Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold199
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: 611138
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 5
Found at i:804 original size:6 final size:6
Alignment explanation
Indices: 793--832 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
783 TAGAAGTACT
*
793 TTCATC TTCATC TTCATC TTCATC TTCATC TTCAAC TTCA
1 TTCATC TTCATC TTCATC TTCATC TTCATC TTCATC TTCA
833 CTACACTCAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.20, C:0.33, G:0.00, T:0.47
Consensus pattern (6 bp):
TTCATC
Found at i:2784 original size:19 final size:19
Alignment explanation
Indices: 2742--2778 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2732 TACTTCTACT
2742 TTTTTCTGTGTATTTTCCC
1 TTTTTCTGTGTATTTTCCC
*
2761 TTTTTCTGTGTGTTTTCC
1 TTTTTCTGTGTATTTTCC
2779 TATTTTGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.03, C:0.19, G:0.14, T:0.65
Consensus pattern (19 bp):
TTTTTCTGTGTATTTTCCC
Found at i:6174 original size:90 final size:90
Alignment explanation
Indices: 6017--6191 Score: 296
Period size: 90 Copynumber: 1.9 Consensus size: 90
6007 ACAAAACATA
* * * *
6017 GTACATCTGAGAAAAAGAAATCGCATTTTGCCAATTTTAACTGGCTGTTGAAGTGGCATTGGAGT
1 GTACATCTGAGAAAAAGAAAACGCACTTTGCCAATTTTAACTGGCTATTGAAGTGGCATTAGAGT
*
6082 TGACGAGTTTCACATCCAACGCATG
66 TGACAAGTTTCACATCCAACGCATG
*
6107 GTACATCTGAGAAAAAGAAAACGCACTTTGCCAATTTTAACTGGCTATTGAAGTGGCATTAGTGT
1 GTACATCTGAGAAAAAGAAAACGCACTTTGCCAATTTTAACTGGCTATTGAAGTGGCATTAGAGT
6172 TGACAAGTTTCACATCCAAC
66 TGACAAGTTTCACATCCAAC
6192 ACTCTGGTTA
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (90 bp):
GTACATCTGAGAAAAAGAAAACGCACTTTGCCAATTTTAACTGGCTATTGAAGTGGCATTAGAGT
TGACAAGTTTCACATCCAACGCATG
Found at i:8582 original size:16 final size:16
Alignment explanation
Indices: 8561--8691 Score: 99
Period size: 16 Copynumber: 8.2 Consensus size: 16
8551 GGTTATGATT
*
8561 ATTTAAATTATTTTAA
1 ATTTAAATTATTTTGA
*
8577 ATTTAAATTATTTTAAAA
1 ATTTAAATTATTTT--GA
8595 ATTTAAATT-TTTT-A
1 ATTTAAATTATTTTGA
* ** *
8609 AGTTAGTGTTA-TTTAA
1 ATTTA-AATTATTTTGA
8625 GATTTAAATTATTTTGA
1 -ATTTAAATTATTTTGA
* * *
8642 GTATATATT-TTTTGA
1 ATTTAAATTATTTTGA
8657 ATTTAAATTATTTTGA
1 ATTTAAATTATTTTGA
* *
8673 ATATGAATTATTTTGA
1 ATTTAAATTATTTTGA
8689 ATT
1 ATT
8692 CGAGTAATCT
Statistics
Matches: 91, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
14 5 0.05
15 17 0.19
16 46 0.51
17 12 0.13
18 11 0.12
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (16 bp):
ATTTAAATTATTTTGA
Found at i:8661 original size:31 final size:32
Alignment explanation
Indices: 8626--8691 Score: 100
Period size: 31 Copynumber: 2.1 Consensus size: 32
8616 GTTATTTAAG
*
8626 ATTTAAATTATTTTGAGTAT-ATATT-TTTTGA
1 ATTTAAATTATTTTGAATATGA-ATTATTTTGA
8657 ATTTAAATTATTTTGAATATGAATTATTTTGA
1 ATTTAAATTATTTTGAATATGAATTATTTTGA
8689 ATT
1 ATT
8692 CGAGTAATCT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.35, C:0.00, G:0.09, T:0.56
Consensus pattern (32 bp):
ATTTAAATTATTTTGAATATGAATTATTTTGA
Found at i:9946 original size:20 final size:20
Alignment explanation
Indices: 9921--9962 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
9911 TTTAATTTTT
9921 ATATTTTGATTTACAAGATA
1 ATATTTTGATTTACAAGATA
* * *
9941 ATATTTTTATTTTCAAGTTA
1 ATATTTTGATTTACAAGATA
9961 AT
1 AT
9963 TTAATATTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (20 bp):
ATATTTTGATTTACAAGATA
Found at i:10601 original size:15 final size:15
Alignment explanation
Indices: 10571--10616 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
10561 CTTTTTTGTG
*
10571 TTTAAGAATTCAAATT
1 TTTAA-AATTTAAATT
*
10587 TTTAAAATTTTAATT
1 TTTAAAATTTAAATT
*
10602 TTTTAAATTTAAATT
1 TTTAAAATTTAAATT
10617 ATTTTTTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
15 21 0.81
16 5 0.19
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (15 bp):
TTTAAAATTTAAATT
Found at i:10604 original size:16 final size:15
Alignment explanation
Indices: 10577--10621 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
10567 TGTGTTTAAG
* *
10577 AATTCAAATTTTTAA
1 AATTTAAATTTTTTA
*
10592 AATTTTAATTTTTTA
1 AATTTAAATTTTTTA
10607 AATTTAAATTATTTT
1 AATTTAAATT-TTTT
10622 TTATTCAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
15 21 0.84
16 4 0.16
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (15 bp):
AATTTAAATTTTTTA
Found at i:10838 original size:19 final size:17
Alignment explanation
Indices: 10814--10862 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
10804 CTTAAATATT
10814 TATTTTATTATCTAAAATA
1 TATTTTATTAT-T-AAATA
* *
10833 TATTTTATAATTATATA
1 TATTTTATTATTAAATA
10850 TATTTTATTATTA
1 TATTTTATTATTA
10863 TTTAAATAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 16 0.59
18 1 0.04
19 10 0.37
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTATTATTAAATA
Found at i:10956 original size:3 final size:3
Alignment explanation
Indices: 10944--10982 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
10934 TACATATATA
10944 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10983 TATTGCTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 33 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TAT
Found at i:14199 original size:16 final size:16
Alignment explanation
Indices: 14151--14200 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
14141 TTTGTCAATT
* *
14151 TTAAAAATTTAATTTT
1 TTAAAAATTTAATATA
* *
14167 TTAAAAATATAAAATA
1 TTAAAAATTTAATATA
*
14183 TTAAAATTTTAATATA
1 TTAAAAATTTAATATA
14199 TT
1 TT
14201 TTTAAATTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAAAATTTAATATA
Found at i:15214 original size:17 final size:18
Alignment explanation
Indices: 15187--15220 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15177 CTAACTGGTT
*
15187 TTTTCTTAAATTTTATAA
1 TTTTCTTAAATATTATAA
15205 TTTT-TTAAATATTATA
1 TTTTCTTAAATATTATA
15221 TCGTATCATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTCTTAAATATTATAA
Found at i:15284 original size:32 final size:33
Alignment explanation
Indices: 15234--15317 Score: 88
Period size: 32 Copynumber: 2.7 Consensus size: 33
15224 TATCATATTT
* *
15234 ATTTAT-TTTAT-TATAATTTTATTTA-AAATA
1 ATTTATATTTATATAAAATTTTATATATAAATA
* * *
15264 TTTTATATTTATATAAAATTTAATATATTAATA
1 ATTTATATTTATATAAAATTTTATATATAAATA
15297 ATTTATA-TTATAT-AAATTTTA
1 ATTTATATTTATATAAAATTTTA
15318 AAATATTTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
30 5 0.11
31 12 0.27
32 17 0.39
33 10 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (33 bp):
ATTTATATTTATATAAAATTTTATATATAAATA
Found at i:15289 original size:18 final size:17
Alignment explanation
Indices: 15272--15318 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
15262 TATTTTATAT
15272 TTATATAAAATTTAATA
1 TTATATAAAATTTAATA
15289 -TAT-TAATAATTT-ATA
1 TTATATAA-AATTTAATA
*
15304 TTATATAAATTTTAA
1 TTATATAAAATTTAA
15319 AATATTTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
15 6 0.24
16 15 0.60
17 4 0.16
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTATATAAAATTTAATA
Found at i:15318 original size:32 final size:33
Alignment explanation
Indices: 15260--15336 Score: 97
Period size: 32 Copynumber: 2.4 Consensus size: 33
15250 TTTTATTTAA
* *
15260 AATATTTTATATTTATATAAAATTTAATATATT
1 AATAATTTATATTTATATAAAATTTAAAATATT
*
15293 AATAATTTATA-TTATATAAATTTTAAAATATT
1 AATAATTTATATTTATATAAAATTTAAAATATT
*
15325 TAT-A-TTATATTT
1 AATAATTTATATTT
15337 TAATTATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
30 5 0.13
31 3 0.08
32 21 0.54
33 10 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (33 bp):
AATAATTTATATTTATATAAAATTTAAAATATT
Found at i:15336 original size:11 final size:11
Alignment explanation
Indices: 15266--15366 Score: 54
Period size: 11 Copynumber: 9.5 Consensus size: 11
15256 TTAAAATATT
15266 TTATATTTATA
1 TTATATTTATA
* *
15277 TAAAATTTA-A
1 TTATATTTATA
*
15287 -TATATTAATAA
1 TTATATTTAT-A
15298 TT-TATATTATA
1 TTATAT-TTATA
*
15309 -TAAATTT-TA
1 TTATATTTATA
**
15318 AAATATTTATA
1 TTATATTTATA
15329 TTATATTT-TAA
1 TTATATTTAT-A
*
15340 TTATTTTTATA
1 TTATATTTATA
*
15351 TTATATATATA
1 TTATATTTATA
15362 -TATAT
1 TTATAT
15367 GATTATATTT
Statistics
Matches: 67, Mismatches: 14, Indels: 19
0.67 0.14 0.19
Matches are distributed among these distances:
9 7 0.10
10 15 0.22
11 40 0.60
12 5 0.07
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TTATATTTATA
Found at i:15567 original size:5 final size:5
Alignment explanation
Indices: 15532--15696 Score: 54
Period size: 5 Copynumber: 35.0 Consensus size: 5
15522 AGACATAGAG
* *
15532 TATAA TATAA -ATAA TA-AT TA-AA TTATAA TATGA TATAA TATAA TATAA
1 TATAA TATAA TATAA TATAA TATAA -TATAA TATAA TATAA TATAA TATAA
* * * * * * *
15580 -A-AA TAT-T TTTAA AATTTA TATAA TTTAA -ATTA T-TAA -ATTAA TAAAA
1 TATAA TATAA TATAA TA-TAA TATAA TATAA TATAA TATAA TA-TAA TATAA
* * ** *
15626 TTTATA TATAA -AAAA TATTT TA-AA TATAA TTATAA TATAA TAAAA TAT-A
1 TATA-A TATAA TATAA TATAA TATAA TATAA -TATAA TATAA TATAA TATAA
15675 TA-AA TATAA TATAA -AT-A TATAA
1 TATAA TATAA TATAA TATAA TATAA
15697 ATTATTGTAA
Statistics
Matches: 113, Mismatches: 28, Indels: 38
0.63 0.16 0.21
Matches are distributed among these distances:
3 3 0.03
4 31 0.27
5 64 0.57
6 15 0.13
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:15570 original size:10 final size:10
Alignment explanation
Indices: 15532--15696 Score: 54
Period size: 9 Copynumber: 17.5 Consensus size: 10
15522 AGACATAGAG
15532 TATAATATAA
1 TATAATATAA
*
15542 -ATAATA-AT
1 TATAATATAA
15550 TA-AATTATAA
1 TATAA-TATAA
*
15560 TATGATATAA
1 TATAATATAA
15570 TATAATATAA
1 TATAATATAA
*
15580 -A-AATAT-T
1 TATAATATAA
* * *
15587 TTTAAAATTTA
1 TATAATA-TAA
*
15598 TATAATTTAA
1 TATAATATAA
*
15608 -ATTAT-TAA
1 TATAATATAA
*
15616 -ATTAATAAAA
1 TA-TAATATAA
*
15626 TTTATATATAA
1 TATA-ATATAA
* **
15637 -AAAATATTT
1 TATAATATAA
15646 TA-AATATAA
1 TATAATATAA
15655 TTATAATATAA
1 -TATAATATAA
*
15666 TAAAATAT-A
1 TATAATATAA
15675 TA-AATATAA
1 TATAATATAA
15684 TATAA-AT-A
1 TATAATATAA
15692 TATAA
1 TATAA
15697 ATTATTGTAA
Statistics
Matches: 114, Mismatches: 24, Indels: 36
0.66 0.14 0.21
Matches are distributed among these distances:
8 23 0.20
9 37 0.32
10 37 0.32
11 17 0.15
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.42
Consensus pattern (10 bp):
TATAATATAA
Found at i:15656 original size:29 final size:29
Alignment explanation
Indices: 15619--15702 Score: 82
Period size: 29 Copynumber: 2.9 Consensus size: 29
15609 TTATTAAATT
* *
15619 AATAAAATTTATATATAAAAAATATTTTA
1 AATATAATTTATATATAAAAAATATTATA
15648 AATATAA-TTATAATATAATAAAATA-TATA
1 AATATAATTTAT-ATATAA-AAAATATTATA
* * * *
15677 AATATAATATAAATATATAAATTATT
1 AATATAATTTATATATAAAAAATATT
15703 GTAATTATTC
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
28 9 0.20
29 28 0.62
30 8 0.18
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (29 bp):
AATATAATTTATATATAAAAAATATTATA
Found at i:16214 original size:21 final size:21
Alignment explanation
Indices: 16170--16215 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
16160 TTATAATGAG
* * *
16170 TTAATTATTGTAATAGTGATA
1 TTAATTATTATAATAGTAAAA
*
16191 TTAATTATTATATTAGTAAAA
1 TTAATTATTATAATAGTAAAA
16212 TTAA
1 TTAA
16216 AATTAATAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.09, T:0.48
Consensus pattern (21 bp):
TTAATTATTATAATAGTAAAA
Found at i:16379 original size:28 final size:26
Alignment explanation
Indices: 16323--16381 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
16313 CAAATTAAAA
*
16323 TTTAATAAAATAATATAAATTTTATT
1 TTTAATAAAATAATATAAATTTAATT
*
16349 TTTAATATAATATAAT-TTAATTTAATAT
1 TTTAATA-AA-ATAATATAAATTTAAT-T
16377 TTTAA
1 TTTAA
16382 AGATTTTATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 7 0.25
27 10 0.36
28 11 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (26 bp):
TTTAATAAAATAATATAAATTTAATT
Found at i:16761 original size:25 final size:25
Alignment explanation
Indices: 16707--16761 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 25
16697 TATATATAAA
16707 ATTTA-AAATATTAATAATTTTTAT
1 ATTTATAAATATTAATAATTTTTAT
* *
16731 -TATATAAATTTTAA-AATATTTTAT
1 ATTTATAAATATTAATAAT-TTTTAT
16755 ATTTATA
1 ATTTATA
16762 CTATAATTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (25 bp):
ATTTATAAATATTAATAATTTTTAT
Found at i:16767 original size:30 final size:30
Alignment explanation
Indices: 16688--16767 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 30
16678 TTTATTTTTA
*
16688 TATAATAATTATATATAAAATTTAAAATAT
1 TATAATATTTATATATAAAATTTAAAATAT
* *
16718 TAATAATTTTTATTATATAAATTTTAAAATAT
1 T-ATAATATTTA-TATATAAAATTTAAAATAT
*
16750 T-TTATATTTATACTATAA
1 TATAATATTTATA-TATAA
16768 TTATTTATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
29 2 0.05
30 13 0.31
31 8 0.19
32 19 0.45
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (30 bp):
TATAATATTTATATATAAAATTTAAAATAT
Found at i:17550 original size:34 final size:34
Alignment explanation
Indices: 17512--17625 Score: 86
Period size: 34 Copynumber: 3.1 Consensus size: 34
17502 ATTTTGGCCC
17512 AAGATAACGTACATGATCAGAACTTATGTTGGAA
1 AAGATAACGTACATGATCAGAACTTATGTTGGAA
** * * * **
17546 AAGATTGCAGTATAGATGAATATTGAGAAC-TATTTTGGCCC
1 AAGATAAC-G--TACATG---A-TCAGAACTTATGTTGG-AA
17587 AAGATAACGTACATGATCAGAACTTATGTTGGAA
1 AAGATAACGTACATGATCAGAACTTATGTTGGAA
17621 AAGAT
1 AAGAT
17626 TGCAGTATAG
Statistics
Matches: 57, Mismatches: 14, Indels: 18
0.64 0.16 0.20
Matches are distributed among these distances:
34 17 0.30
35 9 0.16
37 5 0.09
38 5 0.09
40 9 0.16
41 12 0.21
ACGTcount: A:0.39, C:0.11, G:0.21, T:0.28
Consensus pattern (34 bp):
AAGATAACGTACATGATCAGAACTTATGTTGGAA
Found at i:17559 original size:75 final size:75
Alignment explanation
Indices: 17471--17693 Score: 428
Period size: 75 Copynumber: 3.0 Consensus size: 75
17461 TTTCATGTGG
17471 AAGATTGCAGTATAGATGAATATTGAGAACTATTTTGGCCCAAGATAACGTACATGATCAGAACT
1 AAGATTGCAGTATAGATGAATATTGAGAACTATTTTGGCCCAAGATAACGTACATGATCAGAACT
17536 TATGTTGGAA
66 TATGTTGGAA
17546 AAGATTGCAGTATAGATGAATATTGAGAACTATTTTGGCCCAAGATAACGTACATGATCAGAACT
1 AAGATTGCAGTATAGATGAATATTGAGAACTATTTTGGCCCAAGATAACGTACATGATCAGAACT
17611 TATGTTGGAA
66 TATGTTGGAA
**
17621 AAGATTGCAGTATAGATGAATATTGAGAACTATTTTGGCTGAAGATAACGTACATGATCAGAACT
1 AAGATTGCAGTATAGATGAATATTGAGAACTATTTTGGCCCAAGATAACGTACATGATCAGAACT
17686 TATGTTGG
66 TATGTTGG
17694 GAGGCGGTAA
Statistics
Matches: 146, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
75 146 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (75 bp):
AAGATTGCAGTATAGATGAATATTGAGAACTATTTTGGCCCAAGATAACGTACATGATCAGAACT
TATGTTGGAA
Found at i:17866 original size:2 final size:2
Alignment explanation
Indices: 17859--17889 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
17849 GAAAACGTTT
*
17859 TG TG TG TG CG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
17890 CTATATATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.03, G:0.48, T:0.48
Consensus pattern (2 bp):
TG
Found at i:17896 original size:2 final size:2
Alignment explanation
Indices: 17891--17920 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17881 TGTGTGTGTC
17891 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
17921 CACAGACAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19824 original size:2 final size:2
Alignment explanation
Indices: 19812--19851 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
19802 CTTGTTCTAT
19812 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19852 GATTAAAACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:21998 original size:13 final size:13
Alignment explanation
Indices: 21980--22010 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
21970 TTGAAAAATT
*
21980 TTTAAATTTTAAA
1 TTTAAATCTTAAA
21993 TTTAAATCTTAAA
1 TTTAAATCTTAAA
22006 TTTAA
1 TTTAA
22011 TTTGATCCGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (13 bp):
TTTAAATCTTAAA
Found at i:22738 original size:28 final size:29
Alignment explanation
Indices: 22676--22749 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 29
22666 TTATATTTAA
*
22676 ATATAATAATT-AATAAATTATATTATCAT
1 ATATAATAATTAAATAAA-AATATTATCAT
* *
22705 -TCTAAT-ATTAAATAAAAATATTATTAT
1 ATATAATAATTAAATAAAAATATTATCAT
22732 ATATAATAATTAAA-AAAA
1 ATATAATAATTAAATAAAA
22750 TACTTTGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
27 12 0.32
28 20 0.53
29 6 0.16
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.41
Consensus pattern (29 bp):
ATATAATAATTAAATAAAAATATTATCAT
Found at i:23174 original size:25 final size:27
Alignment explanation
Indices: 23137--23201 Score: 75
Period size: 25 Copynumber: 2.5 Consensus size: 27
23127 TTATGTTATA
*
23137 ATTAATTTT-TTTATTTT-TTATCTAA-
1 ATTATTTTTATTTATTTTATTAT-TAAG
23162 A-TATTTTTATTTATTTTATTATTAATG
1 ATTATTTTTATTTATTTTATTATTAA-G
23189 ATTATTTTTATTT
1 ATTATTTTTATTT
23202 GAGATTTATA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
24 6 0.18
25 12 0.35
26 4 0.12
27 1 0.03
28 11 0.32
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.69
Consensus pattern (27 bp):
ATTATTTTTATTTATTTTATTATTAAG
Found at i:23260 original size:17 final size:17
Alignment explanation
Indices: 23236--23310 Score: 64
Period size: 17 Copynumber: 4.2 Consensus size: 17
23226 TATTTATACG
23236 TATTTAAATTTTAATT-
1 TATTTAAATTTTAATTA
*
23252 TTTTATAAATATTATAATTA
1 TATT-TAAAT-TT-TAATTA
23272 TATTTAAATTTTAA-TA
1 TATTTAAATTTTAATTA
*
23288 TATTAATAATTTATATATTA
1 TATTTA-AATTT-TA-ATTA
23308 TAT
1 TAT
23311 AAATTCTATA
Statistics
Matches: 48, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
16 10 0.21
17 13 0.27
18 6 0.12
19 11 0.23
20 8 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTAAATTTTAATTA
Found at i:23308 original size:36 final size:36
Alignment explanation
Indices: 23236--23310 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
23226 TATTTATACG
* *
23236 TATTTAAATTTTAATTTTTTATAAATATTATAATTA
1 TATTTAAATTTTAATTATTAATAAATATTATAATTA
23272 TATTTAAATTTTAATATATTAAT-AAT-TTATATATTA
1 TATTTAAATTTTAAT-TATTAATAAATATTATA-ATTA
23308 TAT
1 TAT
23311 AAATTCTATA
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 5 0.14
36 25 0.71
37 5 0.14
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (36 bp):
TATTTAAATTTTAATTATTAATAAATATTATAATTA
Found at i:23315 original size:17 final size:17
Alignment explanation
Indices: 23255--23328 Score: 66
Period size: 17 Copynumber: 4.2 Consensus size: 17
23245 TTTAATTTTT
23255 TATAAATATTATA-ATTA
1 TATAAAT-TTATATATTA
23272 TATTTAAATTTTAATATATTA
1 TA--TAAA-TTT-ATATATTA
23293 -AT-AATTTATATATTA
1 TATAAATTTATATATTA
23308 TATAAATTCTATATATT-
1 TATAAATT-TATATATTA
23325 TATA
1 TATA
23329 TCATATTTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 16
0.75 0.00 0.25
Matches are distributed among these distances:
15 8 0.16
16 5 0.10
17 12 0.24
18 9 0.18
19 6 0.12
20 5 0.10
21 4 0.08
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (17 bp):
TATAAATTTATATATTA
Found at i:23624 original size:33 final size:33
Alignment explanation
Indices: 23587--23650 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
23577 TTTTAAAAAT
*
23587 TAATATTTAATAAATTTAAATTTAACTCTTATA
1 TAATATTTAATAAATTTAAATTTAAATCTTATA
23620 TAATATTTAATAAATTTAAATTTAAATCTTA
1 TAATATTTAATAAATTTAAATTTAAATCTTA
23651 ATATCTACCA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.48
Consensus pattern (33 bp):
TAATATTTAATAAATTTAAATTTAAATCTTATA
Found at i:26134 original size:6 final size:6
Alignment explanation
Indices: 26123--26165 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
26113 TTTAAAATAT
**
26123 TTTAAA TTTAAA TTT-AA TTTAAA TAAAAAA TTTAAA TTTAAA T
1 TTTAAA TTTAAA TTTAAA TTTAAA T-TTAAA TTTAAA TTTAAA T
26166 AAAAATAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 5 0.16
6 22 0.71
7 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (6 bp):
TTTAAA
Found at i:26159 original size:30 final size:33
Alignment explanation
Indices: 26123--26204 Score: 98
Period size: 36 Copynumber: 2.5 Consensus size: 33
26113 TTTAAAATAT
*
26123 TTTAAATTTAAAT-TTAATTTAAA-T-AAAAAA
1 TTTAAATTTAAATAATAATTTAAACTCAAAAAA
26153 TTTAAATTTAAATAAAAATAATTTAAACTCAAAAAA
1 TTTAAATTTAAAT---AATAATTTAAACTCAAAAAA
26189 TTTAAATTTAATATAA
1 TTTAAATTTAA-ATAA
26205 ATATAATATA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
30 13 0.30
34 11 0.25
35 1 0.02
36 17 0.39
37 2 0.05
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (33 bp):
TTTAAATTTAAATAATAATTTAAACTCAAAAAA
Found at i:26187 original size:36 final size:35
Alignment explanation
Indices: 26137--26216 Score: 117
Period size: 36 Copynumber: 2.3 Consensus size: 35
26127 AATTTAAATT
26137 TAATTTAAATAAAAAATTTAAATTTAA-ATAAAAA
1 TAATTTAAATAAAAAATTTAAATTTAATATAAAAA
*
26171 TAATTTAAACTCAAAAAATTTAAATTTAATATAAATA
1 TAATTTAAA-T-AAAAAATTTAAATTTAATATAAAAA
*
26208 TAATATAAA
1 TAATTTAAA
26217 ATAGTTATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
34 9 0.22
35 1 0.02
36 17 0.41
37 14 0.34
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (35 bp):
TAATTTAAATAAAAAATTTAAATTTAATATAAAAA
Found at i:26190 original size:15 final size:14
Alignment explanation
Indices: 26156--26195 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 14
26146 TAAAAAATTT
26156 AAATTTAAATAAAA
1 AAATTTAAATAAAA
*
26170 ATAATTTAAACTCAAA
1 A-AATTTAAA-TAAAA
26186 AAATTTAAAT
1 AAATTTAAAT
26196 TTAATATAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 16 0.70
16 5 0.22
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATTTAAATAAAA
Found at i:26300 original size:16 final size:15
Alignment explanation
Indices: 26271--26314 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 15
26261 ATCAAAACCC
26271 TTAAAA-AAACTTAAA
1 TTAAAATAAA-TTAAA
26286 TCTAAAATAAATTAAA
1 T-TAAAATAAATTAAA
26302 TTAAAATATAATT
1 TTAAAATA-AATT
26315 TGAACCCAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 8 0.31
16 15 0.58
17 3 0.12
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAAATAAATTAAA
Found at i:28477 original size:10 final size:10
Alignment explanation
Indices: 28462--28497 Score: 63
Period size: 10 Copynumber: 3.6 Consensus size: 10
28452 TGATACCCAA
28462 ATATTACTAT
1 ATATTACTAT
28472 ATATTACTAT
1 ATATTACTAT
*
28482 ATGTTACTAT
1 ATATTACTAT
28492 ATATTA
1 ATATTA
28498 TTTTAATTAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (10 bp):
ATATTACTAT
Found at i:29341 original size:17 final size:18
Alignment explanation
Indices: 29309--29343 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
29299 AATATTTTAA
*
29309 TATTTATATGATATAAAT
1 TATTAATATGATATAAAT
29327 TATTAATAT-ATATAAAT
1 TATTAATATGATATAAAT
29344 ATATATAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
TATTAATATGATATAAAT
Found at i:29364 original size:25 final size:28
Alignment explanation
Indices: 29336--29402 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 28
29326 TTATTAATAT
29336 ATATAAATATAT-ATAAAA-AAATTAA-
1 ATATAAATATATAATAAAATAAATTAAC
29361 ATATAATTATACTATAATAAAATAAATTAAC
1 ATATAA--ATA-TATAATAAAATAAATTAAC
29392 ATAT-AATATAT
1 ATATAAATATAT
29403 TTCACTGAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
25 6 0.17
27 6 0.17
28 6 0.17
29 6 0.17
30 8 0.22
31 4 0.11
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.36
Consensus pattern (28 bp):
ATATAAATATATAATAAAATAAATTAAC
Found at i:29388 original size:20 final size:21
Alignment explanation
Indices: 29359--29399 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
29349 TAAAAAAATT
29359 AAATATAATTATAC-TATAATA
1 AAATATAATTA-ACATATAATA
29380 AAATA-AATTAACATATAATA
1 AAATATAATTAACATATAATA
29400 TATTTCACTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 2 0.11
20 12 0.63
21 5 0.26
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (21 bp):
AAATATAATTAACATATAATA
Found at i:34176 original size:18 final size:18
Alignment explanation
Indices: 34153--34189 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34143 GTTTGATAGA
34153 ATTTATTTAAATATTTTT
1 ATTTATTTAAATATTTTT
* *
34171 ATTTATTTTAATTTTTTT
1 ATTTATTTAAATATTTTT
34189 A
1 A
34190 AAAAATTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
ATTTATTTAAATATTTTT
Found at i:34210 original size:28 final size:28
Alignment explanation
Indices: 34152--34225 Score: 71
Period size: 28 Copynumber: 2.6 Consensus size: 28
34142 TGTTTGATAG
* * *
34152 AATTTATTTAAATATTTTTATTTATTTT
1 AATTTATTTAAAAATTTATATTTATTAT
*
34180 AATTTTTTTAAAAAATTTATATTT-TTAT
1 AATTTATTT-AAAAATTTATATTTATTAT
34208 AA-TTATGTGTAAAAATTT
1 AATTTAT-T-TAAAAATTT
34226 TAAAAAATAA
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
27 3 0.08
28 22 0.58
29 13 0.34
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (28 bp):
AATTTATTTAAAAATTTATATTTATTAT
Found at i:34824 original size:19 final size:19
Alignment explanation
Indices: 34769--34831 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
34759 TGGTTGTCTA
**
34769 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
34788 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
34807 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
34826 GTTACT
1 GGTACT
34832 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:38963 original size:34 final size:33
Alignment explanation
Indices: 38897--39000 Score: 156
Period size: 34 Copynumber: 3.1 Consensus size: 33
38887 AAGTGGGAGA
*
38897 ATTGTTGATTAAATGGTG-ATTTGGTAGTTTACC
1 ATTGTTGATTAAATGG-GAATTTGGTAGCTTACC
*
38930 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGG-AATTTGGTAGCTTACC
38964 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGA-ATTTGGTAGCTTACC
38998 ATT
1 ATT
39001 TAATCAACAA
Statistics
Matches: 65, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
32 1 0.02
33 16 0.25
34 48 0.74
ACGTcount: A:0.27, C:0.09, G:0.24, T:0.40
Consensus pattern (33 bp):
ATTGTTGATTAAATGGGAATTTGGTAGCTTACC
Found at i:39075 original size:33 final size:34
Alignment explanation
Indices: 38995--39078 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 34
38985 TTGGTAGCTT
*
38995 ACCATTTAATCAACAATGGTAAGCTACCAAATTTC
1 ACCATTTAATCAACAATGGTAAACTACCAAA-TTC
*
39030 -CCATTTAGTCAACAATGGTAAACTACCAAA-TC
1 ACCATTTAATCAACAATGGTAAACTACCAAATTC
39062 ACCATTTAATCAACAAT
1 ACCATTTAATCAACAAT
39079 TCTCCCACTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
32 2 0.04
33 15 0.33
34 28 0.62
ACGTcount: A:0.42, C:0.24, G:0.07, T:0.27
Consensus pattern (34 bp):
ACCATTTAATCAACAATGGTAAACTACCAAATTC
Found at i:39479 original size:34 final size:34
Alignment explanation
Indices: 39435--39515 Score: 112
Period size: 34 Copynumber: 2.4 Consensus size: 34
39425 TTTGCATCCA
*
39435 GTTGATTAAATGGGTGATTTGGT-GGTT-TACCATT
1 GTTGATTAAATGGGAGATTTGGTAGGTTGT--CATT
*
39469 GTTGACTAAATGGGAGATTTGGTAGGTTGTCATT
1 GTTGATTAAATGGGAGATTTGGTAGGTTGTCATT
39503 GTTGATTAAATGG
1 GTTGATTAAATGG
39516 TGGTTTTTAC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
34 37 0.88
35 4 0.10
36 1 0.02
ACGTcount: A:0.23, C:0.05, G:0.31, T:0.41
Consensus pattern (34 bp):
GTTGATTAAATGGGAGATTTGGTAGGTTGTCATT
Found at i:42207 original size:2 final size:2
Alignment explanation
Indices: 42200--42239 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
42190 CATGCAAATC
42200 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
42240 TTCAAATAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45452 original size:2 final size:2
Alignment explanation
Indices: 45445--45496 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
45435 CTAATTGATC
*
45445 TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
45487 TA TA TA -A TA T
1 TA TA TA TA TA T
45497 GATTGATTGA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:46306 original size:24 final size:24
Alignment explanation
Indices: 46277--46324 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
46267 GCTCTGTGTG
46277 ACCTCAGCCCCCTTCGCTATTAAA
1 ACCTCAGCCCCCTTCGCTATTAAA
46301 ACCTCAGCCCCCTTCGCTATTAAA
1 ACCTCAGCCCCCTTCGCTATTAAA
46325 TGTATGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.42, G:0.08, T:0.25
Consensus pattern (24 bp):
ACCTCAGCCCCCTTCGCTATTAAA
Found at i:49564 original size:16 final size:16
Alignment explanation
Indices: 49543--49609 Score: 80
Period size: 16 Copynumber: 4.2 Consensus size: 16
49533 TTAAAGACTC
49543 AAATTTGAAAAAATTT
1 AAATTTGAAAAAATTT
**
49559 AAATTTGAAAATGTTT
1 AAATTTGAAAAAATTT
*
49575 GAATTTGAAAAAATTT
1 AAATTTGAAAAAATTT
* * *
49591 TAATCTAAAAAAATTT
1 AAATTTGAAAAAATTT
49607 AAA
1 AAA
49610 CCCTAAAATA
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
16 42 1.00
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (16 bp):
AAATTTGAAAAAATTT
Found at i:50442 original size:15 final size:15
Alignment explanation
Indices: 50422--50451 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
50412 CAATATATTC
50422 TTTGCAATTATTGAA
1 TTTGCAATTATTGAA
50437 TTTGCAATTATTGAA
1 TTTGCAATTATTGAA
50452 GAATGAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.13, T:0.47
Consensus pattern (15 bp):
TTTGCAATTATTGAA
Found at i:62192 original size:2 final size:2
Alignment explanation
Indices: 62185--62228 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
62175 CTAATTGATC
62185 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
62226 TA T
1 TA T
62229 GATTGATTGA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:62769 original size:19 final size:18
Alignment explanation
Indices: 62737--62773 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
62727 TATTAAAAAT
62737 AAAATAAATATTAATATA
1 AAAATAAATATTAATATA
*
62755 AAAATTAAATTTTAATATA
1 AAAA-TAAATATTAATATA
62774 GAATCGATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAATAAATATTAATATA
Found at i:65621 original size:28 final size:28
Alignment explanation
Indices: 65559--65613 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
65549 CAAATGCCAC
65559 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
65587 CCTTTGTATTTGTCAAATATGGTGGTT
1 CCTTTGTATTTGTCAAATATGGTGGTT
65614 ATTTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.11, G:0.22, T:0.49
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAATATGGTGGTTT
Found at i:65655 original size:24 final size:24
Alignment explanation
Indices: 65595--65664 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 24
65585 TTCCTTTGTA
* * *
65595 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGGTGG--CTTGTTG
*
65621 TTTGTAAAAAAATGGTGGCTTGTTG
1 TTTGT-CAAAAATGGTGGCTTGTTG
*
65646 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAAATGGTGGCT
65665 AATTTTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 12 0.32
25 10 0.27
26 5 0.14
27 10 0.27
ACGTcount: A:0.23, C:0.06, G:0.26, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAAATGGTGGCTTGTTG
Found at i:68217 original size:21 final size:22
Alignment explanation
Indices: 68188--68233 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
68178 TGTTCAGACA
** *
68188 AGTAGTACTCCGTAGCAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
68210 AGTA-TACTCCAAAACAGGTGG
1 AGTAGTACTCCAAAACAGGTGG
68231 AGT
1 AGT
68234 TTCAACAGAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.22
Consensus pattern (22 bp):
AGTAGTACTCCAAAACAGGTGG
Found at i:70105 original size:19 final size:19
Alignment explanation
Indices: 70081--70136 Score: 94
Period size: 19 Copynumber: 2.9 Consensus size: 19
70071 AGGTGGAGAT
70081 TTGTGGTGGATGGCTATCC
1 TTGTGGTGGATGGCTATCC
70100 TTGTGGTGGATGGCTATCC
1 TTGTGGTGGATGGCTATCC
* *
70119 TTATGGTGGGTGGCTATC
1 TTGTGGTGGATGGCTATC
70137 TCTAGTCAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.11, C:0.14, G:0.38, T:0.38
Consensus pattern (19 bp):
TTGTGGTGGATGGCTATCC
Found at i:70196 original size:28 final size:28
Alignment explanation
Indices: 70156--70210 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
70146 CAAATACCAC
*
70156 CCTTTGTATTTGTAAAATATGGTGGTTT
1 CCTTGGTATTTGTAAAATATGGTGGTTT
*
70184 CCTTGGTATTTGTCAAATATGGTGGTT
1 CCTTGGTATTTGTAAAATATGGTGGTT
70211 ATTTTTGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.20, C:0.09, G:0.24, T:0.47
Consensus pattern (28 bp):
CCTTGGTATTTGTAAAATATGGTGGTTT
Found at i:70251 original size:24 final size:24
Alignment explanation
Indices: 70192--70260 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
70182 TTCCTTGGTA
* * *
70192 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGGTGG--CTTGTTG
*
70218 TTTGTAAAAAATGGTGGCTTGTTG
1 TTTGTCAAAAATGGTGGCTTGTTG
*
70242 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAAATGGTGGCT
70261 AATTTTTATT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 22 0.59
26 15 0.41
ACGTcount: A:0.22, C:0.06, G:0.26, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAAATGGTGGCTTGTTG
Found at i:70736 original size:20 final size:20
Alignment explanation
Indices: 70711--70750 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
70701 TACCGATAAA
*
70711 TTTACATGATATATCGATAC
1 TTTACATAATATATCGATAC
*
70731 TTTACATAATGTATCGATAC
1 TTTACATAATATATCGATAC
70751 ATTTTCACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (20 bp):
TTTACATAATATATCGATAC
Found at i:71312 original size:15 final size:16
Alignment explanation
Indices: 71278--71312 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
71268 TTAAAAAGTT
71278 AAAAACTCAAATTTGA
1 AAAAACTCAAATTTGA
*
71294 AAAAATTCAAATTTGA
1 AAAAACTCAAATTTGA
71310 AAA
1 AAA
71313 TGTTTGAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.60, C:0.09, G:0.06, T:0.26
Consensus pattern (16 bp):
AAAAACTCAAATTTGA
Found at i:71338 original size:16 final size:16
Alignment explanation
Indices: 71286--71348 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
71276 TTAAAAACTC
* *
71286 AAATTTGAAAAAATTC
1 AAATCTGAAAAAATTT
* **
71302 AAATTTGAAAATGTTT
1 AAATCTGAAAAAATTT
*
71318 GAATCTGAAAAAATTT
1 AAATCTGAAAAAATTT
* *
71334 TAATCTAAAAAAATT
1 AAATCTGAAAAAATT
71349 CAAACCCTAA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 38 1.00
ACGTcount: A:0.52, C:0.05, G:0.08, T:0.35
Consensus pattern (16 bp):
AAATCTGAAAAAATTT
Found at i:71608 original size:23 final size:22
Alignment explanation
Indices: 71582--71634 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
71572 AAAAGTATTT
* *
71582 ATAATTATTATGCAATTATAGTA
1 ATAATTATTAT-CAATAAAAGTA
71605 ATAATTTATTATCAATAAAAGTA
1 ATAA-TTATTATCAATAAAAGTA
71628 ATTAATT
1 A-TAATT
71635 GTGAAACTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
23 16 0.62
24 10 0.38
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (22 bp):
ATAATTATTATCAATAAAAGTA
Found at i:72977 original size:2 final size:2
Alignment explanation
Indices: 72970--73030 Score: 95
Period size: 2 Copynumber: 30.5 Consensus size: 2
72960 CGAAAATTAG
*
72970 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* *
73012 AC AT GT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
73031 ATGTTAATGA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:74061 original size:50 final size:50
Alignment explanation
Indices: 73986--74086 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
73976 CGTTTAAAGA
73986 CGCATATACAAGCAAGGAAGGCACTACCGACACCAGAAACCCTTTTATGG
1 CGCATATACAAGCAAGGAAGGCACTACCGACACCAGAAACCCTTTTATGG
74036 CGCATATACAAGCAAGGAAGGCACTACCGACACCAGAAACCCTTTTATGG
1 CGCATATACAAGCAAGGAAGGCACTACCGACACCAGAAACCCTTTTATGG
74086 C
1 C
74087 TGGCAGGGCA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.36, C:0.29, G:0.20, T:0.16
Consensus pattern (50 bp):
CGCATATACAAGCAAGGAAGGCACTACCGACACCAGAAACCCTTTTATGG
Found at i:74825 original size:37 final size:38
Alignment explanation
Indices: 74752--74832 Score: 146
Period size: 37 Copynumber: 2.2 Consensus size: 38
74742 TGTATAATCA
*
74752 GAGGCGCTCCCTATATTTGTACAATCAGATGTTAACTC
1 GAGGCACTCCCTATATTTGTACAATCAGATGTTAACTC
74790 GAGGCACTCCCTATATTTGTAC-ATCAGATGTTAACTC
1 GAGGCACTCCCTATATTTGTACAATCAGATGTTAACTC
74827 GAGGCA
1 GAGGCA
74833 GCAGAAGTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
37 21 0.50
38 21 0.50
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (38 bp):
GAGGCACTCCCTATATTTGTACAATCAGATGTTAACTC
Found at i:78580 original size:2 final size:2
Alignment explanation
Indices: 78575--78615 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
78565 TATCTCTCTC
78575 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
78616 GTATTGTTTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:78878 original size:22 final size:20
Alignment explanation
Indices: 78853--78896 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
78843 GTAAATTTAA
78853 AATTTAAATTTTAATATTTGTT
1 AATTT-AATTTTAATATTT-TT
* *
78875 AATTTTATTTTTATATTTTT
1 AATTTAATTTTAATATTTTT
78895 AA
1 AA
78897 ATAGTGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 11 0.55
22 5 0.25
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
AATTTAATTTTAATATTTTT
Found at i:79924 original size:29 final size:29
Alignment explanation
Indices: 79890--79962 Score: 80
Period size: 28 Copynumber: 2.6 Consensus size: 29
79880 ACATATTTAT
*
79890 AATATAAATATATTTAAAAATTAATATTA
1 AATATAAATATATTTAAAAATAAATATTA
* * *
79919 AATATAAATACATAT-AATATAAATATTA
1 AATATAAATATATTTAAAAATAAATATTA
*
79947 AA-ATAAAAAT-TTTAAA
1 AATATAAATATATTTAAA
79963 TAATCTAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 2 0.06
27 8 0.22
28 13 0.36
29 13 0.36
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (29 bp):
AATATAAATATATTTAAAAATAAATATTA
Found at i:79948 original size:22 final size:20
Alignment explanation
Indices: 79887--79949 Score: 58
Period size: 22 Copynumber: 3.0 Consensus size: 20
79877 TTAACATATT
79887 TATAATATAAATATATTTAAAAA
1 TATAATAT-AA-ATA-TTAAAAA
79910 T-TAATATTAAATA-TAAATACA
1 TATAATA-TAAATATTAAA-A-A
79931 TATAATATAAATATTAAAA
1 TATAATATAAATATTAAAA
79950 TAAAAATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
19 4 0.11
20 1 0.03
21 12 0.34
22 16 0.46
23 2 0.06
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (20 bp):
TATAATATAAATATTAAAAA
Found at i:80473 original size:28 final size:28
Alignment explanation
Indices: 80404--80464 Score: 88
Period size: 27 Copynumber: 2.1 Consensus size: 28
80394 ATTTATAATA
*
80404 TTTATATTGTATT-TATTTTATTTATTT
1 TTTATATTATATTATATTTTATTTATTT
80431 TTTATATTATATTATATTTTATTTCATATT
1 TTTATATTATATTATATTTTATTT-AT-TT
80461 TTTA
1 TTTA
80465 ATATCTTATC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 12 0.40
28 10 0.33
29 2 0.07
30 6 0.20
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (28 bp):
TTTATATTATATTATATTTTATTTATTT
Found at i:81593 original size:6 final size:7
Alignment explanation
Indices: 81569--81607 Score: 53
Period size: 7 Copynumber: 5.4 Consensus size: 7
81559 AAAAATATTA
81569 TAAATAT
1 TAAATAT
81576 TAAATAT
1 TAAATAT
81583 TAAAT-T
1 TAAATAT
81589 TAAATTTAT
1 TAAA--TAT
81598 TAAATAT
1 TAAATAT
81605 TAA
1 TAA
81608 TTAATTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
6 5 0.17
7 18 0.62
8 1 0.03
9 5 0.17
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TAAATAT
Found at i:81609 original size:15 final size:15
Alignment explanation
Indices: 81569--81614 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
81559 AAAAATATTA
*
81569 TAAATATTAA-ATAT
1 TAAATATTAATTTAT
81583 TAAAT-TTAAATTTAT
1 TAAATATT-AATTTAT
*
81598 TAAATATTAATTAAT
1 TAAATATTAATTTAT
81613 TA
1 TA
81615 TATAAATTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 2 0.07
14 7 0.26
15 16 0.59
16 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TAAATATTAATTTAT
Found at i:82149 original size:19 final size:20
Alignment explanation
Indices: 82104--82149 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 20
82094 TTTAAGTTAC
*
82104 AAATTTTTA-ATTTTATATT
1 AAATATTTATATTTTATATT
82123 AAA-A-TTATATTTT-TATT
1 AAATATTTATATTTTATATT
82140 AAATATTTAT
1 AAATATTTAT
82150 TATGTTTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 10 0.43
18 6 0.26
19 7 0.30
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
AAATATTTATATTTTATATT
Found at i:86230 original size:16 final size:16
Alignment explanation
Indices: 86211--86277 Score: 61
Period size: 16 Copynumber: 4.2 Consensus size: 16
86201 AAATATATTT
86211 TAAAATTTATATAATA
1 TAAAATTTATATAATA
86227 T-AAA-TTAT-TAAGTA
1 TAAAATTTATATAA-TA
86241 TCAAAATTTATATAAATA
1 T-AAAATTTATAT-AATA
*
86259 TAAAATATTACA-AATA
1 TAAAAT-TTATATAATA
86275 TAA
1 TAA
86278 TTATGATATA
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
13 3 0.07
14 7 0.16
15 3 0.07
16 11 0.26
17 9 0.21
18 8 0.19
19 2 0.05
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.39
Consensus pattern (16 bp):
TAAAATTTATATAATA
Found at i:87702 original size:60 final size:61
Alignment explanation
Indices: 87638--87756 Score: 152
Period size: 60 Copynumber: 2.0 Consensus size: 61
87628 TATATGATAG
* *
87638 TAATTCAATTGATAAA-TTTATTTATATAATTACATTAATTTTAATTT-AATTGATGATTAC
1 TAATTCAATTAATAAATTTTA-TTATATAATTACATTAATTTCAATTTAAATTGATGATTAC
* * * * *
87698 TAATTTAATTAATAAATTTTATTGTGTAATTGCATTAATTTCACTTTAAATTGATGATT
1 TAATTCAATTAATAAATTTTATTATATAATTACATTAATTTCAATTTAAATTGATGATT
87757 TGTAGTCCAA
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
60 35 0.70
61 15 0.30
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.50
Consensus pattern (61 bp):
TAATTCAATTAATAAATTTTATTATATAATTACATTAATTTCAATTTAAATTGATGATTAC
Found at i:87779 original size:60 final size:59
Alignment explanation
Indices: 87638--87779 Score: 140
Period size: 60 Copynumber: 2.4 Consensus size: 59
87628 TATATGATAG
* * *
87638 TAATTCAATTGATAAATTTATTTATATAATTACATTAATTTTAATTTAATTGATGATTAC
1 TAATCCAATTAATAAATTTA-TTATATAATTACATTAATTTCAATTTAATTGATGATTAC
** * * * * **
87698 TAATTTAATTAATAAATTTTATTGTGTAATTGCATTAATTTCACTTTAAATTGATGATTTG
1 TAATCCAATTAATAAA-TTTATTATATAATTACATTAATTTCAATTT-AATTGATGATTAC
* *
87759 TAGTCCAATTATTAAATTTAT
1 TAATCCAATTAATAAATTTAT
87780 ACACATAGTT
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
60 40 0.60
61 27 0.40
ACGTcount: A:0.37, C:0.06, G:0.07, T:0.50
Consensus pattern (59 bp):
TAATCCAATTAATAAATTTATTATATAATTACATTAATTTCAATTTAATTGATGATTAC
Found at i:87878 original size:61 final size:60
Alignment explanation
Indices: 87812--88211 Score: 183
Period size: 61 Copynumber: 6.7 Consensus size: 60
87802 GTTGATATTA
*
87812 GTGATTAGTCGTCCAATTTATGAATTTGTATATATAGTTATACTTATTCTATTTTAAATTG
1 GTGATTAGTAGTCCAATTTAT-AATTTGTATATATAGTTATACTTATTCTATTTTAAATTG
* * * * *
87873 ATGATTAATAGTCTAATTTAT-A----TAT-T-TAGTCATCCTTATTCTATTTTAAATTG
1 GTGATTAGTAGTCCAATTTATAATTTGTATATATAGTTATACTTATTCTATTTTAAATTG
* * * * * * * * *
87926 GTGATTAGGAGTTCAATTGATAAATTTGTATAGATAATTACACTAATTCCACTTTAAATTG
1 GTGATTAGTAGTCCAATTTAT-AATTTGTATATATAGTTATACTTATTCTATTTTAAATTG
*** * * * * * * *
87987 GTGATTTA-TAGTCTGGTTGATGAATTTGCATATGTATTTACACTAATGT-TATTTCAAATTG
1 GTGA-TTAGTAGTCCAATTTAT-AATTTGTATATATAGTTATACTTAT-TCTATTTTAAATTG
* * ** * * * * *
88048 GTGAATAATAGTCCAATAGATGAATTTGTATATGTACG-TACACTAATTCTAATTCAAATTG
1 GTGATTAGTAGTCCAATTTAT-AATTTGTATATATA-GTTATACTTATTCTATTTTAAATTG
** * * * * * * *
88109 GTGATTAGTAGTTTAATTGAT-GTGTTTTATCATGTAGTTACACTAATTTTATTTTAAATTG
1 GTGATTAGTAGTCCAATTTATAAT-TTGTAT-ATATAGTTATACTTATTCTATTTTAAATTG
* * * * * * *
88170 GTTATTAATAGTCTAATTGATCAATTTATACATATAATTATA
1 GTGATTAGTAGTCCAATTTAT-AATTTGTATATATAGTTATA
88212 TTAATAGTAA
Statistics
Matches: 261, Mismatches: 60, Indels: 36
0.73 0.17 0.10
Matches are distributed among these distances:
53 40 0.15
54 1 0.00
55 4 0.02
59 5 0.02
60 9 0.03
61 193 0.74
62 8 0.03
63 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.45
Consensus pattern (60 bp):
GTGATTAGTAGTCCAATTTATAATTTGTATATATAGTTATACTTATTCTATTTTAAATTG
Found at i:88078 original size:122 final size:122
Alignment explanation
Indices: 87914--88196 Score: 311
Period size: 122 Copynumber: 2.3 Consensus size: 122
87904 ATCCTTATTC
** * * *
87914 TATTTTAAATTGGTGATTAGGAGTTCAATTGATAAATTTGTATA-GATAATTACACTAATTCCAC
1 TATTTTAAATTGGTGATTAATAGTCCAATTGATAAATTTGTATATG-TAAGTACACTAATTCCAA
* ** *
87978 TTTAAATTGGTGATTTA-TAGTCTGGTTGATGAATTTGCAT-ATGTATTTACACTAATGT
65 TTCAAATTGGTGA-TTAGTAGTCTAATTGATGAATTT-CATCATGTAGTTACACTAATGT
* * * * * *
88036 TATTTCAAATTGGTGAATAATAGTCCAATAGATGAATTTGTATATGTACGTACACTAATTCTAAT
1 TATTTTAAATTGGTGATTAATAGTCCAATTGATAAATTTGTATATGTAAGTACACTAATTCCAAT
* ** * *
88101 TCAAATTGGTGATTAGTAGTTTAATTGATGTGTTTTATCATGTAGTTACACTAATTT
66 TCAAATTGGTGATTAGTAGTCTAATTGATGAATTTCATCATGTAGTTACACTAATGT
* * *
88158 TATTTTAAATTGGTTATTAATAGTCTAATTGATCAATTT
1 TATTTTAAATTGGTGATTAATAGTCCAATTGATAAATTT
88197 ATACATATAA
Statistics
Matches: 132, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
121 5 0.04
122 126 0.95
123 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.15, T:0.44
Consensus pattern (122 bp):
TATTTTAAATTGGTGATTAATAGTCCAATTGATAAATTTGTATATGTAAGTACACTAATTCCAAT
TCAAATTGGTGATTAGTAGTCTAATTGATGAATTTCATCATGTAGTTACACTAATGT
Found at i:88223 original size:122 final size:123
Alignment explanation
Indices: 88018--88248 Score: 284
Period size: 122 Copynumber: 1.9 Consensus size: 123
88008 GAATTTGCAT
* * * * *
88018 ATGTATTTACACTAATGTTATTTCAAATTGGTGAATAATAGTCCAATAGATGAATTTGTATATGT
1 ATGTAGTTACACTAATGTTATTTCAAATTGGTGAATAATAGTCCAATAGATCAATTTATACATAT
* *
88083 ACGTACACTAATTCTAATTCA-AATTGGTGATTAGTAGTTTAATTGATGTGTTTTATC
66 AAGTACACTAATACTAATTCAGAATTGGTGATTAGTAGTTTAATTGATGTGTTTTATC
* * * * * *
88140 ATGTAGTTACACTAATTTTATTTTAAATTGGTTATTAATAGTCTAATTGATCAATTTATACATAT
1 ATGTAGTTACACTAATGTTATTTCAAATTGGTGAATAATAGTCCAATAGATCAATTTATACATAT
* * * * * *
88205 AATTATATTAATAGTAATTGAGAATTGGTGGTTAGTAGTTTAAT
66 AAGTACACTAATACTAATTCAGAATTGGTGATTAGTAGTTTAAT
88249 CAATGAATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
122 68 0.76
123 21 0.24
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (123 bp):
ATGTAGTTACACTAATGTTATTTCAAATTGGTGAATAATAGTCCAATAGATCAATTTATACATAT
AAGTACACTAATACTAATTCAGAATTGGTGATTAGTAGTTTAATTGATGTGTTTTATC
Found at i:92771 original size:2 final size:2
Alignment explanation
Indices: 92764--92791 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
92754 ATACTCAGTC
92764 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
92792 GGGTGCGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:92957 original size:24 final size:24
Alignment explanation
Indices: 92930--92976 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
92920 AAATAAATTT
* *
92930 TAAAAATTAATTATTTTTATTATA
1 TAAAAATTAAATATTTATATTATA
**
92954 TAAATTTTAAATATTTATATTAT
1 TAAAAATTAAATATTTATATTAT
92977 TTATTATATT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TAAAAATTAAATATTTATATTATA
Found at i:92960 original size:31 final size:31
Alignment explanation
Indices: 92922--92985 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
92912 TTATATTTAA
92922 ATAAATTTTAAAAATTAATTATT-TTTATTAT
1 ATAAATTTTAAAAATTAA-TATTATTTATTAT
* *
92953 ATAAATTTTAAATATTTATATTATTTATTAT
1 ATAAATTTTAAAAATTAATATTATTTATTAT
92984 AT
1 AT
92986 TATATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.13
31 26 0.87
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
ATAAATTTTAAAAATTAATATTATTTATTAT
Found at i:92995 original size:41 final size:40
Alignment explanation
Indices: 92939--93022 Score: 98
Period size: 41 Copynumber: 2.1 Consensus size: 40
92929 TTAAAAATTA
* *
92939 ATTATTTTTATTATATAAATTTTA-AATATTTATATTATTT
1 ATTATTTATATTATAT-AATTTTATAATATTTATATTATAT
** *
92979 ATTATATTATATTATATTTTTTTATCATATTTATATTATAT
1 ATTAT-TTATATTATATAATTTTATAATATTTATATTATAT
93020 ATT
1 ATT
93023 TGTGTCAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
40 10 0.27
41 27 0.73
ACGTcount: A:0.36, C:0.01, G:0.00, T:0.63
Consensus pattern (40 bp):
ATTATTTATATTATATAATTTTATAATATTTATATTATAT
Found at i:93017 original size:24 final size:23
Alignment explanation
Indices: 92968--93019 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
92958 TTTTAAATAT
*
92968 TTATA-TTATTTATTATATTATA
1 TTATATTTATTTATCATATTATA
*
92990 TTATATTTTTTTATCATATTTATA
1 TTATATTTATTTATCATA-TTATA
93014 TTATAT
1 TTATAT
93020 ATTTGTGTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
22 5 0.19
23 10 0.38
24 11 0.42
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (23 bp):
TTATATTTATTTATCATATTATA
Found at i:93034 original size:24 final size:24
Alignment explanation
Indices: 92985--93035 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
92975 ATTTATTATA
* * *
92985 TTATATTATATTTTTTTATCATAT
1 TTATATTATATATTTGTATCAAAT
*
93009 TTATATTATATATTTGTGTCAAAT
1 TTATATTATATATTTGTATCAAAT
93033 TTA
1 TTA
93036 ATGCATTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.31, C:0.04, G:0.04, T:0.61
Consensus pattern (24 bp):
TTATATTATATATTTGTATCAAAT
Found at i:94055 original size:3 final size:3
Alignment explanation
Indices: 94047--94138 Score: 78
Period size: 3 Copynumber: 30.3 Consensus size: 3
94037 AAAAATATCT
* * * ** *
94047 TTA TTA TTA TTA TTA TTA TTA TTA GTTA CTA -AA TGA TATA AAA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA
* * *
94093 TCA TCA TCA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
94139 GTCTAAGTGT
Statistics
Matches: 76, Mismatches: 10, Indels: 6
0.83 0.11 0.07
Matches are distributed among these distances:
2 1 0.01
3 71 0.93
4 4 0.05
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (3 bp):
TTA
Found at i:94315 original size:13 final size:12
Alignment explanation
Indices: 94289--94327 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
94279 ATATTTATAT
94289 TTAAATAT-ATA
1 TTAAATATAATA
94300 TTAAATATAAATA
1 TTAAATAT-AATA
94313 TTAAATATTAATA
1 TTAAATA-TAATA
94326 TT
1 TT
94328 TTAAAATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 8 0.32
13 16 0.64
14 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTAAATATAATA
Found at i:95331 original size:17 final size:18
Alignment explanation
Indices: 95301--95334 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
95291 TTATTGTAAA
*
95301 AAAATATTACAAAAAATT
1 AAAATATTAAAAAAAATT
95319 AAAA-ATTAAAAAAAAT
1 AAAATATTAAAAAAAAT
95335 ATATCTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
AAAATATTAAAAAAAATT
Found at i:97108 original size:24 final size:22
Alignment explanation
Indices: 97033--97101 Score: 104
Period size: 23 Copynumber: 3.0 Consensus size: 22
97023 ATACTATACG
97033 AAAA-AATTAAATATAATATAGA
1 AAAATAATTAAATATAATATA-A
97055 AAAATAATTAAATTATAATATAA
1 AAAATAATTAAA-TATAATATAA
97078 AAAATAATATAAATATAATATAA
1 AAAATAAT-TAAATATAATATAA
97101 A
1 A
97102 TACATAAATT
Statistics
Matches: 44, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
22 4 0.09
23 27 0.61
24 13 0.30
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.30
Consensus pattern (22 bp):
AAAATAATTAAATATAATATAA
Found at i:98353 original size:25 final size:25
Alignment explanation
Indices: 98321--98376 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
98311 TTTATTTTTA
*
98321 ATATTTT-TTTATATATTTAAAATATT
1 ATATTTTATATATATATTT-AAATA-T
*
98347 ATATTTTATATTTATATTTAAATAT
1 ATATTTTATATATATATTTAAATAT
98372 ATATT
1 ATATT
98377 AAATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 6 0.22
26 12 0.44
27 9 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (25 bp):
ATATTTTATATATATATTTAAATAT
Found at i:98358 original size:21 final size:21
Alignment explanation
Indices: 98307--98360 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
98297 ATTTAGTAAA
*
98307 ATATTTTAT-TTT-TAATATT
1 ATATTTTATATTTAAAATATT
*
98326 -TTTTTATATATTTAAAATATT
1 ATATTT-TATATTTAAAATATT
98347 ATATTTTATATTTA
1 ATATTTTATATTTA
98361 TATTTAAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 4 0.14
19 3 0.11
20 3 0.11
21 14 0.50
22 4 0.14
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATATTTTATATTTAAAATATT
Found at i:98383 original size:27 final size:27
Alignment explanation
Indices: 98332--98382 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 27
98322 TATTTTTTTA
*
98332 TATATTTAAAATATTATATTTTATATT
1 TATATTTAAAATATTATATTATATATT
*
98359 TATATTT-AAATA-TATATTAAATAT
1 TATATTTAAAATATTATATTATATAT
98383 AAATATCATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 10 0.45
26 5 0.23
27 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (27 bp):
TATATTTAAAATATTATATTATATATT
Found at i:98387 original size:17 final size:18
Alignment explanation
Indices: 98365--98398 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
98355 TATTTATATT
*
98365 TAAATAT-ATATTAAATA
1 TAAATATCATATAAAATA
98382 TAAATATCATATAAAAT
1 TAAATATCATATAAAAT
98399 TATATTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATATCATATAAAATA
Found at i:98388 original size:25 final size:27
Alignment explanation
Indices: 98333--98388 Score: 62
Period size: 25 Copynumber: 2.1 Consensus size: 27
98323 ATTTTTTTAT
** **
98333 ATATTTAAAATATTATATTTTATATTT
1 ATATTTAAAATATTATATTAAATATAA
98360 ATATTT-AAATA-TATATTAAATATAA
1 ATATTTAAAATATTATATTAAATATAA
98385 ATAT
1 ATAT
98389 CATATAAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
25 14 0.56
26 5 0.20
27 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
ATATTTAAAATATTATATTAAATATAA
Found at i:100713 original size:17 final size:17
Alignment explanation
Indices: 100671--100716 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
100661 TTTATAATTA
100671 AATTTAAA-TAAA-AAT
1 AATTTAAATTAAATAAT
* **
100686 TATTTTTATTAAATAAT
1 AATTTAAATTAAATAAT
100703 AATTTAAATTAAAT
1 AATTTAAATTAAAT
100717 CAATTCAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
15 5 0.22
16 4 0.17
17 14 0.61
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTTAAATTAAATAAT
Found at i:105791 original size:6 final size:7
Alignment explanation
Indices: 105770--105794 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
105760 ATCTCATTAA
105770 TTTATTT
1 TTTATTT
105777 TTTATTT
1 TTTATTT
105784 TTTATTT
1 TTTATTT
105791 TTTA
1 TTTA
105795 AATATATTCT
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TTTATTT
Found at i:107222 original size:28 final size:29
Alignment explanation
Indices: 107190--107254 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
107180 TTTTATTATA
107190 AATTTTTAA-AAATAAATATAA-ATAATTT
1 AATTTTTAATAAATAAA-ATAATATAATTT
* * *
107218 TATTTTTAATTAATAAAATAATATTATTT
1 AATTTTTAATAAATAAAATAATATAATTT
107247 AATTTTTA
1 AATTTTTA
107255 TTTTACAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
AATTTTTAATAAATAAAATAATATAATTT
Found at i:111526 original size:6 final size:6
Alignment explanation
Indices: 111515--111539 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
111505 CAGGAGATGT
111515 GGGAAA GGGAAA GGGAAA GGGAAA G
1 GGGAAA GGGAAA GGGAAA GGGAAA G
111540 AAAAAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (6 bp):
GGGAAA
Found at i:113122 original size:6 final size:7
Alignment explanation
Indices: 113105--113130 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
113095 GTGCAGAGTT
113105 TTTTTTA
1 TTTTTTA
113112 TTTTTTA
1 TTTTTTA
113119 TTTTTTA
1 TTTTTTA
113126 TTTTT
1 TTTTT
113131 CTAATTAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:114538 original size:15 final size:15
Alignment explanation
Indices: 114507--114616 Score: 61
Period size: 15 Copynumber: 7.1 Consensus size: 15
114497 TTAATAATTA
114507 ATATATTTTT-ATCAT
1 ATATATTTTTAAT-AT
114522 ATATATTTTTAATAT
1 ATATATTTTTAATAT
114537 ATTATAATTATATTTAATAT
1 A-TAT-A-T-T-TTTAATAT
*
114557 ATTATATATTT-ATAT
1 A-TATATTTTTAATAT
*
114572 A-A-A-TTTTAATAA
1 ATATATTTTTAATAT
*
114584 ATTAATATTTTTATTAT
1 A-T-ATATTTTTAATAT
*
114601 ATAAATTTTT-ATAT
1 ATATATTTTTAATAT
114615 AT
1 AT
114617 TTATACATTT
Statistics
Matches: 76, Mismatches: 7, Indels: 25
0.70 0.06 0.23
Matches are distributed among these distances:
11 3 0.04
12 5 0.07
13 1 0.01
14 5 0.07
15 26 0.34
16 10 0.13
17 9 0.12
18 2 0.03
19 2 0.03
20 13 0.17
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (15 bp):
ATATATTTTTAATAT
Found at i:114548 original size:22 final size:23
Alignment explanation
Indices: 114504--114664 Score: 70
Period size: 20 Copynumber: 6.8 Consensus size: 23
114494 AATTTAATAA
* *
114504 TTAATATATTTTTATCATATATATTT
1 TTAATATA-TTATAT-ATTTATA-TT
114530 TTAATATATTATA-A-TTATA-T
1 TTAATATATTATATATTTATATT
114550 TTAATATATTATATATTTATATAAATT
1 TTAATATATTATATA-TT-TAT--ATT
* *
114577 TTAATAAATTA-ATATTTTTATT
1 TTAATATATTATATATTTATATT
*
114599 ATATAA-ATTTTTATATATTTATACATT
1 -T-TAATA-TATTATATATTTAT--ATT
*
114626 TATATTATATT-TATA-TTAT-TT
1 T-TAATATATTATATATTTATATT
*
114647 TT-ATATTATTTTATATTT
1 TTAATA-TATTATATATTT
114665 TAATTTTTTA
Statistics
Matches: 108, Mismatches: 10, Indels: 38
0.69 0.06 0.24
Matches are distributed among these distances:
19 2 0.02
20 19 0.18
21 8 0.07
22 9 0.08
23 4 0.04
24 15 0.14
25 17 0.16
26 19 0.18
27 15 0.14
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (23 bp):
TTAATATATTATATATTTATATT
Found at i:114577 original size:79 final size:81
Alignment explanation
Indices: 114492--114652 Score: 201
Period size: 79 Copynumber: 2.0 Consensus size: 81
114482 TAGAAAAAAT
*
114492 TAAA-TTTAAT-AATTAATATATTTTTATCATATATATTTTTA-ATATATTATA-A-TTATATT-
1 TAAATTTTAATAAATT-A-ATATTTTTATCATATAAATTTTTATATAT-TTATACATTTATATTA
114551 TA-ATATATTATATATTTATA
63 TATATATATTAT-T-TTTATA
*
114571 TAAATTTTAATAAATTAATATTTTTATTATATAAATTTTTATATATTTATACATTTATATTATAT
1 TAAATTTTAATAAATTAATATTTTTATCATATAAATTTTTATATATTTATACATTTATATTATAT
*
114636 TTATATTATTTTTATA
66 ATATATTATTTTTATA
114652 T
1 T
114653 TATTTTATAT
Statistics
Matches: 72, Mismatches: 3, Indels: 12
0.83 0.03 0.14
Matches are distributed among these distances:
79 31 0.43
80 12 0.17
81 18 0.25
82 3 0.04
83 8 0.11
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (81 bp):
TAAATTTTAATAAATTAATATTTTTATCATATAAATTTTTATATATTTATACATTTATATTATAT
ATATATTATTTTTATA
Found at i:114628 original size:31 final size:31
Alignment explanation
Indices: 114566--114628 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
114556 TATTATATAT
**
114566 TTATATAAATTTTAATAAATTAATATTTTTA
1 TTATATAAATTTTAATAAATTAATACATTTA
* * *
114597 TTATATAAATTTTTATATATTTATACATTTA
1 TTATATAAATTTTAATAAATTAATACATTTA
114628 T
1 T
114629 ATTATATTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (31 bp):
TTATATAAATTTTAATAAATTAATACATTTA
Found at i:114639 original size:11 final size:11
Alignment explanation
Indices: 114623--114663 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
114613 ATATTTATAC
114623 ATTTATATTAT
1 ATTTATATTAT
114634 ATTTATATTAT
1 ATTTATATTAT
*
114645 TTTTATATTAT
1 ATTTATATTAT
114656 -TTTATATT
1 ATTTATATT
114664 TTAATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTTATATTAT
Found at i:114655 original size:27 final size:26
Alignment explanation
Indices: 114591--114686 Score: 74
Period size: 28 Copynumber: 3.7 Consensus size: 26
114581 TAAATTAATA
*
114591 TTTT-TATTATA-TAAATTTTTATATAT
1 TTTTATATTATATTATA-TTTTAT-TAT
* *
114617 TTATACATTTATATTATATTTATATTAT
1 TTTTATA-TTATATTATATTT-TATTAT
* *
114645 TTTTATATTATTTTATATTTTAAT-T
1 TTTTATATTATATTATATTTTATTAT
*
114670 TTTTAT-TTATATCATAT
1 TTTTATATTATATTATAT
114687 AATTTGTATT
Statistics
Matches: 57, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
24 9 0.16
25 7 0.12
26 6 0.11
27 13 0.23
28 16 0.28
29 6 0.11
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
TTTTATATTATATTATATTTTATTAT
Found at i:114668 original size:79 final size:79
Alignment explanation
Indices: 114492--114681 Score: 198
Period size: 79 Copynumber: 2.4 Consensus size: 79
114482 TAGAAAAAAT
* *
114492 TAAA-TTTAAT-AATTAATATATTTTTATCATATATATTTTTAATATATTATAATTATATTTAAT
1 TAAATTTTAATAAATT-A-ATATTTTTATTATATAAATTTTTAATATATTATAATTATATTTAAT
114555 ATATTATATATTTATA
64 ATATTATATATTTATA
114571 TAAATTTTAATAAATTAATATTTTTATTATATAAATTTTT-ATATATTTATACATT-TATATT-A
1 TAAATTTTAATAAATTAATATTTTTATTATATAAATTTTTAATATA-TTATA-ATTATAT-TTAA
*
114633 TAT-TTATATTATTTTTA
63 TATATTATA-TATTTATA
* **
114650 TATTATTTT-ATATTTTAAT-TTTTTATTTATAT
1 TA-AATTTTAATAAATTAATATTTTTA-TTATAT
114682 CATATAATTT
Statistics
Matches: 97, Mismatches: 6, Indels: 16
0.82 0.05 0.13
Matches are distributed among these distances:
78 16 0.16
79 60 0.62
80 17 0.18
81 4 0.04
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.60
Consensus pattern (79 bp):
TAAATTTTAATAAATTAATATTTTTATTATATAAATTTTTAATATATTATAATTATATTTAATAT
ATTATATATTTATA
Found at i:115015 original size:21 final size:21
Alignment explanation
Indices: 114973--115022 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
114963 ATTTATTTAA
* **
114973 ATTTAAATAATTATTTTTATT
1 ATTTAAATAATAATTTAAATT
114994 ATTTAAATAATAATTTAAATT
1 ATTTAAATAATAATTTAAATT
115015 ATTATAAA
1 ATT-TAAA
115023 ATTTATCTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 21 0.84
22 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTTAAATAATAATTTAAATT
Found at i:116478 original size:28 final size:30
Alignment explanation
Indices: 116400--116468 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 30
116390 TTATATTTTT
*
116400 AATTATTTTAAAATTTAAAATATAATAATAA
1 AATTATTCTAAAA-TTAAAATATAATAATAA
* *
116431 ATTTGTTCTAAAAATTAAAATATAATAATAA
1 AATTATTCT-AAAATTAAAATATAATAATAA
116462 AATTATT
1 AATTATT
116469 TCAATTAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 28 0.88
32 4 0.12
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (30 bp):
AATTATTCTAAAATTAAAATATAATAATAA
Found at i:117060 original size:2 final size:2
Alignment explanation
Indices: 117053--117097 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
117043 GATAAATCGA
117053 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
117095 AT A
1 AT A
117098 AAGTTAAAGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117292 original size:18 final size:18
Alignment explanation
Indices: 117243--117309 Score: 61
Period size: 18 Copynumber: 3.9 Consensus size: 18
117233 AACTTTGAGT
*
117243 ATAAA-ATAAAAATTAAA
1 ATAAATATATAAATTAAA
* *
117260 TTAAA-A-ATTAATTAAA
1 ATAAATATATAAATTAAA
*
117276 ATAAGATATA-AAATTAAT
1 ATAA-ATATATAAATTAAA
117294 ATAAATATATAAATTA
1 ATAAATATATAAATTA
117310 TTGAAATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
16 11 0.28
17 11 0.28
18 17 0.43
19 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.33
Consensus pattern (18 bp):
ATAAATATATAAATTAAA
Found at i:117692 original size:14 final size:15
Alignment explanation
Indices: 117668--117700 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
117658 TTTTCCAAAA
117668 AAAAATCCATTTTCT
1 AAAAATCCATTTTCT
*
117683 AAAAAT-CATTTTGT
1 AAAAATCCATTTTCT
117697 AAAA
1 AAAA
117701 TTAATTTCCC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.48, C:0.12, G:0.03, T:0.36
Consensus pattern (15 bp):
AAAAATCCATTTTCT
Found at i:119313 original size:22 final size:23
Alignment explanation
Indices: 119267--119314 Score: 64
Period size: 22 Copynumber: 2.1 Consensus size: 23
119257 TTGGTAAATT
*
119267 TTTAAATAATAATAATTAATTAA
1 TTTAAATAATAATAATTAATAAA
119290 TTTAAATAA-AA-AATTTAATAAA
1 TTTAAATAATAATAA-TTAATAAA
119312 TTT
1 TTT
119315 TTTCAAAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 2 0.09
22 12 0.52
23 9 0.39
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTTAAATAATAATAATTAATAAA
Found at i:120319 original size:2 final size:2
Alignment explanation
Indices: 120312--120343 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
120302 TTAATTTTGT
120312 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
120344 AAAAGTGAAT
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):
TA
Found at i:121626 original size:19 final size:18
Alignment explanation
Indices: 121590--121629 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
121580 TTTTTTTAGG
**
121590 AAAAAAATAAAGTAAAGA
1 AAAAAAATAAAAAAAAGA
121608 AAAAAAATAAAAAACAAGA
1 AAAAAAATAAAAAA-AAGA
121627 AAA
1 AAA
121630 CAGGGGAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.82, C:0.03, G:0.07, T:0.07
Consensus pattern (18 bp):
AAAAAAATAAAAAAAAGA
Found at i:122260 original size:35 final size:36
Alignment explanation
Indices: 122209--122277 Score: 90
Period size: 35 Copynumber: 1.9 Consensus size: 36
122199 AGTGTCAACT
122209 TTTTTAATAATTTAAA-TAATATTAAAATATTTATATA
1 TTTTTAATAATTTAAATTAA-A-TAAAATATTTATATA
122246 TTTTT-ATAA-TTAAATTTAAATAAAATATTTAT
1 TTTTTAATAATTTAAA-TTAAATAAAATATTTAT
122278 TAAATAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
35 17 0.57
36 5 0.17
37 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (36 bp):
TTTTTAATAATTTAAATTAAATAAAATATTTATATA
Done.