Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032253.1 Gossypioides kirkii chromosome KI_11
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: 55708359
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2600 characters in sequence are not A, C, G, or T
File 48 of 182
Found at i:16761553 original size:24 final size:24
Alignment explanation
Indices: 16761525--16761587 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
16761515 AGAAATAATC
16761525 TTTCAGTTAAACTCTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
16761549 TTTCAATTAAACTCTTTTTATTTG
1 TTTCAGTTAAACTCTGTTTATTTG
* *
16761573 TTTGAGTCAAACTCT
1 TTTCAGTTAAACTCT
16761588 TATTACTCTA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.52
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTATTTG
Found at i:16765078 original size:46 final size:47
Alignment explanation
Indices: 16764993--16765086 Score: 172
Period size: 46 Copynumber: 2.0 Consensus size: 47
16764983 ATATTTACTC
*
16764993 ATATTGAAAACATAAAACTTCAAAAATATATCTAAAAATTGAATAAA
1 ATATTAAAAACATAAAACTTCAAAAATATATCTAAAAATTGAATAAA
16765040 ATATTAAAAACATAAAACTT-AAAAATATATCTAAAAATTGAATAAA
1 ATATTAAAAACATAAAACTTCAAAAATATATCTAAAAATTGAATAAA
16765086 A
1 A
16765087 AAAGAAAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
46 27 0.59
47 19 0.41
ACGTcount: A:0.62, C:0.07, G:0.03, T:0.28
Consensus pattern (47 bp):
ATATTAAAAACATAAAACTTCAAAAATATATCTAAAAATTGAATAAA
Found at i:16765633 original size:46 final size:45
Alignment explanation
Indices: 16765535--16765637 Score: 122
Period size: 46 Copynumber: 2.3 Consensus size: 45
16765525 TTCTGTTTTT
**
16765535 TGTTTTTCATTTTTTATTCGCTTTTTTAGTTTTTTAAAAATTTTCT
1 TGTTTTTCATTTTTTATTCGCTTTTTTAGTTTTTTAAAAA-TTTAA
*
16765581 TTTTTTTCATTTTTTATTCGCATTCTTTTTAGTTTTTT-AAAA-TTAA
1 TGTTTTTCATTTTTTATTCGC--T-TTTTTAGTTTTTTAAAAATTTAA
16765627 TGTTTTT-ATTT
1 TGTTTTTCATTT
16765638 AGAATATGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
45 4 0.08
46 28 0.56
48 5 0.10
49 13 0.26
ACGTcount: A:0.18, C:0.08, G:0.06, T:0.68
Consensus pattern (45 bp):
TGTTTTTCATTTTTTATTCGCTTTTTTAGTTTTTTAAAAATTTAA
Found at i:16774940 original size:20 final size:22
Alignment explanation
Indices: 16774908--16774955 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
16774898 TTAAAATTTT
*
16774908 AAATA-TAGTTATT-TTTTAAA
1 AAATATTAGTTATTACTTTAAA
16774928 AAATATTAG-TATTACTTTAAA
1 AAATATTAGTTATTACTTTAAA
*
16774949 AATTATT
1 AAATATT
16774956 GTGTTGGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.46, C:0.02, G:0.04, T:0.48
Consensus pattern (22 bp):
AAATATTAGTTATTACTTTAAA
Found at i:16792284 original size:12 final size:12
Alignment explanation
Indices: 16792249--16792320 Score: 63
Period size: 12 Copynumber: 6.0 Consensus size: 12
16792239 TGACCAGAAC
16792249 CATGATGATGGT
1 CATGATGATGGT
** * *
16792261 GGTGGTGGTGGT
1 CATGATGATGGT
*
16792273 GATGATGATGGT
1 CATGATGATGGT
* *
16792285 CATGGTCATGGT
1 CATGATGATGGT
* *
16792297 CATGATCATGCT
1 CATGATGATGGT
16792309 CATGATGATGGT
1 CATGATGATGGT
16792321 GGTGGTCGTG
Statistics
Matches: 46, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
12 46 1.00
ACGTcount: A:0.19, C:0.10, G:0.38, T:0.33
Consensus pattern (12 bp):
CATGATGATGGT
Found at i:16792290 original size:21 final size:21
Alignment explanation
Indices: 16792251--16792290 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
16792241 ACCAGAACCA
* **
16792251 TGATGATGGTGGTGGTGGTGG
1 TGATGATGATGGTCATGGTGG
16792272 TGATGATGATGGTCATGGT
1 TGATGATGATGGTCATGGT
16792291 CATGGTCATG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.47, T:0.35
Consensus pattern (21 bp):
TGATGATGATGGTCATGGTGG
Found at i:16808859 original size:11 final size:11
Alignment explanation
Indices: 16808840--16808973 Score: 56
Period size: 10 Copynumber: 12.9 Consensus size: 11
16808830 CTAATAAAAA
*
16808840 TTTTCTATAAT
1 TTTTTTATAAT
16808851 TTTTTTAT-AT
1 TTTTTTATAAT
* * *
16808861 ATATTTCTAA-
1 TTTTTTATAAT
16808871 -TTTTTATAA-
1 TTTTTTATAAT
16808880 -TTTTT-TAAT
1 TTTTTTATAAT
* *
16808889 GCTTTTAATAA-
1 -TTTTTTATAAT
* *
16808900 GTTTTTATAAC
1 TTTTTTATAAT
16808911 TTTTTTA-AAT
1 TTTTTTATAAT
* *
16808921 AATTTTTA-CAT
1 -TTTTTTATAAT
16808932 TTTTTTAT-AT
1 TTTTTTATAAT
**
16808942 TTTTCAATAAT
1 TTTTTTATAAT
16808953 TTTTTTAT-AT
1 TTTTTTATAAT
16808963 TTTTTTGATAA
1 TTTTTT-ATAA
16808974 ACCTTTTACT
Statistics
Matches: 94, Mismatches: 18, Indels: 21
0.71 0.14 0.16
Matches are distributed among these distances:
8 3 0.03
9 12 0.13
10 39 0.41
11 36 0.38
12 4 0.04
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (11 bp):
TTTTTTATAAT
Found at i:16808873 original size:21 final size:20
Alignment explanation
Indices: 16808847--16808966 Score: 65
Period size: 21 Copynumber: 6.0 Consensus size: 20
16808837 AAATTTTCTA
16808847 TAATTTTTTTATATATATTTC
1 TAATTTTTTTATATAT-TTTC
*
16808868 TAA--TTTTTATA-ATTTTT
1 TAATTTTTTTATATATTTTC
** *
16808885 TAATGCTTTTA-ATAAGTTTTTA
1 TAATTTTTTTATAT-A--TTTTC
* *
16808907 TAACTTTTTTAAATAATTTT-
1 TAATTTTTTTATAT-ATTTTC
16808927 TACATTTTTTTATAT-TTTTC
1 TA-ATTTTTTTATATATTTTC
16808947 AATAATTTTTTTATAT-TTTT
1 --TAATTTTTTTATATATTTT
16808967 TTGATAAACC
Statistics
Matches: 80, Mismatches: 8, Indels: 22
0.73 0.07 0.20
Matches are distributed among these distances:
17 6 0.08
18 3 0.04
19 17 0.21
20 3 0.04
21 33 0.41
22 14 0.17
23 4 0.05
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (20 bp):
TAATTTTTTTATATATTTTC
Found at i:16808886 original size:10 final size:10
Alignment explanation
Indices: 16808838--16809007 Score: 61
Period size: 9 Copynumber: 16.9 Consensus size: 10
16808828 AACTAATAAA
*
16808838 AATTTTCTAT
1 AATTTTTTAT
16808848 AATTTTTT-T
1 AATTTTTTAT
* *
16808857 ATATATATTTCT
1 A-AT-TTTTTAT
16808869 AA-TTTTTAT
1 AATTTTTTAT
16808878 AA-TTTTT-T
1 AATTTTTTAT
*
16808886 AATGCTTTTAAT
1 AAT--TTTTTAT
*
16808898 AAGTTTTTAT
1 AATTTTTTAT
16808908 AACTTTTTTA-
1 AA-TTTTTTAT
*
16808918 AATAATTTTTAC
1 AAT--TTTTTAT
*
16808930 ATTTTTTTAT
1 AATTTTTTAT
*
16808940 -ATTTTTCAAT
1 AATTTTT-TAT
16808950 AATTTTTTTAT
1 AA-TTTTTTAT
*
16808961 ATTTTTTTGAT
1 AATTTTTT-AT
***
16808972 AAACCTTT-T
1 AATTTTTTAT
*
16808981 ACTTTTTTAT
1 AATTTTTTAT
*
16808991 -AGTTTTTAT
1 AATTTTTTAT
16809000 -ATTTTTTA
1 AATTTTTTA
16809008 AAAAATTATG
Statistics
Matches: 119, Mismatches: 25, Indels: 33
0.67 0.14 0.19
Matches are distributed among these distances:
8 3 0.03
9 39 0.33
10 34 0.29
11 31 0.26
12 12 0.10
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.64
Consensus pattern (10 bp):
AATTTTTTAT
Found at i:16808888 original size:8 final size:9
Alignment explanation
Indices: 16808838--16809148 Score: 58
Period size: 9 Copynumber: 31.9 Consensus size: 9
16808828 AACTAATAAA
16808838 AATTTTCTAT
1 AATTTT-TAT
16808848 AATTTTTTTAT
1 AA--TTTTTAT
* *
16808859 ATATATTTCT
1 A-ATTTTTAT
16808869 AATTTTTAT
1 AATTTTTAT
16808878 AATTTTT-T
1 AATTTTTAT
16808886 AATGCTTTTAAT
1 AAT--TTTT-AT
16808898 AAGTTTTTAT
1 AA-TTTTTAT
16808908 AACTTTTTTAAAT
1 AA--TTTTT--AT
16808921 AATTTTTA-
1 AATTTTTAT
* *
16808929 CATTTTTTT
1 AATTTTTAT
16808938 ATATTTTTCAAT
1 A-ATTTTT--AT
16808950 AATTTTTTTAT
1 AA--TTTTTAT
*
16808961 ATTTTTTTGAT
1 A-ATTTTT-AT
*
16808972 AAACCTTTTACT
1 -AA-TTTTTA-T
16808984 --TTTTTAT
1 AATTTTTAT
*
16808991 AGTTTTTAT
1 AATTTTTAT
* *
16809000 ATTTTTTAAA
1 AATTTTT-AT
* * *
16809010 AAATTATGT
1 AATTTTTAT
16809019 AATTTTTA-
1 AATTTTTAT
*
16809027 AAATTTTAT
1 AATTTTTAT
*
16809036 -ATTATTAT
1 AATTTTTAT
*
16809044 ATATTTTCATT
1 A-ATTTTTA-T
** *
16809055 TTTTTTTGT
1 AATTTTTAT
*
16809064 AATTTTTCT
1 AATTTTTAT
16809073 AGATTTTTAT
1 A-ATTTTTAT
** *
16809083 AACATTAAT
1 AATTTTTAT
*
16809092 AATATTTAT
1 AATTTTTAT
*
16809101 AGTTTTCATAT
1 AATTTT--TAT
* *
16809112 ATTTTTTAA
1 AATTTTTAT
*
16809121 AAATTTTAT
1 AATTTTTAT
16809130 AATATTTTAAT
1 AAT-TTTT-AT
*
16809141 ATTTTTTA
1 AATTTTTA
16809149 ATCAAATGCC
Statistics
Matches: 217, Mismatches: 50, Indels: 69
0.65 0.15 0.21
Matches are distributed among these distances:
7 1 0.00
8 28 0.13
9 67 0.31
10 57 0.26
11 38 0.18
12 16 0.07
13 10 0.05
ACGTcount: A:0.32, C:0.04, G:0.03, T:0.62
Consensus pattern (9 bp):
AATTTTTAT
Found at i:16808935 original size:30 final size:28
Alignment explanation
Indices: 16808838--16808956 Score: 89
Period size: 29 Copynumber: 4.0 Consensus size: 28
16808828 AACTAATAAA
* *
16808838 AATTTTCTATAATTTTTTTATATATATTTCT
1 AATTTT-TATAA-TTTTTTAAATA-ATTTTT
**
16808869 AATTTTTATAATTTTTT-AATGCTTTTAAT
1 AATTTTTATAATTTTTTAAATAATTTT--T
16808898 AAGTTTTTATAACTTTTTTAAATAATTTTT
1 AA-TTTTTATAA-TTTTTTAAATAATTTTT
* *
16808928 ACATTTTT-TTATATTTTTCAATAATTTTT
1 A-ATTTTTATAAT-TTTTTAAATAATTTTT
16808957 TTATATTTTT
Statistics
Matches: 73, Mismatches: 8, Indels: 16
0.75 0.08 0.16
Matches are distributed among these distances:
27 3 0.04
28 3 0.04
29 26 0.36
30 21 0.29
31 13 0.18
32 7 0.10
ACGTcount: A:0.30, C:0.05, G:0.02, T:0.63
Consensus pattern (28 bp):
AATTTTTATAATTTTTTAAATAATTTTT
Found at i:16809128 original size:29 final size:30
Alignment explanation
Indices: 16809087--16809149 Score: 76
Period size: 29 Copynumber: 2.1 Consensus size: 30
16809077 TTTTATAACA
* *
16809087 TTAATAATATTTATAGT-TTTCATATATTTT
1 TTAAAAATATTTATAATATTTCA-ATATTTT
*
16809117 TTAAAAAT-TTTATAATATTTTAATATTTT
1 TTAAAAATATTTATAATATTTCAATATTTT
16809146 TTAA
1 TTAA
16809150 TCAAATGCCA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
29 18 0.62
30 11 0.38
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (30 bp):
TTAAAAATATTTATAATATTTCAATATTTT
Found at i:16814728 original size:16 final size:16
Alignment explanation
Indices: 16814705--16814762 Score: 64
Period size: 16 Copynumber: 3.6 Consensus size: 16
16814695 AGTTTGGTTC
16814705 GCTGTAATCAAATAGA
1 GCTGTAATCAAATAGA
* *
16814721 GGTGTAATGAAATAGA
1 GCTGTAATCAAATAGA
*
16814737 GTTGTAAT-AGAATAGA
1 GCTGTAATCA-AATAGA
*
16814753 ACTGTAATCA
1 GCTGTAATCA
16814763 GTAATTCAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
15 1 0.03
16 33 0.94
17 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.22, T:0.28
Consensus pattern (16 bp):
GCTGTAATCAAATAGA
Found at i:16814956 original size:26 final size:26
Alignment explanation
Indices: 16814922--16815066 Score: 101
Period size: 32 Copynumber: 5.1 Consensus size: 26
16814912 CTTATTAAAT
*
16814922 TTTACTAAAATTATTATTAAATATAA
1 TTTAATAAAATTATTATTAAATATAA
* *
16814948 TTTAATAAAAATATTAATTAATTTAATTATAT
1 TTTAAT--AAA-ATT-ATT-A-TTAAATATAA
* *
16814980 TTTAATATAATTATTATTAAATAAAA
1 TTTAATAAAATTATTATTAAATATAA
* *
16815006 TTTAATAAAATAATATATAATTTAATAATATT
1 TTTAATAAAAT--TAT-T-ATTAAAT-ATA-A
*
16815038 TTTAATATAATTATTATTAAATATGAA
1 TTTAATAAAATTATTATTAAATAT-AA
16815065 TT
1 TT
16815067 AGTAAAAATT
Statistics
Matches: 92, Mismatches: 14, Indels: 25
0.70 0.11 0.19
Matches are distributed among these distances:
26 22 0.24
27 5 0.05
28 16 0.17
29 8 0.09
30 14 0.15
31 3 0.03
32 24 0.26
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (26 bp):
TTTAATAAAATTATTATTAAATATAA
Found at i:16814993 original size:58 final size:58
Alignment explanation
Indices: 16814915--16815084 Score: 211
Period size: 58 Copynumber: 2.9 Consensus size: 58
16814905 GATTATTCTT
* * * *
16814915 ATTAAATTTTACTAAAATTATTATTAAATATAATTTAATAAAAATATTA-ATTAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATA-TAATTTA
*
16814973 ATTATATTTTAATATAATTATTATTAAATAAAATTTAAT-AAAATAATATATAATTTA
1 ATTATATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTA
* * *
16815030 ATAATATTTTTAATATAATTATTATTAAATATGAA-TTAGTAAAAATTATAATATA
1 ATTATA-TTTTAATATAATTATTATTAAATAT-AATTTAATAAAAATAAT-ATATA
16815085 TAATATTAGA
Statistics
Matches: 98, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
57 20 0.20
58 64 0.65
59 9 0.09
60 5 0.05
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (58 bp):
ATTATATTTTAATATAATTATTATTAAATATAATTTAATAAAAATAATATATAATTTA
Found at i:16815085 original size:24 final size:24
Alignment explanation
Indices: 16815050--16815098 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
16815040 TAATATAATT
*
16815050 ATTATTAAATATGA-ATTAGTAAAA
1 ATTATTAAATATAATATTAG-AAAA
16815074 ATTA-TAATATATAATATTAGAAAA
1 ATTATTAA-ATATAATATTAGAAAA
16815098 A
1 A
16815099 CAATATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 3 0.14
24 14 0.64
25 5 0.23
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
ATTATTAAATATAATATTAGAAAA
Found at i:16819039 original size:25 final size:25
Alignment explanation
Indices: 16819007--16819055 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
16818997 TAAAACTTGT
16819007 AGTCTTATTTCTTAATCCTAAACTG
1 AGTCTTATTTCTTAATCCTAAACTG
16819032 AGTCTTATTTCTTAATCCTAAACT
1 AGTCTTATTTCTTAATCCTAAACT
16819056 AATATACTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.06, T:0.45
Consensus pattern (25 bp):
AGTCTTATTTCTTAATCCTAAACTG
Found at i:16820088 original size:103 final size:103
Alignment explanation
Indices: 16819949--16820154 Score: 394
Period size: 103 Copynumber: 2.0 Consensus size: 103
16819939 ACATAATATT
* *
16819949 TGTACAACCAGCAACATATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAACA
1 TGTACAACCAGCAACACATTGAACCTCCTAAAACAAAATAACAGAATCAACAAAGTATCCTAACA
16820014 GAATGTCAATATTTGGGTCTCAAAACACAGTTTCTGCA
66 GAATGTCAATATTTGGGTCTCAAAACACAGTTTCTGCA
16820052 TGTACAACCAGCAACACATTGAACCTCCTAAAACAAAATAACAGAATCAACAAAGTATCCTAACA
1 TGTACAACCAGCAACACATTGAACCTCCTAAAACAAAATAACAGAATCAACAAAGTATCCTAACA
16820117 GAATGTCAATATTTGGGTCTCAAAACACAGTTTCTGCA
66 GAATGTCAATATTTGGGTCTCAAAACACAGTTTCTGCA
16820155 AACATGGTTG
Statistics
Matches: 101, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.23
Consensus pattern (103 bp):
TGTACAACCAGCAACACATTGAACCTCCTAAAACAAAATAACAGAATCAACAAAGTATCCTAACA
GAATGTCAATATTTGGGTCTCAAAACACAGTTTCTGCA
Found at i:16820302 original size:139 final size:139
Alignment explanation
Indices: 16820052--16820403 Score: 643
Period size: 139 Copynumber: 2.5 Consensus size: 139
16820042 AGTTTCTGCA
*
16820052 TGTACAACCAGCAACACATTGAACCTCCTAAAACAAAATAACAGAATCAACAAAGTATCCTAACA
1 TGTACAACCAGCAACACATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAACA
*
16820117 GAATGTCAATATTTGGGTCTCAAAACACAGTTTCTGCAAACATGGTTGTGCAGAATCAGAAGCAA
66 GAATGTCAATATTTGGGTCTCAAAACACAGTTTCTGCAAACATGGTTGTGCAAAATCAGAAGCAA
16820182 CATAATATT
131 CATAATATT
*
16820191 TGTACAACCAGCAACACATTGAACCCCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAACA
1 TGTACAACCAGCAACACATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAACA
* *
16820256 GAATGTCAATATTTGGGTCTCAAAACATAGTTTCTGCAAACATGGTTGTGCAAAATCGGAAGCAA
66 GAATGTCAATATTTGGGTCTCAAAACACAGTTTCTGCAAACATGGTTGTGCAAAATCAGAAGCAA
16820321 CATAATATT
131 CATAATATT
16820330 TGTACAA-CAGCAACACATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAACA
1 TGTACAACCAGCAACACATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAACA
*
16820394 GAATGGCAAT
66 GAATGTCAAT
16820404 GGATGATGAC
Statistics
Matches: 206, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
138 65 0.32
139 141 0.68
ACGTcount: A:0.43, C:0.21, G:0.14, T:0.22
Consensus pattern (139 bp):
TGTACAACCAGCAACACATTGAACCTCCTAGAACAAAATAACAGAATCAACAAAGTATCCTAACA
GAATGTCAATATTTGGGTCTCAAAACACAGTTTCTGCAAACATGGTTGTGCAAAATCAGAAGCAA
CATAATATT
Found at i:16821884 original size:21 final size:21
Alignment explanation
Indices: 16821859--16821903 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
16821849 TTTTTAGTGG
16821859 AATGCAAATTTTCAACAAGAC
1 AATGCAAATTTTCAACAAGAC
*
16821880 AATGCAAATTTTCAACAATAC
1 AATGCAAATTTTCAACAAGAC
16821901 AAT
1 AAT
16821904 TAAGAATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.49, C:0.18, G:0.07, T:0.27
Consensus pattern (21 bp):
AATGCAAATTTTCAACAAGAC
Found at i:16822664 original size:52 final size:53
Alignment explanation
Indices: 16822483--16822854 Score: 247
Period size: 53 Copynumber: 6.8 Consensus size: 53
16822473 ATTTTAGTGG
* * * *
16822483 TGGTCATGCATTAGTCGACACCAT-TTTTTTAATCAGATAAAAAAATTTGGTGT
1 TGGTCATGTATTGGCCGACACCATCTTTTTT-ATCTGATAAAAAAATTTGGTGT
* * ** ** *
16822536 TGGTCATGCATTGGCCGACACCAGCATTACTTATCAAATAAAAAAAAATTTGGTAT
1 TGGTCATGTATTGGCCGACACCATC-TTTTTTATCTGAT--AAAAAAATTTGGTGT
* * * *
16822592 TGGCCAATG-CTTGGCTGACACCATCTTTTTTATCTGATAAAAAAA-TTGATGT
1 TGGTC-ATGTATTGGCCGACACCATCTTTTTTATCTGATAAAAAAATTTGGTGT
* **
16822644 TGGTCATGTATTGGCCGACACCATCTTTTTTATCTAATAAAAAAATAAATTTTTTTATGT
1 TGGTCATGTATTGGCCGACACCATCTTTTTTATCTGAT---AAAA-AAA---TTTGGTGT
* * *
16822704 TGG-CTATGTATTGGCCGGCACCACCTTTTTTAT-TAGATAAAAAAAATTGGTGT
1 TGGTC-ATGTATTGGCCGACACCATCTTTTTTATCT-GATAAAAAAATTTGGTGT
* * ** * * **
16822757 TAGTCAATG-CTTGGTTGACACCATTTTTTTTGTCTGATAAAAATTTTTTGGTGT
1 TGGTC-ATGTATTGGCCGACACCATCTTTTTTATCTGATAAAAA-AATTTGGTGT
* * *
16822811 TGGCCA-ATACTTGGCCGACACCA-CTTTTTTATCTAATAAAAAAA
1 TGGTCATGTA-TTGGCCGACACCATCTTTTTTATCTGATAAAAAAA
16822855 ACAAATTTTT
Statistics
Matches: 247, Mismatches: 51, Indels: 43
0.72 0.15 0.13
Matches are distributed among these distances:
51 3 0.01
52 35 0.14
53 77 0.31
54 32 0.13
55 17 0.07
56 37 0.15
57 7 0.03
59 2 0.01
60 37 0.15
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (53 bp):
TGGTCATGTATTGGCCGACACCATCTTTTTTATCTGATAAAAAAATTTGGTGT
Found at i:16823762 original size:30 final size:30
Alignment explanation
Indices: 16823722--16823783 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
16823712 GAAAAAAAAT
* *
16823722 AATTAGAAATTAAATTTAAAATATAAAAGA
1 AATTACAAATTAAATTTAAAAAATAAAAGA
*
16823752 AATTACAAATTAAATTTAAAAAATAAACGA
1 AATTACAAATTAAATTTAAAAAATAAAAGA
16823782 AA
1 AA
16823784 AAAATCAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (30 bp):
AATTACAAATTAAATTTAAAAAATAAAAGA
Found at i:16824870 original size:13 final size:13
Alignment explanation
Indices: 16824852--16824876 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
16824842 TTTAATTTGT
16824852 AAAAAAATATTTC
1 AAAAAAATATTTC
16824865 AAAAAAATATTT
1 AAAAAAATATTT
16824877 TTTAATATTT
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
AAAAAAATATTTC
Found at i:16824949 original size:35 final size:36
Alignment explanation
Indices: 16824883--16824953 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
16824873 ATTTTTTAAT
16824883 ATTTCGAAAATATAAAAAATATATGTAAAAAATTTC
1 ATTTCGAAAATATAAAAAATATATGTAAAAAATTTC
* * *
16824919 ATTTCGAAGATATAAAAAATA-ATTTTAAAAATTTC
1 ATTTCGAAAATATAAAAAATATATGTAAAAAATTTC
16824954 GAAAATCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 12 0.38
36 20 0.62
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (36 bp):
ATTTCGAAAATATAAAAAATATATGTAAAAAATTTC
Found at i:16824972 original size:18 final size:17
Alignment explanation
Indices: 16824945--16825007 Score: 63
Period size: 18 Copynumber: 3.4 Consensus size: 17
16824935 AAATAATTTT
*
16824945 AAAAATTTCGAAAATCTA
1 AAAAAATTCGAAAAT-TA
16824963 AAAAAATTCGAAAATATA
1 AAAAAATTCGAAAAT-TA
*
16824981 AAATATATTTCGAAAATTGA
1 AAA-A-AATTCGAAAATT-A
16825001 AAAAAAT
1 AAAAAAT
16825008 ATTTTAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 21 0.55
19 3 0.08
20 14 0.37
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.27
Consensus pattern (17 bp):
AAAAAATTCGAAAATTA
Found at i:16826436 original size:41 final size:41
Alignment explanation
Indices: 16826390--16826529 Score: 102
Period size: 41 Copynumber: 3.1 Consensus size: 41
16826380 TTATTTGATA
16826390 AAAATTAAAATATTATAATAATATTTTCTTTAAATAAATTT
1 AAAATTAAAATATTATAATAATATTTTCTTTAAATAAATTT
** ** * *
16826431 AAAATTTGAAT-TTATTAAATAATATATTATCAAATCAACACATTATTTGAT
1 AAAATTAAAATATTA-T-AATAATAT-TT-TC---TTTA-A-ATAAATT--T
*
16826482 AAAAATTGAAATATTATAATAATATTTTCTTTAAATAAATTT
1 -AAAATTAAAATATTATAATAATATTTTCTTTAAATAAATTT
16826524 AAAATT
1 AAAATT
16826530 TGAATTTAGT
Statistics
Matches: 74, Mismatches: 12, Indels: 26
0.66 0.11 0.23
Matches are distributed among these distances:
40 3 0.04
41 16 0.22
42 9 0.12
43 2 0.03
44 7 0.09
45 1 0.01
46 2 0.03
47 2 0.03
48 1 0.01
49 7 0.09
50 2 0.03
51 9 0.12
52 10 0.14
53 3 0.04
ACGTcount: A:0.50, C:0.04, G:0.02, T:0.44
Consensus pattern (41 bp):
AAAATTAAAATATTATAATAATATTTTCTTTAAATAAATTT
Found at i:16826452 original size:42 final size:43
Alignment explanation
Indices: 16826400--16826546 Score: 129
Period size: 42 Copynumber: 3.3 Consensus size: 43
16826390 AAAATTAAAA
16826400 TATTATAATAATATTTTCTTTAAATAAATTTAAAATTTGAATT
1 TATTATAATAATATTTTCTTTAAATAAATTTAAAATTTGAATT
** * * * *
16826443 TATTA-AATAATATATTATCAAATCAACACATTATTTGATAAAAATTGAA-A
1 TATTATAATAATAT-TT-TC---TTTA-A-ATAAATT--TAAAATTTGAATT
16826493 TATTATAATAATATTTTCTTTAAATAAATTTAAAATTTGAATT
1 TATTATAATAATATTTTCTTTAAATAAATTTAAAATTTGAATT
*
16826536 TAGTA-AATAAT
1 TATTATAATAAT
16826547 GTATTGTCAA
Statistics
Matches: 80, Mismatches: 13, Indels: 23
0.69 0.11 0.20
Matches are distributed among these distances:
42 24 0.30
43 11 0.14
44 7 0.09
45 1 0.01
46 2 0.03
47 2 0.03
48 1 0.01
49 7 0.09
50 7 0.09
51 18 0.22
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.45
Consensus pattern (43 bp):
TATTATAATAATATTTTCTTTAAATAAATTTAAAATTTGAATT
Found at i:16826944 original size:373 final size:373
Alignment explanation
Indices: 16826253--16827061 Score: 1304
Period size: 373 Copynumber: 2.2 Consensus size: 373
16826243 TTAAGGGTAT
** * * *
16826253 TTTGGTAAATAATACATTATCAAATCAACACATTATTTGCTAAAAATTAAAATATTATAATAATC
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATA
16826318 TTTTTTATTTAAATAAATTTAAAATTTGAATTTGATAAATAATGTATTATCAAATCAACACATTA
66 TTTTTTATTTAAATAAATTTAAAATTTGAATTTGATAAATAATGTATTATCAAATCAACACATTA
*
16826383 TTTGATAAAAATTAAAATATTATAATAATATTTTCTTTAAATAAATTTAAAATTTGAATTTATTA
131 TTTGATAAAAATTAAAATATTATAATAATATTTTATTTAAATAAATTTAAAATTTGAATTTATTA
* * *
16826448 AATAATATATTATCAAATCAACACATTATTTGATAAAAATTGAAATATTATAATAATATTTTCTT
196 AATAATATATTATCAAATCAAAACATTATTTGATAAAAATTAAAATATTATAATAATATTTTATT
* *
16826513 TAAATAAATTTAAAATTTGAATTTAGTAAATAATGTATTGTCAAATTAACACATTATTTGATAAA
261 TAAATAAATTTAAAATTTGAATTTAGTAAATAATGTATTGTCAAATCAACACATTATTTAATAAA
*
16826578 AATTGAAATATTAT-ATAATTTTTTATTTAAATAAATTTAAAATTTGAA
326 AATTGAAATATTATAATAATTTTTTATTTAAATAAAATT-AAATTTGAA
*
16826626 TTTGGTAAATAATGTGTTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATA
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATA
*
16826691 TTTTTTATTTAAATAAATTTAAAATTTGAATTT-AGTAAATAATGTATTGTCAAATCAACACATT
66 TTTTTTATTTAAATAAATTTAAAATTTGAATTTGA-TAAATAATGTATTATCAAATCAACACATT
* *
16826755 ATTTGATAAAAATTAAAATATTATAATAATCTTTTTTATTTAAATAAATTTAAATTTTGAATTTG
130 ATTTGATAAAAATTAAAATATTATAATAA--TATTTTATTTAAATAAATTTAAAATTTGAATTT-
* *
16826820 A-TAAATAATATATTGTCAAATCAAAATATTATTTGATAAAAATTAAAATATTATAATAAT-TTT
192 ATTAAATAATATATTATCAAATCAAAACATTATTTGATAAAAATTAAAATATTATAATAATATTT
* * * *
16826883 TATTTAAATAAATTTAAAATTTGAGTTTAGTTAATAAT-TATTGTCAAATCGACATATTATTTAA
257 TATTTAAATAAATTTAAAATTTGAATTTAGTAAATAATGTATTGTCAAATCAACACATTATTTAA
*
16826947 TAAAAATTGAAATATTATAATAATTTTTTATTTAAATAAAATTGAATTTGAA
322 TAAAAATTGAAATATTATAATAATTTTTTATTTAAATAAAATTAAATTTGAA
* * *
16826999 TTTGGTAAATAATGTATTGTTAAATAAACACATTATTTGATATAAATTAAAATATTATAATAA
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAA
16827062 ATAATTTTAA
Statistics
Matches: 404, Mismatches: 27, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
372 1 0.00
373 256 0.63
374 61 0.15
375 85 0.21
376 1 0.00
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (373 bp):
TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATA
TTTTTTATTTAAATAAATTTAAAATTTGAATTTGATAAATAATGTATTATCAAATCAACACATTA
TTTGATAAAAATTAAAATATTATAATAATATTTTATTTAAATAAATTTAAAATTTGAATTTATTA
AATAATATATTATCAAATCAAAACATTATTTGATAAAAATTAAAATATTATAATAATATTTTATT
TAAATAAATTTAAAATTTGAATTTAGTAAATAATGTATTGTCAAATCAACACATTATTTAATAAA
AATTGAAATATTATAATAATTTTTTATTTAAATAAAATTAAATTTGAA
Found at i:16827058 original size:92 final size:93
Alignment explanation
Indices: 16826253--16827061 Score: 1203
Period size: 95 Copynumber: 8.7 Consensus size: 93
16826243 TTAAGGGTAT
** * *
16826253 TTTGGTAAATAATACATTATCAAATCAACACATTATTTGCTAAAAATTAAAATATTATAATAATC
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAA--
16826318 TTTTTTATTTAAATAAATTTAAAATTTGAA
64 TTTTTTATTTAAATAAATTTAAAATTTGAA
* * *
16826348 TTTGATAAATAATGTATTATCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATA
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATT
*
16826413 TTTTCTTTAAATAAATTTAAAATTTGAA
66 TTTTATTTAAATAAATTTAAAATTTGAA
** * * * *
16826441 TTTATTAAATAATATATTATCAAATCAACACATTATTTGATAAAAATTGAAATATTATAATAATA
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATT
*
16826506 TTTTCTTTAAATAAATTTAAAATTTGAA
66 TTTTATTTAAATAAATTTAAAATTTGAA
* * *
16826534 TTTAGTAAATAATGTATTGTCAAATTAACACATTATTTGATAAAAATTGAAATATTAT-ATAATT
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATT
16826598 TTTTATTTAAATAAATTTAAAATTTGAA
66 TTTTATTTAAATAAATTTAAAATTTGAA
*
16826626 TTTGGTAAATAATGTGTTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATA
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAAT-A-A
16826691 TTTTTTATTTAAATAAATTTAAAATTTGAA
64 TTTTTTATTTAAATAAATTTAAAATTTGAA
*
16826721 TTTAGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATC
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAA--
*
16826786 TTTTTTATTTAAATAAATTTAAATTTTGAA
64 TTTTTTATTTAAATAAATTTAAAATTTGAA
* * * *
16826816 TTTGATAAATAATATATTGTCAAATCAAAATATTATTTGATAAAAATTAAAATATTATAATAA-T
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATT
*
16826880 TTTTATTTAAATAAATTTAAAATTTGAG
66 TTTTATTTAAATAAATTTAAAATTTGAA
* * * * * *
16826908 TTTAGTTAATAAT-TATTGTCAAATCGACATATTATTTAATAAAAATTGAAATATTATAATAATT
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATT
* *
16826972 TTTTATTTAAATAAAATT-GAATTTGAA
66 TTTTATTTAAATAAATTTAAAATTTGAA
* * *
16826999 TTTGGTAAATAATGTATTGTTAAATAAACACATTATTTGATATAAATTAAAATATTATAATAA
1 TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAA
16827062 ATAATTTTAA
Statistics
Matches: 658, Mismatches: 49, Indels: 17
0.91 0.07 0.02
Matches are distributed among these distances:
91 63 0.10
92 183 0.28
93 174 0.26
94 2 0.00
95 236 0.36
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (93 bp):
TTTGGTAAATAATGTATTGTCAAATCAACACATTATTTGATAAAAATTAAAATATTATAATAATT
TTTTATTTAAATAAATTTAAAATTTGAA
Found at i:16827170 original size:18 final size:18
Alignment explanation
Indices: 16827112--16827171 Score: 50
Period size: 18 Copynumber: 3.1 Consensus size: 18
16827102 TTGAAGTTAC
16827112 AATTTCAACTTCATTTAATTTT
1 AATTTCAACTTCA---AA-TTT
* *
16827134 AATTTCAAATGT-AATTTT
1 AATTTCAACT-TCAAATTT
16827152 AATTTCAACTTCAAATTT
1 AATTTCAACTTCAAATTT
16827170 AA
1 AA
16827172 ACTAAAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
17 1 0.03
18 19 0.59
19 1 0.03
22 10 0.31
23 1 0.03
ACGTcount: A:0.38, C:0.12, G:0.02, T:0.48
Consensus pattern (18 bp):
AATTTCAACTTCAAATTT
Found at i:16827750 original size:20 final size:21
Alignment explanation
Indices: 16827711--16827755 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
16827701 TGATCAGAGG
*
16827711 AAAAATAAAAGAAACGGAATT
1 AAAAATAAAAGAAACAGAATT
*
16827732 AAAAATAAAA-AAATAGAATT
1 AAAAATAAAAGAAACAGAATT
16827752 AAAA
1 AAAA
16827756 GAAATAGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.73, C:0.02, G:0.09, T:0.16
Consensus pattern (21 bp):
AAAAATAAAAGAAACAGAATT
Found at i:16828593 original size:30 final size:29
Alignment explanation
Indices: 16828555--16828631 Score: 86
Period size: 30 Copynumber: 2.7 Consensus size: 29
16828545 AGATAAACAT
16828555 AAATTAAATACAAATAAATAATAT-CTTTA
1 AAATTAAATACAAATAAA-AATATACTTTA
* * *
16828584 AATATTAAATCCTAATAAAAATATATTTTA
1 AA-ATTAAATACAAATAAAAATATACTTTA
*
16828614 AAATAAAATA-AAATAAAA
1 AAATTAAATACAAATAAAA
16828632 CCAAATCTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
28 7 0.17
29 13 0.32
30 20 0.50
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.32
Consensus pattern (29 bp):
AAATTAAATACAAATAAAAATATACTTTA
Found at i:16832483 original size:61 final size:60
Alignment explanation
Indices: 16832400--16832709 Score: 286
Period size: 60 Copynumber: 5.3 Consensus size: 60
16832390 TAGTGTCTGG
* * * *
16832400 CAATGCATGGCCAACACAAAAAAAATTTTGTTTTTTATTTGATAAAAAAGGTGGTGTCGAT
1 CAATGCATGACCAACACCAAAAAAATTTT-TTTTTTATCTGATAAAAAAGGTGGTGTCGAC
* *
16832461 CAATACATGACCAACACCAAAAAAATTTATTTTTTTATCAGATAAAAAA-GTGGTGTCGAC
1 CAATGCATGACCAACACCAAAAAAATTT-TTTTTTTATCTGATAAAAAAGGTGGTGTCGAC
* * * ** * *
16832521 CAA-GCATTGGCTAACACCAAAAAAATTATTTTTTTATCAAATAAAAATGGTGGCGTCGAC
1 CAATGCA-TGACCAACACCAAAAAAATTTTTTTTTTATCTGATAAAAAAGGTGGTGTCGAC
* * * * *
16832581 TAA-GGATTTG-CCAACACCAAAAAAA--ATATTTTTATCTGATAAAAAAAGTGGTGTC-AGC
1 CAATGCA--TGACCAACACCAAAAAAATTTTTTTTTTATCTGATAAAAAAGGTGGTGTCGA-C
* *
16832639 CAATGCATGACCAACACC---AAAA--TTTTTTTTATCTGATTAAAAAGGTGGTGTCGGC
1 CAATGCATGACCAACACCAAAAAAATTTTTTTTTTATCTGATAAAAAAGGTGGTGTCGAC
16832694 CAA-GCATTGACCAACA
1 CAATGCA-TGACCAACA
16832710 ACAATTTTTT
Statistics
Matches: 211, Mismatches: 29, Indels: 24
0.80 0.11 0.09
Matches are distributed among these distances:
54 3 0.01
55 43 0.20
57 3 0.01
58 35 0.17
59 22 0.10
60 59 0.28
61 45 0.21
62 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (60 bp):
CAATGCATGACCAACACCAAAAAAATTTTTTTTTTATCTGATAAAAAAGGTGGTGTCGAC
Found at i:16832687 original size:55 final size:55
Alignment explanation
Indices: 16832609--16832789 Score: 208
Period size: 55 Copynumber: 3.3 Consensus size: 55
16832599 AAAAAAAATA
16832609 TTTTTATCTGATAAAAAAAGTGGTGTCAGCCAATGCATGACCAACACCAAAATTT
1 TTTTTATCTGATAAAAAAAGTGGTGTCAGCCAATGCATGACCAACACCAAAATTT
* * * *
16832664 TTTTTATCTGATTAAAAAGGTGGTGTCGGCCAA-GCATTGACCAACA--ACAA-TT
1 TTTTTATCTGATAAAAAAAGTGGTGTCAGCCAATGCA-TGACCAACACCAAAATTT
* * * * * *
16832716 TTTTTATCTGATAAAAAATATTGGCGTCTGTCAATGCATGGCCAACACCAAATTTT
1 TTTTTATCTGATAAAAAA-AGTGGTGTCAGCCAATGCATGACCAACACCAAAATTT
* *
16832772 TTTTTATCTAATCAAAAA
1 TTTTTATCTGATAAAAAA
16832790 GGTGCTTGAC
Statistics
Matches: 105, Mismatches: 15, Indels: 11
0.80 0.11 0.08
Matches are distributed among these distances:
52 19 0.18
53 21 0.20
54 6 0.06
55 41 0.39
56 18 0.17
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (55 bp):
TTTTTATCTGATAAAAAAAGTGGTGTCAGCCAATGCATGACCAACACCAAAATTT
Found at i:16838147 original size:17 final size:17
Alignment explanation
Indices: 16838125--16838159 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16838115 TGCCCCAAAC
16838125 CTTTTTCTTTCTTTTTT
1 CTTTTTCTTTCTTTTTT
16838142 CTTTTTCTTTCTTTTTT
1 CTTTTTCTTTCTTTTTT
16838159 C
1 C
16838160 CTTGCCTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
CTTTTTCTTTCTTTTTT
Found at i:16838658 original size:21 final size:21
Alignment explanation
Indices: 16838632--16838690 Score: 109
Period size: 21 Copynumber: 2.8 Consensus size: 21
16838622 GCCTAAATCC
*
16838632 CATTTAAACCAAACCCACATT
1 CATTTAAACCAAACCCAAATT
16838653 CATTTAAACCAAACCCAAATT
1 CATTTAAACCAAACCCAAATT
16838674 CATTTAAACCAAACCCA
1 CATTTAAACCAAACCCA
16838691 TTTAAACCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.46, C:0.32, G:0.00, T:0.22
Consensus pattern (21 bp):
CATTTAAACCAAACCCAAATT
Found at i:16838692 original size:15 final size:15
Alignment explanation
Indices: 16838674--16838703 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
16838664 AACCCAAATT
16838674 CATTTAAACCAAACC
1 CATTTAAACCAAACC
16838689 CATTTAAACCAAACC
1 CATTTAAACCAAACC
16838704 AAATGAACCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (15 bp):
CATTTAAACCAAACC
Found at i:16838753 original size:10 final size:10
Alignment explanation
Indices: 16838740--16838787 Score: 69
Period size: 10 Copynumber: 4.7 Consensus size: 10
16838730 AGTCAAACCA
16838740 TTGACCGACG
1 TTGACCGACG
* *
16838750 TTGACTGTCG
1 TTGACCGACG
16838760 TTGACCGACG
1 TTGACCGACG
16838770 TTGACCGATCG
1 TTGACCGA-CG
16838781 TTGACCG
1 TTGACCG
16838788 GTGTTGATTG
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
10 24 0.73
11 9 0.27
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (10 bp):
TTGACCGACG
Found at i:16838765 original size:20 final size:21
Alignment explanation
Indices: 16838740--16838787 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
16838730 AGTCAAACCA
*
16838740 TTGACCGACGTTGACTG-TCG
1 TTGACCGACGTTGACCGATCG
16838760 TTGACCGACGTTGACCGATCG
1 TTGACCGACGTTGACCGATCG
16838781 TTGACCG
1 TTGACCG
16838788 GTGTTGATTG
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 16 0.62
21 10 0.38
ACGTcount: A:0.17, C:0.27, G:0.29, T:0.27
Consensus pattern (21 bp):
TTGACCGACGTTGACCGATCG
Found at i:16838832 original size:7 final size:7
Alignment explanation
Indices: 16838799--16838879 Score: 51
Period size: 7 Copynumber: 12.0 Consensus size: 7
16838789 TGTTGATTGG
16838799 CCGTTGA
1 CCGTTGA
*
16838806 CCGCTGA
1 CCGTTGA
*
16838813 CCGATGA
1 CCGTTGA
*
16838820 -CTTTGA
1 CCGTTGA
16838826 CCGTTGA
1 CCGTTGA
*
16838833 TCGTTGA
1 CCGTTGA
*
16838840 -CTTTGA
1 CCGTTGA
**
16838846 TTGTTGA
1 CCGTTGA
*
16838853 TCGTTGA
1 CCGTTGA
*
16838860 -CTTTGA
1 CCGTTGA
*
16838866 CCATTGA
1 CCGTTGA
16838873 CCGTTGA
1 CCGTTGA
16838880 TCATTGACTT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
6 14 0.24
7 44 0.76
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (7 bp):
CCGTTGA
Found at i:16838851 original size:20 final size:20
Alignment explanation
Indices: 16838802--16838879 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
16838792 TGATTGGCCG
* * *
16838802 TTGACCGCTGACCGATGACT
1 TTGACCGTTGATCGTTGACT
16838822 TTGACCGTTGATCGTTGACT
1 TTGACCGTTGATCGTTGACT
**
16838842 TTGATTGTTGATCGTTGACT
1 TTGACCGTTGATCGTTGACT
* *
16838862 TTGACCATTGACCGTTGA
1 TTGACCGTTGATCGTTGA
16838880 TCATTGACTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGACCGTTGATCGTTGACT
Found at i:16839946 original size:3 final size:3
Alignment explanation
Indices: 16839934--16839975 Score: 77
Period size: 3 Copynumber: 14.3 Consensus size: 3
16839924 TATTCTATTC
16839934 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
16839976 TTGGGATATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:16845425 original size:17 final size:17
Alignment explanation
Indices: 16845403--16845437 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
16845393 TGCCCCAAAC
16845403 CTTTTTCTTTCTTTTTT
1 CTTTTTCTTTCTTTTTT
16845420 CTTTTTCTTTCTTTTTT
1 CTTTTTCTTTCTTTTTT
16845437 C
1 C
16845438 CTTGCCTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (17 bp):
CTTTTTCTTTCTTTTTT
Found at i:16845936 original size:21 final size:21
Alignment explanation
Indices: 16845910--16845968 Score: 100
Period size: 21 Copynumber: 2.8 Consensus size: 21
16845900 GCCTAAATCC
*
16845910 CATTTAAACCAAACCCACATT
1 CATTTAAACCAAACCCAAATT
16845931 CATTTAAACCAAACCCAAATT
1 CATTTAAACCAAACCCAAATT
*
16845952 TATTTAAACCAAACCCA
1 CATTTAAACCAAACCCA
16845969 TTTGAACAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.46, C:0.31, G:0.00, T:0.24
Consensus pattern (21 bp):
CATTTAAACCAAACCCAAATT
Found at i:16846043 original size:20 final size:21
Alignment explanation
Indices: 16846018--16846065 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
16846008 AGTCAAACCA
*
16846018 TTGACCGACATTGA-CTATCG
1 TTGACCGACATTGACCGATCG
*
16846038 TTGACCGACGTTGACCGATCG
1 TTGACCGACATTGACCGATCG
16846059 TTGACCG
1 TTGACCG
16846066 GTGTTGATTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 13 0.52
21 12 0.48
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (21 bp):
TTGACCGACATTGACCGATCG
Found at i:16846062 original size:11 final size:11
Alignment explanation
Indices: 16846034--16846065 Score: 57
Period size: 10 Copynumber: 3.0 Consensus size: 11
16846024 GACATTGACT
16846034 ATCGTTGACCG
1 ATCGTTGACCG
16846045 A-CGTTGACCG
1 ATCGTTGACCG
16846055 ATCGTTGACCG
1 ATCGTTGACCG
16846066 GTGTTGATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.19, C:0.28, G:0.28, T:0.25
Consensus pattern (11 bp):
ATCGTTGACCG
Found at i:16846110 original size:7 final size:7
Alignment explanation
Indices: 16846077--16846157 Score: 51
Period size: 7 Copynumber: 12.0 Consensus size: 7
16846067 TGTTGATTGG
16846077 CCGTTGA
1 CCGTTGA
*
16846084 CCGCTGA
1 CCGTTGA
*
16846091 CCGATGA
1 CCGTTGA
*
16846098 -CTTTGA
1 CCGTTGA
16846104 CCGTTGA
1 CCGTTGA
*
16846111 TCGTTGA
1 CCGTTGA
*
16846118 -CTTTGA
1 CCGTTGA
**
16846124 TTGTTGA
1 CCGTTGA
*
16846131 TCGTTGA
1 CCGTTGA
*
16846138 -CTTTGA
1 CCGTTGA
*
16846144 CCATTGA
1 CCGTTGA
16846151 CCGTTGA
1 CCGTTGA
16846158 TCATTGACTT
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
6 14 0.24
7 44 0.76
ACGTcount: A:0.17, C:0.22, G:0.25, T:0.36
Consensus pattern (7 bp):
CCGTTGA
Found at i:16846129 original size:20 final size:20
Alignment explanation
Indices: 16846080--16846157 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
16846070 TGATTGGCCG
* * *
16846080 TTGACCGCTGACCGATGACT
1 TTGACCGTTGATCGTTGACT
16846100 TTGACCGTTGATCGTTGACT
1 TTGACCGTTGATCGTTGACT
**
16846120 TTGATTGTTGATCGTTGACT
1 TTGACCGTTGATCGTTGACT
* *
16846140 TTGACCATTGACCGTTGA
1 TTGACCGTTGATCGTTGA
16846158 TCATTGACTT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (20 bp):
TTGACCGTTGATCGTTGACT
Found at i:16847226 original size:3 final size:3
Alignment explanation
Indices: 16847214--16847270 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
16847204 TATTCTATTC
16847214 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
16847261 TAT TAT TAT T
1 TAT TAT TAT T
16847271 TTGGGATATA
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:16851502 original size:19 final size:19
Alignment explanation
Indices: 16851480--16851516 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
16851470 ACCACCGTCA
*
16851480 TCCACAGTAATTAAATTTC
1 TCCACAGTAATCAAATTTC
*
16851499 TCCACCGTAATCAAATTT
1 TCCACAGTAATCAAATTT
16851517 GTTATTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.24, G:0.05, T:0.35
Consensus pattern (19 bp):
TCCACAGTAATCAAATTTC
Found at i:16853783 original size:9 final size:9
Alignment explanation
Indices: 16853769--16853824 Score: 53
Period size: 9 Copynumber: 6.2 Consensus size: 9
16853759 GTAAATGATT
16853769 TTAAAATTA
1 TTAAAATTA
16853778 TTAAAATTA
1 TTAAAATTA
* *
16853787 TTATATTATTT
1 TTA-A-AATTA
*
16853798 TTTAAA-TA
1 TTAAAATTA
16853806 -TAAAATTA
1 TTAAAATTA
16853814 TTAAAATTA
1 TTAAAATTA
16853823 TT
1 TT
16853825 GAATAATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
7 4 0.11
8 3 0.08
9 23 0.62
10 2 0.05
11 5 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (9 bp):
TTAAAATTA
Found at i:16855150 original size:18 final size:18
Alignment explanation
Indices: 16855117--16855155 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
16855107 TTTAAAAGTT
*
16855117 TTTTTTAATTTTAA-TTA
1 TTTTTTAATTTAAATTTA
16855134 TTTTTTAAGTTTAAATTTA
1 TTTTTTAA-TTTAAATTTA
16855153 TTT
1 TTT
16855156 GTTGATGTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 5 0.26
19 6 0.32
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (18 bp):
TTTTTTAATTTAAATTTA
Found at i:16859996 original size:9 final size:9
Alignment explanation
Indices: 16859982--16860013 Score: 64
Period size: 9 Copynumber: 3.6 Consensus size: 9
16859972 ACACATGCCT
16859982 TTTTTTTTA
1 TTTTTTTTA
16859991 TTTTTTTTA
1 TTTTTTTTA
16860000 TTTTTTTTA
1 TTTTTTTTA
16860009 TTTTT
1 TTTTT
16860014 GAGTCTTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.09, C:0.00, G:0.00, T:0.91
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:16863006 original size:22 final size:22
Alignment explanation
Indices: 16862981--16863026 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
16862971 TTAATTAAGT
*
16862981 TTATGAATGAATTTGAAATTAA
1 TTATGAATAAATTTGAAATTAA
** *
16863003 TTATGTTTAAATTTGAATTTAA
1 TTATGAATAAATTTGAAATTAA
16863025 TT
1 TT
16863027 TATAATTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.11, T:0.50
Consensus pattern (22 bp):
TTATGAATAAATTTGAAATTAA
Found at i:16863507 original size:21 final size:21
Alignment explanation
Indices: 16863450--16863509 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
16863440 GGTAATTAGT
*
16863450 TTAAGATTTAGGGTTAAAGGA
1 TTAAGATTTAGGGTTTAAGGA
*
16863471 TTAAGATTAAGGGTTTAAGGTAA
1 TTAAGATTTAGGGTTTAAGG--A
16863494 TT-A-ATTTAGGGTTTAA
1 TTAAGATTTAGGGTTTAA
16863510 AATTTTAAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
21 30 0.88
22 1 0.03
23 3 0.09
ACGTcount: A:0.37, C:0.00, G:0.25, T:0.38
Consensus pattern (21 bp):
TTAAGATTTAGGGTTTAAGGA
Found at i:16866720 original size:18 final size:18
Alignment explanation
Indices: 16866697--16866732 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
16866687 TTCCACCCTC
16866697 TTCTTC-TTCTTTCTTTCT
1 TTCTTCGTT-TTTCTTTCT
16866715 TTCTTCGTTTTTCTTTCT
1 TTCTTCGTTTTTCTTTCT
16866733 AATGTGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.00, C:0.25, G:0.03, T:0.72
Consensus pattern (18 bp):
TTCTTCGTTTTTCTTTCT
Found at i:16866834 original size:19 final size:19
Alignment explanation
Indices: 16866810--16866848 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
16866800 AATAGGAGAA
*
16866810 GCAGCACGTCAGGGAGCAG
1 GCAGCACGCCAGGGAGCAG
16866829 GCAGCACGCCAGGGAGCAG
1 GCAGCACGCCAGGGAGCAG
16866848 G
1 G
16866849 TTAGGAGACA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.28, G:0.44, T:0.03
Consensus pattern (19 bp):
GCAGCACGCCAGGGAGCAG
Found at i:16875865 original size:20 final size:20
Alignment explanation
Indices: 16875840--16875877 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
16875830 ATAGAATAGA
16875840 AAAATAAT-TAAAATATTATT
1 AAAATAATAT-AAATATTATT
16875860 AAAATAATATAAATATTA
1 AAAATAATATAAATATTA
16875878 CGCATAAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAATAATATAAATATTATT
Found at i:16877893 original size:19 final size:19
Alignment explanation
Indices: 16877869--16877914 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
16877859 TATCAAAGGT
16877869 ATCGATA-TTTTCATCAGAA
1 ATCGATACTTTTCATCA-AA
*
16877888 ATCGATACTTTTCTTCAAA
1 ATCGATACTTTTCATCAAA
*
16877907 AACGATAC
1 ATCGATAC
16877915 CAAGGGGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.35
Consensus pattern (19 bp):
ATCGATACTTTTCATCAAA
Found at i:16878783 original size:23 final size:23
Alignment explanation
Indices: 16878748--16878876 Score: 76
Period size: 23 Copynumber: 5.8 Consensus size: 23
16878738 ACAAAGTACT
**
16878748 GAGCACAAAAAGTGCTAATCAGA
1 GAGCACACGAAGTGCTAATCAGA
*
16878771 GAGCACACGAAGTGCTAATAATAGA
1 GAGCACACGAAGTGCTAAT--CAGA
* *
16878796 GAGCACGA-GACGTGCTAAACAGA
1 GAGCAC-ACGAAGTGCTAATCAGA
* * * *
16878819 GAGTAAAC-AA-AG-T-A-C--T
1 GAGCACACGAAGTGCTAATCAGA
* *
16878835 GAGCACACAAAGTACTAATCAGA
1 GAGCACACGAAGTGCTAATCAGA
16878858 GAGCACACGAAGTGCTAAT
1 GAGCACACGAAGTGCTAAT
16878877 AATAGAGAGC
Statistics
Matches: 77, Mismatches: 18, Indels: 22
0.66 0.15 0.19
Matches are distributed among these distances:
16 6 0.08
17 2 0.03
18 1 0.01
19 2 0.03
20 2 0.03
21 2 0.03
22 2 0.03
23 41 0.53
25 18 0.23
26 1 0.01
ACGTcount: A:0.44, C:0.19, G:0.23, T:0.14
Consensus pattern (23 bp):
GAGCACACGAAGTGCTAATCAGA
Found at i:16878799 original size:87 final size:87
Alignment explanation
Indices: 16878708--16878908 Score: 332
Period size: 87 Copynumber: 2.3 Consensus size: 87
16878698 TGGGCAACAA
* *
16878708 AGAGCAC-ACACAGTGCTAAACATAGAGTAAACAAAGTACTGAGCACAAAAAGTGCTAATCAGAG
1 AGAGCACGACAC-GTGCTAAACAGAGAGTAAACAAAGTACTGAGCACAAAAAGTACTAATCAGAG
16878772 AGCACACGAAGTGCTAATAATAG
65 AGCACACGAAGTGCTAATAATAG
* *
16878795 AGAGCACGAGACGTGCTAAACAGAGAGTAAACAAAGTACTGAGCACACAAAGTACTAATCAGAGA
1 AGAGCACGACACGTGCTAAACAGAGAGTAAACAAAGTACTGAGCACAAAAAGTACTAATCAGAGA
16878860 GCACACGAAGTGCTAATAATAG
66 GCACACGAAGTGCTAATAATAG
* *
16878882 AGAGCACGAGACGTGTTAAACAGAGAG
1 AGAGCACGACACGTGCTAAACAGAGAG
16878909 CGAGCTAAGG
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
87 105 0.97
88 3 0.03
ACGTcount: A:0.45, C:0.18, G:0.23, T:0.14
Consensus pattern (87 bp):
AGAGCACGACACGTGCTAAACAGAGAGTAAACAAAGTACTGAGCACAAAAAGTACTAATCAGAGA
GCACACGAAGTGCTAATAATAG
Found at i:16878821 original size:25 final size:23
Alignment explanation
Indices: 16878748--16878909 Score: 72
Period size: 23 Copynumber: 7.2 Consensus size: 23
16878738 ACAAAGTACT
** *
16878748 GAGCACAAAAAGTGCTAATCAGA
1 GAGCACACGAAGTGCTAAACAGA
*
16878771 GAGCACACGAAGTGCTAATAATAGA
1 GAGCACACGAAGTGCT-A-AACAGA
*
16878796 GAGCACGA-GACGTGCTAAACAGA
1 GAGCAC-ACGAAGTGCTAAACAGA
* * * *
16878819 GAGTAAAC-AA-AG-T--AC--T
1 GAGCACACGAAGTGCTAAACAGA
* * *
16878835 GAGCACACAAAGTACTAATCAGA
1 GAGCACACGAAGTGCTAAACAGA
*
16878858 GAGCACACGAAGTGCTAATAATAGA
1 GAGCACACGAAGTGCT-A-AACAGA
* *
16878883 GAGCACGA-GACGTGTTAAACAGA
1 GAGCAC-ACGAAGTGCTAAACAGA
16878906 GAGC
1 GAGC
16878910 GAGCTAAGGT
Statistics
Matches: 101, Mismatches: 24, Indels: 28
0.66 0.16 0.18
Matches are distributed among these distances:
16 6 0.06
17 2 0.02
18 2 0.02
19 1 0.01
20 1 0.01
21 2 0.02
22 2 0.02
23 46 0.46
24 4 0.04
25 33 0.33
26 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.25, T:0.14
Consensus pattern (23 bp):
GAGCACACGAAGTGCTAAACAGA
Found at i:16879302 original size:15 final size:16
Alignment explanation
Indices: 16879282--16879311 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
16879272 ATAATTAATA
16879282 AAACAC-TAAAATTAT
1 AAACACATAAAATTAT
16879297 AAACACATAAAATTA
1 AAACACATAAAATTA
16879312 ATTATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.13, G:0.00, T:0.23
Consensus pattern (16 bp):
AAACACATAAAATTAT
Found at i:16882680 original size:59 final size:60
Alignment explanation
Indices: 16882617--16882752 Score: 175
Period size: 60 Copynumber: 2.3 Consensus size: 60
16882607 GGTAAAATGG
* * *
16882617 TAATTTTTAGAAGTTTTGGGGTCAAAAAT-TGATTTTTTAGAATTTTAAGGGTAAAAATA
1 TAATTTTTGGAAGTTTTGGGGTCAAAAATGTGATTTTTGAAAATTTTAAGGGTAAAAATA
* * ** *
16882676 TAATTTTGGGAAGTTTTGGGGTCAAAAATGTTATTTTTGAAAATTTTGGGGGTAAAAATG
1 TAATTTTTGGAAGTTTTGGGGTCAAAAATGTGATTTTTGAAAATTTTAAGGGTAAAAATA
*
16882736 CAATTTTTGGATAGTTT
1 TAATTTTTGGA-AGTTT
16882753 AGGGACCTTC
Statistics
Matches: 65, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
59 27 0.42
60 33 0.51
61 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.22, T:0.43
Consensus pattern (60 bp):
TAATTTTTGGAAGTTTTGGGGTCAAAAATGTGATTTTTGAAAATTTTAAGGGTAAAAATA
Found at i:16882735 original size:30 final size:30
Alignment explanation
Indices: 16882610--16882744 Score: 107
Period size: 30 Copynumber: 4.5 Consensus size: 30
16882600 ATCTGAGGGT
*
16882610 AAAATGGTAATTTTT-AGAAGTTTTGGGGTCA
1 AAAAT-GTAATTTTTGA-AAATTTTGGGGTCA
* * * *
16882641 AAAAT-TGATTTTTTAGAATTTTAAGGGT-A
1 AAAATGTAATTTTTGAAAATTTT-GGGGTCA
* * * *
16882670 AAAATATAATTTTGGGAAGTTTTGGGGTCA
1 AAAATGTAATTTTTGAAAATTTTGGGGTCA
*
16882700 AAAATGTTATTTTTGAAAATTTTGGGGGT-A
1 AAAATGTAATTTTTGAAAATTTT-GGGGTCA
*
16882730 AAAATGCAATTTTTG
1 AAAATGTAATTTTTG
16882745 GATAGTTTAG
Statistics
Matches: 81, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
29 22 0.27
30 49 0.60
31 10 0.12
ACGTcount: A:0.35, C:0.02, G:0.22, T:0.41
Consensus pattern (30 bp):
AAAATGTAATTTTTGAAAATTTTGGGGTCA
Found at i:16884728 original size:17 final size:17
Alignment explanation
Indices: 16884706--16884751 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
16884696 ATTTAATTTT
16884706 TAAATTTAAA-TTTATAA
1 TAAATTTAAATTTTAT-A
*
16884723 TAAATTTAAATTTTATG
1 TAAATTTAAATTTTATA
16884740 TAAATTTAAATT
1 TAAATTTAAATT
16884752 CAAAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 22 0.81
18 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TAAATTTAAATTTTATA
Found at i:16885423 original size:21 final size:21
Alignment explanation
Indices: 16885381--16885436 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
16885371 GAAGTATGGG
* *
16885381 TTGTATCGATAGTACCTATAC
1 TTGTATCGGTAGAACCTATAC
16885402 TTGTATCGGTAGAACTCT-TAC
1 TTGTATCGGTAGAAC-CTATAC
* *
16885423 TTCTACCGGTAGAA
1 TTGTATCGGTAGAA
16885437 ATCTGCAGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.36
Consensus pattern (21 bp):
TTGTATCGGTAGAACCTATAC
Found at i:16887390 original size:11 final size:11
Alignment explanation
Indices: 16887374--16887429 Score: 69
Period size: 11 Copynumber: 5.0 Consensus size: 11
16887364 TGCTTTGAAA
*
16887374 TTAAATTTATT
1 TTAAATTTAAT
16887385 TTAAATTTAAAT
1 TTAAATTT-AAT
16887397 TT-AATTTAAGT
1 TTAAATTTAA-T
*
16887408 TTGAATTTAAT
1 TTAAATTTAAT
16887419 TTAAATTTAAT
1 TTAAATTTAAT
16887430 ATTATTGTAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
10 2 0.05
11 27 0.68
12 11 0.28
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:16887394 original size:17 final size:17
Alignment explanation
Indices: 16887356--16887445 Score: 85
Period size: 17 Copynumber: 5.3 Consensus size: 17
16887346 CCCAAACCAT
* *
16887356 TTTAAATTTGCTTTGAAA
1 TTTAAATTT-ATTTTAAA
16887374 -TTAAATTTATTTTAAA
1 TTTAAATTTATTTTAAA
* *
16887390 TTTAAATTTAATTTAAG
1 TTTAAATTTATTTTAAA
* *
16887407 TTTGAATTTAATTTAAA
1 TTTAAATTTATTTTAAA
*
16887424 TTT-AATATTATTGTAAA
1 TTTAAAT-TTATTTTAAA
16887441 TTTAA
1 TTTAA
16887446 TGTCCAAATG
Statistics
Matches: 61, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
16 9 0.15
17 51 0.84
18 1 0.02
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (17 bp):
TTTAAATTTATTTTAAA
Found at i:16887395 original size:6 final size:6
Alignment explanation
Indices: 16887374--16887428 Score: 62
Period size: 6 Copynumber: 9.7 Consensus size: 6
16887364 TGCTTTGAAA
* * *
16887374 TTAAAT TT-ATT TTAAAT TTAAAT TT-AAT TTAAGT TTGAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
16887419 TTAAAT TTAA
1 TTAAAT TTAA
16887429 TATTATTGTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
5 14 0.34
6 27 0.66
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (6 bp):
TTAAAT
Found at i:16887402 original size:5 final size:5
Alignment explanation
Indices: 16887372--16887429 Score: 53
Period size: 5 Copynumber: 10.6 Consensus size: 5
16887362 TTTGCTTTGA
* *
16887372 AATTA AATTT ATTTT AAATTT AAATTT AATTT AAGTTT GAATTT AATTT
1 AATTT AATTT AATTT -AATTT -AATTT AATTT AA-TTT -AATTT AATTT
16887421 AAATTT AAT
1 -AATTT AAT
16887430 ATTATTGTAA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
5 23 0.50
6 21 0.46
7 2 0.04
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (5 bp):
AATTT
Found at i:16887442 original size:28 final size:28
Alignment explanation
Indices: 16887388--16887446 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
16887378 ATTTATTTTA
*
16887388 AATTTAAATTTAATTTAAGTTTGAATTT
1 AATTTAAATTTAATTTAAGTTTAAATTT
16887416 AATTTAAATTTAATATT-A-TTGTAAATTT
1 AATTTAAATTTAAT-TTAAGTT-TAAATTT
16887444 AAT
1 AAT
16887447 GTCCAAATGT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 2 0.07
28 24 0.86
29 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.53
Consensus pattern (28 bp):
AATTTAAATTTAATTTAAGTTTAAATTT
Found at i:16888219 original size:30 final size:27
Alignment explanation
Indices: 16888185--16888359 Score: 127
Period size: 30 Copynumber: 6.0 Consensus size: 27
16888175 CCCTGCAAGT
16888185 CCCTAAACTATCCAGAAATTACATTTTAA
1 CCCTAAACT-TCCA-AAATTACATTTTAA
*
16888214 CCCCTAAACTTCTCCAAAATTACATTTTTA
1 -CCCTAAAC-T-TCCAAAATTACATTTTAA
* * *
16888244 CCTTCGAAA-TTCCAAAAATTCCATTTTGA
1 CC--CTAAACTTCC-AAAATTACATTTTAA
*
16888273 CCCTAAAATTCCCAAAATTACATTTTTAA
1 CCCTAAACTT-CCAAAATTACA-TTTTAA
* *
16888302 CCTTAAAACTTCCAAAAATTCCATTTTTAA
1 CCCT-AAACTTCC-AAAATTACA-TTTTAA
**
16888332 CCCTAAAACTTTTAAAATTACCATTTTA
1 CCCT-AAACTTCCAAAATTA-CATTTTA
16888360 CCCCCAAATA
Statistics
Matches: 120, Mismatches: 15, Indels: 21
0.77 0.10 0.13
Matches are distributed among these distances:
27 4 0.03
28 13 0.11
29 41 0.34
30 53 0.44
31 9 0.08
ACGTcount: A:0.38, C:0.25, G:0.02, T:0.35
Consensus pattern (27 bp):
CCCTAAACTTCCAAAATTACATTTTAA
Found at i:16888270 original size:28 final size:29
Alignment explanation
Indices: 16888195--16888339 Score: 134
Period size: 30 Copynumber: 5.0 Consensus size: 29
16888185 CCCTAAACTA
* * *
16888195 TCCAGAAATTACA-TTTTAACCCCTAAACT
1 TCCAAAAATTACATTTTTAA-CCTTAAAAT
* *
16888224 TCTCCAAAATTACATTTTT-ACCTTCGAAAT
1 TC-CAAAAATTACATTTTTAACCTT-AAAAT
* * *
16888254 TCCAAAAATTCCA-TTTTGACCCTAAAAT
1 TCCAAAAATTACATTTTTAACCTTAAAAT
*
16888282 TCCCAAAATTACATTTTTAACCTTAAAACT
1 TCCAAAAATTACATTTTTAACCTTAAAA-T
* *
16888312 TCCAAAAATTCCATTTTTAACCCTAAAA
1 TCCAAAAATTACATTTTTAACCTTAAAA
16888340 CTTTTAAAAT
Statistics
Matches: 94, Mismatches: 16, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
28 19 0.20
29 30 0.32
30 41 0.44
31 4 0.04
ACGTcount: A:0.39, C:0.25, G:0.02, T:0.34
Consensus pattern (29 bp):
TCCAAAAATTACATTTTTAACCTTAAAAT
Found at i:16888315 original size:58 final size:59
Alignment explanation
Indices: 16888189--16888339 Score: 200
Period size: 58 Copynumber: 2.5 Consensus size: 59
16888179 GCAAGTCCCT
* * * *
16888189 AAACTATCCAGAAATTACATTTTAACCCCTAAACTTCTCCAAAATTACATTTTTACCTTCG
1 AAACT-TCCAAAAATTCCATTTTAA-CCCTAAAATTCTCCAAAATTACATTTTTACCTTCA
*
16888250 AAA-TTCCAAAAATTCCATTTTGACCCTAAAATTC-CCAAAATTACATTTTTAACCTT-A
1 AAACTTCCAAAAATTCCATTTTAACCCTAAAATTCTCCAAAATTACATTTTT-ACCTTCA
16888307 AAACTTCCAAAAATTCCATTTTTAACCCTAAAA
1 AAACTTCCAAAAATTCCA-TTTTAACCCTAAAA
16888340 CTTTTAAAAT
Statistics
Matches: 81, Mismatches: 6, Indels: 8
0.85 0.06 0.08
Matches are distributed among these distances:
57 19 0.23
58 29 0.36
59 29 0.36
60 1 0.01
61 3 0.04
ACGTcount: A:0.40, C:0.25, G:0.02, T:0.34
Consensus pattern (59 bp):
AAACTTCCAAAAATTCCATTTTAACCCTAAAATTCTCCAAAATTACATTTTTACCTTCA
Found at i:16888349 original size:29 final size:29
Alignment explanation
Indices: 16888200--16888415 Score: 124
Period size: 30 Copynumber: 7.4 Consensus size: 29
16888190 AACTATCCAG
* * *
16888200 AAATTACA-TTTTAACCCCTAAACTTCTCCA
1 AAATTCCATTTTTAA-CCCTAAAATTC-CTA
* * * *
16888230 AAATTACATTTTT-ACCTTCGAAATTCCAA
1 AAATTCCATTTTTAACCCT-AAAATTCCTA
* *
16888259 AAATTCCA-TTTTGACCCTAAAATTCCCA
1 AAATTCCATTTTTAACCCTAAAATTCCTA
* * *
16888287 AAATTACATTTTTAACCTTAAAACTTCCAA
1 AAATTCCATTTTTAACCCTAAAA-TTCCTA
*
16888317 AAATTCCATTTTTAACCCTAAAACTT-TTA
1 AAATTCCATTTTTAACCCTAAAA-TTCCTA
* *
16888346 AAATTACCA-TTTTACCCCCAAATATT--TA
1 AAATT-CCATTTTTAACCCTAAA-ATTCCTA
* * *
16888374 AAATGT-CATCTTTAACCCTAAATTTCCCCA
1 AAAT-TCCATTTTTAACCCTAAAATT-CCTA
*
16888404 AAACTCCATTTT
1 AAATTCCATTTT
16888416 CACCCCCGAG
Statistics
Matches: 148, Mismatches: 25, Indels: 26
0.74 0.13 0.13
Matches are distributed among these distances:
27 4 0.03
28 35 0.24
29 49 0.33
30 56 0.38
31 4 0.03
ACGTcount: A:0.38, C:0.25, G:0.01, T:0.36
Consensus pattern (29 bp):
AAATTCCATTTTTAACCCTAAAATTCCTA
Found at i:16891133 original size:25 final size:25
Alignment explanation
Indices: 16891099--16891149 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
16891089 ATTTTCAGCA
16891099 ACTCATGTGTCAAGGCTAATACGAT
1 ACTCATGTGTCAAGGCTAATACGAT
16891124 ACTCATGTGTCAAGGCTAATACGAT
1 ACTCATGTGTCAAGGCTAATACGAT
16891149 A
1 A
16891150 TATTAACAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.27
Consensus pattern (25 bp):
ACTCATGTGTCAAGGCTAATACGAT
Found at i:16909858 original size:17 final size:18
Alignment explanation
Indices: 16909833--16909871 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
16909823 TTAAAATTAA
*
16909833 AATTGAATTGAA-AAATT
1 AATTCAATTGAATAAATT
*
16909850 AATTCAATTGAATTAATT
1 AATTCAATTGAATAAATT
16909868 AATT
1 AATT
16909872 GATTGATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (18 bp):
AATTCAATTGAATAAATT
Found at i:16925429 original size:40 final size:40
Alignment explanation
Indices: 16925369--16925510 Score: 115
Period size: 40 Copynumber: 3.4 Consensus size: 40
16925359 GAATAGTTTA
*
16925369 ATTAATTCAAATTTAATTAATAATCGGTTTTAATGTAGAT
1 ATTACTTCAAATTTAATTAATAATCGGTTTTAATGTAGAT
* * * * * * *
16925409 ATGACTTCAATTTTAATTAATATTTAGCATATT-ATGAATAGTTT
1 ATTACTTCAAATTTAATTAATA-ATCG-GTTTTAATG--TAG-AT
* *
16925453 AATTAATTCAAATTTAATTAATAATCAGTTTTAATGTAGAT
1 -ATTACTTCAAATTTAATTAATAATCGGTTTTAATGTAGAT
*
16925494 ATTTACTTCAATTTTAA
1 A-TTACTTCAAATTTAA
16925511 AATTGATTTA
Statistics
Matches: 75, Mismatches: 19, Indels: 15
0.69 0.17 0.14
Matches are distributed among these distances:
40 20 0.27
41 19 0.25
42 6 0.08
43 6 0.08
44 5 0.07
45 19 0.25
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.46
Consensus pattern (40 bp):
ATTACTTCAAATTTAATTAATAATCGGTTTTAATGTAGAT
Found at i:16925489 original size:85 final size:86
Alignment explanation
Indices: 16925346--16925510 Score: 305
Period size: 85 Copynumber: 1.9 Consensus size: 86
16925336 GAGATTTCTT
*
16925346 TTTAGCATATTATGAATAGTTTAATTAATTCAAATTTAATTAATAATCGGTTTTAATGTAGATA-
1 TTTAGCATATTATGAATAGTTTAATTAATTCAAATTTAATTAATAATCAGTTTTAATGTAGATAT
16925410 TGACTTCAATTTTAATTAATA
66 TGACTTCAATTTTAATTAATA
16925431 TTTAGCATATTATGAATAGTTTAATTAATTCAAATTTAATTAATAATCAGTTTTAATGTAGATAT
1 TTTAGCATATTATGAATAGTTTAATTAATTCAAATTTAATTAATAATCAGTTTTAATGTAGATAT
*
16925496 TTACTTCAATTTTAA
66 TGACTTCAATTTTAA
16925511 AATTGATTTA
Statistics
Matches: 77, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
85 63 0.82
86 14 0.18
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (86 bp):
TTTAGCATATTATGAATAGTTTAATTAATTCAAATTTAATTAATAATCAGTTTTAATGTAGATAT
TGACTTCAATTTTAATTAATA
Found at i:16927709 original size:30 final size:30
Alignment explanation
Indices: 16927675--16927857 Score: 157
Period size: 30 Copynumber: 6.2 Consensus size: 30
16927665 TCCAAGAGGT
* *
16927675 CCTTAAACTTTT-TAGAAATTACATTTTGAC
1 CCTTAAACTTTTCCA-AAATCACATTTTGAC
*
16927705 CCTTAAA-TTTTCCAAAAATCACATTTTAATC
1 CCTTAAACTTTTCC-AAAATCACATTTTGA-C
* * *
16927736 AC-TAAACTTTTCTAAAATCACATTTTAAC
1 CCTTAAACTTTTCCAAAATCACATTTTGAC
* *
16927765 CC-TAAACTTTTCCAAAATTACATTTT-AA
1 CCTTAAACTTTTCCAAAATCACATTTTGAC
* *
16927793 CCTCTAAA-TTTTCAAAAATTACATTTTGAC
1 CCT-TAAACTTTTCCAAAATCACATTTTGAC
* **
16927823 CCCTAAACTTTTTGAAAATCACA-TTTGA-
1 CCTTAAACTTTTCCAAAATCACATTTTGAC
16927851 CCTTAAA
1 CCTTAAA
16927858 TTCTCTGAGA
Statistics
Matches: 129, Mismatches: 16, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
28 9 0.07
29 55 0.43
30 57 0.44
31 8 0.06
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.39
Consensus pattern (30 bp):
CCTTAAACTTTTCCAAAATCACATTTTGAC
Found at i:16927781 original size:29 final size:29
Alignment explanation
Indices: 16927690--16927848 Score: 169
Period size: 30 Copynumber: 5.4 Consensus size: 29
16927680 AACTTTTTAG
* *
16927690 AAATTACATTTTGACCCTTAAA-TTTTCCAA
1 AAATCACATTTTAACCC-TAAACTTTTCC-A
* *
16927720 AAATCACATTTTAATCACTAAACTTTTCTA
1 AAATCACATTTTAA-CCCTAAACTTTTCCA
16927750 AAATCACATTTTAACCCTAAACTTTTCCA
1 AAATCACATTTTAACCCTAAACTTTTCCA
* *
16927779 AAATTACATTTTAACCTCTAAA-TTTTCAA
1 AAATCACATTTTAACC-CTAAACTTTTCCA
* * **
16927808 AAATTACATTTTGACCCCTAAACTTTTTGA
1 AAATCACATTTT-AACCCTAAACTTTTCCA
16927838 AAATCACATTT
1 AAATCACATTT
16927849 GACCTTAAAT
Statistics
Matches: 112, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
29 51 0.46
30 54 0.48
31 7 0.06
ACGTcount: A:0.38, C:0.21, G:0.02, T:0.39
Consensus pattern (29 bp):
AAATCACATTTTAACCCTAAACTTTTCCA
Found at i:16927827 original size:59 final size:60
Alignment explanation
Indices: 16927678--16927848 Score: 213
Period size: 59 Copynumber: 2.9 Consensus size: 60
16927668 AAGAGGTCCT
* * * *
16927678 TAAACTTTTTAGAAATTACATTTTGACCCTTAAA-TTTTCCAAAAATCACATTTTAATCAC
1 TAAACTTTTCAAAAATTACATTTTGACCCCTAAACTTTTCC-AAAATCACATTTTAACCAC
* * * * *
16927738 TAAACTTTTCTAAAATCACATTTT-AACCCTAAACTTTTCCAAAATTACATTTTAACCTC
1 TAAACTTTTCAAAAATTACATTTTGACCCCTAAACTTTTCCAAAATCACATTTTAACCAC
**
16927797 TAAA-TTTTCAAAAATTACATTTTGACCCCTAAACTTTTTGAAAATCACATTT
1 TAAACTTTTCAAAAATTACATTTTGACCCCTAAACTTTTCCAAAATCACATTT
16927849 GACCTTAAAT
Statistics
Matches: 94, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
58 17 0.18
59 51 0.54
60 26 0.28
ACGTcount: A:0.38, C:0.20, G:0.02, T:0.40
Consensus pattern (60 bp):
TAAACTTTTCAAAAATTACATTTTGACCCCTAAACTTTTCCAAAATCACATTTTAACCAC
Found at i:16927849 original size:29 final size:29
Alignment explanation
Indices: 16927678--16927852 Score: 151
Period size: 29 Copynumber: 5.9 Consensus size: 29
16927668 AAGAGGTCCT
* * *
16927678 TAAACTTTTTAGAAATTACATTTTGACCCT
1 TAAACTTTTCA-AAATCACATTTTGACCCC
* * *
16927708 TAAA-TTTTCCAAAAATCACATTTTAATCAC
1 TAAACTTTT-C-AAAATCACATTTTGACCCC
*
16927738 TAAACTTTTCTAAAATCACATTTT-AACCC
1 TAAACTTTTC-AAAATCACATTTTGACCCC
* * *
16927767 TAAACTTTTCCAAAATTACATTTTAACCTC
1 TAAACTTTT-CAAAATCACATTTTGACCCC
*
16927797 TAAA-TTTTCAAAAATTACATTTTGACCCC
1 TAAACTTTTC-AAAATCACATTTTGACCCC
*
16927826 TAAACTTTTTGAAAATCACA-TTTGACC
1 TAAAC-TTTTCAAAATCACATTTTGACC
16927853 TTAAATTCTC
Statistics
Matches: 121, Mismatches: 16, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
28 1 0.01
29 60 0.50
30 51 0.42
31 9 0.07
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.39
Consensus pattern (29 bp):
TAAACTTTTCAAAATCACATTTTGACCCC
Found at i:16928864 original size:18 final size:18
Alignment explanation
Indices: 16928841--16928875 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16928831 TTAAGAATTT
16928841 AAAGAAACTAAATTTAAA
1 AAAGAAACTAAATTTAAA
*
16928859 AAAGAAACTCAATTTAA
1 AAAGAAACTAAATTTAA
16928876 GTATCAGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.63, C:0.09, G:0.06, T:0.23
Consensus pattern (18 bp):
AAAGAAACTAAATTTAAA
Found at i:16929759 original size:23 final size:23
Alignment explanation
Indices: 16929703--16929760 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
16929693 CGTCCATCCT
* * * *
16929703 TGCTGACTAGACCTTCTGGAAGT
1 TGCTGACTGGATCTTCTAGAAGC
*
16929726 TGCTGATTGGATCTTCTAGAAGC
1 TGCTGACTGGATCTTCTAGAAGC
16929749 TGCTGACTGGAT
1 TGCTGACTGGAT
16929761 GCCACGTTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.33
Consensus pattern (23 bp):
TGCTGACTGGATCTTCTAGAAGC
Found at i:16934819 original size:17 final size:17
Alignment explanation
Indices: 16934797--16934830 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
16934787 TTAAGAATTT
16934797 AAAGAAAATAAATTTAA
1 AAAGAAAATAAATTTAA
* *
16934814 AAAGAAACTCAATTTAA
1 AAAGAAAATAAATTTAA
16934831 GTATCAGCCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.65, C:0.06, G:0.06, T:0.24
Consensus pattern (17 bp):
AAAGAAAATAAATTTAA
Found at i:16943115 original size:97 final size:98
Alignment explanation
Indices: 16942943--16943139 Score: 283
Period size: 97 Copynumber: 2.0 Consensus size: 98
16942933 AACCTTGGAA
* *
16942943 AAGGGTATTCGATTATCCCGATTTGAAGAAAAGTCGCGCCTAGTAAGTTAAGGCACAAATTTTCT
1 AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
*
16943008 TAACCAGAGATAAAGAAACATTGCCTC-ATTTT
66 AAACCAGAGATAAAGAAACATTGCCTCGATTTT
* *
16943040 AAGGTTATTCGATTATCCCTG-TTTGAAGAAAAATCGTGCCTAGTAAGTTAAGGCACAAATTTTC
1 AAGGGTATTCGATTATCCC-GATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTC
* * *
16943104 AAAACTC-GAGATAAAGGAATATTGCGTCGATTTT
65 AAAAC-CAGAGATAAAGAAACATTGCCTCGATTTT
16943138 AA
1 AA
16943140 ATATTTTGGA
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
97 80 0.90
98 9 0.10
ACGTcount: A:0.36, C:0.16, G:0.19, T:0.30
Consensus pattern (98 bp):
AAGGGTATTCGATTATCCCGATTTGAAGAAAAATCGCGCCTAGTAAGTTAAGGCACAAATTTTCA
AAACCAGAGATAAAGAAACATTGCCTCGATTTT
Found at i:16943488 original size:29 final size:29
Alignment explanation
Indices: 16943428--16943841 Score: 254
Period size: 29 Copynumber: 14.1 Consensus size: 29
16943418 AAAGCTTTAG
* * *
16943428 GGGTAAAAATGTCATTTTGGGAAAATTC-A
1 GGGTAAAAATGTGATTTTTGG-AAGTTCGA
*
16943457 GGGTAAAAACGTGATTTTTGGAAGTTCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTCGA
* ** * *
16943486 GGG-CAAAATGAAATTTTTAGAAGCTCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTCGA
** *
16943514 GGGTAAAAATAAGATTTTTGAAAGTTCGA
1 GGGTAAAAATGTGATTTTTGGAAGTTCGA
*
16943543 GGGTAAAAATGTGATTTTTGGAAGTTCGG
1 GGGTAAAAATGTGATTTTTGGAAGTTCGA
16943572 GGGTAAAAATG-GAATTTTT-GAGAGTTCG-
1 GGGTAAAAATGTG-ATTTTTGGA-AGTTCGA
** * ** *
16943600 GGAGCGAAAATGTAATTTTTTTAAAGTT-TA
1 GG-GTAAAAATGTGA-TTTTTGGAAGTTCGA
*
16943630 GAGGCAAAAATGTGATTTTTGGAAGTTCGA
1 G-GGTAAAAATGTGATTTTTGGAAGTTCGA
*
16943660 GGGTCAAAAA-GTAATTTTTGGAAGTTCGA
1 GGGT-AAAAATGTGATTTTTGGAAGTTCGA
* *
16943689 GGGAAAAAATG-GAATTTTTGGAAAGTTTGA
1 GGGTAAAAATGTG-ATTTTTGG-AAGTTCGA
* * * * * *
16943719 GTGTCAAAATATAATTTTTAAGAAGTT-TA
1 GGGTAAAAATGTGATTTTT-GGAAGTTCGA
* * *
16943748 CGGGTCAAAATGTAATTTTTGGAAAGTTTGA
1 -GGGTAAAAATGTGATTTTTGG-AAGTTCGA
* * * *
16943779 GTGTTAAAATATAATTTTTGGAAAGTGT-GA
1 GGGTAAAAATGTGATTTTTGG-AAGT-TCGA
* * * * *
16943809 GTGTTAAAATATAATTTTTGGAAAGTTTGA
1 GGGTAAAAATGTGATTTTTGG-AAGTTCGA
16943839 GGG
1 GGG
16943842 CCGTCTGGGC
Statistics
Matches: 313, Mismatches: 50, Indels: 43
0.77 0.12 0.11
Matches are distributed among these distances:
28 37 0.12
29 142 0.45
30 129 0.41
31 5 0.02
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (29 bp):
GGGTAAAAATGTGATTTTTGGAAGTTCGA
Found at i:16943698 original size:88 final size:87
Alignment explanation
Indices: 16943461--16943841 Score: 292
Period size: 88 Copynumber: 4.3 Consensus size: 87
16943451 AATTCAGGGT
* * * * * *
16943461 AAAAACGTGATTTTTGGAAGTTCGAGGG-CAAAATGAAATTTTTAGAAGCTCGAGGGTAAAAA--
1 AAAAATGTGATTTTTGGAAGTTCGAGGGTCAAAAAGTAATTTTTGGAAGTTCGAGGGAAAAAATG
* * *
16943523 TAAGATTTTTGAAAGTTCGAGGGT
66 TAA-TTTTTTGAAAGTTTGA-GGC
* * **
16943547 AAAAATGTGATTTTTGGAAGTTCGGGGGT-AAAAATGGAATTTTT-GAGAGTTCG-GGAGCGAAA
1 AAAAATGTGATTTTTGGAAGTTCGAGGGTCAAAAA-GTAATTTTTGGA-AGTTCGAGG-GAAAAA
*
16943609 ATGTAATTTTTTTAAAGTTTAGAGGC
63 ATGTAATTTTTTGAAAGTTT-GAGGC
16943635 AAAAATGTGATTTTTGGAAGTTCGAGGGTCAAAAAGTAATTTTTGGAAGTTCGAGGGAAAAAATG
1 AAAAATGTGATTTTTGGAAGTTCGAGGGTCAAAAAGTAATTTTTGGAAGTTCGAGGGAAAAAATG
* *
16943700 GAATTTTTGGAAAGTTTGAGTGTC
66 TAATTTTTTGAAAGTTTGAG-G-C
* * * * * * * **
16943724 -AAAATATAATTTTTAAGAAGTT-TACGGGTCAAAATGTAATTTTTGGAAAGTTTGAGTGTTAAA
1 AAAAATGTGATTTTT-GGAAGTTCGA-GGGTCAAAAAGTAATTTTTGG-AAGTTCGAGGGAAAAA
* * * *
16943787 ATATAATTTTTGGAAAGTGTGAGTGT
63 ATGTAATTTTTTGAAAGTTTGAG-GC
* * * *
16943813 TAAAATATAATTTTTGGAAAGTTTGAGGG
1 AAAAATGTGATTTTTGG-AAGTTCGAGGG
16943842 CCGTCTGGGC
Statistics
Matches: 244, Mismatches: 33, Indels: 32
0.79 0.11 0.10
Matches are distributed among these distances:
86 34 0.14
87 21 0.09
88 90 0.37
89 42 0.17
90 56 0.23
91 1 0.00
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (87 bp):
AAAAATGTGATTTTTGGAAGTTCGAGGGTCAAAAAGTAATTTTTGGAAGTTCGAGGGAAAAAATG
TAATTTTTTGAAAGTTTGAGGC
Found at i:16943768 original size:60 final size:58
Alignment explanation
Indices: 16943456--16943839 Score: 273
Period size: 60 Copynumber: 6.6 Consensus size: 58
16943446 GGGAAAATTC
* * * * * *
16943456 AGGGTAAAAACGTGATTTTTGG-AAGTTCGAG-GGCAAAATGA-AATTTTTAGAAGCTCG
1 AGGGTAAAAATGTAATTTTTGGAAAGTTTGAGTGTCAAAAT-ATAATTTTTGGAAG-TTG
* * * * * *
16943513 AGGGTAAAAAT-AAGATTTTT-GAAAGTTCGAGGGTAAAAATGTGATTTTTGGAAGTTCG
1 AGGGTAAAAATGTA-ATTTTTGGAAAGTTTGAGTGTCAAAATATAATTTTTGGAAGTT-G
* * * * * * * ** *
16943571 GGGGTAAAAATGGAATTTTT-GAGAGTTCGGGAG-CGAAAATGTAATTTTTTTAAAGTTT
1 AGGGTAAAAATGTAATTTTTGGAAAGTTTGAGTGTC-AAAATATAA-TTTTTGGAAGTTG
* * * *
16943629 AGAGGCAAAAATGTGATTTTTGG-AAGTTCGAGGGTCAAAA-AGTAATTTTTGGAAGTTCG
1 AG-GGTAAAAATGTAATTTTTGGAAAGTTTGAGTGTCAAAATA-TAATTTTTGGAAGTT-G
* * * *
16943688 AGGGAAAAAATGGAATTTTTGGAAAGTTTGAGTGTCAAAATATAATTTTTAAGAAGTTT
1 AGGGTAAAAATGTAATTTTTGGAAAGTTTGAGTGTCAAAATATAATTTTT-GGAAGTTG
* *
16943747 ACGGGTCAAAATGTAATTTTTGGAAAGTTTGAGTGTTAAAATATAATTTTTGGAAAGTGTG
1 A-GGGTAAAAATGTAATTTTTGGAAAGTTTGAGTGTCAAAATATAATTTTTGG-AAGT-TG
* * *
16943808 AGTGTTAAAATATAATTTTTGGAAAGTTTGAG
1 AGGGTAAAAATGTAATTTTTGGAAAGTTTGAG
16943840 GGCCGTCTGG
Statistics
Matches: 262, Mismatches: 46, Indels: 35
0.76 0.13 0.10
Matches are distributed among these distances:
56 1 0.00
57 26 0.10
58 79 0.30
59 68 0.26
60 86 0.33
61 2 0.01
ACGTcount: A:0.36, C:0.04, G:0.26, T:0.34
Consensus pattern (58 bp):
AGGGTAAAAATGTAATTTTTGGAAAGTTTGAGTGTCAAAATATAATTTTTGGAAGTTG
Found at i:16943818 original size:90 final size:89
Alignment explanation
Indices: 16943660--16943827 Score: 246
Period size: 90 Copynumber: 1.9 Consensus size: 89
16943650 GGAAGTTCGA
* *
16943660 GGGTCAAAAAGTAATTTTTGGAAGTTCGAGGGAAAAAATGGAATTTTTGGAAAGTTTGAGTGTCA
1 GGGTCAAAAAGTAATTTTTGGAAGTTCGAGGGAAAAAATAGAATTTTTGGAAAGTGTGAGTGTCA
16943725 AAATATAATTTTTAAGAAGTTTAC
66 AAATATAATTTTTAAGAAGTTTAC
* * * ** * *
16943749 GGGTCAAAATGTAATTTTTGGAAAGTTTGAGTGTTAAAATATAATTTTTGGAAAGTGTGAGTGTT
1 GGGTCAAAAAGTAATTTTTGG-AAGTTCGAGGGAAAAAATAGAATTTTTGGAAAGTGTGAGTGTC
16943814 AAAATATAATTTTT
65 AAAATATAATTTTT
16943828 GGAAAGTTTG
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
89 20 0.29
90 49 0.71
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.38
Consensus pattern (89 bp):
GGGTCAAAAAGTAATTTTTGGAAGTTCGAGGGAAAAAATAGAATTTTTGGAAAGTGTGAGTGTCA
AAATATAATTTTTAAGAAGTTTAC
Found at i:16943835 original size:90 final size:88
Alignment explanation
Indices: 16943644--16943841 Score: 238
Period size: 90 Copynumber: 2.2 Consensus size: 88
16943634 CAAAAATGTG
* *
16943644 ATTTTTGG-AAGTTCGAGGGTCAAAAAGTAATTTTTGGAAGTTCGAGGGAAAAAATGGAATTTTT
1 ATTTTTGGAAAGTT-TAGGGTCAAAAAGTAATTTTTGGAAGTTCGAGGGAAAAAATAGAATTTTT
*
16943708 GGAAAGTTTGAGTGTCAAAATATA
65 GGAAAGTGTGAGTGTCAAAATATA
* * * * ** *
16943732 ATTTTT-AAGAAGTTTACGGGTCAAAATGTAATTTTTGGAAAGTTTGAGTGTTAAAATATAATTT
1 ATTTTTGGA-AAGTTTA-GGGTCAAAAAGTAATTTTTGG-AAGTTCGAGGGAAAAAATAGAATTT
*
16943796 TTGGAAAGTGTGAGTGTTAAAATATA
63 TTGGAAAGTGTGAGTGTCAAAATATA
16943822 ATTTTTGGAAAGTTTGAGGG
1 ATTTTTGGAAAGTTT-AGGG
16943842 CCGTCTGGGC
Statistics
Matches: 92, Mismatches: 12, Indels: 10
0.81 0.11 0.09
Matches are distributed among these distances:
88 7 0.08
89 25 0.27
90 58 0.63
91 2 0.02
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.37
Consensus pattern (88 bp):
ATTTTTGGAAAGTTTAGGGTCAAAAAGTAATTTTTGGAAGTTCGAGGGAAAAAATAGAATTTTTG
GAAAGTGTGAGTGTCAAAATATA
Found at i:16945558 original size:18 final size:17
Alignment explanation
Indices: 16945520--16945577 Score: 73
Period size: 17 Copynumber: 3.4 Consensus size: 17
16945510 TTTTATATAT
* *
16945520 TTTAAATTTAGAATAAT
1 TTTAAATTTAAAATAAA
16945537 TTTAAATTTAAAAATAAA
1 TTTAAATTT-AAAATAAA
16945555 TTT-AATCTTAAAATAAA
1 TTTAAAT-TTAAAATAAA
16945572 TTTAAA
1 TTTAAA
16945578 AAAGTAGGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
17 23 0.64
18 13 0.36
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:16946058 original size:42 final size:42
Alignment explanation
Indices: 16946011--16946090 Score: 115
Period size: 42 Copynumber: 1.9 Consensus size: 42
16946001 ACCCCTAAAA
* *
16946011 TAAGGAGAAGCAGATTGAAGCCGTAAAGGCAAATCTCATGAT
1 TAAGGAGAAACAGATTGAAGCCGCAAAGGCAAATCTCATGAT
* * *
16946053 TAAGGAGAAATAGATTGAAGTCGCAAAGGCGAATCTCA
1 TAAGGAGAAACAGATTGAAGCCGCAAAGGCAAATCTCA
16946091 AAAGCTGTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.41, C:0.14, G:0.26, T:0.19
Consensus pattern (42 bp):
TAAGGAGAAACAGATTGAAGCCGCAAAGGCAAATCTCATGAT
Found at i:16946268 original size:87 final size:88
Alignment explanation
Indices: 16946107--16946268 Score: 218
Period size: 87 Copynumber: 1.9 Consensus size: 88
16946097 GTAAAGGGCT
* * * *
16946107 AGATTGAAGCCGTAAAGGCAAATCTTATATCCTTAAAGTTGAAAAGAAGCAGATTAAAGCCACAA
1 AGATTGAAGCCGCAAAGGCAAATCTTACATCCCTAAAGTTGAAAAGAAGCAAATTAAAGCCACAA
*
16946172 AGACGAATCTCAAAGCTAAAAGG
66 AGACAAATCTCAAAGCTAAAAGG
* * * * *
16946195 AGATTGAAGCTGCGAAGGCGAATCTTACATCCCT-AAGTTGAAAAGGAGCAAATTGAAGCCACAA
1 AGATTGAAGCCGCAAAGGCAAATCTTACATCCCTAAAGTTGAAAAGAAGCAAATTAAAGCCACAA
*
16946259 CGACAAATCT
66 AGACAAATCT
16946269 TTTACCTCAA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
87 35 0.56
88 28 0.44
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.19
Consensus pattern (88 bp):
AGATTGAAGCCGCAAAGGCAAATCTTACATCCCTAAAGTTGAAAAGAAGCAAATTAAAGCCACAA
AGACAAATCTCAAAGCTAAAAGG
Found at i:16946435 original size:48 final size:48
Alignment explanation
Indices: 16946342--16946435 Score: 116
Period size: 48 Copynumber: 2.0 Consensus size: 48
16946332 TTCAAACTCC
* **
16946342 CATCTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGT
1 CATCTTCCTGATGAGATACAAAGAAGTAGACCAAAGCAATAAAGCGGT
* * * * *
16946390 CATCTTCCTGATGAGATATAGAGAAGTAGACCCAATCAATGAAGCG
1 CATCTTCCTGATGAGATACAAAGAAGTAGACCAAAGCAATAAAGCG
16946436 AAGCTCAATA
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
48 38 1.00
ACGTcount: A:0.37, C:0.18, G:0.23, T:0.21
Consensus pattern (48 bp):
CATCTTCCTGATGAGATACAAAGAAGTAGACCAAAGCAATAAAGCGGT
Found at i:16946527 original size:123 final size:124
Alignment explanation
Indices: 16946303--16946537 Score: 357
Period size: 123 Copynumber: 1.9 Consensus size: 124
16946293 AGATTAAAAT
* *
16946303 AATGAAGCAAAGCTCAATGTAAGTGAAACTTCAAACTCCCATCTTCCTGATGAGATACAAAGAAG
1 AATGAAGCAAAGCTCAATATAAGTGAAACTTCAAACACCCATCTTCCTGATGAGATACAAAGAAG
* * *
16946368 TGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATATAGAGAAGTAGACCCAATC
66 TGGGTCAAAGCAATAAAGCGGCCATCTTCCTAATGAGATACAGAGAAGTAGACCCAATC
* * * *
16946427 AATGAAGCGAAGCTCAATATGAA-TGAGACTTCAAA-ACCCATCTTCCTGATGAGATATAGAGAA
1 AATGAAGCAAAGCTCAATAT-AAGTGAAACTTCAAACACCCATCTTCCTGATGAGATACAAAGAA
*
16946490 GTGGGTCAAAGTAATAAAGCGGCCATCTTCCTAATGAGATACAGAGAA
65 GTGGGTCAAAGCAATAAAGCGGCCATCTTCCTAATGAGATACAGAGAA
16946538 TGGATCAAAT
Statistics
Matches: 100, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
123 69 0.69
124 29 0.29
125 2 0.02
ACGTcount: A:0.39, C:0.18, G:0.21, T:0.22
Consensus pattern (124 bp):
AATGAAGCAAAGCTCAATATAAGTGAAACTTCAAACACCCATCTTCCTGATGAGATACAAAGAAG
TGGGTCAAAGCAATAAAGCGGCCATCTTCCTAATGAGATACAGAGAAGTAGACCCAATC
Found at i:16946859 original size:208 final size:207
Alignment explanation
Indices: 16946345--16948085 Score: 2315
Period size: 208 Copynumber: 8.4 Consensus size: 207
16946335 AAACTCCCAT
* * * * * * *
16946345 CTTCCTGATGAGATACAAAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTCCTGATGAGATATA
1 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATATA
* *
16946410 GAGAAGTAGACCCAATCAATGAAGCGAAGCTCAATATGAATGAGACTTCAAAACCCATCTTCCTG
66 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTC-AAACCCATCTTCCTG
* * * * *
16946475 ATGAGATATAGAGAAGTGGGTCAAAGTAATAAAGCGGCCATCTTCCTAATGAGATACAGAGAA-T
130 ATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTCTGATGAGATACAGAGAAGT
* *
16946539 GGATCAAATCCAC
195 GGACCAAATCCGC
* * * *
16946552 CTTCCTGATGAGATACAAAGAAGTGTATTAAATCAATGAAGTGATCATCTTCCTGATGAGATATA
1 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATATA
* * * *
16946617 GAGAAGTAGACCGACTCAATGAAGCGAAGCTCAATACGAATGAGATTTTAAACTCCATCTTCCTG
66 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAAC-CCATCTTCCTG
* * **
16946682 ATAAGATACAGAGAAGTGGGTCAAAGCAATAAAGTGACCATCTTTCTGATGAGATACAGAGAAGT
130 ATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTCTGATGAGATACAGAGAAGT
16946747 GGACCAAATCCGC
195 GGACCAAATCCGC
** * * * * *
16946760 AATCTTGATGAAATAAAGAGAAGTGGATTAAATAAATGAAGCGATCATCTTCATGATGAGATACA
1 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATATA
* *
16946825 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAACCCCATATTTCTG
66 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAA-CCCATCTTCCTG
* *
16946890 ATGAGATACAGAGAAGTGGGTTAAAGCAATAAAGCGGTCATCTTTTTGATGAGATACAGAGAAGT
130 ATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTCTGATGAGATACAGAGAAGT
16946955 GGACCAAATCCGC
195 GGACCAAATCCGC
**
16946968 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGC-AGTCATCTTCCTGATGAGATGC
1 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGA-TCATCTTCCTGATGAGATAT
* *
16947032 AGAGAAGTAGACCAAATCAATGAAACGAAGCTCAATACGAATGAGACTTCAAACCTTATCTTCCT
65 AGAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAACC-CATCTTCCT
* * * * *
16947097 GATAAGATACAAAGAAGTAGGTCAAAGAAATAAAGCGGTCATC-TTCTTGATGAGATACAGAAAA
129 GATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTC-TGATGAGATACAGAGAA
*
16947161 GTGGACCAAATTCGC
193 GTGGACCAAATCCGC
* * * ** * *
16947176 CTTCCTGATTAGATACAGAGAAGTGGATTAAATCAATGAAGCGTTCATCTTTGTAATGAGTTATA
1 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATATA
* * **
16947241 GAGAAGTAGACCAAATCAATGAAACAAAGCTCAATACGAATGAGACTTCAAACCCTATCTTTTTG
66 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAACCC-ATCTTCCTG
* * * *
16947306 ATAAGATACAGAGAAGTAGGTCAAAGCAATAAAGCGATCATCTTTCTGATGAGATACAGAAAAGT
130 ATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTCTGATGAGATACAGAGAAGT
*
16947371 GAACCAAATCCGC
195 GGACCAAATCCGC
* * *
16947384 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGGTCATTTTCCTGATGAGATACA
1 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATATA
* * * *
16947449 GATAAGTAAACCAAATTAATGAAGCGAAGCTCAATACGAATAAGACTTCAAACCTCATCTTCCT-
66 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAACC-CATCTTCCTG
* * * * *
16947513 ATTGAGATACAAAGAAGTAGGTCAAAGCAATAAAGCGGTCATCTTCCTAATGAGATACAAAGAAG
130 A-TGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTCTGATGAGATACAGAGAAG
*
16947578 TAGA-CAAATCCGC
194 TGGACCAAATCCGC
* * * *
16947591 CTTCTTGATGAGATACGGAGAAGTGGATTAAATTAATGAAGCGGTCATCTTCCTAATGAGATATA
1 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATATA
* * * * * * * *
16947656 GAGAAGTAGACTAAATCGATGAAACGAAGCTTAATATGAGTGAAACTTCAAACTCCCATATTCCT
66 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAA--CCCATCTTCCT
* *
16947721 GATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTACTGATGAGATACAGAAAAG
129 GATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTCTGATGAGATACAGAGAAG
* **
16947786 TGGATCAAATCCAT
194 TGGACCAAATCCGC
* * * ** *
16947800 CTTCCTGATGAGATACAGAAAAGTGGATCAAATCAATGAAGCGGCCATCTTCTTGATGAGATATA
1 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATATA
* * *
16947865 GAGAAGTAGACCAAATCAATGAAGTGAAGCTCAATACAAATTAGACTTCAAACTCCATCTTCCTG
66 GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAAC-CCATCTTCCTG
** *
16947930 ATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGACCATC-TTCTTGATAAGATACAGAGAAG
130 ATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTC-TGATGAGATACAGAGAAG
16947994 TGGACCAAATCCGC
194 TGGACCAAATCCGC
* * * * *
16948008 CTTCTTGATGAGACACAGAGAAGTGGATTAAATCAATTAAGTGATCATCTTTCTGATGAGATACA
1 CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATATA
16948073 GAGAAGTAGACCA
66 GAGAAGTAGACCA
16948086 TGTAACACCC
Statistics
Matches: 1346, Mismatches: 171, Indels: 33
0.87 0.11 0.02
Matches are distributed among these distances:
206 4 0.00
207 288 0.21
208 940 0.70
209 114 0.08
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.24
Consensus pattern (207 bp):
CTTCTTGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCGATCATCTTCCTGATGAGATATA
GAGAAGTAGACCAAATCAATGAAGCGAAGCTCAATACGAATGAGACTTCAAACCCATCTTCCTGA
TGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTTCTGATGAGATACAGAGAAGTG
GACCAAATCCGC
Found at i:16947035 original size:85 final size:85
Alignment explanation
Indices: 16946888--16947049 Score: 252
Period size: 85 Copynumber: 1.9 Consensus size: 85
16946878 CCCATATTTC
* * **
16946888 TGATGAGATACAGAGAAGTGGGTTAAAGCAATAAAGCGGTCATCTTTTTGATGAGATACAGAGAA
1 TGATGAGATACAGAGAAGTGGATTAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAGAGAA
*
16946953 GTGGACCAAATCCGCCTTCT
66 GTAGACCAAATCCGCCTTCT
* * *
16946973 TGATGAGATACAGAGAAGTGGATTAAATCAATGAAGCAGTCATCTTCCTGATGAGATGCAGAGAA
1 TGATGAGATACAGAGAAGTGGATTAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAGAGAA
16947038 GTAGACCAAATC
66 GTAGACCAAATC
16947050 AATGAAACGA
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 69 1.00
ACGTcount: A:0.36, C:0.15, G:0.25, T:0.23
Consensus pattern (85 bp):
TGATGAGATACAGAGAAGTGGATTAAAGCAATAAAGCAGTCATCTTCCTGATGAGATACAGAGAA
GTAGACCAAATCCGCCTTCT
Found at i:16947235 original size:85 final size:85
Alignment explanation
Indices: 16947091--16947256 Score: 192
Period size: 85 Copynumber: 2.0 Consensus size: 85
16947081 CAAACCTTAT
*
16947091 CTTCCTGATAAGATACAAAGAAGTAGGTCAAAGAAATAAAGCGGTCATCTTCTTGATGAGATACA
1 CTTCCTGATAAGATACAAAGAAGTAGGTCAAAGAAATAAAGCGGTCATCTTCTTAATGAGATACA
*
16947156 GAAAAGTGGACCAAATTCGC
66 GAAAAGTAGACCAAATTCGC
* * * ** * * *
16947176 CTTCCTGATTAGATACAGAGAAGT-GGATTAAATCAATGAAGCGTTCATCTT-TGTAATGAGTTA
1 CTTCCTGATAAGATACAAAGAAGTAGG-TCAAAGAAATAAAGCGGTCATCTTCT-TAATGAGATA
* *
16947239 TAGAGAAGTAGACCAAAT
64 CAGAAAAGTAGACCAAAT
16947257 CAATGAAACA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
84 3 0.04
85 64 0.96
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (85 bp):
CTTCCTGATAAGATACAAAGAAGTAGGTCAAAGAAATAAAGCGGTCATCTTCTTAATGAGATACA
GAAAAGTAGACCAAATTCGC
Found at i:16947446 original size:85 final size:85
Alignment explanation
Indices: 16947303--16947464 Score: 229
Period size: 85 Copynumber: 1.9 Consensus size: 85
16947293 CCCTATCTTT
16947303 TTGATAAGATACAGAGAAGTAGGTCAAAGCAATAAAGCGATCATCTTTCTGATGAGATACAGAAA
1 TTGATAAGATACAGAGAAGTAGGTCAAAGCAATAAAGCGATCATCTTTCTGATGAGATACAGAAA
*
16947368 AGTGAACCAAATCCGCCTTC
66 AGTAAACCAAATCCGCCTTC
* * * * *
16947388 TTGATGAGATACAGAGAAGT-GGATTAAATCAATGAAGCGGTCAT-TTTCCTGATGAGATACAGA
1 TTGATAAGATACAGAGAAGTAGG-TCAAAGCAATAAAGCGATCATCTTT-CTGATGAGATACAGA
*
16947451 TAAGTAAACCAAAT
64 AAAGTAAACCAAAT
16947465 TAATGAAGCG
Statistics
Matches: 68, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
84 5 0.07
85 63 0.93
ACGTcount: A:0.40, C:0.15, G:0.21, T:0.24
Consensus pattern (85 bp):
TTGATAAGATACAGAGAAGTAGGTCAAAGCAATAAAGCGATCATCTTTCTGATGAGATACAGAAA
AGTAAACCAAATCCGCCTTC
Found at i:16947794 original size:48 final size:44
Alignment explanation
Indices: 16947719--16947871 Score: 133
Period size: 48 Copynumber: 3.5 Consensus size: 44
16947709 TCCCATATTC
* *
16947719 CTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTT
1 CTGATGAGATACAGAAAAGTGGATCAAA-CAAT-AAGCGG-CATCTT
16947766 ACTGATGAGATACAGAAAAGTGGATC--A-AAT---C--CATCTT
1 -CTGATGAGATACAGAAAAGTGGATCAAACAATAAGCGGCATCTT
16947803 CCTGATGAGATACAGAAAAGTGGATCAAATCAATGAAGCGGCCATCTT
1 -CTGATGAGATACAGAAAAGTGGATCAAA-CAAT-AAGCGG-CATCTT
* *
16947851 CTTGATGAGATATAGAGAAGT
1 C-TGATGAGATACAGAAAAGT
16947872 AGACCAAATC
Statistics
Matches: 88, Mismatches: 5, Indels: 24
0.75 0.04 0.21
Matches are distributed among these distances:
37 31 0.35
39 1 0.01
40 1 0.01
41 3 0.03
44 3 0.03
45 1 0.01
46 1 0.01
47 1 0.01
48 46 0.52
ACGTcount: A:0.38, C:0.15, G:0.24, T:0.23
Consensus pattern (44 bp):
CTGATGAGATACAGAAAAGTGGATCAAACAATAAGCGGCATCTT
Found at i:16947810 original size:37 final size:37
Alignment explanation
Indices: 16947760--16947833 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
16947750 ATAAAGCGGT
16947760 CATCTTACTGATGAGATACAGAAAAGTGGATCAAATC
1 CATCTTACTGATGAGATACAGAAAAGTGGATCAAATC
*
16947797 CATCTTCCTGATGAGATACAGAAAAGTGGATCAAATC
1 CATCTTACTGATGAGATACAGAAAAGTGGATCAAATC
16947834 AATGAAGCGG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (37 bp):
CATCTTACTGATGAGATACAGAAAAGTGGATCAAATC
Found at i:16947859 original size:85 final size:85
Alignment explanation
Indices: 16947711--16947881 Score: 236
Period size: 85 Copynumber: 2.0 Consensus size: 85
16947701 CTTCAAACTC
* * *
16947711 CCATATTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGGTCATCTTACTGATGAGA
1 CCATATTCCTGATGAGATACAGAAAAGTGGATCAAAGCAATAAAGCGGCCATCTTACTGATGAGA
* *
16947776 TACAGAAAAGTGGATCAAAT
66 TACAGAAAAGTAGACCAAAT
* * *
16947796 CCATCTTCCTGATGAGATACAGAAAAGTGGATCAAATCAATGAAGCGGCCATCTT-CTTGATGAG
1 CCATATTCCTGATGAGATACAGAAAAGTGGATCAAAGCAATAAAGCGGCCATCTTAC-TGATGAG
* *
16947860 ATATAGAGAAGTAGACCAAAT
65 ATACAGAAAAGTAGACCAAAT
16947881 C
1 C
16947882 AATGAAGTGA
Statistics
Matches: 75, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
84 1 0.01
85 74 0.99
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (85 bp):
CCATATTCCTGATGAGATACAGAAAAGTGGATCAAAGCAATAAAGCGGCCATCTTACTGATGAGA
TACAGAAAAGTAGACCAAAT
Found at i:16947880 original size:48 final size:48
Alignment explanation
Indices: 16947796--16947888 Score: 141
Period size: 48 Copynumber: 1.9 Consensus size: 48
16947786 TGGATCAAAT
* *
16947796 CCATCTTCCTGATGAGATACAGAAAAGTGGATCAAATCAATGAAGCGG
1 CCATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGG
* * *
16947844 CCATCTTCTTGATGAGATATAGAGAAGTAGACCAAATCAATGAAG
1 CCATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAG
16947889 TGAAGCTCAA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 40 1.00
ACGTcount: A:0.39, C:0.17, G:0.22, T:0.23
Consensus pattern (48 bp):
CCATCTTCCTGATGAGATACAGAAAAGTAGACCAAATCAATGAAGCGG
Found at i:16948058 original size:85 final size:85
Alignment explanation
Indices: 16947923--16948085 Score: 220
Period size: 85 Copynumber: 1.9 Consensus size: 85
16947913 CAAACTCCAT
* *
16947923 CTTCCTGATGAGATACAGAGAAGTGGGTCAAAGCAATAAAGCGACCATC-TTCTTGATAAGATAC
1 CTTCCTGATGAGACACAGAGAAGTGGATCAAAGCAATAAAGCGACCATCTTTC-TGATAAGATAC
*
16947987 AGAGAAGTGGACCAAATCCGC
65 AGAGAAGTAGACCAAATCCGC
* * * * * * *
16948008 CTTCTTGATGAGACACAGAGAAGTGGATTAAATCAATTAAGTGATCATCTTTCTGATGAGATACA
1 CTTCCTGATGAGACACAGAGAAGTGGATCAAAGCAATAAAGCGACCATCTTTCTGATAAGATACA
16948073 GAGAAGTAGACCA
66 GAGAAGTAGACCA
16948086 TGTAACACCC
Statistics
Matches: 67, Mismatches: 10, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
85 64 0.96
86 3 0.04
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (85 bp):
CTTCCTGATGAGACACAGAGAAGTGGATCAAAGCAATAAAGCGACCATCTTTCTGATAAGATACA
GAGAAGTAGACCAAATCCGC
Found at i:16949511 original size:36 final size:36
Alignment explanation
Indices: 16949460--16949557 Score: 133
Period size: 36 Copynumber: 2.7 Consensus size: 36
16949450 CGATATTCGA
* * *
16949460 TTTACTCTCTATTGACCCAAAGGTCACGATGCTTAT
1 TTTACTCCCTGTTGACCCAAAGGTCACGATGCTCAT
* * *
16949496 TTTACTCCCTGTTGACGCAAAGGTCATGATGCTCGT
1 TTTACTCCCTGTTGACCCAAAGGTCACGATGCTCAT
*
16949532 TTTACACCCTGTTGACCCAAAGGTCA
1 TTTACTCCCTGTTGACCCAAAGGTCA
16949558 TGCCTGTTAC
Statistics
Matches: 54, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
36 54 1.00
ACGTcount: A:0.23, C:0.27, G:0.17, T:0.33
Consensus pattern (36 bp):
TTTACTCCCTGTTGACCCAAAGGTCACGATGCTCAT
Found at i:16951884 original size:85 final size:85
Alignment explanation
Indices: 16951757--16951923 Score: 246
Period size: 85 Copynumber: 2.0 Consensus size: 85
16951747 CAAACCCCAT
*
16951757 CTTCCTGATAAGATACAGAGAAGTGAGTCAAAGCAATAAAGCGGTCATCTTCCTGATAAGATACA
1 CTTCCTGATAAGATACAAAGAAGTGAGTCAAAGCAATAAAGCGGTCATCTTCCTGATAAGATACA
16951822 AAAAAGTAGACCAAATCCGC
66 AAAAAGTAGACCAAATCCGC
* * * * *
16951842 CTTCCTGATGAGATACAAAGAAGTG-GATTAAATCAATGAAGCGGTCATCTTCCTGATGAGATAC
1 CTTCCTGATAAGATACAAAGAAGTGAG-TCAAAGCAATAAAGCGGTCATCTTCCTGATAAGATAC
* *
16951906 AGATAAGTAGACCAAATC
65 AAAAAAGTAGACCAAATC
16951924 GATGAAGCGA
Statistics
Matches: 73, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
84 1 0.01
85 72 0.99
ACGTcount: A:0.40, C:0.19, G:0.20, T:0.22
Consensus pattern (85 bp):
CTTCCTGATAAGATACAAAGAAGTGAGTCAAAGCAATAAAGCGGTCATCTTCCTGATAAGATACA
AAAAAGTAGACCAAATCCGC
Found at i:16952060 original size:37 final size:37
Alignment explanation
Indices: 16952010--16952142 Score: 108
Period size: 37 Copynumber: 3.5 Consensus size: 37
16952000 AGCGATCATA
*
16952010 TTCCTAATGAGATACAGTAAAGTAGACCAAATCCGTC
1 TTCCTGATGAGATACAGTAAAGTAGACCAAATCCGTC
* * * * *
16952047 TTCCTGATGAGATATAGAGGTCAAAGCA-A-TAAAGCGGTC
1 TTCCTGATGAG--ATACA-GT-AAAGTAGACCAAATCCGTC
* **
16952086 ATATTCATGATGAGATACAAAAAAGTAGACCAAATCCGTC
1 ---TTCCTGATGAGATACAGTAAAGTAGACCAAATCCGTC
16952126 TTCCTGATGAGATACAG
1 TTCCTGATGAGATACAG
16952143 AGAAGTGAAT
Statistics
Matches: 71, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
37 25 0.35
38 5 0.07
39 12 0.17
40 14 0.20
41 5 0.07
42 10 0.14
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.24
Consensus pattern (37 bp):
TTCCTGATGAGATACAGTAAAGTAGACCAAATCCGTC
Found at i:16952099 original size:79 final size:79
Alignment explanation
Indices: 16951986--16952144 Score: 264
Period size: 79 Copynumber: 2.0 Consensus size: 79
16951976 TAGAGAAGTG
* **
16951986 GGTCAAAGCAATAAAGCGATCATATTCCTAATGAGATACAGTAAAGTAGACCAAATCCGTCTTCC
1 GGTCAAAGCAATAAAGCGATCATATTCATAATGAGATACAAAAAAGTAGACCAAATCCGTCTTCC
*
16952051 TGATGAGATATAGA
66 TGATGAGATACAGA
* *
16952065 GGTCAAAGCAATAAAGCGGTCATATTCATGATGAGATACAAAAAAGTAGACCAAATCCGTCTTCC
1 GGTCAAAGCAATAAAGCGATCATATTCATAATGAGATACAAAAAAGTAGACCAAATCCGTCTTCC
16952130 TGATGAGATACAGA
66 TGATGAGATACAGA
16952144 G
1 G
16952145 AAGTGAATTA
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
79 74 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.23
Consensus pattern (79 bp):
GGTCAAAGCAATAAAGCGATCATATTCATAATGAGATACAAAAAAGTAGACCAAATCCGTCTTCC
TGATGAGATACAGA
Found at i:16952211 original size:48 final size:48
Alignment explanation
Indices: 16952124--16952215 Score: 132
Period size: 48 Copynumber: 1.9 Consensus size: 48
16952114 ACCAAATCCG
* ** *
16952124 TCTTCCTGATGAGATACAGAGAAGTGAATTAAATTAATGAAGCGGTCA
1 TCTTCCTGATGAGATACAAAGAAGTGAACCAAATCAATGAAGCGGTCA
16952172 TCTTCCTGATGAGATACAAAGAAGT-AGACCAAATCAATGAAGCG
1 TCTTCCTGATGAGATACAAAGAAGTGA-ACCAAATCAATGAAGCG
16952216 AAGCTCAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.03
48 38 0.97
ACGTcount: A:0.39, C:0.15, G:0.22, T:0.24
Consensus pattern (48 bp):
TCTTCCTGATGAGATACAAAGAAGTGAACCAAATCAATGAAGCGGTCA
Found at i:16952359 original size:162 final size:162
Alignment explanation
Indices: 16952093--16952437 Score: 496
Period size: 163 Copynumber: 2.1 Consensus size: 162
16952083 GTCATATTCA
* * * *
16952093 TGATGAGATACAAAAAAGTAGACCAAATCCGTCTTCCTGATGAGATACAGAGAAGTGAATTAAAT
1 TGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGAATAAAAT
* * *
16952158 TAATGAAGCGGTCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATC-AATGAAGCGAAGCTC
66 AAATGAAGCGATCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAAATGAAGCAAAGCTC
* *
16952222 AATGTGAGTGAAACTTTAAACTCC-TATCTTCC
131 AATGCGAGTGAAACTTCAAAC-CCTTATCTTCC
* * * * *
16952254 TGATGAGATACAGAGAAGTGGATCGAATCCATCTTCCTGATGAGATACAGATAAGTTAATCAAAA
1 TGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGAAT-AAAA
* * *
16952319 TAAATGAAGCGATCGTCTTCCTGATGAGATACAGAGAAGTAGACCAAATCAAATGAAGCAAAGTT
65 TAAATGAAGCGATCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAAATGAAGCAAAGCT
*
16952384 CAATGCGAGTGAAACTTCAAACCCTTATCTTTC
130 CAATGCGAGTGAAACTTCAAACCCTTATCTTCC
16952417 TGATGAGATACAAAGAAGTGG
1 TGATGAGATACAAAGAAGTGG
16952438 GTTGAAGCAA
Statistics
Matches: 162, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
161 52 0.32
162 51 0.31
163 59 0.36
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (162 bp):
TGATGAGATACAAAGAAGTGGACCAAATCCATCTTCCTGATGAGATACAGAGAAGTGAATAAAAT
AAATGAAGCGATCATCTTCCTGATGAGATACAAAGAAGTAGACCAAATCAAATGAAGCAAAGCTC
AATGCGAGTGAAACTTCAAACCCTTATCTTCC
Found at i:16954059 original size:29 final size:30
Alignment explanation
Indices: 16954002--16954152 Score: 166
Period size: 30 Copynumber: 5.1 Consensus size: 30
16953992 TTTTTTCTAG
*
16954002 AATCACATTTTGACCCTCAAACTTTTCCAA
1 AATCATATTTTGACCCTCAAACTTTTCCAA
**
16954032 AATTGTATTTTGACCCT-AAACTTTTCCAA
1 AATCATATTTTGACCCTCAAACTTTTCCAA
*
16954061 AATCATATTTTAACCC-CTAAA-TTTTCCAAA
1 AATCATATTTTGACCCTC-AAACTTTTCC-AA
* *
16954091 AATCATATTTTAACCCTCAAAC-TTTCTGAA
1 AATCATATTTTGACCCTCAAACTTTTC-CAA
* * *
16954121 AATCACATTTTGACCTTGAAACTTTTCCAA
1 AATCATATTTTGACCCTCAAACTTTTCCAA
16954151 AA
1 AA
16954153 CTACATTTGA
Statistics
Matches: 102, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
29 31 0.30
30 66 0.65
31 5 0.05
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (30 bp):
AATCATATTTTGACCCTCAAACTTTTCCAA
Found at i:16954093 original size:59 final size:60
Alignment explanation
Indices: 16954002--16954152 Score: 166
Period size: 59 Copynumber: 2.5 Consensus size: 60
16953992 TTTTTTCTAG
* ** *
16954002 AATCACATTTTGACCCTCAAACTTTTCCAAAATTGTATTTTGACCCT-AAACTTTTCCAA
1 AATCACATTTTAACCCTCAAACTTTTCCAAAATCATATTTTAACCCTCAAACTTTTCCAA
* *
16954061 AATCATATTTTAACCC-CTAAA-TTTTCCAAAAATCATATTTTAACCCTCAAAC-TTTCTGAA
1 AATCACATTTTAACCCTC-AAACTTTTCC-AAAATCATATTTTAACCCTCAAACTTTTC-CAA
* * *
16954121 AATCACATTTTGACCTTGAAACTTTTCCAAAA
1 AATCACATTTTAACCCTCAAACTTTTCCAAAA
16954153 CTACATTTGA
Statistics
Matches: 76, Mismatches: 10, Indels: 11
0.78 0.10 0.11
Matches are distributed among these distances:
58 7 0.09
59 37 0.49
60 26 0.34
61 6 0.08
ACGTcount: A:0.36, C:0.24, G:0.04, T:0.36
Consensus pattern (60 bp):
AATCACATTTTAACCCTCAAACTTTTCCAAAATCATATTTTAACCCTCAAACTTTTCCAA
Found at i:16954159 original size:30 final size:29
Alignment explanation
Indices: 16954002--16954177 Score: 164
Period size: 30 Copynumber: 6.0 Consensus size: 29
16953992 TTTTTTCTAG
16954002 AATCACATTTTGACCCTCAAACTTTTCCAA
1 AATCACATTTTGACCCT-AAACTTTTCCAA
***
16954032 AATTGTATTTTGACCCTAAACTTTTCCAA
1 AATCACATTTTGACCCTAAACTTTTCCAA
* *
16954061 AATCATATTTTAACCCCTAAA-TTTTCCAAA
1 AATCACATTTTGA-CCCTAAACTTTTCC-AA
* * *
16954091 AATCATATTTTAACCCTCAAAC-TTTCTGAA
1 AATCACATTTTGACCCT-AAACTTTTC-CAA
*
16954121 AATCACATTTTGACCTTGAAACTTTTCCAA
1 AATCACATTTTGACCCT-AAACTTTTCCAA
*
16954151 AA-CTACA-TTTGACCCTAAA-TTCTCCAA
1 AATC-ACATTTTGACCCTAAACTTTTCCAA
16954178 GAGTTCATTT
Statistics
Matches: 125, Mismatches: 14, Indels: 17
0.80 0.09 0.11
Matches are distributed among these distances:
27 7 0.06
28 3 0.02
29 41 0.33
30 70 0.56
31 4 0.03
ACGTcount: A:0.35, C:0.25, G:0.04, T:0.36
Consensus pattern (29 bp):
AATCACATTTTGACCCTAAACTTTTCCAA
Found at i:16955340 original size:18 final size:18
Alignment explanation
Indices: 16955317--16955353 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
16955307 TATAGTTTGA
* *
16955317 TATTCGATTTATTTAAAT
1 TATTCGAGTTATTCAAAT
16955335 TATTCGAGTTATTCAAAT
1 TATTCGAGTTATTCAAAT
16955353 T
1 T
16955354 CAAAAATTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.51
Consensus pattern (18 bp):
TATTCGAGTTATTCAAAT
Found at i:16955417 original size:9 final size:9
Alignment explanation
Indices: 16955403--16955433 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
16955393 GATCGAGTTG
16955403 ACTCGAATA
1 ACTCGAATA
*
16955412 ACTCGATTA
1 ACTCGAATA
16955421 ACTCGAATA
1 ACTCGAATA
16955430 ACTC
1 ACTC
16955434 AATTTGTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.26, G:0.10, T:0.26
Consensus pattern (9 bp):
ACTCGAATA
Found at i:16955748 original size:11 final size:9
Alignment explanation
Indices: 16955707--16955757 Score: 59
Period size: 9 Copynumber: 5.6 Consensus size: 9
16955697 TTATAAATTC
*
16955707 AAAAAATAT
1 AAAAATTAT
16955716 AAAAATTAT
1 AAAAATTAT
*
16955725 -AACATTATT
1 AAAAATTA-T
16955734 AAAAATATAT
1 AAAAAT-TAT
16955744 AAAAATTAT
1 AAAAATTAT
16955753 AAAAA
1 AAAAA
16955758 AAACTTTTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
8 6 0.17
9 17 0.47
10 11 0.31
11 2 0.06
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAATTAT
Found at i:16956066 original size:20 final size:20
Alignment explanation
Indices: 16956043--16956080 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
16956033 TTTAAAACTA
*
16956043 AATTAAAACCTCATTAATGG
1 AATTAAAACCTAATTAATGG
16956063 AATTAAAACCTAATTAAT
1 AATTAAAACCTAATTAAT
16956081 TAGTAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.13, G:0.05, T:0.32
Consensus pattern (20 bp):
AATTAAAACCTAATTAATGG
Done.