Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold335
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: 202493
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.36
File 1 of 2
Found at i:4294 original size:17 final size:18
Alignment explanation
Indices: 4272--4314 Score: 63
Period size: 17 Copynumber: 2.5 Consensus size: 18
4262 AATATTTTTA
4272 AAATTTAATTTT-AAATT
1 AAATTTAATTTTAAAATT
*
4289 AAATTTACTTTTAAAATT
1 AAATTTAATTTTAAAATT
4307 -AATTTAAT
1 AAATTTAAT
4315 ATGATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 18 0.78
18 5 0.22
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATTTAATTTTAAAATT
Found at i:4337 original size:15 final size:15
Alignment explanation
Indices: 4319--4356 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
4309 TTTAATATGA
4319 TTAAATAAAATAAAT
1 TTAAATAAAATAAAT
4334 TTAAAT-AAATAAAT
1 TTAAATAAAATAAAT
4348 TT-AATAAAA
1 TTAAATAAAA
4357 ATAGATCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 13 0.59
15 6 0.27
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TTAAATAAAATAAAT
Found at i:4434 original size:115 final size:114
Alignment explanation
Indices: 4206--4414 Score: 244
Period size: 115 Copynumber: 1.8 Consensus size: 114
4196 AATTTTTTTA
* * * * *
4206 AAATAAAATAAACTTAAATAAAAAATTAAATAGTACATAAATTATGTTTTATTTAAAATATTTTT
1 AAATAAAATAAACTTAAATAAAAAATTAAATAGAAAATAAATCATATTCTATTTAAAATATTTTT
* * *
4271 AAAATTTAATTTTAAATTAAATTTACTTTTAAAATTAATTTAATATGATT
66 AAAATTTAATTTTAAATTAAA-TTAATTTTAAAATTAATCTAAGATGATT
* * *
4321 AAATAAAATAAATTTAAATAAATAAATTTAATA-AAAATAGATCATATTCTA-TTAAAATATTTT
1 AAATAAAATAAACTTAAATAAA-AAATTAAATAGAAAATAAATCATATTCTATTTAAAATA-TTT
*
4384 TAATAAAATTTGATTTTAAATTAAA-TAATTT
64 T--TAAAATTTAATTTTAAATTAAATTAATTT
4415 ATAATTTTAT
Statistics
Matches: 80, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
114 8 0.10
115 42 0.52
116 9 0.11
117 21 0.26
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (114 bp):
AAATAAAATAAACTTAAATAAAAAATTAAATAGAAAATAAATCATATTCTATTTAAAATATTTTT
AAAATTTAATTTTAAATTAAATTAATTTTAAAATTAATCTAAGATGATT
Found at i:4590 original size:17 final size:17
Alignment explanation
Indices: 4568--4619 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
4558 ATTTTTTAAA
4568 AAAATTAAAATATTTTC
1 AAAATTAAAATATTTTC
* * *
4585 ATAATTAAAATTTTTTA
1 AAAATTAAAATATTTTC
* *
4602 AAAAATAAATTATTTTC
1 AAAATTAAAATATTTTC
4619 A
1 A
4620 CCTTTAACAT
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (17 bp):
AAAATTAAAATATTTTC
Found at i:5646 original size:17 final size:17
Alignment explanation
Indices: 5618--5681 Score: 55
Period size: 17 Copynumber: 3.9 Consensus size: 17
5608 TATTTTATAT
5618 TTATA-TAA-ATTTAAA
1 TTATATTAATATTTAAA
**
5633 TTATATTAATATTTTTA
1 TTATATTAATATTTAAA
*
5650 TTATATAAAT-TTTAAAA
1 TTATATTAATATTT-AAA
5667 TATATATT-ATATTTA
1 T-TATATTAATATTTA
5682 TATAATCGTT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
15 5 0.13
16 6 0.16
17 19 0.50
18 8 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATATTAATATTTAAA
Found at i:5657 original size:32 final size:37
Alignment explanation
Indices: 5606--5685 Score: 109
Period size: 34 Copynumber: 2.3 Consensus size: 37
5596 TTGAATTTAA
5606 AATATTTTATATTTATATAAA-TTT-AAAT-TATATT
1 AATATTTTATATTTATATAAATTTTAAAATATATATT
5640 AATATTTT-TA-TTATATAAATTTTAAAATATATATT
1 AATATTTTATATTTATATAAATTTTAAAATATATATT
5675 -ATATTTATATA
1 AATATTT-TATA
5686 ATCGTTTATA
Statistics
Matches: 41, Mismatches: 0, Indels: 8
0.84 0.00 0.16
Matches are distributed among these distances:
32 9 0.22
33 5 0.12
34 18 0.44
35 7 0.17
36 2 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (37 bp):
AATATTTTATATTTATATAAATTTTAAAATATATATT
Found at i:11470 original size:67 final size:67
Alignment explanation
Indices: 11362--11495 Score: 268
Period size: 67 Copynumber: 2.0 Consensus size: 67
11352 TGGAATAGAA
11362 AGGCAATCACATAAACAACCTTCTAAATGGAACACCTGCTACAATTTTAGAATGTAATTTAGATG
1 AGGCAATCACATAAACAACCTTCTAAATGGAACACCTGCTACAATTTTAGAATGTAATTTAGATG
11427 AT
66 AT
11429 AGGCAATCACATAAACAACCTTCTAAATGGAACACCTGCTACAATTTTAGAATGTAATTTAGATG
1 AGGCAATCACATAAACAACCTTCTAAATGGAACACCTGCTACAATTTTAGAATGTAATTTAGATG
11494 AT
66 AT
11496 GCCACCAAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 67 1.00
ACGTcount: A:0.40, C:0.18, G:0.13, T:0.28
Consensus pattern (67 bp):
AGGCAATCACATAAACAACCTTCTAAATGGAACACCTGCTACAATTTTAGAATGTAATTTAGATG
AT
Found at i:13620 original size:25 final size:27
Alignment explanation
Indices: 13592--13643 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
13582 ATTTTATTGG
13592 AATTAAAATTTAATTT-T-TTTAAATA
1 AATTAAAATTTAATTTATATTTAAATA
***
13617 AATTTTTATTTAATTTATATTTAAATA
1 AATTAAAATTTAATTTATATTTAAATA
13644 TATTCTTAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 13 0.59
26 1 0.05
27 8 0.36
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
AATTAAAATTTAATTTATATTTAAATA
Found at i:13687 original size:17 final size:18
Alignment explanation
Indices: 13665--13700 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
13655 CTAAGCAATT
13665 TTTTATTT-AAAATAAAA
1 TTTTATTTGAAAATAAAA
*
13682 TTTTATTTGAATATAAAA
1 TTTTATTTGAAAATAAAA
13700 T
1 T
13701 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
TTTTATTTGAAAATAAAA
Found at i:14201 original size:20 final size:18
Alignment explanation
Indices: 14159--14207 Score: 53
Period size: 20 Copynumber: 2.6 Consensus size: 18
14149 ATAAAAAATT
*
14159 AATTTTTAAATATTTTAA
1 AATTTTTAAATATATTAA
*
14177 TATTTTTAAATAATAATTAA
1 AATTTTTAAAT-AT-ATTAA
*
14197 AATTTTCAAAT
1 AATTTTTAAAT
14208 CAAACTAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 10 0.40
19 2 0.08
20 13 0.52
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
AATTTTTAAATATATTAA
Found at i:15177 original size:21 final size:22
Alignment explanation
Indices: 15145--15187 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
15135 AAATTAAAAA
* *
15145 ATATATTTTTATGATAATATTT
1 ATATATTTTTATAATAAAATTT
15167 ATATA-TTTTATAATAAAATTT
1 ATATATTTTTATAATAAAATTT
15188 TAATAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATATATTTTTATAATAAAATTT
Found at i:17828 original size:37 final size:35
Alignment explanation
Indices: 17787--17864 Score: 97
Period size: 37 Copynumber: 2.2 Consensus size: 35
17777 TATTTTATTT
*
17787 TTTAAATGTAAAAATATTTT-TATATTTTATAATTAAA
1 TTTAAATATAAAAATATTTTAT-TA-TTTA-AATTAAA
*
17824 TTTAAATATAAATATATTTTATTATTTAAATTAAA
1 TTTAAATATAAAAATATTTTATTATTTAAATTAAA
17859 -TTAAAT
1 TTTAAAT
17865 TATTTTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
34 6 0.16
35 7 0.18
36 4 0.11
37 20 0.53
38 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (35 bp):
TTTAAATATAAAAATATTTTATTATTTAAATTAAA
Found at i:17876 original size:29 final size:30
Alignment explanation
Indices: 17807--17871 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 30
17797 AAAATATTTT
*
17807 TATATTTTA-TAATTAAATTTAAATATAAA
1 TATATTTTATTATTTAAATTTAAATATAAA
17836 TATATTTTATTATTTAAA-TTAAAT-TAAA
1 TATATTTTATTATTTAAATTTAAATATAAA
17864 T-TATTTTA
1 TATATTTTA
17872 AATTAGTGAG
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.21
28 5 0.15
29 15 0.44
30 7 0.21
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (30 bp):
TATATTTTATTATTTAAATTTAAATATAAA
Found at i:17964 original size:3 final size:3
Alignment explanation
Indices: 17956--17983 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17946 TGAAGAAAGC
17956 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
17984 GAAAAAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:18906 original size:3 final size:3
Alignment explanation
Indices: 18900--18932 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
18890 AAAATAACAT
18900 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
18933 GAAAAAAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20881 original size:60 final size:60
Alignment explanation
Indices: 20800--20917 Score: 200
Period size: 60 Copynumber: 2.0 Consensus size: 60
20790 GGTGATGAGC
* * *
20800 TGGATTCCTCTCTGGTTTCCTCTTGGAAACATGCTGCAGATGATGAGGATGATGGTGAAT
1 TGGATTCCTCTCTCGTGTCCTCTTGGAAACATGCTGCAAATGATGAGGATGATGGTGAAT
*
20860 TGGATTCTTCTCTCGTGTCCTCTTGGAAACATGCTGCAAATGATGAGGATGATGGTGA
1 TGGATTCCTCTCTCGTGTCCTCTTGGAAACATGCTGCAAATGATGAGGATGATGGTGA
20918 TGGCGTTGAC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 54 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (60 bp):
TGGATTCCTCTCTCGTGTCCTCTTGGAAACATGCTGCAAATGATGAGGATGATGGTGAAT
Found at i:21956 original size:15 final size:15
Alignment explanation
Indices: 21932--21961 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21922 AAAGCCTATC
21932 GTCTGGGGATGTTGA
1 GTCTGGGGATGTTGA
*
21947 GTCTGTGGATGTTGA
1 GTCTGGGGATGTTGA
21962 ACAAGCTGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.07, G:0.43, T:0.37
Consensus pattern (15 bp):
GTCTGGGGATGTTGA
Found at i:26086 original size:13 final size:15
Alignment explanation
Indices: 26068--26100 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
26058 ATGTTTAATA
26068 AATTTAAA-ATTT-T
1 AATTTAAATATTTAT
26081 AATTTAAATATTTAT
1 AATTTAAATATTTAT
26096 AATTT
1 AATTT
26101 TTAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 4 0.22
15 6 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTAAATATTTAT
Found at i:26400 original size:2 final size:2
Alignment explanation
Indices: 26393--26421 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
26383 CTTAAAGTTT
26393 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26422 GAAGCTGACT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:28115 original size:15 final size:16
Alignment explanation
Indices: 28085--28120 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
28075 GATTTGATCA
28085 TTTTTTAAATAATTATT
1 TTTTTTAAAT-ATTATT
28102 TTTTTTAAAT-TTATT
1 TTTTTTAAATATTATT
28117 TTTT
1 TTTT
28121 GAACTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.47
17 10 0.53
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTTTTAAATATTATT
Found at i:28246 original size:13 final size:14
Alignment explanation
Indices: 28206--28239 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
28196 AATATTTTTA
*
28206 ATTTAAATATAAAT
1 ATTTAAACATAAAT
28220 A-TTAAACATAAAT
1 ATTTAAACATAAAT
28233 ATTTAAA
1 ATTTAAA
28240 AAAAATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (14 bp):
ATTTAAACATAAAT
Found at i:28704 original size:20 final size:20
Alignment explanation
Indices: 28669--28707 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
28659 GTGACAAAAC
**
28669 AAGCCCAATCTTATGAATAT
1 AAGCCCAATCCAATGAATAT
28689 AAGCCCAATCCAATGAATA
1 AAGCCCAATCCAATGAATA
28708 AGACAACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.23
Consensus pattern (20 bp):
AAGCCCAATCCAATGAATAT
Found at i:29370 original size:21 final size:21
Alignment explanation
Indices: 29346--29390 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
29336 TTTATTTAAT
* *
29346 AAATA-ATAAAATTTTATTATA
1 AAATATAT-AAATATTAATATA
29367 AAATATATAAATATTAATATA
1 AAATATATAAATATTAATATA
29388 AAA
1 AAA
29391 ATTATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 19 0.90
22 2 0.10
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATATATAAATATTAATATA
Found at i:29371 original size:25 final size:27
Alignment explanation
Indices: 29325--29376 Score: 63
Period size: 25 Copynumber: 2.0 Consensus size: 27
29315 TTAGTTTAAT
**
29325 TAAAATTATTATTTATTTAATAAATAA
1 TAAAATTATTATTTATAAAATAAATAA
*
29352 TAAAATT-TTA-TTATAAAATATATAA
1 TAAAATTATTATTTATAAAATAAATAA
29377 ATATTAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 12 0.55
26 3 0.14
27 7 0.32
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
TAAAATTATTATTTATAAAATAAATAA
Found at i:30373 original size:5 final size:6
Alignment explanation
Indices: 30358--30383 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
30348 CCGAGAAGGT
30358 TTTTTA TTTTTA TTTTTA TTTTTA TT
1 TTTTTA TTTTTA TTTTTA TTTTTA TT
30384 AAGTGAAAAG
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):
TTTTTA
Found at i:32598 original size:29 final size:24
Alignment explanation
Indices: 32531--32584 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
32521 TAAGAAAAAC
*
32531 GAGATTGGATTATCCCTTTTTGGA
1 GAGATTGGAGTATCCCTTTTTGGA
32555 GAGATTGGAGTATCCCTTTTTGGA
1 GAGATTGGAGTATCCCTTTTTGGA
32579 GAGATT
1 GAGATT
32585 AGGTTGGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.22, C:0.11, G:0.28, T:0.39
Consensus pattern (24 bp):
GAGATTGGAGTATCCCTTTTTGGA
Found at i:32674 original size:108 final size:106
Alignment explanation
Indices: 32454--32662 Score: 255
Period size: 108 Copynumber: 2.0 Consensus size: 106
32444 AATAGGGTTA
* * * *
32454 GAGTATCCTTTTTTGGAGAGGTGGGGTTGGAGTATCCTCGAGAATGTAAAATCAAGAATTTTTAT
1 GAGTATCCCTTTTTGGAGAGATGAGGTTGGAGTATCCTCGAAAATGTAAAATCAAGAATTTTTA-
* * * **
32519 TGTAAGAAAAACGAGATTGGATTATCCCTTTTTGGAGAGATTG
65 T-CAAGAAAAACAAGATTGGAGTATCCCTTTCGGGAGAGATTG
* *
32562 GAGTATCCCTTTTTGGAGAGATTAGGTTGGAGTATCCTCGAAAATGTAAATTCAAG-ATTATTTA
1 GAGTATCCCTTTTTGGAGAGATGAGGTTGGAGTATCCTCGAAAATGTAAAATCAAGAATT-TTTA
*
32626 -CAAGAAAAACAAGGTTGGAGTAT-CCTTTC-GGAGAGAT
65 TCAAGAAAAACAAGATTGGAGTATCCCTTTCGGGAGAGAT
32663 GAAGTTGGAG
Statistics
Matches: 89, Mismatches: 11, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
103 8 0.09
104 5 0.06
105 19 0.21
107 3 0.03
108 54 0.61
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.33
Consensus pattern (106 bp):
GAGTATCCCTTTTTGGAGAGATGAGGTTGGAGTATCCTCGAAAATGTAAAATCAAGAATTTTTAT
CAAGAAAAACAAGATTGGAGTATCCCTTTCGGGAGAGATTG
Found at i:32865 original size:4 final size:4
Alignment explanation
Indices: 32848--32887 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
32838 TGAAAAGGGA
32848 TATT TATGT TATT TATT TATT TATT TA-T TA-T TATT T-TT TA
1 TATT TAT-T TATT TATT TATT TATT TATT TATT TATT TATT TA
32888 AAAAAAGGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
3 9 0.27
4 20 0.61
5 4 0.12
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (4 bp):
TATT
Found at i:32887 original size:21 final size:21
Alignment explanation
Indices: 32848--32887 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32838 TGAAAAGGGA
*
32848 TATTTATGTTATTTATTTATT
1 TATTTATATTATTTATTTATT
32869 TATTTATTATTATTT-TTTA
1 TATTTA-TATTATTTATTTA
32888 AAAAAAGGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (21 bp):
TATTTATATTATTTATTTATT
Found at i:35132 original size:55 final size:55
Alignment explanation
Indices: 35035--35141 Score: 144
Period size: 55 Copynumber: 1.9 Consensus size: 55
35025 AACTCTAGGT
*
35035 ACTATGCTTAGCTACTCTCATTTCTATTAGTTCTGCCATGCAGAGTAGTGGTGGC
1 ACTATGCTCAGCTACTCTCATTTCTATTAGTTCTGCCATGCAGAGTAGTGGTGGC
* * * * *
35090 ACTATGCTCAGCTACTCTTATTT-TCATTGGTTTTGTCGTGCAGAGTAGTGGT
1 ACTATGCTCAGCTACTCTCATTTCT-ATTAGTTCTGCCATGCAGAGTAGTGGT
35142 TTAGCAACTC
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
54 1 0.02
55 44 0.98
ACGTcount: A:0.19, C:0.20, G:0.22, T:0.39
Consensus pattern (55 bp):
ACTATGCTCAGCTACTCTCATTTCTATTAGTTCTGCCATGCAGAGTAGTGGTGGC
Found at i:35784 original size:46 final size:46
Alignment explanation
Indices: 35717--35808 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
35707 GTTACCTTAG
35717 ATGTCCTTGGGCATATCATTCATAGTGAATGCAAGTTATTGAGTTA
1 ATGTCCTTGGGCATATCATTCATAGTGAATGCAAGTTATTGAGTTA
35763 ATGTCCTTGGGCATATCATTCATAGTGAATGCAAGTTATTGAGTTA
1 ATGTCCTTGGGCATATCATTCATAGTGAATGCAAGTTATTGAGTTA
35809 TTATTTTATT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.28, C:0.13, G:0.22, T:0.37
Consensus pattern (46 bp):
ATGTCCTTGGGCATATCATTCATAGTGAATGCAAGTTATTGAGTTA
Found at i:44421 original size:24 final size:24
Alignment explanation
Indices: 44384--44448 Score: 87
Period size: 24 Copynumber: 2.7 Consensus size: 24
44374 GGCCTGCGTA
*
44384 TCAGCCTCTA-CAGCAGCCACAGTC
1 TCAGCCTC-AGCAGCAGCCACAATC
*
44408 TCAGTCTCAGCAGCAGCCACAATC
1 TCAGCCTCAGCAGCAGCCACAATC
*
44432 TCAGCCTCAGCATCAGC
1 TCAGCCTCAGCAGCAGC
44449 AGCCAACCAC
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 1 0.03
24 35 0.97
ACGTcount: A:0.26, C:0.40, G:0.17, T:0.17
Consensus pattern (24 bp):
TCAGCCTCAGCAGCAGCCACAATC
Found at i:46032 original size:21 final size:21
Alignment explanation
Indices: 45987--46047 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
45977 TGTTAAAATG
*
45987 TTATTGTTATATT-AATATTA
1 TTATTTTTATATTAAATATTA
*
46007 ATATTTTTATAATTAAAT-TTA
1 TTATTTTTAT-ATTAAATATTA
46028 TTATTTTTATTATTAAATAT
1 TTATTTTTA-TATTAAATAT
46048 AATTTAAATT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.24
21 21 0.62
22 5 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (21 bp):
TTATTTTTATATTAAATATTA
Found at i:46746 original size:15 final size:15
Alignment explanation
Indices: 46719--46766 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
46709 ACTTGAATTC
*
46719 AAAAGTTTATTTAAT
1 AAAAATTTATTTAAT
*
46734 AAAAATATT-TTTATT
1 AAAAAT-TTATTTAAT
46749 AAAAATTTATTT-AT
1 AAAAATTTATTTAAT
46763 AAAA
1 AAAA
46767 TATACATAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
14 7 0.25
15 19 0.68
16 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
AAAAATTTATTTAAT
Found at i:47541 original size:9 final size:10
Alignment explanation
Indices: 47504--47534 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
47494 AATTTAATTA
47504 TAAAAATTATT
1 TAAAAA-TATT
47515 TAAAAATATT
1 TAAAAATATT
47525 TAAAAATATT
1 TAAAAATATT
47535 AATAATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 14 0.70
11 6 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TAAAAATATT
Found at i:48201 original size:22 final size:21
Alignment explanation
Indices: 48175--48218 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
48165 AATTATTAAT
48175 GTATTAAATTTTATATAGTGAA
1 GTATTAAATTTTATATA-TGAA
* * *
48197 GTATTCATTTTTGTATATGAA
1 GTATTAAATTTTATATATGAA
48218 G
1 G
48219 AAATCTATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (21 bp):
GTATTAAATTTTATATATGAA
Found at i:48881 original size:85 final size:85
Alignment explanation
Indices: 48780--48955 Score: 298
Period size: 85 Copynumber: 2.1 Consensus size: 85
48770 ATCATTTAAA
48780 AATATTAATATTTTCAATATTTATTTAATAATTAAAAAATAAACAAATACTTAAACATTATTTAT
1 AATATTAATATTTTCAATATTTATTTAATAATTAAAAAATAAACAAATACTTAAACATTATTTAT
48845 TTACTCAAAACTCATCGTGC
66 TTACTCAAAACTCATCGTGC
* * * * *
48865 AATATTAGTGTTTTCAATATTTATTTAATAGTTAAAAAATGAATAAATACTTAAACATTATTTAT
1 AATATTAATATTTTCAATATTTATTTAATAATTAAAAAATAAACAAATACTTAAACATTATTTAT
48930 TTACTCAAAACTCATCGTGC
66 TTACTCAAAACTCATCGTGC
*
48950 ATTATT
1 AATATT
48956 TATAAAAAAA
Statistics
Matches: 85, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
85 85 1.00
ACGTcount: A:0.43, C:0.11, G:0.05, T:0.41
Consensus pattern (85 bp):
AATATTAATATTTTCAATATTTATTTAATAATTAAAAAATAAACAAATACTTAAACATTATTTAT
TTACTCAAAACTCATCGTGC
Found at i:49080 original size:2 final size:2
Alignment explanation
Indices: 49073--49111 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
49063 ATCTTTGCTC
49073 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49112 CACATTACAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:53564 original size:14 final size:14
Alignment explanation
Indices: 53547--53592 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
53537 AATATTATAA
53547 TTATATTTAAAAAT
1 TTATATTTAAAAAT
*
53561 TTATATATTAATAAT
1 TTATAT-TTAAAAAT
*
53576 TTATATTATATAAAT
1 TTATATT-TAAAAAT
53591 TT
1 TT
53593 TAAAATATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 7 0.26
15 20 0.74
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATATTTAAAAAT
Found at i:53576 original size:15 final size:15
Alignment explanation
Indices: 53532--53581 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
53522 ATTTATATAT
53532 TTTATAATATT-ATAA
1 TTTAT-ATATTAATAA
*
53547 -TTATAT-TTAAAAA
1 TTTATATATTAATAA
53560 TTTATATATTAATAA
1 TTTATATATTAATAA
53575 TTTATAT
1 TTTATAT
53582 TATATAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
12 2 0.07
13 5 0.17
14 10 0.33
15 13 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TTTATATATTAATAA
Found at i:53630 original size:15 final size:15
Alignment explanation
Indices: 53610--53645 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
53600 TTATTATATT
53610 TATTTATTTTTTTAA
1 TATTTATTTTTTTAA
53625 TATTTA-TTTTTTAA
1 TATTTATTTTTTTAA
*
53639 AATTTAT
1 TATTTAT
53646 ATTTGATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TATTTATTTTTTTAA
Found at i:53694 original size:18 final size:20
Alignment explanation
Indices: 53655--53691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
53645 TATTTGATAT
*
53655 TATATTATTGTATAAATTTA
1 TATATTATTGAATAAATTTA
53675 TATATTATT-AATAAATT
1 TATATTATTGAATAAATT
53692 ATAAGATGAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (20 bp):
TATATTATTGAATAAATTTA
Found at i:53824 original size:11 final size:11
Alignment explanation
Indices: 53810--53848 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
53800 TCAAAAATAA
53810 ATTATTTTTAT
1 ATTATTTTTAT
*
53821 ATTATATTTAT
1 ATTATTTTTAT
*
53832 ATTATATTTAAT
1 ATTAT-TTTTAT
53844 ATTAT
1 ATTAT
53849 CAAATCTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
11 15 0.62
12 9 0.38
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTTAT
Found at i:54645 original size:20 final size:21
Alignment explanation
Indices: 54586--54647 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
54576 ATAAAACATA
*
54586 ATAT-AAATTTA-TTAAATTT
1 ATATAAAATTTATTTAAATAT
** *
54605 ATATAAAATAAATTATTAATAT
1 ATATAAAATTTATT-TAAATAT
54627 AT-TAAAATTTATTTAAATAT
1 ATATAAAATTTATTTAAATAT
54647 A
1 A
54648 ATTTTTAATT
Statistics
Matches: 33, Mismatches: 7, Indels: 5
0.73 0.16 0.11
Matches are distributed among these distances:
19 4 0.12
20 12 0.36
21 10 0.30
22 7 0.21
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATATAAAATTTATTTAAATAT
Found at i:54656 original size:32 final size:31
Alignment explanation
Indices: 54595--54656 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
54585 AATATAAATT
54595 TATTAAATTTATATAAAATAAATTATTAATA
1 TATTAAATTTATATAAAATAAATTATTAATA
* *
54626 TATTAAAATTTAT-TTAAATATAATTTTTAAT
1 TATT-AAATTTATATAAAATA-AATTATTAAT
54657 TAAATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 10 0.37
32 17 0.63
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (31 bp):
TATTAAATTTATATAAAATAAATTATTAATA
Found at i:57042 original size:44 final size:43
Alignment explanation
Indices: 56970--57052 Score: 98
Period size: 45 Copynumber: 1.9 Consensus size: 43
56960 ATTATATAAA
*
56970 TTATATATGTAAAATTTTAAGTAAATTAAA-AAAAATTATTTT
1 TTATATATGTAAAATTTTAAATAAATTAAATAAAAATTATTTT
* *
57012 TTATATATAGTAAAAATATTTAAAT-TATTAAATATAAATTA
1 TTATATAT-GT-AAAAT-TTTAAATAAATTAAATAAAAATTA
57053 AAAATATTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
42 8 0.24
43 2 0.06
44 11 0.32
45 13 0.38
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.45
Consensus pattern (43 bp):
TTATATATGTAAAATTTTAAATAAATTAAATAAAAATTATTTT
Found at i:57076 original size:29 final size:28
Alignment explanation
Indices: 57022--57091 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 28
57012 TTATATATAG
57022 TAAAAATATTTAAATTATTAAATATAAAT
1 TAAAAATATTT-AATTATTAAATATAAAT
* *
57051 TAAAAATATTT-TTTATT-AATAT-TAT
1 TAAAAATATTTAATTATTAAATATAAAT
* *
57076 AAAAAATATTAAATTA
1 TAAAAATATTTAATTA
57092 ATTTAAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
25 11 0.31
26 8 0.23
27 5 0.14
29 11 0.31
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TAAAAATATTTAATTATTAAATATAAAT
Found at i:57313 original size:23 final size:22
Alignment explanation
Indices: 57281--57347 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 22
57271 TTATATAATT
57281 AAAT-TTAATAATTAATTTATTA
1 AAATATTAATAATTAATTTA-TA
*
57303 AAATATTAATAATATAAAAATTATA
1 AAATATTAATAAT-T--AATTTATA
57328 AAATATATAA-AATTAATTTA
1 AAATAT-TAATAATTAATTTA
57348 ATTTTATATT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
22 9 0.24
23 8 0.21
24 2 0.05
25 11 0.29
26 8 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATATTAATAATTAATTTATA
Found at i:57340 original size:9 final size:9
Alignment explanation
Indices: 57301--57340 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
57291 ATTAATTTAT
57301 TAAAATAT-
1 TAAAATATA
57309 TAATAATATA
1 TAA-AATATA
57319 -AAAAT-TA
1 TAAAATATA
57326 TAAAATATA
1 TAAAATATA
57335 TAAAAT
1 TAAAAT
57341 TAATTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
7 2 0.07
8 11 0.39
9 15 0.54
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TAAAATATA
Found at i:57378 original size:17 final size:18
Alignment explanation
Indices: 57356--57398 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
57346 TAATTTTATA
*
57356 TTAATAT-AAATAATTTT
1 TTAATATAAAATAATATT
57373 TTAATATAAAAATAATATT
1 TTAATAT-AAAATAATATT
57392 TTAATAT
1 TTAATAT
57399 TTTAATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 7 0.30
19 16 0.70
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TTAATATAAAATAATATT
Found at i:57506 original size:18 final size:19
Alignment explanation
Indices: 57467--57511 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
57457 TAATTAAAAC
57467 AAATTATTTTATGTTATTA
1 AAATTATTTTATGTTATTA
*
57486 AAATTTTTTTAT-TT-TTA
1 AAATTATTTTATGTTATTA
*
57503 AAAATATTT
1 AAATTATTT
57512 AAAATTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
17 10 0.43
18 2 0.09
19 11 0.48
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
AAATTATTTTATGTTATTA
Found at i:57575 original size:20 final size:21
Alignment explanation
Indices: 57538--57581 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
57528 TTTAATTATC
57538 AATATATAA-CATTATTTTTA
1 AATATATAATCATTATTTTTA
** *
57558 AATATATAATTTTTTTTTTTA
1 AATATATAATCATTATTTTTA
57579 AAT
1 AAT
57582 TGAATGGTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (21 bp):
AATATATAATCATTATTTTTA
Found at i:57968 original size:2 final size:2
Alignment explanation
Indices: 57961--57994 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
57951 TATATTCATT
57961 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
57995 ATTTACTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58715 original size:39 final size:40
Alignment explanation
Indices: 58649--58726 Score: 99
Period size: 39 Copynumber: 2.0 Consensus size: 40
58639 ATTTTTTAAT
58649 TAATATATTTAATTTAATCAATAATTAAATA-ATAAATATA
1 TAATATATTTAATTTAATCAATAATTAAA-AGATAAATATA
* *
58689 TAATATATTT-TTTTAAT-AGATCATTAAAAGATAAATAT
1 TAATATATTTAATTTAATCA-ATAATTAAAAGATAAATAT
58727 GTAAGGTATT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 2 0.06
39 22 0.65
40 10 0.29
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.44
Consensus pattern (40 bp):
TAATATATTTAATTTAATCAATAATTAAAAGATAAATATA
Found at i:59085 original size:22 final size:21
Alignment explanation
Indices: 59041--59119 Score: 88
Period size: 22 Copynumber: 3.6 Consensus size: 21
59031 ATATTTATTA
*
59041 AATATAATAAT-ATTAAATAT
1 AATATAAAAATAATTAAATAT
59061 AATATAAAAATAATTAATATAT
1 AATATAAAAATAATTAA-ATAT
*
59083 AATATTAAAAAAATAATTTAATAT
1 AATA-T--AAAAATAATTAAATAT
59107 AATATAATAAATA
1 AATATAA-AAATA
59120 TATATTAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
20 10 0.20
21 7 0.14
22 13 0.25
23 2 0.04
24 8 0.16
25 11 0.22
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
AATATAAAAATAATTAAATAT
Found at i:59135 original size:14 final size:14
Alignment explanation
Indices: 59118--59167 Score: 64
Period size: 14 Copynumber: 3.4 Consensus size: 14
59108 ATATAATAAA
59118 TATATATTAAAATT
1 TATATATTAAAATT
*
59132 TATATAAATTAATATT
1 TATAT--ATTAAAATT
*
59148 AATATATTAAAATT
1 TATATATTAAAATT
59162 TATATA
1 TATATA
59168 ATAATATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 18 0.60
16 12 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATATATTAAAATT
Found at i:59136 original size:16 final size:16
Alignment explanation
Indices: 59117--59167 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
59107 AATATAATAA
59117 ATATATATTAAAATTT
1 ATATATATTAAAATTT
* *
59133 ATATAAATTAATA-TT
1 ATATATATTAAAATTT
59148 A-ATATATTAAAATTT
1 ATATATATTAAAATTT
59163 ATATA
1 ATATA
59168 ATAATATTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 9 0.31
15 6 0.21
16 14 0.48
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATATATTAAAATTT
Found at i:59145 original size:30 final size:31
Alignment explanation
Indices: 59097--59168 Score: 96
Period size: 30 Copynumber: 2.4 Consensus size: 31
59087 TTAAAAAAAT
59097 AATTTA-ATATAATATAATAA-ATATATATTAA
1 AATTTATATA-AATATAATAATA-ATATATTAA
*
59128 AATTTATATAAAT-TAATATTAATATATTAA
1 AATTTATATAAATATAATAATAATATATTAA
59158 AATTTATATAA
1 AATTTATATAA
59169 TAATATTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 5
0.86 0.02 0.11
Matches are distributed among these distances:
30 25 0.66
31 10 0.26
32 3 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
AATTTATATAAATATAATAATAATATATTAA
Found at i:59150 original size:46 final size:47
Alignment explanation
Indices: 59036--59153 Score: 120
Period size: 46 Copynumber: 2.5 Consensus size: 47
59026 TTTTTATATT
* *
59036 TATTAAATATAATAATATTAAATATAATATAAAAATAATTAATATATAA
1 TATTAAA-AAAATAATATT-AATATAATATAAAAATAATTAATATAAAA
59085 TATTAAAAAAATAAT-TTAATATAATATAATAAAT-A-T-ATATTAAAA
1 TATTAAAAAAATAATATTAATATAATATAA-AAATAATTAATA-TAAAA
* *
59130 T-TTATATAAATTAATATTAATATA
1 TATTA-AAAAAATAATATTAATATA
59154 TTAAAATTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 11
0.80 0.05 0.14
Matches are distributed among these distances:
44 6 0.10
45 14 0.23
46 21 0.34
47 6 0.10
48 7 0.11
49 7 0.11
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (47 bp):
TATTAAAAAAATAATATTAATATAATATAAAAATAATTAATATAAAA
Found at i:59167 original size:101 final size:101
Alignment explanation
Indices: 59041--59394 Score: 274
Period size: 101 Copynumber: 3.5 Consensus size: 101
59031 ATATTTATTA
59041 AATA-TAATAATATTAAATATAATATAAAAATAATTAATATATAATATTAAAAAAATAATTTAAT
1 AATATTAAT-ATATTAAATATAATATAAAAATAATTAATATATAATATTAAAAAAATAATTTAAT
59105 ATAATATAATAAATATATATTAAAATTTATATAAATT
65 ATAATATAATAAATATATATTAAAATTTATATAAATT
* * * * *
59142 AATATTAATATATTAAA-ATTTATATAATAATATTTTAA-ATAT-A-ATTACAATAAAAAAATTA
1 AATATTAATATATTAAATA-TAATATAAAAATA-ATTAATATATAATATTA-AA-AAAATAATTT
* * * * * *
59203 AATACATACATTCAAAAGTCAAT-TATCTTTATATTTAT-CAAA-T
62 AAT--ATA-A-T-ATAA-TAAATATATATTAAAATTTATATAAATT
* * * *
59246 -ATAGTAAT-T-TTAAATATGACATAAAAATAATTAATTTA-AGATATTAAAAAAATAATTTAAT
1 AATATTAATATATTAAATATAATATAAAAATAATTAATATATA-ATATTAAAAAAATAATTTAAT
* * * *
59307 ATTATATAAATATATAAATGGATCAAAATTTATATAAATT
65 ATAATAT-AATAAATATAT--ATTAAAATTTATATAAATT
*
59347 AATATTAATATATTAAA-ATAATATTAAAATAA--AAT-TATAATA-TAAAAA
1 AATATTAATATATTAAATATAATATAAAAATAATTAATATATAATATTAAAAA
59395 TTAAATACAT
Statistics
Matches: 194, Mismatches: 33, Indels: 54
0.69 0.12 0.19
Matches are distributed among these distances:
96 4 0.02
97 5 0.03
98 1 0.01
99 20 0.10
100 16 0.08
101 71 0.37
102 20 0.10
103 27 0.14
104 7 0.04
105 4 0.02
106 15 0.08
107 4 0.02
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.39
Consensus pattern (101 bp):
AATATTAATATATTAAATATAATATAAAAATAATTAATATATAATATTAAAAAAATAATTTAATA
TAATATAATAAATATATATTAAAATTTATATAAATT
Found at i:59176 original size:14 final size:14
Alignment explanation
Indices: 59118--59176 Score: 55
Period size: 14 Copynumber: 4.1 Consensus size: 14
59108 ATATAATAAA
*
59118 TATATATTAAAATT
1 TATATAATAAAATT
*
59132 TATATAAATTAATATT
1 TATAT-AA-TAAAATT
* *
59148 AATATATTAAAATT
1 TATATAATAAAATT
*
59162 TATATAATAATATT
1 TATATAATAAAATT
59176 T
1 T
59177 TAAATATAAT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
14 23 0.66
15 2 0.06
16 10 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATAATAAAATT
Found at i:59282 original size:27 final size:25
Alignment explanation
Indices: 59254--59302 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 25
59244 ATATAGTAAT
59254 TTTAA-ATATGACATAAAAATAATTAA
1 TTTAAGATATGA-A-AAAAATAATTAA
*
59280 TTTAAGATATTAAAAAAATAATT
1 TTTAAGATATGAAAAAAATAATT
59303 TAATATTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 10 0.48
26 6 0.29
27 5 0.24
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (25 bp):
TTTAAGATATGAAAAAAATAATTAA
Found at i:59317 original size:19 final size:21
Alignment explanation
Indices: 59270--59318 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
59260 TATGACATAA
*
59270 AAATAATTAATTTAAGATATT
1 AAATAAATAATTTAAGATATT
*
59291 AAAAAAATAATTT-A-ATATT
1 AAATAAATAATTTAAGATATT
*
59310 ATATAAATA
1 AAATAAATA
59319 TATAAATGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 12 0.50
20 1 0.04
21 11 0.46
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (21 bp):
AAATAAATAATTTAAGATATT
Found at i:59368 original size:19 final size:18
Alignment explanation
Indices: 59337--59381 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
59327 GATCAAAATT
*
59337 TATATAAATTAATATTAA
1 TATATAAAATAATATTAA
59355 TATATTAAAATAATATTAA
1 TATA-TAAAATAATATTAA
59374 -A-ATAAAAT
1 TATATAAAAT
59382 TATAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 6 0.24
17 1 0.04
18 5 0.20
19 13 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TATATAAAATAATATTAA
Found at i:59386 original size:19 final size:19
Alignment explanation
Indices: 59364--59400 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
59354 ATATATTAAA
*
59364 ATAATATTAAAATAAAATT
1 ATAATATAAAAATAAAATT
*
59383 ATAATATAAAAATTAAAT
1 ATAATATAAAAATAAAAT
59401 ACATGCATTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (19 bp):
ATAATATAAAAATAAAATT
Found at i:59753 original size:17 final size:17
Alignment explanation
Indices: 59731--59772 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
59721 AAATGAACTC
59731 TTATATTTAATATTTAT
1 TTATATTTAATATTTAT
* *
59748 TTATATATAAATATTTTT
1 TTATAT-TTAATATTTAT
59766 TTA-ATTT
1 TTATATTT
59773 TATAAAAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 8 0.38
18 12 0.57
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
TTATATTTAATATTTAT
Found at i:60424 original size:21 final size:22
Alignment explanation
Indices: 60373--60424 Score: 72
Period size: 21 Copynumber: 2.5 Consensus size: 22
60363 AAATAATTTT
60373 TATTTAAAT-TTAATTATAAAA
1 TATTTAAATATTAATTATAAAA
*
60394 TATATAAATATTAA-TATAAAA
1 TATTTAAATATTAATTATAAAA
*
60415 TATTTTAATA
1 TATTTAAATA
60425 ATAAAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TATTTAAATATTAATTATAAAA
Found at i:61827 original size:26 final size:25
Alignment explanation
Indices: 61798--61846 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
61788 AAAATGATTG
*
61798 AATTATCTAAAAAATATATATAAAAT
1 AATTATCTAAAAAAAATAT-TAAAAT
* *
61824 AATTTTTTAAAAAAAATATTAAA
1 AATTATCTAAAAAAAATATTAAA
61847 TGTATTAAGT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 4 0.20
26 16 0.80
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (25 bp):
AATTATCTAAAAAAAATATTAAAAT
Found at i:61998 original size:19 final size:18
Alignment explanation
Indices: 61974--62019 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
61964 AAAATTTTAA
61974 AATATAATTTTAAATTATT
1 AATATAATTTTAAATT-TT
**
61993 AATATAAAATTAAATTTT
1 AATATAATTTTAAATTTT
62011 AAT-TAATTT
1 AATATAATTT
62020 AATTAATTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATATAATTTTAAATTTT
Found at i:62003 original size:21 final size:20
Alignment explanation
Indices: 61956--62012 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
61946 TAAAAAATTA
61956 AAAATCTTAAAATTTTAAAAT
1 AAAAT-TTAAAATTTTAAAAT
* * *
61977 ATAATTTTAAATTATTAATAT
1 AAAATTTAAAATT-TTAAAAT
61998 AAAA-TT-AAATTTTAA
1 AAAATTTAAAATTTTAA
62013 TTAATTTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 4 0.13
19 5 0.16
20 9 0.29
21 13 0.42
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
AAAATTTAAAATTTTAAAAT
Found at i:62354 original size:12 final size:12
Alignment explanation
Indices: 62334--62439 Score: 60
Period size: 12 Copynumber: 8.8 Consensus size: 12
62324 TTTAGATTCG
*
62334 AAAAAATAATAT
1 AAAATATAATAT
*
62346 AAAATATAATAA
1 AAAATATAATAT
62358 AAAATAT-ATAATT
1 AAAATATAAT-A-T
**
62371 GTAATATAAATAT
1 AAAATAT-AATAT
62384 ATAAATAT-AT-T
1 A-AAATATAATAT
*
62395 AAAAT-TTATAT
1 AAAATATAATAT
62406 AAAATATAATATTT
1 AAAATATAATA--T
*
62420 TAAATATAAT-T
1 AAAATATAATAT
*
62431 ATAATATAA
1 AAAATATAA
62440 AAATAAACAT
Statistics
Matches: 73, Mismatches: 11, Indels: 21
0.70 0.10 0.20
Matches are distributed among these distances:
9 1 0.01
10 6 0.08
11 18 0.25
12 24 0.33
13 6 0.08
14 16 0.22
15 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (12 bp):
AAAATATAATAT
Found at i:62365 original size:19 final size:21
Alignment explanation
Indices: 62336--62416 Score: 73
Period size: 19 Copynumber: 4.0 Consensus size: 21
62326 TAGATTCGAA
62336 AAAATAATATA-AAATATAAT
1 AAAATAATATATAAATATAAT
* *
62356 AAAA-AATATATAATTGTAAT
1 AAAATAATATATAAATATAAT
* *
62376 -ATA-AATATATAAATATATT
1 AAAATAATATATAAATATAAT
*
62395 AAAAT-TTATATAAAATATAAT
1 AAAATAATATAT-AAATATAAT
62416 A
1 A
62417 TTTTAAATAT
Statistics
Matches: 48, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
19 21 0.44
20 18 0.38
21 9 0.19
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (21 bp):
AAAATAATATATAAATATAAT
Found at i:62963 original size:23 final size:23
Alignment explanation
Indices: 62936--62979 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
62926 AAGTTATAAA
62936 TATTAAAATTTAATTATTAAATT
1 TATTAAAATTTAATTATTAAATT
* * *
62959 TATTAAATTTTATTTTTTAAA
1 TATTAAAATTTAATTATTAAA
62980 AATAATTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TATTAAAATTTAATTATTAAATT
Found at i:63965 original size:30 final size:31
Alignment explanation
Indices: 63915--63977 Score: 83
Period size: 30 Copynumber: 2.0 Consensus size: 31
63905 TTATATTAAA
* *
63915 AATATATTTTAAATATTATTTATA-AATTTT
1 AATATAATTTAAATAATATTTATATAATTTT
*
63945 AATATAATTTATATAATATTTATATTAATTTT
1 AATATAATTTAAATAATATTTATA-TAATTTT
63977 A
1 A
63978 TATTATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 21 0.75
32 7 0.25
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (31 bp):
AATATAATTTAAATAATATTTATATAATTTT
Found at i:63977 original size:22 final size:22
Alignment explanation
Indices: 63933--64020 Score: 78
Period size: 22 Copynumber: 4.1 Consensus size: 22
63923 TTAAATATTA
*
63933 TTTATA-AAT-TTTAA-TATAA
1 TTTATATAATATTTAATTATAT
63952 TTTATATAATATTTATATTA-AT
1 TTTATATAATATTTA-ATTATAT
* *
63974 TTTATATTATATATTAATTATTT
1 TTTATATAATAT-TTAATTATAT
*
63997 TTTATTTAA-ATTTATATTATAT
1 TTTATATAATATTTA-ATTATAT
64019 TT
1 TT
64021 AAAATTATCG
Statistics
Matches: 56, Mismatches: 6, Indels: 11
0.77 0.08 0.15
Matches are distributed among these distances:
19 6 0.11
20 3 0.05
21 7 0.12
22 27 0.48
23 13 0.23
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (22 bp):
TTTATATAATATTTAATTATAT
Found at i:63978 original size:11 final size:11
Alignment explanation
Indices: 63939--64020 Score: 57
Period size: 11 Copynumber: 7.5 Consensus size: 11
63929 ATTATTTATA
63939 AATTTTA-ATAT
1 AATTTTATAT-T
63950 AA-TTTATA-T
1 AATTTTATATT
63959 AATATTTATATT
1 AAT-TTTATATT
63971 AATTTTATATT
1 AATTTTATATT
*
63982 ATATATTA-ATT
1 A-ATTTTATATT
*
63993 -ATTTTTTATTT
1 AATTTTATA-TT
*
64004 AAATTTATATT
1 AATTTTATATT
64015 ATATTT
1 A-ATTT
64021 AAAATTATCG
Statistics
Matches: 56, Mismatches: 6, Indels: 17
0.71 0.08 0.22
Matches are distributed among these distances:
9 7 0.12
10 5 0.09
11 26 0.46
12 18 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
AATTTTATATT
Found at i:66651 original size:2 final size:2
Alignment explanation
Indices: 66644--66674 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
66634 CAATAGTATT
*
66644 TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
66675 TGATTATAAT
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:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:66991 original size:41 final size:40
Alignment explanation
Indices: 66916--67004 Score: 106
Period size: 41 Copynumber: 2.2 Consensus size: 40
66906 TTATATAGTT
* * *
66916 ATTTTAATTTAAAAAATTTGATTTTATTTTATTTAAATTAA
1 ATTTTAATTTAAAAAATTTGATTTAAATTGATTTAAATT-A
** *
66957 ATTTTAATTTAAAATTTTTTATTTAAATTGATTTAAATTA
1 ATTTTAATTTAAAAAATTTGATTTAAATTGATTTAAATTA
*
66997 TTTTTAAT
1 ATTTTAAT
67005 AAATAAATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 8 0.20
41 33 0.80
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (40 bp):
ATTTTAATTTAAAAAATTTGATTTAAATTGATTTAAATTA
Found at i:67007 original size:24 final size:24
Alignment explanation
Indices: 66963--67008 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
66953 TTAAATTTTA
*
66963 ATTTAAAATTTTTTATTTAAATTG
1 ATTTAAAATTTTTTATATAAATTG
*
66987 ATTTAAATTATTTTTA-ATAAAT
1 ATTTAAAAT-TTTTTATATAAAT
67009 AAATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 13 0.68
25 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
ATTTAAAATTTTTTATATAAATTG
Found at i:68176 original size:27 final size:28
Alignment explanation
Indices: 68119--68177 Score: 68
Period size: 27 Copynumber: 2.1 Consensus size: 28
68109 AAAAAATAAT
* **
68119 AAATTATTAAAAAATTATTTTTATATTA
1 AAATTATTAAAAAATTATTATTATAAAA
68147 AAATT-TTAAAAAATTATTAATTA-AAAA
1 AAATTATTAAAAAATTATT-ATTATAAAA
68174 AAAT
1 AAAT
68178 AATCCGAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
27 19 0.70
28 8 0.30
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (28 bp):
AAATTATTAAAAAATTATTATTATAAAA
Found at i:69366 original size:23 final size:23
Alignment explanation
Indices: 69333--69382 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
69323 AAAAAACTAA
* **
69333 TAAAATAAAAATATTAAAGAAAT
1 TAAAATAAAAAAAAAAAAGAAAT
*
69356 TAAAATGAAAAAAAAAAAGAAAT
1 TAAAATAAAAAAAAAAAAGAAAT
69379 TAAA
1 TAAA
69383 GTGGCAACTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (23 bp):
TAAAATAAAAAAAAAAAAGAAAT
Found at i:70214 original size:21 final size:21
Alignment explanation
Indices: 70166--70224 Score: 66
Period size: 20 Copynumber: 2.8 Consensus size: 21
70156 TTATTAAAAT
* * * *
70166 ATTATTGTTATATTAATATTT
1 ATTATTTTTATAATAAAATTA
70187 A-TATTTTTATAATAAAATTA
1 ATTATTTTTATAATAAAATTA
70207 ATTATTTTTATTAATAAA
1 ATTATTTTTA-TAATAAA
70225 TGATAATTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 16 0.50
21 9 0.28
22 7 0.22
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (21 bp):
ATTATTTTTATAATAAAATTA
Found at i:71477 original size:20 final size:20
Alignment explanation
Indices: 71445--71483 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
71435 TATTTTCCAT
*
71445 ATATAATATAAGATAATTAA
1 ATATAATATAAGAAAATTAA
71465 ATATAGATA-AAGAAAATTA
1 ATATA-ATATAAGAAAATTA
71484 TGTAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 14 0.82
21 3 0.18
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.31
Consensus pattern (20 bp):
ATATAATATAAGAAAATTAA
Found at i:73012 original size:2 final size:2
Alignment explanation
Indices: 73005--73045 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
72995 CACAATGTGA
73005 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
73046 GAATCGATCC
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:76677 original size:21 final size:21
Alignment explanation
Indices: 76653--76701 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
76643 GTATTTTTTA
76653 ATCCAAAAAATACATTC-TTTC
1 ATCCAAAAAATACA-TCATTTC
**
76674 ATCCAACCAATACATCATTTC
1 ATCCAAAAAATACATCATTTC
76695 ATCCAAA
1 ATCCAAA
76702 GATACCTTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 2 0.08
21 22 0.92
ACGTcount: A:0.43, C:0.29, G:0.00, T:0.29
Consensus pattern (21 bp):
ATCCAAAAAATACATCATTTC
Found at i:79994 original size:21 final size:21
Alignment explanation
Indices: 79970--80009 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
79960 TCATCAAAAA
*
79970 AATGCATTC-TTTCGTCCAACT
1 AATGC-TTCATTTCATCCAACT
79991 AATGCTTCATTTCATCCAA
1 AATGCTTCATTTCATCCAA
80010 AGATATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 3 0.18
21 14 0.82
ACGTcount: A:0.28, C:0.28, G:0.07, T:0.38
Consensus pattern (21 bp):
AATGCTTCATTTCATCCAACT
Found at i:81700 original size:17 final size:17
Alignment explanation
Indices: 81680--81783 Score: 50
Period size: 16 Copynumber: 6.6 Consensus size: 17
81670 AATATTATAT
81680 TTATATATTTTATAATA
1 TTATATATTTTATAATA
*
81697 TTAT-TATATT-TAA-A
1 TTATATATTTTATAATA
81711 --A-A-ATTTTAT-ATA
1 TTATATATTTTATAATA
* *
81723 TTA-ATAATTTATATTA
1 TTATATATTTTATAATA
* *
81739 -TATAAATTTTAAAATA
1 TTATATATTTTATAATA
* *
81755 TTATTATATTTATGTTATA
1 TTA-TATATTT-TATAATA
81774 TT-TATATTTT
1 TTATATATTTT
81784 TTTTAGTTTT
Statistics
Matches: 64, Mismatches: 12, Indels: 23
0.65 0.12 0.23
Matches are distributed among these distances:
11 5 0.08
12 3 0.05
14 3 0.05
15 11 0.17
16 17 0.27
17 13 0.20
18 6 0.09
19 6 0.09
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (17 bp):
TTATATATTTTATAATA
Found at i:81704 original size:18 final size:18
Alignment explanation
Indices: 81683--81765 Score: 62
Period size: 18 Copynumber: 4.4 Consensus size: 18
81673 ATTATATTTA
*
81683 TATATTTTATAATATTAT
1 TATATTTTAAAATATTAT
*
81701 TATA-TTTAAAAAATT-T
1 TATATTTTAAAATATTAT
*
81717 TATATATTAATAATTTATATTAT
1 TATAT-TT--TAA--AATATTAT
*
81740 ATAAATTTTAAAATATTAT
1 -TATATTTTAAAATATTAT
81759 TATATTT
1 TATATTT
81766 ATGTTATATT
Statistics
Matches: 50, Mismatches: 7, Indels: 16
0.68 0.10 0.22
Matches are distributed among these distances:
16 5 0.10
17 9 0.18
18 12 0.24
19 7 0.14
20 3 0.06
21 3 0.06
22 4 0.08
23 3 0.06
24 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TATATTTTAAAATATTAT
Found at i:81721 original size:42 final size:42
Alignment explanation
Indices: 81672--81767 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
81662 CGTATATTAA
* *
81672 TATTATATTTATATATTTTATAATAT-TATTATATTTAAAAAAT
1 TATTATATTTATATAATTTATAATATATA-AAT-TTTAAAAAAT
* *
81715 T-TTATATATTA-ATAATTTATATTATATAAATTTTAAAATAT
1 TATTATAT-TTATATAATTTATAATATATAAATTTTAAAAAAT
81756 TATTATATTTAT
1 TATTATATTTAT
81768 GTTATATTTA
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
41 13 0.29
42 26 0.58
43 6 0.13
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (42 bp):
TATTATATTTATATAATTTATAATATATAAATTTTAAAAAAT
Found at i:82716 original size:6 final size:6
Alignment explanation
Indices: 82705--82739 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
82695 ATAATATAAA
82705 AAATAT AAATAT AAATA- AAATAT -AATAT AAATAT A
1 AAATAT AAATAT AAATAT AAATAT AAATAT AAATAT A
82740 TTAAATTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AAATAT
Found at i:82728 original size:31 final size:31
Alignment explanation
Indices: 82692--82775 Score: 91
Period size: 31 Copynumber: 2.7 Consensus size: 31
82682 TTAAAACATG
82692 AATATAATATAAAAA-ATATAAATATAAATAA
1 AATATAATATAAAAATAT-TAAATATAAATAA
* * *
82723 AATATAATATAAATATATTAAATTTATATAA
1 AATATAATATAAAAATATTAAATATAAATAA
* *
82754 AATA-AATTATTAATATATTAAA
1 AATATAA-TATAAAAATATTAAA
82776 ATTTATTTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
30 2 0.04
31 43 0.91
32 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (31 bp):
AATATAATATAAAAATATTAAATATAAATAA
Found at i:82733 original size:16 final size:16
Alignment explanation
Indices: 82692--82737 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
82682 TTAAAACATG
82692 AATATAATAT-AA-AA
1 AATATAATATAAATAA
82706 AATATAAATATAAATAA
1 AATAT-AATATAAATAA
82723 AATATAATATAAATA
1 AATATAATATAAATA
82738 TATTAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
14 5 0.17
15 5 0.17
16 12 0.41
17 7 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATATAATATAAATAA
Found at i:82750 original size:22 final size:21
Alignment explanation
Indices: 82706--82792 Score: 65
Period size: 24 Copynumber: 4.1 Consensus size: 21
82696 TAATATAAAA
*
82706 AATATAAATATAAATAAAATAT
1 AATATAAATAT-ATTAAAATAT
82728 AATATAAATATATTAAATTTATAT
1 AATATAAATATATTAAA---ATAT
*
82752 AAAATAAAT-TATT--AATAT
1 AATATAAATATATTAAAATAT
* * *
82770 ATTA-AAATTTATTTAAATAT
1 AATATAAATATATTAAAATAT
82790 AAT
1 AAT
82793 TTTTAATTAA
Statistics
Matches: 54, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
17 4 0.07
18 10 0.19
20 7 0.13
21 6 0.11
22 11 0.20
23 4 0.07
24 12 0.22
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AATATAAATATATTAAAATAT
Found at i:82781 original size:18 final size:17
Alignment explanation
Indices: 82734--82782 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
82724 ATATAATATA
82734 AATATATTAAATTTATAT
1 AATATATTAAATTTAT-T
82752 AA-A-A-TAAA-TTATT
1 AATATATTAAATTTATT
82765 AATATATTAAAATTTATT
1 AATATATT-AAATTTATT
82783 TAAATATAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
13 3 0.12
14 5 0.19
15 5 0.19
16 2 0.08
17 4 0.15
18 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AATATATTAAATTTATT
Found at i:82789 original size:18 final size:17
Alignment explanation
Indices: 82737--82789 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
82727 TAATATAAAT
*
82737 ATATTAAATTTATATAA
1 ATATTAAATTTATTTAA
82754 A-A-TAAA-TTA-TTAA
1 ATATTAAATTTATTTAA
82767 TATATTAAAATTTATTTAA
1 -ATATT-AAATTTATTTAA
82786 ATAT
1 ATAT
82790 AATTTTTAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 11
0.71 0.02 0.27
Matches are distributed among these distances:
13 3 0.10
14 4 0.14
15 5 0.17
16 2 0.07
17 4 0.14
18 7 0.24
19 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAAATTTATTTAA
Found at i:82799 original size:32 final size:31
Alignment explanation
Indices: 82710--82799 Score: 94
Period size: 31 Copynumber: 2.9 Consensus size: 31
82700 ATAAAAAATA
* * *
82710 TAAATATAAATAAAATATAA-TATAAATATAT
1 TAAATTTATATAAAATA-AATTATTAATATAT
82741 TAAATTTATATAAAATAAATTATTAATATAT
1 TAAATTTATATAAAATAAATTATTAATATAT
* *
82772 TAAAATTTAT-TTAAATATAATTTTTAAT
1 T-AAATTTATATAAAATA-AATTATTAAT
82800 TAAATTAATA
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
30 2 0.04
31 32 0.63
32 17 0.33
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (31 bp):
TAAATTTATATAAAATAAATTATTAATATAT
Found at i:82828 original size:11 final size:11
Alignment explanation
Indices: 82692--82828 Score: 79
Period size: 11 Copynumber: 13.5 Consensus size: 11
82682 TTAAAACATG
82692 AATATAATATA
1 AATATAATATA
82703 AA-A-AATATA
1 AATATAATATA
82712 AATATAA-ATAA
1 AATATAATAT-A
82723 AATATAATATA
1 AATATAATATA
82734 AATAT-AT-TA
1 AATATAATATA
*
82743 AAT-TTATATA
1 AATATAATATA
*
82753 AA-ATAAATTATT
1 AATAT-AA-TATA
*
82765 AATATATTA-A
1 AATATAATATA
* *
82775 AAT-TTATTTA
1 AATATAATATA
82785 AATATAAT-T-
1 AATATAATATA
*
82794 --TTTAAT-TA
1 AATATAATATA
82802 AAT-TAATATA
1 AATATAATATA
*
82812 ATTATAATATA
1 AATATAATATA
82823 AATATA
1 AATATA
82829 TAAATTATCT
Statistics
Matches: 98, Mismatches: 11, Indels: 34
0.69 0.08 0.24
Matches are distributed among these distances:
7 6 0.06
8 1 0.01
9 21 0.21
10 24 0.24
11 36 0.37
12 8 0.08
13 2 0.02
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
AATATAATATA
Found at i:85333 original size:17 final size:17
Alignment explanation
Indices: 85301--85334 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
85291 TATATTCATT
* *
85301 TTTATATATGTTATATA
1 TTTATATATATAATATA
85318 TTTATATATATAATATA
1 TTTATATATATAATATA
85335 ATATAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
TTTATATATATAATATA
Found at i:86215 original size:71 final size:74
Alignment explanation
Indices: 86090--86227 Score: 169
Period size: 71 Copynumber: 1.9 Consensus size: 74
86080 AAAACATGTT
* * *
86090 ATATTTTGTAAAGTTTTTTAAAAATATTTATATTTAAATAAGTATATTATAAATAAAA-AT-TTA
1 ATATTTTGTAAAGTTTTATAAAAATAATTATATTTAAATAAGTATATTAAAAATAAAATATATTA
86153 ATTATTATA
66 ATTATTATA
* * *
86162 ATATTTTTTAAA-TTTTATAAAAATAATTA-ATTTAATATATA-TTTTTTAAAAATAAAATATAT
1 ATATTTTGTAAAGTTTTATAAAAATAATTATATTTAA-ATA-AGTATATTAAAAATAAAATATAT
86224 TAAT
64 TAAT
86228 AATTTTTTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
70 6 0.11
71 31 0.55
72 14 0.25
73 5 0.09
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (74 bp):
ATATTTTGTAAAGTTTTATAAAAATAATTATATTTAAATAAGTATATTAAAAATAAAATATATTA
ATTATTATA
Found at i:86336 original size:18 final size:18
Alignment explanation
Indices: 86287--86336 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
86277 TAAATATAAA
86287 TATAAAATATAAA-AATTT
1 TATAAAA-ATAAATAATTT
* *
86305 TA-AATAATTTAATAATTT
1 TATAA-AAATAAATAATTT
86323 TATAAAAATAAATA
1 TATAAAAATAAATA
86337 TATCGTATTC
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
17 5 0.20
18 18 0.72
19 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TATAAAAATAAATAATTT
Found at i:86491 original size:15 final size:16
Alignment explanation
Indices: 86465--86496 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
86455 ATTTTTATAG
86465 AATTTAATTTTAATTA
1 AATTTAATTTTAATTA
86481 AATTTAA-TTTAATTA
1 AATTTAATTTTAATTA
86496 A
1 A
86497 TAAAATATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTTAATTTTAATTA
Found at i:86557 original size:16 final size:17
Alignment explanation
Indices: 86538--86593 Score: 78
Period size: 16 Copynumber: 3.3 Consensus size: 17
86528 TTTAATTTTG
86538 TATTAATTTTTTTTA-T
1 TATTAATTTTTTTTATT
86554 TATTAATTTTTTTTATT
1 TATTAATTTTTTTTATT
* *
86571 CTATTCATATTTTTTATT
1 -TATTAATTTTTTTTATT
86589 TATTA
1 TATTA
86594 TTCATATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
16 15 0.43
17 5 0.14
18 15 0.43
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (17 bp):
TATTAATTTTTTTTATT
Found at i:86614 original size:20 final size:20
Alignment explanation
Indices: 86544--86605 Score: 76
Period size: 20 Copynumber: 3.2 Consensus size: 20
86534 TTTGTATTAA
* *
86544 TTTTT-TTTATTATTAATTT
1 TTTTTATTTATTATTCATAT
*
86563 TTTTTA-TT-CTATTCATAT
1 TTTTTATTTATTATTCATAT
86581 TTTTTATTTATTATTCATAT
1 TTTTTATTTATTATTCATAT
86601 TTTTT
1 TTTTT
86606 CTTTGTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
18 13 0.36
19 9 0.25
20 14 0.39
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTTATTTATTATTCATAT
Found at i:86926 original size:17 final size:18
Alignment explanation
Indices: 86901--86934 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
86891 TAAAATAAAT
86901 ATATATTAAT-ATAAAAA
1 ATATATTAATAATAAAAA
*
86918 ATATTTTAATAATAAAA
1 ATATATTAATAATAAAA
86935 TTAGTTGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATATATTAATAATAAAAA
Found at i:87624 original size:30 final size:28
Alignment explanation
Indices: 87588--87663 Score: 82
Period size: 30 Copynumber: 2.6 Consensus size: 28
87578 TCATAATCAG
** *
87588 AAAAATTTTCATAATTTTTTAATTAAATTT
1 AAAAATTTAAATAATTATTT-A-TAAATTT
*
87618 AAAAATTTAAATTATTATTTATAAATTT
1 AAAAATTTAAATAATTATTTATAAATTT
87646 AAAAAATTTAAA-AATTAT
1 -AAAAATTTAAATAATTAT
87664 ATTAATATTT
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
28 12 0.30
29 12 0.30
30 16 0.40
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.47
Consensus pattern (28 bp):
AAAAATTTAAATAATTATTTATAAATTT
Found at i:87673 original size:28 final size:28
Alignment explanation
Indices: 87609--87674 Score: 82
Period size: 28 Copynumber: 2.4 Consensus size: 28
87599 TAATTTTTTA
*
87609 ATTAAATTT-AAAAATTTAAATTATTAT
1 ATTAAATTTAAAAAATTTAAATAATTAT
*
87636 TTATAAATTTAAAAAATTTAAA-AATTAT
1 AT-TAAATTTAAAAAATTTAAATAATTAT
87664 ATTAATATTTA
1 ATTAA-ATTTA
87675 TATATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
27 4 0.12
28 18 0.55
29 11 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTAAATTTAAAAAATTTAAATAATTAT
Found at i:87692 original size:36 final size:37
Alignment explanation
Indices: 87612--87681 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 37
87602 TTTTTTAATT
*
87612 AAATTTAAAAATTTAAATTATTATTTATAAATTTAAA
1 AAATTTAAAAATTTAAATTAATATTTATAAATTTAAA
* *
87649 AAATTTAAAAA-TTATATTAATATTTATATATTT
1 AAATTTAAAAATTTAAATTAATATTTATAAATTT
87682 TTATAATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
36 19 0.63
37 11 0.37
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (37 bp):
AAATTTAAAAATTTAAATTAATATTTATAAATTTAAA
Found at i:88440 original size:19 final size:20
Alignment explanation
Indices: 88397--88451 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 20
88387 ATAATATTTA
88397 TTTAAATTATTAAA-A-AAT
1 TTTAAATTATTAAATATAAT
**
88415 TAAAAATT-TTAAATATAAT
1 TTTAAATTATTAAATATAAT
88434 TTTAAATTATT-AATATAA
1 TTTAAATTATTAAATATAA
88452 AAAATAAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
17 5 0.17
18 7 0.23
19 16 0.53
20 2 0.07
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAATTATTAAATATAAT
Found at i:88495 original size:21 final size:21
Alignment explanation
Indices: 88470--88511 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
88460 ATTTAATTGC
*
88470 TTAATTTATATT-TTTTAAAAT
1 TTAATTTA-ATTATGTTAAAAT
88491 TTAATTTAATTATGTTAAAAT
1 TTAATTTAATTATGTTAAAAT
88512 AAATAAATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
TTAATTTAATTATGTTAAAAT
Found at i:89117 original size:14 final size:16
Alignment explanation
Indices: 89098--89132 Score: 56
Period size: 14 Copynumber: 2.3 Consensus size: 16
89088 AAAAATATTA
89098 TAAATATTAAA-AT-T
1 TAAATATTAAATATAT
89112 TAAATATTAAATATAT
1 TAAATATTAAATATAT
89128 TAAAT
1 TAAAT
89133 TTTATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 11 0.58
15 2 0.11
16 6 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAATATTAAATATAT
Found at i:89120 original size:23 final size:23
Alignment explanation
Indices: 89090--89136 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
89080 GAAGAGTCAA
89090 AAATATTATAA-ATATTAAAATTT
1 AAATATTA-AATATATTAAAATTT
*
89113 AAATATTAAATATATTAAATTTT
1 AAATATTAAATATATTAAAATTT
89136 A
1 A
89137 TTTTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AAATATTAAATATATTAAAATTT
Found at i:89132 original size:9 final size:8
Alignment explanation
Indices: 89089--89131 Score: 54
Period size: 9 Copynumber: 5.4 Consensus size: 8
89079 TGAAGAGTCA
89089 AAAATATT
1 AAAATATT
89097 ATAAATATT
1 A-AAATATT
89106 AAAAT-TT
1 AAAATATT
89113 -AAATATT
1 AAAATATT
89120 AAATATATT
1 AAA-ATATT
89129 AAA
1 AAA
89132 TTTTATTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 4 0.13
7 4 0.13
8 7 0.23
9 16 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
AAAATATT
Found at i:95720 original size:363 final size:363
Alignment explanation
Indices: 95055--95788 Score: 1468
Period size: 363 Copynumber: 2.0 Consensus size: 363
95045 CACAGTTTAT
95055 GGAAAATGAAGGTTGTTCATAATCCTAAATGCCAGATATGTAGACAGCAAGAGGAAATGGTTGAA
1 GGAAAATGAAGGTTGTTCATAATCCTAAATGCCAGATATGTAGACAGCAAGAGGAAATGGTTGAA
95120 CACCTAATCTTACAATGTGAATGGACAAGAAGTTTGTGGTTTGAAGTATGTCAGGGATTGAGGAT
66 CACCTAATCTTACAATGTGAATGGACAAGAAGTTTGTGGTTTGAAGTATGTCAGGGATTGAGGAT
95185 TAATGCGAATAGGATTACTTCCATTGATATTTGGTTTTCTGAGACGTTGCAGACCATAAAAGCAG
131 TAATGCGAATAGGATTACTTCCATTGATATTTGGTTTTCTGAGACGTTGCAGACCATAAAAGCAG
95250 TAGGATTACTTGTTGGCATATTTGGAAGGTAAGGTGTGAAACGGTGATAGGAAAAACGGAGTTGA
196 TAGGATTACTTGTTGGCATATTTGGAAGGTAAGGTGTGAAACGGTGATAGGAAAAACGGAGTTGA
95315 ATAACGTAGCAGTGGTATGCAGAATCAGAATAGCAGTATTGGAATGGCTGAATATTCTGGGAAGT
261 ATAACGTAGCAGTGGTATGCAGAATCAGAATAGCAGTATTGGAATGGCTGAATATTCTGGGAAGT
95380 AAAAGTAGTTCAGTAAAAGACATTAGCAAAAAGGAAAA
326 AAAAGTAGTTCAGTAAAAGACATTAGCAAAAAGGAAAA
95418 GGAAAATGAAGGTTGTTCATAATCCTAAATGCCAGATATGTAGACAGCAAGAGGAAATGGTTGAA
1 GGAAAATGAAGGTTGTTCATAATCCTAAATGCCAGATATGTAGACAGCAAGAGGAAATGGTTGAA
95483 CACCTAATCTTACAATGTGAATGGACAAGAAGTTTGTGGTTTGAAGTATGTCAGGGATTGAGGAT
66 CACCTAATCTTACAATGTGAATGGACAAGAAGTTTGTGGTTTGAAGTATGTCAGGGATTGAGGAT
95548 TAATGCGAATAGGATTACTTCCATTGATATTTGGTTTTCTGAGACGTTGCAGACCATAAAAGCAG
131 TAATGCGAATAGGATTACTTCCATTGATATTTGGTTTTCTGAGACGTTGCAGACCATAAAAGCAG
95613 TAGGATTACTTGTTGGCATATTTGGAAGGTAAGGTGTGAAACGGTGATAGGAAAAACGGAGTTGA
196 TAGGATTACTTGTTGGCATATTTGGAAGGTAAGGTGTGAAACGGTGATAGGAAAAACGGAGTTGA
95678 ATAACGTAGCAGTGGTATGCAGAATCAGAATAGCAGTATTGGAATGGCTGAATATTCTGGGAAGT
261 ATAACGTAGCAGTGGTATGCAGAATCAGAATAGCAGTATTGGAATGGCTGAATATTCTGGGAAGT
95743 AAAAGTAGTTCAGTAAAAGACATTAGCAAAAAGGAAAA
326 AAAAGTAGTTCAGTAAAAGACATTAGCAAAAAGGAAAA
95781 GGAAAATG
1 GGAAAATG
95789 TGGATGTATG
Statistics
Matches: 371, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
363 371 1.00
ACGTcount: A:0.36, C:0.10, G:0.27, T:0.27
Consensus pattern (363 bp):
GGAAAATGAAGGTTGTTCATAATCCTAAATGCCAGATATGTAGACAGCAAGAGGAAATGGTTGAA
CACCTAATCTTACAATGTGAATGGACAAGAAGTTTGTGGTTTGAAGTATGTCAGGGATTGAGGAT
TAATGCGAATAGGATTACTTCCATTGATATTTGGTTTTCTGAGACGTTGCAGACCATAAAAGCAG
TAGGATTACTTGTTGGCATATTTGGAAGGTAAGGTGTGAAACGGTGATAGGAAAAACGGAGTTGA
ATAACGTAGCAGTGGTATGCAGAATCAGAATAGCAGTATTGGAATGGCTGAATATTCTGGGAAGT
AAAAGTAGTTCAGTAAAAGACATTAGCAAAAAGGAAAA
Found at i:97074 original size:3 final size:3
Alignment explanation
Indices: 97066--97099 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
97056 ATAATTCATA
97066 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
97100 ATTTTTAAAC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:101352 original size:3 final size:3
Alignment explanation
Indices: 101344--101381 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
101334 TTTCCACGAA
101344 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
101382 AAGTTCAGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:104447 original size:3 final size:3
Alignment explanation
Indices: 104439--104465 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
104429 TTAGAACCCC
104439 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
104466 TGGGGAAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:105296 original size:24 final size:24
Alignment explanation
Indices: 105252--105299 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
105242 TAAATTATTT
**
105252 TTAAATTTAAAATATTTAATAAAA
1 TTAAATTTAAAATATAAAATAAAA
105276 TTAAA-TTAAAATGATAAAATAAAA
1 TTAAATTTAAAAT-ATAAAATAAAA
105300 AAAAAAAGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TTAAATTTAAAATATAAAATAAAA
Found at i:105490 original size:16 final size:18
Alignment explanation
Indices: 105459--105492 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
105449 TAATATTTTT
105459 ATATTATAATTATTTAAA
1 ATATTATAATTATTTAAA
105477 ATATTAT-A-TATTTAAA
1 ATATTATAATTATTTAAA
105493 TTATAATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 1 0.06
18 7 0.44
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
ATATTATAATTATTTAAA
Found at i:105499 original size:31 final size:33
Alignment explanation
Indices: 105435--105499 Score: 89
Period size: 31 Copynumber: 2.0 Consensus size: 33
105425 ATTTATGTAT
* *
105435 TTATATAAAATATATAATATTTTTATATTATAA
1 TTATATAAAATATATAATATATTTAAATTATAA
*
105468 TTATTTAAAATAT-T-ATATATTTAAATTATAA
1 TTATATAAAATATATAATATATTTAAATTATAA
105499 T
1 T
105500 GATGATATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 16 0.55
32 1 0.03
33 12 0.41
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (33 bp):
TTATATAAAATATATAATATATTTAAATTATAA
Found at i:105624 original size:19 final size:19
Alignment explanation
Indices: 105581--105626 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
105571 ATTTTTTTCG
*
105581 ATTATATTGATTAAAAATA
1 ATTATATTGATCAAAAATA
*
105600 ATTATATTGATCAATACATA
1 ATTATATTGATCAA-AAATA
105620 A-TATATT
1 ATTATATT
105627 AATTATAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 19 0.79
20 5 0.21
ACGTcount: A:0.48, C:0.04, G:0.04, T:0.43
Consensus pattern (19 bp):
ATTATATTGATCAAAAATA
Done.