Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000341.1 Hibiscus syriacus cultivar Beakdansim tig00000632_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 104566
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:2462 original size:26 final size:26
Alignment explanation
Indices: 2426--2481 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
2416 TAAAAAAAAT
2426 GAAATTATGCCTTTCTTTTAGTATAA
1 GAAATTATGCCTTTCTTTTAGTATAA
2452 GAAATTATGCCTTTCTTTTAGTATAA
1 GAAATTATGCCTTTCTTTTAGTATAA
2478 GAAA
1 GAAA
2482 ATAATGATTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.11, G:0.12, T:0.43
Consensus pattern (26 bp):
GAAATTATGCCTTTCTTTTAGTATAA
Found at i:3117 original size:14 final size:14
Alignment explanation
Indices: 3098--3127 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
3088 GAATATATAT
3098 GTGATCCTTATGGA
1 GTGATCCTTATGGA
3112 GTGATCCTTATGGA
1 GTGATCCTTATGGA
3126 GT
1 GT
3128 TGTCTTTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.13, G:0.30, T:0.37
Consensus pattern (14 bp):
GTGATCCTTATGGA
Found at i:6117 original size:3 final size:3
Alignment explanation
Indices: 6109--6149 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
6099 AGTTCTTAGG
6109 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6150 TTAAAGTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:6824 original size:47 final size:47
Alignment explanation
Indices: 6726--6824 Score: 110
Period size: 47 Copynumber: 2.1 Consensus size: 47
6716 TCGAATAAAT
* * **
6726 GCATGCGAACTAGAAATCATGCGGTTAGGTTTATTTTTCTCGAACAA
1 GCATGCGAACTAGAAATCATGCGGTTAGGATTATTTGTCAAGAACAA
* * * *
6773 GCATGCGAATTAGATATCATGCGGTTAGGATT-TTTGTGAATAACAA
1 GCATGCGAACTAGAAATCATGCGGTTAGGATTATTTGTCAAGAACAA
6819 GGCATG
1 -GCATG
6825 GGGTAGATAT
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
46 9 0.21
47 34 0.79
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (47 bp):
GCATGCGAACTAGAAATCATGCGGTTAGGATTATTTGTCAAGAACAA
Found at i:13842 original size:42 final size:42
Alignment explanation
Indices: 13779--14002 Score: 173
Period size: 42 Copynumber: 5.1 Consensus size: 42
13769 ACTTAGTAAG
* *
13779 TCCTTCGGGCCATCAATAAGTCTTTCGAGCATGATGCTTAAA
1 TCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
* * *
13821 TCCTTAGGGCTATCAGTAAGTCTTTAGAGCATGATGATTAAA
1 TCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
** ** * * * *
13863 TCCTTAGGGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGC--AAA
1 TCCTTAGGGCCATCAGTAAGTCTT-TC----GAGCA-TGATGCTTAAA
* * * *
13909 TCCATCAGTAAGTGCCATCAATAAGTCTTTCGAGTATGATTCTTAAA
1 TCC-T---T-AGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
*
13956 TCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGATTAAA
1 TCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
13998 TCCTT
1 TCCTT
14003 CGGGTAATTT
Statistics
Matches: 139, Mismatches: 30, Indels: 26
0.71 0.15 0.13
Matches are distributed among these distances:
42 93 0.67
43 1 0.01
45 4 0.03
46 12 0.09
47 11 0.08
48 4 0.03
50 2 0.01
51 12 0.09
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (42 bp):
TCCTTAGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAA
Found at i:14030 original size:135 final size:135
Alignment explanation
Indices: 13787--14056 Score: 486
Period size: 135 Copynumber: 2.0 Consensus size: 135
13777 AGTCCTTCGG
*
13787 GCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCTATCAGTAAGTCTTTAGAGCA
1 GCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATCAGTAAGTCTTTAGAGCA
*
13852 TGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACGGAAGAGTAGTGAAGCAAATCCATCAG
66 TGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAG
13917 TAAGT
131 TAAGT
* * *
13922 GCCATCAATAAGTCTTTCGAGTATGATTCTTAAATCCTTAGGGCCATCAGTAAGTCTTTCGAGCA
1 GCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATCAGTAAGTCTTTAGAGCA
*
13987 TGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAG
66 TGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAG
14052 TAAGT
131 TAAGT
14057 CTTTCGAGCT
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
135 129 1.00
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (135 bp):
GCCATCAATAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGCCATCAGTAAGTCTTTAGAGCA
TGATGATTAAATCCTTAGGGTAATTTGTAAGCCTTCACCGAAGAGTAGTGAAGCAAATCCATCAG
TAAGT
Found at i:14098 original size:80 final size:80
Alignment explanation
Indices: 13965--14177 Score: 390
Period size: 80 Copynumber: 2.7 Consensus size: 80
13955 ATCCTTAGGG
13965 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
14030 AGTAGTGAAGCAAAT
66 AGTAGTGAAGCAAAT
*
14045 CCATCAGTAAGTCTTTCGAGCTTGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
*
14110 AGTAGTGAATCAAAT
66 AGTAGTGAAGCAAAT
* *
14125 CCATCAGTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTTGTAAG
1 CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAG
14178 TCTTTCGAGC
Statistics
Matches: 128, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
80 128 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.31
Consensus pattern (80 bp):
CCATCAGTAAGTCTTTCGAGCATGATGATTAAATCCTTCGGGTAATTTGTAAGCCTTCACCGAAG
AGTAGTGAAGCAAAT
Found at i:14194 original size:42 final size:41
Alignment explanation
Indices: 14131--14217 Score: 131
Period size: 42 Copynumber: 2.1 Consensus size: 41
14121 AAATCCATCA
* *
14131 GTAAGTCTTTCGAGCATGATGATGAAATCCTTCGGGTCATTT
1 GTAAGTCTTTCGAGCAAGATGAT-AAATCCTTCGGGCCATTT
*
14173 GTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATTT
1 GTAAGTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATTT
14214 -TAAG
1 GTAAG
14218 CCTTATCGGA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
40 4 0.10
41 16 0.38
42 22 0.52
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.33
Consensus pattern (41 bp):
GTAAGTCTTTCGAGCAAGATGATAAATCCTTCGGGCCATTT
Found at i:14680 original size:53 final size:53
Alignment explanation
Indices: 14588--14895 Score: 379
Period size: 53 Copynumber: 5.8 Consensus size: 53
14578 AGAATCACAC
*
14588 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAAAGGGAGCGAACCCGTAGA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
* * * * *
14641 CAGAAGATTGTTCGAGTTTTACTCCTTGGAGCGAGAGGGAGCGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
* * *
14694 CAGAAGATTGTTCGAGTTCTACTCCCTGAAACAAGAGGG-GTGAACCCGTAGG
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
*
14746 CAGAAGATTGTTCGAGTTCTACCCCCTGAAGCAAGAGGGAGCGAACCCGTA-A
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
* * * * * ***
14798 GCAGAAGATTATTCGAGTTCTACTCCCTGAAGCAATAGGGATCAAACCCATTTT
1 -CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
* * *
14852 TAGAAGATTATTCGAGTTCCTTAATCCCTGAA-CAAGAGGGAGCG
1 CAGAAGATTGTTCGAGTT-C-TACTCCCTGAAGCAAGAGGGAGCG
14896 GGACCATCAT
Statistics
Matches: 221, Mismatches: 29, Indels: 9
0.85 0.11 0.03
Matches are distributed among these distances:
52 49 0.22
53 152 0.69
54 10 0.05
55 10 0.05
ACGTcount: A:0.30, C:0.21, G:0.27, T:0.22
Consensus pattern (53 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAGAGGGAGCGAACCCGTAGA
Found at i:14783 original size:105 final size:106
Alignment explanation
Indices: 14588--14838 Score: 387
Period size: 105 Copynumber: 2.4 Consensus size: 106
14578 AGAATCACAC
14588 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAAAGGGAGCGAACCCGTAGACAGAAGATTGTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAAAGGGAGCGAACCCGTAGACAGAAGATTGTT
* * * * * *
14653 CGAGTTTTACTCCTTGGAGCGAGAGGGAGCGAACCCGTAGG
66 CGAGTTCTACCCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* * * *
14694 CAGAAGATTGTTCGAGTTCTACTCCCTGAAACAAGAGGG-GTGAACCCGTAGGCAGAAGATTGTT
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAAAGGGAGCGAACCCGTAGACAGAAGATTGTT
14758 CGAGTTCTACCCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
66 CGAGTTCTACCCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
* *
14799 CAGAAGATTATTCGAGTTCTACTCCCTGAAGCAATAGGGA
1 CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAAAGGGA
14839 TCAAACCCAT
Statistics
Matches: 131, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
105 94 0.72
106 37 0.28
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (106 bp):
CAGAAGATTGTTCGAGTTCTACTCCCTGAAGCAAAAGGGAGCGAACCCGTAGACAGAAGATTGTT
CGAGTTCTACCCCCTGAAGCAAGAGGGAGCGAACCCGTAAG
Found at i:16189 original size:13 final size:13
Alignment explanation
Indices: 16171--16199 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
16161 AGTTTAGGTC
16171 TAGGTTTTTTATT
1 TAGGTTTTTTATT
16184 TAGGTTTTTTATT
1 TAGGTTTTTTATT
16197 TAG
1 TAG
16200 ACATTTGGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.00, G:0.17, T:0.66
Consensus pattern (13 bp):
TAGGTTTTTTATT
Found at i:16534 original size:3 final size:3
Alignment explanation
Indices: 16526--16595 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
16516 AGTCCTTAGG
16526 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
16574 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
16596 GTCATGATAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:17939 original size:52 final size:51
Alignment explanation
Indices: 17870--17985 Score: 180
Period size: 52 Copynumber: 2.2 Consensus size: 51
17860 ATTCTTCAAT
*
17870 GTTCACATTAGGATAGGATT-AATTTTCGATTTTATTCGGATATTATTAATCA
1 GTTCACATT-GGATAGGATTAAATTTT-GATTTTATTCGGATACTATTAATCA
*
17922 GTTCACATTGGACTAGGATTAAATTTTGGTTTTATTCGGATACTATTAATCA
1 GTTCACATTGGA-TAGGATTAAATTTTGATTTTATTCGGATACTATTAATCA
17974 GTTCACATTGGA
1 GTTCACATTGGA
17986 AATTAATTAA
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
51 3 0.05
52 51 0.85
53 6 0.10
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.42
Consensus pattern (51 bp):
GTTCACATTGGATAGGATTAAATTTTGATTTTATTCGGATACTATTAATCA
Found at i:17995 original size:52 final size:52
Alignment explanation
Indices: 17870--18027 Score: 171
Period size: 52 Copynumber: 3.0 Consensus size: 52
17860 ATTCTTCAAT
*
17870 GTTCACATTAGGA-TAGGATT-AATTTTCGATTTTATTCGGATATTATTAATCA
1 GTTCACATT-GGACTA-GATTAAATTTTCGATTTTATTCGGATACTATTAATCA
*
17922 GTTCACATTGGACTAGGATTAAATTTT-GGTTTTATTCGGATACTATTAATCA
1 GTTCACATTGGACTA-GATTAAATTTTCGATTTTATTCGGATACTATTAATCA
* * *
17974 GTTCACATTGGAAATTA-ATTAATTATTTTCGATTTTGTTCGGATGCTAATTAAT
1 GTTCACATTGG--ACTAGATTAA--ATTTTCGATTTTATTCGGATACT-ATTAAT
18028 TGTCTTTGTT
Statistics
Matches: 92, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
51 3 0.03
52 55 0.60
53 6 0.07
54 8 0.09
55 14 0.15
56 6 0.07
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (52 bp):
GTTCACATTGGACTAGATTAAATTTTCGATTTTATTCGGATACTATTAATCA
Found at i:19145 original size:2 final size:2
Alignment explanation
Indices: 19138--19230 Score: 186
Period size: 2 Copynumber: 46.5 Consensus size: 2
19128 AAATACATAC
19138 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19180 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19222 AT AT AT AT A
1 AT AT AT AT A
19231 ATCAATGAAA
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 91 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:19441 original size:30 final size:30
Alignment explanation
Indices: 19401--19463 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
19391 TATTTATAAA
* * *
19401 ATTGGCATAATTATATATTTGGTTCTTAAT
1 ATTGGAATAATTATACATTTGGTCCTTAAT
19431 ATTGGAATAATTATACATTTGGTCCTTAAT
1 ATTGGAATAATTATACATTTGGTCCTTAAT
19461 ATT
1 ATT
19464 TACATATTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.48
Consensus pattern (30 bp):
ATTGGAATAATTATACATTTGGTCCTTAAT
Found at i:19824 original size:16 final size:16
Alignment explanation
Indices: 19799--19831 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
19789 GTTAAAACAA
19799 TTAAACAAATTATTTT
1 TTAAACAAATTATTTT
*
19815 TTAAATAAATTATTTT
1 TTAAACAAATTATTTT
19831 T
1 T
19832 CTTTAACTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTAAACAAATTATTTT
Found at i:20033 original size:81 final size:81
Alignment explanation
Indices: 19910--20059 Score: 257
Period size: 81 Copynumber: 1.9 Consensus size: 81
19900 ACCAAACCAA
* *
19910 ATTAACCGAATTTTTTTTCTTTAACATTAATCGAACCGAAATTATTTCACTGTTAATCGAACCGA
1 ATTAACCGAATTTTTTTTCTTTAACATTAATCGAACCAAAATTATTTCACCGTTAATCGAACCGA
19975 AATTGGAGCAATAATT
66 AATTGGAGCAATAATT
*
19991 ATTAACCGAA-TTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCG
1 ATTAACCGAATTTTTTTTCTTTAA-CATTAATCGAACCAAAATTATTTCACCGTTAATCGAACCG
20055 AAATT
65 AAATT
20060 TATTTAAAAA
Statistics
Matches: 65, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
80 13 0.20
81 52 0.80
ACGTcount: A:0.36, C:0.17, G:0.10, T:0.37
Consensus pattern (81 bp):
ATTAACCGAATTTTTTTTCTTTAACATTAATCGAACCAAAATTATTTCACCGTTAATCGAACCGA
AATTGGAGCAATAATT
Found at i:20072 original size:81 final size:81
Alignment explanation
Indices: 19910--20081 Score: 249
Period size: 81 Copynumber: 2.1 Consensus size: 81
19900 ACCAAACCAA
* *
19910 ATTAACCGAATTTTTTTTCTTTAACATTAATCGAACCGAAATTATTTCACTGTTAATCGAACCGA
1 ATTAACCGAATTTTTTTTCTTTAACATTAATCGAACCAAAATTATTTCACCGTTAATCGAACCGA
*
19975 AATTGGAGCAATAATT
66 AATTGGAGCAAAAATT
*
19991 ATTAACCGAA-TTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCG
1 ATTAACCGAATTTTTTTTCTTTAA-CATTAATCGAACCAAAATTATTTCACCGTTAATCGAACCG
* **
20055 AAATT-TATTTAAAAATT
65 AAATTGGA-GCAAAAATT
20072 ATTAACCGAA
1 ATTAACCGAA
20082 CAAAATCAAC
Statistics
Matches: 82, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
80 14 0.17
81 68 0.83
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.37
Consensus pattern (81 bp):
ATTAACCGAATTTTTTTTCTTTAACATTAATCGAACCAAAATTATTTCACCGTTAATCGAACCGA
AATTGGAGCAAAAATT
Found at i:20107 original size:94 final size:95
Alignment explanation
Indices: 19994--20175 Score: 303
Period size: 94 Copynumber: 1.9 Consensus size: 95
19984 AATAATTATT
* * * *
19994 AACCGAATTTTTTTCTTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCGAAAT
1 AACCGAATTTTTTTATTTAACCATTAATCAAAACAAAATTATTTGACCGTTAATCGAACCCAAAT
20059 TTATTTAAAAATTATTAACCGAACAAAATC
66 TTATTTAAAAATTATTAACCGAACAAAATC
20089 AACCG-ATTTTTTTATTTAACCATTAATCAAAACAAAATTATTTGACCGTTAATCGAACCCAAAT
1 AACCGAATTTTTTTATTTAACCATTAATCAAAACAAAATTATTTGACCGTTAATCGAACCCAAAT
* *
20153 TTATTTGAAAATTATTAATCGAA
66 TTATTTAAAAATTATTAACCGAA
20176 TTAACCAAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
94 76 0.94
95 5 0.06
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.35
Consensus pattern (95 bp):
AACCGAATTTTTTTATTTAACCATTAATCAAAACAAAATTATTTGACCGTTAATCGAACCCAAAT
TTATTTAAAAATTATTAACCGAACAAAATC
Found at i:20152 original size:26 final size:27
Alignment explanation
Indices: 20099--20160 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
20089 AACCGATTTT
*
20099 TTTATTTAACCATTAATCAAAACAAAA
1 TTTATTTGACCATTAATCAAAACAAAA
* * * *
20126 -TTATTTGACCGTTAATCGAACCCAAA
1 TTTATTTGACCATTAATCAAAACAAAA
20152 TTTATTTGA
1 TTTATTTGA
20161 AAATTATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 21 0.72
27 8 0.28
ACGTcount: A:0.40, C:0.16, G:0.06, T:0.37
Consensus pattern (27 bp):
TTTATTTGACCATTAATCAAAACAAAA
Found at i:20198 original size:94 final size:94
Alignment explanation
Indices: 20009--20199 Score: 231
Period size: 94 Copynumber: 2.0 Consensus size: 94
19999 AATTTTTTTC
* * *
20009 TTTAACCATTAATCGAACCAAAATTATTTGACCGTTAATCGAACCGAAATTTATTTAAAAATTAT
1 TTTAACCATTAATCAAAACAAAATTATTTGACCGTTAATCGAACCCAAATTTATTTAAAAATTAT
* ** * ***
20074 TAACCGAACAAAATCAACCGATTTTTTTA
66 TAACCGAACAAAACCAACAAAATAAATTA
*
20103 TTTAACCATTAATCAAAACAAAATTATTTGACCGTTAATCGAACCCAAATTTATTTGAAAATTAT
1 TTTAACCATTAATCAAAACAAAATTATTTGACCGTTAATCGAACCCAAATTTATTTAAAAATTAT
* ** *
20168 TAATCGAA-TTAACCAAATAAAATAAATTA
66 TAACCGAACAAAACC-AACAAAATAAATTA
20197 TTT
1 TTT
20200 TTCTTTAACC
Statistics
Matches: 81, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
93 3 0.04
94 78 0.96
ACGTcount: A:0.44, C:0.15, G:0.06, T:0.35
Consensus pattern (94 bp):
TTTAACCATTAATCAAAACAAAATTATTTGACCGTTAATCGAACCCAAATTTATTTAAAAATTAT
TAACCGAACAAAACCAACAAAATAAATTA
Found at i:21430 original size:21 final size:21
Alignment explanation
Indices: 21404--21448 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
21394 TCAATTTTGT
*
21404 TAAAAATATTAATATTTTAGA
1 TAAAAATAATAATATTTTAGA
*
21425 TAAAAATAATAATTTTTTAGA
1 TAAAAATAATAATATTTTAGA
21446 TAA
1 TAA
21449 TTTTTTTTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.42
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAGA
Found at i:26816 original size:21 final size:21
Alignment explanation
Indices: 26792--26834 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
26782 AATGGCTTCT
*
26792 GAAG-AGCTGCGCAAAGCAAAG
1 GAAGAAGCAGCGC-AAGCAAAG
26813 GAAGAAGCAGCGCAAGCAAAG
1 GAAGAAGCAGCGCAAGCAAAG
26834 G
1 G
26835 CTGGAGCAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.44, C:0.19, G:0.35, T:0.02
Consensus pattern (21 bp):
GAAGAAGCAGCGCAAGCAAAG
Found at i:37190 original size:21 final size:21
Alignment explanation
Indices: 37165--37225 Score: 104
Period size: 21 Copynumber: 2.9 Consensus size: 21
37155 ATATGTGAAC
37165 ATGTGAATTATATGAAAAGTG
1 ATGTGAATTATATGAAAAGTG
37186 ATGTGAATTATATGAAAAGTG
1 ATGTGAATTATATGAAAAGTG
* *
37207 ATATGAATTACATGAAAAG
1 ATGTGAATTATATGAAAAG
37226 AAGTTATATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.46, C:0.02, G:0.21, T:0.31
Consensus pattern (21 bp):
ATGTGAATTATATGAAAAGTG
Found at i:40150 original size:7 final size:7
Alignment explanation
Indices: 40138--40207 Score: 76
Period size: 7 Copynumber: 10.4 Consensus size: 7
40128 GTCAAAGAAA
40138 GTCAACG
1 GTCAACG
40145 GTCAACG
1 GTCAACG
40152 GTC-ACG
1 GTCAACG
40158 GTCAACG
1 GTCAACG
*
40165 GTC-ATG
1 GTCAACG
*
40171 GTTAACG
1 GTCAACG
40178 GTCAACGG
1 GTCAAC-G
40186 GTCAACG
1 GTCAACG
*
40193 GTC--GG
1 GTCAACG
40198 GTCAACG
1 GTCAACG
40205 GTC
1 GTC
40208 GGGTCGGGTC
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
5 4 0.08
6 10 0.19
7 31 0.60
8 7 0.13
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.19
Consensus pattern (7 bp):
GTCAACG
Found at i:40160 original size:13 final size:13
Alignment explanation
Indices: 40142--40207 Score: 80
Period size: 13 Copynumber: 5.0 Consensus size: 13
40132 AAGAAAGTCA
40142 ACGGTCAACGGTC
1 ACGGTCAACGGTC
40155 ACGGTCAACGGTC
1 ACGGTCAACGGTC
* *
40168 ATGGTTAACGGTC
1 ACGGTCAACGGTC
40181 AACGGGTCAACGGTC
1 -AC-GGTCAACGGTC
*
40196 -GGGTCAACGGTC
1 ACGGTCAACGGTC
40208 GGGTCGGGTC
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
12 11 0.24
13 24 0.52
14 1 0.02
15 10 0.22
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.18
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:40163 original size:20 final size:20
Alignment explanation
Indices: 40138--40207 Score: 81
Period size: 20 Copynumber: 3.5 Consensus size: 20
40128 GTCAAAGAAA
40138 GTCAACGGTCAACGGTCACG
1 GTCAACGGTCAACGGTCACG
* *
40158 GTCAACGGTC-ATGGTTAACG
1 GTCAACGGTCAACGG-TCACG
*
40178 GTCAACGGGTCAACGGTC-GG
1 GTCAAC-GGTCAACGGTCACG
40198 GTCAACGGTC
1 GTCAACGGTC
40208 GGGTCGGGTC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
19 7 0.17
20 27 0.64
21 5 0.12
22 3 0.07
ACGTcount: A:0.23, C:0.26, G:0.33, T:0.19
Consensus pattern (20 bp):
GTCAACGGTCAACGGTCACG
Found at i:47432 original size:20 final size:20
Alignment explanation
Indices: 47407--47449 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
47397 GTCAAAGAAA
47407 GTCAACGATCAACGGTC-ACG
1 GTCAACGATC-ACGGTCAACG
*
47427 GTCAACGGTCACGGTCAACG
1 GTCAACGATCACGGTCAACG
47447 GTC
1 GTC
47450 GGGTCGGGTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (20 bp):
GTCAACGATCACGGTCAACG
Found at i:47433 original size:13 final size:13
Alignment explanation
Indices: 47415--47449 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
47405 AAGTCAACGA
47415 TCAACGGTCACGG
1 TCAACGGTCACGG
47428 TCAACGGTCACGG
1 TCAACGGTCACGG
47441 TCAACGGTC
1 TCAACGGTC
47450 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.23, C:0.31, G:0.29, T:0.17
Consensus pattern (13 bp):
TCAACGGTCACGG
Found at i:47461 original size:17 final size:17
Alignment explanation
Indices: 47439--47496 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
47429 CAACGGTCAC
47439 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
47456 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
47473 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
47490 GGTCAAC
1 GGTCAAC
47497 CCGGTTCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.16, C:0.24, G:0.43, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:47466 original size:7 final size:7
Alignment explanation
Indices: 47407--47449 Score: 63
Period size: 7 Copynumber: 6.4 Consensus size: 7
47397 GTCAAAGAAA
47407 GTCAACG
1 GTCAACG
*
47414 ATCAACG
1 GTCAACG
47421 GTC-ACG
1 GTCAACG
47427 GTCAACG
1 GTCAACG
47434 GTC-ACG
1 GTCAACG
47440 GTCAACG
1 GTCAACG
47447 GTC
1 GTC
47450 GGGTCGGGTC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 12 0.38
7 20 0.62
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:47514 original size:19 final size:19
Alignment explanation
Indices: 47490--47554 Score: 96
Period size: 19 Copynumber: 3.4 Consensus size: 19
47480 AGTCGGGTCG
*
47490 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
47509 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
47528 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAG-ACC
47547 GGTTCAAA
1 GG-TCAAA
47555 ACTGGTCAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 3
0.91 0.02 0.06
Matches are distributed among these distances:
18 1 0.02
19 37 0.86
20 5 0.12
ACGTcount: A:0.26, C:0.31, G:0.26, T:0.17
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:47520 original size:9 final size:9
Alignment explanation
Indices: 47490--47569 Score: 70
Period size: 10 Copynumber: 8.3 Consensus size: 9
47480 AGTCGGGTCG
*
47490 GGTCAACCC
1 GGTCAAACC
*
47499 GGTTCAGACC
1 GG-TCAAACC
47509 GGTCAAACC
1 GGTCAAACC
*
47518 GGTTCAGACC
1 GG-TCAAACC
47528 GGTCAAACC
1 GGTCAAACC
*
47537 GGTTCGAACC
1 GG-TCAAACC
*
47547 GGTTCAAAACT
1 GG-TC-AAACC
47558 GGTCAAACC
1 GGTCAAACC
47567 GGT
1 GGT
47570 TTTCCAGCAG
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
9 25 0.43
10 28 0.48
11 5 0.09
ACGTcount: A:0.26, C:0.30, G:0.26, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:50520 original size:19 final size:19
Alignment explanation
Indices: 50496--50547 Score: 95
Period size: 19 Copynumber: 2.7 Consensus size: 19
50486 GAATGCAATT
50496 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
50515 AGTGCATCGATGCATAAGG
1 AGTGCATCGATGCATAAGG
*
50534 AGTACATCGATGCA
1 AGTGCATCGATGCA
50548 CCTGCTTAAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 32 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (19 bp):
AGTGCATCGATGCATAAGG
Found at i:51762 original size:615 final size:615
Alignment explanation
Indices: 50817--52045 Score: 2359
Period size: 615 Copynumber: 2.0 Consensus size: 615
50807 CAAGGCGAAG
50817 GTGAGTGCATATGATTATAGTATATGATTATATGGAAATTAGACTTGCGATGAGTCTATTTCCAT
1 GTGAGTGCATATGATTATAGTATATGATTATATGGAAATTAGACTTGCGATGAGTCTATTTCCAT
50882 GTTTTGATTTTATGAATGCATGAAAATAAGTATAGTTGGTAGTCGTTAGTATGTGGATATGTATT
66 GTTTTGATTTTATGAATGCATGAAAATAAGTATAGTTGGTAGTCGTTAGTATGTGGATATGTATT
50947 GTTATGTTATTTTCTATGTGATATGATTTATGTGATGATGTGACTCTGTGATATAAGTTATATGA
131 GTTATGTTATTTTCTATGTGATATGATTTATGTGATGATGTGACTCTGTGATATAAGTTATATGA
51012 TCATAAATTATGTAAATAATAATGACTTATGTAATGACAAGAGAAAGTGATATAAGCTATGTGGT
196 TCATAAATTATGTAAATAATAATGACTTATGTAATGACAAGAGAAAGTGATATAAGCTATGTGGT
*
51077 ATAGATATAAATGATTATATGAACATGTAATATAAGTTATGTGATGAGGATCTATGTTTTTTATA
261 ATAGATATAAATGATTATATGAACATGTAATATAAATTATGTGATGAGGATCTATGTTTTTTATA
* *
51142 TGTCTATGAGAAGTATGTGTTATGTGATGTATATATGAGTTATGTGATCCTATGAGATTATGAAA
326 TGTCTATGAGAAGTATGTGCTATATGATGTATATATGAGTTATGTGATCCTATGAGATTATGAAA
*
51207 ATAGATATGTGAACATGTGAATTATATGAAAAGTGATATGAATTACATGAAAAGAAGCTATATGT
391 AGAGATATGTGAACATGTGAATTATATGAAAAGTGATATGAATTACATGAAAAGAAGCTATATGT
51272 CTACATGTATATGTGAAAGAAGCTATGAGCTTATATGAACATATGATATGAAAATGTATATGTGA
456 CTACATGTATATGTGAAAGAAGCTATGAGCTTATATGAACATATGATATGAAAATGTATATGTGA
*
51337 AATTATATAAGTGAAAATGCCCATGTTATGTGTATTGAGAGCTAGAGGTATAGTTGGCATGCCAA
521 AATGATATAAGTGAAAATGCCCATGTTATGTGTATTGAGAGCTAGAGGTATAGTTGGCATGCCAA
*
51402 GAGTCGAGGGTCTACGCGGTCCTTCGGGAT
586 GAGTAGAGGGTCTACGCGGTCCTTCGGGAT
51432 GTGAGTGCATATGATTATAGTATATGATTATATGGAAATTAGACTTGCGATGAGTCTATTTCCAT
1 GTGAGTGCATATGATTATAGTATATGATTATATGGAAATTAGACTTGCGATGAGTCTATTTCCAT
51497 GTTTTGATTTTATGAATGCATGAAAATAAGTATAGTTGGTAGTCGTTAGTATGTGGATATGTATT
66 GTTTTGATTTTATGAATGCATGAAAATAAGTATAGTTGGTAGTCGTTAGTATGTGGATATGTATT
*
51562 GTTATGTTCTTTTCTATGTGATATGATTTATGTGATGATGTGACTCTGTGATATAAGTTATATGA
131 GTTATGTTATTTTCTATGTGATATGATTTATGTGATGATGTGACTCTGTGATATAAGTTATATGA
51627 TCATAAATTATGTAAATAATAATGACTTATGTAATGACAAGAGAAAGTGATATAAGCTATGTGGT
196 TCATAAATTATGTAAATAATAATGACTTATGTAATGACAAGAGAAAGTGATATAAGCTATGTGGT
*
51692 ATATATATAAATGATTATATGAACATGTAATATAAATTATGTGATGAGGATCTATGTTTTTTATA
261 ATAGATATAAATGATTATATGAACATGTAATATAAATTATGTGATGAGGATCTATGTTTTTTATA
51757 TGTCTATGAGAAGTATGTGCTATATGATGTATATATGAGTTATGTGATCCTATGAGATTATGAAA
326 TGTCTATGAGAAGTATGTGCTATATGATGTATATATGAGTTATGTGATCCTATGAGATTATGAAA
*
51822 AGAGATATGTGAACATGTGAATTATATGAAAAGTGATATGAATTACATGAAGAGAAGCTATATGT
391 AGAGATATGTGAACATGTGAATTATATGAAAAGTGATATGAATTACATGAAAAGAAGCTATATGT
*
51887 CTATATGTATATGTGAAAGAAGCTATGAGCTTATATGAACATATGATATGAAAATGTATATGTGA
456 CTACATGTATATGTGAAAGAAGCTATGAGCTTATATGAACATATGATATGAAAATGTATATGTGA
*
51952 AATGATATAAGTGAAAATGCCCATGTTATGTGTATTGAGAGCTAGAGGTATAGTTGTCATGCCAA
521 AATGATATAAGTGAAAATGCCCATGTTATGTGTATTGAGAGCTAGAGGTATAGTTGGCATGCCAA
52017 GAGTAGAGGGTCTACGCGGTCCTTCGGGA
586 GAGTAGAGGGTCTACGCGGTCCTTCGGGA
52046 CATATGTGTT
Statistics
Matches: 603, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
615 603 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.37
Consensus pattern (615 bp):
GTGAGTGCATATGATTATAGTATATGATTATATGGAAATTAGACTTGCGATGAGTCTATTTCCAT
GTTTTGATTTTATGAATGCATGAAAATAAGTATAGTTGGTAGTCGTTAGTATGTGGATATGTATT
GTTATGTTATTTTCTATGTGATATGATTTATGTGATGATGTGACTCTGTGATATAAGTTATATGA
TCATAAATTATGTAAATAATAATGACTTATGTAATGACAAGAGAAAGTGATATAAGCTATGTGGT
ATAGATATAAATGATTATATGAACATGTAATATAAATTATGTGATGAGGATCTATGTTTTTTATA
TGTCTATGAGAAGTATGTGCTATATGATGTATATATGAGTTATGTGATCCTATGAGATTATGAAA
AGAGATATGTGAACATGTGAATTATATGAAAAGTGATATGAATTACATGAAAAGAAGCTATATGT
CTACATGTATATGTGAAAGAAGCTATGAGCTTATATGAACATATGATATGAAAATGTATATGTGA
AATGATATAAGTGAAAATGCCCATGTTATGTGTATTGAGAGCTAGAGGTATAGTTGGCATGCCAA
GAGTAGAGGGTCTACGCGGTCCTTCGGGAT
Found at i:57382 original size:3 final size:3
Alignment explanation
Indices: 57374--57511 Score: 269
Period size: 3 Copynumber: 46.3 Consensus size: 3
57364 GATGGAAAGA
57374 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
57422 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
57469 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
57512 GTGAAAAGCT
Statistics
Matches: 134, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
2 2 0.01
3 132 0.99
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:63414 original size:56 final size:56
Alignment explanation
Indices: 63325--63521 Score: 274
Period size: 56 Copynumber: 3.6 Consensus size: 56
63315 CAGGGTCCCA
* * * * *
63325 AAAAATAGGGCT-CCGAAATCGAATATATTTATCAATTGTTGTCATTAATAAGCAT
1 AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
* *
63380 AAAAATAGGGGTCCCGAAATCGAGTATATCTATCAGTTGTTGCCATTAAGAAACAT
1 AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
* * *
63436 AAAAATAGGAGCCCCGATATCGAATATATC-ATCAGTTGTTGCCATTAAGAAGCAT
1 AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
*
63491 AAAAATAAGGG-CCCGAAATCGAATATATCTA
1 AAAAATAGGGGTCCCGAAATCGAATATATCTA
63522 AAAAATAGGG
Statistics
Matches: 125, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
54 17 0.14
55 45 0.36
56 63 0.50
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.27
Consensus pattern (56 bp):
AAAAATAGGGGTCCCGAAATCGAATATATCTATCAGTTGTTGCCATTAAGAAGCAT
Found at i:66718 original size:2 final size:2
Alignment explanation
Indices: 66707--66746 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
66697 ACGTTTAATT
66707 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66747 TATTTTATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:66815 original size:2 final size:2
Alignment explanation
Indices: 66808--66854 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
66798 GGTTTGAGTT
66808 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
66850 TA TA T
1 TA TA T
66855 TATTCAAATG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:67079 original size:7 final size:8
Alignment explanation
Indices: 67064--67099 Score: 72
Period size: 8 Copynumber: 4.5 Consensus size: 8
67054 GTTAAATTTA
67064 TATTTTTT
1 TATTTTTT
67072 TATTTTTT
1 TATTTTTT
67080 TATTTTTT
1 TATTTTTT
67088 TATTTTTT
1 TATTTTTT
67096 TATT
1 TATT
67100 ATAACTTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TATTTTTT
Found at i:67566 original size:16 final size:16
Alignment explanation
Indices: 67545--67603 Score: 100
Period size: 16 Copynumber: 3.7 Consensus size: 16
67535 TAATAAATAA
67545 ACGAACATAAAAGAAC
1 ACGAACATAAAAGAAC
*
67561 ACGAACATAAACGAAC
1 ACGAACATAAAAGAAC
*
67577 ACGAACATAAATGAAC
1 ACGAACATAAAAGAAC
67593 ACGAACATAAA
1 ACGAACATAAA
67604 CGTTAGAGAC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 41 1.00
ACGTcount: A:0.59, C:0.20, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAAAGAAC
Found at i:67581 original size:32 final size:32
Alignment explanation
Indices: 67545--67605 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
67535 TAATAAATAA
67545 ACGAACATAAAAGAACACGAACATAAACGAAC
1 ACGAACATAAAAGAACACGAACATAAACGAAC
*
67577 ACGAACATAAATGAACACGAACATAAACG
1 ACGAACATAAAAGAACACGAACATAAACG
67606 TTAGAGACCC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.57, C:0.21, G:0.13, T:0.08
Consensus pattern (32 bp):
ACGAACATAAAAGAACACGAACATAAACGAAC
Found at i:73261 original size:20 final size:20
Alignment explanation
Indices: 73236--73287 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
73226 GATTTTCAAG
* *
73236 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
73256 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
73276 AATCGCAACGCG
1 AATCGCAACGCG
73288 TATCCGTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.42, C:0.27, G:0.19, T:0.12
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:73297 original size:20 final size:19
Alignment explanation
Indices: 73274--73539 Score: 264
Period size: 20 Copynumber: 13.3 Consensus size: 19
73264 CGCGAACACA
73274 TAAATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
*
73294 TAAACCGCAACGTGTATCCG
1 TAAATCGCAACG-GTATCCG
*
73314 TAAATAGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
73334 TAAATCGCAATAC-GTATCCG
1 TAAATCGC-A-ACGGTATCCG
*
73354 TATATCGCAACGCGTATCCG
1 TAAATCGCAACG-GTATCCG
* *
73374 TAAATCACAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
73394 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
73414 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
*
73434 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
73454 TAAATCGCAACGAGAATCTG
1 TAAATCGCAACG-GTATCCG
*
73474 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
* *
73494 TAAATCGCAACGATAATCTG
1 TAAATCGCAACGGT-ATCCG
*
73514 TAAATCGCAACGATAATCCG
1 TAAATCGCAACGGT-ATCCG
73534 TAAATC
1 TAAATC
73540 ACCTTTTGGG
Statistics
Matches: 212, Mismatches: 25, Indels: 18
0.83 0.10 0.07
Matches are distributed among these distances:
18 2 0.01
19 2 0.01
20 205 0.97
21 1 0.00
22 2 0.01
ACGTcount: A:0.37, C:0.25, G:0.17, T:0.21
Consensus pattern (19 bp):
TAAATCGCAACGGTATCCG
Found at i:73303 original size:40 final size:40
Alignment explanation
Indices: 73236--73539 Score: 303
Period size: 40 Copynumber: 7.6 Consensus size: 40
73226 GATTTTCAAG
* ** * * *
73236 AATCGCAACGCGAATATGAAAATCGCAACGCGAA-CACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATC-CGTA
* * *
73276 AATCGCAACGCGTATCCGTAAACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTA
* * *
73316 AATAGCAACGCGTATCCGTAAATCGCAA-TACGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGA-GAATCCGTA
* * *
73356 TATCGCAACGCGTATCCGTAAATCACAACGATAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTA
* * * *
73396 AATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTA
* *
73436 AATCGCAACG-ATAATCCGTAAATCGCAACGAGAATCTGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGAGAATCCGTA
* * *
73476 AATCGCAACG-ATAATCCGTAAATCGCAACGATAATCTGTA
1 AATCGCAACGCGT-ATCCGTAAATCGCAACGAGAATCCGTA
*
73516 AATCGCAACG-ATAATCCGTAAATC
1 AATCGCAACGCGT-ATCCGTAAATC
73540 ACCTTTTGGG
Statistics
Matches: 231, Mismatches: 29, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
40 229 0.99
41 2 0.01
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (40 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGAGAATCCGTA
Found at i:73324 original size:60 final size:60
Alignment explanation
Indices: 73255--73539 Score: 317
Period size: 60 Copynumber: 4.8 Consensus size: 60
73245 GCGAATATGA
* * * * * *
73255 AAATCGCAACGCGAA-CACATAAATCGCAACGCGTATCCGTAAACCGCAACG-TGTATCCGT
1 AAATCGCAACGAGAATC-CGTAAATCGCAACGAGAATCCGTAAATCGCAACGAT-AATCCGT
* * * * * * *
73315 AAATAGCAACGCGTATCCGTAAATCGCAA-TACGTATCCGTATATCGCAACGCGT-ATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGA-GAATCCGTAAATCGCAACG-ATAATCCGT
* * *
73375 AAATCACAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* *
73435 AAATCGCAACGATAATCCGTAAATCGCAACGAGAATCTGTAAATCGCAACGATAATCCGT
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
* * *
73495 AAATCGCAACGATAATCTGTAAATCGCAACGATAATCCGTAAATC
1 AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATC
73540 ACCTTTTGGG
Statistics
Matches: 198, Mismatches: 21, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
59 1 0.01
60 194 0.98
61 2 0.01
62 1 0.01
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.20
Consensus pattern (60 bp):
AAATCGCAACGAGAATCCGTAAATCGCAACGAGAATCCGTAAATCGCAACGATAATCCGT
Found at i:73781 original size:33 final size:34
Alignment explanation
Indices: 73711--73876 Score: 192
Period size: 33 Copynumber: 4.8 Consensus size: 34
73701 GCATTTGACT
** * * * *
73711 ATCGCAACACGGAAATTACAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
*
73745 ATCGCAATGC-GAAATGAAAATCCCAACAAGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
73778 ATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAA
1 ATCGCAATGCGGAAATGAAAATCGCAA--C--AA-GAAA
* *
73817 ATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
73850 ATCGCAATGCGGAAATGAAAATCGCAA
1 ATCGCAATGCGGAAATGAAAATCGCAA
73877 TGCGAAATGA
Statistics
Matches: 115, Mismatches: 10, Indels: 14
0.83 0.07 0.10
Matches are distributed among these distances:
33 41 0.36
34 40 0.35
36 2 0.02
38 18 0.16
39 14 0.12
ACGTcount: A:0.46, C:0.19, G:0.21, T:0.13
Consensus pattern (34 bp):
ATCGCAATGCGGAAATGAAAATCGCAACAAGAAA
Found at i:73807 original size:53 final size:50
Alignment explanation
Indices: 73730--73980 Score: 244
Period size: 53 Copynumber: 4.8 Consensus size: 50
73720 CGGAAATTAC
* *
73730 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCCCAA-C-AA-GAA
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAAGCAAATGAA
73777 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAAAATCGCAATGCGAAATGAAAATCGCAA-GC-AAATGAA
*
73835 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAAAATCGCAATGC-GAAATGAAAATCGCAA-GC-AAATGAA
* * * *
73888 AATCGCAACGAGAGAATCGCAATCCGAAATGAAAATCGCAA-C-GA-GAG
1 AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAAGCAAATGAA
73935 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCA
1 AATCGCAA--C-G--A-GAAAATCGCAATGCGAAATGAAAATCGCA
73981 TTGCGATTCT
Statistics
Matches: 178, Mismatches: 8, Indels: 30
0.82 0.04 0.14
Matches are distributed among these distances:
47 18 0.10
48 1 0.01
49 2 0.01
50 3 0.02
52 31 0.17
53 107 0.60
55 2 0.01
56 1 0.01
57 2 0.01
58 11 0.06
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.13
Consensus pattern (50 bp):
AATCGCAACGAGAAAATCGCAATGCGAAATGAAAATCGCAAGCAAATGAA
Found at i:73837 original size:72 final size:72
Alignment explanation
Indices: 73744--73977 Score: 304
Period size: 72 Copynumber: 3.3 Consensus size: 72
73734 GCAACGAGAG
73744 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
73809 AAATGAA
66 AAATGAA
* * *
73816 AATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
73881 AAATGAA
66 AAATGAA
* * * * * *
73888 AATCGCAACGAGAGAATCG-CAATCCGAA-ATGAAAATCGCAA--C-G--A-GAGAATCGCAATG
1 AATCGCAATGCGA-AAT-GAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATG
73945 CGGAAATGAA
64 C-GAAATGAA
73955 AATCGCAATGCGAAATGAAAATC
1 AATCGCAATGCGAAATGAAAATC
73978 GCATTGCGAT
Statistics
Matches: 143, Mismatches: 15, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
65 1 0.01
66 20 0.14
67 20 0.14
69 1 0.01
70 1 0.01
72 90 0.63
73 9 0.06
74 1 0.01
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.14
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACAAGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:73907 original size:14 final size:14
Alignment explanation
Indices: 73888--73942 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
73878 GCGAAATGAA
73888 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
73902 AATCGCAATCCGAAATGAA
1 AATCGCAA--CG--A-GAG
73921 AATCGCAACGAGAG
1 AATCGCAACGAGAG
73935 AATCGCAA
1 AATCGCAA
73943 TGCGGAAATG
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.29
ACGTcount: A:0.45, C:0.22, G:0.22, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:73916 original size:33 final size:33
Alignment explanation
Indices: 73869--73962 Score: 161
Period size: 33 Copynumber: 2.8 Consensus size: 33
73859 CGGAAATGAA
*
73869 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATCCGAAATGAAAATCGCAACGAGAG
73902 AATCGCAATCCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATCCGAAATGAAAATCGCAACGAGAG
*
73935 AATCGCAATGCGGAAATGAAAATCGCAA
1 AATCGCAAT-CCGAAATGAAAATCGCAA
73963 TGCGAAATGA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
33 41 0.71
34 17 0.29
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.13
Consensus pattern (33 bp):
AATCGCAATCCGAAATGAAAATCGCAACGAGAG
Found at i:73926 original size:86 final size:89
Alignment explanation
Indices: 73774--73980 Score: 348
Period size: 86 Copynumber: 2.3 Consensus size: 89
73764 ATCCCAACAA
*
73774 GAAAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATC
1 GAAAATCGCAATGC-GAAATGAAAATCGCAA-GCG-AATGAAAATCGCAATCCGAAATGAAAATC
73839 GCAACGAGAGAATCGCAATGCGGAAAT
63 GCAACGAGAGAATCGCAATGCGGAAAT
*
73866 GAAAATCGCAATGCGAAATGAAAATCGCAA-CG-A-GAGAATCGCAATCCGAAATGAAAATCGCA
1 GAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATCCGAAATGAAAATCGCA
73928 ACGAGAGAATCGCAATGCGGAAAT
66 ACGAGAGAATCGCAATGCGGAAAT
73952 GAAAATCGCAATGCGAAATGAAAATCGCA
1 GAAAATCGCAATGCGAAATGAAAATCGCA
73981 TTGCGATTCT
Statistics
Matches: 113, Mismatches: 2, Indels: 6
0.93 0.02 0.05
Matches are distributed among these distances:
86 80 0.71
87 1 0.01
89 2 0.02
91 16 0.14
92 14 0.12
ACGTcount: A:0.46, C:0.17, G:0.23, T:0.14
Consensus pattern (89 bp):
GAAAATCGCAATGCGAAATGAAAATCGCAAGCGAATGAAAATCGCAATCCGAAATGAAAATCGCA
ACGAGAGAATCGCAATGCGGAAAT
Found at i:74020 original size:53 final size:52
Alignment explanation
Indices: 73957--74072 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
73947 GAAATGAAAA
*
73957 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
74009 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
74062 TCGCATTGCGA
1 TCGCATTGCGA
74073 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:74035 original size:19 final size:19
Alignment explanation
Indices: 73995--74082 Score: 123
Period size: 19 Copynumber: 4.8 Consensus size: 19
73985 GATTCTCTCG
73995 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
74015 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
74034 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
74048 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
74067 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
74083 AACATAATGC
Statistics
Matches: 61, Mismatches: 2, Indels: 11
0.82 0.03 0.15
Matches are distributed among these distances:
14 6 0.10
16 7 0.11
17 7 0.11
19 26 0.43
20 15 0.25
ACGTcount: A:0.14, C:0.23, G:0.16, T:0.48
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:74192 original size:14 final size:14
Alignment explanation
Indices: 74173--74209 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
74163 CATCAATTAC
74173 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
74187 ACAAATCATCTTTT
1 ACAAATCAACTTTT
74201 ACAAATCAA
1 ACAAATCAA
74210 TAAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:76171 original size:19 final size:19
Alignment explanation
Indices: 76129--76287 Score: 166
Period size: 19 Copynumber: 8.6 Consensus size: 19
76119 TAGTTTACTT
* *
76129 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
*
76149 TCGCAACGCGAAATGAGAA
1 TCGCAACGCGAAATGAAAA
* **
76168 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
**
76187 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
*
76206 TCGCAACGCGGAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
76225 TCGCAA--CGACAT---AA
1 TCGCAACGCGAAATGAAAA
*
76239 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
76258 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
76277 TCGCAATGCGA
1 TCGCAACGCGA
76288 TTTTGGTTTC
Statistics
Matches: 118, Mismatches: 16, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
14 8 0.07
16 5 0.04
17 4 0.03
19 89 0.75
20 12 0.10
ACGTcount: A:0.45, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:76263 original size:52 final size:55
Alignment explanation
Indices: 76129--76282 Score: 188
Period size: 52 Copynumber: 2.8 Consensus size: 55
76119 TAGTTTACTT
* * *
76129 TCGCAACACGAAACTTAAAATCGCAACGCGAAATGAGAATCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAAC-CAAAATCGCAACGCGAAATGAAAATCGCAAC-AG-AACCAAAA
* *
76187 TCGCAACGCGAAACCAAAATCGCAACGCGGAATGAAAATCGCAAC-G-A-CATAA
1 TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACAGAACCAAAA
* **
76239 TCGCAATGCGAAATGAAAATCGCAACGCGAAATGAAAATCGCAA
1 TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAA
76283 TGCGATTTTG
Statistics
Matches: 87, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
52 44 0.51
53 1 0.01
55 1 0.01
57 28 0.32
58 13 0.15
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (55 bp):
TCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAATCGCAACAGAACCAAAA
Found at i:76318 original size:14 final size:14
Alignment explanation
Indices: 76299--76357 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
76289 TTTGGTTTCG
76299 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
76313 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
76330 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
76346 CGTTGCGATTTT
1 CGTTGCGATTTT
76358 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:76325 original size:33 final size:33
Alignment explanation
Indices: 76283--76406 Score: 185
Period size: 33 Copynumber: 3.7 Consensus size: 33
76273 AAAATCGCAA
*
76283 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
76316 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
** *
76349 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
* *
76382 TGCGATTTTAAGTTTCGTGTTGCGA
1 TGCGATTTT-GGTTTCGCGTTGCGA
76407 AAGTAAACTA
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
33 71 0.86
34 12 0.14
ACGTcount: A:0.09, C:0.18, G:0.27, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:76337 original size:19 final size:18
Alignment explanation
Indices: 76283--76374 Score: 83
Period size: 19 Copynumber: 5.4 Consensus size: 18
76273 AAAATCGCAA
76283 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
76302 TGCGATTTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
76316 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
76335 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
76349 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
76368 TGCGATT
1 TGCGATT
76375 CTCTCGTTGC
Statistics
Matches: 60, Mismatches: 3, Indels: 20
0.72 0.04 0.24
Matches are distributed among these distances:
14 23 0.38
15 1 0.02
16 2 0.03
17 2 0.03
18 2 0.03
19 30 0.50
ACGTcount: A:0.08, C:0.17, G:0.28, T:0.47
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:76384 original size:14 final size:14
Alignment explanation
Indices: 76332--76388 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
76322 TTTGGTTTCG
*
76332 CGTTGCGATTCTGT
1 CGTTGCGATTCTCT
*
76346 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
76365 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
76379 CGTTGCGATT
1 CGTTGCGATT
76389 TTAAGTTTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 20 0.57
16 3 0.09
17 3 0.09
19 9 0.26
ACGTcount: A:0.09, C:0.23, G:0.25, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:76663 original size:93 final size:93
Alignment explanation
Indices: 76504--76819 Score: 605
Period size: 93 Copynumber: 3.4 Consensus size: 93
76494 TCAGGGTATT
76504 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
76569 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
76597 AGTTTAGCAGAATTGGCAGCAACCAAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
76662 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
76690 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGGCAAA
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
76755 TACTATTTCACAGTGTTAAAGAATACAC
66 TACTATTTCACAGTGTTAAAGAATACAC
*
76783 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
1 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACT
76820 AAGCAATCTA
Statistics
Matches: 219, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 219 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (93 bp):
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACAC
Found at i:78536 original size:20 final size:20
Alignment explanation
Indices: 78505--78601 Score: 100
Period size: 20 Copynumber: 5.2 Consensus size: 20
78495 TTTTGGTTGA
78505 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
***
78525 AATGACTGTCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
78545 AAATGAAAATCGCAAC--GAG
1 -AATGAAAATCGCAACGAGAG
*
78564 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
78579 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
78599 AAT
1 AAT
78602 CGCAACGCGA
Statistics
Matches: 62, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
14 9 0.15
16 4 0.06
17 2 0.03
19 15 0.24
20 20 0.32
21 12 0.19
ACGTcount: A:0.46, C:0.18, G:0.25, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:78557 original size:21 final size:21
Alignment explanation
Indices: 78503--78567 Score: 96
Period size: 21 Copynumber: 3.1 Consensus size: 21
78493 TCTTTTGGTT
78503 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
***
78524 G-AATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
78544 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
78565 GAA
1 GAA
78568 TCGCAACGCG
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
20 17 0.46
21 20 0.54
ACGTcount: A:0.48, C:0.15, G:0.26, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:78571 original size:14 final size:14
Alignment explanation
Indices: 78552--78608 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
78542 GAGAAATGAA
78552 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
78566 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
78585 AATCGCAACGAGAG
1 AATCGCAACGAGAG
78599 AATCGCAACG
1 AATCGCAACG
78609 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:78584 original size:33 final size:33
Alignment explanation
Indices: 78503--78625 Score: 165
Period size: 33 Copynumber: 3.5 Consensus size: 33
78493 TCTTTTGGTT
*
78503 GAAATGAAAATCGCAACGAGAGAATGACTGTCGCAACGAGA
1 GAAATGAAAATCGCAACGAGAG-A--A---TCGCAAC--GC
78544 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
78577 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
78610 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
78626 TGCGATTTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 8
0.90 0.01 0.09
Matches are distributed among these distances:
33 50 0.62
35 7 0.09
38 1 0.01
40 1 0.01
41 22 0.27
ACGTcount: A:0.46, C:0.19, G:0.24, T:0.11
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:78661 original size:14 final size:14
Alignment explanation
Indices: 78642--78698 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
78632 TTTGGTTTCG
78642 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
78656 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
78675 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
78689 CGTTGCGATT
1 CGTTGCGATT
78699 TTCATTTCTC
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
16 3 0.08
17 3 0.08
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.23, T:0.44
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:78674 original size:33 final size:33
Alignment explanation
Indices: 78626--78706 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
78616 AAAATCGCAA
**
78626 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
78659 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
78692 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
78707 TCTCGTTGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.09, C:0.22, G:0.22, T:0.47
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:78709 original size:21 final size:21
Alignment explanation
Indices: 78683--78759 Score: 102
Period size: 21 Copynumber: 3.7 Consensus size: 21
78673 CGCGTTGCGA
78683 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
78704 TTCTCTCGTTGCAGATAGTCAT
1 TTCTCTCGTTGC-GATTTTCAT
*
78726 TT-TCACGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
*
78746 TTATCTCGTTGCGA
1 TTCTCTCGTTGCGA
78760 CTCTTCTGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.19
21 30 0.62
22 9 0.19
ACGTcount: A:0.14, C:0.22, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:78881 original size:33 final size:33
Alignment explanation
Indices: 78839--78909 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
78829 AATACTAACT
78839 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
* *
78872 TGAAAATCGCAACGAGAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
78905 TGAAA
1 TGAAA
78910 TCTAAGTGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.48, C:0.17, G:0.24, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:79314 original size:20 final size:20
Alignment explanation
Indices: 79289--79481 Score: 237
Period size: 20 Copynumber: 9.6 Consensus size: 20
79279 CTTTAAAAAT
*
79289 CGCGTTACGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
79309 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
79329 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
*
79350 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
*
79370 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
79390 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
79410 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
79430 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
79450 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
79470 CGCGTTGCGATT
1 CGCGTTGCGATT
79482 CTGGAAAATC
Statistics
Matches: 151, Mismatches: 17, Indels: 10
0.85 0.10 0.06
Matches are distributed among these distances:
20 133 0.88
21 18 0.12
ACGTcount: A:0.19, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:81314 original size:23 final size:23
Alignment explanation
Indices: 81262--81315 Score: 99
Period size: 23 Copynumber: 2.3 Consensus size: 23
81252 ACAACAAGGA
*
81262 CTCCTCACCCTATATAAAGGAGG
1 CTCCTCCCCCTATATAAAGGAGG
81285 CTCCTCCCCCTATATAAAGGAGG
1 CTCCTCCCCCTATATAAAGGAGG
81308 CTCCTCCC
1 CTCCTCCC
81316 ACCATTGTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.24, C:0.39, G:0.15, T:0.22
Consensus pattern (23 bp):
CTCCTCCCCCTATATAAAGGAGG
Found at i:81335 original size:24 final size:24
Alignment explanation
Indices: 81308--81357 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
81298 ATAAAGGAGG
81308 CTCCTCCCACCATTGTAAACACTT
1 CTCCTCCCACCATTGTAAACACTT
81332 CTCCTCCCACCATTGTAAACACTT
1 CTCCTCCCACCATTGTAAACACTT
81356 CT
1 CT
81358 TTTCTTGAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.24, C:0.42, G:0.04, T:0.30
Consensus pattern (24 bp):
CTCCTCCCACCATTGTAAACACTT
Found at i:84213 original size:21 final size:21
Alignment explanation
Indices: 84188--84232 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
84178 ATCCATATGT
* *
84188 TCCGAATAACATAGGTAACTG
1 TCCGAAGAAAATAGGTAACTG
*
84209 TCCGAAGAAAATAGGTAATTG
1 TCCGAAGAAAATAGGTAACTG
84230 TCC
1 TCC
84233 ATATGTCCCG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (21 bp):
TCCGAAGAAAATAGGTAACTG
Found at i:84269 original size:32 final size:31
Alignment explanation
Indices: 84210--84319 Score: 141
Period size: 32 Copynumber: 3.5 Consensus size: 31
84200 AGGTAACTGT
* *
84210 CCGAAGAAAATAGGTAAT-TGTCCATATGTC
1 CCGAAGGACATAGGTAATCTGTCCATATGTC
84240 CCGAAGGACATAGGTAATCCTGTCCATATGTC
1 CCGAAGGACATAGGTAAT-CTGTCCATATGTC
* * *
84272 CCGAAGGACATAGGTAAACTATTCATATGTC
1 CCGAAGGACATAGGTAATCTGTCCATATGTC
* *
84303 TCGAAAGACATAGGTAA
1 CCGAAGGACATAGGTAA
84320 CCCTCAACTC
Statistics
Matches: 71, Mismatches: 7, Indels: 3
0.88 0.09 0.04
Matches are distributed among these distances:
30 16 0.23
31 26 0.37
32 29 0.41
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (31 bp):
CCGAAGGACATAGGTAATCTGTCCATATGTC
Found at i:85128 original size:64 final size:64
Alignment explanation
Indices: 85015--85156 Score: 186
Period size: 64 Copynumber: 2.2 Consensus size: 64
85005 TTTGGGTTGT
*
85015 GTGCATCGATGCA-CTCTTAAATAAATAAACATCGAATGTAATTAGTGCATCGATGCAT-GAGGA
1 GTGCATCGATGCACCTCTTAAATAAACAAACATCGAATGTAATTAGTGCATCGATGCATAGA-GA
*
85078 GTGCATCGATGCACCTGCTTAAA-ATACAAACATCGAATG-AGATTTA-TGCATCGATGCATAGA
1 GTGCATCGATGCACCT-CTTAAATAAACAAACATCGAATGTA-A-TTAGTGCATCGATGCATAGA
*
85140 TA
63 GA
85142 GTGCATCGATGCACC
1 GTGCATCGATGCACC
85157 CGTCAAGGGT
Statistics
Matches: 71, Mismatches: 3, Indels: 9
0.86 0.04 0.11
Matches are distributed among these distances:
63 14 0.20
64 46 0.65
65 11 0.15
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (64 bp):
GTGCATCGATGCACCTCTTAAATAAACAAACATCGAATGTAATTAGTGCATCGATGCATAGAGA
Found at i:90124 original size:31 final size:31
Alignment explanation
Indices: 90040--90138 Score: 94
Period size: 31 Copynumber: 3.2 Consensus size: 31
90030 GTCGAGGGTT
* * *
90040 TACCTATGTTCTACGGAATATATGGACAGAA
1 TACCTATGTTCTAAGGAACATATGGACAGTA
* **
90071 TTATCTATGTAT-T-TCGAGACATATGGACAGTA
1 -TACCTATGT-TCTAAGGA-ACATATGGACAGTA
*
90103 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTAAGGAACATATGGACAGTA
90134 TACCT
1 TACCT
90139 GGGTTCTTCG
Statistics
Matches: 54, Mismatches: 9, Indels: 9
0.75 0.12 0.12
Matches are distributed among these distances:
30 1 0.02
31 29 0.54
32 23 0.43
33 1 0.02
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACAGTA
Found at i:90145 original size:31 final size:31
Alignment explanation
Indices: 90089--90164 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
90079 GTATTTCGAG
* *
90089 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGTTTACCTAGGTTCTAAGGA
* **
90120 ACATATGGACAGTTTACCTGGGTTCTTCGGA
1 ACATATGGACAGTTTACCTAGGTTCTAAGGA
90151 ACCA-ATGGACAGTT
1 A-CATATGGACAGTT
90165 GTCGAGGTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
31 37 0.95
32 2 0.05
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (31 bp):
ACATATGGACAGTTTACCTAGGTTCTAAGGA
Found at i:91943 original size:21 final size:21
Alignment explanation
Indices: 91845--91933 Score: 108
Period size: 21 Copynumber: 4.2 Consensus size: 21
91835 AAGATTGTCC
91845 AGGGGATACAGATTCCCCCCCA
1 AGGGGA-ACAGATTCCCCCCCA
*
91867 GGGGGAACAGATTCCCCCCCA
1 AGGGGAACAGATTCCCCCCCA
* *
91888 AGGGAAATAGATT-CCCCCCA
1 AGGGGAACAGATTCCCCCCCA
* *
91908 AAGGGAACAAATTCCCCCCCA
1 AGGGGAACAGATTCCCCCCCA
*
91929 GGGGG
1 AGGGG
91934 TATCGATTCC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
20 16 0.29
21 35 0.62
22 5 0.09
ACGTcount: A:0.29, C:0.34, G:0.26, T:0.11
Consensus pattern (21 bp):
AGGGGAACAGATTCCCCCCCA
Found at i:94686 original size:19 final size:20
Alignment explanation
Indices: 94657--94799 Score: 182
Period size: 20 Copynumber: 7.2 Consensus size: 20
94647 AATTAGATTG
94657 CCCAGGGGGTACAGATTCCC
1 CCCAGGGGGTACAGATTCCC
94677 CCCA-GGGGTACAGATTCTCC
1 CCCAGGGGGTACAGATTC-CC
*
94697 CCCAGGGGGAACAGATTCCC
1 CCCAGGGGGTACAGATTCCC
*
94717 TCCA-GGGGTACAGATTCCC
1 CCCAGGGGGTACAGATTCCC
* **
94736 CCCAAGGGAAACAGATTCCC
1 CCCAGGGGGTACAGATTCCC
*
94756 CCCAGGGGGTACCGATTCCC
1 CCCAGGGGGTACAGATTCCC
* *
94776 CCTCAGGGGGAACAAATTCCC
1 CC-CAGGGGGTACAGATTCCC
94797 CCC
1 CCC
94800 CCCCCAGGGG
Statistics
Matches: 106, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
19 30 0.28
20 47 0.44
21 29 0.27
ACGTcount: A:0.23, C:0.36, G:0.26, T:0.15
Consensus pattern (20 bp):
CCCAGGGGGTACAGATTCCC
Found at i:94703 original size:40 final size:39
Alignment explanation
Indices: 94657--94799 Score: 205
Period size: 40 Copynumber: 3.6 Consensus size: 39
94647 AATTAGATTG
*
94657 CCCAGGGGGTACAGATTCCCCCCAGGGGTACAGATTCTCC
1 CCCAGGGGGAACAGATTCCCCCCAGGGGTACAGATTC-CC
*
94697 CCCAGGGGGAACAGATTCCCTCCAGGGGTACAGATTCCC
1 CCCAGGGGGAACAGATTCCCCCCAGGGGTACAGATTCCC
* * *
94736 CCCAAGGGAAACAGATTCCCCCCAGGGGGTACCGATTCCC
1 CCCAGGGGGAACAGATTCCCCCCA-GGGGTACAGATTCCC
*
94776 CCTCAGGGGGAACAAATTCCCCCC
1 CC-CAGGGGGAACAGATTCCCCCC
94800 CCCCCAGGGG
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 23 0.25
40 51 0.55
41 18 0.20
ACGTcount: A:0.23, C:0.36, G:0.26, T:0.15
Consensus pattern (39 bp):
CCCAGGGGGAACAGATTCCCCCCAGGGGTACAGATTCCC
Found at i:99430 original size:2 final size:2
Alignment explanation
Indices: 99419--99469 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
99409 ATAGCACTTG
99419 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
99460 TA TA TA TA TA
1 TA TA TA TA TA
99470 AGTAGCACAT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:100090 original size:6 final size:6
Alignment explanation
Indices: 100079--100117 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
100069 GTTTCTTCTC
* *
100079 TTCTTT TTCTTT TTCTTT CTATTT TTCTTT TT-TTT TTCT
1 TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCTTT TTCT
100118 GGTTACTCTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
5 5 0.18
6 23 0.82
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (6 bp):
TTCTTT
Found at i:100737 original size:28 final size:28
Alignment explanation
Indices: 100705--100761 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
100695 CCATTTGAAA
100705 TAGTTTATGGTTTCAATCCACTAACTAC
1 TAGTTTATGGTTTCAATCCACTAACTAC
* *
100733 TAGTTTATGGTTTCAATCCATTACCTAC
1 TAGTTTATGGTTTCAATCCACTAACTAC
100761 T
1 T
100762 TTAGATCTCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (28 bp):
TAGTTTATGGTTTCAATCCACTAACTAC
Found at i:102097 original size:14 final size:14
Alignment explanation
Indices: 102078--102130 Score: 78
Period size: 14 Copynumber: 4.1 Consensus size: 14
102068 CATCCGTGAA
102078 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
102092 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
102106 CG-T---TTATGTT
1 CGTTCGGTTATGTT
102116 CGTTCGGTTATGTT
1 CGTTCGGTTATGTT
102130 C
1 C
102131 ATTTATGTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.26
11 1 0.03
13 1 0.03
14 24 0.69
ACGTcount: A:0.08, C:0.15, G:0.26, T:0.51
Consensus pattern (14 bp):
CGTTCGGTTATGTT
Found at i:102106 original size:24 final size:24
Alignment explanation
Indices: 102079--102140 Score: 106
Period size: 24 Copynumber: 2.6 Consensus size: 24
102069 ATCCGTGAAC
*
102079 GTTCGGTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
102103 GTTCGTTTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTCGGTTAT
*
102127 GTTCATTTATGTTC
1 GTTCGTTTATGTTC
102141 ATTCATTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.10, C:0.13, G:0.24, T:0.53
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCGGTTAT
Found at i:103253 original size:31 final size:32
Alignment explanation
Indices: 103213--103276 Score: 94
Period size: 31 Copynumber: 2.0 Consensus size: 32
103203 CCAACGTTTA
* *
103213 TGTTTGTTTATGTTCGTGTTC-ATTATGTTCG
1 TGTTCGTTTATGTTCGTGGTCGATTATGTTCG
*
103244 TGTTCGTTTATGTTCGTGGTCGTTTATGTTCG
1 TGTTCGTTTATGTTCGTGGTCGATTATGTTCG
103276 T
1 T
103277 TTATTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
31 19 0.66
32 10 0.34
ACGTcount: A:0.08, C:0.11, G:0.25, T:0.56
Consensus pattern (32 bp):
TGTTCGTTTATGTTCGTGGTCGATTATGTTCG
Found at i:103256 original size:16 final size:16
Alignment explanation
Indices: 103213--103276 Score: 94
Period size: 16 Copynumber: 4.1 Consensus size: 16
103203 CCAACGTTTA
*
103213 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
103229 TGTTC-ATTATGTTCG
1 TGTTCGTTTATGTTCG
103244 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
103260 TGGTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
103276 T
1 T
103277 TTATTTATTA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.33
16 29 0.67
ACGTcount: A:0.08, C:0.11, G:0.25, T:0.56
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:103370 original size:16 final size:16
Alignment explanation
Indices: 103346--103378 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
103336 AAAAAAAATT
*
103346 TGTTTGTTTATGTTCG
1 TGTTCGTTTATGTTCG
103362 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
103378 T
1 T
103379 TTATTTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.09, G:0.24, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:103968 original size:42 final size:42
Alignment explanation
Indices: 103909--103993 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
103899 TAAGTACGTA
* * *
103909 TAAATTCTTAGGCTAAATGTCTAATTAGTTATGCACTTAAAC
1 TAAATTCTGAGGCTAAATGACTAATTAATTATGCACTTAAAC
*
103951 TAAATTCTGAGGCTAAATGACTAATTAATTATGTACTTAAAC
1 TAAATTCTGAGGCTAAATGACTAATTAATTATGCACTTAAAC
103993 T
1 T
103994 TTCACTTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.38
Consensus pattern (42 bp):
TAAATTCTGAGGCTAAATGACTAATTAATTATGCACTTAAAC
Done.