Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold151
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: 367700
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
File 2 of 4
Found at i:129043 original size:13 final size:13
Alignment explanation
Indices: 128896--129034 Score: 56
Period size: 13 Copynumber: 9.9 Consensus size: 13
128886 TAATATAATT
*
128896 ACAAAGAAAAATAAA
1 ACAAA-AAAAA-AAC
128911 ACAATAAAAAAAA-
1 ACAA-AAAAAAAAC
128924 A-AAATAAAAAAA-
1 ACAAA-AAAAAAAC
*
128936 A-AAACAAAAAAC
1 ACAAAAAAAAAAC
128948 A-ACAAAAAAAAAC
1 ACA-AAAAAAAAAC
*
128961 AAAAAAAAAAAAC
1 ACAAAAAAAAAAC
128974 -CAAACAAACAATCCTAAC
1 ACAAA-AAA-AA----AAC
128992 ACAAAACAAAAAAC
1 ACAAAA-AAAAAAC
*
129006 CCAAAATAAAACACCAC
1 ACAAAA-AAAA-A--AC
129023 ACAAAAAAAAAA
1 ACAAAAAAAAAA
129035 AACACAAAAT
Statistics
Matches: 102, Mismatches: 6, Indels: 34
0.72 0.04 0.24
Matches are distributed among these distances:
11 7 0.07
12 18 0.18
13 25 0.25
14 17 0.17
15 11 0.11
16 5 0.05
17 7 0.07
18 6 0.06
19 6 0.06
ACGTcount: A:0.78, C:0.17, G:0.01, T:0.04
Consensus pattern (13 bp):
ACAAAAAAAAAAC
Found at i:129289 original size:24 final size:24
Alignment explanation
Indices: 129243--129289 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
129233 CCACCCACCA
*
129243 CCCCCCCCCACCCCCTACAAAACC
1 CCCCCCCCCACCCACTACAAAACC
129267 CCCCCCCCCACCCAC-ACACAAAC
1 CCCCCCCCCACCCACTACA-AAAC
129290 ATACAACCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.28, C:0.70, G:0.00, T:0.02
Consensus pattern (24 bp):
CCCCCCCCCACCCACTACAAAACC
Found at i:129349 original size:20 final size:18
Alignment explanation
Indices: 129324--129364 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
129314 CAACAACAAA
129324 CCCACACCCAACACACCCCC
1 CCCACA-CC-ACACACCCCC
*
129344 CCCACACCACCCACCCCC
1 CCCACACCACACACCCCC
129362 CCC
1 CCC
129365 TCCCCTACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
19 2 0.10
20 6 0.30
ACGTcount: A:0.24, C:0.76, G:0.00, T:0.00
Consensus pattern (18 bp):
CCCACACCACACACCCCC
Found at i:129391 original size:1 final size:1
Alignment explanation
Indices: 129385--129551 Score: 208
Period size: 1 Copynumber: 167.0 Consensus size: 1
129375 TCCCCACCCT
* * * * ** * * *
129385 CCCCCCCCCCCCACCCACACTCCCCCCCCCCCCCCCCCTGCCCCCCACCCCCTCCCCCCCCCCCA
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* * *
129450 CCCCCCCCCCCCCCACCCCCCCTCCCCCCCCCCCACCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* *
129515 TCCCCCCCCCCCCCCACCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
129552 AAATTCATAG
Statistics
Matches: 139, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 139 1.00
ACGTcount: A:0.05, C:0.92, G:0.01, T:0.03
Consensus pattern (1 bp):
C
Found at i:129391 original size:48 final size:43
Alignment explanation
Indices: 129339--129549 Score: 203
Period size: 42 Copynumber: 4.7 Consensus size: 43
129329 ACCCAACACA
* * *
129339 CCCCCCCCACACCACCCACCCCCCCCTCCCCTACAATCCCCACCCTCC
1 CCCCCCCCCCACC-CCCACCCCCCCC-CCCC-CCCATCCCC-CCCT-C
* * * *
129387 CCCCCCCCCCACCCACACTCCCCCCCCCCCCCCCCCTGCCCCCCAC
1 CCCCCCCCCCACCC-C-C-ACCCCCCCCCCCCCCCATCCCCCCCTC
129433 CCCCTCCCCCC-CCCCCA-CCCCCCCCCCCCCCA-CCCCCCCTC
1 CCCC-CCCCCCACCCCCACCCCCCCCCCCCCCCATCCCCCCCTC
* **
129474 CCCCCCCCCCACCCCCCCCCCCCCCCCCCCCCCCCCCCCCCTC
1 CCCCCCCCCCACCCCCACCCCCCCCCCCCCCCATCCCCCCCTC
* *
129517 CCCCCCCCCCCCCACCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCACC-CCCACCCCCCCCCCCCCCC
129550 CCAAATTCAT
Statistics
Matches: 141, Mismatches: 14, Indels: 20
0.81 0.08 0.11
Matches are distributed among these distances:
40 6 0.04
41 16 0.11
42 28 0.20
43 21 0.15
44 20 0.14
45 1 0.01
46 8 0.06
47 10 0.07
48 18 0.13
49 5 0.04
50 8 0.06
ACGTcount: A:0.08, C:0.88, G:0.00, T:0.04
Consensus pattern (43 bp):
CCCCCCCCCCACCCCCACCCCCCCCCCCCCCCATCCCCCCCTC
Found at i:129393 original size:30 final size:28
Alignment explanation
Indices: 129357--129551 Score: 132
Period size: 26 Copynumber: 7.3 Consensus size: 28
129347 ACACCACCCA
*
129357 CCCCCCCCTCCCCTACAATCCCCACCCTCC
1 CCCCCCCCTCCCCCACAATCCCC-CCC-CC
*
129387 CCCCCCCC-CCACCCACACTCCCCCCCCC
1 CCCCCCCCTCC-CCCACAATCCCCCCCCC
*
129415 CCCCCCCCTGCCCCC-C-A-CCCCCTCCC
1 CCCCCCCCT-CCCCCACAATCCCCCCCCC
*
129441 CCCCCCCCACCCCC-C---CCCCCCCCAC
1 CCCCCCCCTCCCCCACAATCCCCCCCC-C
* * *
129466 CCCCCCTCCCCCCCCCCCA-CCCCCCCCC
1 CCCCCC-CCTCCCCCACAATCCCCCCCCC
*
129494 CCCCCCCC-CCCCC-C---CCCCCCCTC
1 CCCCCCCCTCCCCCACAATCCCCCCCCC
***
129517 CCCCCCCC-CCCCCACCCCCCCCCCCCC
1 CCCCCCCCTCCCCCACAATCCCCCCCCC
129544 CCCCCCCC
1 CCCCCCCC
129552 AAATTCATAG
Statistics
Matches: 144, Mismatches: 9, Indels: 27
0.80 0.05 0.15
Matches are distributed among these distances:
23 21 0.15
24 8 0.06
25 14 0.10
26 28 0.19
27 19 0.13
28 18 0.12
29 16 0.11
30 20 0.14
ACGTcount: A:0.06, C:0.89, G:0.01, T:0.05
Consensus pattern (28 bp):
CCCCCCCCTCCCCCACAATCCCCCCCCC
Found at i:129456 original size:67 final size:63
Alignment explanation
Indices: 129376--129551 Score: 237
Period size: 66 Copynumber: 2.7 Consensus size: 63
129366 CCCCTACAAT
*
129376 CCCCACCCTCCCCCCCCCCCCACCCACACTCCCCCCCCCCCCCCCCCTGCCCCCCACCCCCTCCC
1 CCCCA-CC-CCCCCCCCCCCCACCC-C-CTCCCCCCCCCCCCCCCCC--CCCCCCACCCCCCCCC
129441 CCCC
60 CCCC
*
129445 CCCCACCCCCCCCCCCCCCACCCCCCCTCCCCCCCCCCCACCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCACCCCCCCCCCCCCCA--CCCCCTCCCCCCCCCCC-CCCCCCCCCCCCACCCCCCCCCCCC
129510 C
63 C
*
129511 CCCCTCCCCCCCCCCCCCCACCCCC-CCCCCCCCCCCCCCCC
1 CCCCACCCCCCCCCCCCCCACCCCCTCCCCCCCCCCCCCCCC
129552 AAATTCATAG
Statistics
Matches: 101, Mismatches: 3, Indels: 13
0.86 0.03 0.11
Matches are distributed among these distances:
62 5 0.05
63 11 0.11
64 5 0.05
66 37 0.37
67 26 0.26
68 9 0.09
69 8 0.08
ACGTcount: A:0.05, C:0.91, G:0.01, T:0.03
Consensus pattern (63 bp):
CCCCACCCCCCCCCCCCCCACCCCCTCCCCCCCCCCCCCCCCCCCCCCCACCCCCCCCCCCCC
Found at i:135161 original size:23 final size:24
Alignment explanation
Indices: 135126--135172 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
135116 ATTAAATTTA
*
135126 AATACAAATTATTATTCAAAAATT
1 AATACAAATTATTATTAAAAAATT
*
135150 AATA-AAATTATTTTTAAAAAATT
1 AATACAAATTATTATTAAAAAATT
135173 TATATTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 17 0.81
24 4 0.19
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.40
Consensus pattern (24 bp):
AATACAAATTATTATTAAAAAATT
Found at i:135212 original size:21 final size:21
Alignment explanation
Indices: 135162--135212 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
135152 TAAAATTATT
*
135162 TTTAAAAAATTTATATTAATA
1 TTTAAATAATTTATATTAATA
*
135183 TTTATATAATTTATAATTAA-A
1 TTTAAATAATTTAT-ATTAATA
135204 TTTAAATAA
1 TTTAAATAA
135213 AAATTTTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 21 0.81
22 5 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTTAAATAATTTATATTAATA
Found at i:135477 original size:21 final size:23
Alignment explanation
Indices: 135440--135484 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
135430 CTTCACATAT
*
135440 AATTTATAAAGTAATTTTTTTCA
1 AATTTATAAAGTAATTTTTATCA
135463 AATTTAT-AA-TAATTTTTATCA
1 AATTTATAAAGTAATTTTTATCA
135484 A
1 A
135485 CTTAAATATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
22 2 0.10
23 7 0.33
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
AATTTATAAAGTAATTTTTATCA
Found at i:136085 original size:18 final size:18
Alignment explanation
Indices: 136050--136097 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
136040 TCATAATTTT
* *
136050 AAAAATAAATACATTATA
1 AAAAATAAATAAAATATA
*
136068 AAAAATAATTAAAATATA
1 AAAAATAAATAAAATATA
136086 AAATAA-AAATAA
1 AAA-AATAAATAA
136098 TATTAATATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
18 23 0.92
19 2 0.08
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAAATAAATAAAATATA
Found at i:137590 original size:18 final size:18
Alignment explanation
Indices: 137567--137604 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
137557 ATAAAATTAT
137567 TTTTTTATTATATTAATA
1 TTTTTTATTATATTAATA
*
137585 TTTTTTATTCTATTAATA
1 TTTTTTATTATATTAATA
137603 TT
1 TT
137605 AAATTAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTTTATTATATTAATA
Found at i:138219 original size:3 final size:3
Alignment explanation
Indices: 138211--138241 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
138201 TAAGAAACTC
138211 TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
138242 TGTTACTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.07
3 25 0.93
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:139071 original size:23 final size:24
Alignment explanation
Indices: 139035--139086 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
139025 AGCATAACTT
* *
139035 AATATTTAGTTTAT-TATATAATTA
1 AATATTTAGATTATCAAT-TAATTA
139059 AATATTTA-ATTATCAATTAATTA
1 AATATTTAGATTATCAATTAATTA
139082 AATAT
1 AATAT
139087 AAATTCTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (24 bp):
AATATTTAGATTATCAATTAATTA
Found at i:140110 original size:22 final size:23
Alignment explanation
Indices: 140066--140112 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 23
140056 GGTAGGATAG
*
140066 TTTCTGGGTTGTTCTGGATGATTA
1 TTTCTGGGGTGTTC-GGATGATTA
140090 TTTCTGGGGTGTTC-GATGATTA
1 TTTCTGGGGTGTTCGGATGATTA
140112 T
1 T
140113 GATCAAAAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 9 0.41
24 13 0.59
ACGTcount: A:0.13, C:0.09, G:0.30, T:0.49
Consensus pattern (23 bp):
TTTCTGGGGTGTTCGGATGATTA
Found at i:143712 original size:26 final size:25
Alignment explanation
Indices: 143625--143716 Score: 73
Period size: 25 Copynumber: 3.7 Consensus size: 25
143615 TTATTATTTA
* *
143625 TTTAATAAATAAT-ATTTTTAATTAAA
1 TTTAAT-AATAATAATTTTTAAAT-AT
* * *
143651 TTTAATTATAA-AATATATAAATAT
1 TTTAATAATAATAATTTTTAAATAT
**
143675 TAAAATAA-AATAATTTTTAAATATT
1 TTTAATAATAATAATTTTTAAATA-T
143700 TTTAATAATAATAATTT
1 TTTAATAATAATAATTT
143717 ATATTTAAAT
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
23 2 0.04
24 16 0.32
25 18 0.36
26 14 0.28
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTAATAATAATAATTTTTAAATAT
Found at i:144804 original size:104 final size:104
Alignment explanation
Indices: 144658--144855 Score: 253
Period size: 105 Copynumber: 1.9 Consensus size: 104
144648 TATCTGTAAT
* * * * *
144658 TTAAAAATAAAAAATAATATCTATGTTAAAATTTAAATTTTAAATTTATTATATATTATTT-TTT
1 TTAAAAATAAAAAATAAAATCTATGATAAAATTTAAATTTTAAACTTATAAAATATTATTTATTT
* *
144722 AA-AGATAATTTTATAAATTAATTAGATTATGTTATTCTC
66 AAGA-ATAATTATATAAATTAATTAAATTATGTTATTCTC
144761 TTAAAAATAAAAAA-AAAAT-TATAGATAACGAATTT-AATCTTTAAACTTATAAAATATTATTT
1 TTAAAAATAAAAAATAAAATCTAT-GATAA--AATTTAAAT-TTTAAACTTATAAAATATTATTT
144823 ATTTAAGAATAATTATATAAATTAATTAAATTA
62 ATTTAAGAATAATTATATAAATTAATTAAATTA
144856 AATTTTAAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
101 3 0.04
102 8 0.10
103 17 0.21
104 25 0.30
105 28 0.34
106 1 0.01
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (104 bp):
TTAAAAATAAAAAATAAAATCTATGATAAAATTTAAATTTTAAACTTATAAAATATTATTTATTT
AAGAATAATTATATAAATTAATTAAATTATGTTATTCTC
Found at i:144848 original size:105 final size:103
Alignment explanation
Indices: 144658--144855 Score: 251
Period size: 104 Copynumber: 1.9 Consensus size: 103
144648 TATCTGTAAT
* * * * *
144658 TTAAAAATAAAAAATAATATCTATGTTAAAATTTAAATTTTAAATTTATTATATATTATTTTTTA
1 TTAAAAATAAAAAATAAAATCTATGATAAAATTTAAATTTTAAACTTATAAAATATTATTTTTTA
* *
144723 AAGATAATTTTATAAATTAATTAGATTATGTTATTCTC
66 AAGATAATTATATAAATTAATTAAATTATGTTATTCTC
144761 TTAAAAATAAAAAA-AAAAT-TATAGATAACGAATTT-AATCTTTAAACTTATAAAATATTATTT
1 TTAAAAATAAAAAATAAAATCTAT-GATAA--AATTTAAAT-TTTAAACTTATAAAATATTATTT
144823 ATTT-AAGAATAATTATATAAATTAATTAAATTA
62 -TTTAAAG-ATAATTATATAAATTAATTAAATTA
144856 AATTTTAAAT
Statistics
Matches: 82, Mismatches: 7, Indels: 10
0.83 0.07 0.10
Matches are distributed among these distances:
101 3 0.04
102 8 0.10
103 17 0.21
104 28 0.34
105 26 0.32
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.44
Consensus pattern (103 bp):
TTAAAAATAAAAAATAAAATCTATGATAAAATTTAAATTTTAAACTTATAAAATATTATTTTTTA
AAGATAATTATATAAATTAATTAAATTATGTTATTCTC
Found at i:145820 original size:13 final size:14
Alignment explanation
Indices: 145804--145836 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
145794 AATTTAATTA
145804 TTTA-AATAATATT
1 TTTATAATAATATT
*
145817 TTTATATTAATATT
1 TTTATAATAATATT
145831 TTTATA
1 TTTATA
145837 TTTTTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
TTTATAATAATATT
Found at i:145829 original size:14 final size:14
Alignment explanation
Indices: 145810--145838 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
145800 ATTATTTAAA
145810 TAATATTTTTATAT
1 TAATATTTTTATAT
145824 TAATATTTTTATAT
1 TAATATTTTTATAT
145838 T
1 T
145839 TTTATAATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TAATATTTTTATAT
Found at i:145837 original size:22 final size:22
Alignment explanation
Indices: 145812--145853 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
145802 TATTTAAATA
145812 ATATTTTTAT-ATTAATATTTTT
1 ATATTTTTATAATTAA-ATTTTT
145834 ATATTTTTATAATTAAATTT
1 ATATTTTTATAATTAAATTT
145854 AAATTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTTT
Found at i:147269 original size:19 final size:19
Alignment explanation
Indices: 147245--147282 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
147235 AAGAGTATGG
*
147245 GTAACATGCAAACTAATAA
1 GTAACATGCAAAATAATAA
147264 GTAACATGCAAAATAATAA
1 GTAACATGCAAAATAATAA
147283 AAATGCAGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.13, G:0.11, T:0.21
Consensus pattern (19 bp):
GTAACATGCAAAATAATAA
Found at i:152645 original size:16 final size:17
Alignment explanation
Indices: 152626--152669 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 17
152616 CACGTATTTT
152626 TAAAATAT-ATTAAAAA
1 TAAAATATAATTAAAAA
152642 TAAAAATAATTAATTAAAAA
1 T-AAAAT-A-TAATTAAAAA
152662 TAAAATAT
1 TAAAATAT
152670 GTAATGAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
16 1 0.04
17 6 0.25
18 2 0.08
19 6 0.25
20 9 0.38
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAATATAATTAAAAA
Found at i:152964 original size:35 final size:35
Alignment explanation
Indices: 152900--152966 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
152890 ATTTAGATTC
*
152900 ATTTAAATTATTATTTAAATAATAAAAATATTTTT
1 ATTTAAATTATTATTAAAATAATAAAAATATTTTT
*
152935 ATTTAAATTTAATTA-TAAAAT-ATATAAATATT
1 ATTTAAA-TT-ATTATTAAAATAATAAAAATATT
152967 AATATAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
35 17 0.61
36 7 0.25
37 4 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (35 bp):
ATTTAAATTATTATTAAAATAATAAAAATATTTTT
Found at i:153877 original size:22 final size:22
Alignment explanation
Indices: 153850--153905 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 22
153840 TTTAAATCTT
153850 TTAAAATAAAATAAATAT-ATA
1 TTAAAATAAAATAAATATGATA
* *
153871 TATAAAAATAAAA-AAATTTGATC
1 T-T-AAAATAAAATAAATATGATA
153894 TTAAAATAAAAT
1 TTAAAATAAAAT
153906 TAAAAAAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
21 10 0.34
22 7 0.24
23 12 0.41
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
TTAAAATAAAATAAATATGATA
Found at i:154041 original size:3 final size:3
Alignment explanation
Indices: 154033--154119 Score: 113
Period size: 3 Copynumber: 28.7 Consensus size: 3
154023 TCTTTTCAGA
* * *
154033 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA- CAT TAT ATT AATT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA-T
*
154081 GAT AAAT 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
154120 CAACAACATA
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
2 1 0.01
3 69 0.93
4 4 0.05
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:155176 original size:3 final size:3
Alignment explanation
Indices: 155170--155213 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
155160 GTTGATGATG
155170 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
155214 GTACATATTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:155406 original size:17 final size:17
Alignment explanation
Indices: 155386--155425 Score: 66
Period size: 15 Copynumber: 2.5 Consensus size: 17
155376 TAAATATCGG
155386 ATATGAATATATATTTA
1 ATATGAATATATATTTA
155403 ATATG-A-ATATATTTA
1 ATATGAATATATATTTA
155418 ATATGAAT
1 ATATGAAT
155426 CTTTTATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 14 0.67
16 2 0.10
17 5 0.24
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (17 bp):
ATATGAATATATATTTA
Found at i:156039 original size:20 final size:20
Alignment explanation
Indices: 156001--156039 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
155991 AATTTTTACG
*
156001 TATTATAATTATATTTAAAA
1 TATTATAATTATATATAAAA
156021 TATTATATATT-TATATAAA
1 TATTATA-ATTATATATAAA
156040 TTTTGATATG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TATTATAATTATATATAAAA
Found at i:156704 original size:13 final size:15
Alignment explanation
Indices: 156674--156712 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
156664 TTTTTTTATG
*
156674 AAGTGAATAAAAAGT
1 AAGTAAATAAAAAGT
156689 AAG-AAATAAAAA-T
1 AAGTAAATAAAAAGT
156702 AAGTAAATAAA
1 AAGTAAATAAA
156713 TAACAAAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 15 0.68
15 3 0.14
ACGTcount: A:0.69, C:0.00, G:0.13, T:0.18
Consensus pattern (15 bp):
AAGTAAATAAAAAGT
Found at i:156722 original size:17 final size:17
Alignment explanation
Indices: 156682--156723 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
156672 TGAAGTGAAT
156682 AAAAAGT-AAGAAATAA
1 AAAAAGTAAAGAAATAA
*
156698 AAATAAGTAAATAAATAA
1 AAA-AAGTAAAGAAATAA
*
156716 CAAAAGTA
1 AAAAAGTA
156724 TCAATGAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 3 0.14
17 9 0.41
18 10 0.45
ACGTcount: A:0.71, C:0.02, G:0.10, T:0.17
Consensus pattern (17 bp):
AAAAAGTAAAGAAATAA
Found at i:157386 original size:17 final size:17
Alignment explanation
Indices: 157364--157396 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
157354 ATCTTTTAAT
*
157364 TTTTAATTATAAAATTA
1 TTTTAACTATAAAATTA
157381 TTTTAACTATAAAATT
1 TTTTAACTATAAAATT
157397 TTAATCAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTTAACTATAAAATTA
Found at i:157795 original size:18 final size:17
Alignment explanation
Indices: 157770--157803 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
157760 TTAATTTTTA
*
157770 TAAAAATTTTATTTATT
1 TAAAAATTATATTTATT
157787 TAAAGAATTATATTTAT
1 TAAA-AATTATATTTAT
157804 ATCTAAACCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
TAAAAATTATATTTATT
Found at i:158527 original size:18 final size:19
Alignment explanation
Indices: 158504--158546 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
158494 AATTTTGAAT
* *
158504 AATATTAATA-TATATATA
1 AATATTAATATTAAATACA
158522 AATATTAATATTAAATACA
1 AATATTAATATTAAATACA
158541 AATATT
1 AATATT
158547 TTAGGCAATC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 10 0.45
19 12 0.55
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATTAATATTAAATACA
Found at i:161009 original size:2 final size:2
Alignment explanation
Indices: 161004--161044 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
160994 AAAAAATTAA
*
161004 AT AT AT TT AT AT CAT 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
161045 TCATTTTGAT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 34 0.94
3 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:161093 original size:19 final size:20
Alignment explanation
Indices: 161071--161110 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
161061 TTAAATTCAG
*
161071 ATAACAT-AATTAAAATTAA
1 ATAACATAAAATAAAATTAA
161090 ATAACATAAAATAAAATTAA
1 ATAACATAAAATAAAATTAA
161110 A
1 A
161111 AAAAAGTGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
ATAACATAAAATAAAATTAA
Found at i:163598 original size:19 final size:18
Alignment explanation
Indices: 163574--163610 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
163564 CGATTTGATT
163574 TAATTTAAATTAATATATA
1 TAATTTAAATTAAT-TATA
163593 TAATTTAAATTAATTATA
1 TAATTTAAATTAATTATA
163611 AAAATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 4 0.22
19 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
TAATTTAAATTAATTATA
Found at i:163633 original size:12 final size:11
Alignment explanation
Indices: 163599--163640 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
163589 TATATAATTT
163599 AAATTAATTATA
1 AAATTAA-TATA
*
163611 AAAAT-ATATA
1 AAATTAATATA
163621 AATATTAATATA
1 AA-ATTAATATA
163633 AAATTAAT
1 AAATTAAT
163641 TATTTAAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
10 6 0.23
11 9 0.35
12 11 0.42
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATTAATATA
Found at i:163795 original size:11 final size:12
Alignment explanation
Indices: 163774--163817 Score: 56
Period size: 11 Copynumber: 3.8 Consensus size: 12
163764 TGAACCTATT
163774 TTAATATTTATA
1 TTAATATTTATA
163786 TTAA-ATTTATA
1 TTAATATTTATA
* *
163797 TTATTTTTTATA
1 TTAATATTTATA
163809 TT-ATATTTA
1 TTAATATTTA
163818 CTCTAATTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
11 15 0.56
12 12 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TTAATATTTATA
Found at i:165411 original size:9 final size:9
Alignment explanation
Indices: 165399--165738 Score: 113
Period size: 9 Copynumber: 38.7 Consensus size: 9
165389 ATTTTTTGAA
165399 TTTTATAAT
1 TTTTATAAT
*
165408 TTTTATATT
1 TTTTATAAT
*
165417 TTTTGTAAT
1 TTTTATAAT
165426 TCTTTA-AA-
1 T-TTTATAAT
165434 -TTT-T-AT
1 TTTTATAAT
165440 TTTTA-AATT
1 TTTTATAA-T
*
165449 TTTTAAAAT
1 TTTTATAAT
165458 TTTT-T-A-
1 TTTTATAAT
165464 TTTTATAGATT
1 TTTTATA-A-T
*
165475 TTTTAAAAT
1 TTTTATAAT
165484 TTTT-TGAA-
1 TTTTAT-AAT
165492 TTTT-T-AT
1 TTTTATAAT
*
165499 TTTTAAAAT
1 TTTTATAAT
*
165508 TTTTTTGAA-
1 TTTTAT-AAT
165517 TTTTATAGAT
1 TTTTATA-AT
165527 TTGTTATAAT
1 TT-TTATAAT
165537 TTTT-TGAA-
1 TTTTAT-AAT
165545 TTTTATAGAT
1 TTTTATA-AT
165555 TTTTATAAT
1 TTTTATAAT
* *
165564 TTGTGTAAT
1 TTTTATAAT
* *
165573 TCTCATAA-
1 TTTTATAAT
165581 TTTT-T-AT
1 TTTTATAAT
165588 TTTTA-AATT
1 TTTTATAA-T
* *
165597 TTTTAAAAAA
1 TTTT-ATAAT
165607 TTTTA-AA-
1 TTTTATAAT
165614 -TTTATAGAT
1 TTTTATA-AT
165623 TTTTATAATT
1 TTTTATAA-T
165633 TTTTATAAGT
1 TTTTATAA-T
*
165643 TTCTA-AAT
1 TTTTATAAT
**
165651 TTTTATTTT
1 TTTTATAAT
*
165660 TATTTTTAA-
1 T-TTTATAAT
165669 TTTTA-AATT
1 TTTTATAA-T
*
165678 CTTTTATAGT
1 -TTTTATAAT
* *
165688 GTTTAT-GT
1 TTTTATAAT
165696 TTTTATAATT
1 TTTTATAA-T
*
165706 TTTTATTAT
1 TTTTATAAT
*
165715 TTTTATGAT
1 TTTTATAAT
* *
165724 TTTTTTATT
1 TTTTATAAT
165733 TTTTAT
1 TTTTAT
165739 TTTTTATTTT
Statistics
Matches: 248, Mismatches: 39, Indels: 88
0.66 0.10 0.23
Matches are distributed among these distances:
5 1 0.00
6 13 0.05
7 17 0.07
8 34 0.14
9 105 0.42
10 64 0.26
11 14 0.06
ACGTcount: A:0.29, C:0.01, G:0.05, T:0.65
Consensus pattern (9 bp):
TTTTATAAT
Found at i:165426 original size:26 final size:25
Alignment explanation
Indices: 165381--165443 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
165371 AATAAAGATA
165381 AAATTTT-TATTTTTTGAATT-TTAT
1 AAATTTTATATTTTTTGAATTCTT-T
*
165405 AATTTTTATATTTTTTGTAATTCTTT
1 AAATTTTATATTTTTTG-AATTCTTT
165431 AAATTTTAT-TTTT
1 AAATTTTATATTTT
165444 AAATTTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
24 6 0.18
25 13 0.38
26 13 0.38
27 2 0.06
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.68
Consensus pattern (25 bp):
AAATTTTATATTTTTTGAATTCTTT
Found at i:165462 original size:25 final size:24
Alignment explanation
Indices: 165434--165512 Score: 99
Period size: 26 Copynumber: 3.2 Consensus size: 24
165424 ATTCTTTAAA
165434 TTTTATTTTTAAATTTTTTAAAATT
1 TTTTATTTTT-AATTTTTTAAAATT
165459 TTTTATTTTATAGATTTTTTAAAATT
1 TTTTATTTT-TA-ATTTTTTAAAATT
165485 TTTTGAATTTTT-A-TTTTTAAAATT
1 TTTT--ATTTTTAATTTTTTAAAATT
165509 TTTT
1 TTTT
165513 TGAATTTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 9
0.85 0.00 0.15
Matches are distributed among these distances:
24 15 0.30
25 11 0.22
26 18 0.36
27 1 0.02
28 5 0.10
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
TTTTATTTTTAATTTTTTAAAATT
Found at i:165503 original size:35 final size:34
Alignment explanation
Indices: 165439--165512 Score: 89
Period size: 34 Copynumber: 2.1 Consensus size: 34
165429 TTAAATTTTA
*
165439 TTTTTAAATTTTTTAAAATTTTTTATTTTATAGAT
1 TTTTTAAATTTTTTAAAATTTTTTATTTTA-AAAT
*
165474 TTTTTAAAATTTTTT-GAA-TTTTTATTTTTAAAAT
1 TTTTT-AAATTTTTTAAAATTTTTTA-TTTTAAAAT
165508 TTTTT
1 TTTTT
165513 TGAATTTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 14 0.40
35 12 0.34
36 9 0.26
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (34 bp):
TTTTTAAATTTTTTAAAATTTTTTATTTTAAAAT
Found at i:165513 original size:35 final size:36
Alignment explanation
Indices: 165428--165513 Score: 88
Period size: 35 Copynumber: 2.4 Consensus size: 36
165418 TTTGTAATTC
* *
165428 TTTAAATTTTATTTTTAAATTTTTTAAAATTTTTTAT
1 TTTAAAATTT-TTTTAAAATTTTTTAAAATTTTTTAT
* *
165465 TTTATAGA-TTTTTTAAAATTTTTT-GAA-TTTTTATT
1 TTTA-AAATTTTTTTAAAATTTTTTAAAATTTTTTA-T
165500 TTTAAAATTTTTTT
1 TTTAAAATTTTTTT
165514 GAATTTTATA
Statistics
Matches: 41, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
34 8 0.20
35 13 0.32
36 13 0.32
37 6 0.15
38 1 0.02
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (36 bp):
TTTAAAATTTTTTTAAAATTTTTTAAAATTTTTTAT
Found at i:165524 original size:53 final size:50
Alignment explanation
Indices: 165448--165548 Score: 157
Period size: 53 Copynumber: 2.0 Consensus size: 50
165438 ATTTTTAAAT
*
165448 TTTTTAAAATTTTTTATTTTATAGATTTTTTAAAATTTTTTGAATTTTTA
1 TTTTTAAAATTTTTTATTTTATAGATTTGTTAAAATTTTTTGAATTTTTA
*
165498 TTTTTAAAATTTTTTTGAATTTTATAGATTTGTTATAATTTTTTGAATTTT
1 TTTTTAAAA-TTTTTT--ATTTTATAGATTTGTTAAAATTTTTTGAATTTT
165549 ATAGATTTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
50 9 0.20
51 6 0.13
53 31 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (50 bp):
TTTTTAAAATTTTTTATTTTATAGATTTGTTAAAATTTTTTGAATTTTTA
Found at i:165560 original size:10 final size:10
Alignment explanation
Indices: 165517--165565 Score: 52
Period size: 10 Copynumber: 5.2 Consensus size: 10
165507 TTTTTTTGAA
165517 TTTTATAGAT
1 TTTTATAGAT
165527 TTGTTATA-AT
1 TT-TTATAGAT
*
165537 TTTT-T-GAA
1 TTTTATAGAT
165545 TTTTATAGAT
1 TTTTATAGAT
165555 TTTTATA-AT
1 TTTTATAGAT
165564 TT
1 TT
165566 GTGTAATTCT
Statistics
Matches: 33, Mismatches: 2, Indels: 9
0.75 0.05 0.20
Matches are distributed among these distances:
8 6 0.18
9 7 0.21
10 15 0.45
11 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.63
Consensus pattern (10 bp):
TTTTATAGAT
Found at i:165627 original size:10 final size:9
Alignment explanation
Indices: 165614--165738 Score: 60
Period size: 10 Copynumber: 13.6 Consensus size: 9
165604 AAATTTTAAA
165614 TTTATAGATT
1 TTTATA-ATT
165624 TTTATAATTT
1 TTTATAA-TT
165634 TTTATAAGTT
1 TTTATAA-TT
*
165644 TCTA-AATT
1 TTTATAATT
**
165652 TTTATTTTT
1 TTTATAATT
*
165661 ATTTTTAA-T
1 -TTTATAATT
165670 TTTA-AATTCT
1 TTTATAA-T-T
* *
165680 TTTATAGTG
1 TTTATAATT
*
165689 TTTAT-GTT
1 TTTATAATT
165697 TTTATAATTT
1 TTTATAA-TT
*
165707 TTTATTATT
1 TTTATAATT
*
165716 TTTATGATT
1 TTTATAATT
* *
165725 TTTTTATTT
1 TTTATAATT
165734 TTTAT
1 TTTAT
165739 TTTTTATTTT
Statistics
Matches: 87, Mismatches: 19, Indels: 19
0.70 0.15 0.15
Matches are distributed among these distances:
7 2 0.02
8 15 0.17
9 31 0.36
10 38 0.44
11 1 0.01
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.69
Consensus pattern (9 bp):
TTTATAATT
Found at i:165765 original size:7 final size:7
Alignment explanation
Indices: 165650--165748 Score: 58
Period size: 7 Copynumber: 13.4 Consensus size: 7
165640 AGTTTCTAAA
165650 TTTTTA-
1 TTTTTAT
165656 TTTTTAT
1 TTTTTAT
*
165663 TTTTAAT
1 TTTTTAT
**
165670 TTTAAAT
1 TTTTTAT
165677 TCTTTTAT
1 T-TTTTAT
*
165685 AGTGTTTAT
1 --TTTTTAT
165694 GTTTTTAT
1 -TTTTTAT
**
165702 AATTT-T
1 TTTTTAT
*
165708 TTATTAT
1 TTTTTAT
165715 TTTTATGATT
1 TTTT-T-A-T
165725 TTTTTAT
1 TTTTTAT
165732 TTTTTAT
1 TTTTTAT
165739 TTTTTAT
1 TTTTTAT
165746 TTT
1 TTT
165749 CAACTTTTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 15
0.73 0.12 0.15
Matches are distributed among these distances:
6 9 0.12
7 38 0.52
8 13 0.18
9 7 0.10
10 6 0.08
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.75
Consensus pattern (7 bp):
TTTTTAT
Found at i:166093 original size:10 final size:10
Alignment explanation
Indices: 166078--166112 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
166068 TATCCACGTA
166078 ATTTTATTAT
1 ATTTTATTAT
166088 ATTTTATTAT
1 ATTTTATTAT
*
166098 ATTATAATTAT
1 ATT-TTATTAT
166109 ATTT
1 ATTT
166113 AAAATATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
ATTTTATTAT
Found at i:166140 original size:27 final size:28
Alignment explanation
Indices: 166110--166189 Score: 83
Period size: 32 Copynumber: 2.8 Consensus size: 28
166100 TATAATTATA
166110 TTTAAAATATTTTATATTTATATAAATT
1 TTTAAAATATTTTATATTTATATAAATT
* *
166138 TTAATATATTAATAATTTATA-CTATATAAATT
1 TT--TA-A--AATATTTTATATTTATATAAATT
166170 TTTAAAATATTTT-TATTTAT
1 TTTAAAATATTTTATATTTAT
166190 TTATTTCATA
Statistics
Matches: 42, Mismatches: 4, Indels: 13
0.71 0.07 0.22
Matches are distributed among these distances:
26 2 0.05
27 10 0.24
28 2 0.05
29 1 0.02
30 4 0.10
31 1 0.02
32 12 0.29
33 10 0.24
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.56
Consensus pattern (28 bp):
TTTAAAATATTTTATATTTATATAAATT
Found at i:166152 original size:18 final size:17
Alignment explanation
Indices: 166105--166171 Score: 56
Period size: 16 Copynumber: 4.1 Consensus size: 17
166095 TATATTATAA
166105 TTATATTTA-A-AATATT
1 TTATATTTATATAA-ATT
166121 TTATATTTATATAAATT
1 TTATATTTATATAAATT
166138 TTAATATATTA-AT-AA-T
1 TT-ATAT-TTATATAAATT
*
166154 TTATA-CTATATAAATT
1 TTATATTTATATAAATT
166170 TT
1 TT
166172 TAAAATATTT
Statistics
Matches: 43, Mismatches: 1, Indels: 14
0.74 0.02 0.24
Matches are distributed among these distances:
13 2 0.05
14 2 0.05
15 5 0.12
16 15 0.35
17 8 0.19
18 8 0.19
19 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATATTTATATAAATT
Found at i:166207 original size:21 final size:18
Alignment explanation
Indices: 166183--166237 Score: 58
Period size: 19 Copynumber: 2.9 Consensus size: 18
166173 AAAATATTTT
166183 TATTTATTTATTTCATATTCA
1 TATTTATTT-TTT-ATATT-A
*
166204 TA-TTACTTTTTATATTA
1 TATTTATTTTTTATATTA
166221 TATTTATTTTTTTATAT
1 TATTTA-TTTTTTATAT
166238 CTTGTAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
17 3 0.10
18 8 0.27
19 12 0.40
20 5 0.17
21 2 0.07
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.67
Consensus pattern (18 bp):
TATTTATTTTTTATATTA
Found at i:166230 original size:59 final size:60
Alignment explanation
Indices: 166094--166231 Score: 140
Period size: 60 Copynumber: 2.3 Consensus size: 60
166084 TTATATTTTA
* *
166094 TTATATTATAATTATATTTAAAATATTTTATATTTATATAAATTTTAATATATTAATAAT
1 TTATATTATATTTATTTTTAAAATATTTTATATTTATATAAATTTTAATATATTAATAAT
* ** * * * *
166154 TTATACTATATAAATTTTTAAAATATTTT-TATTTAT-T-TATTTCATATTCATATTACT-TT
1 TTATATTATATTTATTTTTAAAATATTTTATATTTATATAAATTT--TAAT-ATATTAATAAT
166213 TTATATTATATTTATTTTT
1 TTATATTATATTTATTTTT
166232 TTATATCTTG
Statistics
Matches: 63, Mismatches: 12, Indels: 7
0.77 0.15 0.09
Matches are distributed among these distances:
57 4 0.06
58 1 0.02
59 27 0.43
60 31 0.49
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (60 bp):
TTATATTATATTTATTTTTAAAATATTTTATATTTATATAAATTTTAATATATTAATAAT
Found at i:166650 original size:10 final size:9
Alignment explanation
Indices: 166552--166660 Score: 64
Period size: 9 Copynumber: 11.9 Consensus size: 9
166542 TAAATACGCT
166552 TATATAAAA
1 TATATAAAA
166561 TA-ATTAAAA
1 TATA-TAAAA
166570 TATGATAAAA
1 TAT-ATAAAA
166580 -ATATAAAAA
1 TATAT-AAAA
* *
166589 TATTTATAA
1 TATATAAAA
* * *
166598 TTTTTATAA
1 TATATAAAA
*
166607 TAT-TATAA
1 TATATAAAA
166615 -ATATAAAA
1 TATATAAAA
*
166623 TAATTTAAATA
1 T-ATATAAA-A
*
166634 TAAATAAAA
1 TATATAAAA
166643 TATGATAAAA
1 TAT-ATAAAA
166653 TATATAAA
1 TATATAAA
166661 TTATCAAATT
Statistics
Matches: 81, Mismatches: 9, Indels: 20
0.74 0.08 0.18
Matches are distributed among these distances:
7 2 0.02
8 12 0.15
9 36 0.44
10 28 0.35
11 3 0.04
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (9 bp):
TATATAAAA
Found at i:167390 original size:34 final size:33
Alignment explanation
Indices: 167322--167451 Score: 104
Period size: 35 Copynumber: 3.8 Consensus size: 33
167312 AAATATTAGA
* *
167322 TAAATAAATCATCATATTA-AAATTTATATAAAAAT
1 TAAATAAAT-ATAATATTATAAA--TATATTAAAAT
167357 TAAATAAATATAATATATATAAATATATTAAAATT
1 TAAATAAATATAATAT-TATAAATATATTAAAA-T
** *
167392 TAAAT-AATATAA-ATTATTTATATATTTAAATT
1 TAAATAAATATAATATTATAAATATA-TTAAAAT
* *
167424 TATATAAAAATATAATATTTTAAATATA
1 TA-A-ATAAATATAATATTATAAATATA
167452 ATTATAATAA
Statistics
Matches: 78, Mismatches: 9, Indels: 15
0.76 0.09 0.15
Matches are distributed among these distances:
32 11 0.14
33 8 0.10
34 23 0.29
35 24 0.31
36 12 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (33 bp):
TAAATAAATATAATATTATAAATATATTAAAAT
Found at i:167423 original size:32 final size:34
Alignment explanation
Indices: 167346--167481 Score: 97
Period size: 35 Copynumber: 4.0 Consensus size: 34
167336 TATTAAAATT
*
167346 TATA-TAAAAATTAAATAAATATAATATATATAAA
1 TATATTAAAATTTAAAT-AATATAATATATATAAA
**
167380 TATATTAAAATTTAAATAATATAA-AT-TATTTA
1 TATATTAAAATTTAAATAATATAATATATATAAA
* * *
167412 TATATTTAAATTTATATAAAAATATAATAT-TTTAAA
1 TATA-TTAAAATT-TA-AATAATATAATATATATAAA
*
167448 TATAATTATAA--TAAA-AATATAAATATGATATAAA
1 TAT-ATTAAAATTTAAATAATAT-AATAT-ATATAAA
167482 AATTATGATA
Statistics
Matches: 82, Mismatches: 11, Indels: 18
0.74 0.10 0.16
Matches are distributed among these distances:
31 5 0.06
32 15 0.18
33 11 0.13
34 18 0.22
35 20 0.24
36 12 0.15
37 1 0.01
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (34 bp):
TATATTAAAATTTAAATAATATAATATATATAAA
Found at i:167439 original size:40 final size:38
Alignment explanation
Indices: 167335--167441 Score: 103
Period size: 42 Copynumber: 2.8 Consensus size: 38
167325 ATAAATCATC
*
167335 ATATTAAAATTTATATAAAAAT-TAA-ATAAATATAAT
1 ATATTTAAATTTATATAAAAATATAATATAAATATAAT
* * * *
167371 ATATATAAATATAT-TAAAATTTAAATAATATAAATTATTTAT
1 ATATTTAAATTTATATAAAA---ATATAATATAAA-TA-TAAT
167413 ATATTTAAATTTATATAAAAATATAATAT
1 ATATTTAAATTTATATAAAAATATAATAT
167442 TTTAAATATA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
35 5 0.09
36 11 0.20
38 1 0.02
39 3 0.05
40 13 0.24
41 2 0.04
42 15 0.27
43 5 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (38 bp):
ATATTTAAATTTATATAAAAATATAATATAAATATAAT
Found at i:167445 original size:20 final size:20
Alignment explanation
Indices: 167422--167460 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
167412 TATATTTAAA
*
167422 TTTATATAAAAATATAATAT
1 TTTAAATAAAAATATAATAT
* *
167442 TTTAAATATAATTATAATA
1 TTTAAATAAAAATATAATA
167461 AAAATATAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTAAATAAAAATATAATAT
Found at i:167467 original size:17 final size:19
Alignment explanation
Indices: 167445--167484 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
167435 ATAATATTTT
*
167445 AAATATAATTAT-A-ATAA
1 AAATATAAATATGATATAA
167462 AAATATAAATATGATATAA
1 AAATATAAATATGATATAA
167481 AAAT
1 AAAT
167485 TATGATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 1 0.05
19 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATATAAATATGATATAA
Found at i:167693 original size:29 final size:29
Alignment explanation
Indices: 167661--167716 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
167651 TTTTTATTAT
167661 TAATATATATAATTAAATTTAA-ATAAAAA
1 TAATATATATAATT-AATTTAATATAAAAA
* *
167690 TAATTTTTATAATTAATTTAATATAAA
1 TAATATATATAATTAATTTAATATAAA
167717 TTTAAAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (29 bp):
TAATATATATAATTAATTTAATATAAAAA
Found at i:168260 original size:17 final size:18
Alignment explanation
Indices: 168218--168269 Score: 54
Period size: 17 Copynumber: 2.9 Consensus size: 18
168208 TTATATCGAC
*
168218 AAATATTGAAAAA-AAAT
1 AAATATTTAAAAATAAAT
*
168235 TAATAATTTAAAAATAAA-
1 AAAT-ATTTAAAAATAAAT
*
168253 AAATATTTAAAATTAAA
1 AAATATTTAAAAATAAA
168270 CTCAAATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 15 0.52
18 11 0.38
19 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (18 bp):
AAATATTTAAAAATAAAT
Found at i:168516 original size:4 final size:5
Alignment explanation
Indices: 168494--168538 Score: 51
Period size: 5 Copynumber: 9.4 Consensus size: 5
168484 CATTTAACAA
*
168494 ATAAT CTAAT A-AAT ATAAT -TAAT ATAAT -TAAT ATATAT ATAAT AT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT ATAAT AT
168539 TTTTATTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
4 12 0.35
5 17 0.50
6 5 0.15
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (5 bp):
ATAAT
Found at i:168521 original size:18 final size:20
Alignment explanation
Indices: 168494--168538 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
168484 CATTTAACAA
*
168494 ATAATCTAATAAATATA-AT
1 ATAATATAATAAATATATAT
*
168513 -TAATATAATTAATATATAT
1 ATAATATAATAAATATATAT
168532 ATAATAT
1 ATAATAT
168539 TTTTATTTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 14 0.64
19 2 0.09
20 6 0.27
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAATATAATAAATATATAT
Found at i:168536 original size:11 final size:9
Alignment explanation
Indices: 168495--168538 Score: 52
Period size: 9 Copynumber: 4.7 Consensus size: 9
168485 ATTTAACAAA
*
168495 TAATCTAAT
1 TAATATAAT
*
168504 AAATATAAT
1 TAATATAAT
168513 TAATATAAT
1 TAATATAAT
168522 TAATATATAT
1 TAATATA-AT
168532 ATAATAT
1 -TAATAT
168539 TTTTATTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
9 22 0.73
10 2 0.07
11 6 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (9 bp):
TAATATAAT
Found at i:168956 original size:20 final size:20
Alignment explanation
Indices: 168933--168970 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
168923 AAAATATCAA
168933 AAAATAAT-TAAAAATATATT
1 AAAATAATAT-AAAATATATT
168953 AAAATAATATAAAATATA
1 AAAATAATATAAAATATA
168971 ATATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 16 0.94
21 1 0.06
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATAATATAAAATATATT
Found at i:168973 original size:25 final size:24
Alignment explanation
Indices: 168945--169046 Score: 100
Period size: 25 Copynumber: 4.1 Consensus size: 24
168935 AATAATTAAA
168945 AATATATTAAAATAATATAAAATAT
1 AATATATTAAAA-AATATAAAATAT
* *
168970 AATAT-TTATTAAAATATAAATTATT
1 AATATATTA-AAAAATATAAAATA-T
168995 AATATATTAAAAAATATAAATATAT
1 AATATATTAAAAAATATAAA-ATAT
* *
169020 AAT-TATAAATAAAATAATAATATAT
1 AATATATTAA-AAAAT-ATAAAATAT
169045 AA
1 AA
169047 AAAAAAAAGG
Statistics
Matches: 65, Mismatches: 6, Indels: 12
0.78 0.07 0.14
Matches are distributed among these distances:
24 18 0.28
25 38 0.58
26 9 0.14
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AATATATTAAAAAATATAAAATAT
Found at i:168974 original size:23 final size:23
Alignment explanation
Indices: 168933--169043 Score: 74
Period size: 24 Copynumber: 4.8 Consensus size: 23
168923 AAAATATCAA
168933 AAAATAAT-TAAAA-AT-ATATT
1 AAAATAATATAAAATATAATATT
168953 AAAATAATATAAAATATAATATTT
1 AAAATAATATAAAATATAATA-TT
* *
168977 ATTAA-AATATAAATTATTAATATATT
1 A-AAATAATATAAAATA-T-A-ATATT
169003 AAAA-AATAT-AAATAT-ATAATT
1 AAAATAATATAAAATATAAT-ATT
*
169024 ATAAATAAAATAATAATATA
1 A-AAATAATATAA-AATATA
169044 TAAAAAAAAA
Statistics
Matches: 72, Mismatches: 5, Indels: 22
0.73 0.05 0.22
Matches are distributed among these distances:
20 10 0.14
21 9 0.12
22 5 0.07
23 8 0.11
24 18 0.25
25 15 0.21
26 4 0.06
27 3 0.04
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (23 bp):
AAAATAATATAAAATATAATATT
Found at i:168995 original size:15 final size:17
Alignment explanation
Indices: 168962--169001 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
168952 TAAAATAATA
168962 TAAAATATAATATTTAT
1 TAAAATATAATATTTAT
168979 TAAAATATAA-A-TTAT
1 TAAAATATAATATTTAT
*
168994 TAATATAT
1 TAAAATAT
169002 TAAAAAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.50
16 1 0.05
17 10 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAATATAATATTTAT
Found at i:169041 original size:43 final size:42
Alignment explanation
Indices: 168937--169051 Score: 116
Period size: 43 Copynumber: 2.8 Consensus size: 42
168927 TATCAAAAAA
* *
168937 TAATTAAAA-ATATATTAA-AATA-AT-ATAAAATATAATAT
1 TAATTAAAATATAAATTAATAATATATAAAAAAATATAATAT
* * *
168975 TTATTAAAATATAAATTATTAATATATTAAAAAATATAAATAT
1 TAATTAAAATATAAATTAATAATATATAAAAAAATAT-AATAT
169018 ATAATTATAAATA-AAA-TAATAATATATAAAAAAA
1 -TAATTA-AAATATAAATTAATAATATATAAAAAAA
169052 AAAGGTAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
38 8 0.13
39 7 0.11
40 4 0.06
41 2 0.03
42 8 0.13
43 21 0.33
44 8 0.13
45 5 0.08
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (42 bp):
TAATTAAAATATAAATTAATAATATATAAAAAAATATAATAT
Found at i:169045 original size:19 final size:19
Alignment explanation
Indices: 169006--169051 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
168996 ATATATTAAA
169006 AAATATAAATATATAATTAT
1 AAATA-AAATATATAATTAT
169026 AAATAAAATA-ATAATATAT
1 AAATAAAATATATAAT-TAT
169045 AAA-AAAA
1 AAATAAAA
169052 AAAGGTAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.36
19 11 0.44
20 5 0.20
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AAATAAAATATATAATTAT
Found at i:171803 original size:51 final size:51
Alignment explanation
Indices: 171740--171836 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
171730 GATTTATCCG
*
171740 TTATCATTGTTGTGTTATGTTACAGAATCGTGTCTAAAATTGTCAAGTCCT
1 TTATCATCGTTGTGTTATGTTACAGAATCGTGTCTAAAATTGTCAAGTCCT
171791 TTATCATCGTTGTGTTATGTTACAGAATCGTGTCTAAAATTGTCAA
1 TTATCATCGTTGTGTTATGTTACAGAATCGTGTCTAAAATTGTCAA
171837 CTATACTGTA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (51 bp):
TTATCATCGTTGTGTTATGTTACAGAATCGTGTCTAAAATTGTCAAGTCCT
Found at i:176804 original size:6 final size:6
Alignment explanation
Indices: 176793--176826 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
176783 AATAATAAAA
*
176793 AATATT AATATT GATATT AATA-T AATATT AATAT
1 AATATT AATATT AATATT AATATT AATATT AATAT
176827 AATTTTTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (6 bp):
AATATT
Found at i:176820 original size:17 final size:18
Alignment explanation
Indices: 176793--176826 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
176783 AATAATAAAA
*
176793 AATATTAATATTGATATT
1 AATATTAATATTAATATT
176811 AATA-TAATATTAATAT
1 AATATTAATATTAATAT
176827 AATTTTTTAA
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:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (18 bp):
AATATTAATATTAATATT
Found at i:176822 original size:11 final size:11
Alignment explanation
Indices: 176793--176829 Score: 56
Period size: 11 Copynumber: 3.3 Consensus size: 11
176783 AATAATAAAA
176793 AATATTAATATT
1 AATATTAATA-T
*
176805 GATATTAATAT
1 AATATTAATAT
176816 AATATTAATAT
1 AATATTAATAT
176827 AAT
1 AAT
176830 TTTTTAAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
AATATTAATAT
Found at i:177542 original size:26 final size:27
Alignment explanation
Indices: 177477--177542 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
177467 CTTTAAATTA
177477 AAAATTTA-TTTAATATTTAAAAAACT
1 AAAATTTATTTTAATATTTAAAAAACT
* *
177503 -AAATATAATATTAACT-TTTAAAAAA-T
1 AAAAT-TTATTTTAA-TATTTAAAAAACT
177529 AAAATTTATTTTAA
1 AAAATTTATTTTAA
177543 AATGGGTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
25 4 0.12
26 10 0.31
27 17 0.53
28 1 0.03
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (27 bp):
AAAATTTATTTTAATATTTAAAAAACT
Found at i:177700 original size:19 final size:19
Alignment explanation
Indices: 177676--177718 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
177666 AAAGATAAAA
*
177676 ATTTTATAATGCAATTTTT
1 ATTTTATAATGAAATTTTT
*
177695 ATTTTATAATTAAATTTTT
1 ATTTTATAATGAAATTTTT
177714 ATTTT
1 ATTTT
177719 TATTAATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (19 bp):
ATTTTATAATGAAATTTTT
Found at i:178153 original size:12 final size:13
Alignment explanation
Indices: 178136--178166 Score: 55
Period size: 12 Copynumber: 2.5 Consensus size: 13
178126 TTAGTATTTT
178136 TATTTTAATTTAA
1 TATTTTAATTTAA
178149 T-TTTTAATTTAA
1 TATTTTAATTTAA
178161 TATTTT
1 TATTTT
178167 TAAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTAATTTAA
Found at i:178988 original size:3 final size:3
Alignment explanation
Indices: 178968--179051 Score: 50
Period size: 3 Copynumber: 28.7 Consensus size: 3
178958 AAAAAATAGC
* * * * * *
178968 AAT AGT AAT ATT ATT AAT AAT AAT AAT AAT -AT AAA AAT ATT AA- CAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* *
179014 AAT AAT AAT -AT AAAT AAA AATT AAT AAT -AT TAT AAT AA
1 AAT AAT AAT AAT -AAT AAT AA-T AAT AAT AAT AAT AAT AA
179052 ATATTAACCC
Statistics
Matches: 62, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
2 7 0.11
3 51 0.82
4 4 0.06
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:179019 original size:25 final size:25
Alignment explanation
Indices: 178987--179059 Score: 82
Period size: 25 Copynumber: 3.0 Consensus size: 25
178977 ATTATTAATA
178987 ATAATAATAATATAAAAATATTAAC
1 ATAATAATAATATAAAAATATTAAC
179012 ATAATAATAATATAAATAA-A--AA-
1 ATAATAATAATATAAA-AATATTAAC
* *
179034 TTAATAATATTATAATAAATATTAAC
1 ATAATAATAATATAA-AAATATTAAC
179060 CCTAACTCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 11
0.75 0.04 0.21
Matches are distributed among these distances:
22 15 0.38
23 4 0.10
25 19 0.47
26 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (25 bp):
ATAATAATAATATAAAAATATTAAC
Found at i:179038 original size:22 final size:21
Alignment explanation
Indices: 179013--179058 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
179003 AATATTAACA
179013 TAATAATAATATAAATAAAAAT
1 TAATAATAATAT-AATAAAAAT
* *
179035 TAATAATATTATAATAAATAT
1 TAATAATAATATAATAAAAAT
179056 TAA
1 TAA
179059 CCCTAACTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.50
22 11 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATAATAATATAATAAAAAT
Found at i:179040 original size:19 final size:21
Alignment explanation
Indices: 178973--179058 Score: 68
Period size: 22 Copynumber: 4.0 Consensus size: 21
178963 ATAGCAATAG
*
178973 TAATATTATTAATAATAA-TAA
1 TAATATTA-TAATAAAAATTAA
* * *
178994 TAATATAAAAATATTAACA-TAA
1 TAATATTATAATA--AAAATTAA
*
179016 TAATAATATAAATAAAAATTAA
1 TAATATTAT-AATAAAAATTAA
*
179038 TAATATTATAATAAATATTAA
1 TAATATTATAATAAAAATTAA
179059 CCCTAACTCA
Statistics
Matches: 51, Mismatches: 10, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
20 4 0.08
21 21 0.41
22 22 0.43
23 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (21 bp):
TAATATTATAATAAAAATTAA
Found at i:179089 original size:51 final size:49
Alignment explanation
Indices: 178988--179111 Score: 153
Period size: 51 Copynumber: 2.5 Consensus size: 49
178978 TTATTAATAA
* * * *
178988 TAATAATAATATAA-AAATATTAA-CATAATAATAATATAAATAAAAAT
1 TAATAATATTATAATAAATATTAACCATAATAAAAACATAAACAAAAAT
*
179035 TAATAATATTATAATAAATATTAACCCTAACTCAAAAACATAAACAAAAAT
1 TAATAATATTATAATAAATATTAACCATAA-T-AAAAACATAAACAAAAAT
**
179086 TAATAGCATTATAATAAATATTAACC
1 TAATAATATTATAATAAATATTAACC
179112 TATCATTATA
Statistics
Matches: 66, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
47 13 0.20
48 9 0.14
49 4 0.06
50 1 0.02
51 39 0.59
ACGTcount: A:0.60, C:0.09, G:0.01, T:0.31
Consensus pattern (49 bp):
TAATAATATTATAATAAATATTAACCATAATAAAAACATAAACAAAAAT
Found at i:179237 original size:46 final size:46
Alignment explanation
Indices: 179167--179256 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
179157 ATACGTATAT
* * *
179167 TTTAGATTTGATTAGATCAGACATGATAAACACTTAAGAAATTACC
1 TTTAGATTTAATTAGATCAAACATGATAAACACTTAAAAAATTACC
*
179213 TTTAGATTTAATTAGATCAAACATGATAAACGCTTAAAAAATTA
1 TTTAGATTTAATTAGATCAAACATGATAAACACTTAAAAAATTA
179257 ATGCGTTTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (46 bp):
TTTAGATTTAATTAGATCAAACATGATAAACACTTAAAAAATTACC
Found at i:187795 original size:18 final size:17
Alignment explanation
Indices: 187734--187795 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
187724 TATTAATTTA
*
187734 TTTATATAATTATATATT
1 TTTATATAA-TATTTATT
*
187752 TTTATATTGATATTTATCT
1 TTTATA-TAATATTTAT-T
*
187771 ATT-TATAATCATTTATT
1 TTTATATAAT-ATTTATT
187788 TTTATATA
1 TTTATATA
187796 TAATTAATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
17 6 0.17
18 24 0.69
19 5 0.14
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.61
Consensus pattern (17 bp):
TTTATATAATATTTATT
Found at i:196164 original size:19 final size:20
Alignment explanation
Indices: 196113--196165 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
196103 TTATTTAGAA
196113 TAAT-ATTTTTATATTAAATG
1 TAATAATTTTTA-ATTAAATG
* *
196133 TAATCATTATTAATT-AATG
1 TAATAATTTTTAATTAAATG
*
196152 TGATAATTTTTAAT
1 TAATAATTTTTAAT
196166 ATATAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 15 0.54
20 7 0.25
21 6 0.21
ACGTcount: A:0.40, C:0.02, G:0.06, T:0.53
Consensus pattern (20 bp):
TAATAATTTTTAATTAAATG
Found at i:196199 original size:23 final size:22
Alignment explanation
Indices: 196167--196250 Score: 71
Period size: 23 Copynumber: 3.7 Consensus size: 22
196157 ATTTTTAATA
196167 TATAAAAATATTAATTAATATT
1 TATAAAAATATTAATTAATATT
* * *
196189 TAATGATAATAATTAAGATAATATT
1 T-ATAAAAAT-ATTAA-TTAATATT
*
196214 TATAAAAAAATATAATTAATATT
1 TATAAAAATAT-TAATTAATATT
* *
196237 TTTTAAAAT-TTAAT
1 TATAAAAATATTAAT
196251 AAAAATAATT
Statistics
Matches: 48, Mismatches: 10, Indels: 9
0.72 0.15 0.13
Matches are distributed among these distances:
21 4 0.08
22 2 0.04
23 21 0.44
24 13 0.27
25 8 0.17
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (22 bp):
TATAAAAATATTAATTAATATT
Found at i:197880 original size:20 final size:18
Alignment explanation
Indices: 197829--197898 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
197819 TTATTGAATT
*
197829 AAAATTAAAATATTATTTA
1 AAAATT-AAATTTTATTTA
*
197848 AAATATTATATTTTATTATA
1 AAA-ATTAAATTTTATT-TA
197868 ATAAATTAAA-TTT-TTTA
1 A-AAATTAAATTTTATTTA
*
197885 AAAATTTAATTTTA
1 AAAATTAAATTTTA
197899 CTCAATTAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
16 7 0.17
17 6 0.14
18 2 0.05
19 14 0.33
20 11 0.26
21 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAAATTAAATTTTATTTA
Found at i:198811 original size:11 final size:11
Alignment explanation
Indices: 198783--198940 Score: 97
Period size: 11 Copynumber: 15.0 Consensus size: 11
198773 AAAGCTGTGG
198783 ATATTA-ATTT
1 ATATTATATTT
*
198793 -TTTTATATTT
1 ATATTATATTT
*
198803 ATGTTATATTT
1 ATATTATATTT
*
198814 ATATTATTTTT
1 ATATTATATTT
*
198825 ATATTATAATT
1 ATATTATATTT
*
198836 ATATT-TA-AT
1 ATATTATATTT
198845 ATATTATA--T
1 ATATTATATTT
198854 ATATTA-A-TT
1 ATATTATATTT
** *
198863 ATAAAAAATTT
1 ATATTATATTT
198874 A-ATATATATTT
1 ATAT-TATATTT
* *
198885 TTATTTTTATTT
1 ATA-TTATATTT
198897 AT-TTATA-TT
1 ATATTATATTT
198906 ATATTATATTTT
1 ATATTATA-TTT
198918 ATATTATATCTT
1 ATATTATAT-TT
198930 AATATTA-ATTT
1 -ATATTATATTT
198941 TTTTACAATC
Statistics
Matches: 118, Mismatches: 16, Indels: 27
0.73 0.10 0.17
Matches are distributed among these distances:
8 1 0.01
9 26 0.22
10 19 0.16
11 43 0.36
12 22 0.19
13 7 0.06
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (11 bp):
ATATTATATTT
Found at i:198820 original size:5 final size:5
Alignment explanation
Indices: 198795--198926 Score: 68
Period size: 5 Copynumber: 27.2 Consensus size: 5
198785 ATTAATTTTT
* *
198795 TTATA TTTATG TTATA TTTATA TTATTT TTATA TTATAA TTATA TT-TA
1 TTATA -TTATA TTATA -TTATA TTA-TA TTATA TTAT-A TTATA TTATA
* ** * * *
198843 ATATA TTATA -TATA TTA-A TTATA AAAAA TT-TA ATATA -TAT- TTTTA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
198888 TT-T- TTAT- TTAT- TTATA TTATA TTATA TTTTATA TTATA T
1 TTATA TTATA TTATA TTATA TTATA TTATA --TTATA TTATA T
198927 CTTAATATTA
Statistics
Matches: 99, Mismatches: 14, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
3 2 0.02
4 28 0.28
5 46 0.46
6 18 0.18
7 5 0.05
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (5 bp):
TTATA
Found at i:199755 original size:17 final size:17
Alignment explanation
Indices: 199735--199791 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
199725 AATATTTTTT
199735 TATTTTAAATTTAATAA
1 TATTTTAAATTTAATAA
* * * *
199752 TA-TTAAAAATAAATAT
1 TATTTTAAATTTAATAA
*
199768 TATTTTTAATTTAATAA
1 TATTTTAAATTTAATAA
199785 TAATTTT
1 T-ATTTT
199792 TAAAATTTTT
Statistics
Matches: 29, Mismatches: 9, Indels: 3
0.71 0.22 0.07
Matches are distributed among these distances:
16 12 0.41
17 12 0.41
18 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TATTTTAAATTTAATAA
Found at i:199884 original size:10 final size:10
Alignment explanation
Indices: 199864--199893 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
199854 AATAATTATT
199864 AATTATTTTAA
1 AATT-TTTTAA
199875 AATTTTTTAA
1 AATTTTTTAA
199885 AATTTTTTA
1 AATTTTTTA
199894 TCAACTCAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (10 bp):
AATTTTTTAA
Found at i:200372 original size:29 final size:27
Alignment explanation
Indices: 200338--200392 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
200328 TAATTTTATG
*
200338 ATTTAAATATGATATAAAATATAAATATA
1 ATTTAAATAT-AT-TAAAATAAAAATATA
*
200367 ATTTAAATATATTATAATAAAAATAT
1 ATTTAAATATATTAAAATAAAAATAT
200393 TAAAATATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 12 0.50
28 2 0.08
29 10 0.42
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (27 bp):
ATTTAAATATATTAAAATAAAAATATA
Found at i:200434 original size:24 final size:24
Alignment explanation
Indices: 200383--200462 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
200373 ATATATTATA
* *
200383 ATAAAAATATTAAAATATTAAATTT
1 ATAAAAATA-TATAATATTAAATAT
200408 ATAAAAATATATAATATTATAA-AT
1 ATAAAAATATATAATATTA-AATAT
**
200432 ATAATTATATAT-ATA-TAAATAT
1 ATAAAAATATATAATATTAAATAT
200454 ATAAAAATA
1 ATAAAAATA
200463 AGATAAATAA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
21 2 0.04
22 11 0.23
23 3 0.06
24 20 0.43
25 11 0.23
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
ATAAAAATATATAATATTAAATAT
Found at i:200435 original size:14 final size:15
Alignment explanation
Indices: 200343--200473 Score: 62
Period size: 14 Copynumber: 8.8 Consensus size: 15
200333 TTATGATTTA
200343 AATATGATATAAAATAT
1 AATAT-ATAT-AAATAT
*
200360 AAATATAATTTAAATAT
1 -AATAT-ATATAAATAT
* *
200377 ATTATAATAAAAATATT
1 AATAT-ATATAAATA-T
*
200394 AAAATAT-TAAAT-T
1 AATATATATAAATAT
*
200407 --TATA-AAAATATAT
1 AATATATATAA-ATAT
200420 AATAT-TATAAATAT
1 AATATATATAAATAT
*
200434 AAT-TATATATATAT
1 AATATATATAAATAT
*
200448 AA-ATATATAAAAAT
1 AATATATATAAATAT
* *
200462 AAGATAAATAAA
1 AATATATATAAA
200474 GATATTATTA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
11 5 0.06
12 2 0.02
13 3 0.03
14 28 0.32
15 18 0.20
16 14 0.16
17 10 0.11
18 8 0.09
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (15 bp):
AATATATATAAATAT
Found at i:200458 original size:8 final size:8
Alignment explanation
Indices: 200349--200458 Score: 59
Period size: 8 Copynumber: 12.9 Consensus size: 8
200339 TTTAAATATG
200349 ATATAAA-
1 ATATAAAT
200356 ATATAAAT
1 ATATAAAT
200364 ATAATTTAAAT
1 AT-A--TAAAT
200375 ATATTATAAT
1 ATA-TA-AAT
200385 A-A-AAAT
1 ATATAAAT
200391 AT-TAAA-
1 ATATAAAT
200397 ATATTAAAT
1 ATA-TAAAT
* *
200406 TTATAAAA
1 ATATAAAT
200414 ATATATAAT
1 ATATA-AAT
200423 ATTATAAAT
1 A-TATAAAT
200432 ATAATTATATAT
1 AT-A-TA-A-AT
200444 ATATAAAT
1 ATATAAAT
200452 ATATAAA
1 ATATAAA
200459 AATAAGATAA
Statistics
Matches: 83, Mismatches: 4, Indels: 31
0.70 0.03 0.26
Matches are distributed among these distances:
6 6 0.07
7 11 0.13
8 24 0.29
9 16 0.19
10 13 0.16
11 9 0.11
12 4 0.05
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:200659 original size:18 final size:18
Alignment explanation
Indices: 200638--200696 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
200628 TTTCACCTAC
200638 AAATATAATAAAAAATAT
1 AAATATAATAAAAAATAT
**
200656 AAATATAAT-TTAAATAT
1 AAATATAATAAAAAATAT
*
200673 -ATTATAATAAAAAATAT
1 AAATATAATAAAAAATAT
*
200690 TAATATA
1 AAATATA
200697 TTTAATTTAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 7 0.21
17 12 0.36
18 14 0.42
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AAATATAATAAAAAATAT
Found at i:200672 original size:17 final size:17
Alignment explanation
Indices: 200650--200734 Score: 50
Period size: 17 Copynumber: 4.9 Consensus size: 17
200640 ATATAATAAA
200650 AAATATAAATATAATTT
1 AAATATAAATATAATTT
* **
200667 AAATAT-ATTATAATAAA
1 AAATATAAATATAAT-TT
*
200684 AAATATTAATAT-ATTT
1 AAATATAAATATAATTT
* * *
200700 AATTTATAAAAAT-ATAT
1 AA-ATATAAATATAATTT
200717 AATATCATAAATATAATT
1 AA-AT-ATAAATATAATT
200735 ATGATATATA
Statistics
Matches: 50, Mismatches: 13, Indels: 8
0.70 0.18 0.11
Matches are distributed among these distances:
16 9 0.18
17 28 0.56
18 11 0.22
19 2 0.04
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATAAATATAATTT
Found at i:200683 original size:25 final size:22
Alignment explanation
Indices: 200668--200721 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 22
200658 ATATAATTTA
200668 AATATATTATAATAAAAAATATT
1 AATATATT-TAATAAAAAATATT
200691 AATATATTTAATTTATAAAAATATAT
1 AATATATTTAA--TA-AAAAATAT-T
200717 AATAT
1 AATAT
200722 CATAAATATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 3 0.11
23 8 0.30
24 2 0.07
25 8 0.30
26 6 0.22
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
AATATATTTAATAAAAAATATT
Found at i:200706 original size:29 final size:33
Alignment explanation
Indices: 200641--200743 Score: 100
Period size: 34 Copynumber: 3.0 Consensus size: 33
200631 CACCTACAAA
200641 TATAATAAAAAATATAAATATAATTTAAATATAT
1 TATAATAAAAAATATAAATATAATTT-AATATAT
* *
200675 TATAATAAAAAATATTAATAT-ATTTAATTTAT
1 TATAATAAAAAATATAAATATAATTTAATATAT
* * * *
200707 AAAAATATATAATATCATAAATATAATTATGATATAT
1 TATAATA-A-AAAAT-ATAAATATAATT-TAATATAT
200744 AAAAATATAT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
32 11 0.20
33 5 0.09
34 24 0.43
35 7 0.12
36 3 0.05
37 6 0.11
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (33 bp):
TATAATAAAAAATATAAATATAATTTAATATAT
Found at i:200758 original size:11 final size:10
Alignment explanation
Indices: 200738--200767 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
200728 TATAATTATG
200738 ATATATAAAA
1 ATATATAAAA
200748 ATATATAAAA
1 ATATATAAAA
200758 ATAATATAAA
1 AT-ATATAAA
200768 TAAAGATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
ATATATAAAA
Found at i:200776 original size:35 final size:37
Alignment explanation
Indices: 200704--200776 Score: 89
Period size: 37 Copynumber: 2.0 Consensus size: 37
200694 ATATTTAATT
* * *
200704 TATAAAAATATATAATATCATAAATATAATTATGATA
1 TATAAAAATATATAATATAATAAATATAATAAAGATA
200741 TATAAAAATATATAA-A-AAT-AATATAAATAAAGATA
1 TATAAAAATATATAATATAATAAATAT-AATAAAGATA
200776 T
1 T
200777 TATTAAATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
34 5 0.16
35 11 0.34
36 1 0.03
37 15 0.47
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (37 bp):
TATAAAAATATATAATATAATAAATATAATAAAGATA
Found at i:200993 original size:23 final size:24
Alignment explanation
Indices: 200963--201018 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 24
200953 AAATATAATT
200963 TTAATATATTATAA-TA-AAAAATA
1 TTAATATATTA-AATTATAAAAATA
200986 TTAATATATTAAATTTATAAAAATA
1 TTAATATATTAAA-TTATAAAAATA
201011 TATAATAT
1 T-TAATAT
201019 TATAAATATA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
22 2 0.07
23 11 0.38
24 2 0.07
25 8 0.28
26 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TTAATATATTAAATTATAAAAATA
Found at i:201004 original size:297 final size:293
Alignment explanation
Indices: 200342--201182 Score: 1245
Period size: 297 Copynumber: 2.9 Consensus size: 293
200332 TTTATGATTT
* * *
200342 AAATATGATATAAAATATAAATATAATTTAAATATATTATAAT-AAAAATATTAAAATATTAAAT
1 AAATATAATAAAAAATATAAATATAATTTAAATATATTATAATAAAAAATATTAATATATTAAAT
* *
200406 TTATAAAAATATATAATATTATAAATATAATTATATATATATAAATATATAAAAATAAGATAAAT
66 TTATAAAAATATATAATATTATAAATATAATTATATATATAAAAATATATAAAAATAATATAAAT
* *
200471 AAAGATATTATTAGATCTAATATCTTTATGTTTAGATCCTTATTTCTACATATATGGGGCCTTAA
131 AAAGATATTATTAGATC-AATA-ATTTATGTCTAGA---TTATTTCTACATATATGGGGCCTTAA
* *
200536 ATC-CAGCGGACAATTTTGAATCATCTTAGACTAAAACTCTGTCCAATAAAGCTTCCTTACTTTT
191 ATCTCAGCTGACAATTTTGAATCATCTTAGACTTAAACTCTGTCCAATAAAGCTTCCTTACTTTT
* *
200600 TATTATATTTTATTTACTTGAGATATGGTTTCACCTAC
256 TATTATATTTTATTTACTTGAGATATCGTTTCACATAC
*
200638 AAATATAATAAAAAATATAAATATAATTTAAATATATTATAATAAAAAATATTAATATATTTAAT
1 AAATATAATAAAAAATATAAATATAATTTAAATATATTATAATAAAAAATATTAATATATTAAAT
*
200703 TTATAAAAATATATAATATCATAAATATAATTATGATATATAAAAATATATAAAAATAATATAAA
66 TTATAAAAATATATAATATTATAAATATAATTAT-ATATATAAAAATATATAAAAATAATATAAA
*
200768 TAAAGATATTATTAAATCAAATAGATTTATGTCTAGATTATTTCTACATATATGGGGCCTTAAAT
130 TAAAGATATTATTAGATC-AATA-ATTTATGTCTAGATTATTTCTACATATATGGGGCCTTAAAT
* * *
200833 CTCAGCTGACAATTTTGAATCATCTTAGACTTAAACTCTGTCCGATAAAGCTCCCTTTCTTTTTA
193 CTCAGCTGACAATTTTGAATCATCTTAGACTTAAACTCTGTCCAATAAAGCTTCCTTACTTTTTA
*
200898 TTATATTTTATTTACTTGAGATA-CGTTTCTACATAT
258 TTATATTTTATTTACTTGAGATATCGTTTC-ACATAC
* *
200934 GAATATAATAAAAAAATATAAATATAATTTTAATATATTATAATAAAAAATATTAATATATTAAA
1 AAATATAAT-AAAAAATATAAATATAATTTAAATATATTATAATAAAAAATATTAATATATTAAA
* * *
200999 TTTATAAAAATATATAATATTATAAATATAATTATAATTTATAAAAATATATATAAATGATATAA
65 TTTATAAAAATATATAATATTATAAATATAATTAT-ATATATAAAAATATATAAAAATAATATAA
** *
201064 ATGAAAG-TATTATTAGATC--TAA--TA--TCTTTA-TATTTCTACGTATATGGGGCCTTAAAT
129 AT-AAAGATATTATTAGATCAATAATTTATGTCTAGATTATTTCTACATATATGGGGCCTTAAAT
*
201121 CTCAGCTGACAATTTTGAATCATCTTAGACTTAAAACTCTGTCCAATAATGCTTCCTTACTT
193 CTCAGCTGACAATTTTGAATCATCTTAGACTT-AAACTCTGTCCAATAAAGCTTCCTTACTT
201183 AAATATTTGG
Statistics
Matches: 502, Mismatches: 36, Indels: 21
0.90 0.06 0.04
Matches are distributed among these distances:
288 58 0.12
289 29 0.06
291 2 0.00
293 1 0.00
294 2 0.00
295 34 0.07
296 134 0.27
297 178 0.35
298 64 0.13
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (293 bp):
AAATATAATAAAAAATATAAATATAATTTAAATATATTATAATAAAAAATATTAATATATTAAAT
TTATAAAAATATATAATATTATAAATATAATTATATATATAAAAATATATAAAAATAATATAAAT
AAAGATATTATTAGATCAATAATTTATGTCTAGATTATTTCTACATATATGGGGCCTTAAATCTC
AGCTGACAATTTTGAATCATCTTAGACTTAAACTCTGTCCAATAAAGCTTCCTTACTTTTTATTA
TATTTTATTTACTTGAGATATCGTTTCACATAC
Found at i:201012 original size:19 final size:19
Alignment explanation
Indices: 200988--201056 Score: 81
Period size: 19 Copynumber: 3.6 Consensus size: 19
200978 AAAAAATATT
200988 AATATATTAAATTTATAAA
1 AATATATTAAATTTATAAA
201007 AATATA-T-AATATTATAAA
1 AATATATTAAAT-TTATAAA
*
201025 TATA-ATTATAATTTATAAA
1 AATATATTA-AATTTATAAA
201044 AATATATATAAAT
1 AATATAT-TAAAT
201057 GATATAAATG
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
17 4 0.10
18 12 0.29
19 16 0.38
20 8 0.19
21 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
AATATATTAAATTTATAAA
Found at i:201023 original size:18 final size:17
Alignment explanation
Indices: 200997--201051 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
200987 TAATATATTA
200997 AATTTATAAAAATATAT
1 AATTTATAAAAATATAT
*
201014 AATATTATAAATATAATTAT
1 AAT-TTATAAAAAT-A-TAT
201034 AATTTATAAAAATATAT
1 AATTTATAAAAATATAT
201051 A
1 A
201052 TAAATGATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
17 7 0.21
18 10 0.30
19 10 0.30
20 6 0.18
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATTTATAAAAATATAT
Found at i:201040 original size:37 final size:36
Alignment explanation
Indices: 200946--201056 Score: 122
Period size: 37 Copynumber: 3.1 Consensus size: 36
200936 ATATAATAAA
* * * *
200946 AAAATATAAATATAATTTTAATATATTATAATA-A-
1 AAAATATAAATATAATTATAATTTATAAAAATATAT
*
200980 AAAATATTAATAT-ATTA-AATTTATAAAAATATAT
1 AAAATATAAATATAATTATAATTTATAAAAATATAT
*
201014 AATATTATAAATATAATTATAATTTATAAAAATATAT
1 AA-AATATAAATATAATTATAATTTATAAAAATATAT
201051 ATAAAT
1 A-AAAT
201057 GATATAAATG
Statistics
Matches: 63, Mismatches: 8, Indels: 9
0.79 0.10 0.11
Matches are distributed among these distances:
32 11 0.17
33 4 0.06
34 14 0.22
35 9 0.14
36 4 0.06
37 20 0.32
38 1 0.02
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (36 bp):
AAAATATAAATATAATTATAATTTATAAAAATATAT
Found at i:201065 original size:19 final size:18
Alignment explanation
Indices: 200930--201065 Score: 66
Period size: 19 Copynumber: 7.4 Consensus size: 18
200920 ACGTTTCTAC
* * *
200930 ATATGAATATAATAAAAAA
1 ATATAAATAT-ATATAAAT
* *
200949 ATATAAATATAATTTTAAT
1 ATATAAATAT-ATATAAAT
* *
200968 ATAT-TATA-ATA-AAAA
1 ATATAAATATATATAAAT
*
200983 ATATTAATATAT-TAAAT
1 ATATAAATATATATAAAT
* *
201000 TTATAAAAATATAT-AAT
1 ATATAAATATATATAAAT
*
201017 ATTATAAATATAATTATAATTT
1 A-TATAAATAT-A-TATAA-AT
*
201039 ATAAAAATATATATAAAT
1 ATATAAATATATATAAAT
201057 GATATAAAT
1 -ATATAAAT
201066 GAAAGTATTA
Statistics
Matches: 87, Mismatches: 20, Indels: 20
0.69 0.16 0.16
Matches are distributed among these distances:
15 6 0.07
16 5 0.06
17 17 0.20
18 13 0.15
19 31 0.36
20 4 0.05
21 9 0.10
22 2 0.02
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (18 bp):
ATATAAATATATATAAAT
Found at i:201246 original size:3 final size:3
Alignment explanation
Indices: 201238--201289 Score: 61
Period size: 3 Copynumber: 17.3 Consensus size: 3
201228 ATACATTTGG
* * *
201238 TAA TAA TAAA TAA CAT TAA TAA TAG T-A TAA TAA TAA TAA TAA TAA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
201283 TAA TAA T
1 TAA TAA T
201290 TATTATTATT
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 1 0.02
3 37 0.90
4 3 0.07
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:201294 original size:3 final size:3
Alignment explanation
Indices: 201288--201325 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
201278 AATAATAATA
201288 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
201326 ATTCTAAAGT
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:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:201655 original size:10 final size:10
Alignment explanation
Indices: 201640--201664 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
201630 TAATTGTATA
201640 TTTTTATTAT
1 TTTTTATTAT
201650 TTTTTATTAT
1 TTTTTATTAT
201660 TTTTT
1 TTTTT
201665 TCATATCATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:202231 original size:11 final size:12
Alignment explanation
Indices: 202203--202241 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
202193 TATCTTGTCT
*
202203 TATTTTATTTTA
1 TATTTTATATTA
202215 TATTTTA-ATTA
1 TATTTTATATTA
*
202226 TTTTTTATATTA
1 TATTTTATATTA
202238 TATT
1 TATT
202242 CATGCTATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TATTTTATATTA
Found at i:203806 original size:18 final size:19
Alignment explanation
Indices: 203769--203812 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
203759 TTAATTAATA
*
203769 ATTTAAAATAAAATAAATT
1 ATTTTAAATAAAATAAATT
*
203788 ATTTTAAATTAAA-AAATT
1 ATTTTAAATAAAATAAATT
*
203806 ATATTAA
1 ATTTTAA
203813 GAATCCGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 11 0.50
19 11 0.50
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATTTTAAATAAAATAAATT
Found at i:203939 original size:13 final size:13
Alignment explanation
Indices: 203921--203945 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
203911 TTTTTATTTT
203921 TTTAATATATATA
1 TTTAATATATATA
203934 TTTAATATATAT
1 TTTAATATATAT
203946 TTAAATAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTTAATATATATA
Found at i:203963 original size:24 final size:26
Alignment explanation
Indices: 203936--203990 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 26
203926 TATATATATT
*
203936 TAATAT-ATATTTAAATAA-ATTAAA
1 TAATATAATATTTAAAAAATATTAAA
*
203960 TAATATAATTTTTAAAAAATATTAAA
1 TAATATAATATTTAAAAAATATTAAA
*
203986 AAATA
1 TAATA
203991 AAAAATATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 6 0.23
25 10 0.38
26 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (26 bp):
TAATATAATATTTAAAAAATATTAAA
Found at i:212166 original size:11 final size:11
Alignment explanation
Indices: 212136--212167 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
212126 TTGGAATTGT
*
212136 GTTAGCATGCA
1 GTTAGCATTCA
212147 GTTAGCATTCA
1 GTTAGCATTCA
212158 GTTAGCATTC
1 GTTAGCATTC
212168 TGCTACTATG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.34
Consensus pattern (11 bp):
GTTAGCATTCA
Found at i:216822 original size:19 final size:21
Alignment explanation
Indices: 216777--216818 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
216767 ATATGAACAC
216777 GATATATTTACACACGAATAA
1 GATATATTTACACACGAATAA
*
216798 GATATATTTACACATGAATAA
1 GATATATTTACACACGAATAA
216819 TATAAGTATT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.31
Consensus pattern (21 bp):
GATATATTTACACACGAATAA
Found at i:216858 original size:16 final size:16
Alignment explanation
Indices: 216837--216867 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
216827 TTGTATTTAT
216837 ATTTAAAAATTTATAC
1 ATTTAAAAATTTATAC
*
216853 ATTTAATAATTTATA
1 ATTTAAAAATTTATA
216868 TTGGGGTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (16 bp):
ATTTAAAAATTTATAC
Found at i:219210 original size:17 final size:17
Alignment explanation
Indices: 219188--219221 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
219178 GATCTTTCTT
219188 CCACTGCCGGCTTGCCC
1 CCACTGCCGGCTTGCCC
219205 CCACTGCCGGCTTGCCC
1 CCACTGCCGGCTTGCCC
219222 TGCTTAAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.53, G:0.24, T:0.18
Consensus pattern (17 bp):
CCACTGCCGGCTTGCCC
Found at i:219476 original size:14 final size:13
Alignment explanation
Indices: 219451--219496 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
219441 AAATTAAATT
*
219451 TAAATTTGTTAAA
1 TAAATTTTTTAAA
219464 TAATATTTTTTAAA
1 TAA-ATTTTTTAAA
* *
219478 TTAATTTTATAAA
1 TAAATTTTTTAAA
219491 TAAATT
1 TAAATT
219497 AAGTTAAATC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
13 17 0.61
14 11 0.39
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (13 bp):
TAAATTTTTTAAA
Found at i:219586 original size:19 final size:18
Alignment explanation
Indices: 219562--219598 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
219552 GATAAAAGAT
219562 TTATTTAGTTAATTTTTTA
1 TTATTTA-TTAATTTTTTA
*
219581 TTATTTATTTATTTTTTA
1 TTATTTATTAATTTTTTA
219599 AAAAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (18 bp):
TTATTTATTAATTTTTTA
Done.