Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004211.1 Hibiscus syriacus cultivar Beakdansim tig00009221_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 51319
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.34
Found at i:269 original size:18 final size:18
Alignment explanation
Indices: 242--286 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
232 AAAGTGCCTT
*
242 AAAAAATTGAC-TTTAAA
1 AAAAAATTGACACTTAAA
259 AAAAAACTTGACACTT-AA
1 AAAAAA-TTGACACTTAAA
277 AAAAAATTGA
1 AAAAAATTGA
287 ATTTCAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 13 0.52
19 2 0.08
ACGTcount: A:0.60, C:0.09, G:0.07, T:0.24
Consensus pattern (18 bp):
AAAAAATTGACACTTAAA
Found at i:3158 original size:31 final size:31
Alignment explanation
Indices: 3046--3167 Score: 131
Period size: 31 Copynumber: 3.9 Consensus size: 31
3036 GTCGAGGGTA
*
3046 TACCTATGTTCTACGGAACATATGGACAGCAT
1 TACCTATGTTCTACGGAACATATGGACAG-TT
* *
3078 TACCTATG-TCTTTC-GAGACATATGGACAGTA
1 TACCTATGTTC-TACGGA-ACATATGGACAGTT
*
3109 TACCTATGTTCTAAGGAACATATGGACAGTT
1 TACCTATGTTCTACGGAACATATGGACAGTT
* * * *
3140 TACCTAGGTTCTTCGGAACCTATAGACA
1 TACCTATGTTCTACGGAACATATGGACA
3168 TTTGCCAAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
31 49 0.65
32 26 0.35
ACGTcount: A:0.30, C:0.20, G:0.19, T:0.30
Consensus pattern (31 bp):
TACCTATGTTCTACGGAACATATGGACAGTT
Found at i:7285 original size:64 final size:65
Alignment explanation
Indices: 7173--7328 Score: 158
Period size: 64 Copynumber: 2.4 Consensus size: 65
7163 TTGAAGGTGT
* * * ** * *
7173 ATCGATGCACAGGAAGTGCATCGATGCA-CTCTTTTAAAATAAATACATCGAATGCAATTCGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCTCTAGTAAAATAAATACATCGAATACAATTCATGC
* * *
7237 ATCGATGCATAAGTAGTGCATCGATGCATC-CTAGTAATAATACA-ACATCGAATACATTTTATG
1 ATCGATGCATAAGTAGTGCATCGATGCATCTCTAGTAA-AATAAATACATCGAATACAATTCATG
7300 C
65 C
* * *
7301 ACCGATGCATCA-TAGTGTATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
7329 ACCTTCATTA
Statistics
Matches: 77, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
63 15 0.19
64 56 0.73
65 6 0.08
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (65 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCTCTAGTAAAATAAATACATCGAATACAATTCATGC
Found at i:8173 original size:31 final size:31
Alignment explanation
Indices: 8086--8212 Score: 125
Period size: 31 Copynumber: 4.1 Consensus size: 31
8076 AGAGTCGAGG
*
8086 GTATACCTATGTTCTACGTAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* *
8117 -TAATTACCTATG-TCTTTC-GAGACATATAGACA
1 GT-A-TACCTATGTTC-TACGGA-ACATATGGACA
*
8149 GTATACCTATGTTCTAAGGAACATATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
* * * *
8180 GTTTACCTAGGTTCTTCGGAACCTATGGACA
1 GTATACCTATGTTCTACGGAACATATGGACA
8211 GT
1 GT
8213 TTCCAAGGAT
Statistics
Matches: 78, Mismatches: 11, Indels: 14
0.76 0.11 0.14
Matches are distributed among these distances:
30 1 0.01
31 51 0.65
32 25 0.32
33 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (31 bp):
GTATACCTATGTTCTACGGAACATATGGACA
Found at i:8254 original size:30 final size:30
Alignment explanation
Indices: 8200--8271 Score: 108
Period size: 30 Copynumber: 2.4 Consensus size: 30
8190 GTTCTTCGGA
* * *
8200 ACCTATGGACAGTTTCCAAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
*
8230 ACCTCTGGATAGTTACCGAGGATCTTTATG
1 ACCTCTGGATAGTTACCAAGGATCTTTATG
8260 ACCTCTGGATAG
1 ACCTCTGGATAG
8272 GTCCTTCGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.32
Consensus pattern (30 bp):
ACCTCTGGATAGTTACCAAGGATCTTTATG
Found at i:10676 original size:20 final size:21
Alignment explanation
Indices: 10645--10696 Score: 97
Period size: 20 Copynumber: 2.5 Consensus size: 21
10635 AGAATAGAGG
10645 GTATCGGTACTCCTAAAAGGA
1 GTATCGGTACTCCTAAAAGGA
10666 GTATC-GTACTCCTAAAAGGA
1 GTATCGGTACTCCTAAAAGGA
10686 GTATCGGTACT
1 GTATCGGTACT
10697 ACCTTTGTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 20 0.67
21 10 0.33
ACGTcount: A:0.31, C:0.19, G:0.23, T:0.27
Consensus pattern (21 bp):
GTATCGGTACTCCTAAAAGGA
Found at i:11307 original size:19 final size:17
Alignment explanation
Indices: 11275--11319 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
11265 AGTGCATTCC
*
11275 AAAAAAATTGAC-TTTA
1 AAAAAAATTGACACTTA
11291 AAAAAAACTTGACACTTA
1 AAAAAAA-TTGACACTTA
*
11309 AACAAAATTGA
1 AAAAAAATTGA
11320 ATTTCAACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 9 0.36
18 9 0.36
ACGTcount: A:0.58, C:0.11, G:0.07, T:0.24
Consensus pattern (17 bp):
AAAAAAATTGACACTTA
Found at i:14108 original size:20 final size:21
Alignment explanation
Indices: 14078--14117 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 21
14068 AGCTGTTGGG
14078 GCCTAATGGTATCGATACTAT
1 GCCTAATGGTATCGATACTAT
14099 GCCT-ATGGTATCGATACTA
1 GCCTAATGGTATCGATACTA
14118 CTTTACAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.33
Consensus pattern (21 bp):
GCCTAATGGTATCGATACTAT
Found at i:15115 original size:23 final size:24
Alignment explanation
Indices: 15059--15115 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 24
15049 ATTTAATTTT
* *
15059 TATTTTTAATATTTAATTTTTTGAA
1 TATTTTT-ATATTTAATATTTAGAA
*
15084 CATTTTTATATTTAA-ATTTAGAA
1 TATTTTTATATTTAATATTTAGAA
15107 TATTTTTAT
1 TATTTTTAT
15116 TTTTTCTAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 14 0.50
24 8 0.29
25 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (24 bp):
TATTTTTATATTTAATATTTAGAA
Found at i:16000 original size:183 final size:183
Alignment explanation
Indices: 15685--16069 Score: 643
Period size: 183 Copynumber: 2.1 Consensus size: 183
15675 ATTAAATTTT
* *
15685 AAATATTAAATATATTATATATAACATATGGGCTCAACCCAAATCATTTAAAACCCAATTAATAA
1 AAATATTAAATATATTATATATAAAATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
* *
15750 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATACATTTTT
66 TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
*
15815 TATTTTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTT-AATTAAA
131 TATTTTATAATTATATATTATTTAAATTAATTATAAACT-TTTTTTGAATTAAA
15868 AAATATTAAATATATTATATATAAAATATGGGCT-AAGCCCAAACCATTTAAAACCCAATTAATA
1 AAATATTAAATATATTATATATAAAATATGGGCTCAA-CCCAAACCATTTAAAACCCAATTAATA
* *
15932 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAATTTATCTAAAATTT
65 ATTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTT
15997 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
130 TTATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
* *
16051 AAA-ATTTAAT-TTTTATATA
1 AAATATTAAATATATTATATA
16070 AATTAGAAAA
Statistics
Matches: 191, Mismatches: 9, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
181 8 0.04
182 14 0.07
183 169 0.88
ACGTcount: A:0.46, C:0.09, G:0.03, T:0.42
Consensus pattern (183 bp):
AAATATTAAATATATTATATATAAAATATGGGCTCAACCCAAACCATTTAAAACCCAATTAATAA
TTTAAGATCCAATAACTTTTAAACTTAAATCAATATTAATTAATTAAAAAATTATATAAAATTTT
TATTTTATAATTATATATTATTTAAATTAATTATAAACTTTTTTTGAATTAAA
Found at i:16994 original size:17 final size:18
Alignment explanation
Indices: 16974--17007 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
16964 GATATTAACA
16974 AAAATA-TATTAAATATC
1 AAAATACTATTAAATATC
16991 AAAATACTATTAAATAT
1 AAAATACTATTAAATAT
17008 TTAAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (18 bp):
AAAATACTATTAAATATC
Found at i:18028 original size:23 final size:21
Alignment explanation
Indices: 17983--18039 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
17973 TGTCTAAGGT
17983 ATATTTTA-TT-ATATT-TTTA
1 ATATTTTATTTAAT-TTCTTTA
18002 ATATTTTGTATTTAATTTCTTTA
1 ATA-TTT-TATTTAATTTCTTTA
18025 ATATTTTATTTAATT
1 ATATTTTATTTAATT
18040 AATTTTTTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 3 0.09
20 3 0.09
21 11 0.33
22 7 0.21
23 9 0.27
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
ATATTTTATTTAATTTCTTTA
Found at i:18049 original size:25 final size:23
Alignment explanation
Indices: 17996--18049 Score: 63
Period size: 25 Copynumber: 2.3 Consensus size: 23
17986 TTTTATTATA
*
17996 TTTTTAATATTTTGTATTTAATT
1 TTTTTAATATTTTGTAATTAATT
* *
18019 TCTTTAATATTTTATTTAATTAATT
1 TTTTTAATA-TTT-TGTAATTAATT
18044 TTTTTA
1 TTTTTA
18050 CAGATATAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 8 0.32
24 3 0.12
25 14 0.56
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (23 bp):
TTTTTAATATTTTGTAATTAATT
Found at i:25333 original size:2 final size:2
Alignment explanation
Indices: 25328--25356 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
25318 ATGAGAGAAA
25328 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25357 AATGTAACCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:26738 original size:39 final size:38
Alignment explanation
Indices: 26695--26795 Score: 125
Period size: 39 Copynumber: 2.6 Consensus size: 38
26685 TCTATATATA
26695 AAAAAATATTTTCCAAAACCTATATAATATATA-TTTTTT
1 AAAAAATATTTT-CAAAA-CTATATAATATATACTTTTTT
* *
26734 AAAAAATATTTT-AAAATTATATATTATATACTTTTTTT
1 AAAAAATATTTTCAAAACTATATAATATATAC-TTTTTT
* *
26772 AAAAAATGTTTTCAAAATTATATA
1 AAAAAATATTTTCAAAACTATATA
26796 GTTTTCAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
36 12 0.21
37 4 0.07
38 17 0.30
39 23 0.41
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.46
Consensus pattern (38 bp):
AAAAAATATTTTCAAAACTATATAATATATACTTTTTT
Found at i:26757 original size:38 final size:39
Alignment explanation
Indices: 26695--26795 Score: 127
Period size: 38 Copynumber: 2.6 Consensus size: 39
26685 TCTATATATA
**
26695 AAAAAATATTTTCCAAAA-CCTATATAATATA-TATTTTTT
1 AAAAAATATTTT-CAAAATTATATATAATATACT-TTTTTT
*
26734 AAAAAATATTTT-AAAATTATATATTATATACTTTTTTT
1 AAAAAATATTTTCAAAATTATATATAATATACTTTTTTT
*
26772 AAAAAATGTTTTCAAAATTATATA
1 AAAAAATATTTTCAAAATTATATA
26796 GTTTTCAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
37 4 0.07
38 27 0.49
39 24 0.44
ACGTcount: A:0.48, C:0.06, G:0.01, T:0.46
Consensus pattern (39 bp):
AAAAAATATTTTCAAAATTATATATAATATACTTTTTTT
Found at i:26806 original size:29 final size:29
Alignment explanation
Indices: 26768--26824 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
26758 TATATACTTT
*
26768 TTTTAAAAAATGTTTTCAAAATTATATAG
1 TTTTAAAAAATGTTTTCAAAACTATATAG
* *
26797 TTTTCAAAAATGTTTTTAAAACTATATA
1 TTTTAAAAAATGTTTTCAAAACTATATA
26825 TTATATGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (29 bp):
TTTTAAAAAATGTTTTCAAAACTATATAG
Found at i:26899 original size:142 final size:141
Alignment explanation
Indices: 26708--27046 Score: 338
Period size: 142 Copynumber: 2.4 Consensus size: 141
26698 AAATATTTTC
** * *
26708 CAAAACCTATAT-A-ATATATATTTTTTAAAAAATATTTTAAAATTATATATTATATACTT-T-T
1 CAAAA-CTATATAATATATATATTTTTTAAAATGTTTTTTAAAACTATATATTATATACTTATGT
* *
26769 TTTAAAAAATGTTTTCAAAATTATATAGTTTTCAAAAATGTTTTTAAAA-CTATATATTATA-T-
65 TTTAAAAAAT-ATAT-AAAA-TATATA-TTTTCAAAAATG-TTTTAAAAGCTATATATTATATTA
*
26831 GTTTTCAAA-ATGATTT
125 ATTTTCAAATATGATTT
**
26847 CAAAACTATATAATATATATATGTTTTTAAAATGTTTTTTAAAAGCTATATA-TATATTTTTAAA
1 CAAAACTATATAATATATATAT-TTTTTAAAATGTTTTTTAAAA-CTATATATTATATACTT---
* *
26911 ATGTTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAGCTATATATTATATTAA
61 ATGTTTTAAAAAATATATAAAATATATATTTTCAAAAATGTTTTAAAAGCTATATATTATATTAA
* **
26976 TTTTCAAATTTTTTTT
126 TTTTCAAATATGATTT
* * ** *
26992 AAAAACTATATAATATATATATATTCAAAAATG-TTTTGAAAACTATATATTATAT
1 CAAAACTATATAATATATATATTTTTTAAAATGTTTTTTAAAACTATATATTATAT
27047 TAATTTTCAA
Statistics
Matches: 167, Mismatches: 19, Indels: 24
0.80 0.09 0.11
Matches are distributed among these distances:
138 6 0.04
139 6 0.04
140 8 0.05
141 33 0.20
142 37 0.22
143 20 0.12
144 19 0.11
145 28 0.17
146 10 0.06
ACGTcount: A:0.44, C:0.05, G:0.04, T:0.47
Consensus pattern (141 bp):
CAAAACTATATAATATATATATTTTTTAAAATGTTTTTTAAAACTATATATTATATACTTATGTT
TTAAAAAATATATAAAATATATATTTTCAAAAATGTTTTAAAAGCTATATATTATATTAATTTTC
AAATATGATTT
Found at i:26953 original size:37 final size:37
Alignment explanation
Indices: 26790--27163 Score: 328
Period size: 37 Copynumber: 10.2 Consensus size: 37
26780 TTTTCAAAAT
*
26790 TATATAGTTTTCAAAAATGTTTTTAAAACTATAT-AT-
1 TATATA-TTTTCAAAAATGTTTTAAAAACTATATAATA
* * *
26826 TATATGTTTTC-AAAATGATTTCAAAACTATATAATA
1 TATATATTTTCAAAAATGTTTTAAAAACTATATAATA
** *
26862 TATATATGTTTTTAAAATGTTTTTTAAAAGC--TAT-ATA
1 TATATAT-TTTCAAAAATG--TTTTAAAAACTATATAATA
26899 TATAT-TTTT--AAAATGTTTTAAAAACTATATAATA
1 TATATATTTTCAAAAATGTTTTAAAAACTATATAATA
* *
26933 TATATATTTTCAAAAATGTTTTAAAAGCTATATATTA
1 TATATATTTTCAAAAATGTTTTAAAAACTATATAATA
** *
26970 TAT-TAATTTTCAAATTTTTTTTAAAAACTATATAATA
1 TATAT-ATTTTCAAAAATGTTTTAAAAACTATATAATA
* * *
27007 TATATATATTCAAAAATGTTTTGAAAACTATATATTA
1 TATATATTTTCAAAAATGTTTTAAAAACTATATAATA
*
27044 TAT-TAATTTTC-AAAATGTCTTAAAAACTATATAATA
1 TATAT-ATTTTCAAAAATGTTTTAAAAACTATATAATA
* * * *
27080 TATAAATGTTTTGAAACATGTTTTCAAAACTATATATTATA
1 TAT--ATATTTTCAAAAATGTTTTAAAAACTATATA--ATA
* * *
27121 TATACATTTT--AAAATGTTTT-TAAACTGCATATTATA
1 TATATATTTTCAAAAATGTTTTAAAAACT--ATATAATA
27157 TATATAT
1 TATATAT
27164 GTAAAAAAAA
Statistics
Matches: 278, Mismatches: 37, Indels: 46
0.77 0.10 0.13
Matches are distributed among these distances:
31 9 0.03
33 9 0.03
34 27 0.10
35 14 0.05
36 53 0.19
37 110 0.40
38 18 0.06
39 25 0.09
40 7 0.03
41 6 0.02
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (37 bp):
TATATATTTTCAAAAATGTTTTAAAAACTATATAATA
Found at i:27010 original size:74 final size:72
Alignment explanation
Indices: 26790--27163 Score: 415
Period size: 74 Copynumber: 5.1 Consensus size: 72
26780 TTTTCAAAAT
* * *
26790 TATATAGTTTTCAAAAATGTTTTTAAAACTATATATTATA-T-GTTTTCAAAATGATTTCAAAAC
1 TATATA-TTTTCAAAAATG-TTTTAAAACTATATATTATATTAATTTTCAAAATGTTTTAAAAAC
26853 TATATAATA
64 TATATAATA
**
26862 TATATATGTTTTTAAAATGTTTTTTAAAAGCTATATA-TATA-T--TTTT-AAAATGTTTTAAAA
1 TATATAT-TTTCAAAAATG--TTTTAAAA-CTATATATTATATTAATTTTCAAAATGTTTTAAAA
26922 ACTATATAATA
62 ACTATATAATA
* *
26933 TATATATTTTCAAAAATGTTTTAAAAGCTATATATTATATTAATTTTCAAATTTTTTTTAAAAAC
1 TATATATTTTCAAAAATGTTTTAAAA-CTATATATTATATTAATTTTCAAA-ATGTTTTAAAAAC
26998 TATATAATA
64 TATATAATA
* *
27007 TATATATATTCAAAAATGTTTTGAAAACTATATATTATATTAATTTTCAAAATGTCTTAAAAACT
1 TATATATTTTCAAAAATGTTTT-AAAACTATATATTATATTAATTTTCAAAATGTTTTAAAAACT
27072 ATATAATA
65 ATATAATA
* * * *
27080 TATAAATGTTTTGAAACATGTTTTCAAAACTATATATTATATATACATTTT-AAAATGTTTT-TA
1 TAT--ATATTTTCAAAAATGTTTT-AAAACTATATATTATAT-TA-ATTTTCAAAATGTTTTAAA
*
27143 AACTGCATATTATA
61 AACT--ATATAATA
27157 TATATAT
1 TATATAT
27164 GTAAAAAAAA
Statistics
Matches: 265, Mismatches: 21, Indels: 29
0.84 0.07 0.09
Matches are distributed among these distances:
68 16 0.06
69 4 0.02
70 10 0.04
71 31 0.12
72 23 0.09
73 39 0.15
74 72 0.27
75 44 0.17
76 11 0.04
77 15 0.06
ACGTcount: A:0.43, C:0.06, G:0.05, T:0.46
Consensus pattern (72 bp):
TATATATTTTCAAAAATGTTTTAAAACTATATATTATATTAATTTTCAAAATGTTTTAAAAACTA
TATAATA
Found at i:27933 original size:165 final size:165
Alignment explanation
Indices: 27748--28457 Score: 971
Period size: 165 Copynumber: 4.3 Consensus size: 165
27738 TCGAACTAGG
* * * * *
27748 AGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCACGAAG
1 AGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAG
* *
27813 CTGAGTGTAATCAAACTCGAGAGTCTTTAGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAA
66 CTGAGTGTAATCAAACTCGAGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAA
27878 TGA-AGTGCCTTGGAGCTGAGCGTAGTCGAACTCAA
131 TGATA-TGCCTTGGAGCTGAGCGTAGTCGAACTCAA
* * *
27913 AGGTCTTTAGCTGGCAGATAACCCTTCTTGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAG
1 AGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAG
* * * *
27978 CTGAGTGTAATCGAACTCGAGAGTCTTTTGCAGATAGCCCTTCTCGACATAAGATATACTGCAAA
66 CTGAGTGTAATCAAACTCGAGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAA
* * * *
28043 TGA-AGTGCCTTGGAGCTTAGCGTAGTTGAAATAAA
131 TGATA-TGCCTTGGAGCTGAGCGTAGTCGAACTCAA
* *
28078 AGG-CCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAA
1 AGGTCTTTTGG-TGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAA
* *
28142 GCTGAGTGTAATCAAACTCGAGAGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAA
65 GCTGAGTGTAATCAAACTCGAGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAA
* *
28207 ATGATATGCCTTGGAGCTGAACGTAGTCGAACTCGA
130 ATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAA
** * * * * **
28243 AGGT-TTTTGGTCACAGATAACCCTTCTAGCCTTGAGGTATGCTGTAAAT-ATTGTATCCTCGAA
1 AGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGA-TGTGCCCTCGAA
* * * *
28306 GTTGAGTGTAATCAAACTCGAGGGTCGTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAA
65 GCTGAGTGTAATCAAACTCGAGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAA
*
28371 ATGATACGCCTTGGAGCTGAGCGTAGTCGAACTCAA
130 ATGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAA
* * * * *
28407 AGGTCTTTTGTTAGCAGATAACCCTTCTCGACTTATGTTATACTGCAAATG
1 AGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATG
28458 TTGTCTTAAA
Statistics
Matches: 479, Mismatches: 60, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
163 1 0.00
164 144 0.30
165 333 0.70
166 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (165 bp):
AGGTCTTTTGGTGGCAGATAACCCTTCTAGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAG
CTGAGTGTAATCAAACTCGAGAGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAA
TGATATGCCTTGGAGCTGAGCGTAGTCGAACTCAA
Found at i:28436 original size:329 final size:329
Alignment explanation
Indices: 27748--28457 Score: 978
Period size: 329 Copynumber: 2.2 Consensus size: 329
27738 TCGAACTAGG
* * * * *
27748 AGGTCTTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTGCCCACGAAG
1 AGGTCTTTTGTTG-CAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCACGAAG
*
27813 CTGAGTGTAATCAAACTCGAGAGTCTTTAGCAGATAACCCTTCTCGACTTAAGCTATACTGCAAA
65 CTGAGTGTAATCAAACTCGAGAGTCTTTAGCAAATAACCCTTCTCGACTTAAGCTATACTGCAAA
* ** *
27878 TGAAGTGCCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGCTGGCAGATAACCCTTCTTG
130 TGAAGTGCCTTGGAGCTGAACGTAGTCGAACTCAAAGGTCTTTAGCTCACAGATAACCCTTCTAG
* * * * *
27943 ACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTGTAATCGAACTCGAGAGTCTTTTG
195 ACTTAAGGTATGCTGCAAATGATGTACCCTCGAAGCTGAGTGTAATCAAACTCGAGAGTCGTTGG
* * *
28008 CAGATAGCCCTTCTCGACATAAGATATACTGCAAATGAAGTGCCTTGGAGCTTAGCGTAGTTGAA
260 CAGATAGCCCTTCTCGACATAAGATATACTGCAAATGAAGCGCCTTGGAGCTGAGCGTAGTCGAA
28073 ATAAA
325 ATAAA
* * *
28078 AGGCCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCTCGAAG
1 AGGTCTTTTGTT-GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCACGAAG
* * *
28143 CTGAGTGTAATCAAACTCGAGAGTCTTTGGCAAATAGCCCTTCTCGACTTAAGCTATGCTGCAAA
65 CTGAGTGTAATCAAACTCGAGAGTCTTTAGCAAATAACCCTTCTCGACTTAAGCTATACTGCAAA
* * *
28208 TGATA-TGCCTTGGAGCTGAACGTAGTCGAACTCGAAGGT-TTTTGGTCACAGATAACCCTTCTA
130 TGA-AGTGCCTTGGAGCTGAACGTAGTCGAACTCAAAGGTCTTTAGCTCACAGATAACCCTTCTA
* * * * * *
28271 GCCTTGAGGTATGCTGTAAAT-ATTGTATCCTCGAAGTTGAGTGTAATCAAACTCGAGGGTCGTT
194 GACTTAAGGTATGCTGCAAATGA-TGTACCCTCGAAGCTGAGTGTAATCAAACTCGAGAGTCGTT
* * *
28335 GGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATA-CGCCTTGGAGCTGAGCGTAGTC
258 GGCAGATAGCCCTTCTCGACATAAGATATACTGCAAATGA-AGCGCCTTGGAGCTGAGCGTAGTC
* *
28399 GAACTCAA
322 GAAATAAA
* *
28407 AGGTCTTTTGTTAGCAGATAACCCTTCTCGACTTATGTTATACTGCAAATG
1 AGGTCTTTTGTT-GCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATG
28458 TTGTCTTAAA
Statistics
Matches: 333, Mismatches: 43, Indels: 9
0.86 0.11 0.02
Matches are distributed among these distances:
328 1 0.00
329 178 0.53
330 152 0.46
331 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (329 bp):
AGGTCTTTTGTTGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATGTGCCCACGAAGC
TGAGTGTAATCAAACTCGAGAGTCTTTAGCAAATAACCCTTCTCGACTTAAGCTATACTGCAAAT
GAAGTGCCTTGGAGCTGAACGTAGTCGAACTCAAAGGTCTTTAGCTCACAGATAACCCTTCTAGA
CTTAAGGTATGCTGCAAATGATGTACCCTCGAAGCTGAGTGTAATCAAACTCGAGAGTCGTTGGC
AGATAGCCCTTCTCGACATAAGATATACTGCAAATGAAGCGCCTTGGAGCTGAGCGTAGTCGAAA
TAAA
Found at i:33797 original size:60 final size:60
Alignment explanation
Indices: 33727--33848 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
33717 AATAATAAAG
33727 AAGGAAAATAGAATGAAATAAAATCAATAAACATAGTATAATAATTAAGTGAGTGACCAA
1 AAGGAAAATAGAATGAAATAAAATCAATAAACATAGTATAATAATTAAGTGAGTGACCAA
33787 AAGGAAAATAGAATGAAATAAAATCAATAAACATAGTATAATAATTAAGTGAGTGACCAA
1 AAGGAAAATAGAATGAAATAAAATCAATAAACATAGTATAATAATTAAGTGAGTGACCAA
33847 AA
1 AA
33849 TAAAAATATG
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.57, C:0.07, G:0.15, T:0.21
Consensus pattern (60 bp):
AAGGAAAATAGAATGAAATAAAATCAATAAACATAGTATAATAATTAAGTGAGTGACCAA
Found at i:35079 original size:37 final size:35
Alignment explanation
Indices: 35038--35427 Score: 287
Period size: 37 Copynumber: 10.9 Consensus size: 35
35028 TTATATATAA
*
35038 AAAAATATTTTCCAAAACCTATATAATATATATTTTT
1 AAAAATATTTT--AAAAACTATATAATATATATTTTT
** * *
35075 AAAAATATTTTAAAATTTTATATTATATACTTTTTTT
1 AAAAATATTTTAAAA-ACTATATAATATA-TATTTTT
** * *
35112 AAAAA-ATGTTTTCAAA--AT-T-ATATA-GTTTTC
1 AAAAATAT-TTTAAAAACTATATAATATATATTTTT
* *
35142 AAAAATGTTTTTAAAACTATAT-AT-TATATGTTTT
1 AAAAATATTTTAAAAACTATATAATATATAT-TTTT
* *
35176 CAAAATGA-TTTCAAAACTATATAATATATATATGTTTT
1 AAAAAT-ATTTTAAAAACTATAT-A-ATATATAT-TTTT
* *
35214 CAAAATGTTTTTTAAAAACTATATATATATATATATATTT
1 -AAAA-ATATTTTAAAAACTATATA-ATATATAT-T-TTT
35254 -AAAATATTTTAAAAACTATATAATATATATATTTT
1 AAAAATATTTTAAAAACTATATAATATATAT-TTTT
* * *
35289 CAAAAATGTTTTAAAAACTATATATTATATTAATTTT
1 -AAAAATATTTTAAAAACTATATAATATA-TATTTTT
* * *
35326 CAAAATGTTTTTAAAAACTATATAATATATATTTTC
1 AAAAAT-ATTTTAAAAACTATATAATATATATTTTT
* * * *
35362 AAAAATGTTTTGAAAACTATATATTATATTAATTTT
1 AAAAATATTTTAAAAACTATATAATATA-TATTTTT
* *
35398 CAAAATATCTTAAAAACTATATAATATATA
1 AAAAATATTTTAAAAACTATATAATATATA
35428 AATATTTTGA
Statistics
Matches: 288, Mismatches: 42, Indels: 48
0.76 0.11 0.13
Matches are distributed among these distances:
30 16 0.06
31 1 0.00
32 9 0.03
33 5 0.02
34 23 0.08
35 28 0.10
36 65 0.23
37 95 0.33
38 15 0.05
39 14 0.05
40 17 0.06
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.46
Consensus pattern (35 bp):
AAAAATATTTTAAAAACTATATAATATATATTTTT
Found at i:35128 original size:74 final size:72
Alignment explanation
Indices: 35038--35505 Score: 372
Period size: 74 Copynumber: 6.4 Consensus size: 72
35028 TTATATATAA
* * * *
35038 AAAAATATTTTCCAAAACCTATATAATATATATTTTTAAAAATATTTT-AAAATTTTATATTATA
1 AAAAATGTTTT-CAAAA-CTATATAATATATATTTTTAAAAATGTTTTAAAAACTATATATTATA
*
35102 TACTTTTTTT
64 TA-TATTTTT
* * *
35112 AAAAAATGTTTTC-AAA--AT-T-ATATA-GTTTTCAAAAATGTTTTTAAAACTATATA-T-TAT
1 -AAAAATGTTTTCAAAACTATATAATATATATTTTTAAAAATGTTTTAAAAACTATATATTATAT
*
35169 AT-GTTTT
65 ATATTTTT
* * *
35176 CAAAATGATTTCAAAACTATATAATATATATATGTTTTCAAAATGTTTTTTAAAAACTATATATA
1 AAAAATGTTTTCAAAACTATAT-A-ATATATAT-TTTTAAAAATG--TTTTAAAAACTATATAT-
*
35241 TATATATATATTT
60 TATATATATTTTT
* *
35254 -AAAATATTTTAAAAACTATATAATATATATATTTTCAAAAATGTTTTAAAAACTATATATTATA
1 AAAAATGTTTTCAAAACTATATAATATATAT-TTTT-AAAAATGTTTTAAAAACTATATATTATA
*
35318 T-TAATTTT
64 TATATTTTT
* * * *
35326 CAAAATGTTTTTAAAAACTATATAATATATATTTTCAAAAATGTTTTGAAAACTATATATTATAT
1 AAAAATG-TTTTCAAAACTATATAATATATATTTTTAAAAATGTTTTAAAAACTATATATTATAT
*
35391 -TAATTTT
65 ATATTTTT
* * * * * * * *
35398 CAAAATATCTTAAAAACTATATAATATATAAATATTTTGAAACATGTTTTCAAAAGTATATACTA
1 AAAAATGTTTTCAAAACTATATAATATAT--AT-TTTT-AAAAATGTTTTAAAAACTATATATTA
*
35463 TATATACATTTT
62 TATATA-TTTTT
*
35475 -AAAATGTTTTC-AAACTGCATATTATATATAT
1 AAAAATGTTTTCAAAACT--ATATAATATATAT
35506 ATATATATAT
Statistics
Matches: 330, Mismatches: 36, Indels: 54
0.79 0.09 0.13
Matches are distributed among these distances:
63 10 0.03
64 7 0.02
65 1 0.00
66 6 0.02
67 16 0.05
68 14 0.04
69 1 0.00
70 7 0.02
71 22 0.07
72 55 0.17
73 18 0.05
74 60 0.18
75 54 0.16
76 18 0.05
77 38 0.12
78 3 0.01
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (72 bp):
AAAAATGTTTTCAAAACTATATAATATATATTTTTAAAAATGTTTTAAAAACTATATATTATATA
TATTTTT
Found at i:35146 original size:29 final size:29
Alignment explanation
Indices: 35108--35164 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
35098 TATATACTTT
*
35108 TTTTAAAAAATGTTTTCAAAATTATATAG
1 TTTTAAAAAATGTTTTCAAAACTATATAG
* *
35137 TTTTCAAAAATGTTTTTAAAACTATATA
1 TTTTAAAAAATGTTTTCAAAACTATATA
35165 TTATATGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.44, C:0.05, G:0.05, T:0.46
Consensus pattern (29 bp):
TTTTAAAAAATGTTTTCAAAACTATATAG
Found at i:35225 original size:72 final size:71
Alignment explanation
Indices: 35130--35507 Score: 399
Period size: 72 Copynumber: 5.1 Consensus size: 71
35120 TTTTCAAAAT
* *
35130 TATATAGTTTTCAAAAATGTTTTTAAAACTATATATTATAT-GTTTTCAAAATGATTTCAAAACT
1 TATATA-TTTTCAAAAATGTTTTTAAAACTATATATTATATAATTTTCAAAAT-ATTTAAAAACT
35194 ATATAATA
64 ATATAATA
35202 TATATATGTTTTC-AAAATGTTTTTTAAAAACTATATATATATATATATATTT-AAAATATTTTA
1 TATATA--TTTTCAAAAATG-TTTTT-AAAACTATATAT-TATATA-AT-TTTCAAAATA-TTTA
35265 AAAACTATATAATA
58 AAAACTATATAATA
* *
35279 TATATATTTTCAAAAATGTTTTAAAAACTATATATTATATTAATTTTCAAAATGTTTTTAAAAAC
1 TATATATTTTCAAAAATGTTTTTAAAACTATATATTATA-TAATTTTCAAAA--TATTTAAAAAC
35344 TATAT-A-A
63 TATATAATA
*
35351 TATATATTTTCAAAAATGTTTTGAAAACTATATATTATATTAATTTTCAAAATATCTTAAAAACT
1 TATATATTTTCAAAAATGTTTTTAAAACTATATATTATA-TAATTTTCAAAATAT-TTAAAAACT
35416 ATATAATA
64 ATATAATA
* * * * * **
35424 TATAAATATTTTGAAACATGTTTTCAAAAGTATATACTATATATACATTTT-AAAATGTTTTCAA
1 TAT--ATATTTTCAAAAATGTTTTTAAAACTATATA-T-TATATA-ATTTTCAAAATATTTAAAA
*
35488 ACTGCATATTATA
61 ACT--ATATAATA
35501 TATATAT
1 TATATAT
35508 ATATATATAT
Statistics
Matches: 269, Mismatches: 14, Indels: 43
0.83 0.04 0.13
Matches are distributed among these distances:
70 2 0.01
71 13 0.05
72 68 0.25
73 26 0.10
74 40 0.15
75 53 0.20
76 16 0.06
77 48 0.18
78 3 0.01
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (71 bp):
TATATATTTTCAAAAATGTTTTTAAAACTATATATTATATAATTTTCAAAATATTTAAAAACTAT
ATAATA
Found at i:35484 original size:37 final size:37
Alignment explanation
Indices: 35130--35509 Score: 374
Period size: 37 Copynumber: 10.2 Consensus size: 37
35120 TTTTCAAAAT
*
35130 TATATAGTTTTCAAAAATGTTTTTAAAAC--TATATAT-
1 TATATA-TTTTC-AAAATGTTTTAAAAACTATATATATA
* * *
35166 TATATGTTTTCAAAATGATTTCAAAACTATATAATATA
1 TATATATTTTCAAAATGTTTTAAAAACTATAT-ATATA
*
35204 TATATGTTTTCAAAATGTTTTTTAAAAACTATATATATA
1 TATATATTTTCAAAATG--TTTTAAAAACTATATATATA
*
35243 TATATATATTT-AAAATATTTTAAAAACTATATA-ATA
1 TATATAT-TTTCAAAATGTTTTAAAAACTATATATATA
35279 TATATATTTTCAAAAATGTTTTAAAAACTATATAT-TA
1 TATATATTTTC-AAAATGTTTTAAAAACTATATATATA
35316 TAT-TAATTTTCAAAATGTTTTTAAAAAC--TATATA-A
1 TATAT-ATTTTCAAAATG-TTTTAAAAACTATATATATA
*
35351 TATATATTTTCAAAAATGTTTTGAAAACTATATAT-TA
1 TATATATTTTC-AAAATGTTTTAAAAACTATATATATA
* *
35388 TAT-TAATTTTCAAAATATCTTAAAAACTATATAATATA
1 TATAT-ATTTTCAAAATGTTTTAAAAACTATAT-ATATA
* * * *
35426 TAAATATTTTGAAACATGTTTTCAAAAGTATATACTATA
1 TATATATTTTCAAA-ATGTTTTAAAAACTATATA-TATA
* *
35465 TATACATTTT-AAAATGTTTT-CAAACTGCATATTATATA
1 TATATATTTTCAAAATGTTTTAAAAACT--ATA-TATATA
35503 TATATAT
1 TATATAT
35510 ATATATATAT
Statistics
Matches: 294, Mismatches: 23, Indels: 52
0.80 0.06 0.14
Matches are distributed among these distances:
34 14 0.05
35 32 0.11
36 55 0.19
37 86 0.29
38 46 0.16
39 45 0.15
40 16 0.05
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (37 bp):
TATATATTTTCAAAATGTTTTAAAAACTATATATATA
Found at i:35504 original size:2 final size:2
Alignment explanation
Indices: 35493--35527 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
35483 TTCAAACTGC
35493 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
35528 GTAAAAAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:36358 original size:2 final size:2
Alignment explanation
Indices: 36351--36379 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
36341 TTTCACATAC
36351 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
36380 CAAATAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:36901 original size:20 final size:20
Alignment explanation
Indices: 36876--36913 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
36866 ATATAGGATA
36876 AACTATGTA-TTTAGTTATTT
1 AACTAT-TACTTTAGTTATTT
36896 AACTATTACTTTAGTTAT
1 AACTATTACTTTAGTTAT
36914 GTTTTGATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.12
20 15 0.88
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (20 bp):
AACTATTACTTTAGTTATTT
Found at i:37236 original size:31 final size:31
Alignment explanation
Indices: 37194--37272 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 31
37184 GTTTAATTAT
* *
37194 ATTTTTTAAAATT-TTGAAATGCTTAATGAGA
1 ATTTTTAAAAATTATAG-AATGCTTAATGAGA
*
37225 ATTTTTAAAAATTATAGGATGCTTAATGAGA
1 ATTTTTAAAAATTATAGAATGCTTAATGAGA
37256 ATTTTTAAAAATTATAG
1 ATTTTTAAAAATTATAG
37273 GATGAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 42 0.95
32 2 0.05
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.43
Consensus pattern (31 bp):
ATTTTTAAAAATTATAGAATGCTTAATGAGA
Found at i:37273 original size:31 final size:31
Alignment explanation
Indices: 37212--37276 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
37202 AAATTTTGAA
37212 ATGCTTAATGAGAATTTTTAAAAATTATAGG
1 ATGCTTAATGAGAATTTTTAAAAATTATAGG
37243 ATGCTTAATGAGAATTTTTAAAAATTATAGG
1 ATGCTTAATGAGAATTTTTAAAAATTATAGG
37274 ATG
1 ATG
37277 AATTTTGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.42, C:0.03, G:0.17, T:0.38
Consensus pattern (31 bp):
ATGCTTAATGAGAATTTTTAAAAATTATAGG
Found at i:42520 original size:123 final size:120
Alignment explanation
Indices: 42311--42551 Score: 279
Period size: 123 Copynumber: 2.0 Consensus size: 120
42301 TAAAAATTAG
* * * ** *
42311 TAATTTATATATATTTATAAATAAAATATTTATTTATTTAGAAATATCAGAAAAGGAGTTCTAGG
1 TAATATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAAGACATCCAGG
* * *
42376 TACCTTAAGACAGCTCTTTTCTTCGATATT-AAAAATAAATAATTAATTAAAACAAT
66 TACCTTAAGACAGCTCATTTCTT-AATATTGAAAAATAAATAAAT-ATTAAAACAAT
**
42432 TAATATATATATAATTTATAAAATAGGATATTTATTTATTTAAAAATATCAGAAAATAGACATCC
1 TAATATATATAT-ATTTAT-AAATAAAATATTTATTTATTTAAAAATATCAGAAAA-AGACATCC
* ** * *
42497 AGTTATTTTAAGACTGC-CATTTCTTAATATTGACAAATAAATAAATATTAAAACA
63 AGGTACCTTAAGACAGCTCATTTCTTAATATTGAAAAATAAATAAATATTAAAACA
42552 TGATTAAAAT
Statistics
Matches: 100, Mismatches: 16, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
121 11 0.11
122 20 0.20
123 52 0.52
124 17 0.17
ACGTcount: A:0.46, C:0.08, G:0.07, T:0.38
Consensus pattern (120 bp):
TAATATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATCAGAAAAAGACATCCAGG
TACCTTAAGACAGCTCATTTCTTAATATTGAAAAATAAATAAATATTAAAACAAT
Found at i:42648 original size:3 final size:3
Alignment explanation
Indices: 42640--42678 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
42630 TTTATGACTA
*
42640 AAT AAT AAT AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
42679 TAAAAGTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:44468 original size:123 final size:122
Alignment explanation
Indices: 44327--44758 Score: 492
Period size: 123 Copynumber: 3.6 Consensus size: 122
44317 TTAAGGCAAG
*
44327 GTTGAACAAATTCTTCTCATTATGAACTTCCTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * *
44392 CTCTTTTTGGAAATGTTGATGTTGATCTATCTCTTTCAGTGATAGCGTCAAGCAAAAG
66 CTCTTTATGGAAATGTTGATGTTGATCTATCTC-TTCAGTGATAGAGTCAAGCAAAAA
* *
44450 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGCTCTTCTCATTATAAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * *
44515 CT-TCATATGGAAATGTTGGTGCTGATCTATCTCCTTCTGTGATAGAGTCATGCAAAAAAAA
66 CTCT-TTATGGAAATGTTGATGTTGATCTATCT-CTTCAGTGATAGAGTCAAGC---AAAAA
* * * *
44576 ATTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTTTAGATGAGTTCTTCTCATTATGAA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
* * * * * *
44641 CACTTCTCTGGAAA-----A-GTTGATCCA--TC--GAGTGAT-GAATTCAAACAAAAA
66 CTCTT-TATGGAAATGTTGATGTTGATCTATCTCTTCAGTGATAG-AGTCAAGCAAAAA
* *
44689 GTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTATTCAGATGAGTTCTTCTCATTATGA
1 GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCC-TCTTCAGATGAGTTCTTCTCATTATGA
44754 ACTCT
65 ACTCT
44759 ACCTGGTAAT
Statistics
Matches: 265, Mismatches: 35, Indels: 27
0.81 0.11 0.08
Matches are distributed among these distances:
113 38 0.14
114 29 0.11
115 1 0.00
116 10 0.04
118 1 0.00
119 1 0.00
121 7 0.03
122 1 0.00
123 104 0.39
124 1 0.00
126 64 0.24
127 8 0.03
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (122 bp):
GTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTCTTCAGATGAGTTCTTCTCATTATGAA
CTCTTTATGGAAATGTTGATGTTGATCTATCTCTTCAGTGATAGAGTCAAGCAAAAA
Found at i:44695 original size:113 final size:113
Alignment explanation
Indices: 44567--44942 Score: 501
Period size: 113 Copynumber: 3.3 Consensus size: 113
44557 TAGAGTCATG
* *
44567 CAAA-AAAAAATTGAACAAGTTCTTCTCATTATGAACTTCTTCTT-CTTCTTTAGATGAGTTCTT
1 CAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
* *
44630 CTCATTATGAACACTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATT
66 CTCATTATGAAC-CTTCTCTGGAAATGCTGATCCATCGAGTGATGAATT
* * *
44679 CAAACAAAAAGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTATTCAGATGAGTTCTT
1 CAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
* * * *
44744 CTCATTATGAACTCTAC-CTGGTAATGCTGATCCATCAAATGATGAATT
66 CTCATTATGAAC-CTTCTCTGGAAATGCTGATCCATCGAGTGATGAATT
** * * *
44792 CAAATTAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTT
1 CAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
* * *
44857 CTCATTATGAACTTTCTCTGGCAATGCTAATCCATCTG-GTGATGAATT
66 CTCATTATGAACCTTCTCTGGAAATGCTGATCCATC-GAGTGATGAATT
*
44905 -AAAGCAAAAGGTTGAACAAGTTCTTCTCATTATGAACT
1 CAAA-CAAAAAGTTGAACAAGTTCTTCTCATTATGAACT
44943 CTAACTGGTA
Statistics
Matches: 231, Mismatches: 28, Indels: 9
0.86 0.10 0.03
Matches are distributed among these distances:
112 9 0.04
113 190 0.82
114 32 0.14
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (113 bp):
CAAACAAAAAGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTT
CTCATTATGAACCTTCTCTGGAAATGCTGATCCATCGAGTGATGAATT
Found at i:44939 original size:73 final size:73
Alignment explanation
Indices: 44852--45016 Score: 224
Period size: 73 Copynumber: 2.3 Consensus size: 73
44842 TTCAGATAAA
** * ***
44852 TTCTTCTCATTATGAACTTTCTCTGGCAATGCTAATCCATCTGGTGATGAATT-AAAGCAAAAGG
1 TTCTTCTCATTATGAACTTTAACTGGCAATGATAATCCATCAAATGATGAATTCAAA-CAAAAGG
44916 TTGAACAAG
65 TTGAACAAG
* * *
44925 TTCTTCTCATTATGAACTCTAACTGGTAATGATGATCCATCAAATGATGAATTCAAACAAAAGGT
1 TTCTTCTCATTATGAACTTTAACTGGCAATGATAATCCATCAAATGATGAATTCAAACAAAAGGT
44990 TGAACAAG
66 TGAACAAG
*
44998 TTCTTCCCATTATGAACTT
1 TTCTTCTCATTATGAACTT
45017 CTTCTTCATT
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
73 77 0.96
74 3 0.04
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (73 bp):
TTCTTCTCATTATGAACTTTAACTGGCAATGATAATCCATCAAATGATGAATTCAAACAAAAGGT
TGAACAAG
Found at i:44953 original size:186 final size:187
Alignment explanation
Indices: 44737--45129 Score: 689
Period size: 186 Copynumber: 2.1 Consensus size: 187
44727 TATTCAGATG
* * **
44737 AGTTCTTCTCATTATGAACTCTACCTGGTAATGCTGATCCATCAAATGATGAATTCAAATTAAAG
1 AGTTCTTCTCATTATGAACTCTAACTGGTAATGATGATCCATCAAATGATGAATTCAAACAAAAG
* * *
44802 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGA
66 GTTGAACAAGTTCTTCCCATTATGAACTTCTTCTTCATTCTTCAGATAAATTCATCTCATTATGA
* *
44867 AC-TTTCTCTGGCAATGCTAATCCATCTGGTGATGAATTAAAGCAAAAGGTTGAACA
131 ACTTTTCTCTGGAAATGCTAATCCATCAGGTGATGAATTAAAGCAAAAGGTTGAACA
44923 AGTTCTTCTCATTATGAACTCTAACTGGTAATGATGATCCATCAAATGATGAATTCAAACAAAAG
1 AGTTCTTCTCATTATGAACTCTAACTGGTAATGATGATCCATCAAATGATGAATTCAAACAAAAG
*
44988 GTTGAACAAGTTCTTCCCATTATGAACTTCTTCTTCATTCTTCAGATAAGTTCATCTCATTATGA
66 GTTGAACAAGTTCTTCCCATTATGAACTTCTTCTTCATTCTTCAGATAAATTCATCTCATTATGA
45053 ACTTTTCTCTGGAAATGCTAATCCATCAGGTGATGAATTAAAGCAAAAGGTTGAACA
131 ACTTTTCTCTGGAAATGCTAATCCATCAGGTGATGAATTAAAGCAAAAGGTTGAACA
45110 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
45130 TCTTCTTCCT
Statistics
Matches: 196, Mismatches: 10, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
186 124 0.63
187 72 0.37
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.35
Consensus pattern (187 bp):
AGTTCTTCTCATTATGAACTCTAACTGGTAATGATGATCCATCAAATGATGAATTCAAACAAAAG
GTTGAACAAGTTCTTCCCATTATGAACTTCTTCTTCATTCTTCAGATAAATTCATCTCATTATGA
ACTTTTCTCTGGAAATGCTAATCCATCAGGTGATGAATTAAAGCAAAAGGTTGAACA
Found at i:45039 original size:113 final size:113
Alignment explanation
Indices: 44922--45628 Score: 999
Period size: 113 Copynumber: 6.3 Consensus size: 113
44912 AAGGTTGAAC
* * *
44922 AAGTTCTTCTCATTATGAACTCTAACTGGTAATGATGATCCATCAAATGATGAATTCAAA-CAAA
1 AAGTTCTTCTCATTATGAACTCTATCTGGTAATGTTAATCCATCAAATGATGAATT-AAAGCAAA
* *
44986 AGGTTGAACAAGTTCTTCCCATTATGAACTTCTTCTTCATTCTTCAGAT
65 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * * * * **
45035 AAGTTCATCTCATTATGAACTTTTCTCTGGAAATGCTAATCCATCAGGTGATGAATTAAAGCAAA
1 AAGTTCTTCTCATTATGAAC-TCTATCTGGTAATGTTAATCCATCAAATGATGAATTAAAGCAAA
*
45100 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCATAT
65 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * * *
45149 GAGTTCTTCTCATTATGAACTCTACCTGGTAATGTTGATCCATCAAATGATGAGTTCAAA-CAAA
1 AAGTTCTTCTCATTATGAACTCTATCTGGTAATGTTAATCCATCAAATGATGAATT-AAAGCAAA
45213 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
65 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * * ***
45262 AAGTTCTTCTCATTATGAACTTTCTCTGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAA
1 AAGTTCTTCTCATTATGAACTCTATCTGGTAATGTTAATCCATCAAATGATGAATTAAAGCAAAA
* *
45327 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTATTCAGAT
66 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * * *
45375 GAGTTCTTCTCATTATGAACTCTACCTGGTAATGCTGATCCATCAAATGATGAATTCAAA-CAAA
1 AAGTTCTTCTCATTATGAACTCTATCTGGTAATGTTAATCCATCAAATGATGAATT-AAAGCAAA
* *
45439 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTTAGAT
65 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
* * * ***
45488 AAGTTCTTCTCATTATGAACTTTCTCTGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAA
1 AAGTTCTTCTCATTATGAACTCTATCTGGTAATGTTAATCCATCAAATGATGAATTAAAGCAAAA
*
45553 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTTAGAT
66 GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
*
45601 GAGTTCTTCTCATTATGAACTCT-TCTGG
1 AAGTTCTTCTCATTATGAACTCTATCTGG
45629 AAATATTGAA
Statistics
Matches: 527, Mismatches: 61, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
112 11 0.02
113 414 0.79
114 102 0.19
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (113 bp):
AAGTTCTTCTCATTATGAACTCTATCTGGTAATGTTAATCCATCAAATGATGAATTAAAGCAAAA
GGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGAT
Found at i:45149 original size:24 final size:23
Alignment explanation
Indices: 45114--45158 Score: 56
Period size: 23 Copynumber: 1.9 Consensus size: 23
45104 TGAACAAGTT
45114 CTTCTCATTATGAACTTCTTCTTC
1 CTTCTCATTATG-ACTTCTTCTTC
*
45138 CTTCTTCA-TATGAGTTCTTCT
1 CTTC-TCATTATGACTTCTTCT
45159 CATTATGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 8 0.42
24 8 0.42
25 3 0.16
ACGTcount: A:0.16, C:0.27, G:0.07, T:0.51
Consensus pattern (23 bp):
CTTCTCATTATGACTTCTTCTTC
Found at i:45165 original size:300 final size:300
Alignment explanation
Indices: 44623--45242 Score: 861
Period size: 300 Copynumber: 2.1 Consensus size: 300
44613 TCTTTAGATG
* ** * * *
44623 AGTTCTTCTCATTATGAACACTTCTCTGGAAAAGTTGATCCATCGAGTGATGAATTCAAACAAAA
1 AGTTCTTCTCATTATGAACTCTTAACTGGAAAAGATGATCCATCAAATGATGAATTCAAACAAAA
* * * * *
44688 AGTTGAACAAATTCTTCTCATTATGAATTTCTTCTTCCTTATTCAGATGAGTTCTTCTCATTATG
66 AGTTGAACAAATTCTTCCCATTATGAACTTCTTCTTCATTATTCAGATAAGTTCATCTCATTATG
* * **
44753 AACTCTACCTGGTAATGCTGATCCATCAAATGATGAATTCAAATTAAAGGTTGAACAAGTTCTTC
131 AACTCTACCTGGAAATGCTAATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTC
*
44818 TCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACT-TTCTCTGGCAAT
196 TCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTCTAC-CTGGCAAT
***
44882 GCTAATCCATCTGGTGATGAATT-AAAGCAAAAGGTTGAACA
260 GCTAATCCATCAAATGATGAATTCAAA-CAAAAGGTTGAACA
* *
44923 AGTTCTTCTCATTATGAACTC-TAACTGGTAATGATGATCCATCAAATGATGAATTCAAACAAAA
1 AGTTCTTCTCATTATGAACTCTTAACTGGAAAAGATGATCCATCAAATGATGAATTCAAACAAAA
* * *
44987 GGTTGAACAAGTTCTTCCCATTATGAACTTCTTCTTCATTCTTCAGATAAGTTCATCTCATTATG
66 AGTTGAACAAATTCTTCCCATTATGAACTTCTTCTTCATTATTCAGATAAGTTCATCTCATTATG
* * **
45052 AACTTTTCTCTGGAAATGCTAATCCATCAGGTGATGAATT-AAAGCAAAAGGTTGAACAAGTTCT
131 AACTCTAC-CTGGAAATGCTAATCCATCAAATGATGAATTCAAA-CAAAAGGTTGAACAAGTTCT
* * * *
45116 TCTCATTATGAACTTCTTCTTCCTTCTTCATATGAGTTCTTCTCATTATGAACTCTACCTGGTAA
194 TCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTCTACCTGGCAA
* * *
45181 TGTTGATCCATCAAATGATGAGTTCAAACAAAAGGTTGAACA
259 TGCTAATCCATCAAATGATGAATTCAAACAAAAGGTTGAACA
45223 AGTTCTTCTCATTATGAACT
1 AGTTCTTCTCATTATGAACT
45243 TCTTCTTCCT
Statistics
Matches: 281, Mismatches: 35, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
299 102 0.36
300 174 0.62
301 5 0.02
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (300 bp):
AGTTCTTCTCATTATGAACTCTTAACTGGAAAAGATGATCCATCAAATGATGAATTCAAACAAAA
AGTTGAACAAATTCTTCCCATTATGAACTTCTTCTTCATTATTCAGATAAGTTCATCTCATTATG
AACTCTACCTGGAAATGCTAATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAGTTCTTC
TCATTATGAACTTCTTCTTCCTTCTTCAGATAAATTCTTCTCATTATGAACTCTACCTGGCAATG
CTAATCCATCAAATGATGAATTCAAACAAAAGGTTGAACA
Found at i:45407 original size:226 final size:226
Alignment explanation
Indices: 44923--45623 Score: 1249
Period size: 226 Copynumber: 3.1 Consensus size: 226
44913 AGGTTGAACA
*
44923 AGTTCTTCTCATTATGAACTCTAACTGGTAATGATGATCCATCAAATGATGAATTCAAACAAAAG
1 AGTTCTTCTCATTATGAACTCTACCTGGTAATGATGATCCATCAAATGATGAATTCAAACAAAAG
* * *
44988 GTTGAACAAGTTCTTCCCATTATGAACTTCTTCTTCATTCTTCAGATAAGTTCATCTCATTATGA
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
* * *
45053 ACTTTTCTCTGGAAATGCTAATCCATCAGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTC
131 AC-TTTCTCTGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTC
*
45118 TCATTATGAACTTCTTCTTCCTTCTTCATATG
195 TCATTATGAACTTCTTCTTCCTTCTTCAGATG
* *
45150 AGTTCTTCTCATTATGAACTCTACCTGGTAATGTTGATCCATCAAATGATGAGTTCAAACAAAAG
1 AGTTCTTCTCATTATGAACTCTACCTGGTAATGATGATCCATCAAATGATGAATTCAAACAAAAG
45215 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
45280 ACTTTCTCTGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTCT
131 ACTTTCTCTGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTCT
* *
45345 CATTATGAACTTCTTATTCCTTATTCAGATG
196 CATTATGAACTTCTTCTTCCTTCTTCAGATG
*
45376 AGTTCTTCTCATTATGAACTCTACCTGGTAATGCTGATCCATCAAATGATGAATTCAAACAAAAG
1 AGTTCTTCTCATTATGAACTCTACCTGGTAATGATGATCCATCAAATGATGAATTCAAACAAAAG
* *
45441 GTTGAACAAGTTCTTCTCATTATGAACTTCTTATTCCTTCTTTAGATAAGTTCTTCTCATTATGA
66 GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
45506 ACTTTCTCTGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTCT
131 ACTTTCTCTGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTCT
*
45571 CATTATGAACTTCTTCTTCCTTCTTTAGATG
196 CATTATGAACTTCTTCTTCCTTCTTCAGATG
45602 AGTTCTTCTCATTATGAACTCT
1 AGTTCTTCTCATTATGAACTCT
45624 TCTGGAAATA
Statistics
Matches: 455, Mismatches: 19, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
226 329 0.72
227 126 0.28
ACGTcount: A:0.29, C:0.19, G:0.14, T:0.38
Consensus pattern (226 bp):
AGTTCTTCTCATTATGAACTCTACCTGGTAATGATGATCCATCAAATGATGAATTCAAACAAAAG
GTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCATTATGA
ACTTTCTCTGGCAATGTTAATCCATCGGGTGATGAATTAAAGCAAAAGGTTGAACAAGTTCTTCT
CATTATGAACTTCTTCTTCCTTCTTCAGATG
Found at i:45919 original size:73 final size:73
Alignment explanation
Indices: 45682--46003 Score: 414
Period size: 73 Copynumber: 4.4 Consensus size: 73
45672 GAGGTCTTAT
* * *
45682 CATCTTGCACTGTAGGGCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGTTCCCGAAGGCTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
45747 TTTGA-AA
66 TTTGAGAA
* * * * * **
45754 GCATCATGCATTGTAGGTCTTATAGATAACCATGAGGCTTTAAGATC-AAATGCTCCTAAAGGCT
1 -CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCT
45818 TTTTGAGAA
65 TTTTGAGAA
* * *
45827 CATCATGCATTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCTGAAGACTT
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
45892 TTTGAGAA
66 TTTGAGAA
* *
45900 CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGGTTTTGAAAACATCAAAAAGCTCCCGAAG
1 CATCATGCACTGTAGGTCTTACAGATGACCCTGA-GGCTTT---AAGATCAAAAAGCTCCCGAAG
*
45965 GCTTTTTGAAAA
62 GCTTTTTGAGAA
* * *
45977 CATCCTGCACTGTAGGGCTTACGGATG
1 CATCATGCACTGTAGGTCTTACAGATG
46004 TTGGAAATAG
Statistics
Matches: 218, Mismatches: 25, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
72 62 0.28
73 98 0.45
74 5 0.02
77 53 0.24
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (73 bp):
CATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTT
TTTGAGAA
Found at i:46684 original size:22 final size:22
Alignment explanation
Indices: 46629--46686 Score: 98
Period size: 22 Copynumber: 2.6 Consensus size: 22
46619 AATAAAGCCT
* *
46629 TCATCTTTGAAAAGGGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
46651 TCATCTTTGAAGAGAGAATCTA
1 TCATCTTTGAAGAGAGAATCTA
46673 TCATCTTTGAAGAG
1 TCATCTTTGAAGAG
46687 TGTAGATGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.34, C:0.14, G:0.19, T:0.33
Consensus pattern (22 bp):
TCATCTTTGAAGAGAGAATCTA
Done.