAGGG
128 ATCATTTGCAGCATAGCTCAAGGCAAGAAGGG
48279 TTATTTGTCA
Statistics
Matches: 578, Mismatches: 77, Indels: 11
0.87 0.12 0.02
Matches are distributed among these distances:
166 154 0.27
167 258 0.45
168 75 0.13
169 91 0.16
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (167 bp):
CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCGCATCATTTACAGCATAACTCAA
GGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
Found at i:47901 original size:251 final size:251
Alignment explanation
Indices: 47450--48282 Score: 971
Period size: 251 Copynumber: 3.3 Consensus size: 251
47440 AAAACACCTT
* * * * * * * *
47450 CAACAAAAGACCTTCGAGTTCAATTACACTCATCTCAAAGGCACATCATTTGCAGCATATCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGACATATCATTTACAACATAGCTCAA
* *
47515 GGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTTGATTACACTCAGCTCAAAGACACAT
66 GGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
* * * * * *
47580 CATTTGTAGTATAGCTCAAGGAAAGAAGGGCTATCTATCAACCAAGACCTTCGAGTTCGATTATA
131 CATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
* *
47645 CTCAGCTCAAAGGTGCATCATTTGTAGCATAGCTTAAGGCGAGAAGGGCTATCTGC
196 CTCAGCTCAAAGGTGCATCATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGC
* * *
47701 CAACCAAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGACATATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGACATATCATTTACAACATAGCTCAA
* * * * *
47766 GGCAATAAGGGCTACCTGCCAACAAAAGACCTTCGAGTTCGAATACACTCAGCTCAAAGGCGCAT
66 GGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
* * * * * *
47831 CATTTACAACATAACTCAAGGCTAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTACA
131 CATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
** * *
47896 CTCAGCTCAAAGGCACACCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
196 CTCAGCTCAAAGGTGCATCATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGC
* * * *
47952 CAACAAAAGAGCTTCGAGTTCGATTA-ACTCAGCTCAAA-AGCGTATCATTTACAACATAACTCA
1 CAACAAAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGA-CATATCATTTACAACATAGCTCA
* * * * *
48015 AGGCTAGAAGAGTTATCTGTCAAC-AAAGACCTTTGAGTTCGATTACACTCATCTCAAAGGCACA
65 AGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACA
** * * *
48079 TCATTTGCAGCATAGCTTTAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCAAGTTCGATTA
130 TCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATTA
* * * * * *
48144 CATTCAACTCAAA--TGCATATCAAATTTACAGCATAACTCAAGACGAGAAGGGTTATCTG-
194 CACTCAGCTCAAAGGTGC--ATC--ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGC
* * * * * *
48203 TAGTC-AAAGACCTTCGAGTTCGATTACATTCAA-CTCAGAGACAAATCATTTACAACTTAGCTC
1 CA-ACAAAAGACCTTCGAGTTCGATTACACT-AAGCTCAAAGACATATCATTTACAACATAGCTC
*
48266 AATGCAAGAAGGGTTAT
64 AAGGCAAGAAGGGTTAT
48283 TTGTCAATAA
Statistics
Matches: 490, Mismatches: 82, Indels: 19
0.83 0.14 0.03
Matches are distributed among these distances:
248 1 0.00
249 71 0.14
250 81 0.17
251 264 0.54
252 71 0.14
253 2 0.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (251 bp):
CAACAAAAGACCTTCGAGTTCGATTACACTAAGCTCAAAGACATATCATTTACAACATAGCTCAA
GGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
CATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGTGCATCATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGC
Found at i:49747 original size:30 final size:30
Alignment explanation
Indices: 49687--49784 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
49677 CCCGAAAGAC
* **
49687 CTATCCAGAGGTCATAAAGATCGTCTGTAA
1 CTATCCAGAGGTCATAAAGATCCTAGGTAA
49717 CTATCCAGAGGTCATAAAGATCCTAGGTAA
1 CTATCCAGAGGTCATAAAGATCCTAGGTAA
* * *** *
49747 CTGTCCATAGGTCCCGAAGAACCTAGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTAGGT-AA
49778 CTATCCA
1 CTATCCA
49785 TATGTTCCTT
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
30 49 0.86
31 8 0.14
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTAGGTAA
Found at i:49799 original size:31 final size:31
Alignment explanation
Indices: 49715--49809 Score: 84
Period size: 31 Copynumber: 3.1 Consensus size: 31
49705 GATCGTCTGT
* *** *
49715 AACTATCCAGAGGTCATAAAGATCCTAGGT-
1 AACTATCCATAGGTCCCGAAGAACCTAGGTA
*
49745 AACTGTCCATAGGTCCCGAAGAACCTAGGTA
1 AACTATCCATAGGTCCCGAAGAACCTAGGTA
* * ** *
49776 AACTATCCATATGTTCCTTAGAACATAGGTA
1 AACTATCCATAGGTCCCGAAGAACCTAGGTA
49807 AAC
1 AAC
49810 CCTCGACTCT
Statistics
Matches: 52, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
30 24 0.46
31 28 0.54
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (31 bp):
AACTATCCATAGGTCCCGAAGAACCTAGGTA
Found at i:52315 original size:2 final size:2
Alignment explanation
Indices: 52308--52347 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
52298 AATGATCACA
52308 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
52348 TCCCCAAACT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:55075 original size:30 final size:30
Alignment explanation
Indices: 55041--55113 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
55031 CCCGAAGGAC
* *
55041 CTATCCAGAGGTCATAAAGATCGTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTAGGTAA
55071 CTATCCAGAGGTCATAAAGATCCTAGGTAA
1 CTATCCAGAGGTCATAAAGATCCTAGGTAA
* *
55101 CTGTCCATAGGTC
1 CTATCCAGAGGTC
55114 CCGAAGAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.25
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTAGGTAA
Found at i:56801 original size:84 final size:84
Alignment explanation
Indices: 56657--57486 Score: 952
Period size: 84 Copynumber: 9.9 Consensus size: 84
56647 AAAGCACCTT
* *
56657 CAACAAAAGACCTTCGAGTTCAATTACACTCATCTCAAAGGCACATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
56722 GGCAAGAAGGGTTATCTGC
66 GGCAAGAAGGGCTATCTGC
* * *
56741 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATCATTTGTAGTATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* **
56806 GGAAAGAAGGGCTATCTAT
66 GGCAAGAAGGGCTATCTGC
* * * ** * *
56825 CAAC-CAAGACCTTCGAGTTCAATTATACTCAGCTCAAAGGTGCATCATTTGTAGCATAGCTTAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
56889 GGCGAGAAGGGCTATCTGC
66 GGCAAGAAGGGCTATCTGC
* * *
56908 CAACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACATATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
56973 GGCAATAAGGGCTATCTGC
66 GGCAAGAAGGGCTATCTGC
* * * ** * *
56992 CAACAAAAGACCTTCGAGTTCGAATACACTCAGCTCAAAGGCGCATCGTTTATAACATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
* * * *
57057 GGCTAGAAGGGTTATATGT
66 GGCAAGAAGGGCTATCTGC
*
57076 CAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACACCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
57140 GGCAAGAAGGGCTATCTGC
66 GGCAAGAAGGGCTATCTGC
* * * ** * * *
57159 CAACAAAAAGAGCTTCGAGTTCGATTA-ACGCAGCTCAAAAGCGTATCATTTACAACATAACTCA
1 CAAC-AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCA
* * * *
57223 AGGCTAGAAGAGTTATCTGT
65 AGGCAAGAAGGGCTATCTGC
* * **
57243 CAAC-AAATACCTTCGAGTTCGATTACACTCATCTCAAAGGCACATCATTTGCAGCATAGCTTTA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
*
57307 GGCGAGAAGGGCTATCTGC
66 GGCAAGAAGGGCTATCTGC
* * * * * *
57326 CAACAAAAGACCTTCAAGTTCGATTACATTCAACTCAAAGGCATATCAAATTTACAGCATAACTC
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCTC
* * *
57391 AAGACGAGAAGGGTTATCTG-
64 AAGGCAAGAAGGGCTATCTGC
* * * * * * * * * *
57411 TAGTC-AAAGACCTTCGAGTTCGATTACATTCAACTCAGAGACAAATCATTTACAACTTAGCTCA
1 CA-ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCA
*
57475 ATGCAAGAAGGG
65 AGGCAAGAAGGG
57487 TTATTTGTCA
Statistics
Matches: 627, Mismatches: 111, Indels: 17
0.83 0.15 0.02
Matches are distributed among these distances:
82 19 0.03
83 212 0.34
84 306 0.49
85 59 0.09
86 31 0.05
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (84 bp):
CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAA
GGCAAGAAGGGCTATCTGC
Found at i:56939 original size:167 final size:167
Alignment explanation
Indices: 56657--57486 Score: 1029
Period size: 167 Copynumber: 5.0 Consensus size: 167
56647 AAAGCACCTT
* * * *
56657 CAACAAAAGACCTTCGAGTTCAATTACACTCATCTCAAAGGCACATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCGCATCATTTACAGCATAACTCAA
*
56722 GGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACAT
66 GGCGAGAAGGGTTATCTGCCAAC-AAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACAT
* * * **
56787 CATTTGTAGTATAGCTCAAGGAAAGAAGGGCTATCTAT
130 CATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
* * * ** * *
56825 CAAC-CAAGACCTTCGAGTTCAATTATACTCAGCTCAAAGGTGCATCATTTGTAGCATAGCTTAA
1 CAACAAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCGCATCATTTACAGCATAACTCAA
* *
56889 GGCGAGAAGGGCTATCTGCCAACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACATAT
66 GGCGAGAAGGGTTATCTGCCAA-CAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACAT
*
56954 CATTTGCAGCATAGCTCAAGGCAATAAGGGCTATCTGC
130 CATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
* * *
56992 CAACAAAAGACCTTCGAGTTCGAA-TACACTCAGCTCAAAGGCGCATCGTTTATAACATAACTCA
1 CAACAAAAGACCTTCGAGTTC-AATTACACTCAGCTCAAAGGCGCATCATTTACAGCATAACTCA
* * * * *
57056 AGGCTAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAC
65 AGGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACAT
57121 CATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
130 CATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
* * * * * *
57159 CAACAAAAAGAGCTTCGAGTTCGATTA-ACGCAGCTCAAAAGCGTATCATTTACAACATAACTCA
1 CAAC-AAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCGCATCATTTACAGCATAACTCA
* * * * * *
57223 AGGCTAGAAGAGTTATCTGTCAACAAATACCTTCGAGTTCGATTACACTCATCTCAAAGGCACAT
65 AGGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACAT
** *
57288 CATTTGCAGCATAGCTTTAGGCGAGAAGGGCTATCTGC
130 CATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
* * * * **
57326 CAACAAAAGACCTTCAAGTTCGATTACATTCAACTCAAAGGCATATCAAATTTACAGCATAACTC
1 CAACAAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCGCATC--ATTTACAGCATAACTC
* * * * * * *
57391 AAGACGAGAAGGGTTATCTG-TAGTCAAAGACCTTCGAGTTCGATTACATTCAACTCAGAGACAA
64 AAGGCGAGAAGGGTTATCTGCCA-ACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACAC
* * * *
57455 ATCATTTACAACTTAGCTCAATGCAAGAAGGG
128 ATCATTTGCAGCATAGCTCAAGGCAAGAAGGG
57487 TTATTTGTCA
Statistics
Matches: 580, Mismatches: 73, Indels: 17
0.87 0.11 0.03
Matches are distributed among these distances:
166 20 0.03
167 376 0.65
168 91 0.16
169 93 0.16
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.23
Consensus pattern (167 bp):
CAACAAAAGACCTTCGAGTTCAATTACACTCAGCTCAAAGGCGCATCATTTACAGCATAACTCAA
GGCGAGAAGGGTTATCTGCCAACAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACATC
ATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
Found at i:57108 original size:251 final size:251
Alignment explanation
Indices: 56657--57490 Score: 1012
Period size: 251 Copynumber: 3.3 Consensus size: 251
56647 AAAGCACCTT
* * * * * *
56657 CAACAAAAGACCTTCGAGTTCAATTACACTCATCTCAAAGGCACATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACATATCATTTACAACATAGCTCAA
*
56722 GGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACACAT
66 GGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
* * * * * *
56787 CATTTGTAGTATAGCTCAAGGAAAGAAGGGCTATCTATCAACCAAGACCTTCGAGTTCAATTATA
131 CATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
** * *
56852 CTCAGCTCAAAGGTGCATCATTTGTAGCATAGCTTAAGGCGAGAAGGGCTATCTGC
196 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGC
* * *
56908 CAACCAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACATATCATTTGCAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACATATCATTTACAACATAGCTCAA
* * * *
56973 GGCAATAAGGGCTATCTGCCAACAAAAGACCTTCGAGTTCGAATACACTCAGCTCAAAGGCGCAT
66 GGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
* * * * * * *
57038 CGTTTATAACATAACTCAAGGCTAGAAGGGTTATATGTCAACAAAGACCTTCGAGTTCGATTACA
131 CATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
* *
57103 CTCAGCTCAAAGGCACACCATTTGCAGCATAGCTCAAGGCAAGAAGGGCTATCTGC
196 CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGC
* * * *
57159 CAACAAAAAGAGCTTCGAGTTCGATTA-ACGCAGCTCAAA-AGCGTATCATTTACAACATAACTC
1 CAAC-AAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGA-CATATCATTTACAACATAGCTC
* * * * *
57222 AAGGCTAGAAGAGTTATCTGTCAAC-AAATACCTTCGAGTTCGATTACACTCATCTCAAAGGCAC
64 AAGGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCAC
* ** * * *
57286 ATCATTTGCAGCATAGCTTTAGGCGAGAAGGGCTATCTGCCAACAAAAGACCTTCAAGTTCGATT
129 ATCATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGATT
* * * * * * *
57351 ACATTCAACTCAAAGGCATATCAAATTTACAGCATAACTCAAGACGAGAAGGGTTATCTG-
193 ACACTCAGCTCAAAGGCACATC--ATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGC
* * * * * * *
57411 TAGTC-AAAGACCTTCGAGTTCGATTACATTCAACTCAGAGACAAATCATTTACAACTTAGCTCA
1 CA-ACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACATATCATTTACAACATAGCTCA
*
57475 ATGCAAGAAGGGTTAT
65 AGGCAAGAAGGGTTAT
57491 TTGTCAATAA
Statistics
Matches: 495, Mismatches: 80, Indels: 15
0.84 0.14 0.03
Matches are distributed among these distances:
250 69 0.14
251 332 0.67
252 61 0.12
253 33 0.07
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (251 bp):
CAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGACATATCATTTACAACATAGCTCAA
GGCAAGAAGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGATTACACTCAGCTCAAAGGCACAT
CATTTGTAGCATAGCTCAAGGCAAGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGATTACA
CTCAGCTCAAAGGCACATCATTTGCAGCATAGCTCAAGGCGAGAAGGGCTATCTGC
Found at i:58932 original size:30 final size:30
Alignment explanation
Indices: 58898--58995 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
58888 CCCGAAGGAC
* *
58898 CTATCCAGAGGTCATAAAGATCGTCTGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
58928 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGTAA
* * * * * *
58958 CTGTCCATAGGTCCTGAAGAACCTAGGTAAA
1 CTATCCAGAGGTCATAAAGATCCTCGGT-AA
58989 CTATCCA
1 CTATCCA
58996 TATGTTCCTT
Statistics
Matches: 58, Mismatches: 9, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
30 50 0.86
31 8 0.14
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGTAA
Found at i:59366 original size:9 final size:9
Alignment explanation
Indices: 59352--59383 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
59342 AGTATCACAT
*
59352 ATCATATGA
1 ATCATATAA
59361 ATCATATAA
1 ATCATATAA
59370 ATCATATAA
1 ATCATATAA
59379 ATCAT
1 ATCAT
59384 GTTACATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.34
Consensus pattern (9 bp):
ATCATATAA
Found at i:62330 original size:16 final size:18
Alignment explanation
Indices: 62291--62331 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 18
62281 ACGCAGACCG
62291 GATTTTTATCTTAAAAAT
1 GATTTTTATCTTAAAAAT
62309 GA-TTTT-TCTT-AAAAT
1 GATTTTTATCTTAAAAAT
*
62324 TATTTTTA
1 GATTTTTA
62332 AAAGACGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 6 0.30
16 8 0.40
17 4 0.20
18 2 0.10
ACGTcount: A:0.34, C:0.05, G:0.05, T:0.56
Consensus pattern (18 bp):
GATTTTTATCTTAAAAAT
Found at i:63041 original size:52 final size:52
Alignment explanation
Indices: 62984--63092 Score: 137
Period size: 52 Copynumber: 2.1 Consensus size: 52
62974 GTTCAATTTG
*
62984 ACTCGACTAAAAAAATTCAAATAAAATTTGAATGATAAAATAATGCTCATAC
1 ACTCGACTAAAAAAATTAAAATAAAATTTGAATGATAAAATAATGCTCATAC
* * *** * * *
63036 ACTCGATTGATTCAGTTAAAATGAAGTTTGAATGATAAAATAATGCTCATAC
1 ACTCGACTAAAAAAATTAAAATAAAATTTGAATGATAAAATAATGCTCATAC
63088 ACTCG
1 ACTCG
63093 TCTGATTCAA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
52 48 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (52 bp):
ACTCGACTAAAAAAATTAAAATAAAATTTGAATGATAAAATAATGCTCATAC
Found at i:67844 original size:15 final size:15
Alignment explanation
Indices: 67826--67854 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
67816 GGAGGCCCTA
67826 GACCAGCAGGCTCTG
1 GACCAGCAGGCTCTG
67841 GACCAGCAGGCTCT
1 GACCAGCAGGCTCT
67855 TTGAAAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.34, G:0.31, T:0.14
Consensus pattern (15 bp):
GACCAGCAGGCTCTG
Found at i:87582 original size:2 final size:2
Alignment explanation
Indices: 87575--87618 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
87565 CTTCTGCGTG
* * * *
87575 TA TA TA TA TA TA TA TA TA CA TA TA TG TG TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
87617 TA
1 TA
87619 ACCTCTGTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (2 bp):
TA
Found at i:100517 original size:26 final size:28
Alignment explanation
Indices: 100466--100517 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
100456 AACATACCAT
*
100466 AAAATAACGTTATTGAAAATTAAAAACA
1 AAAATAACGTTATTGAAAATAAAAAACA
*
100494 AAAATAACTTTA-T-AAAATAAAAAA
1 AAAATAACGTTATTGAAAATAAAAAA
100518 TAAGTGAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.45
27 1 0.05
28 11 0.50
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (28 bp):
AAAATAACGTTATTGAAAATAAAAAACA
Found at i:104749 original size:21 final size:21
Alignment explanation
Indices: 104697--104743 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
104687 GTTTCCAGAT
*
104697 TCGCAAAGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
104718 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
104739 TCGCA
1 TCGCA
104744 TTGCGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.32, G:0.19, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:104788 original size:21 final size:21
Alignment explanation
Indices: 104758--104927 Score: 131
Period size: 21 Copynumber: 8.2 Consensus size: 21
104748 GATTTACATA
*
104758 TTCGCATTGCGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
104779 TTCGCGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
**
104800 TTCGCGTTGCGATTTTCCAA-
1 TTCGCGTTGCGATAGTCCAAG
* *
104820 AT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
*
104839 TTCGCGTTGCGATTTATTCCGAA-
1 TTCGCGTTGCGA--TAGTCC-AAG
*
104862 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
104881 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
* *
104904 TT--CATTGCGATAGTCAAAG
1 TTCGCGTTGCGATAGTCCAAG
104923 TTCGC
1 TTCGC
104928 AACGACTGGT
Statistics
Matches: 115, Mismatches: 21, Indels: 26
0.71 0.13 0.16
Matches are distributed among these distances:
18 15 0.13
19 15 0.13
20 1 0.01
21 68 0.59
23 14 0.12
24 2 0.02
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:104810 original size:42 final size:40
Alignment explanation
Indices: 104783--104927 Score: 220
Period size: 42 Copynumber: 3.5 Consensus size: 40
104773 TCCAAGTTCG
*
104783 CGTTGCGATAGTCGAAGTTCGCGTTGCGATT-TTCCAAAT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAATT
104822 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCGAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCC-AATT
104864 CGTTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CGTTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCC-AATT
* *
104906 CATTGCGATAGTCAAAGTTCGC
1 CGTTGCGATAGTCGAAGTTCGC
104928 AACGACTGGT
Statistics
Matches: 99, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 29 0.29
40 2 0.02
41 4 0.04
42 64 0.65
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.34
Consensus pattern (40 bp):
CGTTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAATT
Found at i:105651 original size:42 final size:41
Alignment explanation
Indices: 105586--105905 Score: 262
Period size: 42 Copynumber: 7.6 Consensus size: 41
105576 CGTTGCGATT
*
105586 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAAC-CGAAC
* * *
105628 TTCGACTATCGCAACGAACTTGGAATAAATTGCAA-CGAAT
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACCGAAC
* * *
105668 TTGGAATAAATCGCAACGCGAACTT-CAACT--ATCGCAA-TGAAC
1 TTGGACT--ATCGCAA--CGAACTTGGAA-TAAATCGCAACCGAAC
* * * * *
105710 TTGGAATAAATTGCAACGCGAACTTGGACT--ATCTCAA-CGAAT
1 TTGGACT--ATCGCAA--CGAACTTGGAATAAATCGCAACCGAAC
*
105752 TTGGTA-TAAATCGCAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGG-ACT--ATCGCAACGAACTTGGAATAAATCGCAAC-CGAAC
*
105796 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAAC-CGAAC
* *
105838 TTGGACTATCGGAACGAATTTGGAATAAATCGCAACACGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAAC-CGAAC
*
105880 TTCGACTATCGCAACGCGAACTTGGA
1 TTGGACTATCGCAA--CGAACTTGGA
105906 CTATCGCAAT
Statistics
Matches: 234, Mismatches: 30, Indels: 26
0.81 0.10 0.09
Matches are distributed among these distances:
40 19 0.08
42 185 0.79
43 5 0.02
44 25 0.11
ACGTcount: A:0.36, C:0.22, G:0.20, T:0.23
Consensus pattern (41 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACCGAAC
Found at i:105699 original size:63 final size:63
Alignment explanation
Indices: 105596--105727 Score: 246
Period size: 63 Copynumber: 2.1 Consensus size: 63
105586 TTGGACTATC
*
105596 GCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATT
1 GCAACGAATTTGGAATAAATCGCAACGCGAACTTCAACTATCGCAACGAACTTGGAATAAATT
*
105659 GCAACGAATTTGGAATAAATCGCAACGCGAACTTCAACTATCGCAATGAACTTGGAATAAATT
1 GCAACGAATTTGGAATAAATCGCAACGCGAACTTCAACTATCGCAACGAACTTGGAATAAATT
105722 GCAACG
1 GCAACG
105728 CGAACTTGGA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 67 1.00
ACGTcount: A:0.39, C:0.20, G:0.19, T:0.22
Consensus pattern (63 bp):
GCAACGAATTTGGAATAAATCGCAACGCGAACTTCAACTATCGCAACGAACTTGGAATAAATT
Found at i:105748 original size:63 final size:63
Alignment explanation
Indices: 105614--105811 Score: 217
Period size: 63 Copynumber: 3.1 Consensus size: 63
105604 TTTGGAATAA
* * *
105614 ATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAAATTGCAA--CGAATTTGGAAT
1 ATCGCAACGCGAACTTCAACTATCGCAACGAACTTGGAATAAATTGCAACGCGAACTTGGACT
*
105675 AAATCGCAACGCGAACTTCAACTATCGCAATGAACTTGGAATAAATTGCAACGCGAACTTGGACT
1 --ATCGCAACGCGAACTTCAACTATCGCAACGAACTTGGAATAAATTGCAACGCGAACTTGGACT
* * * * * * *
105740 ATCTCAA--CGAATTTGGTATA-AATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGAC
1 ATCGCAACGCGAACTT--CA-ACTATCGCAACGAACTTGGAATAAATTGCAACGCGAACTTGGAC
105802 T
63 T
105803 ATCGCAACG
1 ATCGCAACG
105812 AACTTGGAAT
Statistics
Matches: 115, Mismatches: 13, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
61 6 0.05
63 98 0.85
64 1 0.01
65 10 0.09
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (63 bp):
ATCGCAACGCGAACTTCAACTATCGCAACGAACTTGGAATAAATTGCAACGCGAACTTGGACT
Found at i:105772 original size:105 final size:105
Alignment explanation
Indices: 105589--105914 Score: 494
Period size: 105 Copynumber: 3.1 Consensus size: 105
105579 TGCGATTTTG
* * *
105589 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAAT
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
*
105654 AAATTGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
66 AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
* * * * *
105694 AACTATCGCAATGAACTTGGAATAAATTGCAACGCGAACTTGGACTATCTCAACGAATTTGGTAT
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
105759 AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
66 AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
*
105799 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGGAACGAATTTGGAAT
1 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
* * * *
105864 AAATCGCAACACGAACTTCGACT--ATCGCAACGCGAACTTG
66 AAATCGC-A-ACGAATTTGGAATAAATCGCAACGCGAACTTC
105904 GACTATCGCAA
1 GACTATCGCAA
105915 TGCGAATATG
Statistics
Matches: 200, Mismatches: 19, Indels: 4
0.90 0.09 0.02
Matches are distributed among these distances:
105 189 0.94
106 1 0.00
107 10 0.05
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (105 bp):
GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAAT
AAATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTC
Found at i:105812 original size:63 final size:63
Alignment explanation
Indices: 105635--105842 Score: 210
Period size: 63 Copynumber: 3.3 Consensus size: 63
105625 AACTTCGACT
* * * * *
105635 ATCGCAACGAACTTGGAATAAATTGCAA--CGAATTTGGAATAAATCGCAACGCGAACTT-CAAC
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACT--ATCGCAA--CGAACTTGGAA-
105697 T--
61 TAA
* * * * * *
105698 ATCGCAATGAACTTGGAATAAATTGCAACGCGAACTTGGACTATCTCAACGAATTTGGTATAA
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
*
105761 ATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
1 ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
105824 ATCGCAACGCGAACTTGGA
1 ATCGCAA--CGAACTTGGA
105843 CTATCGGAAC
Statistics
Matches: 123, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
61 7 0.06
62 1 0.01
63 96 0.78
65 19 0.15
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.23
Consensus pattern (63 bp):
ATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAACTTGGAATAA
Found at i:105891 original size:21 final size:21
Alignment explanation
Indices: 105586--105914 Score: 134
Period size: 21 Copynumber: 15.7 Consensus size: 21
105576 CGTTGCGATT
*
105586 TTGGACTATCGC-A-ACGAAT
1 TTGGACTATCGCAACACGAAC
* *
105605 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACACGAAC
*
105628 TTCGACTATCGC-A-ACGAAC
1 TTGGACTATCGCAACACGAAC
* * *
105647 TTGGAATAAATTGC-A-ACGAAT
1 TTGGACT--ATCGCAACACGAAC
* *
105668 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACACGAAC
** *
105691 TTCAACTATCGC-A-ATGAAC
1 TTGGACTATCGCAACACGAAC
* * *
105710 TTGGAATAAATTGCAACGCGAAC
1 TTGGACT--ATCGCAACACGAAC
* *
105733 TTGGACTATCTC-A-ACGAAT
1 TTGGACTATCGCAACACGAAC
*
105752 TTGGTA-TAAATCGC-A-ACGAAT
1 TTGG-ACT--ATCGCAACACGAAC
* *
105773 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACACGAAC
*
105796 TTCGACTATCGC-A-ACGAAC
1 TTGGACTATCGCAACACGAAC
* *
105815 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAACACGAAC
* *
105838 TTGGACTATCG-GA-ACGAAT
1 TTGGACTATCGCAACACGAAC
*
105857 TTGGAATAAATCGCAACACGAAC
1 TTGGACT--ATCGCAACACGAAC
* *
105880 TTCGACTATCGCAACGCGAAC
1 TTGGACTATCGCAACACGAAC
105901 TTGGACTATCGCAA
1 TTGGACTATCGCAA
105915 TGCGAATATG
Statistics
Matches: 235, Mismatches: 49, Indels: 50
0.70 0.15 0.15
Matches are distributed among these distances:
19 53 0.23
20 7 0.03
21 112 0.48
22 6 0.03
23 57 0.24
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.22
Consensus pattern (21 bp):
TTGGACTATCGCAACACGAAC
Done.