Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01008265.1 Kokia drynarioides strain JFW-HI SEQ_122930, 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: 216359
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Found at i:146 original size:30 final size:28
Alignment explanation
Indices: 107--165 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
97 ATTTTTATAT
107 AATTAATATAAATCACTTATTAAAATTTA
1 AATTAATATAAATCACTTATT-AAATTTA
* *
136 AATTAAATATAAATTACTTGTTAAATTTA
1 AATT-AATATAAATCACTTATTAAATTTA
165 A
1 A
166 TAATTTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (28 bp):
AATTAATATAAATCACTTATTAAATTTA
Found at i:4315 original size:19 final size:20
Alignment explanation
Indices: 4270--4323 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
4260 AAATTACAAA
* *
4270 AAAAAAATCAAAATACTTTT
1 AAAAAATTCAAAATAATTTT
4290 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
* *
4310 -TAAAATTTAAAATA
1 AAAAAATTCAAAATA
4324 TTTATATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:4355 original size:18 final size:17
Alignment explanation
Indices: 4291--4389 Score: 76
Period size: 18 Copynumber: 5.6 Consensus size: 17
4281 AATACTTTTA
*
4291 AAAAATTCAAAATAATTTT
1 AAAAATTTAAAA-AA-TTT
* *
4310 TAAAATTTAAAATATTT
1 AAAAATTTAAAAAATTT
*
4327 --ATATTTAAAAAAATTAT
1 AAAAATTT-AAAAAATT-T
4344 AAAAATTTAAAAAATTAT
1 AAAAATTTAAAAAATT-T
* *
4362 AAAAATATAAAAAAGTT
1 AAAAATTTAAAAAATTT
*
4379 AAAATTTTAAA
1 AAAAATTTAAA
4390 TATGTTTTAA
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
15 5 0.08
16 7 0.11
17 14 0.21
18 25 0.38
19 15 0.23
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (17 bp):
AAAAATTTAAAAAATTT
Found at i:4736 original size:3 final size:3
Alignment explanation
Indices: 4724--4771 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
4714 ATTCGACAGC
4724 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
4771 A
1 A
4772 CTACGCATGC
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:6056 original size:56 final size:56
Alignment explanation
Indices: 5988--6104 Score: 200
Period size: 56 Copynumber: 2.1 Consensus size: 56
5978 TTATCAATGT
* *
5988 AAAA-AAACGAGTTCGATTGATCTTAAACGCATTATTCTCCTATTTATGAATTGGG
1 AAAAGAAACGAGTTCGAGTGATCTTAAACGCATTATCCTCCTATTTATGAATTGGG
*
6043 AAAAGAAACGAGTTCGAGTGATCTTAAACGCATTATCCTCTTATTTATGAATTGGG
1 AAAAGAAACGAGTTCGAGTGATCTTAAACGCATTATCCTCCTATTTATGAATTGGG
6099 AAAAGA
1 AAAAGA
6105 CTATAAATAA
Statistics
Matches: 58, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
55 4 0.07
56 54 0.93
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.32
Consensus pattern (56 bp):
AAAAGAAACGAGTTCGAGTGATCTTAAACGCATTATCCTCCTATTTATGAATTGGG
Found at i:8385 original size:24 final size:24
Alignment explanation
Indices: 8358--8410 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
8348 TTTTTTAATT
8358 TTTTTAAATATTT-ATATTATATTA
1 TTTTT-AATATTTAATATTATATTA
* *
8382 TTTTTAATTTTTAATATTTTATTA
1 TTTTTAATATTTAATATTATATTA
8406 TTTTT
1 TTTTT
8411 TATTATTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 6 0.23
24 20 0.77
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (24 bp):
TTTTTAATATTTAATATTATATTA
Found at i:8424 original size:24 final size:24
Alignment explanation
Indices: 8371--8425 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
8361 TTAAATATTT
* *
8371 ATATTATATTATTTTTAATTTTTA
1 ATATTTTATTATTTTTAATTTTGA
*
8395 ATATTTTATTATTTTTTATTATTGA
1 ATATTTTATTATTTTTAATT-TTGA
8420 A-ATTTT
1 ATATTTT
8426 TATATAGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 23 0.85
25 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
ATATTTTATTATTTTTAATTTTGA
Found at i:13830 original size:7 final size:7
Alignment explanation
Indices: 13818--13842 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
13808 CTTAAACCCT
13818 AACCATG
1 AACCATG
13825 AACCATG
1 AACCATG
13832 AACCATG
1 AACCATG
13839 AACC
1 AACC
13843 TCATATCTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.32, G:0.12, T:0.12
Consensus pattern (7 bp):
AACCATG
Found at i:17625 original size:59 final size:60
Alignment explanation
Indices: 17562--17677 Score: 137
Period size: 59 Copynumber: 1.9 Consensus size: 60
17552 AAAAATTAGG
** * **
17562 GTTAAAATGTAATTTTTAGAAAGTTTAAGTTTCAAAA-TAGAATTTTT-GGAAGTTCGAGA
1 GTTAAAATCAAATTTTTAGAAAGTTCAAGAGTCAAAACT-GAATTTTTGGGAAGTTCGAGA
* * *
17621 GTTAAAATCAAATTTTTGGGAAGTTCGAGAGTCAAAACTGAATTTTTGGGAAGTTCG
1 GTTAAAATCAAATTTTTAGAAAGTTCAAGAGTCAAAACTGAATTTTTGGGAAGTTCG
17678 GGGCTCAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
59 37 0.79
60 10 0.21
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (60 bp):
GTTAAAATCAAATTTTTAGAAAGTTCAAGAGTCAAAACTGAATTTTTGGGAAGTTCGAGA
Found at i:17627 original size:29 final size:30
Alignment explanation
Indices: 17593--17677 Score: 122
Period size: 30 Copynumber: 2.9 Consensus size: 30
17583 AGTTTAAGTT
17593 TCAAAATAGAATTTTT-GGAAGTTCGAGAG
1 TCAAAATAGAATTTTTGGGAAGTTCGAGAG
*
17622 TTAAAATCA-AATTTTTGGGAAGTTCGAGAG
1 TCAAAAT-AGAATTTTTGGGAAGTTCGAGAG
17652 TCAAAACT-GAATTTTTGGGAAGTTCG
1 TCAAAA-TAGAATTTTTGGGAAGTTCG
17678 GGGCTCAAAT
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
29 13 0.26
30 36 0.72
31 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (30 bp):
TCAAAATAGAATTTTTGGGAAGTTCGAGAG
Found at i:17832 original size:35 final size:33
Alignment explanation
Indices: 17793--17864 Score: 81
Period size: 35 Copynumber: 2.1 Consensus size: 33
17783 ATTAAAATTG
* ** *
17793 AAATAAAATTAAAGGGTAAAATTGAAATAAATTAA
1 AAATAAAATAAAAGACT-AAATTGAAACAAA-TAA
*
17828 AAATAACATAAAAGACTAAATTGAAACAAATAA
1 AAATAAAATAAAAGACTAAATTGAAACAAATAA
17861 AAAT
1 AAAT
17865 GCAGATGGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
33 7 0.22
34 12 0.38
35 13 0.41
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.22
Consensus pattern (33 bp):
AAATAAAATAAAAGACTAAATTGAAACAAATAA
Found at i:18632 original size:15 final size:15
Alignment explanation
Indices: 18592--18633 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
18582 CAATATTTTT
*
18592 TTCTTTTCTTTTTTG
1 TTCTTTTCTTCTTTG
*
18607 TCCTTTT-TTCTTTG
1 TTCTTTTCTTCTTTG
18621 TTCTTTTCTTCTT
1 TTCTTTTCTTCTT
18634 GTCTCTGTGC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 11 0.48
ACGTcount: A:0.00, C:0.19, G:0.05, T:0.76
Consensus pattern (15 bp):
TTCTTTTCTTCTTTG
Found at i:19581 original size:39 final size:39
Alignment explanation
Indices: 19464--19999 Score: 429
Period size: 39 Copynumber: 13.5 Consensus size: 39
19454 TCTTGACTTA
* *
19464 GGGGTAA-AGATTGGATGGCTTCAATCAATCCCATGATC
1 GGGGTAAGAGATTGGATGGCTTCAATCTACCCCATGATC
* *
19502 GGGGTAAGAGATTGAATGATGTCTTCAATCTGCCCCATGATC
1 GGGGTAAGAGATTG---GATGGCTTCAATCTACCCCATGATC
** *
19544 AAGGTAAGAGATTGGATGGCTTCAATCTACCCTATGATC
1 GGGGTAAGAGATTGGATGGCTTCAATCTACCCCATGATC
* * ** * *
19583 GGGGTAGGAGATTGGATGATGTCTTTAATCTGTCTCATGATT
1 GGGGTAAGAGATTGGATG--G-CTTCAATCTACCCCATGATC
* * **
19625 GGGGTAAGAGATTGGATGACTTCAATCTGCCTTATGA--
1 GGGGTAAGAGATTGGATGGCTTCAATCTACCCCATGATC
* * *
19662 -GGGTAAGAGATAGGATGATGTCTTTAATCTA-CCCATGATT
1 GGGGTAAGAGATTGGATG--G-CTTCAATCTACCCCATGATC
** * *
19702 GGGGTAAGAGATTGGACAGCTTCAATTTGCCCCATGATC
1 GGGGTAAGAGATTGGATGGCTTCAATCTACCCCATGATC
* * *
19741 GGGGTAAGAGATTGGATGATGTCTTTAATCT-GCCCATGATT
1 GGGGTAAGAGATTGGATG--G-CTTCAATCTACCCCATGATC
* *
19782 GGGGTAAAAGATTGGATGACTTCAATCTACCCCATGATC
1 GGGGTAAGAGATTGGATGGCTTCAATCTACCCCATGATC
* *
19821 GGGGTAAGAGATTGGATGATATCTTCAATCTACCCCATGATT
1 GGGGTAAGAGATTGGATG---GCTTCAATCTACCCCATGATC
* * * * *
19863 GAGGTTAGAGATTGGATGACTTTAATCTA-CCCATGATT
1 GGGGTAAGAGATTGGATGGCTTCAATCTACCCCATGATC
* * *
19901 GGGGTAAGAGATTGGATGATGTCTTCAATCTGCCCTATGATT
1 GGGGTAAGAGATTGGATG--G-CTTCAATCTACCCCATGATC
* * * * * * *
19943 AGGTTAAGTGATCGGATGACTTCAATTTTCCCCATGATC
1 GGGGTAAGAGATTGGATGGCTTCAATCTACCCCATGATC
* *
19982 GAGGTAAGAGAGTGGATG
1 GGGGTAAGAGATTGGATG
20000 ATGACTTTGC
Statistics
Matches: 398, Mismatches: 75, Indels: 49
0.76 0.14 0.09
Matches are distributed among these distances:
36 16 0.04
38 52 0.13
39 153 0.38
41 49 0.12
42 128 0.32
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (39 bp):
GGGGTAAGAGATTGGATGGCTTCAATCTACCCCATGATC
Found at i:19777 original size:80 final size:80
Alignment explanation
Indices: 19464--20007 Score: 659
Period size: 80 Copynumber: 6.8 Consensus size: 80
19454 TCTTGACTTA
* * * * *
19464 GGGGTAA-AGATTGGATGGCTTCAATCAATCCCATGATCGGGGTAAGAGATTGAATGATGTCTTC
1 GGGGTAAGAGATTGGATGACTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
*
19528 AATCTGCCCCATGATC
66 AATCTG-CCCATGATT
** * * *
19544 AAGGTAAGAGATTGGATGGCTTCAATCTACCCTATGATCGGGGTAGGAGATTGGATGATGTCTTT
1 GGGGTAAGAGATTGGATGACTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
*
19609 AATCTGTCTCATGATT
66 AATCTG-CCCATGATT
* ** *
19625 GGGGTAAGAGATTGGATGACTTCAATCTGCCTTATGA---GGGTAAGAGATAGGATGATGTCTTT
1 GGGGTAAGAGATTGGATGACTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
*
19687 AATCTACCCATGATT
66 AATCTGCCCATGATT
* * *
19702 GGGGTAAGAGATTGGA-CAGCTTCAATTTGCCCCATGATCGGGGTAAGAGATTGGATGATGTCTT
1 GGGGTAAGAGATTGGATGA-CTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTT
19766 TAATCTGCCCATGATT
65 TAATCTGCCCATGATT
* * *
19782 GGGGTAAAAGATTGGATGACTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATATCTTC
1 GGGGTAAGAGATTGGATGACTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
*
19847 AATCTACCCCATGATT
66 AATCT-GCCCATGATT
* * * * *
19863 GAGGTTAGAGATTGGATGACTTTAATCTA-CCCATGATTGGGGTAAGAGATTGGATGATGTCTTC
1 GGGGTAAGAGATTGGATGACTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
19927 AATCTGCCCTATGATT
66 AATCTGCCC-ATGATT
* * * * * * * * *
19943 AGGTTAAGTGATCGGATGACTTCAATTTTCCCCATGATCGAGGTAAGAGAGTGGATGATGACTTT
1 GGGGTAAGAGATTGGATGACTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
20008 GCTTTGCTCT
Statistics
Matches: 401, Mismatches: 54, Indels: 17
0.85 0.11 0.04
Matches are distributed among these distances:
76 1 0.00
77 39 0.10
78 28 0.07
79 3 0.01
80 169 0.42
81 161 0.40
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (80 bp):
GGGGTAAGAGATTGGATGACTTCAATCTACCCCATGATCGGGGTAAGAGATTGGATGATGTCTTT
AATCTGCCCATGATT
Found at i:20420 original size:99 final size:98
Alignment explanation
Indices: 20309--20612 Score: 312
Period size: 99 Copynumber: 3.1 Consensus size: 98
20299 CATTTCCCTC
* *
20309 CATAT-TTCCATGGTACAAGATTC-GCTGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAAGG
1 CATATCTT-CATGGTAC-AGATTCATC-GTTGCAACCTCAATCCTTCCCATCACATCTTCTAAGG
**
20372 TACTGGGTTTGCCCTTGCAGCCTCAACCTTTTCCTT
63 TACTGGGTTTGCTGTTGCAGCCTCAACCTTTTCCTT
** * *
20408 CATATCTTCATGGTACCAGATTTTTCGTTGCAACCTCAATCTTTCCAATCACATCTTCTAAGGTA
1 CATATCTTCATGGTA-CAGATTCATCGTTGCAACCTCAATCCTTCCCATCACATCTTCTAAGGTA
* * * * *
20473 CCGGGTTTGCTGTTACGGCCTCCACCTTTCCCTT
65 CTGGGTTTGCTGTTGCAGCCTCAACCTTTTCCTT
* * * * * * * *
20507 CATATTTTTAAGGTACCGAATTCATCGTTACAACCTTAATCCTT-CCATCACATCTTTTAGGGTA
1 CATATCTTCATGGTACAG-ATTCATCGTTGCAACCTCAATCCTTCCCATCACATCTTCTAAGGTA
20571 CCT-GGTTTGCTGTTGCAGCCTCAA-CTTTTCCCTT
65 -CTGGGTTTGCTGTTGCAGCCTCAACCTTTT-CCTT
*
20605 CACATCTT
1 CATATCTT
20613 TTAAGATACC
Statistics
Matches: 168, Mismatches: 31, Indels: 13
0.79 0.15 0.06
Matches are distributed among these distances:
97 4 0.02
98 47 0.28
99 113 0.67
100 4 0.02
ACGTcount: A:0.20, C:0.30, G:0.14, T:0.37
Consensus pattern (98 bp):
CATATCTTCATGGTACAGATTCATCGTTGCAACCTCAATCCTTCCCATCACATCTTCTAAGGTAC
TGGGTTTGCTGTTGCAGCCTCAACCTTTTCCTT
Found at i:20464 original size:49 final size:49
Alignment explanation
Indices: 20320--20849 Score: 209
Period size: 50 Copynumber: 10.7 Consensus size: 49
20310 ATATTTCCAT
* * * *
20320 GGTACAAGATTCGCTGTTGCAGCCTCAATCCTTCCCATCACATCTTCTAA
1 GGTACCAGATTTGCCGTTGCAGCCTCAAT-CTTTCCATCACATCTTCTAA
** * * * * * *
20370 GGTACTGGGTTTGCCCTTGCAGCCTCAACCTTTTCCTTCATATCTTC-AT
1 GGTACCAGATTTGCCGTTGCAGCCTCAATC-TTTCCATCACATCTTCTAA
** *
20419 GGTACCAGATTTTTCGTTGCAACCTCAATCTTTCCAATCACATCTTCTAA
1 GGTACCAGATTTGCCGTTGCAGCCTCAATCTTTCC-ATCACATCTTCTAA
* * * * * * * * * *
20469 GGTACCGGGTTTGCTGTTACGGCCTCCACCTTTCCCTTCATAT-TTTTAA
1 GGTACCAGATTTGCCGTTGCAGCCTCAATCTTT-CCATCACATCTTCTAA
* * * * * * *
20518 GGTACC-GAATT-CATCGTTACAACCTTAATCCTTCCATCACATCTTTTAG
1 GGTACCAGATTTGC--CGTTGCAGCCTCAATCTTTCCATCACATCTTCTAA
* * * * *
20567 GGTACCTGGTTTGCTGTTGCAGCCTCAA-CTTTTCCCTTCACATCTTTTAA
1 GGTACCAGATTTGCCGTTGCAGCCTCAATC-TTT-CCATCACATCTTCTAA
* * * * * * *
20617 GATACC-G-TGTTCGTCGTTGCGGCCTCAGTCTTTCGCTTCATATCTTC-AT
1 GGTACCAGAT-TT-GCCGTTGCAGCCTCAATCTTTC-CATCACATCTTCTAA
* ** ** *
20666 GGTACCGGATTCACCGTTGTGGCCTCAATCCTTCCCATCACATCTTCTAA
1 GGTACCAGATTTGCCGTTGCAGCCTCAAT-CTTTCCATCACATCTTCTAA
** * * * * * * * *
20716 GGTA-TTGAGTTCGCTGTTACAGCCTCCACCTTTCCCTTCATATCTTC-AT
1 GGTACCAGA-TTTGCCGTTGCAGCCTCAATCTTT-CCATCACATCTTCTAA
* * * * * *
20765 GGTACCAGATTCGCTGTTACCGTCTCAATCCTTCCCATCACATCTTCTAA
1 GGTACCAGATTTGCCGTTGCAGCCTCAAT-CTTTCCATCACATCTTCTAA
* * * *
20815 GGTACCAGGTTCGCTGTTGC-GACCTCAACCTTTCC
1 GGTACCAGATTTGCCGTTGCAG-CCTCAATCTTTCC
20850 CTTCATATCT
Statistics
Matches: 353, Mismatches: 102, Indels: 51
0.70 0.20 0.10
Matches are distributed among these distances:
47 1 0.00
48 17 0.05
49 155 0.44
50 175 0.50
51 5 0.01
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.35
Consensus pattern (49 bp):
GGTACCAGATTTGCCGTTGCAGCCTCAATCTTTCCATCACATCTTCTAA
Found at i:20586 original size:148 final size:149
Alignment explanation
Indices: 20434--20711 Score: 321
Period size: 148 Copynumber: 1.9 Consensus size: 149
20424 CAGATTTTTC
* *
20434 GTTGCAACCTCAA-TCTTTCCAATCACATCTTCTAAGGTACCGGGTTTG-CTGTTACGGCCTCCA
1 GTTGCAACCTCAACT-TTTCCAATCACATCTTCTAAGATACCGGGTTCGTC-GTTACGGCCT-CA
* * * *
20497 -CCTTTCCCTTCATATTTTTAAGGTACCGAATTCATCGTTACAACCTTAATCCTT-CCATCACAT
63 GCCTTTCCCTTCATATCTTCAAGGTACCGAATTCACCGTTACAACCTCAATCCTTCCCATCACAT
20560 CTTTTAGGGTACCTGGTTTGCT
128 CTTTTAGGGTACCTGGTTTGCT
* ** * * * *
20582 GTTGCAGCCTCAACTTTTCCCTTCACATCTTTTAAGATACCGTGTTCGTCGTTGCGGCCTCAGTC
1 GTTGCAACCTCAACTTTTCCAATCACATCTTCTAAGATACCGGGTTCGTCGTTACGGCCTCAGCC
* * * ****
20647 TTTCGCTTCATATCTTCATGGTACCGGATTCACCGTTGTGGCCTCAATCCTTCCCATCACATCTT
66 TTTCCCTTCATATCTTCAAGGTACCGAATTCACCGTTACAACCTCAATCCTTCCCATCACATCTT
20712 CTAAGGTATT
Statistics
Matches: 106, Mismatches: 20, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
147 2 0.02
148 90 0.85
149 14 0.13
ACGTcount: A:0.19, C:0.30, G:0.15, T:0.36
Consensus pattern (149 bp):
GTTGCAACCTCAACTTTTCCAATCACATCTTCTAAGATACCGGGTTCGTCGTTACGGCCTCAGCC
TTTCCCTTCATATCTTCAAGGTACCGAATTCACCGTTACAACCTCAATCCTTCCCATCACATCTT
TTAGGGTACCTGGTTTGCT
Found at i:20691 original size:99 final size:99
Alignment explanation
Indices: 20598--20963 Score: 448
Period size: 99 Copynumber: 3.7 Consensus size: 99
20588 GCCTCAACTT
* * * * ** *
20598 TTCCCTTCACATCTTTTAAGATACCGTGTTCG-TCGTTGCGGCCTCAGTCTTTCGCTTCATATCT
1 TTCCCATCACATCTTCTAAGGTACCGAGTTCGCT-GTTGCGGCCTCAACCTTTCCCTTCATATCT
20662 TCATGGTACCGGATTCACCGTTGTGGCCTCAATCC
65 TCATGGTACCGGATTCACCGTTGTGGCCTCAATCC
** * * *
20697 TTCCCATCACATCTTCTAAGGTATTGAGTTCGCTGTTACAGCCTCCACCTTTCCCTTCATATCTT
1 TTCCCATCACATCTTCTAAGGTACCGAGTTCGCTGTTGCGGCCTCAACCTTTCCCTTCATATCTT
* * * *** *
20762 CATGGTACCAGATTCGCTGTTACCGTCTCAATCC
66 CATGGTACCGGATTCACCGTTGTGGCCTCAATCC
*
20796 TTCCCATCACATCTTCTAAGGTACC-AGGTTCGCTGTTGCGACCTCAACCTTTCCCTTCATATCT
1 TTCCCATCACATCTTCTAAGGTACCGA-GTTCGCTGTTGCGGCCTCAACCTTTCCCTTCATATCT
* ** *
20860 TCATAGTATTGGATTCACCGTTGTGACCTCAATCC
65 TCATGGTACCGGATTCACCGTTGTGGCCTCAATCC
* * * *
20895 TTCCTATCACATCTTCTAATGTACCGAGTTCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTT
1 TTCCCATCACATCTTCTAAGGTACCGAGTTCGCTGTTGCGGCCTCAACCTTTCCCTTCATATCTT
20960 CATG
66 CATG
20964 TTCCCTCAAT
Statistics
Matches: 222, Mismatches: 42, Indels: 6
0.82 0.16 0.02
Matches are distributed among these distances:
98 1 0.00
99 219 0.99
100 2 0.01
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (99 bp):
TTCCCATCACATCTTCTAAGGTACCGAGTTCGCTGTTGCGGCCTCAACCTTTCCCTTCATATCTT
CATGGTACCGGATTCACCGTTGTGGCCTCAATCC
Found at i:20708 original size:247 final size:248
Alignment explanation
Indices: 20320--20861 Score: 619
Period size: 247 Copynumber: 2.2 Consensus size: 248
20310 ATATTTCCAT
* * * * * * *
20320 GGTACAAGATTCGCTGTTGCAGCCTCAA-TCCTTCCCATCACATCTTCTAAGGTACTGGGTTTGC
1 GGTACCAGGTTCGCTGTTGCAGCCTCAACT-TTTCCCTTCACATCTTCTAAGATACCGGGTTCGC
***
20384 CCTTGCAGCCTCAACCTTTTCCTTCATATCTTCATGGTACCAGATTTTTCGTTGCAACCTCAATC
65 CCTTGCAGCCTCAACCTTTTCCTTCATATCTTCATGGTACCAGATTCACCGTTGCAACCTCAATC
* * * * *
20449 TTTCCAATCACATCTTCTAAGGTACCGGGTTTGCTGTTACGGCCTCCACCTTTCCCTTCATATTT
130 CTTCCAATCACATCTTCTAAGGTACCGAGTTCGCTGTTACAGCCTCCACCTTTCCCTTCATATCT
* * * * *
20514 TTAAGGTACC-GAATTC-ATCGTTACAACCTTAATCCTT-CCATCACATCTTTTAG
195 TCAAGGTACCAG-ATTCGCT-GTTACAACCTCAATCCTTCCCATCACATCTTCTAA
* * * * *
20567 GGTACCTGGTTTGCTGTTGCAGCCTCAACTTTTCCCTTCACATCTTTTAAGATACCGTGTTCGTC
1 GGTACCAGGTTCGCTGTTGCAGCCTCAACTTTTCCCTTCACATCTTCTAAGATACCGGGTTCGCC
* * ** * ***
20632 GTTGCGGCCTCAGTC-TTTCGCTTCATATCTTCATGGTACCGGATTCACCGTTGTGGCCTCAATC
66 CTTGCAGCCTCAACCTTTTC-CTTCATATCTTCATGGTACCAGATTCACCGTTGCAACCTCAATC
* **
20696 CTTCCCATCACATCTTCTAAGGTATTGAGTTCGCTGTTACAGCCTCCACCTTTCCCTTCATATCT
130 CTTCCAATCACATCTTCTAAGGTACCGAGTTCGCTGTTACAGCCTCCACCTTTCCCTTCATATCT
* ***
20761 TCATGGTACCAGATTCGCTGTTACCGTCTCAATCCTTCCCATCACATCTTCTAA
195 TCAAGGTACCAGATTCGCTGTTACAACCTCAATCCTTCCCATCACATCTTCTAA
* *
20815 GGTACCAGGTTCGCTGTTGC-GACCTCAACCTTTCCCTTCATATCTTC
1 GGTACCAGGTTCGCTGTTGCAG-CCTCAACTTTTCCCTTCACATCTTC
20862 ATAGTATTGG
Statistics
Matches: 244, Mismatches: 45, Indels: 11
0.81 0.15 0.04
Matches are distributed among these distances:
246 4 0.02
247 183 0.75
248 57 0.23
ACGTcount: A:0.19, C:0.31, G:0.15, T:0.36
Consensus pattern (248 bp):
GGTACCAGGTTCGCTGTTGCAGCCTCAACTTTTCCCTTCACATCTTCTAAGATACCGGGTTCGCC
CTTGCAGCCTCAACCTTTTCCTTCATATCTTCATGGTACCAGATTCACCGTTGCAACCTCAATCC
TTCCAATCACATCTTCTAAGGTACCGAGTTCGCTGTTACAGCCTCCACCTTTCCCTTCATATCTT
CAAGGTACCAGATTCGCTGTTACAACCTCAATCCTTCCCATCACATCTTCTAA
Found at i:20892 original size:198 final size:198
Alignment explanation
Indices: 20598--20963 Score: 520
Period size: 198 Copynumber: 1.8 Consensus size: 198
20588 GCCTCAACTT
* * * ** *
20598 TTCCCTTCACATCTTTTAAGATACCGTGTTCGTCGTTGCGGCCTCAGTCTTTCGCTTCATATCTT
1 TTCCCATCACATCTTCTAAGATACCGTGTTCGTCGTTGCGACCTCAACCTTTCCCTTCATATCTT
* * **
20663 CATGGTACCGGATTCACCGTTGTGGCCTCAATCCTTCCCATCACATCTTCTAAGGTATTGAGTTC
66 CATAGTACCGGATTCACCGTTGTGACCTCAATCCTTCCCATCACATCTTCTAAGGTACCGAGTTC
* * *
20728 GCTGTTACAGCCTCCACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCTGTTACCGTCTCAA
131 ACCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCTGTTACCGTCTCAA
20793 TCC
196 TCC
*
20796 TTCCCATCACATCTTCTAAGGTACCAG-GTTCG-CTGTTGCGACCTCAACCTTTCCCTTCATATC
1 TTCCCATCACATCTTCTAAGATACC-GTGTTCGTC-GTTGCGACCTCAACCTTTCCCTTCATATC
** * *
20859 TTCATAGTATTGGATTCACCGTTGTGACCTCAATCCTTCCTATCACATCTTCTAATGTACCGAGT
64 TTCATAGTACCGGATTCACCGTTGTGACCTCAATCCTTCCCATCACATCTTCTAAGGTACCGAGT
* *
20924 TCACCGTTGCGGCCTCAACCTTTCCCTTCATATCTTCATG
129 TCACCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATG
20964 TTCCCTCAAT
Statistics
Matches: 146, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
197 1 0.01
198 144 0.99
199 1 0.01
ACGTcount: A:0.18, C:0.32, G:0.14, T:0.36
Consensus pattern (198 bp):
TTCCCATCACATCTTCTAAGATACCGTGTTCGTCGTTGCGACCTCAACCTTTCCCTTCATATCTT
CATAGTACCGGATTCACCGTTGTGACCTCAATCCTTCCCATCACATCTTCTAAGGTACCGAGTTC
ACCGTTACAGCCTCAACCTTTCCCTTCATATCTTCATGGTACCAGATTCGCTGTTACCGTCTCAA
TCC
Found at i:21907 original size:6 final size:6
Alignment explanation
Indices: 21898--21968 Score: 62
Period size: 6 Copynumber: 12.5 Consensus size: 6
21888 CCTCGACCTC
* * * *
21898 TCTTTT TCTTTT TCCTTCT T-TTTT TCATTT CCTTTT CCTTTT TC-TTT
1 TCTTTT TCTTTT T-CTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
21945 T-TTTT TC-TTT T-TTTT TCTTTT TCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCT
21969 CTTCCCTTTT
Statistics
Matches: 53, Mismatches: 6, Indels: 12
0.75 0.08 0.17
Matches are distributed among these distances:
5 20 0.38
6 28 0.53
7 5 0.09
ACGTcount: A:0.01, C:0.20, G:0.00, T:0.79
Consensus pattern (6 bp):
TCTTTT
Found at i:21933 original size:23 final size:24
Alignment explanation
Indices: 21902--21946 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
21892 GACCTCTCTT
*
21902 TTTCTTTTTCCTTCTT-TTTTTCA
1 TTTCCTTTTCCTTCTTCTTTTTCA
*
21925 TTTCCTTTTCCTTTTTCTTTTT
1 TTTCCTTTTCCTTCTTCTTTTT
21947 TTTTCTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.02, C:0.22, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTCCTTTTCCTTCTTCTTTTTCA
Found at i:21951 original size:10 final size:10
Alignment explanation
Indices: 21936--21966 Score: 62
Period size: 10 Copynumber: 3.1 Consensus size: 10
21926 TTCCTTTTCC
21936 TTTTTCTTTT
1 TTTTTCTTTT
21946 TTTTTCTTTT
1 TTTTTCTTTT
21956 TTTTTCTTTT
1 TTTTTCTTTT
21966 T
1 T
21967 CTCTTCCCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:21986 original size:36 final size:37
Alignment explanation
Indices: 21894--21994 Score: 96
Period size: 38 Copynumber: 2.6 Consensus size: 37
21884 TTCACCTCGA
* *
21894 CCTCTCTTTTTCTTTTTCCTTCTTTTTTTCATTTCCTTTT
1 CCTCT-TTTTTATTTTT-CTT-TTTTTTTCATTTCCTCTT
* * * *
21934 CCTTTTTCTTTTTTTTTCTTTTTTTTTCTTTTTCTCTT
1 CCTCTTT-TTTATTTTTCTTTTTTTTTCATTTCCTCTT
*
21972 CC-CTTTTTTATTTTTATTTTTTT
1 CCTCTTTTTTATTTTTCTTTTTTT
21995 GGGGTGAAAT
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
36 15 0.29
37 3 0.06
38 17 0.33
39 5 0.10
40 12 0.23
ACGTcount: A:0.03, C:0.21, G:0.00, T:0.76
Consensus pattern (37 bp):
CCTCTTTTTTATTTTTCTTTTTTTTTCATTTCCTCTT
Found at i:21986 original size:46 final size:46
Alignment explanation
Indices: 21900--21994 Score: 111
Period size: 46 Copynumber: 2.1 Consensus size: 46
21890 TCGACCTCTC
* * * *
21900 TTTTTCTTTTTCCTTCTTTTTTTCATTTCCTTTTCCTTTTTCTTTT
1 TTTTTCTTTTTCCTTCTTTTTCTCATTCCCTTTTCATTTTTATTTT
** *
21946 TTTTTCTTTTTTTTTCTTTTTCTC-TTCCCTTTTTTATTTTTATTTT
1 TTTTTCTTTTTCCTTCTTTTTCTCATTCCC-TTTTCATTTTTATTTT
21992 TTT
1 TTT
21995 GGGGTGAAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
45 4 0.10
46 37 0.90
ACGTcount: A:0.03, C:0.18, G:0.00, T:0.79
Consensus pattern (46 bp):
TTTTTCTTTTTCCTTCTTTTTCTCATTCCCTTTTCATTTTTATTTT
Found at i:22557 original size:81 final size:81
Alignment explanation
Indices: 22422--22580 Score: 264
Period size: 81 Copynumber: 2.0 Consensus size: 81
22412 ACCAAATATT
* * * *
22422 GATTGATGTTTAATAAGCATAGAGAGCAAATGATAACTTTTCATGCCAATCTTTGTAGGTCTCGA
1 GATTGATGTTCAATAAGCATAGAGAGCAAATGATAACTTCTCATGCCAATCTTTGTAAGTCTCAA
22487 TCTTCTTAATATTTTC
66 TCTTCTTAATATTTTC
*
22503 GATTGATGTTCAATAAGCATAGAGAGCAAATGATAACTTCTCATGTCAATCTTTGTAAGTCTCAA
1 GATTGATGTTCAATAAGCATAGAGAGCAAATGATAACTTCTCATGCCAATCTTTGTAAGTCTCAA
*
22568 TCTTCTTGATATT
66 TCTTCTTAATATT
22581 CTTGTTAACT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 72 1.00
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (81 bp):
GATTGATGTTCAATAAGCATAGAGAGCAAATGATAACTTCTCATGCCAATCTTTGTAAGTCTCAA
TCTTCTTAATATTTTC
Found at i:22844 original size:10 final size:10
Alignment explanation
Indices: 22820--22860 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 10
22810 TTCATCTTGA
*
22820 CTTTTTCCTT
1 CTTTTTCTTT
22830 C-TTTTCTTT
1 CTTTTTCTTT
22839 CTTTTT-TTT
1 CTTTTTCTTT
*
22848 CTTTTTTTTT
1 CTTTTTCTTT
22858 CTT
1 CTT
22861 GGGTTTCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
9 17 0.61
10 11 0.39
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (10 bp):
CTTTTTCTTT
Found at i:23412 original size:34 final size:34
Alignment explanation
Indices: 23374--23441 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
23364 GGATCCAAAG
23374 AATAATTGAATTAAAGAATGATTAATTGTGGTAT
1 AATAATTGAATTAAAGAATGATTAATTGTGGTAT
23408 AATAATTGAATTAAAGAATGATTAATTGTGGTAT
1 AATAATTGAATTAAAGAATGATTAATTGTGGTAT
23442 GAACGAATGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.00, G:0.18, T:0.38
Consensus pattern (34 bp):
AATAATTGAATTAAAGAATGATTAATTGTGGTAT
Found at i:27010 original size:30 final size:30
Alignment explanation
Indices: 26976--27131 Score: 140
Period size: 30 Copynumber: 5.2 Consensus size: 30
26966 TAATATCTAA
* *
26976 AAAGTTTAGGGGTTAAAATGTAATTTTTAG
1 AAAGTTTAAGGGTTAAAATTTAATTTTTAG
*
27006 AAAGTTTAAGGGTTAAAA-TCATATTTTTAG
1 AAAGTTTAAGGGTTAAAATTTA-ATTTTTAG
* * * *
27036 AAA-TTT-TGGGGTCAAATTTGAATTTTAAG
1 AAAGTTTAAGGGTTAAAATTT-AATTTTTAG
* * *
27065 AAATTTTAAGGGTCAAAATTTAATTTTTGG
1 AAAGTTTAAGGGTTAAAATTTAATTTTTAG
* *
27095 GAAGTTTAAGGG-TCAAATTTAAATTTTTAG
1 AAAGTTTAAGGGTTAAAATTT-AATTTTTAG
*
27125 GAAGTTT
1 AAAGTTT
27132 GGAAGTTAAA
Statistics
Matches: 101, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
28 7 0.07
29 21 0.21
30 64 0.63
31 9 0.09
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.41
Consensus pattern (30 bp):
AAAGTTTAAGGGTTAAAATTTAATTTTTAG
Found at i:27060 original size:59 final size:60
Alignment explanation
Indices: 26997--27131 Score: 157
Period size: 59 Copynumber: 2.3 Consensus size: 60
26987 GTTAAAATGT
* ** *
26997 AATTTTTAGAAAGTTTAAGGGTTAAAATCAT-ATTTTT-AGAAATTTTGGGGTCAAATTTG
1 AATTTTTAGAAAGTTTAAGGGTCAAAAT-ATAATTTTTGAGAAATTTAAGGGTCAAATTTA
* * * * *
27056 AATTTTAAGAAATTTTAAGGGTCAAAATTTAATTTTTGGGAAGTTTAAGGGTCAAATTTA
1 AATTTTTAGAAAGTTTAAGGGTCAAAATATAATTTTTGAGAAATTTAAGGGTCAAATTTA
*
27116 AATTTTTAGGAAGTTT
1 AATTTTTAGAAAGTTT
27132 GGAAGTTAAA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
58 1 0.02
59 31 0.50
60 30 0.48
ACGTcount: A:0.36, C:0.03, G:0.19, T:0.42
Consensus pattern (60 bp):
AATTTTTAGAAAGTTTAAGGGTCAAAATATAATTTTTGAGAAATTTAAGGGTCAAATTTA
Found at i:27121 original size:89 final size:88
Alignment explanation
Indices: 26925--27151 Score: 229
Period size: 89 Copynumber: 2.5 Consensus size: 88
26915 AAGGAGAAAC
* * * ** * * *
26925 GGGTCAAAATTAAAATTTTGGAAAGTTTGGTGTCAAAAATGTAATATCTAAAAAGTTTAGGGGTT
1 GGGTCAAAATTAAATTTTTAGAAAGTTTGGAGTCAAATTTG-AAT-TTTAAAAAGTTTAAGGGTC
26990 AAAATGTAATTTTTAGAAAGTTTAA
64 AAAATGTAATTTTTAGAAAGTTTAA
* * * * * *
27015 GGGTTAAAATCATATTTTTAGAAATTTTGGGGTCAAATTTGAATTTTAAGAAATTTTAAGGGTCA
1 GGGTCAAAATTAAATTTTTAGAAAGTTTGGAGTCAAATTTGAATTTTAA-AAAGTTTAAGGGTCA
* * *
27080 AAATTTAATTTTTGGGAAGTTTAA
65 AAATGTAATTTTTAGAAAGTTTAA
* * * *
27104 GGGTCAAATTTAAATTTTTAGGAAGTTTGGAAGTTAAATTCGAATTTT
1 GGGTCAAAATTAAATTTTTAGAAAGTTTGG-AGTCAAATTTGAATTTT
27152 TGGATAAAAA
Statistics
Matches: 110, Mismatches: 25, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
88 4 0.04
89 60 0.55
90 46 0.42
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (88 bp):
GGGTCAAAATTAAATTTTTAGAAAGTTTGGAGTCAAATTTGAATTTTAAAAAGTTTAAGGGTCAA
AATGTAATTTTTAGAAAGTTTAA
Found at i:27285 original size:24 final size:24
Alignment explanation
Indices: 27240--27284 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
27230 AGGACTAAAT
27240 TAAAATTGAAATGAAATTAAAAGG
1 TAAAATTGAAATGAAATTAAAAGG
27264 TAAAATTGAAAT-AAATTAAAA
1 TAAAATTGAAATGAAATTAAAA
27285 ATAGCACAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.11, T:0.27
Consensus pattern (24 bp):
TAAAATTGAAATGAAATTAAAAGG
Found at i:28105 original size:21 final size:21
Alignment explanation
Indices: 28062--28106 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
28052 TTTATTTTCT
* *
28062 TCTTTCTTCTTTGTCCTTTTC
1 TCTTTCTTCTTTCTCCTTGTC
* *
28083 TCTTTTTTCTTTCTTCTTGTC
1 TCTTTCTTCTTTCTCCTTGTC
28104 TCT
1 TCT
28107 GTGCTTCTCT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.00, C:0.27, G:0.04, T:0.69
Consensus pattern (21 bp):
TCTTTCTTCTTTCTCCTTGTC
Found at i:32678 original size:15 final size:15
Alignment explanation
Indices: 32637--32678 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
32627 CTTTATTTGG
32637 TTCATATGTTTCTTC
1 TTCATATGTTTCTTC
*
32652 TTCA-ACTTTTTCTTC
1 TTCATA-TGTTTCTTC
*
32667 TTGATATGTTTC
1 TTCATATGTTTC
32679 ACTTGCATTG
Statistics
Matches: 22, Mismatches: 3, Indels: 4
0.76 0.10 0.14
Matches are distributed among these distances:
14 1 0.05
15 20 0.91
16 1 0.05
ACGTcount: A:0.14, C:0.19, G:0.07, T:0.60
Consensus pattern (15 bp):
TTCATATGTTTCTTC
Found at i:37890 original size:37 final size:37
Alignment explanation
Indices: 37834--38052 Score: 235
Period size: 37 Copynumber: 5.9 Consensus size: 37
37824 AGTGATCGGG
*
37834 CTATGTGCCTAGCAAGCTTCGTGTCGGTGTAATCAGA
1 CTATGTGCCTAGCAGGCTTCGTGTCGGTGTAATCAGA
* *
37871 CAATGTGCCTAGCAGGCTTCGTGTTGGTGTAATCAGA
1 CTATGTGCCTAGCAGGCTTCGTGTCGGTGTAATCAGA
* * * **
37908 CGATGTGCCTAGTAGGCTTCTTGTCGACGTAATC-GA
1 CTATGTGCCTAGCAGGCTTCGTGTCGGTGTAATCAGA
* * * * * *
37944 GCTATGTTCCTAGTAGGCTTCATGCCGGTGTAATCGGG
1 -CTATGTGCCTAGCAGGCTTCGTGTCGGTGTAATCAGA
* *
37982 CTATGTGCCTAGCAGGCTTCGTGTCGGTGTAATCGGGT
1 CTATGTGCCTAGCAGGCTTCGTGTCGGTGTAATC-AGA
* *
38020 TTATGTGCCTAGCAAGCTTCGTG-CTGGTGTAAT
1 CTATGTGCCTAGCAGGCTTCGTGTC-GGTGTAAT
38053 TGGGCTTTAT
Statistics
Matches: 155, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
36 2 0.01
37 121 0.78
38 32 0.21
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.32
Consensus pattern (37 bp):
CTATGTGCCTAGCAGGCTTCGTGTCGGTGTAATCAGA
Found at i:38078 original size:38 final size:37
Alignment explanation
Indices: 37828--38111 Score: 171
Period size: 37 Copynumber: 7.6 Consensus size: 37
37818 CATTTAAGTG
* * *
37828 ATCGGGCTATGTGCCTAGCAAGCTTCGTG-TCGGTGTA
1 ATCGGGCTTTATGCCTAGCAGGCTTCGTGCT-GGTGTA
* * ** * *
37865 ATCAGACAATGTGCCTAGCAGGCTTCGTGTTGGTGTA
1 ATCGGGCTTTATGCCTAGCAGGCTTCGTGCTGGTGTA
* * ** * * * **
37902 ATCAGACGATGTGCCTAGTAGGCTTCTTG-TCGACGTA
1 ATCGGGCTTTATGCCTAGCAGGCTTCGTGCT-GGTGTA
* * * * * * *
37939 ATCGAGCTATGTTCCTAGTAGGCTTCATGCCGGTGTA
1 ATCGGGCTTTATGCCTAGCAGGCTTCGTGCTGGTGTA
* *
37976 ATCGGGCTATGTGCCTAGCAGGCTTCGTG-TCGGTGTA
1 ATCGGGCTTTATGCCTAGCAGGCTTCGTGCT-GGTGTA
*
38013 ATCGGG-TTTATGTGCCTAGCAAGCTTCGTGCTGGTGTA
1 ATCGGGCTTTA--TGCCTAGCAGGCTTCGTGCTGGTGTA
* * * * *
38051 ATTGGGCTTTATGCCTAGTAGGCCTTCGTGCCGATGTT
1 ATCGGGCTTTATGCCTAGCAGG-CTTCGTGCTGGTGTA
**
38089 ATCAAGCTTTATGCCTAGCAGGC
1 ATCGGGCTTTATGCCTAGCAGGC
38112 CATCATGCCG
Statistics
Matches: 202, Mismatches: 36, Indels: 18
0.79 0.14 0.07
Matches are distributed among these distances:
36 3 0.01
37 135 0.67
38 59 0.29
39 5 0.02
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.31
Consensus pattern (37 bp):
ATCGGGCTTTATGCCTAGCAGGCTTCGTGCTGGTGTA
Found at i:40631 original size:80 final size:80
Alignment explanation
Indices: 40498--40655 Score: 235
Period size: 80 Copynumber: 2.0 Consensus size: 80
40488 GCGCAAACCA
* * * * * * * *
40498 TTGGTTAATCCAGCTAGAGCTTGGCTCATTTATTGTGGTTTATCCGCTAGGCACTGGGTGTCATG
1 TTGGTTAATCCAACTAGAGCTGGGCTCACTTATCGCGGTTGATCCACTAGGCACTGGGTGCCATG
*
40563 ATTTGACGGATTTCG
66 AATTGACGGATTTCG
40578 TTGGTTAATCCAACTAGAGCTGGGCTCACTTATCGCGGTTGATCCACTAGGCACTGGGTGCCATG
1 TTGGTTAATCCAACTAGAGCTGGGCTCACTTATCGCGGTTGATCCACTAGGCACTGGGTGCCATG
40643 AATTGACGGATTT
66 AATTGACGGATTT
40656 GGATACATGT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.34
Consensus pattern (80 bp):
TTGGTTAATCCAACTAGAGCTGGGCTCACTTATCGCGGTTGATCCACTAGGCACTGGGTGCCATG
AATTGACGGATTTCG
Found at i:41294 original size:30 final size:30
Alignment explanation
Indices: 41260--41322 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
41250 AATTGAGAAC
41260 AAAATCCAAGTATTTATTGCATAAAATCAA
1 AAAATCCAAGTATTTATTGCATAAAATCAA
41290 AAAATCCAAGTATTTATTGCATAAAATCAA
1 AAAATCCAAGTATTTATTGCATAAAATCAA
41320 AAA
1 AAA
41323 TCAAATGACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.52, C:0.13, G:0.06, T:0.29
Consensus pattern (30 bp):
AAAATCCAAGTATTTATTGCATAAAATCAA
Found at i:56163 original size:45 final size:45
Alignment explanation
Indices: 56095--56181 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
56085 CAAATCTTCT
* * *
56095 ATTTCATTCTCATTCAAAGCCTTTATCAGTTCTAGATTATCCTCC
1 ATTTCATTCTCATTCAAAACCTTTACCACTTCTAGATTATCCTCC
56140 ATTTCATTCTCATTCAAAACCTTTACCACTTCTAGATTATCC
1 ATTTCATTCTCATTCAAAACCTTTACCACTTCTAGATTATCC
56182 GTTAGGATTG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.26, C:0.28, G:0.05, T:0.41
Consensus pattern (45 bp):
ATTTCATTCTCATTCAAAACCTTTACCACTTCTAGATTATCCTCC
Found at i:56825 original size:24 final size:24
Alignment explanation
Indices: 56793--56838 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
56783 ATTATAAAAA
*
56793 TATAATTTTATCATTTTAAAAACT
1 TATAATTTTATAATTTTAAAAACT
* *
56817 TATATTTTTATAATTTTTAAAA
1 TATAATTTTATAATTTTAAAAA
56839 GATTAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (24 bp):
TATAATTTTATAATTTTAAAAACT
Found at i:60934 original size:28 final size:25
Alignment explanation
Indices: 60903--60968 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 25
60893 TTCCTTTTTA
60903 TGTTTTTTTCTTTCATCTTTCTTCTTGC
1 TGTTTTTTTCTTTCATC-TTCTTC-T-C
* *
60931 TGTTTTCTTC-TTCTTCTTCTTCTC
1 TGTTTTTTTCTTTCATCTTCTTCTC
60955 TGTTTTTTTTCTTT
1 TG-TTTTTTTCTTT
60969 TATTTCCTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 3 0.09
25 8 0.24
26 8 0.24
27 5 0.15
28 9 0.27
ACGTcount: A:0.02, C:0.21, G:0.06, T:0.71
Consensus pattern (25 bp):
TGTTTTTTTCTTTCATCTTCTTCTC
Found at i:62218 original size:22 final size:22
Alignment explanation
Indices: 62193--62269 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 22
62183 AGGGGTAGGA
62193 CTCTGCATCT-ATATATGATATG
1 CTCTGCATCTGA-ATATGATATG
* *
62215 CTCTGCATCTGAATCTGATAAG
1 CTCTGCATCTGAATATGATATG
** * *
62237 CTCTATATCTGAATTTGAAATG
1 CTCTGCATCTGAATATGATATG
62259 CTCTGCATCTG
1 CTCTGCATCTG
62270 TATCTATTAT
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 44 0.98
23 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (22 bp):
CTCTGCATCTGAATATGATATG
Found at i:80324 original size:19 final size:18
Alignment explanation
Indices: 80289--80331 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
80279 ATAGCTTGCA
80289 TGCA-TTTTTATTATCAT
1 TGCATTTTTTATTATCAT
*
80306 TGCATTTTTATATTTTCAT
1 TGCATTTTT-TATTATCAT
*
80325 TACATTT
1 TGCATTT
80332 CTTTTGTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 4 0.18
19 14 0.64
ACGTcount: A:0.23, C:0.12, G:0.05, T:0.60
Consensus pattern (18 bp):
TGCATTTTTTATTATCAT
Found at i:80949 original size:13 final size:14
Alignment explanation
Indices: 80924--80963 Score: 57
Period size: 12 Copynumber: 2.9 Consensus size: 14
80914 GAAAATGATA
80924 AAAAGAAAGAAAAAG
1 AAAAG-AAGAAAAAG
80939 AAAAG-AG-AAAAG
1 AAAAGAAGAAAAAG
80951 AAAAGAAGAAAAA
1 AAAAGAAGAAAAA
80964 AGTGTTTGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.43
13 4 0.17
14 4 0.17
15 5 0.22
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAAAGAAGAAAAAG
Found at i:85025 original size:30 final size:30
Alignment explanation
Indices: 84991--85050 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
84981 ATTCAAAAGA
* *
84991 TACAATCAACCTATTGTACATGTTTCTAAC
1 TACAATCAACCTACTGTACATGCTTCTAAC
85021 TACAATCAACCTACTGTACATGCTTCTAAC
1 TACAATCAACCTACTGTACATGCTTCTAAC
85051 CAATCACTTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.27, G:0.07, T:0.33
Consensus pattern (30 bp):
TACAATCAACCTACTGTACATGCTTCTAAC
Found at i:88970 original size:24 final size:25
Alignment explanation
Indices: 88913--88971 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
88903 GCACAGCTAA
*
88913 AAGAGTTAATTTGTCAAAGCAAATAT
1 AAGA-TTAAATTGTCAAAGCAAATAT
* *
88939 AA-AATAAATTGTCAGAGCAAAT-T
1 AAGATTAAATTGTCAAAGCAAATAT
88962 AAGATTAAAT
1 AAGATTAAAT
88972 GAATAATTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 3 0.11
24 22 0.79
25 1 0.04
26 2 0.07
ACGTcount: A:0.51, C:0.07, G:0.14, T:0.29
Consensus pattern (25 bp):
AAGATTAAATTGTCAAAGCAAATAT
Found at i:101631 original size:20 final size:20
Alignment explanation
Indices: 101585--101633 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
101575 TAAATAAAAT
*
101585 AAAAATAAGTACTTTAAAGA
1 AAAAATAAGTACTTTAAACA
101605 AATAAATAAGTAC-TTAAACA
1 AA-AAATAAGTACTTTAAACA
101625 AGAAAATAA
1 A-AAAATAA
101634 AGAAATCATA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 15 0.58
21 11 0.42
ACGTcount: A:0.63, C:0.06, G:0.08, T:0.22
Consensus pattern (20 bp):
AAAAATAAGTACTTTAAACA
Found at i:103660 original size:39 final size:39
Alignment explanation
Indices: 103611--103690 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
103601 GGACCATAAA
*
103611 TTTCTACAACTTGGGTAGTAGTGTTGCACTTCTAAATGC
1 TTTCGACAACTTGGGTAGTAGTGTTGCACTTCTAAATGC
103650 TTTCGACAACTTGGGTAGTAGTGTTGCACTTCTAAATGC
1 TTTCGACAACTTGGGTAGTAGTGTTGCACTTCTAAATGC
103689 TT
1 TT
103691 GAGTTTGTAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (39 bp):
TTTCGACAACTTGGGTAGTAGTGTTGCACTTCTAAATGC
Found at i:106863 original size:14 final size:15
Alignment explanation
Indices: 106844--106882 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
106834 TTGTTTCACT
*
106844 AAAAATGACTTT-TG
1 AAAAATGACTTTCTA
106858 AAAAATGA-TTTCTA
1 AAAAATGACTTTCTA
106872 AAAAATGACTT
1 AAAAATGACTT
106883 ACTTTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 3 0.14
14 17 0.77
15 2 0.09
ACGTcount: A:0.49, C:0.08, G:0.10, T:0.33
Consensus pattern (15 bp):
AAAAATGACTTTCTA
Found at i:108333 original size:29 final size:30
Alignment explanation
Indices: 108300--108498 Score: 134
Period size: 30 Copynumber: 6.7 Consensus size: 30
108290 TCAGAGAATA
*
108300 AGGGGTTAAAATGTAATTTTGGAAAAGTTT
1 AGGGGTCAAAATGTAATTTTGGAAAAGTTT
* * * *
108330 -GGGGTCAAAATATGATTTTAGAGAAGTTT
1 AGGGGTCAAAATGTAATTTTGGAAAAGTTT
* * * *
108359 -GGTGTCAAAATTTGATTTT-GAGAAGGTTTT
1 AGGGGTCAAAATGTAATTTTGGA-AAAG-TTT
* * * *
108389 AGGGGTTAATATGTGATTTTGGAGAAGTTT
1 AGGGGTCAAAATGTAATTTTGGAAAAGTTT
* ** *
108419 AAGGGTCAAAATACAATTTTTGAAAAGTTT
1 AGGGGTCAAAATGTAATTTTGGAAAAGTTT
** **
108449 ATAGGTCAAAATGTAATTTTGGCGAAGTTT
1 AGGGGTCAAAATGTAATTTTGGAAAAGTTT
* * * *
108479 AAGTGTTAAAATGCAATTTT
1 AGGGGTCAAAATGTAATTTT
108499 AAAGAAATTT
Statistics
Matches: 130, Mismatches: 35, Indels: 8
0.75 0.20 0.05
Matches are distributed among these distances:
28 2 0.02
29 43 0.33
30 66 0.51
31 17 0.13
32 2 0.02
ACGTcount: A:0.34, C:0.04, G:0.25, T:0.38
Consensus pattern (30 bp):
AGGGGTCAAAATGTAATTTTGGAAAAGTTT
Found at i:108516 original size:60 final size:60
Alignment explanation
Indices: 108386--108528 Score: 144
Period size: 60 Copynumber: 2.4 Consensus size: 60
108376 TTGAGAAGGT
* * * * *
108386 TTTAGGGGTTAATATGTGATTTTGGAGAAGTTTAAGGGTCAAAATACAATTTTTGAAAAG
1 TTTAGGGGTCAAAATGTAATTTTGGAGAAGTTTAAGGGTCAAAATACAATTTTTAAAAAA
** * * * *
108446 TTTATAGGTCAAAATGTAATTTTGGCGAAGTTTAAGTGTTAAAATGCAA-TTTTAAAGAAA
1 TTTAGGGGTCAAAATGTAATTTTGGAGAAGTTTAAGGGTCAAAATACAATTTTTAAA-AAA
* **
108506 TTTGGGGGTCAAAACATAATTTT
1 TTTAGGGGTCAAAATGTAATTTT
108529 TAAATAAAAC
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
59 6 0.09
60 60 0.91
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.37
Consensus pattern (60 bp):
TTTAGGGGTCAAAATGTAATTTTGGAGAAGTTTAAGGGTCAAAATACAATTTTTAAAAAA
Found at i:109638 original size:2 final size:2
Alignment explanation
Indices: 109631--109662 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
109621 TAATAAGTAA
109631 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
109663 TTAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:118981 original size:27 final size:27
Alignment explanation
Indices: 118944--119023 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 27
118934 CTATCTCGTT
* * *
118944 TTTAACATCCCATTAGATTATTCTATG
1 TTTAACGTCCCATTAGACTATCCTATG
* * *
118971 TTTAATGTCCCATTGGACTATCCTGTG
1 TTTAACGTCCCATTAGACTATCCTATG
* *
118998 TTTAACGTCCCATCAAACTAT-CTATG
1 TTTAACGTCCCATTAGACTATCCTATG
119024 ATGTCATATT
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 4 0.10
27 38 0.90
ACGTcount: A:0.26, C:0.23, G:0.11, T:0.40
Consensus pattern (27 bp):
TTTAACGTCCCATTAGACTATCCTATG
Found at i:124034 original size:18 final size:18
Alignment explanation
Indices: 124011--124046 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
124001 AACAAATATG
124011 GCTAGATTTTCTTCAACC
1 GCTAGATTTTCTTCAACC
124029 GCTAGATTTTCTTCAACC
1 GCTAGATTTTCTTCAACC
124047 AACTAAGGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.11, T:0.39
Consensus pattern (18 bp):
GCTAGATTTTCTTCAACC
Found at i:131079 original size:37 final size:37
Alignment explanation
Indices: 131028--131098 Score: 117
Period size: 37 Copynumber: 1.9 Consensus size: 37
131018 TTTCGTAATT
131028 TCTCTTATCAAGTTAGTA-CTCGATTGACTCGTGACAC
1 TCTCTTATCAAGTTAGTATC-CGATTGACTCGTGACAC
*
131065 TCTCTTATCGAGTTAGTATCCGATTGACTCGTGA
1 TCTCTTATCAAGTTAGTATCCGATTGACTCGTGA
131099 TACCAATTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
37 31 0.97
38 1 0.03
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.37
Consensus pattern (37 bp):
TCTCTTATCAAGTTAGTATCCGATTGACTCGTGACAC
Found at i:132110 original size:16 final size:17
Alignment explanation
Indices: 132080--132121 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
132070 CTGTAAAATG
132080 ATAAAA-TTT-TAATTT
1 ATAAAATTTTATAATTT
*
132095 A-AACATTTTATAATTT
1 ATAAAATTTTATAATTT
132111 ATAAAATTTTA
1 ATAAAATTTTA
132122 CATTAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 3 0.14
15 4 0.18
16 7 0.32
17 8 0.36
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (17 bp):
ATAAAATTTTATAATTT
Found at i:132241 original size:29 final size:28
Alignment explanation
Indices: 132157--132242 Score: 83
Period size: 24 Copynumber: 3.1 Consensus size: 28
132147 TGACTATTCA
* *
132157 AAAATAATAAAATTTAAATTTAAATTTTA-
1 AAAATAATAAAATTT--ATTTATATTATAT
*
132186 AAAATAATAAAA---ATATATATTAT-T
1 AAAATAATAAAATTTATTTATATTATAT
132210 AAAATAATAAAATTTATTTATATTATCAT
1 AAAATAATAAAATTTATTTATATTAT-AT
132239 AAAA
1 AAAA
132243 ATATATAATT
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
24 20 0.43
27 10 0.21
29 17 0.36
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (28 bp):
AAAATAATAAAATTTATTTATATTATAT
Found at i:138626 original size:32 final size:34
Alignment explanation
Indices: 138585--138696 Score: 104
Period size: 35 Copynumber: 3.3 Consensus size: 34
138575 AAAAACGCAT
* * *
138585 AAAAATAACATTCAAACAAC-C-AAAATAGCAGC
1 AAAAATAACAGTAAAACAACACAAAAATAGCAAC
138617 AAAAATAACAGTAAAACAACAACAAAAATAGCAAC
1 AAAAATAACAGTAAAACAAC-ACAAAAATAGCAAC
* * **
138652 AAAAACAGAAACAAAAACAACAGCAAAAATAGC-AC
1 AAAAATA-ACAGTAAAACAACA-CAAAAATAGCAAC
*
138687 CAAAATAACA
1 AAAAATAACA
138697 ACCAAAACAG
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
32 18 0.28
34 3 0.05
35 24 0.37
36 20 0.31
ACGTcount: A:0.66, C:0.20, G:0.06, T:0.08
Consensus pattern (34 bp):
AAAAATAACAGTAAAACAACACAAAAATAGCAAC
Found at i:138700 original size:12 final size:12
Alignment explanation
Indices: 138599--138703 Score: 63
Period size: 12 Copynumber: 8.8 Consensus size: 12
138589 ATAACATTCA
*
138599 AACAACCAAAAT
1 AACAACAAAAAT
* *
138611 AGCAGCAAAAAT
1 AACAACAAAAAT
** *
138623 AAC-AGTAAAAC
1 AACAACAAAAAT
138634 AACAACAAAAAT
1 AACAACAAAAAT
* *
138646 AGCAACAAAAAC
1 AACAACAAAAAT
*
138658 AGA-AACAAAAAC
1 A-ACAACAAAAAT
*
138670 AACAGCAAAAAT
1 AACAACAAAAAT
* *
138682 AGC-ACCAAAAT
1 AACAACAAAAAT
138693 AACAACCAAAA
1 AACAA-CAAAA
138704 CAGTAAAAAA
Statistics
Matches: 67, Mismatches: 21, Indels: 9
0.69 0.22 0.09
Matches are distributed among these distances:
11 16 0.24
12 47 0.70
13 4 0.06
ACGTcount: A:0.67, C:0.21, G:0.07, T:0.06
Consensus pattern (12 bp):
AACAACAAAAAT
Found at i:138732 original size:18 final size:17
Alignment explanation
Indices: 138699--138731 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
138689 AAATAACAAC
138699 CAAAACAGTAAAAAAAT
1 CAAAACAGTAAAAAAAT
*
138716 CAAAATAGTAAAAAAA
1 CAAAACAGTAAAAAAA
138732 ACAACACCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.73, C:0.09, G:0.06, T:0.12
Consensus pattern (17 bp):
CAAAACAGTAAAAAAAT
Found at i:138743 original size:12 final size:11
Alignment explanation
Indices: 138729--138768 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
138719 AATAGTAAAA
138729 AAAACAACACC
1 AAAACAACACC
*
138740 AAAACAGCA--
1 AAAACAACACC
138749 AAAACAACACC
1 AAAACAACACC
138760 AAAACAACA
1 AAAACAACA
138769 ATATTATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 8 0.32
11 17 0.68
ACGTcount: A:0.68, C:0.30, G:0.03, T:0.00
Consensus pattern (11 bp):
AAAACAACACC
Found at i:138751 original size:20 final size:20
Alignment explanation
Indices: 138728--138765 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
138718 AAATAGTAAA
138728 AAAAACAACACCAAAACAGC
1 AAAAACAACACCAAAACAGC
138748 AAAAACAACACCAAAACA
1 AAAAACAACACCAAAACA
138766 ACAATATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.68, C:0.29, G:0.03, T:0.00
Consensus pattern (20 bp):
AAAAACAACACCAAAACAGC
Found at i:147772 original size:30 final size:30
Alignment explanation
Indices: 147738--147809 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
147728 ATTAATAATG
* *
147738 ATAAAATTATATTTTAACCTCCTAAAATTA
1 ATAAAATTATAATTTAAACTCCTAAAATTA
**
147768 ATAAAAATT-TAATTTAAACTTTTAAAATTA
1 AT-AAAATTATAATTTAAACTCCTAAAATTA
*
147798 ATAAAAATATAA
1 ATAAAATTATAA
147810 ACTATTAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 5 0.14
30 24 0.69
31 6 0.17
ACGTcount: A:0.54, C:0.07, G:0.00, T:0.39
Consensus pattern (30 bp):
ATAAAATTATAATTTAAACTCCTAAAATTA
Found at i:147832 original size:24 final size:25
Alignment explanation
Indices: 147778--147832 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 25
147768 ATAAAAATTT
*
147778 AATT-TAAACTTTTAAAATTAATAA
1 AATTATAAACTATTAAAATTAATAA
*
147802 AAATATAAACTATTAAAA-TAATAA
1 AATTATAAACTATTAAAATTAATAA
147826 AATTATA
1 AATTATA
147833 TTTATATTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 15 0.56
25 12 0.44
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (25 bp):
AATTATAAACTATTAAAATTAATAA
Found at i:148727 original size:30 final size:31
Alignment explanation
Indices: 148693--148757 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
148683 AAAAATACTT
* *
148693 AATAATCCAGTGGCTTAAAT-AAAACTTTCG
1 AATAATCCAGTGACTTAAATGAAAACTTTCA
* *
148723 AATAATCGAGTTACTTAAATGAAAACTTTCA
1 AATAATCCAGTGACTTAAATGAAAACTTTCA
148754 AATA
1 AATA
148758 GTTCAATGAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 17 0.57
31 13 0.43
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.31
Consensus pattern (31 bp):
AATAATCCAGTGACTTAAATGAAAACTTTCA
Found at i:149045 original size:19 final size:19
Alignment explanation
Indices: 149023--149067 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
149013 TTATATTAGG
149023 ATTTAATATTTAAGATGT-T
1 ATTTAATATTTAA-ATGTGT
* *
149042 ATTTATTATTTAAATTTGT
1 ATTTAATATTTAAATGTGT
149061 ATTTAAT
1 ATTTAAT
149068 TTATATTTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.58
Consensus pattern (19 bp):
ATTTAATATTTAAATGTGT
Found at i:149911 original size:21 final size:22
Alignment explanation
Indices: 149877--149919 Score: 79
Period size: 21 Copynumber: 2.0 Consensus size: 22
149867 TATTTCTTTC
149877 AATTCTGTTTTCTTTTATTTTT
1 AATTCTGTTTTCTTTTATTTTT
149899 AATTCTG-TTTCTTTTATTTTT
1 AATTCTGTTTTCTTTTATTTTT
149920 CCTCAGATCG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.14, C:0.09, G:0.05, T:0.72
Consensus pattern (22 bp):
AATTCTGTTTTCTTTTATTTTT
Found at i:149919 original size:22 final size:24
Alignment explanation
Indices: 149867--149919 Score: 76
Period size: 22 Copynumber: 2.3 Consensus size: 24
149857 CTCTATTTTC
149867 TATTTCTTTCAATTCTGTTTTCTTT
1 TATTT-TTTCAATTCTGTTTTCTTT
149892 TA-TTTTT-AATTCTG-TTTCTTT
1 TATTTTTTCAATTCTGTTTTCTTT
149913 TATTTTT
1 TATTTTT
149920 CCTCAGATCG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 9 0.33
22 11 0.41
23 3 0.11
24 2 0.07
25 2 0.07
ACGTcount: A:0.13, C:0.11, G:0.04, T:0.72
Consensus pattern (24 bp):
TATTTTTTCAATTCTGTTTTCTTT
Found at i:152574 original size:6 final size:6
Alignment explanation
Indices: 152563--152588 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
152553 GGCAACCCAA
152563 TTATTT TTATTT TTATTT TTATTT TT
1 TTATTT TTATTT TTATTT TTATTT TT
152589 TTACTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTATTT
Found at i:152591 original size:8 final size:8
Alignment explanation
Indices: 152563--152630 Score: 55
Period size: 8 Copynumber: 8.0 Consensus size: 8
152553 GGCAACCCAA
152563 TTATTTTT
1 TTATTTTT
*
152571 ATTTTTATTT
1 -TTATT-TTT
152581 TTATTTTT
1 TTATTTTT
*
152589 TTACTTTT
1 TTATTTTT
*
152597 CTATCTTATT
1 TTAT-TT-TT
*
152607 TTATTTAT
1 TTATTTTT
*
152615 TTATTTAT
1 TTATTTTT
152623 TTATTTTT
1 TTATTTTT
152631 GTCCAGGAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
8 28 0.58
9 12 0.25
10 8 0.17
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (8 bp):
TTATTTTT
Found at i:152626 original size:21 final size:20
Alignment explanation
Indices: 152566--152630 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
152556 AACCCAATTA
* * *
152566 TTTTTATTTTTATTTTTATT
1 TTTTTACTTTTCTATTTATT
152586 TTTTTACTTTTCTATCTTATT
1 TTTTTACTTTTCTAT-TTATT
*
152607 TTATTTA-TTTATTTATTTATT
1 TT-TTTACTTT-TCTATTTATT
152628 TTT
1 TTT
152631 GTCCAGGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
20 13 0.34
21 17 0.45
22 8 0.21
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTACTTTTCTATTTATT
Found at i:157145 original size:20 final size:20
Alignment explanation
Indices: 157120--157163 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
157110 TTGGGTTAGA
157120 ATATAA-TAATTATT-TAATAT
1 ATATAATTAATT-TTATAA-AT
157140 ATATAATTAATTTTATAAAT
1 ATATAATTAATTTTATAAAT
157160 ATAT
1 ATAT
157164 TCGGGTTGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATATAATTAATTTTATAAAT
Found at i:157152 original size:18 final size:17
Alignment explanation
Indices: 157119--157162 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
157109 ATTGGGTTAG
157119 AATATA-ATAATTATTT
1 AATATATATAATTATTT
157135 AATATATATAATTAATTT
1 AATATATATAATT-ATTT
* *
157153 TATAAATATA
1 AATATATATA
157163 TTCGGGTTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 6 0.25
17 6 0.25
18 12 0.50
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
AATATATATAATTATTT
Found at i:163279 original size:13 final size:13
Alignment explanation
Indices: 163261--163285 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
163251 ATGTTCATTA
163261 CTCATATACCAAT
1 CTCATATACCAAT
163274 CTCATATACCAA
1 CTCATATACCAA
163286 AAGCATACAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (13 bp):
CTCATATACCAAT
Found at i:165168 original size:23 final size:25
Alignment explanation
Indices: 165124--165173 Score: 77
Period size: 24 Copynumber: 2.1 Consensus size: 25
165114 TTATGATTTT
*
165124 ATGTTAAATCAAATTA-TTTTTTAA
1 ATGTTAAATCAAAATATTTTTTTAA
165148 ATGTTAAAT-AAAATATTTTTTTAA
1 ATGTTAAATCAAAATATTTTTTTAA
165172 AT
1 AT
165174 AAATCAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (25 bp):
ATGTTAAATCAAAATATTTTTTTAA
Found at i:173279 original size:24 final size:24
Alignment explanation
Indices: 173234--173279 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
173224 AAGATAGAGA
*
173234 TAAAAAAATTAAACCTCGAAAACC
1 TAAAAAAAATAAACCTCGAAAACC
*
173258 TAAAAACAAATAACCCTC-AAAA
1 TAAAAA-AAATAAACCTCGAAAA
173280 TGTAAACATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 10 0.53
25 9 0.47
ACGTcount: A:0.61, C:0.22, G:0.02, T:0.15
Consensus pattern (24 bp):
TAAAAAAAATAAACCTCGAAAACC
Found at i:173458 original size:25 final size:24
Alignment explanation
Indices: 173374--173455 Score: 119
Period size: 24 Copynumber: 3.4 Consensus size: 24
173364 ATCTAGATTA
173374 AGAGTTTAACTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
173398 AAATTTTAACTGAAACAAATAAAC
1 AGAGTTTAACTGAAACAAATAAAC
* *
173422 AGAGTTTAATTGAAAAAAAATAAAC
1 AGAGTTTAACTG-AAACAAATAAAC
173447 AGAGTTTAA
1 AGAGTTTAA
173456 TTGGAAGACT
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 31 0.61
25 20 0.39
ACGTcount: A:0.56, C:0.09, G:0.11, T:0.24
Consensus pattern (24 bp):
AGAGTTTAACTGAAACAAATAAAC
Found at i:179559 original size:38 final size:37
Alignment explanation
Indices: 179510--179581 Score: 108
Period size: 38 Copynumber: 1.9 Consensus size: 37
179500 CCACAATTAA
**
179510 GCTATGGTAGGCCCATCCATCCCTGCACACCACAAAGG
1 GCTATGGTAGGCCCATCCA-CCCAACACACCACAAAGG
*
179548 GCTATGGTAGGCCCGTCCACCCAACACACCACAA
1 GCTATGGTAGGCCCATCCACCCAACACACCACAA
179582 TAGTGGATCT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
37 13 0.42
38 18 0.58
ACGTcount: A:0.28, C:0.39, G:0.19, T:0.14
Consensus pattern (37 bp):
GCTATGGTAGGCCCATCCACCCAACACACCACAAAGG
Found at i:184214 original size:24 final size:24
Alignment explanation
Indices: 184187--184243 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 24
184177 AAGCATAATT
*
184187 CTAATCAATGCAAAATATATTATG
1 CTAATAAATGCAAAATATATTATG
* * *
184211 CTAATAAATGCTAAATATTTTATA
1 CTAATAAATGCAAAATATATTATG
*
184235 CTACTAAAT
1 CTAATAAAT
184244 CTTCTAGAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (24 bp):
CTAATAAATGCAAAATATATTATG
Found at i:190210 original size:22 final size:21
Alignment explanation
Indices: 190155--190213 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
190145 AACATAATAG
*
190155 TAATAAATAATAGTAAATGAT
1 TAATAAATAGTAGTAAATGAT
*
190176 TCATAAATAGTAGTAAATGAT
1 TAATAAATAGTAGTAAATGAT
190197 TAATAACATAGTAGTAA
1 TAATAA-ATAGTAGTAA
190214 CTAATAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 24 0.71
22 10 0.29
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (21 bp):
TAATAAATAGTAGTAAATGAT
Found at i:201410 original size:28 final size:28
Alignment explanation
Indices: 201378--201431 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
201368 CATGCTTCAT
* **
201378 CAACTATTGCTTTGGGCTTCTCGTCAAC
1 CAACTATTACTTCAGGCTTCTCGTCAAC
*
201406 CAACTGTTACTTCAGGCTTCTCGTCA
1 CAACTATTACTTCAGGCTTCTCGTCA
201432 CATTCTAGTG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.19, C:0.30, G:0.17, T:0.35
Consensus pattern (28 bp):
CAACTATTACTTCAGGCTTCTCGTCAAC
Found at i:203529 original size:19 final size:18
Alignment explanation
Indices: 203507--203542 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
203497 AAATAAAACT
203507 AAATTAATAATTAATAATA
1 AAATTAATAATT-ATAATA
*
203526 AAATTTATAATTATAAT
1 AAATTAATAATTATAAT
203543 TGTAAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
AAATTAATAATTATAATA
Found at i:203762 original size:18 final size:18
Alignment explanation
Indices: 203739--203773 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
203729 TACAAAAAAG
203739 TATCGATACCATCTTTGA
1 TATCGATACCATCTTTGA
*
203757 TATCGATACCATTTTTG
1 TATCGATACCATCTTTG
203774 CTTTCTAACT
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:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (18 bp):
TATCGATACCATCTTTGA
Found at i:203832 original size:20 final size:21
Alignment explanation
Indices: 203802--203842 Score: 75
Period size: 20 Copynumber: 2.0 Consensus size: 21
203792 CAAATAATTA
203802 CAAAAAGTATCGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
203823 CAAAAA-TATCGATACCTTTT
1 CAAAAAGTATCGATACCTTTT
203843 ATCAGGTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.39, C:0.20, G:0.07, T:0.34
Consensus pattern (21 bp):
CAAAAAGTATCGATACCTTTT
Found at i:212648 original size:15 final size:15
Alignment explanation
Indices: 212625--212655 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
212615 CTACACTTTT
212625 ATAGCACATTTGTCA
1 ATAGCACATTTGTCA
*
212640 ATAGGACATTTGTCA
1 ATAGCACATTTGTCA
212655 A
1 A
212656 CCTTTTAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.32
Consensus pattern (15 bp):
ATAGCACATTTGTCA
Found at i:214484 original size:82 final size:81
Alignment explanation
Indices: 214377--214527 Score: 196
Period size: 82 Copynumber: 1.9 Consensus size: 81
214367 AAACGCCACA
* * * * *
214377 AAAGGTAGAGCAATAGCGACGCTTATGATAAAGC-ACCACTAAAGGTCATAGCAATGGTGACGCT
1 AAAGGTAGAGCAATAGCGACACTTATGAGAAAGCGA-CACTAAAAGTCATAGCAATAGTGACACT
214441 TATGGGAAAGTGCCGCT
65 TATGGGAAAGTGCCGCT
* * * *
214458 AAAGGTTATAGCAATAGCGACACTTATGAGAAAGCGACGCTAAAAGTCATAGTAATAGTGGCACT
1 AAAGG-TAGAGCAATAGCGACACTTATGAGAAAGCGACACTAAAAGTCATAGCAATAGTGACACT
214523 TATGG
65 TATGG
214528 TCAAACGCCG
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 5 0.08
82 53 0.90
83 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.26, T:0.21
Consensus pattern (81 bp):
AAAGGTAGAGCAATAGCGACACTTATGAGAAAGCGACACTAAAAGTCATAGCAATAGTGACACTT
ATGGGAAAGTGCCGCT
Found at i:214523 original size:41 final size:41
Alignment explanation
Indices: 214377--214526 Score: 142
Period size: 41 Copynumber: 3.7 Consensus size: 41
214367 AAACGCCACA
* * * * *
214377 AAAGGT-AGAGCAATAGCGACGCTTATGATAAAGC-ACCACT
1 AAAGGTCATAGCAATAGTGACACTTATGAGAAAGCGA-CGCT
* * * * *
214417 AAAGGTCATAGCAATGGTGACGCTTATGGGAAAGTGCCGCT
1 AAAGGTCATAGCAATAGTGACACTTATGAGAAAGCGACGCT
* *
214458 AAAGGTTATAGCAATAGCGACACTTATGAGAAAGCGACGCT
1 AAAGGTCATAGCAATAGTGACACTTATGAGAAAGCGACGCT
* * *
214499 AAAAGTCATAGTAATAGTGGCACTTATG
1 AAAGGTCATAGCAATAGTGACACTTATG
214527 GTCAAACGCC
Statistics
Matches: 88, Mismatches: 20, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
40 6 0.07
41 82 0.93
ACGTcount: A:0.37, C:0.17, G:0.25, T:0.21
Consensus pattern (41 bp):
AAAGGTCATAGCAATAGTGACACTTATGAGAAAGCGACGCT
Found at i:214538 original size:82 final size:80
Alignment explanation
Indices: 214367--214543 Score: 194
Period size: 82 Copynumber: 2.2 Consensus size: 80
214357 GTTTTTATAT
* * * * *
214367 AAACGCCACAAAAGGTAGAGCAATAGCGACGCTTATGATAAAGCACCACTAAAGGTCATAGCAAT
1 AAACGCCGCTAAAGGTAGAGCAATAGCGACACTTATGAGAAAGCACCACTAAAAGTCATAGCAAT
* * *
214432 GGTGACGCTTATGGG
66 AGTGACACTTATGGC
* * * *
214447 AAAGTGCCGCTAAAGGTTATAGCAATAGCGACACTTATGAGAAAGCGA-CGCTAAAAGTCATAGT
1 AAA-CGCCGCTAAAGG-TAGAGCAATAGCGACACTTATGAGAAAGC-ACCACTAAAAGTCATAGC
*
214511 AATAGTGGCACTTATGGTC
63 AATAGTGACACTTATGG-C
214530 AAACGCCGCTAAAG
1 AAACGCCGCTAAAG
214544 TTCAGAGCTT
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
80 3 0.04
81 9 0.11
82 63 0.80
83 4 0.05
ACGTcount: A:0.37, C:0.19, G:0.24, T:0.19
Consensus pattern (80 bp):
AAACGCCGCTAAAGGTAGAGCAATAGCGACACTTATGAGAAAGCACCACTAAAAGTCATAGCAAT
AGTGACACTTATGGC
Found at i:214540 original size:41 final size:41
Alignment explanation
Indices: 214385--214542 Score: 140
Period size: 41 Copynumber: 3.9 Consensus size: 41
214375 CAAAAGGTAG
* * * * *
214385 AGCAATAGCGACGCTTATGATAAAGCACCACTAAAGGTCAT
1 AGCAATAGCGACACTTATGAGAAAGCGCCGCTAAAAGTCAT
* * * * * * *
214426 AGCAATGGTGACGCTTATGGGAAAGTGCCGCTAAAGGTTAT
1 AGCAATAGCGACACTTATGAGAAAGCGCCGCTAAAAGTCAT
*
214467 AGCAATAGCGACACTTATGAGAAAGCGACGCTAAAAGTCAT
1 AGCAATAGCGACACTTATGAGAAAGCGCCGCTAAAAGTCAT
* * *
214508 AGTAATAGTGGCACTTATG-GTCAAA-CGCCGCTAAA
1 AGCAATAGCGACACTTATGAG--AAAGCGCCGCTAAA
214543 GTTCAGAGCT
Statistics
Matches: 95, Mismatches: 20, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
40 1 0.01
41 91 0.96
42 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.21
Consensus pattern (41 bp):
AGCAATAGCGACACTTATGAGAAAGCGCCGCTAAAAGTCAT
Found at i:214557 original size:30 final size:30
Alignment explanation
Indices: 214521--214581 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
214511 AATAGTGGCA
* *
214521 CTTATGGTCAAACGCCGCTAAAGTTCAGAG
1 CTTATGGACAAACGCCGCTAAAGGTCAGAG
**
214551 CTTATGGACAAGTGCCGCTAAAGGTCAGAG
1 CTTATGGACAAACGCCGCTAAAGGTCAGAG
214581 C
1 C
214582 AATAAAGCGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (30 bp):
CTTATGGACAAACGCCGCTAAAGGTCAGAG
Found at i:214901 original size:22 final size:22
Alignment explanation
Indices: 214873--214927 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
214863 CTTTTCTCTC
214873 CATCTACGGTTCGGATCGAAAT
1 CATCTACGGTTCGGATCGAAAT
214895 CATCTACGGTTCGGATCGAAAT
1 CATCTACGGTTCGGATCGAAAT
214917 CATCTACGGTT
1 CATCTACGGTT
214928 GCCACGATGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (22 bp):
CATCTACGGTTCGGATCGAAAT
Done.