Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D11
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: 73211361
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1690000 characters in sequence are not A, C, G, or T
File 31 of 240
Found at i:10931507 original size:26 final size:26
Alignment explanation
Indices: 10931474--10931540 Score: 118
Period size: 26 Copynumber: 2.6 Consensus size: 26
10931464 ATAAAAAATA
*
10931474 ATCAAAATATTATAATTTTTTTATTT
1 ATCAAAATATTATAAATTTTTTATTT
10931500 ATCAAAATATTATAAATTTTTTATTT
1 ATCAAAATATTATAAATTTTTTATTT
10931526 ATCAAAATA-TATAAA
1 ATCAAAATATTATAAA
10931541 AACAAAACAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 6 0.15
26 34 0.85
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
ATCAAAATATTATAAATTTTTTATTT
Found at i:10932247 original size:15 final size:15
Alignment explanation
Indices: 10932227--10932276 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 15
10932217 ATTACCAAAA
10932227 TAGAGTTTATTAAAT
1 TAGAGTTTATTAAAT
10932242 TAGAGTTTATTAAAT
1 TAGAGTTTATTAAAT
*
10932257 GAGAATAGTTTATTAAAT
1 TAG---AGTTTATTAAAT
10932275 TA
1 TA
10932277 AAACAGAGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 17 0.57
18 13 0.43
ACGTcount: A:0.42, C:0.00, G:0.14, T:0.44
Consensus pattern (15 bp):
TAGAGTTTATTAAAT
Found at i:10935530 original size:25 final size:25
Alignment explanation
Indices: 10935502--10935557 Score: 112
Period size: 25 Copynumber: 2.2 Consensus size: 25
10935492 GAACGCGAAA
10935502 GCGGATCGTAAAGTTTGTCAAAGTC
1 GCGGATCGTAAAGTTTGTCAAAGTC
10935527 GCGGATCGTAAAGTTTGTCAAAGTC
1 GCGGATCGTAAAGTTTGTCAAAGTC
10935552 GCGGAT
1 GCGGAT
10935558 TTAACTTAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (25 bp):
GCGGATCGTAAAGTTTGTCAAAGTC
Found at i:10935917 original size:30 final size:25
Alignment explanation
Indices: 10935860--10935910 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
10935850 AAACTCTTCT
10935860 AAAAGAAACTCAAGAGAAATTCTTA
1 AAAAGAAACTCAAGAGAAATTCTTA
*
10935885 AAAAGAAACTCAAGAGAAATTATTA
1 AAAAGAAACTCAAGAGAAATTCTTA
10935910 A
1 A
10935911 CTTAAAAGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.59, C:0.10, G:0.12, T:0.20
Consensus pattern (25 bp):
AAAAGAAACTCAAGAGAAATTCTTA
Found at i:10939824 original size:14 final size:15
Alignment explanation
Indices: 10939793--10939828 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
10939783 TTTTTTTAAA
*
10939793 TTAAATTCTATTCTT
1 TTAAATTCTATTCAT
10939808 TTAAATT-TATTCAT
1 TTAAATTCTATTCAT
10939822 TTAAATT
1 TTAAATT
10939829 ATTTTTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAATTCTATTCAT
Found at i:10940063 original size:17 final size:18
Alignment explanation
Indices: 10940041--10940076 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
10940031 CTTTTTTATC
10940041 TTTAC-ATACAAAATTGA
1 TTTACAATACAAAATTGA
10940058 TTTACAGATACAAAATTGA
1 TTTACA-ATACAAAATTGA
10940077 ATCACAGAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
19 12 0.71
ACGTcount: A:0.47, C:0.11, G:0.08, T:0.33
Consensus pattern (18 bp):
TTTACAATACAAAATTGA
Found at i:10940083 original size:19 final size:19
Alignment explanation
Indices: 10940046--10940084 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10940036 TTATCTTTAC
* *
10940046 ATACAAAATTGATTTACAG
1 ATACAAAATTGAATCACAG
10940065 ATACAAAATTGAATCACAG
1 ATACAAAATTGAATCACAG
10940084 A
1 A
10940085 GATAAATCAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.51, C:0.13, G:0.10, T:0.26
Consensus pattern (19 bp):
ATACAAAATTGAATCACAG
Found at i:10944048 original size:126 final size:126
Alignment explanation
Indices: 10943823--10944186 Score: 622
Period size: 126 Copynumber: 2.9 Consensus size: 126
10943813 CCAAACATGT
* * *
10943823 GCCACTGTAACAAAAGTGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCAT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
*
10943888 GCTTAAAGCGTTTTTGACACTATTTACTCAGAAACGTCTACTCGAAATTATTTTTTCAAG-A
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTT-AAGAA
*
10943949 GCCACTGTAGCAAAAGCGTGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
*
10944014 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTTAGAA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTAAGAA
*
10944075 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* * *
10944140 GCTTAAAACGTTTCTGACACTATTTGCTCAGAAACGTCTAATCGAAA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAA
10944187 GTCTACTCGA
Statistics
Matches: 226, Mismatches: 11, Indels: 2
0.95 0.05 0.01
Matches are distributed among these distances:
125 2 0.01
126 224 0.99
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (126 bp):
GCCACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAATTATTTTTTAAGAA
Found at i:10944557 original size:96 final size:95
Alignment explanation
Indices: 10944335--10944559 Score: 229
Period size: 96 Copynumber: 2.3 Consensus size: 95
10944325 AAACACTTAC
* * * * *
10944335 CCCTAATCAAATTTTATAAAAATTTATAATTAATTTACTCAAGTAATCCTGAACCCTAATTTATT
1 CCCTAATCAAATTTT-TAAAAAATTATAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAAT
* ** * * *
10944400 TAATTTTTCCTTAAAAACCCTTAACTCTAAA
65 TAATTTTTCATTAAAAACAATAAACGCGAAA
* **
10944431 CCCTTATCTGATTTTTAAATAATATT-TAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAA
1 CCCTAATCAAATTTTTAAA-AA-ATTATAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAA
* * *
10944495 TTATTTTTTTTATTAAAAAATAATAAACGCGAAA
64 TTA-ATTTTTCATT-AAAAACAATAAACGCGAAA
*
10944529 -CCTAATCCAATTTTTAAAAAATTATAATTAA
1 CCCTAATCAAATTTTTAAAAAATTATAATTAA
10944560 TTCAATTGAC
Statistics
Matches: 104, Mismatches: 20, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
95 7 0.07
96 60 0.58
97 24 0.23
98 13 0.12
ACGTcount: A:0.42, C:0.16, G:0.03, T:0.40
Consensus pattern (95 bp):
CCCTAATCAAATTTTTAAAAAATTATAATTAAATTACTCAAGTAACCCTAAACCCTAATTTAATT
AATTTTTCATTAAAAACAATAAACGCGAAA
Found at i:10945027 original size:16 final size:17
Alignment explanation
Indices: 10944977--10945027 Score: 52
Period size: 17 Copynumber: 3.0 Consensus size: 17
10944967 TATTATAAAG
*
10944977 TAAATATTAAAATA-TAGT
1 TAAATA-TAAAATATTA-A
*
10944995 TAAATATAAAATTTTAA
1 TAAATATAAAATATTAA
10945012 TAAATA-AAAATATTAA
1 TAAATATAAAATATTAA
10945028 ATATTAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 9 0.31
17 12 0.41
18 8 0.28
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (17 bp):
TAAATATAAAATATTAA
Found at i:10953278 original size:10 final size:10
Alignment explanation
Indices: 10953263--10953341 Score: 56
Period size: 10 Copynumber: 7.7 Consensus size: 10
10953253 TTATCAGACC
10953263 AAAAATTTAT
1 AAAAATTTAT
10953273 AAAAATTTATT
1 AAAAATTTA-T
10953284 AAAAATTTATTT
1 AAAAATTTA--T
* *
10953296 TAAAATATAT
1 AAAAATTTAT
*
10953306 AAAAATGTA-
1 AAAAATTTAT
10953315 AAAAATATT-T
1 AAAAAT-TTAT
*
10953325 AAATTATTTA-
1 AAA-AATTTAT
10953335 AAAAATT
1 AAAAATT
10953342 AAATATTATA
Statistics
Matches: 56, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
9 9 0.16
10 26 0.46
11 12 0.21
12 9 0.16
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (10 bp):
AAAAATTTAT
Found at i:10953301 original size:12 final size:11
Alignment explanation
Indices: 10953263--10953294 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
10953253 TTATCAGACC
10953263 AAAAATTTA-T
1 AAAAATTTATT
10953273 AAAAATTTATT
1 AAAAATTTATT
10953284 AAAAATTTATT
1 AAAAATTTATT
10953295 TTAAAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.43
11 12 0.57
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AAAAATTTATT
Found at i:10953364 original size:20 final size:20
Alignment explanation
Indices: 10953339--10953396 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
10953329 TATTTAAAAA
10953339 ATTAAATATTATAAATATTT
1 ATTAAATATTATAAATATTT
*
10953359 ATTAAATATTTTAAA-A-TT
1 ATTAAATATTATAAATATTT
* *
10953377 ATTAAAAATCATAAAATATT
1 ATTAAATATTAT-AAATATT
10953397 ATTTAAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
18 11 0.35
19 4 0.13
20 15 0.48
21 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTAAATATTATAAATATTT
Found at i:10953397 original size:20 final size:19
Alignment explanation
Indices: 10953371--10953423 Score: 61
Period size: 21 Copynumber: 2.7 Consensus size: 19
10953361 TAAATATTTT
10953371 AAAATTATTAAAAATCATA
1 AAAATTATTAAAAATCATA
* **
10953390 AAATATTATTTAAAATTTGTA
1 AAA-ATTA-TTAAAAATCATA
10953411 AAAATTATTAAAA
1 AAAATTATTAAAA
10953424 TTGTGAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 9 0.31
20 8 0.28
21 12 0.41
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (19 bp):
AAAATTATTAAAAATCATA
Found at i:10953423 original size:9 final size:9
Alignment explanation
Indices: 10953315--10953425 Score: 59
Period size: 10 Copynumber: 11.7 Consensus size: 9
10953305 TAAAAATGTA
*
10953315 AAAAATATT
1 AAAATTATT
*
10953324 TAAATTATTT
1 AAAATTA-TT
*
10953334 AAAA-AATT
1 AAAATTATT
10953342 AAATATTA-T
1 AAA-ATTATT
10953351 AAATATTTATT
1 AAA-A-TTATT
10953362 AAATATT-TT
1 AAA-ATTATT
10953371 AAAATTATT
1 AAAATTATT
* *
10953380 AAAAATCATA
1 -AAAATTATT
10953390 AAATATTATTT
1 AAA-ATTA-TT
10953401 AAAATT-TGT
1 AAAATTAT-T
10953410 AAAAATTATT
1 -AAAATTATT
10953420 AAAATT
1 AAAATT
10953426 GTGAAATCTA
Statistics
Matches: 81, Mismatches: 9, Indels: 24
0.71 0.08 0.21
Matches are distributed among these distances:
8 9 0.11
9 30 0.37
10 31 0.38
11 11 0.14
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.43
Consensus pattern (9 bp):
AAAATTATT
Found at i:10953669 original size:3 final size:3
Alignment explanation
Indices: 10953661--10953690 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
10953651 AGAGAAAGTT
*
10953661 GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
10953691 AATAATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:10953726 original size:20 final size:20
Alignment explanation
Indices: 10953701--10953749 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
10953691 AATAATTTGT
10953701 TAATTATTTAT-ATTTTTTAA
1 TAATTATTTATGA-TTTTTAA
10953721 TAATTATTTATGATTTTTAA
1 TAATTATTTATGATTTTTAA
10953741 TAATT-TTTA
1 TAATTATTTA
10953750 AAAATTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.14
20 23 0.82
21 1 0.04
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TAATTATTTATGATTTTTAA
Found at i:10953748 original size:10 final size:10
Alignment explanation
Indices: 10953701--10953775 Score: 61
Period size: 10 Copynumber: 7.8 Consensus size: 10
10953691 AATAATTTGT
10953701 TAATTATTT-A
1 TAATT-TTTAA
*
10953711 TATTTTTTAA
1 TAATTTTTAA
10953721 TAATTATTT-A
1 TAATT-TTTAA
*
10953731 TGATTTTTAA
1 TAATTTTTAA
10953741 TAATTTTTAA
1 TAATTTTTAA
*
10953751 -AA-ATTT-A
1 TAATTTTTAA
*
10953758 TAACTTTTAA
1 TAATTTTTAA
10953768 TAATTTTT
1 TAATTTTT
10953776 TTACAATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
7 1 0.02
8 5 0.10
9 11 0.21
10 32 0.62
11 3 0.06
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:10953756 original size:20 final size:20
Alignment explanation
Indices: 10953714--10953798 Score: 54
Period size: 20 Copynumber: 4.3 Consensus size: 20
10953704 TTATTTATAT
**
10953714 TTTTTAATAATTATTT-ATGA
1 TTTTTAATAATT-TTTAAAAA
10953734 TTTTTAATAATTTTTAAAAA
1 TTTTTAATAATTTTTAAAAA
* *
10953754 --TTT-ATAACTTTTAATAA
1 TTTTTAATAATTTTTAAAAA
* *
10953771 TTTTT-TTACAATTTTAAAATA
1 TTTTTAATA-ATTTTTAAAA-A
10953792 TTTTTAA
1 TTTTTAA
10953799 CAATATTTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
17 12 0.24
18 3 0.06
19 8 0.16
20 22 0.43
21 6 0.12
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.58
Consensus pattern (20 bp):
TTTTTAATAATTTTTAAAAA
Found at i:10953760 original size:17 final size:17
Alignment explanation
Indices: 10953740--10953773 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10953730 ATGATTTTTA
*
10953740 ATAATTTTTAAAAATTT
1 ATAACTTTTAAAAATTT
*
10953757 ATAACTTTTAATAATTT
1 ATAACTTTTAAAAATTT
10953774 TTTTACAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAACTTTTAAAAATTT
Found at i:10953778 original size:21 final size:19
Alignment explanation
Indices: 10953745--10953802 Score: 57
Period size: 19 Copynumber: 3.1 Consensus size: 19
10953735 TTTTAATAAT
* *
10953745 TTTTAAAA-ATTTATA-AC
1 TTTTAAAATATTTTTACAA
*
10953762 TTTTAATAATTTTTTTACAA
1 TTTTAA-AATATTTTTACAA
10953782 TTTTAAAATATTTTTAACAA
1 TTTTAAAATATTTTT-ACAA
10953802 T
1 T
10953803 ATTTGATAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
17 6 0.18
18 2 0.06
19 13 0.39
20 12 0.36
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.53
Consensus pattern (19 bp):
TTTTAAAATATTTTTACAA
Found at i:10953801 original size:20 final size:20
Alignment explanation
Indices: 10953733--10953802 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
10953723 ATTATTTATG
*
10953733 ATTTTTAATAATTTTTAAAA-
1 ATTTTTAACAA-TTTTAAAAT
*
10953753 ATTTATAAC--TTTTAATAAT
1 ATTTTTAACAATTTTAA-AAT
*
10953772 -TTTTTTACAATTTTAAAAT
1 ATTTTTAACAATTTTAAAAT
10953791 ATTTTTAACAAT
1 ATTTTTAACAAT
10953803 ATTTGATAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
17 6 0.15
18 8 0.20
19 3 0.08
20 23 0.57
ACGTcount: A:0.41, C:0.04, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTTTAACAATTTTAAAAT
Found at i:10953831 original size:35 final size:34
Alignment explanation
Indices: 10953790--10953859 Score: 88
Period size: 34 Copynumber: 2.0 Consensus size: 34
10953780 AATTTTAAAA
*
10953790 TATTTTTAACAATATTTGATA-ATTATTTACATATT
1 TATTTTTAACAAT-TTTGATATATT-TTTAAATATT
* *
10953825 TATTTTTTACAATTTTTATATATTTTTAAATATT
1 TATTTTTAACAATTTTGATATATTTTTAAATATT
10953859 T
1 T
10953860 TACGATTTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 16 0.52
35 15 0.48
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.60
Consensus pattern (34 bp):
TATTTTTAACAATTTTGATATATTTTTAAATATT
Found at i:10953850 original size:20 final size:20
Alignment explanation
Indices: 10953772--10953851 Score: 55
Period size: 20 Copynumber: 4.2 Consensus size: 20
10953762 TTTTAATAAT
* *
10953772 TTTTTTACAATTTTAAAATA
1 TTTTTTACAATTTTTATATA
* *
10953792 TTTTTAACAATATTTGATA-A
1 TTTTTTACAAT-TTTTATATA
* *
10953812 TTATTTAC-A----TATTTA
1 TTTTTTACAATTTTTATATA
10953827 TTTTTTACAATTTTTATATA
1 TTTTTTACAATTTTTATATA
10953847 TTTTT
1 TTTTT
10953852 AAATATTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
14 2 0.05
15 8 0.18
16 1 0.02
19 1 0.02
20 27 0.61
21 5 0.11
ACGTcount: A:0.34, C:0.05, G:0.01, T:0.60
Consensus pattern (20 bp):
TTTTTTACAATTTTTATATA
Found at i:10955891 original size:25 final size:24
Alignment explanation
Indices: 10955863--10955916 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
10955853 TTTCAAATAG
*
10955863 CAGGCCTTGAGTCGGTGTTATCTAT
1 CAGGCCTTGAGCCGGTG-TATCTAT
* * *
10955888 CAGGCTTTGTGCCGGTGTATTTAT
1 CAGGCCTTGAGCCGGTGTATCTAT
10955912 CAGGC
1 CAGGC
10955917 TTTGTGTCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 11 0.44
25 14 0.56
ACGTcount: A:0.15, C:0.20, G:0.30, T:0.35
Consensus pattern (24 bp):
CAGGCCTTGAGCCGGTGTATCTAT
Found at i:10955917 original size:24 final size:25
Alignment explanation
Indices: 10955875--10955922 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 25
10955865 GGCCTTGAGT
10955875 CGGTGTTATCTATCAGGCTTTGTGC
1 CGGTGTTATCTATCAGGCTTTGTGC
*
10955900 CGGTG-TATTTATCAGGCTTTGTG
1 CGGTGTTATCTATCAGGCTTTGTG
10955923 TCAATGTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.12, C:0.17, G:0.29, T:0.42
Consensus pattern (25 bp):
CGGTGTTATCTATCAGGCTTTGTGC
Found at i:10955934 original size:24 final size:24
Alignment explanation
Indices: 10955885--10955935 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
10955875 CGGTGTTATC
**
10955885 TATCAGGCTTTGTGCCGGTGTATT
1 TATCAGGCTTTGTGCCAATGTATT
* *
10955909 TATCAGGCTTTGTGTCAATGTGTT
1 TATCAGGCTTTGTGCCAATGTATT
10955933 TAT
1 TAT
10955936 TGGGCTCTGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.16, C:0.14, G:0.25, T:0.45
Consensus pattern (24 bp):
TATCAGGCTTTGTGCCAATGTATT
Found at i:10955981 original size:25 final size:25
Alignment explanation
Indices: 10955964--10956023 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
10955954 GGCTTTGTGT
10955964 TGGTGTTATCTATCAGGCCTTGAGC
1 TGGTGTTATCTATCAGGCCTTGAGC
* * *
10955989 TGGTGTTGTCTATCAAGCATTGAGC
1 TGGTGTTATCTATCAGGCCTTGAGC
10956014 TGGTGGTTAT
1 TGGT-GTTAT
10956024 TTAGCAAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 26 0.87
26 4 0.13
ACGTcount: A:0.17, C:0.15, G:0.30, T:0.38
Consensus pattern (25 bp):
TGGTGTTATCTATCAGGCCTTGAGC
Found at i:10977691 original size:40 final size:41
Alignment explanation
Indices: 10977577--10977691 Score: 128
Period size: 40 Copynumber: 2.8 Consensus size: 41
10977567 AGCGGCATTT
* **
10977577 TTAGTGGCGTTTGGCCAAAAAAGCGCCGCTAAAAATCGAGCA
1 TTAGCGGCGTTTTTCCAAAAAA-CGCCGCTAAAAATCGAGCA
* * *
10977619 TTAGCGGCG-CTTTACATAAAAA-GTCGCTAAAAAT-GAGCA
1 TTAGCGGCGTTTTTCCA-AAAAACGCCGCTAAAAATCGAGCA
*
10977658 TTAGCGGCGTTTTTCCAAAAAACGCCGCAAAAAA
1 TTAGCGGCGTTTTTCCAAAAAACGCCGCTAAAAA
10977692 CCTAAGCCGA
Statistics
Matches: 60, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
39 19 0.32
40 25 0.42
41 3 0.05
42 13 0.22
ACGTcount: A:0.37, C:0.21, G:0.22, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGTTTTTCCAAAAAACGCCGCTAAAAATCGAGCA
Found at i:10977832 original size:20 final size:19
Alignment explanation
Indices: 10977804--10977849 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
10977794 CCGCAAAAAC
*
10977804 ATTTTATTTGTCTATTTACT
1 ATTTAATTTGTCTATTTA-T
*
10977824 ATTTAATTTGTTTATTTAT
1 ATTTAATTTGTCTATTTAT
10977843 A-TTAATT
1 ATTTAATT
10977850 AAAATTCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 6 0.25
19 2 0.08
20 16 0.67
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.65
Consensus pattern (19 bp):
ATTTAATTTGTCTATTTAT
Found at i:10978219 original size:14 final size:15
Alignment explanation
Indices: 10978191--10978220 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
10978181 AAGGTTAATA
10978191 GATTATGGAATTAGG
1 GATTATGGAATTAGG
10978206 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
10978220 G
1 G
10978221 GTTCTAGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:10978421 original size:7 final size:7
Alignment explanation
Indices: 10978349--10978447 Score: 51
Period size: 7 Copynumber: 14.1 Consensus size: 7
10978339 TATTAAATAT
10978349 GGTTTAG
1 GGTTTAG
*
10978356 GGGTTAG
1 GGTTTAG
* *
10978363 GGGTTGG
1 GGTTTAG
10978370 GGTTTAG
1 GGTTTAG
*
10978377 AG-TTAG
1 GGTTTAG
*
10978383 GGATTCA-
1 GG-TTTAG
*
10978390 GGTTCAG
1 GGTTTAG
10978397 TGG-TTAG
1 -GGTTTAG
*
10978404 GGGTTATG
1 GGTTTA-G
10978412 GGTTTAG
1 GGTTTAG
*
10978419 GGTTTAT
1 GGTTTAG
* *
10978426 GTTTTAT
1 GGTTTAG
*
10978433 GGTTTAA
1 GGTTTAG
10978440 GGTTTAG
1 GGTTTAG
10978447 G
1 G
10978448 AGATAGGGGT
Statistics
Matches: 72, Mismatches: 14, Indels: 12
0.73 0.14 0.12
Matches are distributed among these distances:
6 11 0.15
7 51 0.71
8 10 0.14
ACGTcount: A:0.16, C:0.02, G:0.41, T:0.40
Consensus pattern (7 bp):
GGTTTAG
Found at i:10978422 original size:21 final size:20
Alignment explanation
Indices: 10978349--10978422 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
10978339 TATTAAATAT
*
10978349 GGTTTAGGGGTTAGGGGTTGG
1 GGTTTA-GGGTTAGGGGTTAG
* *
10978370 GGTTTAGAGTTAGGGATTCA-
1 GGTTTAGGGTTAGGGGTT-AG
*
10978390 GGTTCAGTGGTTAGGGGTTATG
1 GGTTTAG-GGTTAGGGGTTA-G
10978412 GGTTTAGGGTT
1 GGTTTAGGGTT
10978423 TATGTTTTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
20 17 0.40
21 19 0.45
22 6 0.14
ACGTcount: A:0.15, C:0.03, G:0.46, T:0.36
Consensus pattern (20 bp):
GGTTTAGGGTTAGGGGTTAG
Found at i:10981786 original size:43 final size:43
Alignment explanation
Indices: 10981739--10981892 Score: 143
Period size: 43 Copynumber: 3.6 Consensus size: 43
10981729 TCTTTAGCAA
* *
10981739 CATTTTTTAGAAAAGCGCCGCTAAAGATCATGGTTTATAACGG
1 CATTTTTTAGAAAAGCGCCGCTAAAGATCATGGTCTATAGCGG
* ** *
10981782 CA-TTTTTAGTAGAAGCATCGCTAAAGGTCATGGTCTATAGCGG
1 CATTTTTTAG-AAAAGCGCCGCTAAAGATCATGGTCTATAGCGG
* * * ** *
10981825 CATTTGTGAGAAAAACGCCATTACAA-ATCATGGTCTATAGCGA
1 CATTTTTTAGAAAAGCGCCGCTA-AAGATCATGGTCTATAGCGG
* *
10981868 CGTTTTTT-TAAAAGCGCCGCTAAAG
1 CATTTTTTAGAAAAGCGCCGCTAAAG
10981893 GCCTAAAAAG
Statistics
Matches: 84, Mismatches: 23, Indels: 9
0.72 0.20 0.08
Matches are distributed among these distances:
41 2 0.02
42 17 0.20
43 58 0.69
44 7 0.08
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (43 bp):
CATTTTTTAGAAAAGCGCCGCTAAAGATCATGGTCTATAGCGG
Found at i:10981829 original size:86 final size:85
Alignment explanation
Indices: 10981649--10981843 Score: 207
Period size: 86 Copynumber: 2.3 Consensus size: 85
10981639 GCCATGTTTT
* *** *
10981649 TAGCGGCGTTTGTTA-AAAAGCGCCGCTAAAAGTCATCTTTATTGTGGCATTTGTTGTAGAAGCG
1 TAGCGGCATTTGTTAGAAAAGCGCCGCTAAAAGTCATCTTTATAACGGCATTTGTTGTAGAAGCA
* *
10981713 TCGCTAAAAGTCATATTCTT
66 TCGCTAAAAGTCATAGTCTA
** * *
10981733 TAGCAACATTTTTTAGAAAAGCGCCGCT-AAAGATCATGGTTTATAACGGCATTT-TTAGTAGAA
1 TAGCGGCATTTGTTAGAAAAGCGCCGCTAAAAG-TCAT-CTTTATAACGGCATTTGTT-GTAGAA
* *
10981796 GCATCGCTAAAGGTCATGGTCTA
63 GCATCGCTAAAAGTCATAGTCTA
* *
10981819 TAGCGGCATTTGTGAGAAAAACGCC
1 TAGCGGCATTTGTTAGAAAAGCGCC
10981844 ATTACAAATC
Statistics
Matches: 89, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
84 15 0.17
85 18 0.20
86 56 0.63
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.31
Consensus pattern (85 bp):
TAGCGGCATTTGTTAGAAAAGCGCCGCTAAAAGTCATCTTTATAACGGCATTTGTTGTAGAAGCA
TCGCTAAAAGTCATAGTCTA
Found at i:10981855 original size:86 final size:86
Alignment explanation
Indices: 10981694--10981863 Score: 191
Period size: 86 Copynumber: 2.0 Consensus size: 86
10981684 TCTTTATTGT
* * * * * * *
10981694 GGCATTTGTTGTAGAAGCGTCGCTAAAAGTCATATTCTTTAGCAACATTTTTTAGAAAAGCGCCG
1 GGCATTTGTTGTAGAAGCATCGCTAAAAGTCATAGTCTATAGCAACATTTGTGAGAAAAACGCCA
*
10981759 CTAAAGATCATGGTTTATAAC
66 CTAAAGATCATGGTCTATAAC
* * **
10981780 GGCATTT-TTAGTAGAAGCATCGCTAAAGGTCATGGTCTATAGCGGCATTTGTGAGAAAAACGCC
1 GGCATTTGTT-GTAGAAGCATCGCTAAAAGTCATAGTCTATAGCAACATTTGTGAGAAAAACGCC
*
10981844 ATTACAA-ATCATGGTCTATA
65 ACTA-AAGATCATGGTCTATA
10981864 GCGACGTTTT
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
85 2 0.03
86 65 0.94
87 2 0.03
ACGTcount: A:0.32, C:0.16, G:0.21, T:0.31
Consensus pattern (86 bp):
GGCATTTGTTGTAGAAGCATCGCTAAAAGTCATAGTCTATAGCAACATTTGTGAGAAAAACGCCA
CTAAAGATCATGGTCTATAAC
Found at i:10984498 original size:93 final size:93
Alignment explanation
Indices: 10984339--10984524 Score: 327
Period size: 93 Copynumber: 2.0 Consensus size: 93
10984329 AAGGGTCCAC
*
10984339 AAAAAATACAAGATAGCTTAAGTACTTATGACACTTACATGTACAAGTTTAAATATTATTAGATG
1 AAAAAATACAAGATAGCTTAAGTACTTATGACACTTACATGTACAAGTTTAAATATTATTACATG
10984404 GATATGATATTTAGACTACTAATACATT
66 GATATGATATTTAGACTACTAATACATT
* * * *
10984432 AAAAATTACAAGATAGGTTAAGTACTTATGACGCTTACATGTACAAGTTTAATTATTATTACATG
1 AAAAAATACAAGATAGCTTAAGTACTTATGACACTTACATGTACAAGTTTAAATATTATTACATG
10984497 GATATGATATTTAGACTACTAATACATT
66 GATATGATATTTAGACTACTAATACATT
10984525 GAGAAAGCAA
Statistics
Matches: 88, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 88 1.00
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.35
Consensus pattern (93 bp):
AAAAAATACAAGATAGCTTAAGTACTTATGACACTTACATGTACAAGTTTAAATATTATTACATG
GATATGATATTTAGACTACTAATACATT
Found at i:10987336 original size:21 final size:21
Alignment explanation
Indices: 10987310--10987363 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
10987300 AATAGCAGTG
10987310 GCGGTGAGATTAGTTACTATA
1 GCGGTGAGATTAGTTACTATA
*
10987331 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGTTACTATA
10987352 GCGGTGAGATTA
1 GCGGTGAGATTA
10987364 AAAACAATGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.26, C:0.09, G:0.33, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGTTACTATA
Found at i:10987612 original size:33 final size:32
Alignment explanation
Indices: 10987575--10987638 Score: 92
Period size: 33 Copynumber: 2.0 Consensus size: 32
10987565 AATAATTTAT
10987575 ATAATTAATTTAAATTATTTATTAGATAAAATA
1 ATAATTAATTTAAATTATTTA-TAGATAAAATA
* * *
10987608 ATAATTATTTTAAATTTTTTATAGTTAAAAT
1 ATAATTAATTTAAATTATTTATAGATAAAAT
10987639 TTTTTTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 9 0.32
33 19 0.68
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (32 bp):
ATAATTAATTTAAATTATTTATAGATAAAATA
Found at i:10991610 original size:41 final size:41
Alignment explanation
Indices: 10991553--10991697 Score: 188
Period size: 41 Copynumber: 3.5 Consensus size: 41
10991543 TTTAACATAT
10991553 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
* *
10991594 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
* * **
10991635 TCACCGGCACTTAGCCTGCT-GGACTTAAAGTCC-GAATCATT
1 TCACCGGCACTTAGCCTGCTAGG-CTTATAG-CCTGATTCAGA
10991676 TCACCGGC-CTTAAGCCTGCTAG
1 TCACCGGCACTT-AGCCTGCTAG
10991698 ACATAAAGTC
Statistics
Matches: 92, Mismatches: 8, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
40 5 0.05
41 84 0.91
42 3 0.03
ACGTcount: A:0.23, C:0.30, G:0.21, T:0.27
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGCTTATAGCCTGATTCAGA
Found at i:10991705 original size:41 final size:41
Alignment explanation
Indices: 10991635--10991820 Score: 241
Period size: 41 Copynumber: 4.5 Consensus size: 41
10991625 CTGATTCAGA
* * * *
10991635 TCACCGGCACTT-AGCCTGCTGGACTTAAAGTCCG-AATCATT
1 TCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAAT-AAT
*
10991676 TCACCGGCCTTAAGCCTGCTAGACATAAAGTCTGAAATAAT
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
* * *
10991717 TCACCGACATTAAGCCTGGTAGACATAAAGTTTGAAATAAT
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
10991758 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
* * *
10991799 TCATCGGTATTAAACCTGCTAG
1 TCACCGGCATTAAGCCTGCTAG
10991821 GCATCGAGCC
Statistics
Matches: 128, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
40 2 0.02
41 123 0.96
42 3 0.02
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
Found at i:10992613 original size:196 final size:196
Alignment explanation
Indices: 10992153--10992579 Score: 678
Period size: 199 Copynumber: 2.2 Consensus size: 196
10992143 ATTTCAATAC
* ** *
10992153 ATACATTCGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACTCAGCATATAT
1 ATACATTCAGCTAACATATATAAAATTCATTAAATTTCATTCAACTTACAAAAC-CAACATATAT
*
10992218 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTATCTTATAAACTCAAATATACATT
65 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAACTCAAATATACATT
10992283 GACTAACACACACATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACAT
130 GACT-A-ACACACATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACAT
10992348 ATAT
193 ATAT
**
10992352 ATACATTCAGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACCCAACATATAT
1 ATACATTCAGCTAACATATATAAAATTCATTAAATTTCATTCAACTTACAAAA-CCAACATATAT
* *
10992417 ATATTCGGCTAAATATATATAGAATTTCTGTAATTTATTTTAACTTATAAAACTCAAATATACAT
65 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTAT-AAACTCAAATATACAT
10992482 TGACT-A-ACACATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACATA
129 TGACTAACACACATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACATA
10992545 TAT
194 TAT
* *
10992548 ATACATTCGGCTAACAATTTTATAAAATTCAT
1 ATACATTCAGCTAAC-A-TATATAAAATTCAT
10992580 ACCATTATAT
Statistics
Matches: 215, Mismatches: 9, Indels: 9
0.92 0.04 0.04
Matches are distributed among these distances:
196 74 0.34
197 2 0.01
198 11 0.05
199 106 0.49
200 22 0.10
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (196 bp):
ATACATTCAGCTAACATATATAAAATTCATTAAATTTCATTCAACTTACAAAACCAACATATATA
TATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAACTCAAATATACATTG
ACTAACACACATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAACATATA
T
Found at i:10993558 original size:13 final size:13
Alignment explanation
Indices: 10993540--10993564 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10993530 ACAAACGATA
10993540 AAATTTTCACACG
1 AAATTTTCACACG
10993553 AAATTTTCACAC
1 AAATTTTCACAC
10993565 AAGTAAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:10999459 original size:41 final size:42
Alignment explanation
Indices: 10999330--10999599 Score: 201
Period size: 41 Copynumber: 6.6 Consensus size: 42
10999320 AATTTAACAT
* * * *
10999330 ATTCACCGGCACTT-AGCCTGCTAGGCTTATAG-CCTGATTCA
1 ATTCACCGGCACTTAAGCCTGCTAGACATAAAGTCC-GAATCA
*** *
10999371 GA-TCACCGGCACTT-AGCCTGCTAGGTTTATAA--CCTGATTCA
1 -ATTCACCGGCACTTAAGCCTGCTAGACATA-AAGTCC-GAATCA
* *
10999412 GA-TCACCGGCACTT-AGCCTGCTGGACTTAAAGTCCGAATCA
1 -ATTCACCGGCACTTAAGCCTGCTAGACATAAAGTCCGAATCA
* * *
10999453 TTTCACCGGC-CTTAAGCCTACTAGACATAAAGTCTGAAAT-A
1 ATTCACCGGCACTTAAGCCTGCTAGACATAAAGTCCG-AATCA
* *
10999494 ATTCACCGGCA-TTAAGCCTGGTAGACATAAAGTCTGAAAT-A
1 ATTCACCGGCACTTAAGCCTGCTAGACATAAAGTCCG-AATCA
*
10999535 ATTCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAAT-A
1 ATTCACCGGCACTTAAGCCTGCTAGACATAAAGTCCG-AATCA
* *
10999576 ATTCACCGGTA-TTAAACCTGCTAG
1 ATTCACCGGCACTTAAGCCTGCTAG
10999600 GCATCGAGCC
Statistics
Matches: 204, Mismatches: 17, Indels: 15
0.86 0.07 0.06
Matches are distributed among these distances:
40 5 0.02
41 192 0.94
42 7 0.03
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (42 bp):
ATTCACCGGCACTTAAGCCTGCTAGACATAAAGTCCGAATCA
Found at i:10999613 original size:41 final size:41
Alignment explanation
Indices: 10999414--10999599 Score: 259
Period size: 41 Copynumber: 4.5 Consensus size: 41
10999404 CTGATTCAGA
* * * *
10999414 TCACCGGCACTT-AGCCTGCTGGACTTAAAGTCCG-AATCATT
1 TCACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAAT-AAT
* *
10999455 TCACCGGCCTTAAGCCTACTAGACATAAAGTCTGAAATAAT
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
*
10999496 TCACCGGCATTAAGCCTGGTAGACATAAAGTCTGAAATAAT
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
10999537 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
1 TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
* *
10999578 TCACCGGTATTAAACCTGCTAG
1 TCACCGGCATTAAGCCTGCTAG
10999600 GCATCGAGCC
Statistics
Matches: 131, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 2 0.02
41 126 0.96
42 3 0.02
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATAAT
Found at i:11000400 original size:202 final size:202
Alignment explanation
Indices: 10999930--11000366 Score: 680
Period size: 203 Copynumber: 2.1 Consensus size: 202
10999920 ATTTCAATAC
* ** *
10999930 ATACATTCGGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACTCAGCATATAT
1 ATACATTCAGCTAACATATATAAAATTCATTAAATTTCATTCAACTTACAAAAC-CAACATATAT
*
10999995 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTATCTTATAAACTCAAATATACATT
65 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAACTCAAATATACATT
11000060 GACTAACACACACACACACATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAA
130 GACTAACACACACACACACATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAA
11000125 ACATATAT
195 ACATATAT
**
11000133 ATACATTCAGCTAACATATATGTAATTCATTAAATTTCATTCAACTTACAAAACCCAACATATAT
1 ATACATTCAGCTAACATATATAAAATTCATTAAATTTCATTCAACTTACAAAA-CCAACATATAT
* *
11000198 ATATTCGGCTAAATATATATAGAATTTCTGTAATTTATTTTAACTTATAAAACTCAAATATACAT
65 ATATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTAT-AAACTCAAATATACAT
* * * *
11000263 TGACT-A-ACACATATATATATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAA
129 TGACTAACACACACACACACATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAA
11000326 AACATATAT
194 AACATATAT
* *
11000335 ATACATTCGGCTAACATTTTTATAAAATTCAT
1 ATACATTCAGCTAACA--TATATAAAATTCAT
11000367 ACCATTATAT
Statistics
Matches: 217, Mismatches: 13, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
202 77 0.35
203 107 0.49
204 33 0.15
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.38
Consensus pattern (202 bp):
ATACATTCAGCTAACATATATAAAATTCATTAAATTTCATTCAACTTACAAAACCAACATATATA
TATTCGGCTAAATATATATAGAATTTATGCAATTTATTTTAACTTATAAACTCAAATATACATTG
ACTAACACACACACACACATATATATACAATTCATACATTTTATTTTAACTTATAAAATTCAAAA
CATATAT
Found at i:11001339 original size:13 final size:13
Alignment explanation
Indices: 11001321--11001345 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11001311 ACAAACGATA
11001321 AAATTTTCACACG
1 AAATTTTCACACG
11001334 AAATTTTCACAC
1 AAATTTTCACAC
11001346 AAGTAAATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.24, G:0.04, T:0.32
Consensus pattern (13 bp):
AAATTTTCACACG
Found at i:11002903 original size:9 final size:9
Alignment explanation
Indices: 11002889--11002982 Score: 125
Period size: 9 Copynumber: 10.4 Consensus size: 9
11002879 TTTGGTTAAA
11002889 AATTAACCG
1 AATTAACCG
*
11002898 AATTAACCA
1 AATTAACCG
*
11002907 AATTAACCA
1 AATTAACCG
*
11002916 AATTACCCG
1 AATTAACCG
11002925 AATTAACCG
1 AATTAACCG
*
11002934 AATTACCCG
1 AATTAACCG
11002943 AATTAACCG
1 AATTAACCG
*
11002952 AATTACCCG
1 AATTAACCG
*
11002961 AATTACCCG
1 AATTAACCG
*
11002970 AATTAACCT
1 AATTAACCG
11002979 AATT
1 AATT
11002983 GAATCATACA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 76 1.00
ACGTcount: A:0.43, C:0.26, G:0.07, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:11010401 original size:24 final size:24
Alignment explanation
Indices: 11010374--11010425 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11010364 TTAGTAAGTC
*
11010374 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11010398 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11010422 AAAT
1 AAAT
11010426 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11012351 original size:24 final size:24
Alignment explanation
Indices: 11012324--11012375 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11012314 TTAGTAAGTC
*
11012324 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11012348 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11012372 AAAT
1 AAAT
11012376 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11017680 original size:26 final size:24
Alignment explanation
Indices: 11017616--11017685 Score: 70
Period size: 26 Copynumber: 2.8 Consensus size: 24
11017606 ATGCTCAAGG
11017616 ATTTAAAATAA-TTTAAAATATTT
1 ATTTAAAATAATTTTAAAATATTT
* *
11017639 GTTAAAAATAGAAATTTTAAAATACTATT
1 ATTTAAAAT---AATTTTAAAATA-T-TT
11017668 ATTTAAAATAATTTTAAA
1 ATTTAAAATAATTTTAAA
11017686 GTTTTTTGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
23 7 0.19
26 11 0.30
27 9 0.24
28 1 0.03
29 9 0.24
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (24 bp):
ATTTAAAATAATTTTAAAATATTT
Found at i:11017878 original size:22 final size:21
Alignment explanation
Indices: 11017853--11017900 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 21
11017843 GTGTTACCAT
*
11017853 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGGTTATGGATTAT-GG
*
11017875 TTTAAGGGTTATGGTTTATGG
1 TTTAAGGGTTATGGATTATGG
11017896 TTTAA
1 TTTAA
11017901 AGGCCGGGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.23, C:0.00, G:0.29, T:0.48
Consensus pattern (21 bp):
TTTAAGGGTTATGGATTATGG
Found at i:11017955 original size:15 final size:14
Alignment explanation
Indices: 11017937--11017985 Score: 55
Period size: 13 Copynumber: 3.4 Consensus size: 14
11017927 ATGTGTTAAT
11017937 GGTTTATGGTTTTAG
1 GGTTTATGG-TTTAG
*
11017952 GGTTTTAGGGTTTA-
1 GG-TTTATGGTTTAG
*
11017966 GGTTTATAGTTTAG
1 GGTTTATGGTTTAG
11017980 GGTTTA
1 GGTTTA
11017986 GATTAACTAG
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
13 9 0.31
14 8 0.28
15 6 0.21
16 6 0.21
ACGTcount: A:0.16, C:0.00, G:0.33, T:0.51
Consensus pattern (14 bp):
GGTTTATGGTTTAG
Found at i:11018024 original size:16 final size:16
Alignment explanation
Indices: 11018003--11018035 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
11017993 TAGTGGTTTC
11018003 TAATTTA-TATATTAAT
1 TAATTTATTATA-TAAT
11018019 TAATTTATTATATAAT
1 TAATTTATTATATAAT
11018035 T
1 T
11018036 GTAAAAGTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
TAATTTATTATATAAT
Found at i:11018303 original size:20 final size:20
Alignment explanation
Indices: 11018281--11018343 Score: 74
Period size: 20 Copynumber: 3.1 Consensus size: 20
11018271 TTAGTGATTT
11018281 AAAATTTTAAAATGAATTTTA
1 AAAATTTTAAAATG-ATTTTA
**
11018302 AAAGATTTT-AAATTTTTTTA
1 AAA-ATTTTAAAATGATTTTA
*
11018322 AAAATTTTAAAAAGATTTTA
1 AAAATTTTAAAATGATTTTA
11018342 AA
1 AA
11018344 CTTTTATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
19 5 0.14
20 18 0.51
21 7 0.20
22 5 0.14
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (20 bp):
AAAATTTTAAAATGATTTTA
Found at i:11018311 original size:10 final size:10
Alignment explanation
Indices: 11018284--11018343 Score: 59
Period size: 10 Copynumber: 5.8 Consensus size: 10
11018274 GTGATTTAAA
11018284 ATTTTAAAATG
1 ATTTTAAAA-G
11018295 AATTTTAAAAG
1 -ATTTTAAAAG
**
11018306 ATTTTAAATT
1 ATTTTAAAAG
*
11018316 TTTTTAAAA-
1 ATTTTAAAAG
11018325 ATTTTAAAAAG
1 ATTTT-AAAAG
11018336 ATTTTAAA
1 ATTTTAAA
11018344 CTTTTATTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
9 4 0.10
10 22 0.54
11 6 0.15
12 9 0.22
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (10 bp):
ATTTTAAAAG
Found at i:11018791 original size:32 final size:27
Alignment explanation
Indices: 11018729--11018783 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
11018719 AGTTAGGAAT
*
11018729 AAATATCTCTAATAAAATGAAGATTAG
1 AAATATCTCTAATAAAATAAAGATTAG
11018756 AAATATCTCTAATAAAATAAAGATTAG
1 AAATATCTCTAATAAAATAAAGATTAG
11018783 A
1 A
11018784 TCGGAAATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.55, C:0.07, G:0.09, T:0.29
Consensus pattern (27 bp):
AAATATCTCTAATAAAATAAAGATTAG
Found at i:11022894 original size:43 final size:43
Alignment explanation
Indices: 11022824--11022967 Score: 225
Period size: 43 Copynumber: 3.3 Consensus size: 43
11022814 AAATATTTTT
* * * *
11022824 TAAATGTCTTGTTCTTTAGCGGAGTTTGTGGGAAAAACGCTGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
11022867 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
* * *
11022910 TAAAGGTCTTGTTCTATAACGGCGTTTGTGTGAAAAGCGCCGC
1 TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
11022953 TAAAGGTCTTGTTCT
1 TAAAGGTCTTGTTCT
11022968 ATAGTGAAAA
Statistics
Matches: 94, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 94 1.00
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
TAAAGGTCTTGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
Found at i:11028358 original size:27 final size:28
Alignment explanation
Indices: 11028312--11028434 Score: 151
Period size: 28 Copynumber: 4.5 Consensus size: 28
11028302 CGTGTGAGGT
* *
11028312 AGCCTTTGTGGCGATATATG-AAAAGGA
1 AGCCTTTGTGGCGATCTATGAAAAAAGA
* * *
11028339 AGCCTTTGTAGCAATTTATGAAAAAAGA
1 AGCCTTTGTGGCGATCTATGAAAAAAGA
*
11028367 AGTCTTTGTGGCGATCTATGAAAAAAGA
1 AGCCTTTGTGGCGATCTATGAAAAAAGA
* *
11028395 AGCCTTTGTGGCTATCTAT-AAAAAGGA
1 AGCCTTTGTGGCGATCTATGAAAAAAGA
*
11028422 AGCATTTGTGGCG
1 AGCCTTTGTGGCG
11028435 CACTCTAAAA
Statistics
Matches: 82, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
27 35 0.43
28 47 0.57
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (28 bp):
AGCCTTTGTGGCGATCTATGAAAAAAGA
Found at i:11028418 original size:55 final size:54
Alignment explanation
Indices: 11028315--11028434 Score: 152
Period size: 55 Copynumber: 2.2 Consensus size: 54
11028305 GTGAGGTAGC
* *
11028315 CTTTGTGGCGATATATGAAAAGGAAGCCTTTGTAGCAATTTATGAAAAAAGAAG
1 CTTTGTGGCGATATATGAAAAAGAAGCCTTTGTAGCAATCTATGAAAAAAGAAG
* * * *
11028369 TCTTTGTGGCGATCTATGAAAAAAGAAGCCTTTGTGGCTATCTAT-AAAAAGGAAG
1 -CTTTGTGGCGATATATG-AAAAAGAAGCCTTTGTAGCAATCTATGAAAAAAGAAG
11028424 CATTTGTGGCG
1 C-TTTGTGGCG
11028435 CACTCTAAAA
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
54 1 0.02
55 34 0.60
56 22 0.39
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (54 bp):
CTTTGTGGCGATATATGAAAAAGAAGCCTTTGTAGCAATCTATGAAAAAAGAAG
Found at i:11031225 original size:25 final size:25
Alignment explanation
Indices: 11031103--11031225 Score: 94
Period size: 25 Copynumber: 5.0 Consensus size: 25
11031093 TGAGTGTCCT
*
11031103 GATATATGGCTCTTCGGAGCTTCCC
1 GATATATGGCTCTTTGGAGCTTCCC
* *
11031128 GAT-TAAGGCTTTTTGTGAGCTTCCC
1 GATATATGGCTCTTTG-GAGCTTCCC
* ** * *
11031153 GTTA-ATGGCTCTTCAGACCTTCTC
1 GATATATGGCTCTTTGGAGCTTCCC
* *
11031177 G--ATATGGCTCACTT-GAACTTCCC
1 GATATATGGCTC-TTTGGAGCTTCCC
*
11031200 GATATATGGCTCTTTGGAGCTACCC
1 GATATATGGCTCTTTGGAGCTTCCC
11031225 G
1 G
11031226 TTTTTGGCTC
Statistics
Matches: 74, Mismatches: 17, Indels: 14
0.70 0.16 0.13
Matches are distributed among these distances:
22 1 0.01
23 15 0.20
24 20 0.27
25 38 0.51
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.34
Consensus pattern (25 bp):
GATATATGGCTCTTTGGAGCTTCCC
Found at i:11031247 original size:72 final size:73
Alignment explanation
Indices: 11031122--11031259 Score: 165
Period size: 72 Copynumber: 1.9 Consensus size: 73
11031112 CTCTTCGGAG
* * *
11031122 CTTCCCGATTAAGGCTTTTTGTGAGCTTCCCGTTAATGGCTCTTCAGACCTTCTCG-ATATGGCT
1 CTTCCCGATTAAGGCTCTTTGTGAGCTACCCGTTAATGGCTCTTCAAACCTTCTCGAATATGGCT
11031186 CACTTGAA
66 CACTTGAA
* ** * *
11031194 CTTCCCGATATATGGCTCTTTG-GAGCTACCCGTTTTTGGCTC-TCACAAGCTTCTTGAATATGG
1 CTTCCCGAT-TAAGGCTCTTTGTGAGCTACCCGTTAATGGCTCTTCA-AACCTTCTCGAATATGG
11031257 CTC
64 CTC
11031260 TTATGAGCTT
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
71 3 0.05
72 33 0.60
73 19 0.35
ACGTcount: A:0.17, C:0.27, G:0.20, T:0.36
Consensus pattern (73 bp):
CTTCCCGATTAAGGCTCTTTGTGAGCTACCCGTTAATGGCTCTTCAAACCTTCTCGAATATGGCT
CACTTGAA
Found at i:11032591 original size:14 final size:13
Alignment explanation
Indices: 11032549--11032605 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 13
11032539 AATAAAACAC
*
11032549 TAAAAAATTATTT
1 TAAAAAAATATTT
* *
11032562 TAAAAATAAAAATT
1 TAAAAA-AATATTT
11032576 TAAAAAAAGTATTT
1 TAAAAAAA-TATTT
11032590 T--AAAAATATTT
1 TAAAAAAATATTT
11032601 TAAAA
1 TAAAA
11032606 TTAAAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
11 6 0.17
12 5 0.14
13 10 0.29
14 14 0.40
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (13 bp):
TAAAAAAATATTT
Found at i:11032619 original size:15 final size:17
Alignment explanation
Indices: 11032589--11032621 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
11032579 AAAAAGTATT
11032589 TTAAAAATATTTTAAAA
1 TTAAAAATATTTTAAAA
11032606 TTAAAAA-A-TTTAAAA
1 TTAAAAATATTTTAAAA
11032621 T
1 T
11032622 ATATATTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAAAATATTTTAAAA
Found at i:11045454 original size:81 final size:81
Alignment explanation
Indices: 11045350--11045512 Score: 308
Period size: 81 Copynumber: 2.0 Consensus size: 81
11045340 TTTTCTAAGC
*
11045350 AGATTTGAATCTCACACTTGAAAGGAAACTTTTAAATTAGTTGAAACCATAACATAGGATGCCTT
1 AGATTTGAATCTCACACTTGAAAGGAAACTTTTAAATTAGTTGAAACCATAACATAGGATACCTT
11045415 CAGTTTGCCTTAGTTA
66 CAGTTTGCCTTAGTTA
*
11045431 AGATTTGAATCTCACACTTGAAAGGAAACTTTTAAATTTGTTGAAACCATAACATAGGATACCTT
1 AGATTTGAATCTCACACTTGAAAGGAAACTTTTAAATTAGTTGAAACCATAACATAGGATACCTT
11045496 CAGTTTGCCTTAGTTA
66 CAGTTTGCCTTAGTTA
11045512 A
1 A
11045513 TACTGTGTTT
Statistics
Matches: 80, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.35, C:0.16, G:0.15, T:0.34
Consensus pattern (81 bp):
AGATTTGAATCTCACACTTGAAAGGAAACTTTTAAATTAGTTGAAACCATAACATAGGATACCTT
CAGTTTGCCTTAGTTA
Found at i:11072239 original size:21 final size:21
Alignment explanation
Indices: 11072213--11072253 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11072203 AGACGAGCAA
* *
11072213 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
11072234 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
11072254 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:11077781 original size:18 final size:18
Alignment explanation
Indices: 11077758--11077794 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
11077748 TCAGAAAAAC
11077758 TAATTAATAGGACAAGAT
1 TAATTAATAGGACAAGAT
11077776 TAATTAATAGGACAAGAT
1 TAATTAATAGGACAAGAT
11077794 T
1 T
11077795 CTAATGCATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.05, G:0.16, T:0.30
Consensus pattern (18 bp):
TAATTAATAGGACAAGAT
Found at i:11077894 original size:18 final size:19
Alignment explanation
Indices: 11077853--11077896 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
11077843 TATTAGAATT
11077853 TTTTTCATAATTATTAATAG
1 TTTTT-ATAATTATTAATAG
*
11077873 -TTTTATAATTTTTAA-AG
1 TTTTTATAATTATTAATAG
11077890 TTTTTAT
1 TTTTTAT
11077897 TTTTATTTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 2 0.09
18 16 0.73
19 4 0.18
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (19 bp):
TTTTTATAATTATTAATAG
Found at i:11081073 original size:23 final size:23
Alignment explanation
Indices: 11081047--11081093 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
11081037 GTAATTATAA
11081047 ATACATGTGTAATAAATATATGT
1 ATACATGTGTAATAAATATATGT
* *
11081070 ATACATTTGTAATTAATATATGT
1 ATACATGTGTAATAAATATATGT
11081093 A
1 A
11081094 CATACTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.43, C:0.04, G:0.11, T:0.43
Consensus pattern (23 bp):
ATACATGTGTAATAAATATATGT
Found at i:11081665 original size:18 final size:17
Alignment explanation
Indices: 11081633--11081668 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
11081623 TAAATGAGTT
*
11081633 AATTAGGATTAAATTGA
1 AATTAAGATTAAATTGA
11081650 AATTAAGATATAAATTGA
1 AATTAAGAT-TAAATTGA
11081668 A
1 A
11081669 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.14, T:0.33
Consensus pattern (17 bp):
AATTAAGATTAAATTGA
Found at i:11082423 original size:21 final size:20
Alignment explanation
Indices: 11082399--11082447 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
11082389 GCACCTCGTA
*
11082399 TGTCGTATCAGGCACATTGTG
1 TGTCGTATCAGGCAC-TTATG
* *
11082420 TGTCATTTCAGGCACTTATG
1 TGTCGTATCAGGCACTTATG
*
11082440 TGACGTAT
1 TGTCGTAT
11082448 ACTGATCAGG
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.20, C:0.18, G:0.24, T:0.37
Consensus pattern (20 bp):
TGTCGTATCAGGCACTTATG
Found at i:11082860 original size:25 final size:25
Alignment explanation
Indices: 11082832--11082882 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
11082822 AATGAAATTG
*
11082832 AGATAGTGAAATATTGCTTATTGAT
1 AGATAGTGAAATATTGCCTATTGAT
11082857 AGATAGTGAAATATTGCCTATTGAT
1 AGATAGTGAAATATTGCCTATTGAT
11082882 A
1 A
11082883 TTAATGATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.37, C:0.06, G:0.20, T:0.37
Consensus pattern (25 bp):
AGATAGTGAAATATTGCCTATTGAT
Found at i:11085407 original size:22 final size:21
Alignment explanation
Indices: 11085377--11085421 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
11085367 ACACCAAAAC
* *
11085377 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCAGCG-TTTTTT
11085399 AGGCCTTTAGCAGCGTTTTTT
1 AGGCCTTTAGCAGCGTTTTTT
11085420 AG
1 AG
11085422 CGCCGCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.13, C:0.18, G:0.27, T:0.42
Consensus pattern (21 bp):
AGGCCTTTAGCAGCGTTTTTT
Found at i:11085557 original size:43 final size:43
Alignment explanation
Indices: 11085503--11085805 Score: 444
Period size: 43 Copynumber: 7.0 Consensus size: 43
11085493 TTAGCGGCAC
*
11085503 TTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCT
1 TTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCT
* * *
11085546 TTTCCCACAAACGACGCTAAAGACCATGATCTTTAACGACGCT
1 TTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCT
* *
11085589 TTTCCGACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCT
1 TTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCT
* *
11085632 TTTCCCACAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCT
1 TTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCT
* * *
11085675 TTTCCGACAAACGCCGCTAAAGACGATGACTTTTAGCGACGCT
1 TTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCT
* * *
11085718 TTTCCGACAAACGCCACTAAAGACCCTGACCTTTAGCGACGCT
1 TTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCT
* **
11085761 TTTCCCAAAAAACGCCGCTAAAGACCACAACCTTTAGCGACGCT
1 TTTCCC-ACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCT
11085805 T
1 T
11085806 AAACAACAAA
Statistics
Matches: 233, Mismatches: 26, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
43 200 0.86
44 33 0.14
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.22
Consensus pattern (43 bp):
TTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGACGCT
Found at i:11085832 original size:129 final size:129
Alignment explanation
Indices: 11085503--11085849 Score: 385
Period size: 129 Copynumber: 2.7 Consensus size: 129
11085493 TTAGCGGCAC
* ** * *** * * *
11085503 TTTCCCACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCCACAAACGACGCTAAAG
1 TTTCCCAAAAACGCCGCTAAAGACCACAACCTTTAGCGACGCTTAAACAACAAACGCCACTAAAG
** * * *
11085568 ACCATGA-TCTTTAACGACGCTTTTCCGACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCT
66 AAGATGACT-TTTAGCGACGCTTTTCCGACAAACGCCACTAAAGACCATGACCTTTAGCGACGCT
* ** * * *** * *
11085632 TTTCCCACAAACGCCGCTAAAGACCATGATCTTTAGCGGCGCTTTTCCGACAAACGCCGCTAAAG
1 TTTCCCAAAAACGCCGCTAAAGACCACAACCTTTAGCGACGCTTAAACAACAAACGCCACTAAAG
* *
11085697 ACGATGACTTTTAGCGACGCTTTTCCGACAAACGCCACTAAAGACCCTGACCTTTAGCGACGCT
66 AAGATGACTTTTAGCGACGCTTTTCCGACAAACGCCACTAAAGACCATGACCTTTAGCGACGCT
11085761 TTTCCCAAAAAACGCCGCTAAAGACCACAACCTTTAGCGACGCTTAAACAACAAACGCCAC-AAT
1 TTTCCC-AAAAACGCCGCTAAAGACCACAACCTTTAGCGACGCTTAAACAACAAACGCCACTAA-
* *
11085825 A-AAGATGAGTTTTAGCGGCGCTTTT
64 AGAAGATGACTTTTAGCGACGCTTTT
11085850 TAACAAACAC
Statistics
Matches: 194, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
129 148 0.76
130 46 0.24
ACGTcount: A:0.30, C:0.31, G:0.18, T:0.22
Consensus pattern (129 bp):
TTTCCCAAAAACGCCGCTAAAGACCACAACCTTTAGCGACGCTTAAACAACAAACGCCACTAAAG
AAGATGACTTTTAGCGACGCTTTTCCGACAAACGCCACTAAAGACCATGACCTTTAGCGACGCT
Found at i:11090836 original size:39 final size:39
Alignment explanation
Indices: 11090793--11090877 Score: 116
Period size: 39 Copynumber: 2.2 Consensus size: 39
11090783 TGGGCCTAGT
* *
11090793 TTTTTTGCGGCGCTTTTCTAAAAACGCCACTAATGCTCA
1 TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
* * * *
11090832 TTTTTAGCGGCGTTTTTCGAAAAGCGCCGCTAATGCTTA
1 TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
11090871 TTTTTAG
1 TTTTTAG
11090878 TGATTTTATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.21, C:0.21, G:0.19, T:0.39
Consensus pattern (39 bp):
TTTTTAGCGGCGCTTTTCGAAAAACGCCACTAATGCTCA
Found at i:11090914 original size:22 final size:21
Alignment explanation
Indices: 11090881--11090921 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
11090871 TTTTTAGTGA
*
11090881 TTTTATTTATTTGTTAAAATT
1 TTTTATTTATTTATTAAAATT
11090902 TTTTATTTTATTTATTAAAA
1 TTTTA-TTTATTTATTAAAA
11090922 ATTATTAGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTATTTATTTATTAAAATT
Found at i:11091285 original size:8 final size:8
Alignment explanation
Indices: 11091274--11091302 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
11091264 AAATATAACT
11091274 CTAAACCC
1 CTAAACCC
11091282 CTAAACCC
1 CTAAACCC
11091290 CT-AACCC
1 CTAAACCC
11091297 CTAAAC
1 CTAAAC
11091303 TTTAAATCCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.35
8 13 0.65
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (8 bp):
CTAAACCC
Found at i:11091322 original size:21 final size:22
Alignment explanation
Indices: 11091283--11091323 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11091273 TCTAAACCCC
11091283 TAAACCCCTAACCCCTAAACTT
1 TAAACCCCTAACCCCTAAACTT
* *
11091305 TAAATCCC-AACCCTTAAAC
1 TAAACCCCTAACCCCTAAAC
11091324 AATAAACCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.22
Consensus pattern (22 bp):
TAAACCCCTAACCCCTAAACTT
Found at i:11091543 original size:16 final size:17
Alignment explanation
Indices: 11091510--11091548 Score: 71
Period size: 16 Copynumber: 2.4 Consensus size: 17
11091500 AAGAACACTA
11091510 TATTTAATATATTAAAT
1 TATTTAATATATTAAAT
11091527 TATTTAATATA-TAAAT
1 TATTTAATATATTAAAT
11091543 TATTTA
1 TATTTA
11091549 TAAAGAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTAATATATTAAAT
Found at i:11091697 original size:21 final size:20
Alignment explanation
Indices: 11091659--11091726 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
11091649 AATTAATCTA
* *
11091659 AACCCTAAATCCTAAACCCCT
1 AACCTTAAA-CCTCAACCCCT
11091680 AACTCTT-AACTCTCAACCCCT
1 AAC-CTTAAAC-CTCAACCCCT
*
11091701 AAACCTTAAACCTCAACCCTT
1 -AACCTTAAACCTCAACCCCT
11091722 AACCT
1 AACCT
11091727 ATAACATTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
20 6 0.15
21 26 0.65
22 8 0.20
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (20 bp):
AACCTTAAACCTCAACCCCT
Found at i:11091785 original size:7 final size:7
Alignment explanation
Indices: 11091734--11091822 Score: 61
Period size: 7 Copynumber: 12.6 Consensus size: 7
11091724 CCTATAACAT
11091734 TAAACCA
1 TAAACCA
*
11091741 TAAACCG
1 TAAACCA
* * *
11091748 CAACCCT
1 TAAACCA
*
11091755 TAAACCC
1 TAAACCA
* *
11091762 TAAATCT
1 TAAACCA
11091769 TAAACCA
1 TAAACCA
*
11091776 TAAACTA
1 TAAACCA
11091783 TAAACCA
1 TAAACCA
* *
11091790 TAACCCT
1 TAAACCA
11091797 TAAACTCA
1 TAAAC-CA
*
11091805 TAATCCA
1 TAAACCA
*
11091812 TAAACCT
1 TAAACCA
11091819 TAAA
1 TAAA
11091823 ATAGTAACTC
Statistics
Matches: 61, Mismatches: 20, Indels: 2
0.73 0.24 0.02
Matches are distributed among these distances:
7 56 0.92
8 5 0.08
ACGTcount: A:0.47, C:0.29, G:0.01, T:0.22
Consensus pattern (7 bp):
TAAACCA
Found at i:11091812 original size:22 final size:21
Alignment explanation
Indices: 11091733--11091880 Score: 82
Period size: 21 Copynumber: 7.0 Consensus size: 21
11091723 ACCTATAACA
* ** *
11091733 TTAAACCATAAACCGCAACCC
1 TTAAACTATAAACCATAAACC
** * *
11091754 TTAAACCCTAAATCTTAAACC
1 TTAAACTATAAACCATAAACC
* *
11091775 ATAAACTATAAACCATAACCC
1 TTAAACTATAAACCATAAACC
*
11091796 TTAAACTCATAATCCATAAACC
1 TTAAACT-ATAAACCATAAACC
* *
11091818 TTAAAATAGT-AACTCTTAAACC
1 TTAAACTA-TAAAC-CATAAACC
* * *
11091840 TTAAACTCTAAATCATATACC
1 TTAAACTATAAACCATAAACC
* * * *
11091861 CTAAACCAAAAACCTTAAAC
1 TTAAACTATAAACCATAAAC
11091881 TATAGAGATA
Statistics
Matches: 94, Mismatches: 29, Indels: 8
0.72 0.22 0.06
Matches are distributed among these distances:
21 60 0.64
22 34 0.36
ACGTcount: A:0.47, C:0.28, G:0.01, T:0.24
Consensus pattern (21 bp):
TTAAACTATAAACCATAAACC
Found at i:11092162 original size:19 final size:20
Alignment explanation
Indices: 11092136--11092181 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
11092126 ATAGAATTTT
11092136 AATT-AATA-TAAATAAACA
1 AATTAAATAGTAAATAAACA
* *
11092154 AATTAAATAGTAATTAGACA
1 AATTAAATAGTAAATAAACA
*
11092174 AATAAAAT
1 AATTAAAT
11092182 GTTTTTGCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 4 0.17
19 4 0.17
20 15 0.65
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
AATTAAATAGTAAATAAACA
Found at i:11092249 original size:41 final size:41
Alignment explanation
Indices: 11092192--11092296 Score: 174
Period size: 41 Copynumber: 2.6 Consensus size: 41
11092182 GTTTTTGCGA
* *
11092192 CGCTTTTCCAAAAACGCTGCTAAAGACCAGAGCATTAGCGG
1 CGCTTTTCCAAAAACGCCGCTAAAAACCAGAGCATTAGCGG
*
11092233 CGCTTCTCCAAAAACGCCGCTAAAAACCAGAGCATTAGCGG
1 CGCTTTTCCAAAAACGCCGCTAAAAACCAGAGCATTAGCGG
*
11092274 CGCTTTTCTAAAAACGCCGCTAA
1 CGCTTTTCCAAAAACGCCGCTAA
11092297 TGTCCCGAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.32, C:0.30, G:0.19, T:0.19
Consensus pattern (41 bp):
CGCTTTTCCAAAAACGCCGCTAAAAACCAGAGCATTAGCGG
Found at i:11095466 original size:2 final size:2
Alignment explanation
Indices: 11095459--11095485 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11095449 GCAAAAGCAG
11095459 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
11095486 GAGAGAGAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11095490 original size:2 final size:2
Alignment explanation
Indices: 11095485--11095512 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
11095475 ATATATATAT
11095485 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11095513 GTTATAGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11103554 original size:9 final size:9
Alignment explanation
Indices: 11103540--11103570 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
11103530 GTTCAACGAA
11103540 TCGAGTTAT
1 TCGAGTTAT
*
11103549 TCGAGTTAA
1 TCGAGTTAT
11103558 TCGAGTTAT
1 TCGAGTTAT
11103567 TCGA
1 TCGA
11103571 ATCAACTCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:11106348 original size:23 final size:24
Alignment explanation
Indices: 11106321--11106376 Score: 62
Period size: 24 Copynumber: 2.3 Consensus size: 24
11106311 TCCAGGTTGT
11106321 ATAATGGGAAACTCATA-AGAGCC-
1 ATAATGGGAAACTCA-AGAGAGCCA
* *
11106344 ATAATTGGGAAGCTCAAGCGAGCCA
1 ATAA-TGGGAAACTCAAGAGAGCCA
11106369 ATAATGGG
1 ATAATGGG
11106377 TAGCTCCGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
23 5 0.18
24 19 0.68
25 4 0.14
ACGTcount: A:0.39, C:0.16, G:0.27, T:0.18
Consensus pattern (24 bp):
ATAATGGGAAACTCAAGAGAGCCA
Found at i:11106390 original size:24 final size:24
Alignment explanation
Indices: 11106363--11106522 Score: 74
Period size: 24 Copynumber: 6.5 Consensus size: 24
11106353 AAGCTCAAGC
* *
11106363 GAGCCAATAATGGGTAGCTCCGAA
1 GAGCCAATAACGGGAAGCTCCGAA
* * *
11106387 GAGCTATTAACGGGAAGCTCCGGA
1 GAGCCAATAACGGGAAGCTCCGAA
* * **
11106411 TAGCCATATATCGGGAAG-T-TTAA
1 GAGCCA-ATAACGGGAAGCTCCGAA
* * *
11106434 GCAAGCC-ATATCGGGAAGCTTCGGA
1 G--AGCCAATAACGGGAAGCTCCGAA
* *
11106459 GAGCCATTAACGGGAAGCTCACAAA
1 GAGCCAATAACGGGAAGCTC-CGAA
** * *
11106484 GAGCCTTTAATCAGGAAGCTCACAAA
1 GAGCCAATAA-CGGGAAGCTC-CGAA
11106510 GAGCCATATAACG
1 GAGCCA-ATAACG
11106523 AGACGCTCAT
Statistics
Matches: 101, Mismatches: 26, Indels: 16
0.71 0.18 0.11
Matches are distributed among these distances:
23 16 0.16
24 36 0.36
25 26 0.26
26 20 0.20
27 3 0.03
ACGTcount: A:0.34, C:0.21, G:0.26, T:0.18
Consensus pattern (24 bp):
GAGCCAATAACGGGAAGCTCCGAA
Found at i:11106418 original size:72 final size:72
Alignment explanation
Indices: 11106340--11106478 Score: 174
Period size: 72 Copynumber: 1.9 Consensus size: 72
11106330 AACTCATAAG
* * * *
11106340 AGCCATA-ATTGGGAAGCTCAAGCGAGCCAATAAT-GGGTAGCTCCGAAGAGCTATTAACGGGAA
1 AGCCATATATCGGGAAGCTCAAGCAAGCC-AT-ATCGGGAAGCTCCGAAGAGCCATTAACGGGAA
11106403 GCTCCGGAT
64 GCTCCGGAT
* * * *
11106412 AGCCATATATCGGGAAGTTTAAGCAAGCCATATCGGGAAGCTTCGGAGAGCCATTAACGGGAAGC
1 AGCCATATATCGGGAAGCTCAAGCAAGCCATATCGGGAAGCTCCGAAGAGCCATTAACGGGAAGC
11106477 TC
66 TC
11106479 ACAAAGAGCC
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
71 2 0.04
72 38 0.67
73 17 0.30
ACGTcount: A:0.32, C:0.21, G:0.29, T:0.19
Consensus pattern (72 bp):
AGCCATATATCGGGAAGCTCAAGCAAGCCATATCGGGAAGCTCCGAAGAGCCATTAACGGGAAGC
TCCGGAT
Found at i:11106463 original size:23 final size:22
Alignment explanation
Indices: 11106397--11106477 Score: 63
Period size: 23 Copynumber: 3.4 Consensus size: 22
11106387 GAGCTATTAA
*
11106397 CGGGAAGCTCCGGATAGCCATATAT
1 CGGGAAGCTTCGGA-AGCC--ATAT
* * *
11106422 CGGGAAGTTTAAGCAAGCCATAT
1 CGGGAAGCTT-CGGAAGCCATAT
*
11106445 CGGGAAGCTTCGGAGAGCCATTAA
1 CGGGAAGCTTCGGA-AGCCA-TAT
11106469 CGGGAAGCT
1 CGGGAAGCT
11106478 CACAAAGAGC
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
22 2 0.04
23 18 0.40
24 11 0.24
25 12 0.27
26 2 0.04
ACGTcount: A:0.30, C:0.21, G:0.31, T:0.19
Consensus pattern (22 bp):
CGGGAAGCTTCGGAAGCCATAT
Found at i:11106493 original size:25 final size:26
Alignment explanation
Indices: 11106458--11106516 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
11106448 GAAGCTTCGG
*
11106458 AGAGCCATTAA-CGGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
*
11106483 AGAGCCTTTAATCAGGAAGCTCACAA
1 AGAGCCATTAATCAGGAAGCTCACAA
11106509 AGAGCCAT
1 AGAGCCAT
11106517 ATAACGAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (26 bp):
AGAGCCATTAATCAGGAAGCTCACAA
Found at i:11106530 original size:26 final size:25
Alignment explanation
Indices: 11106458--11106531 Score: 87
Period size: 26 Copynumber: 2.9 Consensus size: 25
11106448 GAAGCTTCGG
*
11106458 AGAGCCATTAACGGGAAGCTCACAA
1 AGAGCCATTAACGAGAAGCTCACAA
*
11106483 AGAGCCTTTAATC-AGGAAGCTCACAA
1 AGAGCCATTAA-CGA-GAAGCTCACAA
*
11106509 AGAGCCATATAACGAGACGCTCA
1 AGAGCCAT-TAACGAGAAGCTCA
11106532 TAGGAGTTAT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 10 0.24
26 27 0.66
27 4 0.10
ACGTcount: A:0.39, C:0.24, G:0.22, T:0.15
Consensus pattern (25 bp):
AGAGCCATTAACGAGAAGCTCACAA
Found at i:11111307 original size:17 final size:17
Alignment explanation
Indices: 11111285--11111317 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11111275 CTACATATGT
11111285 TTTTCATTTTCTTTCAC
1 TTTTCATTTTCTTTCAC
*
11111302 TTTTCATTTTGTTTCA
1 TTTTCATTTTCTTTCA
11111318 TTTAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.18, G:0.03, T:0.67
Consensus pattern (17 bp):
TTTTCATTTTCTTTCAC
Found at i:11112319 original size:20 final size:19
Alignment explanation
Indices: 11112294--11112339 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
11112284 AATATATATG
11112294 TACACATGCATGTTTT-AAAA
1 TACACATG--TGTTTTCAAAA
*
11112314 TACACATGTTTTTTCAAAA
1 TACACATGTGTTTTCAAAA
11112333 TACACAT
1 TACACAT
11112340 TTTTTTATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 11 0.46
20 8 0.33
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (19 bp):
TACACATGTGTTTTCAAAA
Found at i:11112351 original size:17 final size:18
Alignment explanation
Indices: 11112306--11112351 Score: 67
Period size: 19 Copynumber: 2.6 Consensus size: 18
11112296 CACATGCATG
11112306 TTTTAAAATACACATGTT
1 TTTTAAAATACACATGTT
11112324 TTTTCAAAATACACAT-TT
1 TTTT-AAAATACACATGTT
*
11112342 TTTTATAATA
1 TTTTAAAATA
11112352 TACCTATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 10 0.38
19 11 0.42
ACGTcount: A:0.39, C:0.11, G:0.02, T:0.48
Consensus pattern (18 bp):
TTTTAAAATACACATGTT
Found at i:11113598 original size:11 final size:11
Alignment explanation
Indices: 11113582--11113638 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
11113572 AAGTAAATCC
11113582 TAATCTAATAT
1 TAATCTAATAT
*
11113593 TAATCTAACAT
1 TAATCTAATAT
* *
11113604 TGATCTCTAATGT
1 T-A-ATCTAATAT
11113617 TAATCTAATAT
1 TAATCTAATAT
*
11113628 TTATCTTAATA
1 TAATC-TAATA
11113639 CTGCCGGAGA
Statistics
Matches: 36, Mismatches: 7, Indels: 5
0.75 0.15 0.10
Matches are distributed among these distances:
11 22 0.61
12 7 0.19
13 7 0.19
ACGTcount: A:0.39, C:0.12, G:0.04, T:0.46
Consensus pattern (11 bp):
TAATCTAATAT
Found at i:11113612 original size:24 final size:24
Alignment explanation
Indices: 11113585--11113638 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
11113575 TAAATCCTAA
11113585 TCTAATATTAATCTAACATTGATC
1 TCTAATATTAATCTAACATTGATC
* * *
11113609 TCTAATGTTAATCTAATATTTATC
1 TCTAATATTAATCTAACATTGATC
11113633 T-TAATA
1 TCTAATA
11113639 CTGCCGGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.37, C:0.13, G:0.04, T:0.46
Consensus pattern (24 bp):
TCTAATATTAATCTAACATTGATC
Found at i:11120708 original size:28 final size:27
Alignment explanation
Indices: 11120677--11120729 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
11120667 CTTTTGAATA
*
11120677 AATAAATTCTCTTTGAGTTTTTTTTTTC
1 AATAAATTCTC-TTGAGTTTTCTTTTTC
*
11120705 AATAATTTCTCTTGAGTTTTCTTTT
1 AATAAATTCTCTTGAGTTTTCTTTT
11120730 AAAAGAGTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.21, C:0.11, G:0.08, T:0.60
Consensus pattern (27 bp):
AATAAATTCTCTTGAGTTTTCTTTTTC
Found at i:11122433 original size:6 final size:6
Alignment explanation
Indices: 11122422--11122478 Score: 53
Period size: 6 Copynumber: 8.8 Consensus size: 6
11122412 ACTAGGATAG
*
11122422 GAAAAA GAAAAA GAAGAAAA GAAAAA GAGGAAGAT GAAAAA G-AAAA GAAAAA
1 GAAAAA GAAAAA G-A-AAAA GAAAAA GA--AA-AA GAAAAA GAAAAA GAAAAA
11122474 GAAAA
1 GAAAA
11122479 GAGGCCAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
5 5 0.12
6 24 0.56
7 4 0.09
8 7 0.16
9 3 0.07
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (6 bp):
GAAAAA
Found at i:11122447 original size:20 final size:20
Alignment explanation
Indices: 11122422--11122476 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
11122412 ACTAGGATAG
11122422 GAAAAAGAAAAAGAAGAAAA
1 GAAAAAGAAAAAGAAGAAAA
** *
11122442 GAAAAAGAGGAAGATGAAAA
1 GAAAAAGAAAAAGAAGAAAA
11122462 -AGAAAAGAAAAAGAA
1 GA-AAAAGAAAAAGAA
11122477 AAGAGGCCAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.02
Consensus pattern (20 bp):
GAAAAAGAAAAAGAAGAAAA
Found at i:11122600 original size:33 final size:29
Alignment explanation
Indices: 11122578--11122633 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
11122568 AGTGAACAGA
11122578 AAAAAAAGTT-TAAGTATCAATATGGAAC
1 AAAAAAAGTTATAAGTATCAATATGGAAC
*
11122606 AAAAAAATTTATAAGTATCAATATGGAA
1 AAAAAAAGTTATAAGTATCAATATGGAA
11122634 AAAGTGAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 9 0.35
29 17 0.65
ACGTcount: A:0.55, C:0.05, G:0.12, T:0.27
Consensus pattern (29 bp):
AAAAAAAGTTATAAGTATCAATATGGAAC
Found at i:11125516 original size:45 final size:45
Alignment explanation
Indices: 11125371--11125820 Score: 308
Period size: 44 Copynumber: 10.0 Consensus size: 45
11125361 ATAAGACTTG
* * *
11125371 TATCTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTGCT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-T
* * * ***
11125417 T-TCTTCGATCTACTTC-ACGCCAGTACATGAAGACAAGA-CTTGT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATC-TGT
* ** * *
11125460 T-TTTTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGATCTGT
1 TATCTTT-GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * *** *
11125505 TATCTTTGATCTACTTC-ACGCCAGTACATGAAGAAAAGATTTACT-T
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGA--T-CTGT
* * ** *
11125551 TTTCCTTCGATC-AGCTTCGCCACCAGTATGGGAAGGTAAGATATGT
1 TAT-CTTTGATCTA-CTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * ***
11125597 TATCTTTGATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG--T
* * * *
11125643 TTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGT
1 TAT-CTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * * **
11125689 TACCTTTGATCTACTTC-ACGCCAGTATATGAAGACAAGATCTGT
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
*
11125733 TTTCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
* * * * * * *
11125777 TATATTCGATCCACTTCGCTACCAATATAGGAAGACATGATCTG
1 TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG
11125821 CTGCTTTTCA
Statistics
Matches: 307, Mismatches: 79, Indels: 38
0.72 0.19 0.09
Matches are distributed among these distances:
43 6 0.02
44 132 0.43
45 88 0.29
46 21 0.07
47 25 0.08
48 35 0.11
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (45 bp):
TATCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
Found at i:11125813 original size:181 final size:180
Alignment explanation
Indices: 11125373--11125793 Score: 577
Period size: 181 Copynumber: 2.3 Consensus size: 180
11125363 AAGACTTGTA
* * *
11125373 TCTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCC
* *
11125438 AGTACATGAAGACAAGA-CTTG-TTTTTTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGAT
66 AGTACATGAAGACAAGATC-TGCTTTTTTTCGATCTGCTTCGCCACCAGTATGGGAGGACAAGAT
*
11125501 CTGTTATCTTTGATCTACTTCACGCCAGTACATGAAGAAAAGATTTACTTTT
130 CTGTTACCTTTGATCTACTTCACGCCAGTACATGAAGAAAAGA-TTACTTTT
** * * *
11125553 TCCTTCGATC-AGCTTCGCCACCAGTATGGGAAGGTAAGATATGTTATCTTTGATCTACTTCACG
1 T-CTTCGATCTA-CTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACG
11125617 CCAGTACATGAAGACAAGATCTGCTTTTTCCTTCGATCTGCTTCGCCACCAGTATGGGAAGG-CA
64 CCAGTACATGAAGACAAGATCTGCTTTTT--TTCGATCTGCTTCGCCACCAGTATGGG-AGGACA
* *
11125681 AGATCTGTTACCTTTGATCTACTTCACGCCAGTATATGAAGACAAGA-T-CTGTTT
126 AGATCTGTTACCTTTGATCTACTTCACGCCAGTACATGAAGAAAAGATTACT-TTT
* * *
11125735 TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TATATTCGATCCACTTC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTC
11125794 GCTACCAATA
Statistics
Matches: 212, Mismatches: 20, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
180 16 0.08
181 110 0.52
182 12 0.06
184 71 0.33
185 3 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.32
Consensus pattern (180 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGCTTTTTTTCGATCTGCTTCGCCACCAGTATGGGAGGACAAGATC
TGTTACCTTTGATCTACTTCACGCCAGTACATGAAGAAAAGATTACTTTT
Found at i:11125820 original size:89 final size:89
Alignment explanation
Indices: 11125373--11125777 Score: 539
Period size: 92 Copynumber: 4.5 Consensus size: 89
11125363 AAGACTTGTA
* * *
11125373 TCTTCGATCTACTTCACCACCAGTAGGGGAAGACAAGATCTGCTT-TCTTCGATCTACTTCACGC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTATCTTTGATCTACTTCACGC
11125437 CAGTACATGAAGACAAGA-CTTGTTT
65 CAGTACATGAAGACAAGATC-TGTTT
* ** * *
11125462 TTTTCGATCTGTTTCGCCACCAGTATGGGAGGACCAGATCTGTTATCTTTGATCTACTTCACGCC
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
*
11125527 AGTACATGAAGAAAAGATTTACT-TTT
66 AGTACATGAAGACAAGA--T-CTGTTT
** *
11125553 TCCTTCGATC-AGCTTCGCCACCAGTATGGGAAGGTAAGATATGTTATCTTTGATCTACTTCACG
1 T-CTTCGATCTA-CTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACG
11125617 CCAGTACATGAAGACAAGATCTGCTTTT
64 CCAGTACATGAAGACAAGATCTG--TTT
* * *
11125645 TCCTTCGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTGTTACCTTTGATCTACTTCACGC
1 T-CTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGC
*
11125710 CAGTATATGAAGACAAGATCTGTTT
65 CAGTACATGAAGACAAGATCTGTTT
*
11125735 TCTTTGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
1 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGT
11125778 ATATTCGATC
Statistics
Matches: 279, Mismatches: 26, Indels: 22
0.85 0.08 0.07
Matches are distributed among these distances:
88 2 0.01
89 111 0.40
90 5 0.02
91 4 0.01
92 156 0.56
93 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (89 bp):
TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTTGATCTACTTCACGCC
AGTACATGAAGACAAGATCTGTTT
Found at i:11133908 original size:20 final size:20
Alignment explanation
Indices: 11133883--11133922 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
11133873 TGAAGGTCTT
*
11133883 TAATGCATATGATGTGATGC
1 TAATGCATATGATGCGATGC
11133903 TAATGCATATGATGCGATGC
1 TAATGCATATGATGCGATGC
11133923 ATGAGGTGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (20 bp):
TAATGCATATGATGCGATGC
Found at i:11137321 original size:14 final size:14
Alignment explanation
Indices: 11137302--11137341 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
11137292 TCAACATACA
*
11137302 CAAATACATATTTG
1 CAAATACATATATG
*
11137316 CAAATATATATATG
1 CAAATACATATATG
11137330 CAAATACA-ATAT
1 CAAATACATATAT
11137342 AACAATAAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (14 bp):
CAAATACATATATG
Found at i:11147712 original size:20 final size:20
Alignment explanation
Indices: 11147687--11147736 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
11147677 TGGCTTAAAA
11147687 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
11147707 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
11147724 GTGGTAGTGGATT
1 TTGGTAGTGGATT
11147737 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:11152350 original size:20 final size:20
Alignment explanation
Indices: 11152325--11152374 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
11152315 TGGCTTAAAA
11152325 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
11152345 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
11152362 GTGGTAGTGGATT
1 TTGGTAGTGGATT
11152375 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:11157062 original size:18 final size:19
Alignment explanation
Indices: 11157033--11157068 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
11157023 TAATAAATAT
11157033 TAAAAAATTATTTTAAAAA
1 TAAAAAATTATTTTAAAAA
11157052 TAAAAAA-TATTTTAAAA
1 TAAAAAATTATTTTAAAA
11157069 GTATTTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAAAATTATTTTAAAAA
Found at i:11157068 original size:29 final size:29
Alignment explanation
Indices: 11157027--11157089 Score: 90
Period size: 29 Copynumber: 2.2 Consensus size: 29
11157017 ATTTTTTAAT
*
11157027 AAATATTAAAAAATTATTTTAAAAATAAA
1 AAATATTAAAAAAGTATTTTAAAAATAAA
** *
11157056 AAATATTTTAAAAGTATTTTAAAATTAAA
1 AAATATTAAAAAAGTATTTTAAAAATAAA
11157085 AAATA
1 AAATA
11157090 AAAATAAGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (29 bp):
AAATATTAAAAAAGTATTTTAAAAATAAA
Found at i:11160666 original size:31 final size:31
Alignment explanation
Indices: 11160628--11160687 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
11160618 TTTAATTTAA
* *
11160628 TCAATTTTTGTCCAGGTACTTTTCAAATTGG
1 TCAATTTTAGTCCAGATACTTTTCAAATTGG
**
11160659 TCAATTTTAGTCCTTATACTTTTCAAATT
1 TCAATTTTAGTCCAGATACTTTTCAAATT
11160688 TTGAAGTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.25, C:0.17, G:0.10, T:0.48
Consensus pattern (31 bp):
TCAATTTTAGTCCAGATACTTTTCAAATTGG
Found at i:11162270 original size:16 final size:18
Alignment explanation
Indices: 11162239--11162271 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
11162229 TCTAGAGTCA
11162239 AAGAAAAGCTTTAATAAG
1 AAGAAAAGCTTTAATAAG
11162257 AAGAAAA-C-TTAATAA
1 AAGAAAAGCTTTAATAA
11162272 AACTCTACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (18 bp):
AAGAAAAGCTTTAATAAG
Found at i:11162482 original size:14 final size:14
Alignment explanation
Indices: 11162463--11162493 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
11162453 GGTAGGCAAC
*
11162463 TTTTTTTTGCGGTT
1 TTTTTTTTGCGCTT
11162477 TTTTTTTTGCGCTT
1 TTTTTTTTGCGCTT
11162491 TTT
1 TTT
11162494 ACTTCTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.16, T:0.74
Consensus pattern (14 bp):
TTTTTTTTGCGCTT
Found at i:11163117 original size:31 final size:32
Alignment explanation
Indices: 11163058--11163122 Score: 114
Period size: 32 Copynumber: 2.1 Consensus size: 32
11163048 GGAAAATTAC
11163058 AAGAGTAACTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAACTGAATCCTAATAAAAACTCTTTA
*
11163090 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAACTGAATCCTAATAAAAACTCTTTA
11163121 AA
1 AA
11163123 ATTATCTAAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (32 bp):
AAGAGTAACTGAATCCTAATAAAAACTCTTTA
Found at i:11166548 original size:41 final size:41
Alignment explanation
Indices: 11166447--11166551 Score: 131
Period size: 41 Copynumber: 2.6 Consensus size: 41
11166437 TTTAAACAGA
* * * ** *
11166447 TTCACTGGCACTTCA-CCTGATAGGCTTATAGTTTAATTCCG
1 TTCACCGGCACTT-AGCCTGCTAGGCCTATAGCCTAATTCAG
*
11166488 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCAG
1 TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTAATTCAG
11166529 TTCACCGGCACTTAGCCTGCTAG
1 TTCACCGGCACTTAGCCTGCTAG
11166552 ACGTATAGTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 1 0.02
41 55 0.98
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (41 bp):
TTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTAATTCAG
Found at i:11166559 original size:41 final size:41
Alignment explanation
Indices: 11166482--11166564 Score: 130
Period size: 41 Copynumber: 2.0 Consensus size: 41
11166472 TTATAGTTTA
* *
11166482 ATTCCGTTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTG
* *
11166523 ATTCAGTTCACCGGCACTTAGCCTGCTAGACGTATAGTCTG
1 ATTCAGTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTG
11166564 A
1 A
11166565 ATAATTTCAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.20, C:0.30, G:0.22, T:0.28
Consensus pattern (41 bp):
ATTCAGTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTG
Found at i:11166574 original size:41 final size:41
Alignment explanation
Indices: 11166487--11166579 Score: 123
Period size: 41 Copynumber: 2.3 Consensus size: 41
11166477 GTTTAATTCC
* * *
11166487 GTTCACCGGCACTTAGCCTGCTAGGCCTATAGCCTGATTCA
1 GTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTGAATAA
* *
11166528 GTTCACCGGCACTTAGCCTGCTAGACGTATAGTCTGAATAA
1 GTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTGAATAA
* *
11166569 TTTCACTGGCA
1 GTTCACCGGCA
11166580 ATAAATCCGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.23, C:0.28, G:0.22, T:0.28
Consensus pattern (41 bp):
GTTCACCGGCACTTAGCCTGCTAGACCTATAGCCTGAATAA
Found at i:11173066 original size:25 final size:26
Alignment explanation
Indices: 11173032--11173080 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
11173022 ACATATTTTC
11173032 TCAAAGTTTTACTA-GGGTAAAATCA
1 TCAAAGTTTTACTAGGGGTAAAATCA
*
11173057 TCAAATTTTTACTAGGGGTAAAAT
1 TCAAAGTTTTACTAGGGGTAAAAT
11173081 AAGGATGAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (26 bp):
TCAAAGTTTTACTAGGGGTAAAATCA
Done.