Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold282
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: 1446459
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
File 6 of 10
Found at i:803665 original size:20 final size:20
Alignment explanation
Indices: 803640--803677 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
803630 TACAAGCCAA
803640 TGTATCGATACATTTTATGG
1 TGTATCGATACATTTTATGG
803660 TGTATCGATACATTTTAT
1 TGTATCGATACATTTTAT
803678 CGATACATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.26, C:0.11, G:0.16, T:0.47
Consensus pattern (20 bp):
TGTATCGATACATTTTATGG
Found at i:803700 original size:32 final size:33
Alignment explanation
Indices: 803642--803703 Score: 92
Period size: 32 Copynumber: 1.9 Consensus size: 33
803632 CAAGCCAATG
*
803642 TATCGATACATTTTATGGTGTATCGATACATTT
1 TATCGATACATCTTATGGTGTATCGATACATTT
803675 TATCGATACATACTT-T-GTGTATCGATACA
1 TATCGATACAT-CTTATGGTGTATCGATACA
803704 AGTTTGGCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 13 0.48
33 12 0.44
34 2 0.07
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (33 bp):
TATCGATACATCTTATGGTGTATCGATACATTT
Found at i:803795 original size:33 final size:33
Alignment explanation
Indices: 803758--803823 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
803748 TCTTTTTCAA
803758 GTATCGATACAATGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
***
803791 GTATCGATATTGTGCAACATGTATCGATACAAT
1 GTATCGATACAATGCAACATGTATCGATACAAT
803824 TAAATGTGTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (33 bp):
GTATCGATACAATGCAACATGTATCGATACAAT
Found at i:804925 original size:19 final size:20
Alignment explanation
Indices: 804901--804953 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
804891 TACATTTGTG
*
804901 CATGTATTGATACAATG-AT
1 CATGTATTGATACAAAGCAT
**
804920 CATGTATCAATACAAAGCAT
1 CATGTATTGATACAAAGCAT
*
804940 AATGTATTGATACA
1 CATGTATTGATACA
804954 TTTGGATGTG
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (20 bp):
CATGTATTGATACAAAGCAT
Found at i:812757 original size:13 final size:13
Alignment explanation
Indices: 812739--812763 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
812729 TACAAAGATC
812739 AATGTATCGATAT
1 AATGTATCGATAT
812752 AATGTATCGATA
1 AATGTATCGATA
812764 CATTTGAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (13 bp):
AATGTATCGATAT
Found at i:812842 original size:19 final size:19
Alignment explanation
Indices: 812818--812867 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
812808 AGCGATACAT
812818 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
812837 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
812856 TGTATCGATACA
1 TGTATCGATACA
812868 GTTACTTGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.36, C:0.20, G:0.12, T:0.32
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:813788 original size:49 final size:49
Alignment explanation
Indices: 813657--814289 Score: 476
Period size: 49 Copynumber: 13.2 Consensus size: 49
813647 AGCAACATTA
* ** * * *
813657 GACTTAAAGAAGAA--TGCCAATGTGCTGAGACAAGGCTAGCAACATTG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
* * * * * *
813704 GGCTTAGAA-ATGTTAAAGATGCTAATATGCTGATTCAAGGCCAACAATATTG
1 GACTTA-AAGATG---AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
*
813756 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
* *
813805 GTCTTAAAGATGGTTAAGGTGCCAATGTGTTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGAT-G--AAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
* * * *
813857 GACTTAAAGA-CAAGGTGCCAATATGCTAATTTAAGGCCAGCGATATTG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
* * *
813905 GGC-T-----T--A--TGCTAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
* * * *
813944 GTCTTAGAGA-CAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
* **
813992 GGC-T-----T--A--TGCCAATGTGCTGATTCAAGGCCAGCGACCTTG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
* * * * **
814031 GTCTTAGAGA-CAAGGTGCCAATATGCTGATTC-AGGACCAATGATATTG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGG-CCAGCGATATTG
* *
814079 GACTTAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
** * * *
814128 GTTTTAAAGATGAAAAAGGTGCCAATATG-TCGATTCAGTCAGGACTAGTGATATTG
1 GACTTAAAGATG---AAGGTGCCAATGTGCT-GATTCA---AGG-CCAGCGATATTG
* * *
814184 GACTTAAAGATGAAGATGCCAATGTGCTTATTCAAGGCCAGCGACATTG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
* * * * *
814233 GTCTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATTG
1 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
814282 GACTTAAA
1 GACTTAAA
814290 AGAAGATGCC
Statistics
Matches: 466, Mismatches: 76, Indels: 86
0.74 0.12 0.14
Matches are distributed among these distances:
39 62 0.13
40 2 0.00
41 2 0.00
46 2 0.00
47 12 0.03
48 101 0.22
49 137 0.29
50 9 0.02
51 3 0.01
52 96 0.21
53 17 0.04
54 1 0.00
55 3 0.01
56 19 0.04
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (49 bp):
GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGATATTG
Found at i:813793 original size:101 final size:100
Alignment explanation
Indices: 813657--814289 Score: 316
Period size: 87 Copynumber: 6.6 Consensus size: 100
813647 AGCAACATTA
** * *
813657 GACTTAAAGAAGAA--TGCCAATGTGCTGAGACAAGGCTAGCAACATTGGGCTTAGAA-AT-GTT
1 GACTTAAAG-AGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA-AAGATGGTT
*
813718 AAAGATGCTAATATGCTGATTCAAGGCCAACAATATTG
64 -AAGATGCCAATATGCTGATTCAAGGCCAACAATATTG
*
813756 GACTTAAAGATGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTA
1 GACTTAAAGA-GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGGTTA
* * * * *
813821 AGGTGCCAATGTGTTGATTCAAGGCCAGCGATATTG
65 AGATGCCAATATGCTGATTCAAGGCCAACAATATTG
* * * * * *
813857 GACTTAAAGACAAGGTGCCAATATGCTAATTTAAGGCCAGCGATATTGGGCTT----AT-GCT-A
1 GACTTAAAGAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGGTTAA
* * *
813916 -ATG------TGCTGATTCAAGGCCAGCGACATTG
66 GATGCCAATATGCTGATTCAAGGCCAACAATATTG
* * * * *
813944 GTCTTAGAGACAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGC----------TT--
1 GACTTAAAGAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGGTTAA
* * * **
813997 -ATGCCAATGTGCTGATTCAAGGCCAGCGACCTTG
66 GATGCCAATATGCTGATTCAAGGCCAACAATATTG
* * * * ** * *
814031 GTCTTAGAGACAAGGTGCCAATATGCTGATTC-AGGACCAATGATATTGGACTTAAAGAT-G--A
1 GACTTAAAGAGAAGGTGCCAATGTGCTGATTCAAGG-CCAGCGACATTGGGCTTAAAGATGGTTA
* * * *
814092 AGATGCCAATGTGCTGATTCAAGGCCAGCGACATTG
65 AGATGCCAATATGCTGATTCAAGGCCAACAATATTG
** * * * * *
814128 GTTTTAAAGATGAAAAAGGTGCCAATATG-TCGATTCAGTCAGGACTAGTGATATTGGACTTAAA
1 GACTTAAAGA-G---AAGGTGCCAATGTGCT-GATTCA---AGG-CCAGCGACATTGGGCTTAAA
* * * * *
814192 GAT-G--AAGATGCCAATGTGCTTATTCAAGGCCAGCGACATTG
57 GATGGTTAAGATGCCAATATGCTGATTCAAGGCCAACAATATTG
* * * * * * *
814233 GTCTTAAAGATAAAGGTGCCAATATGCTAATTCAAGGCCAGCAATATTGGACTTAAA
1 GACTTAAAGA-GAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAA
814290 AGAAGATGCC
Statistics
Matches: 457, Mismatches: 43, Indels: 69
0.80 0.08 0.12
Matches are distributed among these distances:
81 3 0.01
82 1 0.00
86 3 0.01
87 138 0.30
93 2 0.00
94 1 0.00
95 2 0.00
96 2 0.00
97 41 0.09
98 18 0.04
99 15 0.03
100 40 0.09
101 96 0.21
102 22 0.05
103 1 0.00
105 72 0.16
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (100 bp):
GACTTAAAGAGAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTAAAGATGGTTAA
GATGCCAATATGCTGATTCAAGGCCAACAATATTG
Found at i:813944 original size:39 final size:39
Alignment explanation
Indices: 813872--814036 Score: 159
Period size: 39 Copynumber: 4.0 Consensus size: 39
813862 AAAGACAAGG
* * * *
813872 TGCCAATATGCTAATTTAAGGCCAGCGATATTGGGCTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
* *
813911 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTT-------A
* *
813957 GGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGGCTTA
1 --TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
* *
813998 TGCCAATGTGCTGATTCAAGGCCAGCGACCTTGGTCTTA
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
814037 GAGACAAGGT
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
39 67 0.65
41 1 0.01
46 1 0.01
48 34 0.33
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (39 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGGCTTA
Found at i:813980 original size:87 final size:87
Alignment explanation
Indices: 813824--814287 Score: 446
Period size: 87 Copynumber: 5.0 Consensus size: 87
813814 ATGGTTAAGG
* * * * * *
813824 TGCCAATGTGTTGATTCAAGGCCAGCGATATTGGACTTAAAGACAAGGTGCCAATATGCTAATTT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
*
813889 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGACTTA
*
813911 TGCTAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
*
813976 AAGGCCAGCGATATTGGGCTTA
66 AAGGCCAGCGATATTGGACTTA
*
813998 TGCCAATGTGCTGATTCAAGGCCAGCGACCTTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
**
814063 -AGGACCAATGATATTGGACTTAAAGATGAAGA
66 AAGG-CCAGCGATATTGGAC-T-----T----A
* *
814095 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAAAAAGGTGCCAATATG-TC
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTT--AGA-G-ACAAGGTGCCAATATGCT-
* *
814159 GATTCAGTCAGGACTAGTGATATTGGACTTAAAGATGAAGA
61 GATTCA---AGG-CCAGCGATATTGGAC-T-----T----A
* * * *
814200 TGCCAATGTGCTTATTCAAGGCCAGCGACATTGGTCTTAAAGATAAAGGTGCCAATATGCTAATT
1 TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGA-CAAGGTGCCAATATGCTGATT
*
814265 CAAGGCCAGCAATATTGGACTTA
65 CAAGGCCAGCGATATTGGACTTA
814288 AAAGAAGATG
Statistics
Matches: 331, Mismatches: 24, Indels: 43
0.83 0.06 0.11
Matches are distributed among these distances:
86 3 0.01
87 155 0.47
88 2 0.01
92 1 0.00
93 1 0.00
97 38 0.11
98 12 0.04
99 6 0.02
100 2 0.01
101 21 0.06
102 21 0.06
103 3 0.01
105 66 0.20
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.27
Consensus pattern (87 bp):
TGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAGAGACAAGGTGCCAATATGCTGATTC
AAGGCCAGCGATATTGGACTTA
Found at i:814243 original size:105 final size:100
Alignment explanation
Indices: 813997--814300 Score: 392
Period size: 105 Copynumber: 3.1 Consensus size: 100
813987 TATTGGGCTT
* *
813997 ATGCCAATGTGCTGATTCAAGGCCAGCGACCTTGGTCTT--AGA-GACAAGGTGCCAATATGCTG
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAAAGGTGCCAATATGCTG
814059 ATTCAGGACCAATGATATTGGACTTAAAGATGAAG
66 ATTCAGGACCAATGATATTGGACTTAAAGATGAAG
*
814094 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTTTTAAAGATGAAAAAGGTGCCAATATG-T
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATG-AAAAGGTGCCAATATGCT
* *
814158 CGATTCAGTCAGGACTAGTGATATTGGACTTAAAGATGAAG
65 -GA-T---TCAGGACCAATGATATTGGACTTAAAGATGAAG
* *
814199 ATGCCAATGTGCTTATTCAAGGCCAGCGACATTGGTCTTAAAGAT--AAAGGTGCCAATATGCTA
1 ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAAAGGTGCCAATATGCTG
***
814262 ATTCAAGG-CCAGCAATATTGGACTTAAA-A-GAAG
66 ATTC-AGGACCAATGATATTGGACTTAAAGATGAAG
814295 ATGCCA
1 ATGCCA
814301 CCAACTTGTG
Statistics
Matches: 185, Mismatches: 11, Indels: 23
0.84 0.05 0.11
Matches are distributed among these distances:
96 10 0.05
97 38 0.21
98 19 0.10
99 6 0.03
100 2 0.01
101 18 0.10
102 17 0.09
103 1 0.01
105 74 0.40
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.25
Consensus pattern (100 bp):
ATGCCAATGTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGAAAAGGTGCCAATATGCTG
ATTCAGGACCAATGATATTGGACTTAAAGATGAAG
Found at i:814335 original size:28 final size:28
Alignment explanation
Indices: 814296--814369 Score: 71
Period size: 30 Copynumber: 2.6 Consensus size: 28
814286 TAAAAGAAGA
*
814296 TGCCACCA-ACTTGTGTGCTTTTG-AAGGT
1 TGCCA-CAGACTTGTG-GCTTTTGAAAGGG
*
814324 TGCCACAGACTTATGGACTTTTGAAAAGGG
1 TGCCACAGACTTGTGG-CTTTTG-AAAGGG
*
814354 TGCCACTGACTTGTGG
1 TGCCACAGACTTGTGG
814370 GCTTAAAAGG
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
27 3 0.08
28 17 0.45
30 18 0.47
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (28 bp):
TGCCACAGACTTGTGGCTTTTGAAAGGG
Found at i:814430 original size:35 final size:35
Alignment explanation
Indices: 814346--814490 Score: 168
Period size: 35 Copynumber: 4.2 Consensus size: 35
814336 ATGGACTTTT
* * * *
814346 GAAAAGG-GTGCCACTGACTTGTGGGCTT-AAAAG
1 GAAAAGGAGTGCCACGGAGTTGTGGACTTAAAAAA
** * * * *
814379 GAAAAAAAGTGTCACGGAGTTATGGGCTTACAAAA
1 GAAAAGGAGTGCCACGGAGTTGTGGACTTAAAAAA
*
814414 GAAAAGGAGTGCCACGGAGTTGTGAACTTAAAAAA
1 GAAAAGGAGTGCCACGGAGTTGTGGACTTAAAAAA
*
814449 GAAAAGGAGTGCCATGGAGTTGTGGACTTAAAAAA
1 GAAAAGGAGTGCCACGGAGTTGTGGACTTAAAAAA
814484 GAAAAGG
1 GAAAAGG
814491 TGCTAATATG
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
33 5 0.05
34 17 0.18
35 71 0.76
ACGTcount: A:0.40, C:0.11, G:0.30, T:0.19
Consensus pattern (35 bp):
GAAAAGGAGTGCCACGGAGTTGTGGACTTAAAAAA
Found at i:814605 original size:33 final size:32
Alignment explanation
Indices: 814529--814618 Score: 117
Period size: 32 Copynumber: 2.8 Consensus size: 32
814519 TATTGGGCTT
* *
814529 AAAGGTGCCACGGAGTTGTGGACTTAAAAAGA
1 AAAGGTGCCACGGAGTTATGGGCTTAAAAAGA
* *
814561 AAAGGTACCACGGAGTTATGGGCTTAAAAGGAA
1 AAAGGTGCCACGGAGTTATGGGCTTAAAAAG-A
* *
814594 AAAGATGCCACGGACTTATGGGCTT
1 AAAGGTGCCACGGAGTTATGGGCTT
814619 TTGAAGGTTG
Statistics
Matches: 50, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
32 27 0.54
33 23 0.46
ACGTcount: A:0.36, C:0.14, G:0.30, T:0.20
Consensus pattern (32 bp):
AAAGGTGCCACGGAGTTATGGGCTTAAAAAGA
Found at i:814672 original size:29 final size:29
Alignment explanation
Indices: 814593--814690 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
814583 CTTAAAAGGA
* *
814593 AAAAGATGCCACGGACTTATGGGCTTTTG
1 AAAAGATGCCACTGACTTATGGGCTTTGG
* * *
814622 -AAGGTTGCCGCTGACTTATGGGCTTTGG
1 AAAAGATGCCACTGACTTATGGGCTTTGG
* *
814650 AAAAGATGCCACTAACTTGTGGGCTTTGG
1 AAAAGATGCCACTGACTTATGGGCTTTGG
*
814679 AAATGATGCCAC
1 AAAAGATGCCAC
814691 AACCAACGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 23 0.40
29 34 0.60
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (29 bp):
AAAAGATGCCACTGACTTATGGGCTTTGG
Found at i:816070 original size:18 final size:18
Alignment explanation
Indices: 816047--816110 Score: 96
Period size: 18 Copynumber: 3.6 Consensus size: 18
816037 CTTTTTGTTG
816047 TTTTTTTTGTTTGTTTGT
1 TTTTTTTTGTTTGTTTGT
816065 TTTTTTTT-TCTTGTTT-T
1 TTTTTTTTGT-TTGTTTGT
816082 TTTTGTTTTGTTTGTTTGT
1 TTTT-TTTTGTTTGTTTGT
816101 TTTTTTTTGT
1 TTTTTTTTGT
816111 GGAGGACGCC
Statistics
Matches: 42, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.14
18 30 0.71
19 6 0.14
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (18 bp):
TTTTTTTTGTTTGTTTGT
Found at i:816092 original size:32 final size:31
Alignment explanation
Indices: 816038--816110 Score: 112
Period size: 32 Copynumber: 2.3 Consensus size: 31
816028 ATCTGGACCC
*
816038 TTTTTGTTGTTTTTTTTGTTTGTTTGTTT-T
1 TTTTTTTTGTTTTTTTTGTTTGTTTGTTTGT
816068 TTTTTTCTTGTTTTTTTTGTTTTGTTTGTTTGT
1 TTTTTT-TTGTTTTTTTTG-TTTGTTTGTTTGT
816101 TTTTTTTTGT
1 TTTTTTTTGT
816111 GGAGGACGCC
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
30 5 0.13
31 12 0.31
32 15 0.38
33 7 0.18
ACGTcount: A:0.00, C:0.01, G:0.15, T:0.84
Consensus pattern (31 bp):
TTTTTTTTGTTTTTTTTGTTTGTTTGTTTGT
Found at i:820165 original size:34 final size:35
Alignment explanation
Indices: 820127--820193 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
820117 CCTTACAACA
820127 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
820161 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
820194 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:820690 original size:13 final size:13
Alignment explanation
Indices: 820672--820697 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
820662 CTATTTATGA
820672 TGTATCGATACAC
1 TGTATCGATACAC
820685 TGTATCGATACAC
1 TGTATCGATACAC
820698 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:820841 original size:22 final size:21
Alignment explanation
Indices: 820787--820841 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
820777 ACAGTGACCT
820787 ATGAAAGTGATGTATCGATAC
1 ATGAAAGTGATGTATCGATAC
820808 ATGAAAGTGATGTATCGATAC
1 ATGAAAGTGATGTATCGATAC
820829 ATGAACAGTGATG
1 ATGAA-AGTGATG
820842 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 26 0.79
22 7 0.21
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.27
Consensus pattern (21 bp):
ATGAAAGTGATGTATCGATAC
Found at i:820848 original size:10 final size:10
Alignment explanation
Indices: 820829--820859 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
820819 GTATCGATAC
*
820829 ATGAACAGTG
1 ATGAATAGTG
820839 ATGAATAGTG
1 ATGAATAGTG
820849 ATGAATAGTG
1 ATGAATAGTG
820859 A
1 A
820860 AAATGAGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.42, C:0.03, G:0.29, T:0.26
Consensus pattern (10 bp):
ATGAATAGTG
Found at i:822667 original size:13 final size:13
Alignment explanation
Indices: 822649--822673 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
822639 ACTGAAGTAA
822649 TGTATCGATACAT
1 TGTATCGATACAT
822662 TGTATCGATACA
1 TGTATCGATACA
822674 ATCTGGAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:824304 original size:84 final size:84
Alignment explanation
Indices: 824152--824313 Score: 193
Period size: 84 Copynumber: 1.9 Consensus size: 84
824142 TTTCCACTTG
* * * * *
824152 CAACTCATTTCTTTTCTCCTCTAATTCATTTATTTTCTTTTTAAAAGAACTATTTTCTAAACTCA
1 CAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAGAACTATTCTCTAAACTCA
824217 TTGATTTACTTTCATTTTC
66 TTGATTTACTTTCATTTTC
* * * *
824236 CAACTC-TTTCATATTCTTCTCTAATTCACTTAATTTCTTTTCAAGAATATC-ATTCTCTACACT
1 CAACTCATTTC-TATTCTCCTCTAATTCACTTAATTTCTTTTCAA-AAGAACTATTCTCTAAACT
* *
824299 TATTGATTTATTTTC
64 CATTGATTTACTTTC
824314 TTCTTTGAGT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
83 4 0.06
84 57 0.88
85 4 0.06
ACGTcount: A:0.25, C:0.21, G:0.02, T:0.51
Consensus pattern (84 bp):
CAACTCATTTCTATTCTCCTCTAATTCACTTAATTTCTTTTCAAAAGAACTATTCTCTAAACTCA
TTGATTTACTTTCATTTTC
Found at i:825875 original size:34 final size:35
Alignment explanation
Indices: 825837--825903 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
825827 CCTTACAACA
825837 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
825871 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
825904 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:826400 original size:13 final size:13
Alignment explanation
Indices: 826382--826407 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
826372 CTATTTATGA
826382 TGTATCGATACAC
1 TGTATCGATACAC
826395 TGTATCGATACAC
1 TGTATCGATACAC
826408 ACAAATATGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:826551 original size:22 final size:21
Alignment explanation
Indices: 826497--826551 Score: 101
Period size: 21 Copynumber: 2.6 Consensus size: 21
826487 ACAGTGACCT
826497 ATGAAAGTGATGTATCGATAC
1 ATGAAAGTGATGTATCGATAC
826518 ATGAAAGTGATGTATCGATAC
1 ATGAAAGTGATGTATCGATAC
826539 ATGAACAGTGATG
1 ATGAA-AGTGATG
826552 AATAGTGATG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 26 0.79
22 7 0.21
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.27
Consensus pattern (21 bp):
ATGAAAGTGATGTATCGATAC
Found at i:826558 original size:10 final size:10
Alignment explanation
Indices: 826539--826569 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
826529 GTATCGATAC
826539 ATGAACAGTG
1 ATGAACAGTG
*
826549 ATGAATAGTG
1 ATGAACAGTG
826559 ATGAACAGTG
1 ATGAACAGTG
826569 A
1 A
826570 AAATGAGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.29, T:0.23
Consensus pattern (10 bp):
ATGAACAGTG
Found at i:838181 original size:13 final size:13
Alignment explanation
Indices: 838163--838190 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
838153 ATATAAAGAT
838163 CAATGTATCGATA
1 CAATGTATCGATA
838176 CAATGTATCGATA
1 CAATGTATCGATA
838189 CA
1 CA
838191 TTTGAGTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.18, G:0.14, T:0.29
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:838253 original size:13 final size:13
Alignment explanation
Indices: 838235--838318 Score: 60
Period size: 13 Copynumber: 5.5 Consensus size: 13
838225 AGCTTCATAG
838235 CGATACATTGTAT
1 CGATACATTGTAT
838248 CGATACAACACTTATGTAT
1 CGAT---ACA-TT--GTAT
838267 CGATACATTGTAT
1 CGATACATTGTAT
838280 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
838299 CGATACATTGTAT
1 CGATACATTGTAT
838312 CGATACA
1 CGATACA
838319 ACACTTATGT
Statistics
Matches: 59, Mismatches: 0, Indels: 24
0.71 0.00 0.29
Matches are distributed among these distances:
13 24 0.41
14 1 0.02
15 2 0.03
16 12 0.20
17 2 0.03
18 1 0.02
19 17 0.29
ACGTcount: A:0.35, C:0.19, G:0.13, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:838267 original size:19 final size:19
Alignment explanation
Indices: 838243--838337 Score: 97
Period size: 19 Copynumber: 5.6 Consensus size: 19
838233 AGCGATACAT
838243 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
838262 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
838275 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
838294 TGTATCGAT---ACA--T-
1 TGTATCGATACAACACTTA
838307 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
838326 TGTATTGATACA
1 TGTATCGATACA
838338 GTTACTTGTT
Statistics
Matches: 63, Mismatches: 1, Indels: 24
0.72 0.01 0.27
Matches are distributed among these distances:
13 18 0.29
14 2 0.03
16 12 0.19
18 2 0.03
19 29 0.46
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.35
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:838276 original size:32 final size:32
Alignment explanation
Indices: 838235--838337 Score: 197
Period size: 32 Copynumber: 3.2 Consensus size: 32
838225 AGCTTCATAG
838235 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
838267 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
838299 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
838331 TGATACA
1 CGATACA
838338 GTTACTTGTT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
32 70 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:839207 original size:49 final size:49
Alignment explanation
Indices: 839050--839333 Score: 236
Period size: 52 Copynumber: 5.7 Consensus size: 49
839040 CGAAGAATGA
* * * * * *
839050 CAATGTGCTGATTCATGACCAGCGACATTAGACTTAAAGAAGAA--TGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *** * * * * *
839097 CAATGTGCTGGGACAAGGCTAGCAACATTGGGCTTAGAA-ATGTTAAAGATGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTA-AAGATG---AAGGTGC
* *
839149 CAATATGCTGATTCAAGGCCAACAATATTGGACTTAAAGATGAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* * *
839198 CAATTTGCTGATTCAAGGCCAGCGACATTGGTCTTAAAGATGGTTAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGAT-G--AAGGTGC
* * *
839250 CAATGTGTTGATTCAAGGCCAGCGATATTGGACTTAAAGA-CAAGGTGC
1 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
* *
839298 CAATATGCTAATGT-AAGGCCAGCGATATTGGGCTTA
1 CAATATGCTGAT-TCAAGGCCAGCGATATTGGACTTA
839334 TGCCAATGTG
Statistics
Matches: 193, Mismatches: 33, Indels: 21
0.78 0.13 0.09
Matches are distributed among these distances:
47 29 0.15
48 39 0.20
49 43 0.22
50 3 0.02
51 2 0.01
52 77 0.40
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.25
Consensus pattern (49 bp):
CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAAAGATGAAGGTGC
Found at i:839251 original size:101 final size:100
Alignment explanation
Indices: 839080--839333 Score: 284
Period size: 101 Copynumber: 2.5 Consensus size: 100
839070 AGCGACATTA
* *** * *
839080 GACTTAAAGAAGAA--TGCCAATGTGCTGGGACAAGGCTAGCAACATTGGGCTTAGAAATGTTAA
1 GACTTAAAG-AGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAGAAATGTTAA
839143 AGATGCCAATATGCTGATTCAAGGCCAACAATATTG
65 AGATGCCAATATGCTGATTCAAGGCCAACAATATTG
* *
839179 GACTTAAAGATGAAGGTGCCAATTTGCTGATTCAAGGCCAGCGACATTGGTCTTA-AAGATGGTT
1 GACTTAAAGA-GAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAGAA-AT-GTT
* * * * *
839243 -AAGGTGCCAATGTGTTGATTCAAGGCCAGCGATATTG
63 AAAGATGCCAATATGCTGATTCAAGGCCAACAATATTG
* * *
839280 GACTTAAAGACAAGGTGCCAATATGCTAATGT-AAGGCCAGCGATATTGGGCTTA
1 GACTTAAAGAGAAGGTGCCAATATGCTGAT-TCAAGGCCAGCGACATTGGGCTTA
839334 TGCCAATGTG
Statistics
Matches: 132, Mismatches: 17, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
98 1 0.01
99 12 0.09
100 39 0.30
101 77 0.58
102 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (100 bp):
GACTTAAAGAGAAGGTGCCAATATGCTGATTCAAGGCCAGCGACATTGGGCTTAGAAATGTTAAA
GATGCCAATATGCTGATTCAAGGCCAACAATATTG
Found at i:839355 original size:39 final size:39
Alignment explanation
Indices: 839295--839372 Score: 104
Period size: 39 Copynumber: 2.0 Consensus size: 39
839285 AAAGACAAGG
*
839295 TGCCAATATGCTAATGTAAGGCCAGCGATATTGGGCTTA
1 TGCCAATATGCTAATGTAAGGCCAGCGACATTGGGCTTA
* * *
839334 TGCCAATGTGCTGAT-TCAAGGCCAGCGACATTGGTCTTA
1 TGCCAATATGCTAATGT-AAGGCCAGCGACATTGGGCTTA
839373 GAGACAAGGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 33 0.97
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.28
Consensus pattern (39 bp):
TGCCAATATGCTAATGTAAGGCCAGCGACATTGGGCTTA
Found at i:844661 original size:19 final size:20
Alignment explanation
Indices: 844622--844670 Score: 82
Period size: 19 Copynumber: 2.5 Consensus size: 20
844612 TAGTTTTATA
*
844622 TATCGATACAATTGAGTATG
1 TATCGATACAATTGAGCATG
844642 TATCGATACAA-TGAGCATG
1 TATCGATACAATTGAGCATG
844661 TATCGATACA
1 TATCGATACA
844671 TTGCATCGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 17 0.61
20 11 0.39
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (20 bp):
TATCGATACAATTGAGCATG
Found at i:845581 original size:164 final size:164
Alignment explanation
Indices: 845214--845696 Score: 528
Period size: 164 Copynumber: 2.9 Consensus size: 164
845204 TTCAAACATC
* * ** *
845214 AAAATTCTTCAAATATTATCATTTAGTTCGCATCGAA-TCAATTTTT-AAAAATTAATTCATTTT
1 AAAATTCATCAAATATTATCATTTATTTCATAT-TAATTC-ATTTTTCAAAAATTAATTCATTTT
* * *
845277 CATGAGTTTTTGAGTTTTTCCTTGAAACTCTTTTTTTTTTTTGAAATACGATATTTTCTAC-TCA
64 CATGAGTTTTTGATTTTTTTCTTGAAACTC----TTTTTTTTGAAATACGGTATTTTCTACTTC-
* * *
845341 GTAAATTTTTTTCGAGG-GGTTTTTTCTTGGTTTTCAATTTTT
124 GTAAA-TTTTTTCGAGGAGATTTTTT-TCGATTTTCAATTTTT
* * * * * * *
845383 AAATTTTATAAAATATTATTATTTATTTCATATTAATTCCTTTTTCAAAAATTCATTCATTTTTA
1 AAAATTCATCAAATATTATCATTTATTTCATATTAATTCATTTTTCAAAAATTAATTCATTTTCA
* *
845448 TGAGTTTTTGATTTTTTTCTTGAAACTCCTTTTTTTGAAATACGGTTTTTTCTACTTCGTAAATT
66 TGAGTTTTTGATTTTTTTCTTGAAACTCTTTTTTTTGAAATACGGTATTTTCTACTTCGTAAATT
*
845513 TTTTCGAGGAGATTTTTTTCGATTTTTAATTTTT
131 TTTTCGAGGAGATTTTTTTCGATTTTCAATTTTT
* * *
845547 AAAATTCATCAAATATTATCATTTATTTCATATTAATTTAGTTTTCAAAAATTTATTCATTTTCA
1 AAAATTCATCAAATATTATCATTTATTTCATATTAATTCATTTTTCAAAAATTAATTCATTTTCA
* * * * * * *
845612 TGAGTTTTGGATTTTTTTGTT-AAAATTTTATTTTTTCGAAAAATC-GAATTTTCTTCTTCGTAA
66 TGAGTTTTTGATTTTTTTCTTGAAACTCTT-TTTTTT-GAAATA-CGGTATTTTCTACTTCGTAA
*
845675 ATTTTTTTGAGGAGATTTTTTT
128 ATTTTTTCGAGGAGATTTTTTT
845697 TAGTTTAGAA
Statistics
Matches: 267, Mismatches: 40, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
163 5 0.02
164 105 0.39
165 77 0.29
166 3 0.01
168 7 0.03
169 70 0.26
ACGTcount: A:0.27, C:0.10, G:0.09, T:0.54
Consensus pattern (164 bp):
AAAATTCATCAAATATTATCATTTATTTCATATTAATTCATTTTTCAAAAATTAATTCATTTTCA
TGAGTTTTTGATTTTTTTCTTGAAACTCTTTTTTTTGAAATACGGTATTTTCTACTTCGTAAATT
TTTTCGAGGAGATTTTTTTCGATTTTCAATTTTT
Found at i:846042 original size:16 final size:16
Alignment explanation
Indices: 846018--846081 Score: 60
Period size: 16 Copynumber: 3.9 Consensus size: 16
846008 GTACCCATAA
*
846018 TATAATATAAAATATT
1 TATATTATAAAATATT
846034 TATATTATAAAAAATTATT
1 TATATTAT--AAAA-TATT
*
846053 TAT-TTATAAAATTTT
1 TATATTATAAAATATT
846068 ATATATTA-AAAATA
1 -TATATTATAAAATA
846082 AAATTACATG
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
15 3 0.08
16 19 0.47
17 3 0.08
18 8 0.20
19 7 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
TATATTATAAAATATT
Found at i:846074 original size:18 final size:18
Alignment explanation
Indices: 846023--846074 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
846013 CATAATATAA
846023 TATAAAATATT-TATA-T
1 TATAAAATATTATATATT
* *
846039 TATAAAAAATTATTTATT
1 TATAAAATATTATATATT
*
846057 TATAAAATTTTATATATT
1 TATAAAATATTATATATT
846075 AAAAATAAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 10 0.34
17 3 0.10
18 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TATAAAATATTATATATT
Found at i:850088 original size:2 final size:2
Alignment explanation
Indices: 850083--850135 Score: 81
Period size: 2 Copynumber: 27.0 Consensus size: 2
850073 AAAAAATTAA
* *
850083 AT AT AT TT AT AT -T TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
850124 AT AT AT AT AT AT
1 AT AT AT AT AT AT
850136 CCAACACCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
AT
Found at i:851607 original size:22 final size:21
Alignment explanation
Indices: 851574--851616 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
851564 ATGGATTACT
851574 TCCTCTGCTTCTTTCCCATTGC
1 TCCTCTGCTTC-TTCCCATTGC
*
851596 TCCT-TGCTTTCTTCCCTTTGC
1 TCCTCTGC-TTCTTCCCATTGC
851617 CAAATCTCTG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.02, C:0.40, G:0.09, T:0.49
Consensus pattern (21 bp):
TCCTCTGCTTCTTCCCATTGC
Found at i:855079 original size:20 final size:21
Alignment explanation
Indices: 855037--855089 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 21
855027 CTCAATAATT
*
855037 TGTATCGATACACTAAGGCAA
1 TGTATCGATACACTAAGGAAA
* *
855058 TGTATCGATGCA-TAAGTAAA
1 TGTATCGATACACTAAGGAAA
*
855078 TGGATCGATACA
1 TGTATCGATACA
855090 TGCCTAAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 16 0.59
21 11 0.41
ACGTcount: A:0.38, C:0.15, G:0.21, T:0.26
Consensus pattern (21 bp):
TGTATCGATACACTAAGGAAA
Found at i:855181 original size:20 final size:20
Alignment explanation
Indices: 855131--855182 Score: 81
Period size: 18 Copynumber: 2.7 Consensus size: 20
855121 GCATTCTGGA
855131 AAGAAATTGTATCGATACAT
1 AAGAAATTGTATCGATACAT
*
855151 -TGAAA-TGTATCGATACAT
1 AAGAAATTGTATCGATACAT
855169 AAGAAATTGTATCG
1 AAGAAATTGTATCG
855183 TTATATTCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 13 0.46
19 8 0.29
20 7 0.25
ACGTcount: A:0.42, C:0.10, G:0.17, T:0.31
Consensus pattern (20 bp):
AAGAAATTGTATCGATACAT
Found at i:857860 original size:20 final size:19
Alignment explanation
Indices: 857835--857886 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
857825 CAGTTTCATA
**
857835 TATCGATACAATTGAGTATG
1 TATCGATACAA-TGAACATG
*
857855 TATCGATGCAATGAACATG
1 TATCGATACAATGAACATG
*
857874 TATCGATATAATG
1 TATCGATACAATG
857887 TATCGATACA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (19 bp):
TATCGATACAATGAACATG
Found at i:858578 original size:32 final size:32
Alignment explanation
Indices: 858542--858605 Score: 101
Period size: 32 Copynumber: 2.0 Consensus size: 32
858532 ATAAAATAAT
* * *
858542 TAAAGCTCTCTTTTTAAAATGATTTTCTCCCC
1 TAAAGCTCTATTTTAAAAACGATTTTCTCCCC
858574 TAAAGCTCTATTTTAAAAACGATTTTCTCCCC
1 TAAAGCTCTATTTTAAAAACGATTTTCTCCCC
858606 CTTTTTGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.28, C:0.25, G:0.06, T:0.41
Consensus pattern (32 bp):
TAAAGCTCTATTTTAAAAACGATTTTCTCCCC
Found at i:860525 original size:13 final size:13
Alignment explanation
Indices: 860507--860552 Score: 50
Period size: 13 Copynumber: 4.0 Consensus size: 13
860497 ATAGTAACCC
860507 TGTATCGATACAT
1 TGTATCGATACAT
860520 TGTATCGATAC--
1 TGTATCGATACAT
860531 T-TA--GA-ACAT
1 TGTATCGATACAT
860540 TGTATCGATACAT
1 TGTATCGATACAT
860553 CTGGGTTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 12
0.69 0.00 0.31
Matches are distributed among these distances:
7 2 0.07
8 2 0.07
9 1 0.04
10 4 0.15
11 1 0.04
12 2 0.07
13 15 0.56
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:866941 original size:51 final size:52
Alignment explanation
Indices: 866857--866971 Score: 196
Period size: 51 Copynumber: 2.2 Consensus size: 52
866847 ATATGAAAAG
* *
866857 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
866909 TTGCCT-CATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
866960 TTGCCTGCATGT
1 TTGCCTGCATGT
866972 TCGTCCCCAC
Statistics
Matches: 59, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
51 49 0.83
52 10 0.17
ACGTcount: A:0.27, C:0.17, G:0.18, T:0.37
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:869956 original size:13 final size:13
Alignment explanation
Indices: 869938--869967 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
869928 ACTTCTTACC
*
869938 ATGTATTGATACA
1 ATGTATCGATACA
869951 ATGTATCGATACA
1 ATGTATCGATACA
869964 ATGT
1 ATGT
869968 CTCATGTATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.10, G:0.17, T:0.37
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:870057 original size:19 final size:20
Alignment explanation
Indices: 870012--870064 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
870002 CTGCCAGTTT
* *
870012 CATGTATCAATACAATTGAG
1 CATGTATCGATACAATTGAA
*
870032 TATGTATCGATACAA-TGAA
1 CATGTATCGATACAATTGAA
870051 CATGTATCGATACA
1 CATGTATCGATACA
870065 TTGTATCGAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 16 0.55
20 13 0.45
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACAATTGAA
Found at i:870071 original size:13 final size:13
Alignment explanation
Indices: 870053--870077 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
870043 ACAATGAACA
870053 TGTATCGATACAT
1 TGTATCGATACAT
870066 TGTATCGATACA
1 TGTATCGATACA
870078 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:870094 original size:33 final size:32
Alignment explanation
Indices: 870034--870098 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 32
870024 CAATTGAGTA
*
870034 TGTATCGATACAATGAACATGTATCGATACAT
1 TGTATCGATACAAAGAACATGTATCGATACAT
870066 TGTATCGATACAAAGCATA-ATGTATCGATACAT
1 TGTATCGATACAAAG-A-ACATGTATCGATACAT
870099 CTGGATTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 14 0.47
33 15 0.50
34 1 0.03
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (32 bp):
TGTATCGATACAAAGAACATGTATCGATACAT
Found at i:871193 original size:100 final size:95
Alignment explanation
Indices: 870947--871235 Score: 256
Period size: 100 Copynumber: 2.9 Consensus size: 95
870937 TTATTTACCA
* * * * *
870947 GGGATACTTTAGCCCTATTCTTCTGAGGGGATACTCCAACCTTGTTTTTTCAATTTGTCAATATT
1 GGGATACTCTAACCC-ATTCTTCTGAGGGGATACTCCAACCTCGTTTTTTAAAATTGTCAATATT
*
871012 TAAATCTCATTTTTACTTAAATAATCACCGTCG
65 TAAATCT--TTTTTACTTAAATAATCACCATCG
* * * ** ** * *
871045 AGGATACTCCAACCCCATTCTTCCGAGGGGATACTATAATTTCATTTTTTTAAGAAATTGTTAAT
1 GGGATACTCTAA-CCCATTCTTCTGAGGGGATACTCCAACCTC-GTTTTTT-A-AAATTGTCAAT
* * * *
871110 ATTTAAATCTTGTTTTGCTTAATTTATCATTCATCG
62 ATTTAAATCTT-TTTTACTTAAATAATCA-CCATCG
* *
871146 GGGATACTCTAACCCATTCTTTTGAGGGGATACTCCAACCCCG-TTTTTAAAATTGTCAATATTT
1 GGGATACTCTAACCCATTCTTCTGAGGGGATACTCCAACCTCGTTTTTTAAAATTGTCAATATTT
* * *
871210 AAACCTTATTTTTGCTCAAATAATCA
66 AAATC-T-TTTTTACTTAAATAATCA
871236 TGATCAGATA
Statistics
Matches: 149, Mismatches: 34, Indels: 17
0.75 0.17 0.09
Matches are distributed among these distances:
96 18 0.12
97 16 0.11
98 35 0.23
99 10 0.07
100 37 0.25
101 33 0.22
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.40
Consensus pattern (95 bp):
GGGATACTCTAACCCATTCTTCTGAGGGGATACTCCAACCTCGTTTTTTAAAATTGTCAATATTT
AAATCTTTTTTACTTAAATAATCACCATCG
Found at i:873689 original size:164 final size:165
Alignment explanation
Indices: 873509--873857 Score: 373
Period size: 164 Copynumber: 2.1 Consensus size: 165
873499 GTTTCAAATA
* * * * * *
873509 TCAAAATT-ATTCAAATATTATCAATTAATCCCCATCAAATGAGTTTTTAAAATTTTTTTATTTT
1 TCAAAATTCA-TCAAATATTATCAATTAATCCACATAAAATCAGTTTTCAAAAATATTTTATTTT
** * * * *
873573 CATGAATTTT-TTA-TTTTTTCCTTGAAGCTCT-TTTTTTTCAAAGTATAGAGTTTTCTCCTCCG
65 CATGAATTTTGGAATTTTTTTCCTTAAAACTCTATTTTTTTCAAA-TACAGAGTTTTCTACTCCG
**
873635 CAAATTTTTTTAGAGGGATTTTTCTTAGTTTTTAATTT
129 CAAATTTTTCGA-AGGGATTTTTCTTAGTTTTTAATTT
* * * *
873673 TCAAAATTCATCAAATACTATTATTTAATTCACATAAAATCAGTTTTCAAAAATATTTTATTTTC
1 TCAAAATTCATCAAATATTATCAATTAATCCACATAAAATCAGTTTTCAAAAATATTTTATTTTC
* * * * * * *
873738 ATTAGTTTTGGAATTTTTTTCCTTAAAATTTTAATTTTTTTGAAATACGGAGTTTTCTACTCCGT
66 ATGAATTTTGGAATTTTTTTCCTTAAAACTCT-ATTTTTTTCAAATACAGAGTTTTCTACTCCGC
* *
873803 GAATTTTTCGAAGGGATTTTTCTTGGTTTTTAATTT
130 AAATTTTTCGAAGGGATTTTTCTTAGTTTTTAATTT
* *
873839 TTAAAATTCATCAACTATT
1 TCAAAATTCATCAAATATT
873858 TTTATTTATT
Statistics
Matches: 150, Mismatches: 30, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
164 60 0.40
165 2 0.01
166 54 0.36
167 24 0.16
168 10 0.07
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.50
Consensus pattern (165 bp):
TCAAAATTCATCAAATATTATCAATTAATCCACATAAAATCAGTTTTCAAAAATATTTTATTTTC
ATGAATTTTGGAATTTTTTTCCTTAAAACTCTATTTTTTTCAAATACAGAGTTTTCTACTCCGCA
AATTTTTCGAAGGGATTTTTCTTAGTTTTTAATTT
Found at i:873834 original size:166 final size:164
Alignment explanation
Indices: 873619--874090 Score: 481
Period size: 166 Copynumber: 2.8 Consensus size: 164
873609 TTCAAAGTAT
* ** * * *
873619 AGAGTTTTCTCCTCCGCAAATTTTTTTAGAGGGATTTTTCTTAGTTTTTAATTTTCAAAATTCAT
1 AGAGTTTTCTACTCCGTGAA-TTTTTCAGAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCAT
* * * *
873684 CAAATACTATTATTTAATTCA-CATAAAATCAGTTTTCAAAAA-TATTTTATTTTCATTAGTTTT
65 CAAATATTATTATTTAATTCATCAT-AAATCAGTTTTCAAAAATTA-TTCATTTCCATGAGTTTT
*
873747 GGAATTTTTTTCCTTAAAATTTTAATTTTT-TTGAAATAC
128 GG-A-TTTTTTCCCTAAAATTTT-ATTTTTCTTGAAATAC
*
873786 GGAGTTTTCTACTCCGTGAATTTTTC-GAAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCAT
1 AGAGTTTTCTACTCCGTGAATTTTTCAG-AGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCAT
* * * * ** * *
873850 CAACTATTTTTATTTATTTCATCCTATTTCATTTTTCAAAAATTCATTCATTTCCATGAGTTTTT
65 CAAATATTATTATTTAATTCATCATAAATCAGTTTTCAAAAATT-ATTCATTTCCATGAGTTTTG
*
873915 GATTTTTTCCCTAAAATTTTCTTTTTCTTGAAATAC
129 GATTTTTTCCCTAAAATTTTATTTTTCTTGAAATAC
** * * *
873951 AGAGTTTTCTACTGTGTGAAGTTTTTCAGGGGGATTTTTATTGATTTTTAATTTTTAAAAGTT-A
1 AGAGTTTTCTACTCCGTGAA-TTTTTCAGAGGGATTTTTCTTGGTTTTTAATTTTTAAAA-TTCA
* * * * **
874015 TCAAATATTATTATTT-ATATCAT-ATTAATTTATTTTTTAAAAATTCATTCATTTCCATGAAAT
64 TCAAATATTATTATTTAAT-TCATCA-TAAATCAGTTTTCAAAAATT-ATTCATTTCCATGAGTT
*
874078 TTGAATTTTTTCC
126 TTGGATTTTTTCC
874091 TTGAAATCCC
Statistics
Matches: 257, Mismatches: 38, Indels: 21
0.81 0.12 0.07
Matches are distributed among these distances:
164 5 0.02
165 45 0.18
166 168 0.65
167 38 0.15
168 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.51
Consensus pattern (164 bp):
AGAGTTTTCTACTCCGTGAATTTTTCAGAGGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
AAATATTATTATTTAATTCATCATAAATCAGTTTTCAAAAATTATTCATTTCCATGAGTTTTGGA
TTTTTTCCCTAAAATTTTATTTTTCTTGAAATAC
Found at i:874767 original size:23 final size:24
Alignment explanation
Indices: 874715--874791 Score: 81
Period size: 23 Copynumber: 3.2 Consensus size: 24
874705 TTTTGAAGTT
*
874715 TAGAAA-AAAAAGAAGAGAGAAAAGA
1 TAGAAAGAAAAA-AAGA-AGAAAAAA
*
874740 GAGAAAGAAAAAAA-AAGAAAAAA
1 TAGAAAGAAAAAAAGAAGAAAAAA
874763 TAG-AAGAAAAAATAGAA-AAAAAA
1 TAGAAAGAAAAAA-AGAAGAAAAAA
874786 TAGAAA
1 TAGAAA
874792 AGCTATGCTA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
22 9 0.20
23 19 0.42
24 5 0.11
25 7 0.16
26 5 0.11
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (24 bp):
TAGAAAGAAAAAAAGAAGAAAAAA
Found at i:874769 original size:12 final size:12
Alignment explanation
Indices: 874744--874790 Score: 73
Period size: 12 Copynumber: 4.2 Consensus size: 12
874734 AAAAGAGAGA
874744 AAGAAAAAA-A-
1 AAGAAAAAATAG
874754 AAGAAAAAATAG
1 AAGAAAAAATAG
874766 AAGAAAAAATAG
1 AAGAAAAAATAG
874778 AA-AAAAAATAG
1 AAGAAAAAATAG
874789 AA
1 AA
874791 AAGCTATGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.26
11 12 0.34
12 14 0.40
ACGTcount: A:0.81, C:0.00, G:0.13, T:0.06
Consensus pattern (12 bp):
AAGAAAAAATAG
Found at i:874781 original size:19 final size:19
Alignment explanation
Indices: 874745--874783 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
874735 AAAGAGAGAA
874745 AGAAAAAAAAAGAAAAAAT
1 AGAAAAAAAAAGAAAAAAT
874764 AGAAGAAAAAATAGAAAAAA
1 AGAA-AAAAAA-AGAAAAAA
874784 AATAGAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 6 0.33
21 8 0.44
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (19 bp):
AGAAAAAAAAAGAAAAAAT
Found at i:876184 original size:15 final size:15
Alignment explanation
Indices: 876160--876195 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
876150 GCAATGATTA
*
876160 TTATATTATCTAAAT
1 TTATAATATCTAAAT
876175 TTATAATATCTAAAT
1 TTATAATATCTAAAT
*
876190 CTATAA
1 TTATAA
876196 AAAAGTAAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (15 bp):
TTATAATATCTAAAT
Found at i:877505 original size:23 final size:23
Alignment explanation
Indices: 877485--877536 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
877475 GCTACTTTTT
877485 TTTGCTACTGTTGGTTTCTTTCA
1 TTTGCTACTGTTGGTTTCTTTCA
* **
877508 TTTGTTGTTGTTGGTTTCTTTCA
1 TTTGCTACTGTTGGTTTCTTTCA
877531 TTTGCT
1 TTTGCT
877537 GCTACTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.06, C:0.13, G:0.19, T:0.62
Consensus pattern (23 bp):
TTTGCTACTGTTGGTTTCTTTCA
Found at i:877567 original size:24 final size:25
Alignment explanation
Indices: 877526--877577 Score: 70
Period size: 24 Copynumber: 2.1 Consensus size: 25
877516 TGTTGGTTTC
* *
877526 TTTCATTTGCTGCTACTTAATTGCTT
1 TTTCATTT-CTGCAACTTAATTACTT
877552 TTTCATTT-TGCAACTTAATTACTT
1 TTTCATTTCTGCAACTTAATTACTT
877576 TT
1 TT
877578 CTTTCATGCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 16 0.67
26 8 0.33
ACGTcount: A:0.19, C:0.17, G:0.08, T:0.56
Consensus pattern (25 bp):
TTTCATTTCTGCAACTTAATTACTT
Found at i:877582 original size:27 final size:27
Alignment explanation
Indices: 877522--877584 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 27
877512 TTGTTGTTGG
* *
877522 TTTCTTTCATTTGCTGCTACTTAATTGC
1 TTTCTTTCATTT-CTGCAACTTAATTAC
877550 -TT-TTTCATTT-TGCAACTTAATTAC
1 TTTCTTTCATTTCTGCAACTTAATTAC
877574 TTTTCTTTCAT
1 -TTTCTTTCAT
877585 GCATTTTTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
24 12 0.40
26 10 0.33
27 8 0.27
ACGTcount: A:0.17, C:0.19, G:0.06, T:0.57
Consensus pattern (27 bp):
TTTCTTTCATTTCTGCAACTTAATTAC
Found at i:877694 original size:57 final size:57
Alignment explanation
Indices: 877633--877740 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
877623 ATTTTGCAGT
* *
877633 TTAATTGTTTTTTCTTTCATGCGTTTCTTCTTCTTGTTTAG-TAGCTTAATTTGCAAC
1 TTAATTGCTTTTTCTTTCATGCATTTCTTCTTCTTGTTTAGCT-GCTTAATTTGCAAC
*
877690 TTAATTGCTTTTTCTTTCATGCATTTCTTTTTCTTGTTTAGCTGCTTAATT
1 TTAATTGCTTTTTCTTTCATGCATTTCTTCTTCTTGTTTAGCTGCTTAATT
877741 GCTTTAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
57 46 0.98
58 1 0.02
ACGTcount: A:0.15, C:0.16, G:0.11, T:0.58
Consensus pattern (57 bp):
TTAATTGCTTTTTCTTTCATGCATTTCTTCTTCTTGTTTAGCTGCTTAATTTGCAAC
Found at i:877749 original size:54 final size:56
Alignment explanation
Indices: 877625--877749 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 56
877615 GCTTTTTCAT
* *
877625 TTTGCAGTTTAATTGTTTTTTCTTTCATGCGTTTCTTCTTCTTGTTTAGTAGCTTAA
1 TTTGCA-TTTAATTGCTTTTTCTTTCATGCATTTCTTCTTCTTGTTTAGTAGCTTAA
* *
877682 TTTGCAACTTAATTGCTTTTTCTTTCATGCATTTCTTTTTCTTGTTTAGCT-GCTTAA
1 TTTGC-ATTTAATTGCTTTTTCTTTCATGCATTTCTTCTTCTTGTTTAG-TAGCTTAA
877739 -TTGC-TTTAATT
1 TTTGCATTTAATT
877750 TCATTTTGCA
Statistics
Matches: 61, Mismatches: 5, Indels: 7
0.84 0.07 0.10
Matches are distributed among these distances:
54 6 0.10
56 4 0.07
57 49 0.80
58 2 0.03
ACGTcount: A:0.15, C:0.15, G:0.12, T:0.58
Consensus pattern (56 bp):
TTTGCATTTAATTGCTTTTTCTTTCATGCATTTCTTCTTCTTGTTTAGTAGCTTAA
Found at i:877765 original size:72 final size:71
Alignment explanation
Indices: 877682--877824 Score: 189
Period size: 72 Copynumber: 2.0 Consensus size: 71
877672 AGTAGCTTAA
* * * * *
877682 TTTGCAACTTAATTGCTTTTTCTTTCATGCATTTCTTTTTCTTGTTTAGCT-GCTTAATTGCTTT
1 TTTGCAACTTAATTACTTTTTCTTTCATGCATTTCTTCTCCATGTTCA--TAGCTTAATTGCTTT
877746 AATTTCAT
64 AATTTCAT
* * *
877754 TTTGCAGCTTAATTACTTTTTCTTTCATGCGTTTCTTCTCCATGTTCATAGCTTAATTGCTTTTA
1 TTTGCAACTTAATTACTTTTTCTTTCATGCATTTCTTCTCCATGTTCATAGCTTAATTGCTTTAA
877819 TTTCAT
66 TTTCAT
877825 GCTAACTTTG
Statistics
Matches: 62, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
70 1 0.02
71 20 0.32
72 41 0.66
ACGTcount: A:0.17, C:0.18, G:0.10, T:0.55
Consensus pattern (71 bp):
TTTGCAACTTAATTACTTTTTCTTTCATGCATTTCTTCTCCATGTTCATAGCTTAATTGCTTTAA
TTTCAT
Found at i:877766 original size:129 final size:123
Alignment explanation
Indices: 877558--877811 Score: 355
Period size: 129 Copynumber: 2.0 Consensus size: 123
877548 GCTTTTTCAT
*
877558 TTTGCAACTTAATTACTTTTCTTTCATGCATTTTTCTTCTTGTTCATCGGCTTAATTGCTTTTTC
1 TTTGCAACTTAATTACTTTTCTTTCATGCATTTTTCTTCTTGTTCAGCGGCTTAATTGCTTTTTC
* ** * * *
877623 ATTTTGCAGTTTAATTGTTTTTTCTTTCATGCGTTTCTTCTTCTTGTTTAGTAGCTTAA
66 ATTTTGCAGCTTAATTACTTTTTCTTTCATGCGTTTCTTCTCCATGTTCA-TAGCTTAA
* * * *
877682 TTTGCAACTTAATTGCTTTTTCTTTCATGCATTTCTTTTTCTTGTTTAGCTGCTTAATTGCTTTA
1 TTTGCAACTTAATTAC-TTTTCTTTCATGCATTT-TTCTTCTTGTTCAGCGGCTTAATTGC-TT-
877747 ATTTCATTTTGCAGCTTAATTACTTTTTCTTTCATGCGTTTCTTCTCCATGTTCATAGCTTAA
62 -TTTCATTTTGCAGCTTAATTACTTTTTCTTTCATGCGTTTCTTCTCCATGTTCATAGCTTAA
877810 TT
1 TT
877812 GCTTTTATTT
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
124 15 0.13
125 17 0.15
126 22 0.19
127 2 0.02
128 10 0.09
129 48 0.42
ACGTcount: A:0.16, C:0.18, G:0.11, T:0.56
Consensus pattern (123 bp):
TTTGCAACTTAATTACTTTTCTTTCATGCATTTTTCTTCTTGTTCAGCGGCTTAATTGCTTTTTC
ATTTTGCAGCTTAATTACTTTTTCTTTCATGCGTTTCTTCTCCATGTTCATAGCTTAA
Found at i:877941 original size:57 final size:55
Alignment explanation
Indices: 877831--877942 Score: 127
Period size: 57 Copynumber: 2.0 Consensus size: 55
877821 TCATGCTAAC
* **
877831 TTTGCCAATTTGATTCCATGCATATTGATCCATGCAATACATGATTTTTTTTCAT
1 TTTGCCAATTTGATTCCATGCATATTGATCCATGCAATACATGAATTGGTTTCAT
* ** *
877886 TTTGCCATGATTTGATTCCATGCATATTGATGC-TTTAATTGCATGAATTGGTTTCAT
1 TTTGCCA--ATTTGATTCCATGCATATTGATCCATGCAA-TACATGAATTGGTTTCAT
877943 GCCACCTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
55 7 0.15
56 3 0.06
57 37 0.79
ACGTcount: A:0.24, C:0.16, G:0.14, T:0.46
Consensus pattern (55 bp):
TTTGCCAATTTGATTCCATGCATATTGATCCATGCAATACATGAATTGGTTTCAT
Found at i:878063 original size:14 final size:13
Alignment explanation
Indices: 878044--878093 Score: 66
Period size: 13 Copynumber: 3.8 Consensus size: 13
878034 TTGGCCTTTC
878044 TTTTTTTATTATTA
1 TTTTTTTATT-TTA
*
878058 TTTTTTTATTTTC
1 TTTTTTTATTTTA
878071 TTTTTTT-TTTTA
1 TTTTTTTATTTTA
878083 CTTTTTTTATT
1 -TTTTTTTATT
878094 ACCCTATTAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 4 0.12
13 16 0.50
14 12 0.38
ACGTcount: A:0.12, C:0.04, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTATTTTA
Found at i:878087 original size:26 final size:27
Alignment explanation
Indices: 878040--878093 Score: 85
Period size: 26 Copynumber: 2.0 Consensus size: 27
878030 AAATTTGGCC
878040 TTTCTTTTTTTATTATTATTTTTTTAT
1 TTTCTTTTTTTATTATTATTTTTTTAT
878067 TTTCTTTTTTT-TT-TTACTTTTTTTAT
1 TTTCTTTTTTTATTATTA-TTTTTTTAT
878093 T
1 T
878094 ACCCTATTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
25 3 0.12
26 12 0.46
27 11 0.42
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (27 bp):
TTTCTTTTTTTATTATTATTTTTTTAT
Found at i:878660 original size:42 final size:41
Alignment explanation
Indices: 878595--879332 Score: 423
Period size: 42 Copynumber: 17.6 Consensus size: 41
878585 AAACAAAGAA
* * * *
878595 TAAAGAAGTCTCCCGGGTTAAAGCCGACAAGTAGACAAAAGG
1 TAAAGAAGTCT-CCGAGTCAAAGCCGACAGGCAGACAAAAGG
* * * *
878637 TAAAGAAGTCTTTCGAGTCAAAGCTGA-TGGACA-A-AGAAAGA
1 TAAAGAAGTC-TCCGAGTCAAAGCCGACAGG-CAGACA-AAAGG
** * * * *
878678 TAAA-AAACCTCTCGGGTCAAAGTCGACAAGCAGATAAAAGG
1 TAAAGAAGTCTC-CGAGTCAAAGCCGACAGGCAGACAAAAGG
* * * * *
878719 TAAAGAAATCTCCAAGACCAAAGCCGAGAGGCAAAGC-AAAGG
1 TAAAGAAGTCTCCGAG-TCAAAGCCGACAGGCAGA-CAAAAGG
* * * * *
878761 TTAAGAAGTCTTCTGGGTCAAAGCCGACGGGCTGACAAAAGG
1 TAAAGAAGTC-TCCGAGTCAAAGCCGACAGGCAGACAAAAGG
* * * * * *
878803 TAAAGAAGTCTCTAGGGTCAAAGTCGATAGGCAAACAAAAAG
1 TAAAGAAGTCTC-CGAGTCAAAGCCGACAGGCAGACAAAAGG
* * *
878845 TGAAGAAGTCTCCAAGGTTAAAGCCGAC-GAGCAGACAAAAGG
1 TAAAGAAGTCTCCGA-GTCAAAGCCGACAG-GCAGACAAAAGG
* * * * * *
878887 AAAAGATGTCTTCAGGGTCAAAGCCAACAGGTAGACAAAAGG
1 TAAAGAAGTC-TCCGAGTCAAAGCCGACAGGCAGACAAAAGG
* * * * *
878929 TAAAAAAGTCCCCAAGGTCAAAGCCGACAAGTAGACAAAAGG
1 TAAAGAAGTCTCCGA-GTCAAAGCCGACAGGCAGACAAAAGG
* * * * * *
878971 TAAAAAAGTCTCCAGGGTCATAGTCGACGGGCAAACAAAAGG
1 TAAAGAAGTCTCC-GAGTCAAAGCCGACAGGCAGACAAAAGG
* * *
879013 TGAAGAAGTCTCCCAAGTCAAAGTCGACAGGCAGACAAAAGG
1 TAAAGAAGTCT-CCGAGTCAAAGCCGACAGGCAGACAAAAGG
* * **
879055 TAAAGAAGTCTCC-AGGAACAAAGCCAACATACAGACAAAAGG
1 TAAAGAAGTCTCCGA-G-TCAAAGCCGACAGGCAGACAAAAGG
* *
879097 TAAAAAAGTCTCCAATGTCAAAGCCGACAGGCAGACAAAAGG
1 TAAAGAAGTCTCCGA-GTCAAAGCCGACAGGCAGACAAAAGG
* * * * * *
879139 TAAAGAAGTCTCTAGGGTCAAACCCGATAGGCAAATAAAAGG
1 TAAAGAAGTCTC-CGAGTCAAAGCCGACAGGCAGACAAAAGG
* * * ** * *
879181 TAAAAAAGTCTCTAGGGTCAAAGTTGACAAGAAGACAAAAGG
1 TAAAGAAGTCTC-CGAGTCAAAGCCGACAGGCAGACAAAAGG
* *** ** *
879223 TAAAGAAGTCTCCAACGTCAAAGCCGACAAATAGGTAAAAGA
1 TAAAGAAGTCTCCGA-GTCAAAGCCGACAGGCAGACAAAAGG
** *
879265 TAAA-AAACCTCCCG-GCTTAAAGCCGACAGGCAGACAAAAGG
1 TAAAGAAGTCT-CCGAG-TCAAAGCCGACAGGCAGACAAAAGG
* * **
879306 CAAAAAAGTCTCTAAGGTCAAAGCCGA
1 TAAAGAAGTCTCCGA-GTCAAAGCCGA
879333 TGAGTAGATA
Statistics
Matches: 523, Mismatches: 143, Indels: 60
0.72 0.20 0.08
Matches are distributed among these distances:
39 1 0.00
40 19 0.04
41 56 0.11
42 435 0.83
43 12 0.02
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (41 bp):
TAAAGAAGTCTCCGAGTCAAAGCCGACAGGCAGACAAAAGG
Found at i:878869 original size:126 final size:127
Alignment explanation
Indices: 878595--879328 Score: 607
Period size: 126 Copynumber: 5.9 Consensus size: 127
878585 AAACAAAGAA
** * * * * *
878595 TAAAGAAGTCTCCCGGGTTAAAGCCGAC-AAGTAGACAAAAGGTAAAGAAGTCTT-TCGAGTCAA
1 TAAAGAAGTCTCCAAGGTCAAAGCCGACGAGGCAAACAAAAGGTAAAGAAGTCTTCT-GGGTCAA
* * * * * *
878658 AGCTGA-TGGACA-A-AGAAAGATAAAAAA-CCTCTCGGGTCAAAGTCGACAAGCAGATAAAAGG
65 AGCCGACAGG-CAGACA-AAAGGTAAAAAAGTCTCTAGGGTCAAAGTCGACAAGCAGACAAAAGG
* ** *
878719 TAAAGAAATCTCCAAGACCAAAGCCGA-GAGGCAAAGC-AAAGGTTAAGAAGTCTTCTGGGTCAA
1 TAAAGAAGTCTCCAAGGTCAAAGCCGACGAGGCAAA-CAAAAGGTAAAGAAGTCTTCTGGGTCAA
* * * * * * *
878782 AGCCGACGGGCTGACAAAAGGTAAAGAAGTCTCTAGGGTCAAAGTCGATAGGCAAACAAAAAG
65 AGCCGACAGGCAGACAAAAGGTAAAAAAGTCTCTAGGGTCAAAGTCGACAAGCAGACAAAAGG
* * * * * *
878845 TGAAGAAGTCTCCAAGGTTAAAGCCGACGA-GCAGACAAAAGGAAAAGATGTCTTCAGGGTCAAA
1 TAAAGAAGTCTCCAAGGTCAAAGCCGACGAGGCAAACAAAAGGTAAAGAAGTCTTCTGGGTCAAA
* * * * * * *
878909 GCCAACAGGTAGACAAAAGGTAAAAAAGTCCCCAAGGTCAAAGCCGACAAGTAGACAAAAGG
66 GCCGACAGGCAGACAAAAGGTAAAAAAGTCTCTAGGGTCAAAGTCGACAAGCAGACAAAAGG
* * * * * * ***
878971 TAAAAAAGTCTCCAGGGTCATAGTCGACG-GGCAAACAAAAGGTGAAGAAGTCTCCCAAGTCAAA
1 TAAAGAAGTCTCCAAGGTCAAAGCCGACGAGGCAAACAAAAGGTAAAGAAGTCTTCTGGGTCAAA
* * * ** * *
879035 GTCGACAGGCAGACAAAAGGTAAAGAAGTCTCCAGGAACAAAGCCAACATA-CAGACAAAAGG
66 GCCGACAGGCAGACAAAAGGTAAAAAAGTCTCTAGGGTCAAAGTCGACA-AGCAGACAAAAGG
* * *
879097 TAAAAAAGTCTCCAATGTCAAAGCCGAC-AGGCAGACAAAAGGTAAAGAAGTC-TCTAGGGTCAA
1 TAAAGAAGTCTCCAAGGTCAAAGCCGACGAGGCAAACAAAAGGTAAAGAAGTCTTCT-GGGTCAA
* * * * * *
879160 ACCCGATAGGCAAATAAAAGGTAAAAAAGTCTCTAGGGTCAAAGTTGACAAGAAGACAAAAGG
65 AGCCGACAGGCAGACAAAAGGTAAAAAAGTCTCTAGGGTCAAAGTCGACAAGCAGACAAAAGG
* *** *** * ** * * * *
879223 TAAAGAAGTCTCCAACGTCAAAGCCGAC-AAATAGGTAAAAGATAAA-AAACCTCCCGGCTTAAA
1 TAAAGAAGTCTCCAAGGTCAAAGCCGACGAGGCAAACAAAAGGTAAAGAAGTCTTCTGGGTCAAA
* *
879286 GCCGACAGGCAGACAAAAGGCAAAAAAGTCTCTAAGGTCAAAG
66 GCCGACAGGCAGACAAAAGGTAAAAAAGTCTCTAGGGTCAAAG
879329 CCGATGAGTA
Statistics
Matches: 481, Mismatches: 114, Indels: 29
0.77 0.18 0.05
Matches are distributed among these distances:
124 53 0.11
125 64 0.13
126 361 0.75
127 3 0.01
ACGTcount: A:0.44, C:0.19, G:0.24, T:0.14
Consensus pattern (127 bp):
TAAAGAAGTCTCCAAGGTCAAAGCCGACGAGGCAAACAAAAGGTAAAGAAGTCTTCTGGGTCAAA
GCCGACAGGCAGACAAAAGGTAAAAAAGTCTCTAGGGTCAAAGTCGACAAGCAGACAAAAGG
Found at i:879243 original size:84 final size:84
Alignment explanation
Indices: 878595--879332 Score: 569
Period size: 84 Copynumber: 8.8 Consensus size: 84
878585 AAACAAAGAA
* ** * * * *
878595 TAAAGAAGTCTCCCGGGTTAAAGCCGACAAGTAGACAAAAGGTAAAGAAGTCTTTCGA-GTCAAA
1 TAAAAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACAAAAGGTAAAGAAGTC-TCCAAGGTCAAA
* * * *
878659 GCTGA-TGGACAAA-GAAAGA
65 GCCGACAGG-CAAACAAAAGG
* * * * * **
878678 TAAAAAA-CCTCTC-GGGTCAAAGTCGACAAGCAGATAAAAGGTAAAGAAATCTCCAAGACCAAA
1 TAAAAAAGTCTC-CAAGGTCAAAGCCGACAAGCAGACAAAAGGTAAAGAAGTCTCCAAGGTCAAA
*
878741 GCCGAGAGGCAAAGC-AAAGG
65 GCCGACAGGCAAA-CAAAAGG
* * * ** ** * * *
878761 TTAAGAAGTCTTCTGGGTCAAAGCCGACGGGCTGACAAAAGGTAAAGAAGTCTCTAGGGTCAAAG
1 TAAAAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACAAAAGGTAAAGAAGTCTCCAAGGTCAAAG
* * *
878826 TCGATAGGCAAACAAAAAG
66 CCGACAGGCAAACAAAAGG
* * * * * * * *
878845 TGAAGAAGTCTCCAAGGTTAAAGCCGACGAGCAGACAAAAGGAAAAGATGTCTTCAGGGTCAAAG
1 TAAAAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACAAAAGGTAAAGAAGTCTCCAAGGTCAAAG
* * *
878910 CCAACAGGTAGACAAAAGG
66 CCGACAGGCAAACAAAAGG
* * * * *
878929 TAAAAAAGTCCCCAAGGTCAAAGCCGACAAGTAGACAAAAGGTAAAAAAGTCTCCAGGGTCATAG
1 TAAAAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACAAAAGGTAAAGAAGTCTCCAAGGTCAAAG
* *
878994 TCGACGGGCAAACAAAAGG
66 CCGACAGGCAAACAAAAGG
* * * * *
879013 TGAAGAAGTCTCCCAA-GTCAAAGTCGACAGGCAGACAAAAGGTAAAGAAGTCTCC-AGGAACAA
1 TAAAAAAGTCT-CCAAGGTCAAAGCCGACAAGCAGACAAAAGGTAAAGAAGTCTCCAAGG-TCAA
* ** *
879076 AGCCAACATACAGACAAAAGG
64 AGCCGACAGGCAAACAAAAGG
* * * * *
879097 TAAAAAAGTCTCCAATGTCAAAGCCGACAGGCAGACAAAAGGTAAAGAAGTCTCTAGGGTCAAAC
1 TAAAAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACAAAAGGTAAAGAAGTCTCCAAGGTCAAAG
* *
879162 CCGATAGGCAAATAAAAGG
66 CCGACAGGCAAACAAAAGG
* * ** * *
879181 TAAAAAAGTCTCTAGGGTCAAAGTTGACAAGAAGACAAAAGGTAAAGAAGTCTCCAACGTCAAAG
1 TAAAAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACAAAAGGTAAAGAAGTCTCCAAGGTCAAAG
*** *** *
879246 CCGACAAATAGGTAAAAGA
66 CCGACAGGCAAACAAAAGG
* * * * * * *
879265 TAAAAAA-CCTCC-CGGCTTAAAGCCGACAGGCAGACAAAAGGCAAAAAAGTCTCTAAGGTCAAA
1 TAAAAAAGTCTCCAAGG-TCAAAGCCGACAAGCAGACAAAAGGTAAAGAAGTCTCCAAGGTCAAA
879328 GCCGA
65 GCCGA
879333 TGAGTAGATA
Statistics
Matches: 519, Mismatches: 123, Indels: 26
0.78 0.18 0.04
Matches are distributed among these distances:
81 3 0.01
82 50 0.10
83 72 0.14
84 388 0.75
85 6 0.01
ACGTcount: A:0.43, C:0.19, G:0.24, T:0.14
Consensus pattern (84 bp):
TAAAAAAGTCTCCAAGGTCAAAGCCGACAAGCAGACAAAAGGTAAAGAAGTCTCCAAGGTCAAAG
CCGACAGGCAAACAAAAGG
Found at i:879572 original size:42 final size:42
Alignment explanation
Indices: 879446--880021 Score: 217
Period size: 42 Copynumber: 13.8 Consensus size: 42
879436 TAACAGATAA
* * * * *
879446 AAAGTCGACGGGCAAACAAAAGATAAAGAAG-CCTCTAAGGTC
1 AAAGCCGACGGGTAGACAAAAGGTAAAGAAGTCTTC-AAGGTC
* * ** * * * *
879488 AAGGCGGATAGGCAGACAAAAGATAAAGAAATCTGT-AGGGTC
1 AAAGCCGACGGGTAGACAAAAGGTAAAGAAGTCT-TCAAGGTC
* *
879530 AAAACCGACGGGTAGATAAAAGGTAAAGAAGTCTTCAAGGTC
1 AAAGCCGACGGGTAGACAAAAGGTAAAGAAGTCTTCAAGGTC
* ** * * * * *
879572 AAAGTCGACTAGCAAATAAAAGGTAAATAAGTCCT-AAGGTC
1 AAAGCCGACGGGTAGACAAAAGGTAAAGAAGTCTTCAAGGTC
** ** * * * *
879613 AAAGCTAACTAGCAGACAGAAGGTAAAGAAATC-TCTAGGGTC
1 AAAGCCGACGGGTAGACAAAAGGTAAAGAAGTCTTC-AAGGTC
* **** * *
879655 AAAGCCCACATACAAACAAAAGGTAAAGAAGTCTCTC--GTATC
1 AAAGCCGACGGGTAGACAAAAGGTAAAGAAGTCT-TCAAG-GTC
* * * * * *
879697 AAAGCCAATGGGTAGAAAAAAGGTAAAGAAATCTTTAGGGTC
1 AAAGCCGACGGGTAGACAAAAGGTAAAGAAGTCTTCAAGGTC
** * * * * * *
879739 AAAGCCGACAAGAAAACAAAGGGTAAAAAAATCTCCAAGGTC
1 AAAGCCGACGGGTAGACAAAAGGTAAAGAAGTCTTCAAGGTC
* * * * *
879781 AAAGCTGATGGGTAGA-AAAAGGGTAAAAAAGTCTTTAGGGTC
1 AAAGCCGACGGGTAGACAAAA-GGTAAAGAAGTCTTCAAGGTC
* * **
879823 AAAGCCGATGGGCAGACAAAAGGTAAAGAAGT-TTTTAGGTTC
1 AAAGCCGACGGGTAGACAAAAGGTAAAGAAGTCTTCAAGG-TC
** * * * ** **
879865 AAAGCCGATAGGTAGATAAAGGGTAAA-AAATCCCCTGGGT-
1 AAAGCCGACGGGTAGACAAAAGGTAAAGAAGTCTTCAAGGTC
*
879905 AAAACTCGA-GAGGTAGACAAAAGGTAAAGAAGTC-TCAAGGGTC
1 AAAGC-CGACG-GGTAGACAAAAGGTAAAGAAGTCTTCAA-GGTC
* * * * * * *
879948 AAAACCAACGAGCA-A-ATAAAGGATAAAGAAGTCTCCTAGGTT
1 AAAGCCGACGGGTAGACA-AAAGG-TAAAGAAGTCTTCAAGGTC
***
879990 AAAGCCGATAAGTAGACAAAAGGTAAAGAAGT
1 AAAGCCGACGGGTAGACAAAAGGTAAAGAAGT
880022 ATCCCGGGTC
Statistics
Matches: 397, Mismatches: 112, Indels: 50
0.71 0.20 0.09
Matches are distributed among these distances:
40 6 0.02
41 71 0.18
42 296 0.75
43 20 0.05
44 4 0.01
ACGTcount: A:0.45, C:0.15, G:0.24, T:0.16
Consensus pattern (42 bp):
AAAGCCGACGGGTAGACAAAAGGTAAAGAAGTCTTCAAGGTC
Found at i:879655 original size:83 final size:83
Alignment explanation
Indices: 879547--879854 Score: 259
Period size: 84 Copynumber: 3.7 Consensus size: 83
879537 ACGGGTAGAT
* * * * *
879547 AAAAGGTAAAGAAGTCTTCAAGGTCAAAGTCGACTAGCAAATAAAAGGTAAATAAGTC-CTAAGG
1 AAAAGGTAAAGAAATCTT-AGGGTCAAAGCCGACTAGCAAACAAAAGGTAAAAAAGTCTCTAAGG
*
879611 TCAAAGCTAACT-AGCAGAC
65 TCAAAGCTAA-TGAGCAGAA
* * * *
879630 AGAAGGTAAAGAAATCTCTAGGGTCAAAGCCCACATA-CAAACAAAAGGTAAAGAAGTCTCT-CG
1 AAAAGGTAAAGAAATCT-TAGGGTCAAAGCCGAC-TAGCAAACAAAAGGTAAAAAAGTCTCTAAG
* * * *
879693 TATCAAAGCCAATGGGTAGAA
64 -GTCAAAGCTAATGAGCAGAA
* * * * *
879714 AAAAGGTAAAGAAATCTTTAGGGTCAAAGCCGACAAGAAAACAAAGGGTAAAAAAATCTCCAAGG
1 AAAAGGTAAAGAAATC-TTAGGGTCAAAGCCGACTAGCAAACAAAAGGTAAAAAAGTCTCTAAGG
* * *
879779 TCAAAGCTGATGGGTAGAA
65 TCAAAGCTAATGAGCAGAA
* * * *
879798 AAAGGGTAAA-AAAGTCTTTAGGGTCAAAGCCGA-TGGGCAGACAAAAGGTAAAGAAGT
1 AAAAGGTAAAGAAA-TC-TTAGGGTCAAAGCCGACT-AGCAAACAAAAGGTAAAAAAGT
879855 TTTTAGGTTC
Statistics
Matches: 182, Mismatches: 33, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
83 52 0.29
84 128 0.70
85 2 0.01
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (83 bp):
AAAAGGTAAAGAAATCTTAGGGTCAAAGCCGACTAGCAAACAAAAGGTAAAAAAGTCTCTAAGGT
CAAAGCTAATGAGCAGAA
Found at i:880049 original size:42 final size:42
Alignment explanation
Indices: 879919--880111 Score: 145
Period size: 42 Copynumber: 4.6 Consensus size: 42
879909 CTCGAGAGGT
* * * ** *
879919 AGACAAAAGGTAAAGAAGTCT-CAAGGGTCAAAACCAACGAGC
1 AGACAAAAGATATAGAAGTCTCCCA-GGTCAAAACTGACAAGC
* * * * * * * * * *
879961 AAATAAAGGATAAAGAAGTCTCCTAGGTTAAAGCCGATAAGT
1 AGACAAAAGATATAGAAGTCTCCCAGGTCAAAACTGACAAGC
* * * * *
880003 AGACAAAAGGTAAAGAAGTATCCCGGGTCAAAATTGACAAGC
1 AGACAAAAGATATAGAAGTCTCCCAGGTCAAAACTGACAAGC
* * * *
880045 AGACAAAAGATATAGAAATCTCTCAGGTCAAAGCTGACGAGC
1 AGACAAAAGATATAGAAGTCTCCCAGGTCAAAACTGACAAGC
880087 AGACAAAAGATATAGAAGTCTCCCA
1 AGACAAAAGATATAGAAGTCTCCCA
880112 AGTCTAAGAC
Statistics
Matches: 115, Mismatches: 35, Indels: 2
0.76 0.23 0.01
Matches are distributed among these distances:
42 113 0.98
43 2 0.02
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.16
Consensus pattern (42 bp):
AGACAAAAGATATAGAAGTCTCCCAGGTCAAAACTGACAAGC
Found at i:880078 original size:84 final size:84
Alignment explanation
Indices: 879917--880110 Score: 201
Period size: 84 Copynumber: 2.3 Consensus size: 84
879907 AACTCGAGAG
** * * * *
879917 GTAGACAAAAGGTAAAGAAGTCTCAAGGGTCAAAACCAACGAGCAAATAAAGGATAAAGAAGTCT
1 GTAGACAAAAGGTAAAGAAGTCTCCCGGGTCAAAACCAACAAGCAAACAAAAGATAAAGAAATCT
* *
879982 CCTAGGTTAAAGCCGATAA
66 CCTAGGTCAAAGCCGACAA
* *** * *
880001 GTAGACAAAAGGTAAAGAAGTATCCCGGGTCAAAATTGACAAGCAGACAAAAGATATAGAAATCT
1 GTAGACAAAAGGTAAAGAAGTCTCCCGGGTCAAAACCAACAAGCAAACAAAAGATAAAGAAATCT
* *
880066 -CTCAGGTCAAAGCTGACGA
66 CCT-AGGTCAAAGCCGACAA
* * *
880085 GCAGACAAAAGATATAGAAGTCTCCC
1 GTAGACAAAAGGTAAAGAAGTCTCCC
880111 AAGTCTAAGA
Statistics
Matches: 89, Mismatches: 20, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
83 2 0.02
84 87 0.98
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.16
Consensus pattern (84 bp):
GTAGACAAAAGGTAAAGAAGTCTCCCGGGTCAAAACCAACAAGCAAACAAAAGATAAAGAAATCT
CCTAGGTCAAAGCCGACAA
Found at i:882612 original size:29 final size:29
Alignment explanation
Indices: 882511--886339 Score: 3272
Period size: 29 Copynumber: 133.0 Consensus size: 29
882501 TTAAAGCCCC
* * * *
882511 TTTCAAAGCCTATAAGTCAGCGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
882540 TTT-AAAGCCCACAAGTTAGTGGCA-CCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
882567 TTCCAAAGCCCACAAGTCAGTGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
882596 TTTTAAAGCCTACAAGTCAGTAGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* ** * *
882625 TTTTAAAGTTCACAAGTCAATGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
882653 TCTCGAAAACCCACGAGTCAATGGCACCC-
1 TTTC-AAAGCCCACAAGTCAGTGGCACCCT
* * * *
882682 TTCCAAAGCCCACAGGTTAGTGGCACCAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
882711 TTTTAAAGCCCACAAATCAGTGGCACCCG
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
882740 TTTCAAAGCCCACAAGTTAGTGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
882769 TTTCAAAGCCCACAAGCCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
882798 TTTCAAAGCCCACAAG-CAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
**
882826 TTTCAAAGCCCACATTTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
882855 GTTT-AAAGCCCA-TAGTTAGTGGCACCCCT
1 -TTTCAAAGCCCACAAGTCAGTGGCA-CCCT
* * * **
882884 TTCCAAAGCCCATAAGTTAGTGGCTTCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
882913 TTT-AAAGCTCATAAGTCAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
882941 TTTCAAAGCCCACAAGTCATTGGCA-CAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
882969 TTCCAAAGCCCATAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
882998 CTTT-AAAGCCCACATGTCAGTGGCACCAT
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
883027 TTTTAAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
883056 TTTCAAAGCTCACAAGTTACTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
883084 TTTCAAAGCCTACAAGTTAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
883113 TTTCAAAGCCCACAAGTCAATGGCA-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
883141 TTTTAAAGCCCACAAGTCAATGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
883170 ATTCAAAGCCCACAAGTTAGTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* ** ** *
883198 TTCCAAAG-CC-C-TTTCA-AAGC-CCACA
1 TTTCAAAGCCCACAAGTCAGTGGCACC-CT
** * * ** *
883223 AGTCAGTAA-CATCCATTTAAAGCCCACAAGTCAATGGCACC-
1 TTTCA--AAGC--CCA---CAAG-TCA-GTGGC-A---C-CCT
*
883264 CTTC-AAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
883292 TTTCCAAACCCCCCAAGTCAGTGGCATCCT
1 TTT-CAAAGCCCACAAGTCAGTGGCACCCT
* * * *
883322 TCT-AAAGCCTACAAGTTAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
883350 TTTCGAAGCCCACAAGTCAGTGGCATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
883378 TTCCAAAGCCCATAAGTCAGTGGCA-CCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
883406 TCTTCAAAGCCCACACA-TCAGTGGCACCC-
1 T-TTCAAAGCCCACA-AGTCAGTGGCACCCT
* *
883435 TTTCTAAAGCCCACAAGTCAGGGGTACCCT
1 TTTC-AAAGCCCACAAGTCAGTGGCACCCT
883465 TTTCAAAG-CCACAAGTCAGTGGCATCCC-
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCCT
* * *
883493 TTTCAAAGCCCACAAGTTAGAGGCA-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
883521 TTTTAAACCCCATAAGTTAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
883550 TTTCAAAGCACACAGGTTATTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
883578 TTCCAAAGCCCATAAGTCAGTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
883606 TTTCAAAGCCCACAAGTTAGTAGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
883635 TTT-AAAGCTCACAAGTCAGTGCCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
883662 TTCCAAAGCCGATAAGTCAGCGGCAGCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
883691 TTTCAAAGCCCA-TAGTAAGTGGCACCAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
883719 TTTCAAAGCCCACAAGTTAATGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
883748 TTTTAAAGCCCACAAGTCGGTTGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
883777 TTTCAAATCCCATAAGTTAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
883806 TTTTAAAGCCCACAAGTTAGTGGTACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
883835 TTTTAAAGCCCAAAAGTCAATGGCGCCTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACC-CT
* *
883865 TTT-AGAA-CCCACAAGTCAATGGCATCC-
1 TTTCA-AAGCCCACAAGTCAGTGGCACCCT
* * *
883892 TTTCAAAGCGCACAAGTTAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
883921 CTTCAAAGCCCACAAGTTAGTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
883949 TTTCAAAGCTCATAAGTCAGTGGCACCAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
883978 TTTCAAAGCCCACACGTTAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
884007 TTTTAAAGCCCATAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
884036 TTTCAAAGCCTACAAGTTAGTGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
884065 TTTCAAAGCCCACAAGTCAATGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
884094 TTTCAAAGCCCACAAGTTAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*** * *
884123 TTTCAAAG-CCTGTAGATCATTGGCACTC-
1 TTTCAAAGCCCACAAG-TCAGTGGCACCCT
* * *
884151 TTCCAAAGCCCATAAGTTAGTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
884179 -TTCAAAGCCAACAAGTCAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
884207 TTT-AAAGCCCACAAGTTAGTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
884234 TTCCAAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
884263 TTTCAATGCCCACAAGTTAGTGGCA-CCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
884291 TGTTCAAAGCCTACAAGTCAATGGCA-CCT
1 T-TTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
884320 TGTTCAAAGCCTACAAGTCAGTGGAATCCT
1 T-TTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
884350 TTTTAAGGCCCGCAAGTCGGTCGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
884379 TTTCCAAGCCTACAACTTAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
884408 TTTTAAAGCCCACAAGTCAATTGCACCCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCCT
* *
884438 TTT-AAAGCCCACAAGTTAGTGGCATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
884465 TTTCAAAGCCCACAAATTAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
884494 TTTCAAAGCCCACAAGTTAGTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
884522 TTCCAAACCCCATAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
884551 TTTCAAAGCCCACAAGTCAATGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
884580 TTTTAAAGCCCACAAGTCGGTCGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
884609 TTTCAAAGCCCACAAGTCGGTCGCACACT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
**
884638 TTTCAAAGCCCACAAGTCAGTGGCACTAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
884667 TTTCAAAGCCCACAAGTCAATGGCATCCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCCT
** *
884697 TTT-AAAGCCCGTAAG-CTAGTGGCA-TCT
1 TTTCAAAGCCCACAAGTC-AGTGGCACCCT
* * *
884724 TTTCAAAGCCCACAAATTAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
884753 TTTCAAAGCCCACAAGTTAGTGGCA--CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
884780 CTTCCAAGCCCATAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
** *
884809 TTTCAAAGCCCACCCGTTAGTGGCA-CCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
884837 TTTATAAAGCCCACAAGTTAGTGGCACCCT
1 TTT-CAAAGCCCACAAGTCAGTGGCACCCT
*
884867 TTTCAAAGCCCACAAGTCAATGGCACCCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCC-T
* *
884897 TTTTAAAGCCCACAAGTCAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
884926 TTTCAAAGCCCACAAATTAATGGCATCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
884954 TTTCAAAGCCCATAAGTTAGTGGCTCCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
884983 TTTCAAAGCCCACAAGTTAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
885012 TTTTAAAGCCCACAAGTCGGTCGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
885041 TTTCAAAGCCCACAAGGCAATGGTACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
885070 TTTCAAAGCCCACAAGTCAGTGGCACCAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
885099 TTTCAAAGCCCACAAGTCAATGGCATCCCT
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCCT
* * *
885129 TTT-AAAGCCCATAAGTTAGTGGCA-TCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
885156 TTTCAAAGCCCACAAATTAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
885185 TTTCAAAGCCCACAAGTCAGTGGCA--CT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
885212 CTTCCAAGCCCATAAGTCAATGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
885241 TTTCAAAGCCCACATGTTAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
885270 TTTTAAAGCCCACAAGTTAGTCGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
885299 TTTCAAAGCCCACAAGTCAATGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
885328 TTTTAAAGCCCACAAGTCAGTGGCACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
885357 TTTCAAAGCCCACAATTTAGTGGCATCCC-
1 TTTCAAAGCCCACAAGTCAGTGGCA-CCCT
* *
885386 -TTCAAAGCCCATAAGTTAGTGGCA-CCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
885413 CTTTCAAAGCCCACAAGTTAATGGCACCCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
885443 TTTCAAAGCCCATAAGTCATTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
885471 TTCCAAAGCCCATAAGTCAGTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
885499 TTTCAAAGCCCACAAGTCAGTGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
885528 TTT-AAAGCCCACAAGTTAGTGGCA-CCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
885555 TTCCAATGCCCACAAGTCAGTGGTACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
885584 TTTCAATGCCCACAAGTTAGTGGCACCAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * * *
885613 TTTCAAAGGCCATATGTCAATGACACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
885642 TTTCAAAGCCCACATGTTAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
** * * *
885671 TTTCAAAG-CCACATTTTAAAT--C-CCACA
1 TTTCAAAGCCCACA-AGTCAGTGGCACC-CT
** * * *
885698 AGTCAATGGCACCCCTTTTAATGCCTATAAGTGGCACCCT
1 TTTCAA-AGC-CCAC----AA-G----TCAGTGGCACCCT
* *
885738 TTTGAAAGCCCACAAGTCAGTGGCACACT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * **
885767 TTTCAAAGCCTACAAGTTAGTCGTGCCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *** ** *
885796 TTTCAAGTGGCACC-CCTTTCAAAGCCACCAAGCT
1 TTTCAA--AGC-CCACAAGTCAGTGGCACC---CT
** *** ** * *
885830 AGT-GGCGCCC-C-TTTCTAGTGGCGCCCC
1 TTTCAAAGCCCACAAGTC-AGTGGCACCCT
* * * *
885857 TTTCAAAGCCCATACGTTAGTGGTACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
885885 TTCCAAAGCCCACAACTCAGTGGTACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
885914 TCT-AAGGCCCAAAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
885942 TTTCAAAGCTCACGAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* ** * *
885971 TTTTAAAGCGTACAAGTTAGTGGCACCTT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * *
886000 TTTTAAAGCTCGCAAGTTAGTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
886028 TTTCAAAGCCCACAAGTTAGTGGTACCCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
** * * *
886057 TTTCAAAGCCCGTAGGTCATTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
886086 TCT-AAAGCCCATAAGTCAGTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
886113 TTTCAAAGCCCACAAATTAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
886142 TTTCAAAGCCCACAAGTCATTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
886170 TTCCAAAGCCCATAAGTCAGTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* *
886198 TTTCAAAGCCCACAAGTCAATGGCATCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
886227 TTT-AAAGCCCACAAGTCAGTGGCACCC-
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
*
886254 TTCCAAAGCCCACAAGTCAGTGGCACCCT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * * * *
886283 TTTCAATGGCCGCAAGTTAGTGGCACCAT
1 TTTCAAAGCCCACAAGTCAGTGGCACCCT
* * *
886312 TTTCAAAGCCCATATGTTAGTGGCACCC
1 TTTCAAAGCCCACAAGTCAGTGGCACCC
886340 GTGGCCTCCC
Statistics
Matches: 3062, Mismatches: 605, Indels: 266
0.78 0.15 0.07
Matches are distributed among these distances:
23 2 0.00
24 3 0.00
25 4 0.00
26 5 0.00
27 119 0.04
28 943 0.31
29 1807 0.59
30 123 0.04
31 10 0.00
32 3 0.00
33 3 0.00
34 9 0.00
35 2 0.00
37 5 0.00
38 9 0.00
39 3 0.00
40 5 0.00
41 4 0.00
42 2 0.00
43 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACCCT
Found at i:883245 original size:39 final size:39
Alignment explanation
Indices: 883171--883247 Score: 93
Period size: 39 Copynumber: 2.0 Consensus size: 39
883161 TGGCACCCCA
* ** *
883171 TTCAAAGCCCACAAGTTAGTGGCACCCTTCCAAAGCCCT
1 TTCAAAGCCCACAAGTCAGTAACACCATTCCAAAGCCCT
*
883210 TTCAAAGCCCACAAGTCAGTAACATCCATT-TAAAGCCC
1 TTCAAAGCCCACAAGTCAGTAACA-CCATTCCAAAGCCC
883248 ACAAGTCAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
39 28 0.88
40 4 0.12
ACGTcount: A:0.32, C:0.34, G:0.13, T:0.21
Consensus pattern (39 bp):
TTCAAAGCCCACAAGTCAGTAACACCATTCCAAAGCCCT
Found at i:885754 original size:25 final size:25
Alignment explanation
Indices: 885704--885754 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
885694 CACAAGTCAA
* * *
885704 TGGCACCCCTTTTAATGCCTATAAG
1 TGGCACCCCTTTTAAAGCCCACAAG
885729 TGGCA-CCCTTTTGAAAGCCCACAAG
1 TGGCACCCCTTTT-AAAGCCCACAAG
885754 T
1 T
885755 CAGTGGCACA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 7 0.32
25 15 0.68
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.27
Consensus pattern (25 bp):
TGGCACCCCTTTTAAAGCCCACAAG
Found at i:885818 original size:45 final size:45
Alignment explanation
Indices: 885756--885866 Score: 134
Period size: 45 Copynumber: 2.5 Consensus size: 45
885746 CCCACAAGTC
* * * * *
885756 AGTGGCACACTTTTCAAAGCCTA-CAAGTTAGTCGTGCCCTTTTCA
1 AGTGGCACCCCTTTCAAAGCC-ACCAAGCTAGTCGCGCCCCTTTCA
* *
885801 AGTGGCACCCCTTTCAAAGCCACCAAGCTAGTGGCGCCCCTTTCT
1 AGTGGCACCCCTTTCAAAGCCACCAAGCTAGTCGCGCCCCTTTCA
*
885846 AGTGGCGCCCCTTTCAAAGCC
1 AGTGGCACCCCTTTCAAAGCC
885867 CATACGTTAG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 1 0.02
45 56 0.98
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (45 bp):
AGTGGCACCCCTTTCAAAGCCACCAAGCTAGTCGCGCCCCTTTCA
Found at i:885849 original size:16 final size:16
Alignment explanation
Indices: 885828--885860 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
885818 AGCCACCAAG
885828 CTAGTGGCGCCCCTTT
1 CTAGTGGCGCCCCTTT
885844 CTAGTGGCGCCCCTTT
1 CTAGTGGCGCCCCTTT
885860 C
1 C
885861 AAAGCCCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.39, G:0.24, T:0.30
Consensus pattern (16 bp):
CTAGTGGCGCCCCTTT
Found at i:885878 original size:45 final size:43
Alignment explanation
Indices: 885756--885879 Score: 122
Period size: 45 Copynumber: 2.7 Consensus size: 43
885746 CCCACAAGTC
* * * * *
885756 AGTGGCACACTTTTCAAAGCCTACAAGTTAGTCGTGCCCTTTTCA
1 AGTGGCACCCCTTTCAAAGCC--CAAGTTAGTGGCGCCCCTTTCA
* *
885801 AGTGGCACCCCTTTCAAAGCCACCAAGCTAGTGGCGCCCCTTTCT
1 AGTGGCACCCCTTTCAAAG-C-CCAAGTTAGTGGCGCCCCTTTCA
*
885846 AGTGGCGCCCCTTTCAAAGCCCATACGTTAGTGG
1 AGTGGCACCCCTTTCAAAGCCCA-A-GTTAGTGG
885880 TACCCTTCCA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
43 3 0.05
44 2 0.03
45 59 0.89
46 1 0.02
47 1 0.02
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (43 bp):
AGTGGCACCCCTTTCAAAGCCCAAGTTAGTGGCGCCCCTTTCA
Found at i:885886 original size:28 final size:28
Alignment explanation
Indices: 885854--886339 Score: 454
Period size: 28 Copynumber: 17.1 Consensus size: 28
885844 CTAGTGGCGC
* * * *
885854 CCCTTTCAAAGCCCATACGTTAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * *
885882 CCCTTCCAAAGCCCACAACTCAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
885910 CCC-TTCTAAGGCCCAAAAGTCAGTGGCA
1 CCCTTTC-AAAGCCCACAAGTCAGTGGCA
* * *
885938 CTCTTTTCAAAGCTCACGAGTCAGTGGCA
1 C-CCTTTCAAAGCCCACAAGTCAGTGGCA
* ** *
885967 CCCTTTTTAAAGCGTACAAGTTAGTGGCA
1 CCC-TTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
885996 CCTTTTTTAAAGCTCGCAAGTTAGTGGCA
1 CC-CTTTCAAAGCCCACAAGTCAGTGGCA
* *
886025 CCCTTTCAAAGCCCACAAGTTAGTGGTA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
** * *
886053 CCCCTTTCAAAGCCCGTAGGTCATTGGCA
1 -CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
886082 CTC-TTCTAAAGCCCATAAGTCAGTGGCA
1 CCCTTTC-AAAGCCCACAAGTCAGTGGCA
* *
886110 CCCTTTCAAAGCCCACAAATTAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
886138 CCCTTTTCAAAGCCCACAAGTCATTGGCA
1 CCC-TTTCAAAGCCCACAAGTCAGTGGCA
* * *
886167 CTCTTCCAAAGCCCATAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
886195 CCCTTTCAAAGCCCACAAGTCAATGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* *
886223 TCCTTTTAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
*
886251 CCCTTCCAAAGCCCACAAGTCAGTGGCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
886279 CCCTTTTCAATGGCCGCAAGTTAGTGGCA
1 CCC-TTTCAAAGCCCACAAGTCAGTGGCA
* * * *
886308 CCATTTTCAAAGCCCATATGTTAGTGGCA
1 CC-CTTTCAAAGCCCACAAGTCAGTGGCA
886337 CCC
1 CCC
886340 GTGGCCTCCC
Statistics
Matches: 374, Mismatches: 73, Indels: 22
0.80 0.16 0.05
Matches are distributed among these distances:
27 5 0.01
28 208 0.56
29 158 0.42
30 3 0.01
ACGTcount: A:0.27, C:0.31, G:0.18, T:0.24
Consensus pattern (28 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:886496 original size:58 final size:58
Alignment explanation
Indices: 886402--886530 Score: 161
Period size: 58 Copynumber: 2.2 Consensus size: 58
886392 TTTTAAATCT
* * * * *
886402 CACAAGTCAGTGGCACCCCTTTTAATGGCTATAAGTTAGTGGCACCCTTTTGAAAGCC
1 CACAAGTCAGTGGCACCCCTTTTAAAGCCTACAAGTTAGTGGCACCCCTTTCAAAGCC
**
886460 CACAAGTCAGTGGCA-CCCTTTTCAAAGCCTACAAGTTAGTGGTGCCCCTTTCAAAGCC
1 CACAAGTCAGTGGCACCCCTTTT-AAAGCCTACAAGTTAGTGGCACCCCTTTCAAAGCC
* *
886518 CCCAAGTTAGTGG
1 CACAAGTCAGTGG
886531 TGCCCTTTCT
Statistics
Matches: 61, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 7 0.11
58 54 0.89
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (58 bp):
CACAAGTCAGTGGCACCCCTTTTAAAGCCTACAAGTTAGTGGCACCCCTTTCAAAGCC
Found at i:886535 original size:29 final size:29
Alignment explanation
Indices: 886402--886530 Score: 132
Period size: 29 Copynumber: 4.4 Consensus size: 29
886392 TTTTAAATCT
* * * *
886402 CACAAGTCAGTGGCACCCCTTTTAATGGC
1 CACAAGTTAGTGGCACCCCTTTCAAAGCC
* * * *
886431 TATAAGTTAGTGGCACCCTTTTGAAAGCC
1 CACAAGTTAGTGGCACCCCTTTCAAAGCC
* *
886460 CACAAGTCAGTGGCACCCTTTTCAAAGCC
1 CACAAGTTAGTGGCACCCCTTTCAAAGCC
* **
886489 TACAAGTTAGTGGTGCCCCTTTCAAAGCC
1 CACAAGTTAGTGGCACCCCTTTCAAAGCC
*
886518 CCCAAGTTAGTGG
1 CACAAGTTAGTGG
886531 TGCCCTTTCT
Statistics
Matches: 82, Mismatches: 18, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 82 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (29 bp):
CACAAGTTAGTGGCACCCCTTTCAAAGCC
Found at i:886574 original size:29 final size:29
Alignment explanation
Indices: 886541--887038 Score: 289
Period size: 29 Copynumber: 16.9 Consensus size: 29
886531 TGCCCTTTCT
* *
886541 AGTGGCACCCCTTTGAAAGCCCATAAGTC
1 AGTGGCACCCCTTTCAAAGCCCACAAGTC
* * * *
886570 AGTGGTA-CTCTTCCAAAGCCCACAACTC
1 AGTGGCACCCCTTTCAAAGCCCACAAGTC
** *
886598 AGTGATA-CCC-TTCTAAGGCCCACAAGTC
1 AGTGGCACCCCTTTC-AAAGCCCACAAGTC
*** * *
886626 AGTGGCACTTTTTTCAATGCTCACAAGTC
1 AGTGGCACCCCTTTCAAAGCCCACAAGTC
* * **
886655 AGTAGCA-ACC-TTCTAAAGTGCACAAGTC
1 AGTGGCACCCCTTTC-AAAGCCCACAAGTC
* ** * * *
886683 AATGGCACCATTTTTAAAGCCCATAAGTT
1 AGTGGCACCCCTTTCAAAGCCCACAAGTC
* * *
886712 AGTGGCACCCTTTTCAAAGTCCATAAGTC
1 AGTGGCACCCCTTTCAAAGCCCACAAGTC
* *
886741 AGTGGCA-GCCTTTCAAAGCCCCCAAGTC
1 AGTGGCACCCCTTTCAAAGCCCACAAGTC
* *
886769 AGTAGCACCCCTTTCAAAGCCCACAAGTT
1 AGTGGCACCCCTTTCAAAGCCCACAAGTC
* *
886798 AGTAGCACCCCTTTCAAAGCCCACAAGTT
1 AGTGGCACCCCTTTCAAAGCCCACAAGTC
*** *
886827 AGTAAAACCCCTTTTAAAGCCCACAAGTC
1 AGTGGCACCCCTTTCAAAGCCCACAAGTC
* * * *
886856 GGTGGCAACACTATCCAAAGCCCACACAAGTC
1 AGTGGCACCCCT-TTCAAAG-CC-CACAAGTC
* *
886888 AGTGACAACCC-TTCTAAAGCCCACACAAGTC
1 AGTGGCACCCCTTTC-AAAG-CC-CACAAGTC
*
886919 -GATGGCA-ACCTTTCTAAAGCCCACACAAGTC
1 AG-TGGCACCCCTTTC-AAAG-CC-CACAAGTC
*
886950 -GATGGCA-ACCTTTCTAAAGCCCACACAAGTC
1 AG-TGGCACCCCTTTC-AAAG-CC-CACAAGTC
* * *
886981 GGTGGCAACCTTTTCAAAGCCCACACAAGTC
1 AGTGGCACCCCTTTCAAAG-CC-CACAAGTC
* *
887012 AGTGGCAACCTTTTCCAAAAGCCCACA
1 AGTGGCACCCCTTT-C-AAAGCCCACA
887039 CAAGTCGGTG
Statistics
Matches: 382, Mismatches: 70, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
27 5 0.01
28 79 0.21
29 143 0.37
30 15 0.04
31 111 0.29
32 25 0.07
33 4 0.01
ACGTcount: A:0.31, C:0.31, G:0.16, T:0.21
Consensus pattern (29 bp):
AGTGGCACCCCTTTCAAAGCCCACAAGTC
Found at i:886726 original size:86 final size:86
Alignment explanation
Indices: 886615--887038 Score: 248
Period size: 86 Copynumber: 4.7 Consensus size: 86
886605 CCCTTCTAAG
* ** * **
886615 GCCCACAAGTCAGTGGCACTTTTTTCAATGCTCACAAGTCAGTAGCAACC-TTCTAAAGTGCACA
1 GCCCACAAGTTAGTGGCACCCTTTTCAAAGCTCACAAGTCAGTAGCAACCTTTC-AAAGCCCACA
* * *
886679 AGTCAATGGCACCATTTTTAAA
65 AGTCAATAGCACCACTTTCAAA
* * * * *
886701 GCCCATAAGTTAGTGGCACCCTTTTCAAAG-TCCATAAGTCAGTGGCAGCCTTTCAAAGCCCCCA
1 GCCCACAAGTTAGTGGCACCCTTTTCAAAGCT-CACAAGTCAGTAGCAACCTTTCAAAGCCCACA
* *
886765 AGTCAGTAGCACCCCTTTCAAA
65 AGTCAATAGCACCACTTTCAAA
* * * * * *
886787 GCCCACAAGTTAGTAGCACCCCTTTCAAAGCCCACAAGTTAGTA-AAACCCCTTTTAAAGCCCAC
1 GCCCACAAGTTAGTGGCACCCTTTTCAAAGCTCACAAGTCAGTAGCAA--CCTTTCAAAGCCCAC
** * * *
886851 AAGTCGGTGGCAACACTATCCAAA
64 AAGTCAATAGCACCACT-TTCAAA
* * * * *
886875 GCCCACACAAGTCAGTGACAACCCTTCT-AAAGCCCACACAAGTC-GATGGCAACCTTTCTAAAG
1 G-CC-CACAAGTTAGTGGC-ACCCTTTTCAAAG--CTCACAAGTCAG-TAGCAACCTTTC-AAAG
* * *
886938 CCCACACAAGTCGATGGCAAC-CTTTCTAAA
59 -CC-CACAAGTCAATAGCACCACTTTC-AAA
** * * *
886968 GCCCACACAAGTCGGTGGCAACCTTTTCAAAGCCCACACAAGTCAGTGGCAACCTTTTCCAAAAG
1 G-CC-CACAAGTTAGTGGCACCCTTTTCAAAG--CTCACAAGTCAGTAGCAACC-TTT-C-AAAG
887033 CCCACA
59 CCCACA
887039 CAAGTCGGTG
Statistics
Matches: 268, Mismatches: 49, Indels: 35
0.76 0.14 0.10
Matches are distributed among these distances:
85 2 0.01
86 100 0.37
87 29 0.11
88 6 0.02
89 2 0.01
90 15 0.06
91 12 0.04
92 21 0.08
93 54 0.20
94 22 0.08
95 5 0.02
ACGTcount: A:0.32, C:0.31, G:0.16, T:0.21
Consensus pattern (86 bp):
GCCCACAAGTTAGTGGCACCCTTTTCAAAGCTCACAAGTCAGTAGCAACCTTTCAAAGCCCACAA
GTCAATAGCACCACTTTCAAA
Found at i:886786 original size:57 final size:57
Alignment explanation
Indices: 886545--887038 Score: 260
Period size: 57 Copynumber: 8.4 Consensus size: 57
886535 CTTTCTAGTG
* * * * *
886545 GCACCCCTTTGAAAGCCCATAAGTCAGTGGTACTCTTCCAAAGCCCACAACTCAGT-
1 GCACCCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTA
* * * * *
886601 G-ATACCC-TTCTAAGGCCCACAAGTCAGTGGCACTTTTTTCAATGCTCACAAGTCAGTA
1 GCA-CCCCTTTC-AAAGCCCACAAGTCAGTGGCAC-TCTTTCAAAGCCCACAAGTCAGTA
* ** * * * * *
886659 GCA-ACC-TTCTAAAGTGCACAAGTCAATGGCAC-CATTTTTAAAGCCCATAAGTTAGTG
1 GCACCCCTTTC-AAAGCCCACAAGTCAGTGGCACTC--TTTCAAAGCCCACAAGTCAGTA
* * * *
886716 GCACCCTTTTCAAAGTCCATAAGTCAGTGGCAGC-CTTTCAAAGCCCCCAAGTCAGTA
1 GCACCCCTTTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAGTA
* * * *
886773 GCACCCCTTTCAAAGCCCACAAGTTAGTAGCACCCCTTTCAAAGCCCACAAGTTAGTA
1 GCACCCCTTTCAAAGCCCACAAGTCAGTGGCA-CTCTTTCAAAGCCCACAAGTCAGTA
** * * * *
886831 AAACCCCTTTTAAAGCCCACAAGTCGGTGGCAACACTATCCAAAGCCCACACAAGTCAGT-
1 GCACCCCTTTCAAAGCCCACAAGTCAGTGGC-ACTCT-TTCAAAG-CC-CACAAGTCAGTA
*
886891 GACAACCC-TTCTAAAGCCCACACAAGTC-GATGGCAAC-CTTTCTAAAGCCCACACAAGTC-GA
1 G-CACCCCTTTC-AAAG-CC-CACAAGTCAG-TGGC-ACTCTTTC-AAAG-CC-CACAAGTCAG-
*
886952 TG
56 TA
* * *
886954 GCA-ACCTTTCTAAAGCCCACACAAGTCGGTGGCAAC-CTTTTCAAAGCCCACACAAGTCAGTG
1 GCACCCCTTTC-AAAG-CC-CACAAGTCAGTGGC-ACTC-TTTCAAAG-CC-CACAAGTCAGTA
* *
887016 GCAACCTTTTCCAAAAGCCCACA
1 GCACCCCTTT-C-AAAGCCCACA
887039 CAAGTCGGTG
Statistics
Matches: 351, Mismatches: 58, Indels: 52
0.76 0.13 0.11
Matches are distributed among these distances:
55 3 0.01
56 23 0.07
57 106 0.30
58 69 0.20
59 13 0.04
60 4 0.01
61 23 0.07
62 77 0.22
63 28 0.08
64 5 0.01
ACGTcount: A:0.31, C:0.32, G:0.16, T:0.21
Consensus pattern (57 bp):
GCACCCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCAAAGCCCACAAGTCAGTA
Found at i:886910 original size:31 final size:31
Alignment explanation
Indices: 886835--887083 Score: 279
Period size: 31 Copynumber: 8.0 Consensus size: 31
886825 TTAGTAAAAC
*
886835 CCCTTTTAAAG-CC-CACAAGTCGGTGGCAA
1 CCCTTCTAAAGCCCACACAAGTCGGTGGCAA
* * * *
886864 CACTATCCAAAGCCCACACAAGTCAGTGACAA
1 CCCT-TCTAAAGCCCACACAAGTCGGTGGCAA
*
886896 CCCTTCTAAAGCCCACACAAGTCGATGGCAA
1 CCCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
886927 CCTTTCTAAAGCCCACACAAGTCGATGGCAA
1 CCCTTCTAAAGCCCACACAAGTCGGTGGCAA
*
886958 CCTTTCTAAAGCCCACACAAGTCGGTGGCAA
1 CCCTTCTAAAGCCCACACAAGTCGGTGGCAA
* *
886989 -CCTTTTCAAAGCCCACACAAGTCAGTGGCAA
1 CCCTTCT-AAAGCCCACACAAGTCGGTGGCAA
* * *
887020 CCTTTTCCAAAAGCCCACACAAGTCGGTGGCTA
1 CC-CTT-CTAAAGCCCACACAAGTCGGTGGCAA
* * *
887053 CCCTCCCAAAAGCCCACACAAGTCGATGGCA
1 CCCT-TCTAAAGCCCACACAAGTCGGTGGCA
887084 TCTCTTTCTA
Statistics
Matches: 188, Mismatches: 24, Indels: 13
0.84 0.11 0.06
Matches are distributed among these distances:
29 3 0.02
30 9 0.05
31 108 0.57
32 42 0.22
33 26 0.14
ACGTcount: A:0.32, C:0.34, G:0.17, T:0.17
Consensus pattern (31 bp):
CCCTTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:886947 original size:62 final size:62
Alignment explanation
Indices: 886736--887076 Score: 289
Period size: 62 Copynumber: 5.6 Consensus size: 62
886726 CAAAGTCCAT
* * *
886736 AAGTCAGTGGCAGCCTTTC-AAAGCCC-C-CAAGTCAGT-AGCACCCCTT-TCAAAG-CC-CAC
1 AAGTCGGTGGCAACCTTTCTAAAGCCCACACAAGTCAGTGA-CAACCCTTCT-AAAGCCCACAC
** * * * * *
886793 AAGTTAGTAGCACCCCTTTC-AAAG-CC-CACAAGTTAGT-AAAACCCCTTTTAAAG-CC-CAC
1 AAGTCGGTGGCA-ACCTTTCTAAAGCCCACACAAGTCAGTGACAA-CCCTTCTAAAGCCCACAC
* *
886851 AAGTCGGTGGCAACACTATCCAAAGCCCACACAAGTCAGTGACAACCCTTCTAAAGCCCACAC
1 AAGTCGGTGGCAAC-CTTTCTAAAGCCCACACAAGTCAGTGACAACCCTTCTAAAGCCCACAC
* * *
886914 AAGTCGATGGCAACCTTTCTAAAGCCCACACAAGTC-GATGGCAACCTTTCTAAAGCCCACAC
1 AAGTCGGTGGCAACCTTTCTAAAGCCCACACAAGTCAG-TGACAACCCTTCTAAAGCCCACAC
* * *
886976 AAGTCGGTGGCAACCTTT-TCAAAGCCCACACAAGTCAGTGGCAACCTTTTCCAAAAGCCCACAC
1 AAGTCGGTGGCAACCTTTCT-AAAGCCCACACAAGTCAGTGACAACC-CTT-CTAAAGCCCACAC
* ** *
887040 AAGTCGGTGGCTACCCTCCCAAAAGCCCACACAAGTC
1 AAGTCGGTGGC-AACCTTTCTAAAGCCCACACAAGTC
887077 GATGGCATCT
Statistics
Matches: 241, Mismatches: 25, Indels: 28
0.82 0.09 0.10
Matches are distributed among these distances:
57 15 0.06
58 46 0.19
59 5 0.02
60 2 0.01
61 22 0.09
62 88 0.37
63 20 0.08
64 23 0.10
65 20 0.08
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (62 bp):
AAGTCGGTGGCAACCTTTCTAAAGCCCACACAAGTCAGTGACAACCCTTCTAAAGCCCACAC
Found at i:887249 original size:43 final size:43
Alignment explanation
Indices: 887199--887284 Score: 120
Period size: 43 Copynumber: 2.0 Consensus size: 43
887189 TTCTTTCTTC
* *
887199 AGTCCAATATCACTAGCCTTGAATT-AGCCTATTGGCACCTTTA
1 AGTCCAATATCACTAGCCTTG-ATTCAGCATATTAGCACCTTTA
* *
887242 AGTCCAATATCGCTGGCCTTGATTCAGCATATTAGCACCTTTA
1 AGTCCAATATCACTAGCCTTGATTCAGCATATTAGCACCTTTA
887285 CCACTTTTCT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 3 0.08
43 35 0.92
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.33
Consensus pattern (43 bp):
AGTCCAATATCACTAGCCTTGATTCAGCATATTAGCACCTTTA
Found at i:887746 original size:11 final size:11
Alignment explanation
Indices: 887727--887763 Score: 51
Period size: 10 Copynumber: 3.5 Consensus size: 11
887717 GACTTATTTG
887727 AAAAA-AAATA
1 AAAAATAAATA
887737 AAAAATAAATAA
1 AAAAATAAAT-A
887749 AAAAATAAA-A
1 AAAAATAAATA
887759 AAAAA
1 AAAAA
887764 GATTGTAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
10 11 0.44
11 4 0.16
12 10 0.40
ACGTcount: A:0.89, C:0.00, G:0.00, T:0.11
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:896673 original size:20 final size:21
Alignment explanation
Indices: 896648--896704 Score: 75
Period size: 20 Copynumber: 2.8 Consensus size: 21
896638 GTAAAAAGAT
896648 AGAATGTATCGATACATTGA-
1 AGAATGTATCGATACATTGAC
896668 AGAATGTATCGATACATT--C
1 AGAATGTATCGATACATTGAC
*
896687 ATACATGTATCGATACAT
1 AGA-ATGTATCGATACAT
896705 CTGGGTAAAA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 2 0.06
20 32 0.94
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.32
Consensus pattern (21 bp):
AGAATGTATCGATACATTGAC
Found at i:896744 original size:49 final size:50
Alignment explanation
Indices: 896668--896763 Score: 142
Period size: 49 Copynumber: 1.9 Consensus size: 50
896658 GATACATTGA
* *
896668 AGAATGTATCGATACATTCATACATGTATCGATACATCTGGGTAAAAGAC
1 AGAATGTATCGATACATTCATAAATGTATCGATACATCTAGGTAAAAGAC
*
896718 AGAATGTAT-GATACATTGA-AGAATGTATCGATACATCTAGGTAAAA
1 AGAATGTATCGATACATTCATA-AATGTATCGATACATCTAGGTAAAA
896764 AATGTGACTT
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
48 1 0.02
49 32 0.76
50 9 0.21
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.28
Consensus pattern (50 bp):
AGAATGTATCGATACATTCATAAATGTATCGATACATCTAGGTAAAAGAC
Found at i:896751 original size:69 final size:71
Alignment explanation
Indices: 896620--896753 Score: 236
Period size: 69 Copynumber: 1.9 Consensus size: 71
896610 TACAATAAAA
*
896620 ATGTATCGATACATCTAGGTAAAAAGATAGAATGTATCGATACATTGAAGAATGTATCGATACAT
1 ATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACATTGAAGAATGTATCGATACAT
896685 TCATAC
66 TCATAC
*
896691 ATGTATCGATACATCTGGGT-AAAAGACAGAATGTAT-GATACATTGAAGAATGTATCGATACAT
1 ATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACATTGAAGAATGTATCGATACAT
896754 CTAGGTAAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
69 27 0.44
70 15 0.25
71 19 0.31
ACGTcount: A:0.40, C:0.12, G:0.19, T:0.29
Consensus pattern (71 bp):
ATGTATCGATACATCTAGGTAAAAAGACAGAATGTATCGATACATTGAAGAATGTATCGATACAT
TCATAC
Found at i:896752 original size:20 final size:21
Alignment explanation
Indices: 896715--896753 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
896705 CTGGGTAAAA
896715 GACAGAATGTAT-GATACATT
1 GACAGAATGTATCGATACATT
896735 GA-AGAATGTATCGATACAT
1 GACAGAATGTATCGATACAT
896754 CTAGGTAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.41, C:0.10, G:0.21, T:0.28
Consensus pattern (21 bp):
GACAGAATGTATCGATACATT
Found at i:900851 original size:13 final size:14
Alignment explanation
Indices: 900799--900863 Score: 64
Period size: 14 Copynumber: 4.9 Consensus size: 14
900789 CTAATTTGCC
*
900799 ATTGTCAAAAAATT
1 ATTGTCAAGAAATT
900813 ATTGTCAAGAAATT
1 ATTGTCAAGAAATT
* * *
900827 ATCGTAAAGAACTT
1 ATTGTCAAGAAATT
*
900841 -TTGTCAAGAACTT
1 ATTGTCAAGAAATT
900854 -TTGTC-AGAAA
1 ATTGTCAAGAAA
900864 CTTCATCAAG
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
12 4 0.09
13 16 0.36
14 24 0.55
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.34
Consensus pattern (14 bp):
ATTGTCAAGAAATT
Found at i:900962 original size:28 final size:28
Alignment explanation
Indices: 900902--901304 Score: 277
Period size: 28 Copynumber: 14.4 Consensus size: 28
900892 ATCCCTTTTT
* * * *
900902 AAAGCCTACTAGTCATTGGCATCCTTTAT
1 AAAGCCCACAAGTCAGTGGCATCCTTT-C
900931 AAAGCCCACAAGTCAGTGG-ATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
900958 AAAAGCCCACAAGTCAATGGCACCCTTTT
1 -AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
900987 AAAGCCCACGAGTTAATAGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * *
901015 AAAGCCTACAAGTTAGT-GC-TACTCTTTT
1 AAAGCCCACAAGTCAGTGGCAT-C-CTTTC
** *
901043 AAAGCCCATGAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
901071 AAAGTCTACAAGTCAGTAGCA-CATTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* * * *
901098 TAAAGCCCACGAGTTAGTGGCACCCTTAC
1 -AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
901127 AAATCCCACAAGTCAATGGCA-CTCTTTCC
1 AAAGCCCACAAGTCAGTGGCATC-CTTT-C
* *
901156 AAAGCCCACGAGTCAGTGGCAACC-TTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
* *
901183 AAAGCCCACGAGTTAGTGGCA-CCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCC-TTTC
* * *
901211 AAAGCCCACGAGTCAGTGACA-CATTTTC
1 AAAGCCCACAAGTCAGTGGCATC-CTTTC
* * *
901239 AAAAG-CTA-AGGGTCAGTGGCATCTTTTC
1 -AAAGCCCACA-AGTCAGTGGCATCCTTTC
* *
901267 AAAGTCCACAAGTCAGTGGCATCTTTTC
1 AAAGCCCACAAGTCAGTGGCATCCTTTC
*
901295 AAAACCCACA
1 AAAGCCCACA
901305 CAAGTTGGTG
Statistics
Matches: 301, Mismatches: 54, Indels: 39
0.76 0.14 0.10
Matches are distributed among these distances:
26 3 0.01
27 34 0.11
28 207 0.69
29 55 0.18
30 2 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (28 bp):
AAAGCCCACAAGTCAGTGGCATCCTTTC
Found at i:901241 original size:56 final size:56
Alignment explanation
Indices: 900902--901304 Score: 331
Period size: 56 Copynumber: 7.2 Consensus size: 56
900892 ATCCCTTTTT
* * * *
900902 AAAGCCTACTAGTCATTGGCATCCTTTAT-AAAGCCCACAAGTCAGTGG-ATCCTTTC
1 AAAGCCCACAAGTCAGTGGCA-CCTTT-TCAAAGCCCACGAGTCAGTGGCATCCTTTC
* * * *
900958 AAAAGCCCACAAGTCAATGGCACCCTTTT-AAAGCCCACGAGTTAATAGCATCCTTTC
1 -AAAGCCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACGAGTCAGTGGCATCCTTTC
* * * *
901015 AAAGCCTACAAGTTAGT-GCTACTCTTTT-AAAGCCCATGAGTTAGTGGCATCCTTTC
1 AAAGCCCACAAGTCAGTGGC-AC-CTTTTCAAAGCCCACGAGTCAGTGGCATCCTTTC
* * * * * * *
901071 AAAGTCTACAAGTCAGTAGCA-CATTTCTAAAGCCCACGAGTTAGTGGCACCCTTAC
1 AAAGCCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACGAGTCAGTGGCATCCTTTC
* * * *
901127 AAATCCCACAAGTCAATGGCACTCTTTCCAAAGCCCACGAGTCAGTGGCAACC-TTC
1 AAAGCCCACAAGTCAGTGGCAC-CTTTTCAAAGCCCACGAGTCAGTGGCATCCTTTC
* * * *
901183 AAAGCCCACGAGTTAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGACA-CATTTTC
1 AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCATC-CTTTC
* * * * * *
901239 AAAAG-CTA-AGGGTCAGTGGCATCTTTTCAAAGTCCACAAGTCAGTGGCATCTTTTC
1 -AAAGCCCACA-AGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCATCCTTTC
*
901295 AAAACCCACA
1 AAAGCCCACA
901305 CAAGTTGGTG
Statistics
Matches: 284, Mismatches: 47, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
54 5 0.02
55 31 0.11
56 183 0.64
57 61 0.21
58 4 0.01
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (56 bp):
AAAGCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACGAGTCAGTGGCATCCTTTC
Found at i:901334 original size:31 final size:31
Alignment explanation
Indices: 901293--901474 Score: 213
Period size: 31 Copynumber: 5.9 Consensus size: 31
901283 TGGCATCTTT
*
901293 TCAAAACCCACACAAGTTGGTGGCACCCAAG
1 TCAAAGCCCACACAAGTTGGTGGCACCCAAG
* *
901324 TCAAAGCCCACATAAGTTGGTGGCACCCTAG
1 TCAAAGCCCACACAAGTTGGTGGCACCCAAG
* * * * * **
901355 TCAAAACCCCCACAAGTCGGCGGCATCTGAG
1 TCAAAGCCCACACAAGTTGGTGGCACCCAAG
* *
901386 TCTAAGCCCACACAAGTTGGTGGCACCCTAG
1 TCAAAGCCCACACAAGTTGGTGGCACCCAAG
* *
901417 TCAAAG-CCAGCACGAGTTGGTGGCACTCAAG
1 TCAAAGCCCA-CACAAGTTGGTGGCACCCAAG
*
901448 TCAAAGCCCAGACAAGTTGGTGGCACC
1 TCAAAGCCCACACAAGTTGGTGGCACC
901475 TATGCTTGAG
Statistics
Matches: 123, Mismatches: 26, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
30 3 0.02
31 117 0.95
32 3 0.02
ACGTcount: A:0.30, C:0.31, G:0.24, T:0.16
Consensus pattern (31 bp):
TCAAAGCCCACACAAGTTGGTGGCACCCAAG
Found at i:901369 original size:62 final size:62
Alignment explanation
Indices: 901293--901474 Score: 240
Period size: 62 Copynumber: 2.9 Consensus size: 62
901283 TGGCATCTTT
*
901293 TCAAAACCCACACAAGTTGGTGGCACCCAAGTCAAAGCCCACATAAGTTGGTGGCACCCTAG
1 TCAAAACCCACACAAGTTGGTGGCACCCAAGTCAAAGCCCACACAAGTTGGTGGCACCCTAG
* * * * ** *
901355 TCAAAACCCCCACAAGTCGGCGGCATCTGAGTCTAAGCCCACACAAGTTGGTGGCACCCTAG
1 TCAAAACCCACACAAGTTGGTGGCACCCAAGTCAAAGCCCACACAAGTTGGTGGCACCCTAG
* * * *
901417 TC-AAAGCCAGCACGAGTTGGTGGCACTCAAGTCAAAGCCCAGACAAGTTGGTGGCACC
1 TCAAAACCCA-CACAAGTTGGTGGCACCCAAGTCAAAGCCCACACAAGTTGGTGGCACC
901475 TATGCTTGAG
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
61 5 0.05
62 95 0.95
ACGTcount: A:0.30, C:0.31, G:0.24, T:0.16
Consensus pattern (62 bp):
TCAAAACCCACACAAGTTGGTGGCACCCAAGTCAAAGCCCACACAAGTTGGTGGCACCCTAG
Found at i:910277 original size:19 final size:19
Alignment explanation
Indices: 910253--910320 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
910243 AATTCAACAA
910253 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
910272 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
910287 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
910304 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
910321 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:910292 original size:13 final size:13
Alignment explanation
Indices: 910274--910298 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
910264 ACATAAGTTT
910274 TGTATCGATACAA
1 TGTATCGATACAA
910287 TGTATCGATACA
1 TGTATCGATACA
910299 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:910296 original size:32 final size:32
Alignment explanation
Indices: 910255--910317 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
910245 TTCAACAATT
*
910255 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
910287 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
910318 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:910378 original size:13 final size:13
Alignment explanation
Indices: 910360--910385 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
910350 CATTTTTCTG
910360 TGTATCGATACAT
1 TGTATCGATACAT
910373 TGTATCGATACAT
1 TGTATCGATACAT
910386 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:910382 original size:33 final size:33
Alignment explanation
Indices: 910340--910406 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
910330 GTCAAGGAAA
***
910340 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
910373 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
910406 T
1 T
910407 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:912928 original size:28 final size:27
Alignment explanation
Indices: 912861--912933 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
912851 CTTCACAGTC
* *
912861 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
912888 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
912916 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
912934 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:912978 original size:51 final size:51
Alignment explanation
Indices: 912916--913086 Score: 198
Period size: 51 Copynumber: 3.3 Consensus size: 51
912906 TTATTTCTGA
* * *
912916 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCGATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
912967 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
913020 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
913072 GAGGATACTCCAACC
1 GGGGATACTCCAACC
913087 TCGTTATTTC
Statistics
Matches: 97, Mismatches: 20, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 36 0.37
52 18 0.19
53 32 0.33
54 11 0.11
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:913105 original size:28 final size:28
Alignment explanation
Indices: 913069--913150 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
913059 ATTTTTCACA
*
913069 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
* *
913097 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTATTTC
*
913125 --CGAGGGAACACTCCAACCTCGTTATT
1 ATCG-GGG-ATACTCCAACCTCGTTATT
913151 ATCTCCAAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
26 2 0.04
27 3 0.07
28 41 0.89
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTATTTC
Found at i:913194 original size:213 final size:211
Alignment explanation
Indices: 912752--913179 Score: 524
Period size: 212 Copynumber: 2.0 Consensus size: 211
912742 AATTCTCCAC
* * **
912752 AATCGAGGATATTCCAACTCCGATTTTACTTTCAAAACATTAATTTTCTATAATCGGGGATACTC
1 AATCGGGGATATTCCAACCCCGATTTTACTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
* *
912817 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAGTCGGGGACACTCCAACCCCGTTA
66 CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
* * * * * *
912882 ATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACCCCGACTTTATTTTCAA
131 ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAA
* **
912947 AATATCGATTTTTCAT
196 AACATCGAAATTTCAT
* * * * *
912963 AATCGGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATCGGGGATAC
1 AATCGGGGATATTCCAACCCCGATTTTACTTTCAAAACACCAATTT-T-CTATAATCGGGGATAC
* * * *
913028 TCCAATTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAACCTCGT
64 TCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGT
* * *
913091 TATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCTCG-TTATTATCT
129 TA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACT-TTATCT
*
913155 CCAAAACAT-TAAATTTC-T
192 CCAAAACATCGAAATTTCAT
*
913173 CATCGGG
1 AATCGGG
913180 AAATATATTC
Statistics
Matches: 184, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
210 7 0.04
211 70 0.38
212 72 0.39
213 35 0.19
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (211 bp):
AATCGGGGATATTCCAACCCCGATTTTACTTTCAAAACACCAATTTTCTATAATCGGGGATACTC
CAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGACACTCCAACCCCGTTA
ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGAACACTCCAACCCCGACTTTATCTCCAA
AACATCGAAATTTCAT
Found at i:922996 original size:20 final size:20
Alignment explanation
Indices: 922973--923045 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
922963 ACAATTCAAA
922973 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
922993 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
923014 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
923034 GTATCGATACAT
1 GTATCGATACAT
923046 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:923017 original size:21 final size:21
Alignment explanation
Indices: 922991--923066 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
922981 ACATGTTGCA
922991 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
923012 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
923032 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
923053 ATGTATCGATACAT
1 ATGTATCGATACAT
923067 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:923024 original size:41 final size:41
Alignment explanation
Indices: 922973--923066 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
922963 ACAATTCAAA
*
922973 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
923014 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
923055 GTATCGATACAT
1 GTATCGATACAT
923067 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:923123 original size:13 final size:13
Alignment explanation
Indices: 923105--923130 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
923095 TACAGCAAGT
923105 ATGTATCGATACA
1 ATGTATCGATACA
923118 ATGTATCGATACA
1 ATGTATCGATACA
923131 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:929316 original size:20 final size:21
Alignment explanation
Indices: 929237--929315 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
929227 AATGTTCAAA
*
929237 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
929257 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
929282 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
929302 TTGTATCGATACAT
1 ATGTATCGATACAT
929316 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:929320 original size:13 final size:13
Alignment explanation
Indices: 929302--929340 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
929292 ACATTTTTCT
929302 TTGTATCGATACA
1 TTGTATCGATACA
929315 TTGTATCGATACA
1 TTGTATCGATACA
*
929328 CTGTATCGATACA
1 TTGTATCGATACA
929341 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:931138 original size:17 final size:17
Alignment explanation
Indices: 931116--931154 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
931106 GGAGAGAAAA
931116 GTGAAATAAATTTTGAT
1 GTGAAATAAATTTTGAT
931133 GTGAAATAAATTTTGAT
1 GTGAAATAAATTTTGAT
*
931150 ATGAA
1 GTGAA
931155 TTACTTGATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (17 bp):
GTGAAATAAATTTTGAT
Found at i:931817 original size:20 final size:20
Alignment explanation
Indices: 931794--931866 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
931784 ACAATTCAAA
931794 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
931814 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
931835 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
931855 GTATCGATACAT
1 GTATCGATACAT
931867 AAAAAAAGAT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:931845 original size:41 final size:42
Alignment explanation
Indices: 931794--931888 Score: 174
Period size: 41 Copynumber: 2.3 Consensus size: 42
931784 ACAATTCAAA
*
931794 GTATCGATACATGTTGCAATGTATCGATACAT-GAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
931835 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
931877 GTATCGATACAT
1 GTATCGATACAT
931889 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
41 32 0.62
42 20 0.38
ACGTcount: A:0.40, C:0.13, G:0.18, T:0.29
Consensus pattern (42 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAAGAT
Found at i:931945 original size:13 final size:13
Alignment explanation
Indices: 931927--931952 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
931917 TACAGCAAGT
931927 ATGTATCGATACA
1 ATGTATCGATACA
931940 ATGTATCGATACA
1 ATGTATCGATACA
931953 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:935591 original size:16 final size:16
Alignment explanation
Indices: 935570--935633 Score: 58
Period size: 16 Copynumber: 4.0 Consensus size: 16
935560 CCTTCTCTTC
935570 AAAAAAAAAGGAAAAA
1 AAAAAAAAAGGAAAAA
**
935586 AAAAAAAAAACAAAAA
1 AAAAAAAAAGGAAAAA
*
935602 ACAAAACAAA-GAAAAA
1 A-AAAAAAAAGGAAAAA
* * *
935618 GAGAGAAAAGGAAAAA
1 AAAAAAAAAGGAAAAA
935634 CCTACTTAAG
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
15 5 0.13
16 26 0.68
17 7 0.18
ACGTcount: A:0.83, C:0.05, G:0.12, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGGAAAAA
Found at i:936683 original size:55 final size:55
Alignment explanation
Indices: 936599--937386 Score: 1213
Period size: 55 Copynumber: 14.3 Consensus size: 55
936589 TCCGCTTTTT
936599 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
936654 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
936709 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
936764 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
936819 AGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
936874 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
936929 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
936984 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
937039 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
937094 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
937149 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
937204 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
937259 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
937314 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
937369 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
937387 TACAATTTAT
Statistics
Matches: 691, Mismatches: 26, Indels: 32
0.92 0.03 0.04
Matches are distributed among these distances:
53 2 0.00
54 17 0.02
55 655 0.95
56 15 0.02
57 2 0.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Done.