Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 16 of 250
Found at i:4618413 original size:16 final size:16
Alignment explanation
Indices: 4618347--4618424 Score: 52
Period size: 16 Copynumber: 4.8 Consensus size: 16
4618337 ATACTATTTA
*
4618347 AATTTATTATTTTTAA-
1 AATTTATTA-TTTAAAT
*
4618363 AATTTATTATTAAAAT
1 AATTTATTATTTAAAT
* **
4618379 AAAATTAAAATATTAAAT
1 -AATTTATTAT-TTAAAT
*
4618397 AATTTATTATTTTAAT
1 AATTTATTATTTAAAT
*
4618413 AAATTA-TATTTA
1 AATTTATTATTTA
4618425 TTATATTAAT
Statistics
Matches: 47, Mismatches: 12, Indels: 7
0.71 0.18 0.11
Matches are distributed among these distances:
15 9 0.19
16 19 0.40
17 14 0.30
18 5 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
AATTTATTATTTAAAT
Found at i:4618550 original size:18 final size:17
Alignment explanation
Indices: 4618491--4618550 Score: 50
Period size: 17 Copynumber: 3.5 Consensus size: 17
4618481 TAATATTGAA
* *
4618491 AAATATAATATTTTAAT
1 AAATATAAAATTTTTAT
* *
4618508 AATTTTAAATATTTTTA-
1 AAATATAAA-ATTTTTAT
*
4618525 AAAAATAAAATTTATTAT
1 AAATATAAAATTT-TTAT
4618543 AAATATAA
1 AAATATAA
4618551 TAATAAGCTT
Statistics
Matches: 32, Mismatches: 8, Indels: 5
0.71 0.18 0.11
Matches are distributed among these distances:
16 4 0.12
17 15 0.47
18 13 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AAATATAAAATTTTTAT
Found at i:4623178 original size:12 final size:12
Alignment explanation
Indices: 4623161--4623185 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4623151 TATACATAAT
4623161 AATTTTAAAAAC
1 AATTTTAAAAAC
4623173 AATTTTAAAAAC
1 AATTTTAAAAAC
4623185 A
1 A
4623186 TAATTATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AATTTTAAAAAC
Found at i:4629882 original size:22 final size:23
Alignment explanation
Indices: 4629853--4629905 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
4629843 GGTAAAGGCA
4629853 GTAAATGAAGAA-AAAAAAAGGG
1 GTAAATGAAGAAGAAAAAAAGGG
* *
4629875 GTCAATGAAGAAGAAAAGAAGGG
1 GTAAATGAAGAAGAAAAAAAGGG
4629898 GTAAATGA
1 GTAAATGA
4629906 GTGTATGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.57, C:0.02, G:0.30, T:0.11
Consensus pattern (23 bp):
GTAAATGAAGAAGAAAAAAAGGG
Found at i:4633231 original size:15 final size:15
Alignment explanation
Indices: 4633211--4633240 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4633201 CATTTTATTT
*
4633211 ATATTAGGATAATTA
1 ATATTAAGATAATTA
4633226 ATATTAAGATAATTA
1 ATATTAAGATAATTA
4633241 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:4633268 original size:27 final size:26
Alignment explanation
Indices: 4633207--4633269 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
4633197 ACTACATTTT
4633207 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
4633234 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
4633262 ATTTTATT
1 ATTTTATT
4633270 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:4633284 original size:10 final size:10
Alignment explanation
Indices: 4633265--4633296 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
4633255 TTTTAGGATT
4633265 TTAT-TTTAA
1 TTATCTTTAA
4633274 TTATCTTTAA
1 TTATCTTTAA
4633284 TTATCTTTAA
1 TTATCTTTAA
4633294 TTA
1 TTA
4633297 AATGTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.62
Consensus pattern (10 bp):
TTATCTTTAA
Found at i:4636803 original size:12 final size:12
Alignment explanation
Indices: 4636786--4636817 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
4636776 TTATGGAGTG
4636786 ATTTCATCTCCC
1 ATTTCATCTCCC
4636798 ATTTCATCTCCC
1 ATTTCATCTCCC
4636810 ATTTCATC
1 ATTTCATC
4636818 CACTTTTCTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.19, C:0.38, G:0.00, T:0.44
Consensus pattern (12 bp):
ATTTCATCTCCC
Found at i:4639651 original size:16 final size:18
Alignment explanation
Indices: 4639630--4639668 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
4639620 GTTCTATAGG
*
4639630 TATTTTACT-TT-TATTT
1 TATTTTACTATTGTACTT
4639646 TATTTTACTATTGTACTT
1 TATTTTACTATTGTACTT
4639664 TATTT
1 TATTT
4639669 AAATAATGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 2 0.10
18 9 0.45
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.69
Consensus pattern (18 bp):
TATTTTACTATTGTACTT
Found at i:4643150 original size:20 final size:20
Alignment explanation
Indices: 4643104--4643152 Score: 64
Period size: 21 Copynumber: 2.5 Consensus size: 20
4643094 ATTTAAATTT
4643104 AAAAA-TATTTAAAAATAAA
1 AAAAATTATTTAAAAATAAA
* *
4643123 AAACAATTATTTAAAACTATA
1 AAA-AATTATTTAAAAATAAA
4643144 AAAAATTAT
1 AAAAATTAT
4643153 AAACTTTTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
19 3 0.12
20 8 0.31
21 15 0.58
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAATTATTTAAAAATAAA
Found at i:4646580 original size:15 final size:15
Alignment explanation
Indices: 4646560--4646589 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4646550 TATTTTATTT
4646560 ATATTAGGATAATTA
1 ATATTAGGATAATTA
4646575 ATATTAGGATAATTA
1 ATATTAGGATAATTA
4646590 TTAGGATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (15 bp):
ATATTAGGATAATTA
Found at i:4646642 original size:20 final size:20
Alignment explanation
Indices: 4646614--4646661 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
4646604 ATTTTAGGAT
*
4646614 TTTAT-TTTAATT-ATCTTTA
1 TTTATCTTTAATTAAT-TGTA
4646633 TTTATCTTTAATTAATTGTA
1 TTTATCTTTAATTAATTGTA
4646653 TTTATCTTT
1 TTTATCTTT
4646662 TTAGAATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 5 0.19
20 19 0.73
21 2 0.08
ACGTcount: A:0.25, C:0.06, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATCTTTAATTAATTGTA
Found at i:4650351 original size:20 final size:20
Alignment explanation
Indices: 4650326--4650369 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4650316 CAACCCAATT
4650326 TTTTAT-TT-TTATTTTATTTA
1 TTTTATCTTATTA-TTTA-TTA
4650346 TTTTATCTTATTATTTATTA
1 TTTTATCTTATTATTTATTA
4650366 TTTT
1 TTTT
4650370 CAGATATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 13 0.59
21 6 0.27
22 3 0.14
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (20 bp):
TTTTATCTTATTATTTATTA
Found at i:4651822 original size:15 final size:15
Alignment explanation
Indices: 4651802--4651831 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4651792 CATTTTATTT
*
4651802 ATATTAGGATAATTA
1 ATATTAAGATAATTA
4651817 ATATTAAGATAATTA
1 ATATTAAGATAATTA
4651832 TTAGGATTAT
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:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:4651896 original size:20 final size:19
Alignment explanation
Indices: 4651856--4651899 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
4651846 ATTTTAGGAT
*
4651856 TTTATTTTAATTATCTTTA
1 TTTATTTTAATTATCTGTA
4651875 TTTATATTTAATTAAT-TGTA
1 TTTAT-TTTAATT-ATCTGTA
4651895 TTTAT
1 TTTAT
4651900 CTTTTTAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 15 0.68
21 2 0.09
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTATTTTAATTATCTGTA
Found at i:4656550 original size:43 final size:43
Alignment explanation
Indices: 4656426--4656551 Score: 189
Period size: 43 Copynumber: 2.9 Consensus size: 43
4656416 GCTTATCATA
* * * *
4656426 AAAATGCCACTAAAGGTCATGTTCTTTAGCTGCGTTTATGTGT
1 AAAACGCCACTAAAGGTCATGTTCTATAGCGGCGTTTGTGTGT
* * *
4656469 AAAGCACCACTAAAGGTCATGTTCTATAGCGGCATTTGTGTGT
1 AAAACGCCACTAAAGGTCATGTTCTATAGCGGCGTTTGTGTGT
4656512 AAAACGCCACTAAAGGTCATGTTCTATAGCGGCGTTTGTG
1 AAAACGCCACTAAAGGTCATGTTCTATAGCGGCGTTTGTG
4656552 GGAAATCACC
Statistics
Matches: 73, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 73 1.00
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (43 bp):
AAAACGCCACTAAAGGTCATGTTCTATAGCGGCGTTTGTGTGT
Found at i:4658521 original size:6 final size:5
Alignment explanation
Indices: 4658495--4658534 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
4658485 TGAAAATGTG
4658495 AAAAT AAAAT AAAAT AAAAT AAAAAT AAAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA
4658535 GAACACAGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 23 0.68
6 11 0.32
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
AAAAT
Found at i:4658521 original size:11 final size:11
Alignment explanation
Indices: 4658495--4658534 Score: 57
Period size: 11 Copynumber: 3.7 Consensus size: 11
4658485 TGAAAATGTG
4658495 AAAATAAAAT-
1 AAAATAAAATA
4658505 AAAATAAAATA
1 AAAATAAAATA
4658516 AAAATAAAA-A
1 AAAATAAAATA
4658526 TAAAATAAA
1 -AAAATAAA
4658535 GAACACAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 11 0.39
11 17 0.61
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:4658900 original size:29 final size:29
Alignment explanation
Indices: 4658863--4658918 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
4658853 CACCTTGACA
* *
4658863 CGAATTCTCAATGAACAAGTTCTTCATTG
1 CGAACTCTCAACGAACAAGTTCTTCATTG
4658892 CGAACTCTCAACGAACAAGTTCTTCAT
1 CGAACTCTCAACGAACAAGTTCTTCAT
4658919 CTCTTCCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.30
Consensus pattern (29 bp):
CGAACTCTCAACGAACAAGTTCTTCATTG
Found at i:4664004 original size:9 final size:10
Alignment explanation
Indices: 4663978--4664003 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
4663968 TCATATTTTT
4663978 TAAAAAATTC
1 TAAAAAATTC
4663988 TAAAAAATTC
1 TAAAAAATTC
4663998 TAAAAA
1 TAAAAA
4664004 TATATAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (10 bp):
TAAAAAATTC
Found at i:4666370 original size:257 final size:257
Alignment explanation
Indices: 4665596--4666371 Score: 1438
Period size: 253 Copynumber: 3.0 Consensus size: 257
4665586 TCATTTTACC
*
4665596 CACA-AGCTT-GTAAAAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
1 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
* *
4665659 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATTTATGGCCCGATAGTTTCAATAT
66 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTGATAGTTTCAATAT
4665724 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
131 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
4665789 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
196 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
* * *
4665851 CACACAGCTTCGTAGGAGTCCTATATTCATTGTATTGTACCATTTCTTATTTTTTCCTCTCAAAT
1 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
4665916 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTGATAGTTTCAATAT
66 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTGATAGTTTCAATAT
4665981 TACCG---A-TAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
131 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
4666042 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
196 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
4666104 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
1 CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
4666169 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTGATAGTTTCAATAT
66 ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTGATAGTTTCAATAT
4666234 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
131 TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
* *
4666299 TGGTTATTTGAGAATTAGTTATTCAAACAATGCTTTAGGTCATCCCTAAGCATTCCACCATA
196 TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
4666361 CACACAGCTTC
1 CACACAGCTTC
4666372 TTTCATACTT
Statistics
Matches: 504, Mismatches: 11, Indels: 10
0.96 0.02 0.02
Matches are distributed among these distances:
253 249 0.49
254 1 0.00
255 4 0.01
256 6 0.01
257 244 0.48
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.35
Consensus pattern (257 bp):
CACACAGCTTCGTAAGAGTCCTATATTCACTATATTGTACCATTTCTTATTTTTTCCTCTCAAAT
ATTTTGAAATCACCAAGATACCTCTACCTAAACTCGAGTTATCTATGGCCTGATAGTTTCAATAT
TACCGATCATTAAGAAGTGTCATAAGGATCAATTATGGGAACTAGGGATAAATAGCATATTGGTA
TGGTTATTTGAGAATTAGTTATTCAAACAATGATTTAGGTCATCCCTAAGAATTCCACCATA
Found at i:4669737 original size:24 final size:24
Alignment explanation
Indices: 4669701--4669751 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
4669691 GACTAAGTCT
* *
4669701 TAGGGGGATTTGTTAACTTGTTAG
1 TAGGAGGAGTTGTTAACTTGTTAG
*
4669725 TAGGAGGAGTTGTTAGCTTGTTAG
1 TAGGAGGAGTTGTTAACTTGTTAG
4669749 TAG
1 TAG
4669752 CAATTTGAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.04, G:0.35, T:0.39
Consensus pattern (24 bp):
TAGGAGGAGTTGTTAACTTGTTAG
Found at i:4677817 original size:26 final size:24
Alignment explanation
Indices: 4677764--4677819 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
4677754 TATAATTTTT
4677764 AAATTT-TTTTTAATAATTATTAA
1 AAATTTATTTTTAATAATTATTAA
* * *
4677787 TAATTTATTTTTTATATATTTTTATA
1 AAATTTATTTTTAATA-ATTATTA-A
4677813 AAATTTA
1 AAATTTA
4677820 ATAATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.19
24 8 0.31
25 6 0.23
26 7 0.27
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (24 bp):
AAATTTATTTTTAATAATTATTAA
Found at i:4678937 original size:31 final size:31
Alignment explanation
Indices: 4678902--4678960 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
4678892 GTGTAATTCA
4678902 TATTCGAGTTAAACCGAAAAACTTAATTTTT
1 TATTCGAGTTAAACCGAAAAACTTAATTTTT
* * *
4678933 TATTCGAGTTGATCCGAATAACTTAATT
1 TATTCGAGTTAAACCGAAAAACTTAATT
4678961 AACTCAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.39
Consensus pattern (31 bp):
TATTCGAGTTAAACCGAAAAACTTAATTTTT
Found at i:4679940 original size:32 final size:32
Alignment explanation
Indices: 4679904--4679968 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
4679894 CAATAAGTTA
4679904 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
1 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
4679936 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
1 TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
4679968 T
1 T
4679969 GCTTCTAAGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.28, C:0.03, G:0.31, T:0.38
Consensus pattern (32 bp):
TAGTGGTGTTAGGTGACAGTTTAGGTAAAATT
Found at i:4682005 original size:28 final size:28
Alignment explanation
Indices: 4681955--4682068 Score: 99
Period size: 28 Copynumber: 3.9 Consensus size: 28
4681945 CTATTCAGAA
* *
4681955 ATCAGTGTTAA-CTGGGCCTTAGCCCAT
1 ATCAGTATTAATCTGGGCCGTAGCCCAT
4681982 ATCAGTATTAATCTGGGCCGTAGCCC-T
1 ATCAGTATTAATCTGGGCCGTAGCCCAT
*
4682009 ATTACAATATTAGAGCATACTGGGCC-TAGCCCAT
1 A-T-CAGTATT--A--AT-CTGGGCCGTAGCCCAT
* *
4682043 ATCAGTATCAGTCTGGGCCGTAGCCC
1 ATCAGTATTAATCTGGGCCGTAGCCC
4682069 TATTACAAGT
Statistics
Matches: 71, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
27 19 0.27
28 21 0.30
29 6 0.08
30 1 0.01
31 1 0.01
32 5 0.07
33 9 0.13
34 9 0.13
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (28 bp):
ATCAGTATTAATCTGGGCCGTAGCCCAT
Found at i:4682140 original size:19 final size:20
Alignment explanation
Indices: 4682097--4682152 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 20
4682087 ATTGGGTCTT
4682097 GCCCATATTAACACAGTTGG
1 GCCCATATTAACACAGTTGG
* *
4682117 GCCCATTTTAATACAGTT-G
1 GCCCATATTAACACAGTTGG
* *
4682136 GCCCATAATAAAACAGT
1 GCCCATATTAACACAGT
4682153 CTCATATGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
19 15 0.48
20 16 0.52
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (20 bp):
GCCCATATTAACACAGTTGG
Found at i:4683422 original size:15 final size:14
Alignment explanation
Indices: 4683395--4683469 Score: 53
Period size: 15 Copynumber: 5.1 Consensus size: 14
4683385 GAGAATCGGC
*
4683395 AAGAGGAGAAAGAA
1 AAGAGAAGAAAGAA
4683409 AAGAGAAGAGAAGAA
1 AAGAGAAGA-AAGAA
* *
4683424 GAGATG-AGAGAAGGA
1 AAGA-GAAGA-AAGAA
*
4683439 AAGAAAAGAATAGAA
1 AAGAGAAGAA-AGAA
* *
4683454 AATAGAAGAAGGAA
1 AAGAGAAGAAAGAA
4683468 AA
1 AA
4683470 AAAATGAATC
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
14 14 0.29
15 33 0.69
16 1 0.02
ACGTcount: A:0.64, C:0.00, G:0.32, T:0.04
Consensus pattern (14 bp):
AAGAGAAGAAAGAA
Found at i:4683984 original size:298 final size:298
Alignment explanation
Indices: 4683448--4684029 Score: 1164
Period size: 298 Copynumber: 2.0 Consensus size: 298
4683438 AAAGAAAAGA
4683448 ATAGAAAATAGAAGAAGGAAAAAAAATGAATCCAAAATATACGGCATTTAATATAGCTATGGCCG
1 ATAGAAAATAGAAGAAGGAAAAAAAATGAATCCAAAATATACGGCATTTAATATAGCTATGGCCG
4683513 AAAGAGTGCCTTTCGGCATAGTAATTCTTTTTAAATTCCAATTCCCTAATTTGCTCCTTGATTTT
66 AAAGAGTGCCTTTCGGCATAGTAATTCTTTTTAAATTCCAATTCCCTAATTTGCTCCTTGATTTT
4683578 TGGCCAAATTCGAAGTTTGAATTTCATTCAAACTCCCAACCGATCAGCAGCCTTATCCACCTGCT
131 TGGCCAAATTCGAAGTTTGAATTTCATTCAAACTCCCAACCGATCAGCAGCCTTATCCACCTGCT
4683643 TGCACCGCTTCAATATGCTGCCAAGAGTCCTGGTCAGACCTCAATTCCTTCCCCACGCATGCAGC
196 TGCACCGCTTCAATATGCTGCCAAGAGTCCTGGTCAGACCTCAATTCCTTCCCCACGCATGCAGC
4683708 AAAAATCCAAACCTTGTATGTGCCTTTCGGCATTTAAT
261 AAAAATCCAAACCTTGTATGTGCCTTTCGGCATTTAAT
4683746 ATAGAAAATAGAAGAAGGAAAAAAAATGAATCCAAAATATACGGCATTTAATATAGCTATGGCCG
1 ATAGAAAATAGAAGAAGGAAAAAAAATGAATCCAAAATATACGGCATTTAATATAGCTATGGCCG
4683811 AAAGAGTGCCTTTCGGCATAGTAATTCTTTTTAAATTCCAATTCCCTAATTTGCTCCTTGATTTT
66 AAAGAGTGCCTTTCGGCATAGTAATTCTTTTTAAATTCCAATTCCCTAATTTGCTCCTTGATTTT
4683876 TGGCCAAATTCGAAGTTTGAATTTCATTCAAACTCCCAACCGATCAGCAGCCTTATCCACCTGCT
131 TGGCCAAATTCGAAGTTTGAATTTCATTCAAACTCCCAACCGATCAGCAGCCTTATCCACCTGCT
4683941 TGCACCGCTTCAATATGCTGCCAAGAGTCCTGGTCAGACCTCAATTCCTTCCCCACGCATGCAGC
196 TGCACCGCTTCAATATGCTGCCAAGAGTCCTGGTCAGACCTCAATTCCTTCCCCACGCATGCAGC
4684006 AAAAATCCAAACCTTGTATGTGCC
261 AAAAATCCAAACCTTGTATGTGCC
4684030 AAATGCAGCT
Statistics
Matches: 284, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
298 284 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (298 bp):
ATAGAAAATAGAAGAAGGAAAAAAAATGAATCCAAAATATACGGCATTTAATATAGCTATGGCCG
AAAGAGTGCCTTTCGGCATAGTAATTCTTTTTAAATTCCAATTCCCTAATTTGCTCCTTGATTTT
TGGCCAAATTCGAAGTTTGAATTTCATTCAAACTCCCAACCGATCAGCAGCCTTATCCACCTGCT
TGCACCGCTTCAATATGCTGCCAAGAGTCCTGGTCAGACCTCAATTCCTTCCCCACGCATGCAGC
AAAAATCCAAACCTTGTATGTGCCTTTCGGCATTTAAT
Found at i:4684862 original size:19 final size:18
Alignment explanation
Indices: 4684825--4684868 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
4684815 ATACATGCAG
4684825 TAAT-ATTTTTCTAATAA
1 TAATAATTTTTCTAATAA
*
4684842 TAATAATTTTATCTCATAA
1 TAATAATTTT-TCTAATAA
*
4684861 TACTAATT
1 TAATAATT
4684869 AAAATTTCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 4 0.17
18 5 0.22
19 14 0.61
ACGTcount: A:0.41, C:0.09, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATAATTTTTCTAATAA
Found at i:4691043 original size:20 final size:20
Alignment explanation
Indices: 4691018--4691057 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
4691008 CGTAAAATGA
*
4691018 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
4691038 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
4691058 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:4691047 original size:34 final size:35
Alignment explanation
Indices: 4691003--4691069 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
4690993 CAGTAAAATA
*
4691003 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
4691037 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
4691070 CTAGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:4691181 original size:20 final size:20
Alignment explanation
Indices: 4691156--4691194 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4691146 GTTTTTACAT
4691156 ATATTAATAAATTTATATAC
1 ATATTAATAAATTTATATAC
*
4691176 ATATTAATAAATTTTTATA
1 ATATTAATAAATTTATATA
4691195 TTTTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (20 bp):
ATATTAATAAATTTATATAC
Found at i:4691254 original size:15 final size:15
Alignment explanation
Indices: 4691225--4691277 Score: 52
Period size: 17 Copynumber: 3.2 Consensus size: 15
4691215 TATTGCAATG
*
4691225 ATTTATTTATAAATAA
1 ATTT-TTTATTAATAA
4691241 ATTTTTTATTAATAAA
1 ATTTTTTATTAAT-AA
4691257 AGTTTTTTATCTAATTAA
1 A-TTTTTTAT-TAA-TAA
4691275 ATT
1 ATT
4691278 CCAAATGTTC
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
15 8 0.25
16 7 0.22
17 10 0.31
18 6 0.19
19 1 0.03
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTTTTTATTAATAA
Found at i:4691467 original size:14 final size:14
Alignment explanation
Indices: 4691448--4691487 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
4691438 TTGATTGCCA
4691448 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
4691462 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
4691476 GGAAAATGTTTT
1 GTAAAATGTTTT
4691488 ACTTTTCTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.33, C:0.07, G:0.17, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:4694327 original size:18 final size:18
Alignment explanation
Indices: 4694306--4694356 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
4694296 AGGAATGAAG
4694306 GAAGGGAGAAGAATGGAT
1 GAAGGGAGAAGAATGGAT
*** *
4694324 GAAGGGAGCTTACTGGAT
1 GAAGGGAGAAGAATGGAT
4694342 GAAGGGAGAAGAATG
1 GAAGGGAGAAGAATG
4694357 CCTGAGAGCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.39, C:0.04, G:0.43, T:0.14
Consensus pattern (18 bp):
GAAGGGAGAAGAATGGAT
Found at i:4698663 original size:25 final size:27
Alignment explanation
Indices: 4698626--4698678 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
4698616 TCAAACATGC
4698626 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
4698652 ATTTTGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
4698678 A
1 A
4698679 AAACCGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:4700191 original size:26 final size:26
Alignment explanation
Indices: 4700160--4700267 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
4700150 TGAAATGCCC
4700160 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
4700186 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
4700212 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
4700238 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
4700264 ATCA
1 ATCA
4700268 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:4701411 original size:116 final size:109
Alignment explanation
Indices: 4701213--4701440 Score: 393
Period size: 116 Copynumber: 2.0 Consensus size: 109
4701203 TAGTGTACGA
4701213 CACCTTCGTCCATACAGTGCTTCATACGTACCATTCGAATACTCGCCTGAACTTAGTACGCAAAT
1 CACCTTCGTCCATACAGTGCTTCATACGTACCATTCGAATACTCGCCTGAACTTAGTACGCAAAT
4701278 TCTGCCAACGGCAAGTAATCCTCCCAACTACCTCGAAAGTCAAT
66 TCTGCCAACGGCAAGTAATCCTCCCAACTACCTCGAAAGTCAAT
4701322 CACCTTCGTCCATACAGTGCTTCATACGGTACCATTCGAATACTCGCCTGGTAACTGTTATTGTA
1 CACCTTCGTCCATACAGTGCTTCATAC-GTACCATTCGAATACTCGCCT-G-AAC--TTA--GTA
4701387 CGCAAATTCTGCCAACGGCAAGTAATCCTCCCAACTACCTCGAAAGTCAAT
59 CGCAAATTCTGCCAACGGCAAGTAATCCTCCCAACTACCTCGAAAGTCAAT
4701438 CAC
1 CAC
4701441 ACATCCCCTC
Statistics
Matches: 112, Mismatches: 0, Indels: 7
0.94 0.00 0.06
Matches are distributed among these distances:
109 27 0.24
110 21 0.19
111 1 0.01
112 3 0.03
114 3 0.03
116 57 0.51
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (109 bp):
CACCTTCGTCCATACAGTGCTTCATACGTACCATTCGAATACTCGCCTGAACTTAGTACGCAAAT
TCTGCCAACGGCAAGTAATCCTCCCAACTACCTCGAAAGTCAAT
Found at i:4705581 original size:21 final size:21
Alignment explanation
Indices: 4705552--4705599 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
4705542 TGGGGAGACT
*
4705552 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACC-CTAC
*
4705573 ACTCCACCCTACCAGCCCTAC
1 ACTCCACCCTACCAACCCTAC
4705594 ACTCCA
1 ACTCCA
4705600 TGTGGGGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 18 0.75
22 6 0.25
ACGTcount: A:0.31, C:0.54, G:0.02, T:0.12
Consensus pattern (21 bp):
ACTCCACCCTACCAACCCTAC
Found at i:4707362 original size:26 final size:26
Alignment explanation
Indices: 4707326--4707433 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
4707316 TGAAATGCCA
4707326 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
4707352 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
4707378 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
4707404 ATCATGGAACATTTACCT-AACCTATT
1 ATCATGGAACATTTACCTAAACC-ATT
4707430 ATCA
1 ATCA
4707434 ATTTGTACCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 3 0.04
26 73 0.96
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:4732854 original size:30 final size:30
Alignment explanation
Indices: 4732818--4732889 Score: 135
Period size: 30 Copynumber: 2.4 Consensus size: 30
4732808 AATCGAAAGT
4732818 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
4732848 TTTGGCACTAAGTGTGCGATTTAAACTAGC
1 TTTGGCACTAAGTGTGCGATTTAAACTAGC
4732878 TTTGGCTACTAA
1 TTTGGC-ACTAA
4732890 AGGCACTAAG
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 36 0.88
31 5 0.12
ACGTcount: A:0.26, C:0.17, G:0.22, T:0.35
Consensus pattern (30 bp):
TTTGGCACTAAGTGTGCGATTTAAACTAGC
Found at i:4740299 original size:467 final size:471
Alignment explanation
Indices: 4739426--4740747 Score: 2409
Period size: 477 Copynumber: 2.8 Consensus size: 471
4739416 ACGTTATGTG
* *
4739426 AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATCATTAATATAAAAA
1 AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAA
*
4739491 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTAGA
66 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTGGA
*
4739556 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAAGTCTTTTTGAATTTTT
131 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
4739621 TAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATAT
196 TAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATAT
*
4739686 AAGGCAACCTGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
261 AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
*
4739751 GACAAGCAATCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAA
326 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAA
*
4739816 ATAATAATTAAGTTGAACCAAAATAT-AA-A-A-ACTTATTCATACTTCAAATAATAATTAATGC
391 ATAATAATTAAGTTGAACCAAAATATAAATATATACTTATTCATACTTCAAATAATAATTAATAC
4739877 TGTTTTGATAAAAATT
456 TGTTTTGATAAAAATT
4739893 AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAA
1 AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAA
*
4739958 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGA
66 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTGGA
*
4740023 AATAAATTAAGGTTATATAAATATTCAATAGCGACAGAACTTTTTTCAATTCTTTTTGAATTTTT
131 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
* *
4740088 TAAGATTCATCATACGTGGCGTTGTTACACCTAGGGATGATCCATTATATCTTGCAACTCGATAT
196 TAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATAT
4740153 AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
261 AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
4740218 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAA
326 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAA
4740283 ATAATAATTAAGTTGAACCAAAATATAAAAACTTATTCATACTTATTCATACTTCAAATAATAAT
391 ATAATAATTAAGTTGAACCAAAATAT--AAA--TA-T-ATACTTATTCATACTTCAAATAATAAT
*
4740348 TAATATTGTTTTGATAAAAATT
450 TAATACTGTTTTGATAAAAATT
*
4740370 AGTTATAACTTTTAAAGACATTTAAAAACATTAAATATTAAAATCAAACATTATTAATATAACAA
1 AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAA
*
4740435 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCATAATTTAATTTTTATAAGTAAATTGGA
66 AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTGGA
4740500 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
131 AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
* * *
4740565 TAAGATTCATCATATGTGGCGTTGTTACACCTAAGGAGGATCCACTATATCTTGCAGCTCGATAT
196 TAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATAT
4740630 AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
261 AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
4740695 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
326 GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTT
4740748 CAAATAATTA
Statistics
Matches: 824, Mismatches: 21, Indels: 10
0.96 0.02 0.01
Matches are distributed among these distances:
467 406 0.49
470 2 0.00
473 1 0.00
476 1 0.00
477 414 0.50
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (471 bp):
AGTTATAACTTTTAAAGACATTTAAAAATATTAAATATTAAAATCAAACATTATTAATATAACAA
AATAGTAATTTGAATATAATAATATCAAAAAAGAATCGTAATTTAATTTTTATAAGTAAATTGGA
AATAAATTAAGGTTATATAAATATTCAATAGCGATAGAACTTTTTTCAATTCTTTTTGAATTTTT
TAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGCTCGATAT
AAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATAAGGAATG
GACAAGCAAGCTACATATATGGTAATAAAATTAATTCATACTTATTCATACTTAAGTTGAATCAA
ATAATAATTAAGTTGAACCAAAATATAAATATATACTTATTCATACTTCAAATAATAATTAATAC
TGTTTTGATAAAAATT
Found at i:4745142 original size:15 final size:15
Alignment explanation
Indices: 4745122--4745153 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4745112 AAATAATAAT
*
4745122 TTATATATATTTATC
1 TTATATACATTTATC
4745137 TTATATACATTTATC
1 TTATATACATTTATC
4745152 TT
1 TT
4745154 CTAAATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:4746468 original size:41 final size:41
Alignment explanation
Indices: 4746178--4746437 Score: 382
Period size: 41 Copynumber: 6.4 Consensus size: 41
4746168 GTTAAATGAC
4746178 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
4746219 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
*
4746260 TTTTATCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* *
4746301 TTTTAGCAGCGTTTTACCAAAATCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* * * * *
4746342 TCTTAGAGGCGTTTTACCAAAAGTGCCGCTATTGCTCT-AT
1 TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
* **
4746382 TTTTAGCGGCGTTTTTTACTAAAA-CGCCGCTGTTGCTCT-GT
1 TTTTAGCGGCG--TTTTACCAAAAGCGCCGCTAATGCTCTGGT
4746423 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
4746438 TCTTAAAACG
Statistics
Matches: 200, Mismatches: 17, Indels: 6
0.90 0.08 0.03
Matches are distributed among these distances:
39 4 0.02
40 10 0.05
41 176 0.88
42 10 0.05
ACGTcount: A:0.19, C:0.23, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAGCGCCGCTAATGCTCTGGT
Found at i:4748356 original size:79 final size:81
Alignment explanation
Indices: 4748220--4748404 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
4748210 TTGAATGATG
* *
4748220 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
4748284 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
4748299 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
4748361 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
4748379 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
4748405 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:4748418 original size:40 final size:40
Alignment explanation
Indices: 4748221--4748404 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
4748211 TGAATGATGT
* * * *
4748221 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
4748261 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
4748301 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
4748339 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
4748380 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
4748405 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:4748426 original size:79 final size:79
Alignment explanation
Indices: 4748273--4748437 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
4748263 GGACTAAGAT
* * **
4748273 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
4748338 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
4748352 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
4748415 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
4748431 CCGAAGG
1 CCGAAGG
4748438 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:4779428 original size:44 final size:44
Alignment explanation
Indices: 4779298--4779938 Score: 727
Period size: 44 Copynumber: 14.6 Consensus size: 44
4779288 ATAAATTACC
*
4779298 GATAGCAGATTTGGCGTCTTTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * * *
4779342 GATAACAGGTTTGGTGTCTCTGTATTG-CTAAAGAGTAAATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTC-AGAGAGCAGATCGAA
* * *
4779386 GATAACAGGTTTGGCGTCTCTGTATTATCA-AGGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGA-GAGCAGATCGAA
* * * * *
4779430 GATAGTAGATTTGACATCTCTGTATGGTCAGAAAGCAGATC-ACCA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGA--A
* *
4779475 -ATAGCAGATTTGGCGTCTCTATATTGGCAGAGAGCAGAT-GAAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCG-AA
* *
4779518 GATAGTAGGTTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
4779562 GATAGCAGATTTGGCATTTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * *
4779606 GATAGTAGATTTGGCATCTCTATATTGTCAAAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
*
4779650 GATAGTAGATTTGGCGTCTCTGT-TTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
4779693 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
4779737 GTTAGCAGGTTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
4779781 GATAGTAGATTTGGCGTCTCTGTATTGTCAAAGAGCAGATCGAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * * * * * * *
4779825 GAAAGCACATATAGCATTTCTGTATTGACAGAAAGTAGATCAAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* * * * * * * * * *
4779869 GAAAGCACATATAGCATTTCTGTATTGACAGAAAGTAGATCAAA
1 GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
* *
4779913 GATAGCTGATTTGGTGTCTCTGTATT
1 GATAGCAGATTTGGCGTCTCTGTATT
4779939 AGGCGGGGTG
Statistics
Matches: 518, Mismatches: 68, Indels: 22
0.85 0.11 0.04
Matches are distributed among these distances:
43 45 0.09
44 468 0.90
45 5 0.01
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.29
Consensus pattern (44 bp):
GATAGCAGATTTGGCGTCTCTGTATTGTCAGAGAGCAGATCGAA
Found at i:4781482 original size:29 final size:29
Alignment explanation
Indices: 4781450--4781516 Score: 84
Period size: 29 Copynumber: 2.3 Consensus size: 29
4781440 ATCATATATA
*
4781450 TATATTATTTT-AATATATATTTTATTCAT
1 TATATTATTTTCAATATATATTATATT-AT
* *
4781479 TATATCATTTTCATTATATATTATATTAT
1 TATATTATTTTCAATATATATTATATTAT
4781508 TAT-TTATTT
1 TATATTATTT
4781517 ATTACTATGT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
28 5 0.15
29 15 0.45
30 13 0.39
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (29 bp):
TATATTATTTTCAATATATATTATATTAT
Found at i:4781733 original size:18 final size:18
Alignment explanation
Indices: 4781710--4781745 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
4781700 ATCATTTATT
4781710 ATTTTTATATTGT-TTTAA
1 ATTTTTAT-TTGTATTTAA
4781728 ATTTTTATTTGTATTTAA
1 ATTTTTATTTGTATTTAA
4781746 TCTTATCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.28, C:0.00, G:0.06, T:0.67
Consensus pattern (18 bp):
ATTTTTATTTGTATTTAA
Found at i:4783558 original size:27 final size:27
Alignment explanation
Indices: 4783521--4783685 Score: 219
Period size: 27 Copynumber: 6.1 Consensus size: 27
4783511 AGCATGGCTG
* *
4783521 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
4783547 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
4783575 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * * *
4783602 CCAGATCAGATATTTGTGGCATAGCTA
1 CCAGAACAGATATATGTGGCAGAGCCA
4783629 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
4783656 CCAGATCAGATAT-TGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
4783682 CCAG
1 CCAG
4783686 GCTTCCTCCA
Statistics
Matches: 124, Mismatches: 12, Indels: 6
0.87 0.08 0.04
Matches are distributed among these distances:
26 21 0.17
27 86 0.69
28 17 0.14
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:4783580 original size:54 final size:54
Alignment explanation
Indices: 4783521--4783685 Score: 253
Period size: 54 Copynumber: 3.1 Consensus size: 54
4783511 AGCATGGCTG
* * * *
4783521 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
* *
4783575 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCTA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
4783629 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGAT-ATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
4783682 CCAG
1 CCAG
4783686 GCTTCCTCCA
Statistics
Matches: 102, Mismatches: 8, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
53 17 0.17
54 67 0.66
55 18 0.18
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
Found at i:4785391 original size:25 final size:26
Alignment explanation
Indices: 4785297--4785405 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
4785287 CATGAAATTC
4785297 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4785323 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
4785349 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
4785375 TTATCATG-AACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
4785400 TTATCA
1 TTATCA
4785406 ATTTGTATCA
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
25 23 0.28
26 58 0.72
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4789309 original size:19 final size:22
Alignment explanation
Indices: 4789270--4789309 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
4789260 AGAAACCCAA
4789270 CCATATCCAACCGTATACACCC
1 CCATATCCAACCGTATACACCC
4789292 CCATA-CCAACC-T-TACACC
1 CCATATCCAACCGTATACACC
4789310 GTGTGAGGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.33, C:0.47, G:0.03, T:0.17
Consensus pattern (22 bp):
CCATATCCAACCGTATACACCC
Found at i:4789408 original size:27 final size:27
Alignment explanation
Indices: 4789371--4789536 Score: 212
Period size: 27 Copynumber: 6.1 Consensus size: 27
4789361 AGCATGGCTG
* *
4789371 CCAGAACAGATA-ATGTGACAGAGTCA
1 CCAGAACAGATATATGTGGCAGAGCCA
4789397 CCAGATACAGATA-ATCGTGGCAGAGCCA
1 CCAGA-ACAGATATAT-GTGGCAGAGCCA
4789425 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* * *
4789452 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
*
4789479 CCAGAACAGATATATGTGGTAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCA
* *
4789506 CCAGATCAGATA-ATTGTGGCATAGCCA
1 CCAGAACAGATATA-TGTGGCAGAGCCA
4789533 CCAG
1 CCAG
4789537 GACGCTTCCT
Statistics
Matches: 124, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
26 6 0.05
27 101 0.81
28 17 0.14
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CCAGAACAGATATATGTGGCAGAGCCA
Found at i:4789430 original size:54 final size:54
Alignment explanation
Indices: 4789371--4789536 Score: 262
Period size: 54 Copynumber: 3.1 Consensus size: 54
4789361 AGCATGGCTG
* * * *
4789371 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
*
4789425 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
*
4789479 CCAGAACAGATATATGTGGTAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
4789533 CCAG
1 CCAG
4789537 GACGCTTCCT
Statistics
Matches: 104, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
54 86 0.83
55 18 0.17
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (54 bp):
CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATAATTGTGGCATAGCCA
Found at i:4789676 original size:26 final size:27
Alignment explanation
Indices: 4789642--4789717 Score: 91
Period size: 26 Copynumber: 2.8 Consensus size: 27
4789632 CAAAATTAAC
*
4789642 CATACGGGTATAACAGTAATTTT-ACA
1 CATAGGGGTATAACAGTAATTTTCACA
* *
4789668 CCTAGGGGTATAACAGTAATTTTCCATA
1 CATAGGGGTATAACAGTAATTTT-CACA
* *
4789696 CATAGGGGTATTATAGTAATTT
1 CATAGGGGTATAACAGTAATTT
4789718 AGCTACTTTT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 21 0.50
28 21 0.50
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.34
Consensus pattern (27 bp):
CATAGGGGTATAACAGTAATTTTCACA
Found at i:4791195 original size:26 final size:26
Alignment explanation
Indices: 4791159--4791268 Score: 186
Period size: 26 Copynumber: 4.2 Consensus size: 26
4791149 CATGAAATTC
4791159 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
4791185 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
*
4791211 TTATCATGAAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
4791237 TTATCATTG-AACATTTACCTAACCTA
1 TTATCA-TGAAACATTTACCTAACCCA
4791263 TTATCA
1 TTATCA
4791269 ATTTGTATCA
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
26 80 0.98
27 2 0.02
ACGTcount: A:0.37, C:0.25, G:0.04, T:0.35
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:4793755 original size:28 final size:29
Alignment explanation
Indices: 4793720--4793794 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
4793710 AAATAAAGGT
* *
4793720 TATAAAAACTA-TTAAATTTTATTAAAAA
1 TATAAAAAATATTTAAATTTTAGTAAAAA
4793748 TATAAAAAATATTTAAATTTTAGTAAAAA
1 TATAAAAAATATTTAAATTTTAGTAAAAA
*
4793777 T-TAGAAAAAAATTATAAA
1 TATA-AAAAATATT-TAAA
4793795 AATCGTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 12 0.29
29 25 0.61
30 4 0.10
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (29 bp):
TATAAAAAATATTTAAATTTTAGTAAAAA
Found at i:4793794 original size:20 final size:20
Alignment explanation
Indices: 4793771--4793812 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
4793761 TAAATTTTAG
4793771 TAAAAATTAG-AAAAAAATTA
1 TAAAAA-TAGTAAAAAAATTA
*
4793791 TAAAAATCGTAAAAAAATTA
1 TAAAAATAGTAAAAAAATTA
4793811 TA
1 TA
4793813 GAATATATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 2 0.10
20 18 0.90
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (20 bp):
TAAAAATAGTAAAAAAATTA
Found at i:4800632 original size:3 final size:3
Alignment explanation
Indices: 4800624--4800664 Score: 66
Period size: 3 Copynumber: 13.7 Consensus size: 3
4800614 ACTTTAAGAG
4800624 TAA TAA TAA TAA TAA TAA TAA TAA TGAA TAA -AA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA
4800665 CTTGACATGT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
2 2 0.06
3 31 0.86
4 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:4800936 original size:23 final size:23
Alignment explanation
Indices: 4800906--4800952 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
4800896 CCTCCTCTTG
4800906 AAATCGTGACTATCTTATGAATA
1 AAATCGTGACTATCTTATGAATA
4800929 AAATCGTGACTATCTTATGAATA
1 AAATCGTGACTATCTTATGAATA
4800952 A
1 A
4800953 TTTCATCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (23 bp):
AAATCGTGACTATCTTATGAATA
Found at i:4802529 original size:32 final size:32
Alignment explanation
Indices: 4802493--4802559 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 32
4802483 TATTAGTAAA
*
4802493 TTTCTCTATTTGGTCACCCAACTAT-TTAATTT
1 TTTCT-TATTTGGCCACCCAACTATCTTAATTT
* * *
4802525 TTTCTTTTTTGGCCACCCATCTATCTTGATTT
1 TTTCTTATTTGGCCACCCAACTATCTTAATTT
4802557 TTT
1 TTT
4802560 TGGTATTTCT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 16 0.53
32 14 0.47
ACGTcount: A:0.16, C:0.22, G:0.07, T:0.54
Consensus pattern (32 bp):
TTTCTTATTTGGCCACCCAACTATCTTAATTT
Found at i:4804141 original size:83 final size:83
Alignment explanation
Indices: 4804044--4804207 Score: 301
Period size: 83 Copynumber: 2.0 Consensus size: 83
4804034 TGACGGTGCG
*
4804044 TTTATTTACGGTTAATGTAAAAATAGCGGTGACGATAAAATTAGATACGATAATAACACTGTAGT
1 TTTATTTACAGTTAATGTAAAAATAGCGGTGACGATAAAATTAGATACGATAATAACACTGTAGT
*
4804109 GTGATAGAAAATGTAAGT
66 GTGATAGAAAAAGTAAGT
*
4804127 TTTATTTACAGTTAATGTAAAAATAGCGGTGACGATGAAATTAGATACGATAATAACACTGTAGT
1 TTTATTTACAGTTAATGTAAAAATAGCGGTGACGATAAAATTAGATACGATAATAACACTGTAGT
4804192 GTGATAGAAAAAGTAA
66 GTGATAGAAAAAGTAA
4804208 ATTAAATATA
Statistics
Matches: 78, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.30
Consensus pattern (83 bp):
TTTATTTACAGTTAATGTAAAAATAGCGGTGACGATAAAATTAGATACGATAATAACACTGTAGT
GTGATAGAAAAAGTAAGT
Found at i:4825223 original size:74 final size:74
Alignment explanation
Indices: 4825102--4825250 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
4825092 TCGTACGAGG
4825102 CTTTCGGACTTCGTAATTAAATCAATTCAAACTCGAACAGGTCCTCCAATGCTCAATTCAATTCA
1 CTTTCGGACTTCGTAATTAAATCAATTCAAACTCGAACAGGTCCTCCAATGCTCAATTCAATTCA
4825167 GCACACACA
66 GCACACACA
4825176 CTTTCGGACTTCGTAATTAAATCAATTCAAACTCGAACAGGTCCTCCAATGCTCAATTCAATTCA
1 CTTTCGGACTTCGTAATTAAATCAATTCAAACTCGAACAGGTCCTCCAATGCTCAATTCAATTCA
4825241 GCACACACA
66 GCACACACA
4825250 C
1 C
4825251 ACACACATAT
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.27
Consensus pattern (74 bp):
CTTTCGGACTTCGTAATTAAATCAATTCAAACTCGAACAGGTCCTCCAATGCTCAATTCAATTCA
GCACACACA
Found at i:4831157 original size:15 final size:15
Alignment explanation
Indices: 4831115--4831162 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
4831105 TTATAAATGT
4831115 TTATTTGTTTTATT-
1 TTATTTGTTTTATTG
* *
4831129 ATATTT-TTAT-TTG
1 TTATTTGTTTTATTG
4831142 TTATTTGTTTTATTG
1 TTATTTGTTTTATTG
4831157 TTATTT
1 TTATTT
4831163 TCTTTCATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
12 2 0.07
13 8 0.30
14 8 0.30
15 9 0.33
ACGTcount: A:0.17, C:0.00, G:0.08, T:0.75
Consensus pattern (15 bp):
TTATTTGTTTTATTG
Found at i:4831163 original size:27 final size:28
Alignment explanation
Indices: 4831115--4831182 Score: 79
Period size: 27 Copynumber: 2.5 Consensus size: 28
4831105 TTATAAATGT
*
4831115 TTATTTGTTTTATTATATTTTTATTT-G
1 TTATTTGTTTTATTATATTTTTATTTCA
* *
4831142 TTATTTGTTTTATTGT-TATTTTCTTTCA
1 TTATTTGTTTTATTATAT-TTTTATTTCA
4831170 TT-TTTGTTTTATT
1 TTATTTGTTTTATT
4831183 TTTGTTCTCT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 1 0.03
27 33 0.92
28 2 0.06
ACGTcount: A:0.15, C:0.03, G:0.07, T:0.75
Consensus pattern (28 bp):
TTATTTGTTTTATTATATTTTTATTTCA
Found at i:4831213 original size:18 final size:19
Alignment explanation
Indices: 4831190--4831229 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
4831180 ATTTTTGTTC
4831190 TCTTTTTACACTTT-TTTT
1 TCTTTTTACACTTTCTTTT
**
4831208 TCTTTTTATTCTTTCTTTT
1 TCTTTTTACACTTTCTTTT
4831227 TCT
1 TCT
4831230 CTCTGTTCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.75
Consensus pattern (19 bp):
TCTTTTTACACTTTCTTTT
Found at i:4832660 original size:92 final size:92
Alignment explanation
Indices: 4832426--4832660 Score: 249
Period size: 92 Copynumber: 2.6 Consensus size: 92
4832416 TGATTGTACT
* * * * * * * *
4832426 GCGAATTACCACACTGCACTGTACAGTACATACGTCAGC-ATCACTGCGTATCATTGACTAAACT
1 GCGATTTACCGCATTGCACTGTACCGCATATACGTTAGCTA-CACTGCGTACCATTGACTAAACT
4832490 GGCAGTTTTACTACAACCTAACGGTATA
65 GGCAGTTTTACTACAACCTAACGGTATA
* * * ** * *
4832518 GCGATTTACCGCATTGCGCTATACCGCATGTACGTTAGCTATGCTACGTACCATTGACTGAACTG
1 GCGATTTACCGCATTGCACTGTACCGCATATACGTTAGCTACACTGCGTACCATTGACTAAACTG
* * * **
4832583 GTAGTTTTACTGCAATCTATTGGTATA
66 GCAGTTTTACTACAACCTAACGGTATA
*
4832610 GCGAATTT-TCGCATTGCACTGTACCGCATATACGTTAGCTACACTGCGTAC
1 GCG-ATTTACCGCATTGCACTGTACCGCATATACGTTAGCTACACTGCGTAC
4832661 TACTATCTGA
Statistics
Matches: 114, Mismatches: 27, Indels: 4
0.79 0.19 0.03
Matches are distributed among these distances:
92 109 0.96
93 5 0.04
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.30
Consensus pattern (92 bp):
GCGATTTACCGCATTGCACTGTACCGCATATACGTTAGCTACACTGCGTACCATTGACTAAACTG
GCAGTTTTACTACAACCTAACGGTATA
Found at i:4833073 original size:25 final size:25
Alignment explanation
Indices: 4833039--4833124 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
4833029 TATGCATCAT
4833039 ATTGACTGTTCGACTAAAATGTCTA
1 ATTGACTGTTCGACTAAAATGTCTA
* * * *
4833064 ATTGACTGTTTGATTGAAGTGTCTA
1 ATTGACTGTTCGACTAAAATGTCTA
* * *
4833089 ATTGACTGTTCAACTACAATGTCTG
1 ATTGACTGTTCGACTAAAATGTCTA
4833114 ATTGACTGTTC
1 ATTGACTGTTC
4833125 TACTGAAAGG
Statistics
Matches: 50, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.27, C:0.15, G:0.19, T:0.40
Consensus pattern (25 bp):
ATTGACTGTTCGACTAAAATGTCTA
Found at i:4846411 original size:15 final size:15
Alignment explanation
Indices: 4846391--4846442 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
4846381 AACAGTTAAT
4846391 AATAAAATGATATAA
1 AATAAAATGATATAA
*
4846406 AATAAAATAATA-AA
1 AATAAAATGATATAA
4846420 TAATAAAAATGATATAA
1 -AAT-AAAATGATATAA
*
4846437 TATAAA
1 AATAAA
4846443 TAATGATTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 2 0.06
15 17 0.55
16 10 0.32
17 2 0.06
ACGTcount: A:0.69, C:0.00, G:0.04, T:0.27
Consensus pattern (15 bp):
AATAAAATGATATAA
Found at i:4846424 original size:30 final size:30
Alignment explanation
Indices: 4846388--4846446 Score: 93
Period size: 31 Copynumber: 2.0 Consensus size: 30
4846378 ATAAACAGTT
4846388 AATAAT-AAAATGATATAAAATAAAATAATA
1 AATAATAAAAATGATATAAAAT-AAATAATA
*
4846418 AATAATAAAAATGATATAATATAAATAAT
1 AATAATAAAAATGATATAAAATAAATAAT
4846447 GATTTACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 13 0.48
31 14 0.52
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (30 bp):
AATAATAAAAATGATATAAAATAAATAATA
Found at i:4848379 original size:17 final size:16
Alignment explanation
Indices: 4848357--4848399 Score: 59
Period size: 17 Copynumber: 2.6 Consensus size: 16
4848347 ATTTTTCTTT
*
4848357 TAATAAAACAGAAGAAA
1 TAATAAAA-AAAAGAAA
4848374 TAATAATAAAAAAGAAA
1 TAATAA-AAAAAAGAAA
4848391 TAATAAAAA
1 TAATAAAAA
4848400 TAACCATATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 3 0.12
17 19 0.79
18 2 0.08
ACGTcount: A:0.74, C:0.02, G:0.07, T:0.16
Consensus pattern (16 bp):
TAATAAAAAAAAGAAA
Found at i:4848401 original size:20 final size:20
Alignment explanation
Indices: 4848358--4848402 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
4848348 TTTTTCTTTT
* *
4848358 AATAAAACAGAAGAAATAAT
1 AATAAAAAAGAAGAAATAAA
4848378 AATAAAAAAGAA-ATAATAAA
1 AATAAAAAAGAAGA-AATAAA
4848398 AATAA
1 AATAA
4848403 CCATATCACC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.16
Consensus pattern (20 bp):
AATAAAAAAGAAGAAATAAA
Found at i:4851702 original size:17 final size:18
Alignment explanation
Indices: 4851664--4851705 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
4851654 ATAAGTGACG
*
4851664 TTTTGAAAATTAATAACT
1 TTTTGAAAATAAATAACT
*
4851682 TTTTGAAAGTAAATAACT
1 TTTTGAAAATAAATAACT
4851700 TTTTGA
1 TTTTGA
4851706 TAATGATTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.10, T:0.45
Consensus pattern (18 bp):
TTTTGAAAATAAATAACT
Found at i:4853616 original size:78 final size:79
Alignment explanation
Indices: 4853389--4853710 Score: 269
Period size: 78 Copynumber: 4.0 Consensus size: 79
4853379 TAGTTTCTTT
* * * *
4853389 CTCATTTTTGGCAATAAAATCAAAA--TGCAAT-AAATCCATTGAACGGCGGGAATCAATCCCGG
1 CTCATTTTTGGAAATAAAA-CAAAATTTGGAATAAAAT-CATTAAACGGCGGGAATCAATCCCGA
* *
4853451 CACGGATTCTATTTTA
64 AACGGATTTTATTTTA
* * * ** *
4853467 CTCATTTTTGGAAATAAAACAAAATTTTGAATAAAATCATTGAATGGCAAGAATCAATCTCGAAA
1 CTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATCATTAAACGGCGGGAATCAATCCCGAAA
4853532 CGGATTTTATTTTA
66 CGGATTTTATTTTA
* **
4853546 CTCATTTTTGGAAAT-AAATAAAATTTGGAATAAAATTGTTAAACGGCGGGAATCAATCCCGAAA
1 CTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATCATTAAACGGCGGGAATCAATCCCGAAA
**
4853610 AAGATTTTA-TTTA
66 CGGATTTTATTTTA
* * *
4853623 CCTTTAATTTCCCATTTGGAAATAAAATC-AAATTAATGGAATAAAATCCATTGAACGACGGGAA
1 -C--TCA-TT----TTTGGAAATAAAA-CAAAATT--TGGAATAAAAT-CATTAAACGGCGGGAA
* * *
4853687 TAAATTCTGAAACGGATTTTATTT
54 TCAATCCCGAAACGGATTTTATTT
4853711 ACTTTTAATT
Statistics
Matches: 195, Mismatches: 32, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
77 9 0.05
78 66 0.34
79 54 0.28
80 6 0.03
81 2 0.01
85 9 0.05
86 8 0.04
88 11 0.06
89 28 0.14
90 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (79 bp):
CTCATTTTTGGAAATAAAACAAAATTTGGAATAAAATCATTAAACGGCGGGAATCAATCCCGAAA
CGGATTTTATTTTA
Found at i:4853705 original size:89 final size:85
Alignment explanation
Indices: 4853552--4853721 Score: 205
Period size: 89 Copynumber: 2.0 Consensus size: 85
4853542 TTTACTCATT
** * *
4853552 TTTGGAAATAAATAAAATTTGGAATAAAATTGTTAAACGGCGGGAATCAATCCCGAAAAAGATTT
1 TTTGGAAATAAATAAAATTTGGAATAAAATCATTAAACGACGGGAATAAATCCCGAAAAAGATTT
4853617 TATTTACCTTTAATTTCCCA
66 TATTTACCTTTAATTTCCCA
* * * * **
4853637 TTTGGAAATAAAATCAAATTAATGGAATAAAATCCATTGAACGACGGGAATAAATTCTGAAACGG
1 TTTGGAAAT-AAATAAAATT--TGGAATAAAAT-CATTAAACGACGGGAATAAATCCCGAAAAAG
*
4853702 ATTTTATTTACTTTTAATTT
62 ATTTTATTTACCTTTAATTT
4853722 GGAAACAAAA
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
85 9 0.13
86 9 0.13
88 11 0.16
89 41 0.59
ACGTcount: A:0.41, C:0.11, G:0.14, T:0.34
Consensus pattern (85 bp):
TTTGGAAATAAATAAAATTTGGAATAAAATCATTAAACGACGGGAATAAATCCCGAAAAAGATTT
TATTTACCTTTAATTTCCCA
Found at i:4854778 original size:260 final size:260
Alignment explanation
Indices: 4854317--4854838 Score: 956
Period size: 260 Copynumber: 2.0 Consensus size: 260
4854307 CCTTTTTCTA
4854317 TCATAGGAATGTTTGAAAATACGAAGAGGAAAAGGGAGACTTTTGAAAGTAGAAGAGTTTCGGTA
1 TCATAGGAATGTTTGAAAATACGAAGAGGAAAAGGGAGACTTTTGAAAGTAGAAGAGTTTCGGTA
4854382 AGAGGAAAAAATTCAAAGATTATTTAGTGTGTAAAAACCCTTTAGAAATCATGGCCTTTTAGAGG
66 AGAGGAAAAAATTCAAAGATTATTTAGTGTGTAAAAACCCTTTAGAAATCATGGCCTTTTAGAGG
4854447 CATGGAGATTGTTGGAATTTTGGAAAAATTATCCACAAAATCTACCATTAAATCAATTTGATTAA
131 CATGGAGATTGTTGGAATTTTGGAAAAATTATCCACAAAATCTACCATTAAATCAATTTGATTAA
4854512 AAAAATTAATCAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATG
196 AAAAATTAATCAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATG
*
4854577 TCATAGGAATGTTTGAAAATACGAAGAGGAAAAGGGAGACTTTTGAAAGTAGCAGAGTTTCGGTA
1 TCATAGGAATGTTTGAAAATACGAAGAGGAAAAGGGAGACTTTTGAAAGTAGAAGAGTTTCGGTA
* * *
4854642 AGAGGAAAAAA-TCAAAGATTATTTTGTGTGTAAAAACCCTTTAGAAATTATGGCCTTTTATAGG
66 AGAGGAAAAAATTCAAAGATTATTTAGTGTGTAAAAACCCTTTAGAAATCATGGCCTTTTAGAGG
* * *
4854706 CATGGAGATTGTTGGAATTTTGGAAAACTTATCTACAAAATCTGCCATTAAATCAATTTGATTAA
131 CATGGAGATTGTTGGAATTTTGGAAAAATTATCCACAAAATCTACCATTAAATCAATTTGATT-A
*
4854771 AAAAAATTAATTAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTAT
195 AAAAAATTAATCAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTAT
4854836 G
260 G
4854837 TC
1 TC
4854839 TGCAGAGGAA
Statistics
Matches: 253, Mismatches: 8, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
259 110 0.43
260 143 0.57
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.31
Consensus pattern (260 bp):
TCATAGGAATGTTTGAAAATACGAAGAGGAAAAGGGAGACTTTTGAAAGTAGAAGAGTTTCGGTA
AGAGGAAAAAATTCAAAGATTATTTAGTGTGTAAAAACCCTTTAGAAATCATGGCCTTTTAGAGG
CATGGAGATTGTTGGAATTTTGGAAAAATTATCCACAAAATCTACCATTAAATCAATTTGATTAA
AAAAATTAATCAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATG
Found at i:4854889 original size:69 final size:69
Alignment explanation
Indices: 4854782--4854925 Score: 288
Period size: 69 Copynumber: 2.1 Consensus size: 69
4854772 AAAAATTAAT
4854782 TAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATGTCTGCAGAGG
1 TAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATGTCTGCAGAGG
4854847 AAAA
66 AAAA
4854851 TAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATGTCTGCAGAGG
1 TAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATGTCTGCAGAGG
4854916 AAAA
66 AAAA
4854920 TAAATT
1 TAAATT
4854926 CGTTTTGGGC
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 75 1.00
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (69 bp):
TAAATTTATTAGAATCAAATCAATAAGATAAGTATCCTTATATAAGCAGATTATGTCTGCAGAGG
AAAA
Found at i:4855653 original size:22 final size:22
Alignment explanation
Indices: 4855625--4855671 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
4855615 AGAAATGTTC
4855625 TTAGTAATTTATTTTGACAAGG
1 TTAGTAATTTATTTTGACAAGG
4855647 TTAGTAATTTATTTTGACAAGG
1 TTAGTAATTTATTTTGACAAGG
4855669 TTA
1 TTA
4855672 AATAAATGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.47
Consensus pattern (22 bp):
TTAGTAATTTATTTTGACAAGG
Found at i:4857213 original size:10 final size:9
Alignment explanation
Indices: 4857196--4857220 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4857186 CATTTAGACT
4857196 TTTTAAAAA
1 TTTTAAAAA
4857205 TTTTAAAAA
1 TTTTAAAAA
4857214 TTTTAAA
1 TTTTAAA
4857221 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:4857662 original size:17 final size:17
Alignment explanation
Indices: 4857618--4857663 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 17
4857608 GTATTATTAT
4857618 TATTATTTA-AAAT-T-
1 TATTATTTATAAATGTA
4857632 TATTATTTAT---TGTA
1 TATTATTTATAAATGTA
4857646 TATTATTTATAAATGTA
1 TATTATTTATAAATGTA
4857663 T
1 T
4857664 GATTTTCGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
12 1 0.04
13 1 0.04
14 19 0.73
17 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (17 bp):
TATTATTTATAAATGTA
Found at i:4858197 original size:3 final size:3
Alignment explanation
Indices: 4858189--4858216 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4858179 TCATATTGCT
4858189 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
4858217 CTCTATCAAT
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):
ATA
Found at i:4862026 original size:13 final size:14
Alignment explanation
Indices: 4862002--4862030 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
4861992 ACATGGGCAT
4862002 GTAGGCCCACATGG
1 GTAGGCCCACATGG
4862016 GTAGG-CCACATGG
1 GTAGGCCCACATGG
4862029 GT
1 GT
4862031 GTGTGAGCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.21, C:0.24, G:0.38, T:0.17
Consensus pattern (14 bp):
GTAGGCCCACATGG
Found at i:4862308 original size:27 final size:32
Alignment explanation
Indices: 4862236--4862308 Score: 128
Period size: 32 Copynumber: 2.3 Consensus size: 32
4862226 GCCATATTTG
*
4862236 TATGATACATTGCATCGGAGTGGGGTTGGTGT
1 TATGATGCATTGCATCGGAGTGGGGTTGGTGT
*
4862268 TATGATGCATTGCATCGGGGTGGGGTTGGTGT
1 TATGATGCATTGCATCGGAGTGGGGTTGGTGT
4862300 TATGATGCA
1 TATGATGCA
4862309 GGACGTATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 39 1.00
ACGTcount: A:0.18, C:0.10, G:0.38, T:0.34
Consensus pattern (32 bp):
TATGATGCATTGCATCGGAGTGGGGTTGGTGT
Found at i:4864913 original size:72 final size:72
Alignment explanation
Indices: 4864827--4864969 Score: 205
Period size: 72 Copynumber: 2.0 Consensus size: 72
4864817 GGGCTTGCAT
* ** *
4864827 TTTGCTGCTCGCAACTATACACCTTTGACAGGCTCACTTTTTTGCTTACTGTCTTCAACAGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCACACTTTGGCTTACTGTCTTCAACAGGTGT
4864892 CTTCAAC
66 CTTCAAC
* * ***
4864899 TTTGCTGCTTGCAACCATACACCTTTGACAGGCTCGCACTTTGGCTTACTGTCTTCAGTTGGTGT
1 TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCACACTTTGGCTTACTGTCTTCAACAGGTGT
4864964 CTTCAA
66 CTTCAA
4864970 TAGGCTCGCA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
72 62 1.00
ACGTcount: A:0.18, C:0.27, G:0.17, T:0.37
Consensus pattern (72 bp):
TTTGCTGCTCGCAACCATACACCTTTGACAGGCTCACACTTTGGCTTACTGTCTTCAACAGGTGT
CTTCAAC
Found at i:4868268 original size:144 final size:142
Alignment explanation
Indices: 4868086--4868538 Score: 526
Period size: 144 Copynumber: 3.2 Consensus size: 142
4868076 ATCTATTAAC
* * *
4868086 TGGTTCAATTCCTTCTTGTCTTGGTAAGTTGTCTAAATTGCATACCTTAAGACTTGATTCAAATC
1 TGGTTCAATCCCTTCTTGTATTGGTAA-TTGTCCAAATTGCATACCTTAA-ACTTGATTCAAATC
** * *
4868151 TATTAGAAGGTCCTATTCCTGAAGAAATTTGTGACTTAGCAAATTTAACTTCATT-AAGCCTCTA
64 TATTAGAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAACTTCATTGAA-CCTCTA
4868215 CCAAAACAAATTGAA
128 CCAAAACAAATTGAA
* * *
4868230 TGGTTCAATCCCTTCTTGTCTTGGTACATTGTCCAAATTGGATACCTTACAACTTCATTCAAATC
1 TGGTTCAATCCCTTCTTGTATTGGTA-ATTGTCCAAATTGCATACCTTA-AACTTGATTCAAATC
* * *
4868295 TATTAGAAGGTCCTATTCCCCAA-AAATTTTGTAATTTCGCAAATTTAACTTCATTGTACCTCTT
64 TATTAGAAGGTCCTATTCCCCAAGAAA-TTTGTAATTTAGCAAATTTAACTTCATTGAACCTCTA
*
4868359 CCAAAACAAATTGAG
128 CCAAAACAAATTGAA
* * * * * *
4868374 TGGTTCAATCCCTTCTTGTATTGGTAGTT-TATCAAAGATGCAGTA-C-T--CCTTGGTTCTAAT
1 TGGTTCAATCCCTTCTTGTATTGGTAATTGT-CCAAA-TTGCA-TACCTTAAACTTGATTCAAAT
* * * *
4868434 CTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGAAAATTTAACCGT-ATTGAATCTCT
63 CTATTAGAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAA-CTTCATTGAACCTCT
*
4868498 CCCAAAACAAATTGAA
127 ACCAAAACAAATTGAA
*
4868514 TGGTTTAATCCCTTCTTGTATTGGT
1 TGGTTCAATCCCTTCTTGTATTGGT
4868539 CGTTTATCAA
Statistics
Matches: 270, Mismatches: 30, Indels: 22
0.84 0.09 0.07
Matches are distributed among these distances:
140 98 0.36
141 5 0.02
142 1 0.00
143 10 0.04
144 151 0.56
145 5 0.02
ACGTcount: A:0.30, C:0.19, G:0.13, T:0.37
Consensus pattern (142 bp):
TGGTTCAATCCCTTCTTGTATTGGTAATTGTCCAAATTGCATACCTTAAACTTGATTCAAATCTA
TTAGAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAACTTCATTGAACCTCTACCA
AAACAAATTGAA
Found at i:4868503 original size:140 final size:140
Alignment explanation
Indices: 4868138--4868607 Score: 507
Period size: 144 Copynumber: 3.3 Consensus size: 140
4868128 TACCTTAAGA
* ** * *
4868138 CTTGATTCAAATCTATTAGAAGGTCCTATTCCTGAAGAAATTTGTGACTTAGCAAATTTAACTTC
1 CTTGATTCAAATCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAACTTC
* ** *
4868203 ATT-AAGCCTCTACCAAAACAAATTGAATGGTTCAATCCCTTCTTGTCTTGGTACATTGTCCAAA
66 ATTGAA-CCTCTACCAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTAT-CAAA
* ** **
4868267 TTGGATACCTTACAA
129 ---GATGCAGTACTC
* * *
4868282 CTTCATTCAAATCTATTAGAAGGTCCTATTCCCCAA-AAATTTTGTAATTTCGCAAATTTAACTT
1 CTTGATTCAAATCTATTAAAAGGTCCTATTCCCCAAGAAA-TTTGTAATTTAGCAAATTTAACTT
* * *
4868346 CATTGTACCTCTTCCAAAACAAATTGAGTGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAG
65 CATTGAACCTCTACCAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAG
4868411 ATGCAGTACTC
130 ATGCAGTACTC
* * * *
4868422 CTTGGTTCTAATCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGAAAATTTAACCGT
1 CTTGATTCAAATCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAA-CTT
* * * *
4868487 -ATTGAATCTCTCCCAAAACAAATTGAATGGTTTAATCCCTTCTTGTATTGGTCGTTTATCAAAG
65 CATTGAACCTCTACCAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAG
**
4868551 ATGTGGTACTTAAGC
130 ATGCAGTAC-T---C
* * *
4868566 CTTGGTTCTAATCTATTAAAAGGTCCTA-TCCCAAAAGAAATT
1 CTTGATTCAAATCTATTAAAAGGTCCTATTCCC-CAAGAAATT
4868608 GGCAAGCTTT
Statistics
Matches: 283, Mismatches: 34, Indels: 18
0.84 0.10 0.05
Matches are distributed among these distances:
140 123 0.43
141 6 0.02
143 11 0.04
144 142 0.50
145 1 0.00
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.36
Consensus pattern (140 bp):
CTTGATTCAAATCTATTAAAAGGTCCTATTCCCCAAGAAATTTGTAATTTAGCAAATTTAACTTC
ATTGAACCTCTACCAAAACAAATTGAATGGTTCAATCCCTTCTTGTATTGGTAGTTTATCAAAGA
TGCAGTACTC
Found at i:4870618 original size:14 final size:14
Alignment explanation
Indices: 4870582--4870620 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
4870572 TTGTTTCACT
*
4870582 GAAAATGACTTCTA
1 GAAAATGATTTCTA
*
4870596 GAAAATGATTTTTA
1 GAAAATGATTTCTA
4870610 GAAAATGATTT
1 GAAAATGATTT
4870621 ACTTTTCTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (14 bp):
GAAAATGATTTCTA
Found at i:4879646 original size:66 final size:69
Alignment explanation
Indices: 4879539--4879685 Score: 194
Period size: 66 Copynumber: 2.2 Consensus size: 69
4879529 CAGGGTTTAG
* * *
4879539 TAGCACCACGAGATTGTAAATTATATTTCTTAAAGTAGCACCACTTCTG-TTT-TTTTCTTTTTA
1 TAGCACCACTAGATTGTAAATTATATTTCATAAAGTAGCACCACTACTGTTTTCTTTTCTTTTTA
4879602 AAAT
66 AAAT
*
4879606 TAGCACCACTAGA-TGTAAATTAT-TCTTGATAAAGTAGCACCACTACTGTTTTTCTTTTCTTTT
1 TAGCACCACTAGATTGTAAATTATAT-TTCATAAAGTAGCACCACTACTG-TTTTCTTTTCTTTT
4879669 TAAAAT
64 TAAAAT
* *
4879675 TACCATCACTA
1 TAGCACCACTA
4879686 CACGTGAAAA
Statistics
Matches: 70, Mismatches: 6, Indels: 6
0.85 0.07 0.07
Matches are distributed among these distances:
65 1 0.01
66 30 0.43
67 12 0.17
68 3 0.04
69 24 0.34
ACGTcount: A:0.31, C:0.18, G:0.10, T:0.41
Consensus pattern (69 bp):
TAGCACCACTAGATTGTAAATTATATTTCATAAAGTAGCACCACTACTGTTTTCTTTTCTTTTTA
AAAT
Found at i:4879666 original size:34 final size:33
Alignment explanation
Indices: 4879569--4879666 Score: 83
Period size: 34 Copynumber: 2.9 Consensus size: 33
4879559 TTATATTTCT
* *
4879569 TAAAGTAGCACCACTTCTGTTTTTTTCTT-TTTA
1 TAAAGTAGCACCACTACTGTTTTTTT-TTCTTGA
* * *** *
4879602 -AAATTAGCACCACTAGATGTAAATTATTCTTGA
1 TAAAGTAGCACCACTA-CTGTTTTTTTTTCTTGA
4879635 TAAAGTAGCACCACTACTGTTTTTCTTTTCTT
1 TAAAGTAGCACCACTACTGTTTTT-TTTTCTT
4879667 TTTAAAATTA
Statistics
Matches: 47, Mismatches: 14, Indels: 7
0.69 0.21 0.10
Matches are distributed among these distances:
32 15 0.32
33 12 0.26
34 20 0.43
ACGTcount: A:0.28, C:0.18, G:0.10, T:0.44
Consensus pattern (33 bp):
TAAAGTAGCACCACTACTGTTTTTTTTTCTTGA
Found at i:4882214 original size:21 final size:20
Alignment explanation
Indices: 4882183--4882227 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 20
4882173 AATTACTCAG
4882183 CCCAATACATCAAACCCCAAGA
1 CCCAATACATCAAA-CCCAA-A
*
4882205 CCCAA-ACATCTAACCCAAA
1 CCCAATACATCAAACCCAAA
4882224 CCCA
1 CCCA
4882228 GTTGGCCCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 5 0.23
20 5 0.23
21 7 0.32
22 5 0.23
ACGTcount: A:0.44, C:0.44, G:0.02, T:0.09
Consensus pattern (20 bp):
CCCAATACATCAAACCCAAA
Found at i:4883706 original size:25 final size:27
Alignment explanation
Indices: 4883669--4883721 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
4883659 TCAAACATGC
4883669 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
4883695 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
4883721 A
1 A
4883722 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:4885238 original size:26 final size:26
Alignment explanation
Indices: 4885207--4885314 Score: 173
Period size: 26 Copynumber: 4.2 Consensus size: 26
4885197 TGAAATGCCC
4885207 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAAACCATT
*
4885233 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAAACCATT
* *
4885259 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAAACCATT
4885285 ATCATGGAACATTTACCT-AACTCATT
1 ATCATGGAACATTTACCTAAAC-CATT
4885311 ATCA
1 ATCA
4885315 ATTTGTATCA
Statistics
Matches: 76, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
25 2 0.03
26 74 0.97
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAAACCATT
Found at i:4886512 original size:17 final size:17
Alignment explanation
Indices: 4886490--4886524 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4886480 TATTCTACTT
*
4886490 TAATTTTATTATTGTTA
1 TAATTTTATTATTATTA
4886507 TAATTTTATTATTATTA
1 TAATTTTATTATTATTA
4886524 T
1 T
4886525 TATCATCATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TAATTTTATTATTATTA
Found at i:4886518 original size:3 final size:3
Alignment explanation
Indices: 4886495--4886545 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
4886485 TACTTTAATT
* * * *
4886495 TTA TTA TTG TTA TAA TT- TTA TTA TTA TTA TTA TCA TCA TTA TTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
4886543 TTA
1 TTA
4886546 GTGTATAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:4886842 original size:15 final size:15
Alignment explanation
Indices: 4886823--4886867 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
4886813 ATTATCTCTA
4886823 ATATATGTATATATT
1 ATATATGTATATATT
* *
4886838 GTATATGTTTATATT
1 ATATATGTATATATT
4886853 ATATA--TATATATT
1 ATATATGTATATATT
4886866 AT
1 AT
4886868 TTCTTTACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
13 9 0.35
15 17 0.65
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:4886863 original size:13 final size:13
Alignment explanation
Indices: 4886824--4886867 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
4886814 TTATCTCTAA
4886824 TATATGTATATATT
1 TATATGTATATA-T
*
4886838 GTATATGTTTATAT
1 -TATATGTATATAT
*
4886852 TATATATATATAT
1 TATATGTATATAT
4886865 TAT
1 TAT
4886868 TTCTTTACTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
13 14 0.54
14 1 0.04
15 11 0.42
ACGTcount: A:0.36, C:0.00, G:0.07, T:0.57
Consensus pattern (13 bp):
TATATGTATATAT
Found at i:4887166 original size:20 final size:21
Alignment explanation
Indices: 4887121--4887166 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
4887111 TTACCAATGT
*
4887121 TAGTACATATATTTTATTATA
1 TAGTATATATATTTTATTATA
*
4887142 -CGTATATATATTTT-TTATA
1 TAGTATATATATTTTATTATA
4887161 TAGTAT
1 TAGTAT
4887167 TATTTTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (21 bp):
TAGTATATATATTTTATTATA
Found at i:4898510 original size:39 final size:40
Alignment explanation
Indices: 4898467--4898542 Score: 111
Period size: 39 Copynumber: 1.9 Consensus size: 40
4898457 ATATTATGCT
4898467 TAAAAAAATA-AAATCAAGATGAAAACCCG-AAAGGGCATC
1 TAAAAAAA-AGAAATCAAGATGAAAACCCGAAAAGGGCATC
* *
4898506 TAAAAAAAAGAGATCAAGGTGAAAACCCGAAAAGGGC
1 TAAAAAAAAGAAATCAAGATGAAAACCCGAAAAGGGC
4898543 GTCTTGATTA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
38 1 0.03
39 25 0.76
40 7 0.21
ACGTcount: A:0.55, C:0.14, G:0.20, T:0.11
Consensus pattern (40 bp):
TAAAAAAAAGAAATCAAGATGAAAACCCGAAAAGGGCATC
Found at i:4899443 original size:14 final size:15
Alignment explanation
Indices: 4899424--4899456 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
4899414 CGCTGAGGTA
*
4899424 TTTTC-AATTTCTGT
1 TTTTCAAATGTCTGT
4899438 TTTTCAAATGTCTGT
1 TTTTCAAATGTCTGT
4899453 TTTT
1 TTTT
4899457 AATCAAATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.15, C:0.12, G:0.09, T:0.64
Consensus pattern (15 bp):
TTTTCAAATGTCTGT
Found at i:4899542 original size:86 final size:85
Alignment explanation
Indices: 4899372--4899875 Score: 442
Period size: 86 Copynumber: 5.8 Consensus size: 85
4899362 CTGTTTTCAG
4899372 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGT-AC--GCTGAGGTATTTTCAATTT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGTCACATGCTGAGGTATTTTCAATTT
* * * *
4899434 CTGTTTTTCAAATGTCTGTTTT-
64 CTATTTTTC-AATTTATATTTTA
* * * *
4899456 TAATCAAATCATATTGCGATAGGTGAGTTGAGCCTCGGCTCACATGCTGAGGTATTTTCAGTTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCACATGCTGAGGTATTTTCAATTTC
*
4899521 TATTTTTCAAATTTTTATTTTTCA
65 TATTTTTC-AATTTATA-TTTT-A
* *
4899545 AAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTCAGGACAC-T-CTGAGGTATTTTCAATTTC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTCACATGCTGAGGTATTTTCAATTTC
* *
4899608 T-GTTTTCAATTTATGTTTTCCA
65 TATTTTTCAATTTATATTTT--A
*
4899630 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-G---CATGCTGAGGAATTTTCAATTTCT
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCTGAGGTATTTTCAATTTCT
*
4899691 ATTTTTTTCAATTTGTACTTTTCAA
66 A--TTTTTCAATTTATA-TTTT--A
* * * **
4899716 AAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGTCACATGCCGAGGTATTTTCAAAATC
1 AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG-GTCACATGCTGAGGTATTTTCAATTTC
* * * *
4899781 TACTTTCCAAATTA-AGTTTCAAA
65 TATTTTTCAATTTATA-TTT--TA
* * * * *
4899804 AAGACCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCAGC-T-CTGAGCTATTATCAATT
1 AA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG-TCA-CATGCTGAGGTATTTTCAATT
*
4899867 TCTGTTTTT
63 TCTATTTTT
4899876 TAGTTTATGT
Statistics
Matches: 347, Mismatches: 48, Indels: 46
0.79 0.11 0.10
Matches are distributed among these distances:
80 1 0.00
81 1 0.00
82 21 0.06
83 2 0.01
84 39 0.11
85 54 0.16
86 77 0.22
87 23 0.07
88 28 0.08
89 77 0.22
90 3 0.01
91 21 0.06
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (85 bp):
AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGTCACATGCTGAGGTATTTTCAATTTCT
ATTTTTCAATTTATATTTTA
Found at i:4899615 original size:13 final size:13
Alignment explanation
Indices: 4899597--4899627 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
4899587 CTCTGAGGTA
*
4899597 TTTTCAATTTCTG
1 TTTTCAATTTATG
4899610 TTTTCAATTTATG
1 TTTTCAATTTATG
4899623 TTTTC
1 TTTTC
4899628 CAAAATCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.16, C:0.13, G:0.06, T:0.65
Consensus pattern (13 bp):
TTTTCAATTTATG
Found at i:4899712 original size:16 final size:16
Alignment explanation
Indices: 4899679--4899712 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
4899669 TGCTGAGGAA
*
4899679 TTTTCAATTTCTATTT
1 TTTTCAATTTCTACTT
*
4899695 TTTTCAATTTGTACTT
1 TTTTCAATTTCTACTT
4899711 TT
1 TT
4899713 CAAAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.03, T:0.68
Consensus pattern (16 bp):
TTTTCAATTTCTACTT
Found at i:4899771 original size:173 final size:172
Alignment explanation
Indices: 4899365--4899836 Score: 525
Period size: 173 Copynumber: 2.7 Consensus size: 172
4899355 TTAATTTCTG
* *
4899365 TTTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTAC--GCTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GAGTACATGCTGAGGTATTTT
* * * * *
4899428 CAATTTCTGTTTTTCAAATGTCTGTTTT--TAATCAAATCATATTGCGATAGGTGAGTTGAGCCT
65 CAATTTCTG-TTTTC-AATTTATGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* * * *
4899491 CGGCTCACATGCTGAGGTATTTTCAGTTTCTATTTTTCAAATTTTTAT
128 CGG--C-CATGCTGAGGAATTTTCAATTTCTATTTTTCAAATTTGTAC
* *
4899539 TTTTC-AAAATCAACTCATATTGCAAGAGGTGAGTTGAGCCTC-AGGACACT-CTGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTACA-TGCTGAGGTATTTT
4899601 CAATTTCTGTTTTCAATTTATGTTTTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
65 CAATTTCTGTTTTCAATTTATGTTTT-CAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC
4899666 -G-CATGCTGAGGAATTTTCAATTTCTATTTTTTTC-AATTTGTAC
129 GGCCATGCTGAGGAATTTTCAATTTCTA--TTTTTCAAATTTGTAC
* * *
4899709 TTTTCAAAAATTAACTCATATTGCGAGAGATGAGTTGAGCCTCGAGTCACATGCCGAGGTATTTT
1 TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGT-ACATGCTGAGGTATTTT
** * * * * *
4899774 CAAAATCTACTTTCCAAATTAAG-TTTCAAAAAGACCAACTCATATTGCGAGAGGTGAGTTGAG
65 CAATTTCT-GTTTTCAATTTATGTTTTC--AAA-ATCAACTCATATTGCGAGAGGTGAGTTGAG
4899837 TCTTGGCTCA
Statistics
Matches: 257, Mismatches: 25, Indels: 31
0.82 0.08 0.10
Matches are distributed among these distances:
169 23 0.09
170 12 0.05
171 53 0.21
172 9 0.04
173 80 0.31
174 51 0.20
175 29 0.11
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.37
Consensus pattern (172 bp):
TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTACATGCTGAGGTATTTTC
AATTTCTGTTTTCAATTTATGTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGG
CCATGCTGAGGAATTTTCAATTTCTATTTTTCAAATTTGTAC
Found at i:4899829 original size:260 final size:255
Alignment explanation
Indices: 4899357--4899874 Score: 600
Period size: 260 Copynumber: 2.0 Consensus size: 255
4899347 TTTGATGTTT
* *
4899357 AATTTCTGTTTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGGTACGCTGAGG
1 AATTTATGTTTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC--GGCACGCTGAGG
* ** * *
4899422 TATTTTCAATTTCTGTTTTTCAAATGTCTGTTTTTAATCAAATCATATTGCGATAGGTGAGTTGA
64 AATTTTCAATTTCTGTTTTTCAAATGTCTGTTTAAAATCAAATCATATTGCGAGAGATGAGTTGA
* *** * * ** *
4899487 GCCTCGGCTCACATGCTGAGGTATTTTCAGTTTCTATTTTTCAAATTTTTATTTTTCAAAATCAA
129 GCCTCGGCTCACATGCCGAGGTATTTTCAAAATCTACTTTCCAAA--TTTAAGTTTCAAAACCAA
* *
4899552 CTCATATTGCAAGAGGTGAGTTGAGCCTCAGG-ACA-CTCTGAGGTATTTTCAATTTCTGTTTTC
192 CTCATATTGCAAGAGGTGAGTTGAGCCT-AGGCACAGCTCTGAGCTATTATCAATTTCTGTTTTC
*
4899615 AATTTATGTTTTCCA-AAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GCATGCTGAGGA
1 AATTTATGTTTT-CAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACGCTGAGGA
* * * *
4899678 ATTTTCAATTTCTATTTTTTTCAATTTGTACT-TTTCAAAAATTAACTCATATTGCGAGAGATGA
65 ATTTTCAATTTC--TGTTTTTCAA-ATGT-CTGTTT--AAAATCAAATCATATTGCGAGAGATGA
4899742 GTTGAGCCTCGAG-TCACATGCCGAGGTATTTTCAAAATCTACTTTCCAAA-TTAAGTTTCAAAA
124 GTTGAGCCTCG-GCTCACATGCCGAGGTATTTTCAAAATCTACTTTCCAAATTTAAGTTTC--AA
* * * *
4899805 AGACCAACTCATATTGCGAGAGGTGAGTTGAGTCTTGGCTCAGCTCTGAGCTATTATCAATTTCT
186 A-ACCAACTCATATTGCAAGAGGTGAGTTGAGCCTAGGCACAGCTCTGAGCTATTATCAATTTCT
4899870 GTTTT
250 GTTTT
4899875 TTAGTTTATG
Statistics
Matches: 220, Mismatches: 27, Indels: 23
0.81 0.10 0.09
Matches are distributed among these distances:
255 21 0.10
257 16 0.07
258 53 0.24
259 9 0.04
260 95 0.43
261 26 0.12
ACGTcount: A:0.27, C:0.17, G:0.19, T:0.38
Consensus pattern (255 bp):
AATTTATGTTTTCAGAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGCACGCTGAGGAA
TTTTCAATTTCTGTTTTTCAAATGTCTGTTTAAAATCAAATCATATTGCGAGAGATGAGTTGAGC
CTCGGCTCACATGCCGAGGTATTTTCAAAATCTACTTTCCAAATTTAAGTTTCAAAACCAACTCA
TATTGCAAGAGGTGAGTTGAGCCTAGGCACAGCTCTGAGCTATTATCAATTTCTGTTTTC
Found at i:4901533 original size:17 final size:17
Alignment explanation
Indices: 4901511--4901545 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4901501 TATTCTACTT
*
4901511 TAATTTTATTATTGTTA
1 TAATTTTATTATTATTA
4901528 TAATTTTATTATTATTA
1 TAATTTTATTATTATTA
4901545 T
1 T
4901546 CATCATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
TAATTTTATTATTATTA
Found at i:4901865 original size:15 final size:15
Alignment explanation
Indices: 4901846--4901881 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
4901836 ATTATCTCTA
4901846 ATATATGTATATATT
1 ATATATGTATATATT
* *
4901861 GTATATGTTTATATT
1 ATATATGTATATATT
4901876 ATATAT
1 ATATAT
4901882 ATATTATTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (15 bp):
ATATATGTATATATT
Found at i:4902187 original size:20 final size:21
Alignment explanation
Indices: 4902142--4902187 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
4902132 TTACCAATGT
*
4902142 TAGTACATATATTTTATTATA
1 TAGTATATATATTTTATTATA
*
4902163 -CGTATATATATTTT-TTATA
1 TAGTATATATATTTTATTATA
4902182 TAGTAT
1 TAGTAT
4902188 TATTTTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (21 bp):
TAGTATATATATTTTATTATA
Found at i:4906645 original size:19 final size:19
Alignment explanation
Indices: 4906621--4906718 Score: 155
Period size: 19 Copynumber: 5.2 Consensus size: 19
4906611 AATCTTTAAG
4906621 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
4906640 GATATGTAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4906659 GATA--CAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4906676 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
4906695 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
4906716 GAT
1 GAT
4906719 CTTGTAATCA
Statistics
Matches: 73, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
17 16 0.22
19 48 0.66
21 9 0.12
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:4906650 original size:36 final size:35
Alignment explanation
Indices: 4906610--4906727 Score: 105
Period size: 36 Copynumber: 3.1 Consensus size: 35
4906600 TATGGAAATA
4906610 TAATCTTTAAGGATATGCAATCTTAGATATGATATG
1 TAATCTTTAA-GATATGCAATCTTAGATATGATATG
4906646 TAATC-TT-AGATATGATACAATCTTAGATATGATATG
1 TAATCTTTAAGATATG---CAATCTTAGATATGATATG
* * *
4906682 CAATCTTAGATATGATATGCAATCTTGAAGATATGATCTTG
1 TAATCTT---TAAGATATGCAATCTT--AGATATGAT-ATG
4906723 TAATC
1 TAATC
4906728 ATGGAGATTT
Statistics
Matches: 67, Mismatches: 4, Indels: 17
0.76 0.05 0.19
Matches are distributed among these distances:
33 6 0.09
34 1 0.01
35 2 0.03
36 28 0.42
37 1 0.01
38 7 0.10
40 10 0.15
41 12 0.18
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.38
Consensus pattern (35 bp):
TAATCTTTAAGATATGCAATCTTAGATATGATATG
Found at i:4908713 original size:23 final size:24
Alignment explanation
Indices: 4908674--4908719 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
4908664 AGAACCAATC
4908674 AAATTTGAAAACATTCTTTTTGAA
1 AAATTTGAAAACATTCTTTTTGAA
*
4908698 AAATTTG-AAACGTTCTTTTTGA
1 AAATTTGAAAACATTCTTTTTGA
4908720 CTAACTTTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (24 bp):
AAATTTGAAAACATTCTTTTTGAA
Found at i:4915544 original size:126 final size:126
Alignment explanation
Indices: 4915319--4915579 Score: 380
Period size: 126 Copynumber: 2.1 Consensus size: 126
4915309 GTCGACTTTA
* * * ** *
4915319 TAAAATAAAGGCGAAGTTTGATGTTTAGCAATTCGAGGGTTCGTACCCTAATGTATTGGGTTTCA
1 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAGGAATCGTACCCTAATGTACTGGGTTTCA
*
4915384 ATCTTTCGTTTGTTTAAATAATCAAATTTCCCTTTAAAATTTCGTCC-TGTTTTCTAAACCT
66 ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGTGTTTTCTAAA-CT
* * * *
4915445 TAAAACAAAGGCGATGTTTGATGTTTAGAAATTCAAGGAATCGTGCCCTAATGTGCTGGGTTTCG
1 TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAGGAATCGTACCCTAATGTACTGGGTTTCA
* *
4915510 ATCTTTCGTTTGTCTAAATAATCAGATTTCCCTTTTAAATTTCGTCCGTGTTTTCTAAACT
66 ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGTGTTTTCTAAACT
4915571 TCAAAACAA
1 T-AAAACAA
4915580 GGAAATATTT
Statistics
Matches: 120, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
126 102 0.85
127 18 0.15
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.39
Consensus pattern (126 bp):
TAAAACAAAGGCGAAGTTTGATGTTTAGAAATTCAAGGAATCGTACCCTAATGTACTGGGTTTCA
ATCTTTCGTTTGTCTAAATAATCAAATTTCCCTTTAAAATTTCGTCCGTGTTTTCTAAACT
Found at i:4915596 original size:126 final size:126
Alignment explanation
Indices: 4915334--4915637 Score: 373
Period size: 126 Copynumber: 2.4 Consensus size: 126
4915324 TAAAGGCGAA
* ** * ** * *
4915334 GTTTGATGTTTAGCAATTCGAGGGTTCGTACCCTAATGTATTGGGTTTCAATCTTTCGTTTGTTT
1 GTTTGATGTTTAGAAATTCGAGGAATCGTGCCCTAATGTGCTGGGTTTCGATCTTTCGTTTGTCT
**
4915399 AAATAATCAAATTTCCCTTTAAAATTTCGTCCTGTTTTCTAAACCTTAAAACAAAGGCGAT
66 AAATAATCAAATTTCCCTTTAAAATTTCGTCCTGTTTTCTAAACCTTAAAACAAAGGAAAT
*
4915460 GTTTGATGTTTAGAAATTCAAGGAATCGTGCCCTAATGTGCTGGGTTTCGATCTTTCGTTTGTCT
1 GTTTGATGTTTAGAAATTCGAGGAATCGTGCCCTAATGTGCTGGGTTTCGATCTTTCGTTTGTCT
* *
4915525 AAATAATCAGATTTCCCTTTTAAATTTCGTCCGTGTTTTCTAAA-CTTCAAAAC-AAGGAAAT
66 AAATAATCAAATTTCCCTTTAAAATTTCGTCC-TGTTTTCTAAACCTT-AAAACAAAGGAAAT
* * * * * *
4915586 ATTTTG-TGTTTGGAAATTTTGAGAAATCATGCCCT-ACGTGCTGGGTTTCGAT
1 -GTTTGATGTTTAGAAA-TTCGAGGAATCGTGCCCTAATGTGCTGGGTTTCGAT
4915638 TTACTGTTTG
Statistics
Matches: 154, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
126 120 0.78
127 34 0.22
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (126 bp):
GTTTGATGTTTAGAAATTCGAGGAATCGTGCCCTAATGTGCTGGGTTTCGATCTTTCGTTTGTCT
AAATAATCAAATTTCCCTTTAAAATTTCGTCCTGTTTTCTAAACCTTAAAACAAAGGAAAT
Found at i:4915672 original size:126 final size:126
Alignment explanation
Indices: 4915412--4915674 Score: 277
Period size: 126 Copynumber: 2.1 Consensus size: 126
4915402 TAATCAAATT
* **
4915412 TCCCTTTAAAATTTCGTCCTGTTTTCTAAACCTTAAAACAAAGGCGATGTTTGATGTTTAGAAAT
1 TCCCTTTTAAATTTCGTCCTGTTTTCTAAACCTTAAAACAAAGGAAATGTTTGATGTTTAGAAAT
* * * * * * * * *
4915477 TCAAGGAATCGTGCCCTAATGTGCTGGGTTTCGATCTTTCGTTTGTCTAAATAATCAGATT
66 TCAAGAAATCATGCCCTAACGTGCTGGGTTTCGATCTTACGTTTGACCAAACAACCAGATA
* *
4915538 TCCCTTTTAAATTTCGTCCGTGTTTTCTAAA-CTTCAAAAC-AAGGAAATATTTTG-TGTTTGGA
1 TCCCTTTTAAATTTCGTCC-TGTTTTCTAAACCTT-AAAACAAAGGAAAT-GTTTGATGTTTAGA
**
4915600 AATTTTGAGAAATCATGCCCT-ACGTGCTGGGTTTCGAT-TTACTGTTTGACCAAACAACC-GAA
63 AA-TTCAAGAAATCATGCCCTAACGTGCTGGGTTTCGATCTTAC-GTTTGACCAAACAACCAG-A
4915662 TA
125 TA
*
4915664 TCCTTTTTAAA
1 TCCCTTTTAAA
4915675 ATTAAAACAT
Statistics
Matches: 114, Mismatches: 17, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
125 4 0.04
126 76 0.67
127 34 0.30
ACGTcount: A:0.28, C:0.18, G:0.16, T:0.38
Consensus pattern (126 bp):
TCCCTTTTAAATTTCGTCCTGTTTTCTAAACCTTAAAACAAAGGAAATGTTTGATGTTTAGAAAT
TCAAGAAATCATGCCCTAACGTGCTGGGTTTCGATCTTACGTTTGACCAAACAACCAGATA
Found at i:4917462 original size:26 final size:26
Alignment explanation
Indices: 4917423--4917530 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
4917413 TGGTACAAAT
*
4917423 TGATAATGGGTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4917449 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
4917475 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
4917501 TGATAATGGTTTAGGTAAATGTTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
4917527 TGAT
1 TGAT
4917531 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:4920159 original size:143 final size:143
Alignment explanation
Indices: 4919901--4920187 Score: 556
Period size: 143 Copynumber: 2.0 Consensus size: 143
4919891 ATCAAATCGG
4919901 TTTCCTAGAAATATACATGACGTTAAGGTGTGGCAATGGCGGTGTGTATGTCTAGGATTGGATCC
1 TTTCCTAGAAATATACATGACGTTAAGGTGTGGCAATGGCGGTGTGTATGTCTAGGATTGGATCC
*
4919966 GAAGGGAGCTTGGTACTTAAGTAGTCCGATAGACTCACCTCCTCTTTTCCGGTTTCCTACCTGGT
66 GAAAGGAGCTTGGTACTTAAGTAGTCCGATAGACTCACCTCCTCTTTTCCGGTTTCCTACCTGGT
4920031 GCACAGCTTCCAT
131 GCACAGCTTCCAT
*
4920044 TTTCCTAGAAATATACATGATGTTAAGGTGTGGCAATGGCGGTGTGTATGTCTAGGATTGGATCC
1 TTTCCTAGAAATATACATGACGTTAAGGTGTGGCAATGGCGGTGTGTATGTCTAGGATTGGATCC
4920109 GAAAGGAGCTTGGTACTTAAGTAGTCCGATAGACTCACCTCCTCTTTTCCGGTTTCCTACCTGGT
66 GAAAGGAGCTTGGTACTTAAGTAGTCCGATAGACTCACCTCCTCTTTTCCGGTTTCCTACCTGGT
4920174 GCACAGCTTCCAT
131 GCACAGCTTCCAT
4920187 T
1 T
4920188 CACTTTAACC
Statistics
Matches: 142, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
143 142 1.00
ACGTcount: A:0.22, C:0.21, G:0.25, T:0.32
Consensus pattern (143 bp):
TTTCCTAGAAATATACATGACGTTAAGGTGTGGCAATGGCGGTGTGTATGTCTAGGATTGGATCC
GAAAGGAGCTTGGTACTTAAGTAGTCCGATAGACTCACCTCCTCTTTTCCGGTTTCCTACCTGGT
GCACAGCTTCCAT
Found at i:4920427 original size:19 final size:19
Alignment explanation
Indices: 4920403--4920448 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 19
4920393 CTCTCTTTCT
4920403 TTTGCATT-CATTCCATACA
1 TTTGCATTGCATTCCAT-CA
*
4920422 TTTGCATTGCATTGCATCA
1 TTTGCATTGCATTCCATCA
4920441 TTTGCATT
1 TTTGCATT
4920449 AAACTTTCAC
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.22, C:0.22, G:0.11, T:0.46
Consensus pattern (19 bp):
TTTGCATTGCATTCCATCA
Found at i:4922662 original size:16 final size:16
Alignment explanation
Indices: 4922638--4922676 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
4922628 AACAAAGGCA
4922638 AAAAAAAAACGA-AAAG
1 AAAAAAAAA-GAGAAAG
*
4922654 AAAAGAAAAGAGAAAG
1 AAAAAAAAAGAGAAAG
4922670 AAAAAAA
1 AAAAAAA
4922677 CAAAAACAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 2 0.10
16 18 0.90
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAGAAAG
Done.