Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr5
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: 39371879
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2227820 characters in sequence are not A, C, G, or T
File 69 of 103
Found at i:25910668 original size:10 final size:10
Alignment explanation
Indices: 25910610--25910686 Score: 57
Period size: 10 Copynumber: 7.3 Consensus size: 10
25910600 CTACAAAAAG
25910610 AAAATAAATA
1 AAAATAAATA
* *
25910620 AAGATTAATGTA
1 AA-AATAA-ATA
25910632 AAAATAAATAA
1 AAAATAAAT-A
25910643 AATAATAAAATA
1 AA-AAT-AAATA
*
25910655 AAAATAACTA
1 AAAATAAATA
25910665 AAAATAAA-A
1 AAAATAAATA
* *
25910674 TAAATAAAGA
1 AAAATAAATA
25910684 AAA
1 AAA
25910687 GGGTTTTTTT
Statistics
Matches: 53, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
9 8 0.15
10 17 0.32
11 14 0.26
12 10 0.19
13 4 0.08
ACGTcount: A:0.74, C:0.01, G:0.04, T:0.21
Consensus pattern (10 bp):
AAAATAAATA
Found at i:25910673 original size:15 final size:14
Alignment explanation
Indices: 25910637--25910681 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
25910627 ATGTAAAAAT
25910637 AAATAAAATAAT-A
1 AAATAAAATAATAA
25910650 AAATAAAAATAACTAA
1 AAAT-AAAATAA-TAA
25910666 AAATAAAATAAATAA
1 AAATAAAAT-AATAA
25910681 A
1 A
25910682 GAAAAGGGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
13 4 0.14
14 7 0.25
15 10 0.36
16 7 0.25
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (14 bp):
AAATAAAATAATAA
Found at i:25917182 original size:19 final size:20
Alignment explanation
Indices: 25917158--25917203 Score: 85
Period size: 19 Copynumber: 2.4 Consensus size: 20
25917148 ACTTCTAAAC
25917158 CTCAAATCATACTCCAAT-A
1 CTCAAATCATACTCCAATAA
25917177 CTCAAATCATACTCCAATAA
1 CTCAAATCATACTCCAATAA
25917197 CTCAAAT
1 CTCAAAT
25917204 GGGGCCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.26
Consensus pattern (20 bp):
CTCAAATCATACTCCAATAA
Found at i:25919803 original size:20 final size:21
Alignment explanation
Indices: 25919778--25919828 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 21
25919768 GAACAAATAA
25919778 TTTTATTAATTATTTTTT-AC
1 TTTTATTAATTATTTTTTAAC
*
25919798 TTTTA-T-A-TATTTTTTAAT
1 TTTTATTAATTATTTTTTAAC
25919816 TTTTATATAATTA
1 TTTTAT-TAATTA
25919829 ATTATATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 8
0.74 0.03 0.24
Matches are distributed among these distances:
17 8 0.32
18 7 0.28
19 1 0.04
20 6 0.24
21 1 0.04
22 2 0.08
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTTTATTAATTATTTTTTAAC
Found at i:25920103 original size:65 final size:64
Alignment explanation
Indices: 25919999--25920127 Score: 249
Period size: 65 Copynumber: 2.0 Consensus size: 64
25919989 GGTTTAAAGA
25919999 TTCAATTATGATAAGGTGGGAAAAAGGACCCATAACTATATATATATATATATACACACACACG
1 TTCAATTATGATAAGGTGGGAAAAAGGACCCATAACTATATATATATATATATACACACACACG
25920063 NTTCAATTATGATAAGGTGGGAAAAAGGACCCATAACTATATATATATATATATACACACACACG
1 -TTCAATTATGATAAGGTGGGAAAAAGGACCCATAACTATATATATATATATATACACACACACG
25920128 CACCATGAAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 64 1.00
ACGTcount: A:0.43, C:0.16, G:0.14, T:0.26
Consensus pattern (64 bp):
TTCAATTATGATAAGGTGGGAAAAAGGACCCATAACTATATATATATATATATACACACACACG
Found at i:25921039 original size:10 final size:10
Alignment explanation
Indices: 25921024--25921059 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
25921014 TTTTATTAAT
25921024 TATTTTTTTA
1 TATTTTTTTA
25921034 TATTTTTTTA
1 TATTTTTTTA
*
25921044 -ATTTTTATA
1 TATTTTTTTA
25921053 TATTTTT
1 TATTTTT
25921060 AATATAATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TATTTTTTTA
Found at i:25921048 original size:17 final size:17
Alignment explanation
Indices: 25921028--25921062 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
25921018 ATTAATTATT
*
25921028 TTTTTATATTTTTTTAA
1 TTTTTATATATTTTTAA
25921045 TTTTTATATATTTTTAA
1 TTTTTATATATTTTTAA
25921062 T
1 T
25921063 ATAATTAATT
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:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTTTATATATTTTTAA
Found at i:25921065 original size:11 final size:10
Alignment explanation
Indices: 25921024--25921064 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
25921014 TTTTATTAAT
*
25921024 TATTTTTTTA
1 TATTTTTATA
*
25921034 TATTTTTTTA
1 TATTTTTATA
25921044 -ATTTTTATA
1 TATTTTTATA
25921053 TATTTTTA-A
1 TATTTTTATA
25921062 TAT
1 TAT
25921065 AATTAATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
9 12 0.41
10 17 0.59
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TATTTTTATA
Found at i:25929942 original size:42 final size:42
Alignment explanation
Indices: 25929882--25929967 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
25929872 AATAAATAGA
* * *
25929882 TTACTTGCAGCTCTAGATTAGACTTTTAAGAATATGATGTTT
1 TTACTTGCAGCTCGAGATTAGACTTTAAACAATATGATGTTT
*
25929924 TTACTTGCAGCTCGAGATTAGAGTTTAAACAATATGATGTTT
1 TTACTTGCAGCTCGAGATTAGACTTTAAACAATATGATGTTT
25929966 TT
1 TT
25929968 CTTCACATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.42
Consensus pattern (42 bp):
TTACTTGCAGCTCGAGATTAGACTTTAAACAATATGATGTTT
Found at i:25935444 original size:31 final size:31
Alignment explanation
Indices: 25935398--25935470 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
25935388 ATATGATTTC
* *
25935398 TCTTTTCAGCTTTCTAGACTCTAGAGTCCCTAT
1 TCTTTT-AG-TTTCTACACTCTAGAGTCCCCAT
25935431 TCTTTTAGTTTCTACACTCTAGAGTCCCCAT
1 TCTTTTAGTTTCTACACTCTAGAGTCCCCAT
25935462 TCTTTTAGT
1 TCTTTTAGT
25935471 ACCTAACACC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
31 30 0.79
32 2 0.05
33 6 0.16
ACGTcount: A:0.18, C:0.26, G:0.11, T:0.45
Consensus pattern (31 bp):
TCTTTTAGTTTCTACACTCTAGAGTCCCCAT
Found at i:25940933 original size:3 final size:3
Alignment explanation
Indices: 25940927--25940976 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
25940917 TTATTGTCAT
* * * *
25940927 TTA TTA TTA ATA TT- TT- TTA TTT TTA TTA TTA TTA TTC TTA TTA TTT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
25940973 TTA T
1 TTA T
25940977 ACCTTACATT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
2 4 0.11
3 34 0.89
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:25941101 original size:26 final size:23
Alignment explanation
Indices: 25941072--25941123 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 23
25941062 ACTGAAAAAC
*
25941072 TTATTTTTTTATGATTTTATTTATTT
1 TTATTTTTTTA-AATTTT-TTT-TTT
25941098 TTATTTTTTTAAATTTTTTTTTT
1 TTATTTTTTTAAATTTTTTTTTT
25941121 TTA
1 TTA
25941124 AAAAAAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 6 0.24
24 3 0.12
25 5 0.20
26 11 0.44
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (23 bp):
TTATTTTTTTAAATTTTTTTTTT
Found at i:25941113 original size:16 final size:15
Alignment explanation
Indices: 25941094--25941125 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
25941084 GATTTTATTT
25941094 ATTTTTATTTTTTTAA
1 ATTTTT-TTTTTTTAA
25941110 ATTTTTTTTTTTTAA
1 ATTTTTTTTTTTTAA
25941125 A
1 A
25941126 AAAAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (15 bp):
ATTTTTTTTTTTTAA
Found at i:25941146 original size:8 final size:8
Alignment explanation
Indices: 25941143--25941167 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
25941133 AATTTTATTT
25941143 TTTTTATA
1 TTTTTATA
25941151 TTTTTATA
1 TTTTTATA
25941159 TTTTTATA
1 TTTTTATA
25941167 T
1 T
25941168 AATATGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TTTTTATA
Found at i:25941372 original size:16 final size:15
Alignment explanation
Indices: 25941343--25941386 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
25941333 TGTTTTATAT
25941343 TTTATATTTTTATTTA
1 TTTAT-TTTTTATTTA
*
25941359 TTTATTTTTCTATTTT
1 TTTATTTTT-TATTTA
25941375 TTTATTTATTTA
1 TTTATTT-TTTA
25941387 ATGTCATGTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
15 4 0.16
16 19 0.76
17 2 0.08
ACGTcount: A:0.20, C:0.02, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTTTTATTTA
Found at i:25941381 original size:24 final size:23
Alignment explanation
Indices: 25941336--25941386 Score: 75
Period size: 24 Copynumber: 2.2 Consensus size: 23
25941326 TAGTTGTTGT
25941336 TTTATATTTTATATTTTTATTTA
1 TTTATATTTTATATTTTTATTTA
* *
25941359 TTTATTTTTCTATTTTTTTATTTA
1 TTTATATTT-TATATTTTTATTTA
25941383 TTTA
1 TTTA
25941387 ATGTCATGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
23 8 0.32
24 17 0.68
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTATATTTTATATTTTTATTTA
Found at i:25941443 original size:16 final size:13
Alignment explanation
Indices: 25941422--25941499 Score: 79
Period size: 13 Copynumber: 5.8 Consensus size: 13
25941412 AATTTGTTAT
25941422 TTATTTTATATTTGAA
1 TTATTTT-TATTT--A
25941438 TTATTTTTATTTA
1 TTATTTTTATTTA
*
25941451 TTATTTTTATCT-
1 TTATTTTTATTTA
*
25941463 TT-TTTTTATCTA
1 TTATTTTTATTTA
*
25941475 TTGTTATTTATTTA
1 TTATT-TTTATTTA
25941489 TTATTTTTATT
1 TTATTTTTATT
25941500 GAATAATATT
Statistics
Matches: 56, Mismatches: 3, Indels: 9
0.82 0.04 0.13
Matches are distributed among these distances:
11 9 0.16
12 4 0.07
13 20 0.36
14 11 0.20
15 5 0.09
16 7 0.12
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.73
Consensus pattern (13 bp):
TTATTTTTATTTA
Found at i:25941465 original size:21 final size:20
Alignment explanation
Indices: 25941441--25941499 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
25941431 ATTTGAATTA
25941441 TTTTTATTTATTATTTTTAT
1 TTTTTATTTATTATTTTTAT
*
25941461 CTTTTT-TTTATCTATTGTTA-
1 -TTTTTATTTAT-TATTTTTAT
25941481 --TTTATTTATTATTTTTAT
1 TTTTTATTTATTATTTTTAT
25941499 T
1 T
25941500 GAATAATATT
Statistics
Matches: 32, Mismatches: 2, Indels: 10
0.73 0.05 0.23
Matches are distributed among these distances:
17 10 0.31
18 5 0.16
20 5 0.16
21 12 0.38
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTATTTATTATTTTTAT
Found at i:25942394 original size:2 final size:2
Alignment explanation
Indices: 25942387--25942434 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
25942377 CTGATCTCCT
25942387 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
25942429 TC TC TC
1 TC TC TC
25942435 NNNNNNNNNN
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:25943827 original size:38 final size:38
Alignment explanation
Indices: 25943740--25943907 Score: 205
Period size: 38 Copynumber: 4.4 Consensus size: 38
25943730 AAAACTCCCC
* * *
25943740 CAAAGCTGAGGCAACGAGACTTTT-AAAACGAAATCTT
1 CAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCT
* * *
25943777 CAAAACTAAGGCAACGGGA-TTTTAAAAAATGAACTCCT
1 CAAAGCTGAGGCAACGAGACTTTT-AAAAATGAACTCCT
* *
25943815 CAAAGCTGAGGCATCAAGACTTTTAAAAATGAACTCCT
1 CAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCT
* *
25943853 CAAAGCAGAGGCAACGAAACTTTTAAAAATGAACTCCT
1 CAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCT
* *
25943891 CAAAACTGAGGTAACGA
1 CAAAGCTGAGGCAACGA
25943908 AACCTTTTTT
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
36 4 0.04
37 16 0.15
38 86 0.78
39 4 0.04
ACGTcount: A:0.43, C:0.20, G:0.17, T:0.20
Consensus pattern (38 bp):
CAAAGCTGAGGCAACGAGACTTTTAAAAATGAACTCCT
Found at i:25956065 original size:187 final size:183
Alignment explanation
Indices: 25955750--25956119 Score: 679
Period size: 187 Copynumber: 2.0 Consensus size: 183
25955740 CATCATACTG
25955750 GTGGGACCCGATGACATCTTTCACCTAGGAAACTTTCCAAGAAATACCCACATTTGCCAGATTCT
1 GTGGGACCCGATGACATCTTTCACCTAGGAAACTTTCCAAGAAATACCCACATTTGCCAGATTCT
25955815 CGGGAAGATCCCATCATCGGGCTTAAACTCGAAAACAGAAATATTTATATGCAATGATATGCATG
66 CGGGAAGATCCCATCATCGGGCTTAAACTCGAAAACAGAAATATTTATATGCAATGATATGCATG
*
25955880 ATGCAACATATATATATATATGCTATGCTAATGCAATTGTCTATTTTTTTATTTAT
131 ATAC-A-ATATATATATATATGCTATGCTAATGCAATTGTCTA-TTTTTTATTTAT
25955936 NGTGGGACCCGATGACATCTTTCACCTAGGAAACTTTCCAAGAAATACCCACATTTGCCAGATTC
1 -GTGGGACCCGATGACATCTTTCACCTAGGAAACTTTCCAAGAAATACCCACATTTGCCAGATTC
25956001 TCGGG-AGATCCCATCATCGGGGCTTAAACTCGAAAACAGAAATATTTATATGCAATGATATGCA
65 TCGGGAAGATCCCATCATC-GGGCTTAAACTCGAAAACAGAAATATTTATATGCAATGATATGCA
25956065 TGATACAATATATATATATATGCTATGCTAATGCAATTGTCTATTTTTTATTTAT
129 TGATACAATATATATATATATGCTATGCTAATGCAATTGTCTATTTTTTATTTAT
25956120 TATTATTTTC
Statistics
Matches: 181, Mismatches: 1, Indels: 5
0.97 0.01 0.03
Matches are distributed among these distances:
184 12 0.07
185 36 0.20
186 14 0.08
187 119 0.66
ACGTcount: A:0.33, C:0.19, G:0.16, T:0.32
Consensus pattern (183 bp):
GTGGGACCCGATGACATCTTTCACCTAGGAAACTTTCCAAGAAATACCCACATTTGCCAGATTCT
CGGGAAGATCCCATCATCGGGCTTAAACTCGAAAACAGAAATATTTATATGCAATGATATGCATG
ATACAATATATATATATATGCTATGCTAATGCAATTGTCTATTTTTTATTTAT
Found at i:25956128 original size:17 final size:16
Alignment explanation
Indices: 25956106--25956165 Score: 61
Period size: 16 Copynumber: 3.8 Consensus size: 16
25956096 TGCAATTGTC
25956106 TATTTTTTATTTATTA
1 TATTTTTTATTTATTA
*
25956122 T-TATTTTCATTTCATTA
1 TAT-TTTTTATTT-ATTA
*
25956139 TAGTTTTTA-TTATTA
1 TATTTTTTATTTATTA
*
25956154 TATTTTCTATTT
1 TATTTTTTATTT
25956166 TATTCCTTAT
Statistics
Matches: 35, Mismatches: 5, Indels: 8
0.73 0.10 0.17
Matches are distributed among these distances:
15 12 0.34
16 13 0.37
17 10 0.29
ACGTcount: A:0.23, C:0.05, G:0.02, T:0.70
Consensus pattern (16 bp):
TATTTTTTATTTATTA
Found at i:25956155 original size:15 final size:15
Alignment explanation
Indices: 25956106--25956168 Score: 51
Period size: 17 Copynumber: 4.1 Consensus size: 15
25956096 TGCAATTGTC
*
25956106 TATTTTTTATTTATTA
1 TATTTTCTA-TTATTA
25956122 TTATTTTC-ATTTCATTA
1 -TATTTTCTA-TT-ATTA
25956139 TAGTTTT-TATTATTA
1 TA-TTTTCTATTATTA
25956154 TATTTTCTATT-TTA
1 TATTTTCTATTATTA
25956168 T
1 T
25956169 TCCTTATTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
14 8 0.20
15 10 0.24
16 8 0.20
17 15 0.37
ACGTcount: A:0.24, C:0.05, G:0.02, T:0.70
Consensus pattern (15 bp):
TATTTTCTATTATTA
Found at i:25956309 original size:8 final size:8
Alignment explanation
Indices: 25956296--25956379 Score: 51
Period size: 8 Copynumber: 10.0 Consensus size: 8
25956286 TTTTGTGATG
25956296 ATTTTTTT
1 ATTTTTTT
25956304 ATTTTTATTT
1 A-TTTT-TTT
*
25956314 ATTTATTT
1 ATTTTTTT
25956322 ATTTTTATT
1 ATTTTT-TT
**
25956331 ATTTTTAC
1 ATTTTTTT
* *
25956339 AGTTTTAT
1 ATTTTTTT
25956347 ATTTTTATT
1 ATTTTT-TT
*
25956356 ATTATTTT
1 ATTTTTTT
* * *
25956364 GTTATTAT
1 ATTTTTTT
25956372 ATTTTTTT
1 ATTTTTTT
25956380 TGTAAGCAAT
Statistics
Matches: 58, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
8 33 0.57
9 21 0.36
10 4 0.07
ACGTcount: A:0.21, C:0.01, G:0.02, T:0.75
Consensus pattern (8 bp):
ATTTTTTT
Found at i:25956313 original size:14 final size:14
Alignment explanation
Indices: 25956296--25956379 Score: 53
Period size: 14 Copynumber: 5.6 Consensus size: 14
25956286 TTTTGTGATG
25956296 ATTTTTTTATTTTT
1 ATTTTTTTATTTTT
25956310 ATTTATTTATTTATTTTT
1 A--T-TTT-TTTATTTTT
*
25956328 ATTATTTTTACAGTTTT
1 ATT-TTTTT--ATTTTT
* *
25956345 ATATTTTTATTATT
1 ATTTTTTTATTTTT
* *
25956359 ATTTTGTTA-TTAT
1 ATTTTTTTATTTTT
25956372 ATTTTTTT
1 ATTTTTTT
25956380 TGTAAGCAAT
Statistics
Matches: 54, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
13 9 0.17
14 12 0.22
15 4 0.07
16 9 0.17
17 10 0.19
18 10 0.19
ACGTcount: A:0.21, C:0.01, G:0.02, T:0.75
Consensus pattern (14 bp):
ATTTTTTTATTTTT
Found at i:25956322 original size:18 final size:17
Alignment explanation
Indices: 25956296--25956334 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 17
25956286 TTTTGTGATG
*
25956296 ATTTTTTTATTTTTATTT
1 ATTTATTTATTTTTA-TT
25956314 ATTTATTTATTTTTATT
1 ATTTATTTATTTTTATT
25956331 ATTT
1 ATTT
25956335 TTACAGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
ATTTATTTATTTTTATT
Found at i:25956334 original size:9 final size:9
Alignment explanation
Indices: 25956296--25956358 Score: 62
Period size: 8 Copynumber: 7.3 Consensus size: 9
25956286 TTTTGTGATG
25956296 ATTTTT-TT
1 ATTTTTATT
25956304 ATTTTTATT
1 ATTTTTATT
*
25956313 -TATTTATTT
1 ATTTTTA-TT
25956322 ATTTTTATT
1 ATTTTTATT
*
25956331 ATTTTTA-C
1 ATTTTTATT
*
25956339 AGTTTTA-T
1 ATTTTTATT
25956347 ATTTTTATT
1 ATTTTTATT
25956356 ATT
1 ATT
25956359 ATTTTGTTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
8 23 0.51
9 17 0.38
10 5 0.11
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (9 bp):
ATTTTTATT
Found at i:25956371 original size:25 final size:26
Alignment explanation
Indices: 25956299--25956377 Score: 96
Period size: 25 Copynumber: 3.2 Consensus size: 26
25956289 TGTGATGATT
*
25956299 TTTTTATTTTTATTTAT-TTATT-TA
1 TTTTTATTATTATTTATGTTATTATA
*
25956323 TTTTTATTATT-TTTACAGTT-TTATA
1 TTTTTATTATTATTTA-TGTTATTATA
25956348 TTTTTATTATTATTT-TGTTATTATA
1 TTTTTATTATTATTTATGTTATTATA
25956373 TTTTT
1 TTTTT
25956378 TTTGTAAGCA
Statistics
Matches: 47, Mismatches: 3, Indels: 9
0.80 0.05 0.15
Matches are distributed among these distances:
23 4 0.09
24 15 0.32
25 25 0.53
26 3 0.06
ACGTcount: A:0.22, C:0.01, G:0.03, T:0.75
Consensus pattern (26 bp):
TTTTTATTATTATTTATGTTATTATA
Found at i:25956567 original size:17 final size:17
Alignment explanation
Indices: 25956545--25956578 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25956535 GTTCTTTTAG
25956545 ATTTATTATTATTATTT
1 ATTTATTATTATTATTT
* *
25956562 ATTTATTTTTTTTATTT
1 ATTTATTATTATTATTT
25956579 TTCTATTTAT
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:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (17 bp):
ATTTATTATTATTATTT
Found at i:25956630 original size:7 final size:7
Alignment explanation
Indices: 25956618--25956677 Score: 54
Period size: 7 Copynumber: 9.0 Consensus size: 7
25956608 ATTTTCACAA
25956618 ATTTATT
1 ATTTATT
25956625 ATTTATT
1 ATTTATT
*
25956632 ATATATT
1 ATTTATT
*
25956639 ATATATT
1 ATTTATT
**
25956646 -TGAATT
1 ATTTATT
25956652 ATTT-TT
1 ATTTATT
25956658 ATTTATT
1 ATTTATT
25956665 ATTT-TT
1 ATTTATT
*
25956671 ATCTATT
1 ATTTATT
25956678 GTTATTTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
6 15 0.34
7 29 0.66
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.67
Consensus pattern (7 bp):
ATTTATT
Found at i:25958262 original size:36 final size:35
Alignment explanation
Indices: 25958201--25958277 Score: 95
Period size: 35 Copynumber: 2.2 Consensus size: 35
25958191 CAGTCGTACC
* *
25958201 TTTTTTT-TCATTTTTTCTTTATTTTTATTTATTA
1 TTTTTTTGTCATTTTTTATTTATTTTTATTTATGA
*
25958235 TATTTTTTGTCA-TTTTTATTTATTTTTTGTTTATGA
1 T-TTTTTTGTCATTTTTTATTTA-TTTTTATTTATGA
25958271 TTTTTTT
1 TTTTTTT
25958278 AATTAATAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
34 1 0.03
35 21 0.57
36 15 0.41
ACGTcount: A:0.14, C:0.04, G:0.04, T:0.78
Consensus pattern (35 bp):
TTTTTTTGTCATTTTTTATTTATTTTTATTTATGA
Found at i:25958276 original size:25 final size:25
Alignment explanation
Indices: 25958221--25958275 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
25958211 TTTTTTCTTT
*
25958221 ATTTTTATTTATTATATTTTTTGTC
1 ATTTTTATTTATTATATTTTTTATC
*
25958246 ATTTTTATTTATT-T-TTTGTTTATG
1 ATTTTTATTTATTATATTT-TTTATC
25958270 ATTTTT
1 ATTTTT
25958276 TTAATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
23 3 0.11
24 11 0.41
25 13 0.48
ACGTcount: A:0.18, C:0.02, G:0.05, T:0.75
Consensus pattern (25 bp):
ATTTTTATTTATTATATTTTTTATC
Found at i:25958845 original size:55 final size:55
Alignment explanation
Indices: 25958776--25958888 Score: 138
Period size: 55 Copynumber: 2.1 Consensus size: 55
25958766 ACATGGCATG
* * * * *
25958776 TAACTACTGAATCTTCAATG-TGGCACGTAACAACTATATTTTTTAATATGACGTA
1 TAACAACTAAATCTTCAA-GATGACACGTAACAACTATATTTTTGAAGATGACGTA
** *
25958831 TAACAACTAAATCTTCAAGATGACGTGTAACAATTATATTTTTGAAGATGACGTA
1 TAACAACTAAATCTTCAAGATGACACGTAACAACTATATTTTTGAAGATGACGTA
25958886 TAA
1 TAA
25958889 ATAACAACTA
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 1 0.02
55 48 0.98
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (55 bp):
TAACAACTAAATCTTCAAGATGACACGTAACAACTATATTTTTGAAGATGACGTA
Found at i:25958861 original size:27 final size:27
Alignment explanation
Indices: 25958802--25959071 Score: 157
Period size: 27 Copynumber: 9.7 Consensus size: 27
25958792 AATGTGGCAC
* * *
25958802 GTAACAACTATATTTTTTAATATGACGT
1 GTAACAACTA-AATTTTCAACATGACGT
* * *
25958830 ATAACAACTAAATCTTCAAGATGACGT
1 GTAACAACTAAATTTTCAACATGACGT
* * * *
25958857 GTAACAATTATATTTTTGAAGATGACGTAT
1 GTAACAACTA-AATTTTCAACATGACG--T
* * * *
25958887 AAATAACAACTAAATTTTCAACACGGCAT
1 --GTAACAACTAAATTTTCAACATGACGT
* *
25958916 GTAACAACTAAATCTTCAACATGATGT
1 GTAACAACTAAATTTTCAACATGACGT
** * *
25958943 AAAACAACTATATTTTTCAACA-GAGTGT
1 GTAACAACTA-AATTTTCAACATGA-CGT
*
25958971 GTAATAACTAAATTTTCAACAAT-ACGT
1 GTAACAACTAAATTTTCAAC-ATGACGT
* * * **
25958998 GTAACAACTACATTTTTTAATATGATAT
1 GTAACAACTA-AATTTTCAACATGACGT
* *
25959026 GTAACAACTAAATTTTCAATATGACAT
1 GTAACAACTAAATTTTCAACATGACGT
* * *
25959053 ATAAAAACTACATTTTCAA
1 GTAACAACTAAATTTTCAA
25959072 AGTGATTGTT
Statistics
Matches: 186, Mismatches: 45, Indels: 23
0.73 0.18 0.09
Matches are distributed among these distances:
27 104 0.56
28 62 0.33
29 1 0.01
30 1 0.01
31 10 0.05
32 8 0.04
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (27 bp):
GTAACAACTAAATTTTCAACATGACGT
Found at i:25958919 original size:59 final size:55
Alignment explanation
Indices: 25958797--25958925 Score: 141
Period size: 59 Copynumber: 2.3 Consensus size: 55
25958787 TCTTCAATGT
* * * * *
25958797 GGCACGTAACAACTATATTTTTTAATATGACGTATAACAACTAAATCTTCAAGAT
1 GGCATGTAACAACTATATTTTTGAAGATGACGTATAACAACTAAATCTTCAACAC
* * * *
25958852 GACGTGTAACAATTATATTTTTGAAGATGACGTATAAATAACAACTAAATTTTCAACAC
1 GGCATGTAACAACTATATTTTTGAAGATGACG--T--ATAACAACTAAATCTTCAACAC
25958911 GGCATGTAACAACTA
1 GGCATGTAACAACTA
25958926 AATCTTCAAC
Statistics
Matches: 58, Mismatches: 12, Indels: 4
0.78 0.16 0.05
Matches are distributed among these distances:
55 26 0.45
57 1 0.02
59 31 0.53
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (55 bp):
GGCATGTAACAACTATATTTTTGAAGATGACGTATAACAACTAAATCTTCAACAC
Found at i:25958974 original size:55 final size:55
Alignment explanation
Indices: 25958802--25959068 Score: 166
Period size: 55 Copynumber: 4.8 Consensus size: 55
25958792 AATGTGGCAC
* * * * * * * **
25958802 GTAACAACTATATTTTTTAATATGACGTATAACAACTA-AATCTTCAAGATGACGT
1 GTAACAACTA-AATTTTCAACATGACGTAAAACAACTACATTTTTCAACATGATAT
* * * * * * **
25958857 GTAACAATTATATTTTTGAAGATGACGTATAAATAACAACTA-AATTTTCAACACGGCAT
1 GTAACAACTA-AATTTTCAACATGACG--T-AA-AACAACTACATTTTTCAACATGATAT
* * * *
25958916 GTAACAACTAAATCTTCAACATGATGTAAAACAACTATATTTTTCAACA-GAGTGT
1 GTAACAACTAAATTTTCAACATGACGTAAAACAACTACATTTTTCAACATGA-TAT
* ** * *
25958971 GTAATAACTAAATTTTCAACAAT-ACGTGTAACAACTACATTTTTTAATATGATAT
1 GTAACAACTAAATTTTCAAC-ATGACGTAAAACAACTACATTTTTCAACATGATAT
* *
25959026 GTAACAACTAAATTTTCAATATGACATATAAA-AACTACATTTT
1 GTAACAACTAAATTTTCAACATGACGTA-AAACAACTACATTTT
25959069 CAAAGTGATT
Statistics
Matches: 169, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
54 11 0.07
55 109 0.64
56 7 0.04
57 1 0.01
58 12 0.07
59 29 0.17
ACGTcount: A:0.42, C:0.14, G:0.09, T:0.34
Consensus pattern (55 bp):
GTAACAACTAAATTTTCAACATGACGTAAAACAACTACATTTTTCAACATGATAT
Found at i:25962421 original size:57 final size:57
Alignment explanation
Indices: 25962315--25962452 Score: 169
Period size: 57 Copynumber: 2.5 Consensus size: 57
25962305 TTTTTTAGAG
* * * **
25962315 GAGTGATTTGCAGAGAGAGGGAGAGGAGAGGGAGATTGATTGATTGAGAGAAAAAGA
1 GAGTGATTTGCAGAGAGAAGGAGAGGAGAGGGAGATTAATTAAGAGAGAGAAAAAGA
*
25962372 GAGTGATTTGCAGAGAGAAGGAGATGAGAGGGAGATTAATTAAGAGAGAG---AAG-
1 GAGTGATTTGCAGAGAGAAGGAGAGGAGAGGGAGATTAATTAAGAGAGAGAAAAAGA
* *
25962425 G-GTGACTTGCAGAGAGAGGGAGAGGAGA
1 GAGTGATTTGCAGAGAGAAGGAGAGGAGA
25962453 AGGACCTCAA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
52 24 0.33
53 1 0.01
54 3 0.04
57 44 0.61
ACGTcount: A:0.38, C:0.03, G:0.43, T:0.16
Consensus pattern (57 bp):
GAGTGATTTGCAGAGAGAAGGAGAGGAGAGGGAGATTAATTAAGAGAGAGAAAAAGA
Found at i:25964662 original size:11 final size:11
Alignment explanation
Indices: 25964646--25964682 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
25964636 TAATAGTAAC
25964646 AAAAAAAATGA
1 AAAAAAAATGA
25964657 AAAAAAAATGA
1 AAAAAAAATGA
**
25964668 TGAAAAAATGA
1 AAAAAAAATGA
25964679 AAAA
1 AAAA
25964683 TGAGAAAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (11 bp):
AAAAAAAATGA
Found at i:25965969 original size:18 final size:17
Alignment explanation
Indices: 25965946--25965985 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
25965936 AAAAATAAAT
*
25965946 AAAAAGAAGGATAAAAAG
1 AAAAAGAAAGA-AAAAAG
*
25965964 AAAAAGAAAGAAAAAAT
1 AAAAAGAAAGAAAAAAG
25965981 AAAAA
1 AAAAA
25965986 AGAATATAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (17 bp):
AAAAAGAAAGAAAAAAG
Found at i:25965989 original size:18 final size:18
Alignment explanation
Indices: 25965942--25965985 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
25965932 TTAGAAAAAT
*
25965942 AAATAAAAAGAAGGATAA
1 AAATAAAAAGAAAGATAA
*
25965960 AAAGAAAAAGAAAGA-AA
1 AAATAAAAAGAAAGATAA
25965977 AAATAAAAA
1 AAATAAAAA
25965986 AGAATATAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
17 10 0.43
18 13 0.57
ACGTcount: A:0.80, C:0.00, G:0.14, T:0.07
Consensus pattern (18 bp):
AAATAAAAAGAAAGATAA
Found at i:25966159 original size:20 final size:20
Alignment explanation
Indices: 25966131--25966168 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25966121 ATATAGATAA
25966131 TAATAATAAATAA-AAAATAT
1 TAATAAT-AATAATAAAATAT
*
25966151 TAATGATAATAATAAAAT
1 TAATAATAATAATAAAAT
25966169 TTATCTTGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (20 bp):
TAATAATAATAATAAAATAT
Found at i:25966159 original size:26 final size:26
Alignment explanation
Indices: 25966115--25966166 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
25966105 AATGGTGAGG
25966115 TAAAAAATATAGATAATAATAATAAA
1 TAAAAAATATAGATAATAATAATAAA
*
25966141 TAAAAAATATTA-ATGATAATAATAAA
1 TAAAAAATA-TAGATAATAATAATAAA
25966167 ATTTATCTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 22 0.92
27 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (26 bp):
TAAAAAATATAGATAATAATAATAAA
Found at i:25968244 original size:17 final size:16
Alignment explanation
Indices: 25968213--25968249 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
25968203 TTATGGTACT
*
25968213 TTAGTTTTTTGCCATG
1 TTAGTTTTGTGCCATG
25968229 TTAGTATTTGTGCCATG
1 TTAGT-TTTGTGCCATG
25968246 TTAG
1 TTAG
25968250 CATAATCATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.16, C:0.11, G:0.22, T:0.51
Consensus pattern (16 bp):
TTAGTTTTGTGCCATG
Found at i:25969149 original size:16 final size:16
Alignment explanation
Indices: 25969128--25969166 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
25969118 GGTTATTTTT
*
25969128 TCTCAAAAAAATTCTC
1 TCTCAAAAAAATACTC
25969144 TCTC-AAAAAATACTC
1 TCTCAAAAAAATACTC
25969159 TCT-AAAAA
1 TCTCAAAAA
25969167 TTAAGAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 17 0.81
16 4 0.19
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (16 bp):
TCTCAAAAAAATACTC
Found at i:25969192 original size:24 final size:24
Alignment explanation
Indices: 25969162--25969215 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
25969152 AATACTCTCT
25969162 AAAAATTAAGAGGAACGAAAACTA
1 AAAAATTAAGAGGAACGAAAACTA
* *
25969186 AAAAATTAAGATGAACGAAATCTA
1 AAAAATTAAGAGGAACGAAAACTA
25969210 AAAAAT
1 AAAAAT
25969216 CAAAATTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.63, C:0.07, G:0.13, T:0.17
Consensus pattern (24 bp):
AAAAATTAAGAGGAACGAAAACTA
Found at i:25971420 original size:74 final size:74
Alignment explanation
Indices: 25971323--25971462 Score: 217
Period size: 74 Copynumber: 1.9 Consensus size: 74
25971313 AACCTTATAT
* *
25971323 TTATAAATATATATCCATTAAATGACGATCATTGAAATATTTTTTATTATAATTATTAATAAGAT
1 TTATAAATATATATCCATCAAATGACGATAATTGAAATATTTTTTATTATAATTATTAATAAGAT
25971388 TTAAATCTA
66 TTAAATCTA
* * * **
25971397 TTATAAATATGTATTCATCAAATGATGATAATTGAAATATTTTTTATTATAATTATTTGTAAGAT
1 TTATAAATATATATCCATCAAATGACGATAATTGAAATATTTTTTATTATAATTATTAATAAGAT
25971462 T
66 T
25971463 ATTCTGTTTA
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 59 1.00
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.46
Consensus pattern (74 bp):
TTATAAATATATATCCATCAAATGACGATAATTGAAATATTTTTTATTATAATTATTAATAAGAT
TTAAATCTA
Found at i:25974276 original size:56 final size:56
Alignment explanation
Indices: 25974203--25974314 Score: 179
Period size: 56 Copynumber: 2.0 Consensus size: 56
25974193 AGCAAACTGG
* *
25974203 CTTGGGAGTTGGAAGCTTTCTAGATAAGGAAACAAATAGAGAAAAGCAAAACACAA
1 CTTGAGAGTTGGAAGCTTTCTAGATAAGGAAACAAATAGAGAAAAGCAAAAAACAA
* * *
25974259 CTTGAGAGTTGGAAGCTTTCTAGATGAGGAAACAAATAGCGAGAAGCAAAAAACAA
1 CTTGAGAGTTGGAAGCTTTCTAGATAAGGAAACAAATAGAGAAAAGCAAAAAACAA
25974315 GCAAACTGGC
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 51 1.00
ACGTcount: A:0.46, C:0.12, G:0.24, T:0.18
Consensus pattern (56 bp):
CTTGAGAGTTGGAAGCTTTCTAGATAAGGAAACAAATAGAGAAAAGCAAAAAACAA
Found at i:25979318 original size:13 final size:13
Alignment explanation
Indices: 25979300--25979325 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25979290 TTTCAGTCCA
25979300 TGTTCAGCTGGGT
1 TGTTCAGCTGGGT
25979313 TGTTCAGCTGGGT
1 TGTTCAGCTGGGT
25979326 AGTTAAACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.15, G:0.38, T:0.38
Consensus pattern (13 bp):
TGTTCAGCTGGGT
Found at i:25987247 original size:13 final size:14
Alignment explanation
Indices: 25987213--25987250 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
25987203 AAAATATTAA
*
25987213 AATATTAAAAATTT
1 AATATTAAAATTTT
*
25987227 ACTATTAAAATTTT
1 AATATTAAAATTTT
25987241 AAT-TTAAAAT
1 AATATTAAAAT
25987251 ATTAGCCTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (14 bp):
AATATTAAAATTTT
Found at i:25987321 original size:23 final size:23
Alignment explanation
Indices: 25987287--25987340 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
25987277 AACTTTAACA
*
25987287 TTTTT-TTAATTTTTATCTTTATT
1 TTTTTCTTATTTTTTATCTTT-TT
*
25987310 TTTTTCTTATTTTTTTTCTTTTT
1 TTTTTCTTATTTTTTATCTTTTT
*
25987333 CTTTTCTT
1 TTTTTCTT
25987341 TTTCGTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 14 0.52
24 13 0.48
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (23 bp):
TTTTTCTTATTTTTTATCTTTTT
Found at i:25987324 original size:12 final size:11
Alignment explanation
Indices: 25987296--25987343 Score: 60
Period size: 12 Copynumber: 4.2 Consensus size: 11
25987286 ATTTTTTTAA
*
25987296 TTTTTATCTTT
1 TTTTTTTCTTT
25987307 ATTTTTTTCTTAT
1 -TTTTTTTCTT-T
25987320 TTTTTTTCTTT
1 TTTTTTTCTTT
*
25987331 TTCTTTTCTTT
1 TTTTTTTCTTT
25987342 TT
1 TT
25987344 CGTATCATCG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
11 13 0.39
12 19 0.58
13 1 0.03
ACGTcount: A:0.06, C:0.10, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:25987341 original size:11 final size:11
Alignment explanation
Indices: 25987311--25987344 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
25987301 ATCTTTATTT
*
25987311 TTTTCTTATTTT
1 TTTTCTT-TTTC
25987323 TTTTCTTTTTC
1 TTTTCTTTTTC
25987334 TTTTCTTTTTC
1 TTTTCTTTTTC
25987345 GTATCATCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.03, C:0.15, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTCTTTTTC
Found at i:25989546 original size:16 final size:16
Alignment explanation
Indices: 25989525--25989555 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25989515 TAGCTATTAT
25989525 GTGGAAATAGAATAAG
1 GTGGAAATAGAATAAG
25989541 GTGGAAATAGAATAA
1 GTGGAAATAGAATAA
25989556 AATAATTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.29, T:0.19
Consensus pattern (16 bp):
GTGGAAATAGAATAAG
Found at i:25989805 original size:27 final size:27
Alignment explanation
Indices: 25989729--25989794 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
25989719 TATATTTTTT
*
25989729 AAATATTAATAATCTAGA-ATTTAATTA
1 AAATATTAATAAT-TAAATATTTAATTA
*
25989756 AAATATTAATAATTAAATATTTATTTA
1 AAATATTAATAATTAAATATTTAATTA
25989783 AAATTATTAATA
1 AAA-TATTAATA
25989795 TTTATTTTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
26 3 0.09
27 24 0.69
28 8 0.23
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (27 bp):
AAATATTAATAATTAAATATTTAATTA
Found at i:25989873 original size:27 final size:30
Alignment explanation
Indices: 25989835--25989896 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 30
25989825 TTTATTTTAT
25989835 TTTATTTTAAAATAT-A-AATAATTGATAA
1 TTTATTTTAAAATATAATAATAATTGATAA
25989863 TTTA-TTTAAAATATCAATAATAATTGATAA
1 TTTATTTTAAAATAT-AATAATAATTGATAA
25989893 TTTA
1 TTTA
25989897 AATATTTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
27 10 0.32
28 4 0.13
29 1 0.03
30 16 0.52
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (30 bp):
TTTATTTTAAAATATAATAATAATTGATAA
Found at i:25989938 original size:41 final size:39
Alignment explanation
Indices: 25989893--25989972 Score: 117
Period size: 41 Copynumber: 2.0 Consensus size: 39
25989883 TAATTGATAA
*
25989893 TTTAAATATTTAATATTTTATTATAATTTTAATTATT-TTAT
1 TTTAAAAATTTAATA-TTTATT-TAATTTTAA-TATTATTAT
25989934 TTTAAAAATTTAATATTTATTTAATTTTAATATTATTAT
1 TTTAAAAATTTAATATTTATTTAATTTTAATATTATTAT
25989973 GATCAATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
38 4 0.11
39 13 0.35
40 6 0.16
41 14 0.38
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (39 bp):
TTTAAAAATTTAATATTTATTTAATTTTAATATTATTAT
Found at i:25989997 original size:5 final size:5
Alignment explanation
Indices: 25989982--25990045 Score: 69
Period size: 5 Copynumber: 12.8 Consensus size: 5
25989972 TGATCAATTT
** *
25989982 TTTTA -TTTA TTTTA TTTTA TTTTA TTTTA TTTTTA CAATTA -TNTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA -TTTTA TTTTA TTTTA
25990032 TTTTA TTTTA TTTT
1 TTTTA TTTTA TTTT
25990046 TAACAATTAA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
4 6 0.12
5 36 0.72
6 8 0.16
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:25990029 original size:31 final size:31
Alignment explanation
Indices: 25989993--25990064 Score: 110
Period size: 31 Copynumber: 2.3 Consensus size: 31
25989983 TTTATTTATT
25989993 TTATTTTATTTTATTTTATTTTT-ACAATTA
1 TTATTTTATTTTATTTTATTTTTAACAATTA
25990023 TNTATTTTATTTTATTTTATTTTTAACAATTA
1 T-TATTTTATTTTATTTTATTTTTAACAATTA
* *
25990055 ATAATTTATT
1 TTATTTTATT
25990065 ATTTATTTAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
30 1 0.03
31 30 0.79
32 7 0.18
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.67
Consensus pattern (31 bp):
TTATTTTATTTTATTTTATTTTTAACAATTA
Found at i:25996012 original size:2 final size:2
Alignment explanation
Indices: 25996007--25996059 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
25995997 TTTTTTTTGA
*
25996007 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25996049 AT AT AT -T AT AT
1 AT AT AT AT AT AT
25996060 TCTCATCAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:26002344 original size:42 final size:42
Alignment explanation
Indices: 26002298--26002381 Score: 123
Period size: 42 Copynumber: 2.0 Consensus size: 42
26002288 TATTTTTTTA
*
26002298 AATTAATTGTTGCTTTACTTTCTGCTATTTAATTGATTTTGT
1 AATTAATTGTTGCTCTACTTTCTGCTATTTAATTGATTTTGT
* * * *
26002340 AATTAATTTTTGCTCTGCTTTCTGTTATTTAATTGGTTTTGT
1 AATTAATTGTTGCTCTACTTTCTGCTATTTAATTGATTTTGT
26002382 TCTATGGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.19, C:0.10, G:0.13, T:0.58
Consensus pattern (42 bp):
AATTAATTGTTGCTCTACTTTCTGCTATTTAATTGATTTTGT
Found at i:26002610 original size:26 final size:26
Alignment explanation
Indices: 26002554--26002615 Score: 72
Period size: 29 Copynumber: 2.3 Consensus size: 26
26002544 TTAAAATAAA
26002554 AAATTTTATATAAAAATAAAATAGCTCTT
1 AAATTTTATATAAAAATAAAATA---CTT
*
26002583 AAATTTTATATAATAATAATAATA-TT
1 AAATTTTATATAAAAATAA-AATACTT
26002609 AAATTTT
1 AAATTTT
26002616 TATTCATCTA
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
26 9 0.29
29 18 0.58
30 4 0.13
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.44
Consensus pattern (26 bp):
AAATTTTATATAAAAATAAAATACTT
Found at i:26016638 original size:26 final size:26
Alignment explanation
Indices: 26016608--26016686 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
26016598 TTGGAAAACT
26016608 TGTTGCATATTTCAAGACATTAAGGC
1 TGTTGCATATTTCAAGACATTAAGGC
26016634 TGTTGCATATTTCAAGACATTAAGGC
1 TGTTGCATATTTCAAGACATTAAGGC
26016660 TGTTGCATATTTCAAGACACTTAAGGC
1 TGTTGCATATTTCAAGACA-TTAAGGC
26016687 GGAGATGTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 45 0.87
27 7 0.13
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.34
Consensus pattern (26 bp):
TGTTGCATATTTCAAGACATTAAGGC
Found at i:26025583 original size:99 final size:99
Alignment explanation
Indices: 26025448--26025640 Score: 323
Period size: 99 Copynumber: 1.9 Consensus size: 99
26025438 TACGTCCCAA
* * *
26025448 GAGCTTGGAAGAGGAGGGAAGGGACTACTCTGTTGCTTCGTGATCCGGAGTGAAGTGCACTTCTT
1 GAGCTTGGAAGAGGAGGGAAGGGACTACTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTATT
* *
26025513 GTCGAGTGCTCTGATAGGTACCATGTTATCTCAG
66 GCCGAGTGCTCTGATAAGTACCATGTTATCTCAG
* *
26025547 GAGCTTGGAAGAGGAGGGAAGGGATTGCTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTATT
1 GAGCTTGGAAGAGGAGGGAAGGGACTACTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTATT
26025612 GCCGAGTGCTCTGATAAGTACCATGTTAT
66 GCCGAGTGCTCTGATAAGTACCATGTTAT
26025641 GCCATTGTAG
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
99 87 1.00
ACGTcount: A:0.22, C:0.18, G:0.33, T:0.27
Consensus pattern (99 bp):
GAGCTTGGAAGAGGAGGGAAGGGACTACTCCGTTGCTTCGTGATCCGGAGTGAAGTGCACCTATT
GCCGAGTGCTCTGATAAGTACCATGTTATCTCAG
Found at i:26025752 original size:26 final size:26
Alignment explanation
Indices: 26025716--26025778 Score: 108
Period size: 26 Copynumber: 2.4 Consensus size: 26
26025706 TTGCATATGA
26025716 GATGATGATGATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
26025742 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
26025768 GTTGATGATGA
1 GATGATGATGA
26025779 GTATATGGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.25, C:0.03, G:0.40, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:26033853 original size:22 final size:22
Alignment explanation
Indices: 26033828--26033928 Score: 78
Period size: 22 Copynumber: 4.6 Consensus size: 22
26033818 ACTAGTCACT
*
26033828 CAATACTTAAAAATTAGTTATG
1 CAATACCTAAAAATTAGTTATG
** * * *
26033850 CAATGTCTAAAAATTAATAACG
1 CAATACCTAAAAATTAGTTATG
* * * *
26033872 TAATGCCTAAAAACTAGTCATG
1 CAATACCTAAAAATTAGTTATG
*
26033894 CAATACCCAAAAATCT-GTTATG
1 CAATACCTAAAAAT-TAGTTATG
*
26033916 CAATGCCTAAAAA
1 CAATACCTAAAAA
26033929 CCACCAAAAC
Statistics
Matches: 59, Mismatches: 19, Indels: 2
0.74 0.24 0.03
Matches are distributed among these distances:
22 58 0.98
23 1 0.02
ACGTcount: A:0.46, C:0.17, G:0.10, T:0.28
Consensus pattern (22 bp):
CAATACCTAAAAATTAGTTATG
Found at i:26033906 original size:66 final size:67
Alignment explanation
Indices: 26033785--26033928 Score: 168
Period size: 66 Copynumber: 2.2 Consensus size: 67
26033775 AAGTCATATC
* * *** **
26033785 ATGTCTAAAAATTAGTCACGCAATGCCATGTCAACTAGTCACTCAATACTTAAAAAT-TAGTTAT
1 ATGTCTAAAAATTAATAACGCAATGCCATAAAAACTAGTCACTCAATACCCAAAAATCT-GTTAT
26033849 GCA
65 GCA
*
26033852 ATGTCTAAAAATTAATAACGTAATGCC-TAAAAACTAGTCA-TGCAATACCCAAAAATCTGTTAT
1 ATGTCTAAAAATTAATAACGCAATGCCATAAAAACTAGTCACT-CAATACCCAAAAATCTGTTAT
26033915 GCA
65 GCA
*
26033918 ATGCCTAAAAA
1 ATGTCTAAAAA
26033929 CCACCAAAAC
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
65 1 0.02
66 40 0.61
67 25 0.38
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (67 bp):
ATGTCTAAAAATTAATAACGCAATGCCATAAAAACTAGTCACTCAATACCCAAAAATCTGTTATG
CA
Found at i:26034436 original size:2 final size:2
Alignment explanation
Indices: 26034426--26034472 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
26034416 AAAAAACCCT
*
26034426 TA TA AA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26034468 TA TA T
1 TA TA T
26034473 NNNNNNNNNN
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:26034548 original size:2 final size:2
Alignment explanation
Indices: 26034488--26034529 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
26034478 NNNNNNNNNN
26034488 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
26034530 GTCTATTAAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26035557 original size:54 final size:54
Alignment explanation
Indices: 26035494--26035619 Score: 225
Period size: 54 Copynumber: 2.3 Consensus size: 54
26035484 ACAAGACATG
* *
26035494 ACACGATTAACATATTTATTAAACGTGTCAATAAACGATACGACACAATTAATA
1 ACACGATTAACACATTTATTAAACGTGTCAATAAACGACACGACACAATTAATA
*
26035548 ACACGATTAACACATTTATTAAACGTGTCAATAAATGACACGACACAATTAATA
1 ACACGATTAACACATTTATTAAACGTGTCAATAAACGACACGACACAATTAATA
26035602 ACACGATTAACACATTTA
1 ACACGATTAACACATTTA
26035620 ACACGATTAA
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 69 1.00
ACGTcount: A:0.46, C:0.18, G:0.09, T:0.27
Consensus pattern (54 bp):
ACACGATTAACACATTTATTAAACGTGTCAATAAACGACACGACACAATTAATA
Found at i:26060374 original size:19 final size:19
Alignment explanation
Indices: 26060346--26060390 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
26060336 GGCTGAGGGT
* * *
26060346 TTTCTTAACTGGTTGAGAG
1 TTTCTCAACTGGCTAAGAG
*
26060365 TTTCTCAACTGGCTAAGGG
1 TTTCTCAACTGGCTAAGAG
26060384 TTTCTCA
1 TTTCTCA
26060391 CTAAAACCCC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (19 bp):
TTTCTCAACTGGCTAAGAG
Found at i:26060723 original size:2 final size:2
Alignment explanation
Indices: 26060716--26060764 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
26060706 ACTTTCTATA
26060716 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
26060758 AC AC AC A
1 AC AC AC A
26060765 TATATATATA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:26067748 original size:16 final size:16
Alignment explanation
Indices: 26067716--26067764 Score: 53
Period size: 20 Copynumber: 2.8 Consensus size: 16
26067706 CTAGTGAATT
*
26067716 TTTAGTTTTTATTAATTA
1 TTTAGTTTTAATTAA--A
26067734 GTTTAGTGTTTAATTAAA
1 -TTTAGT-TTTAATTAAA
26067752 TTTAGTTTTAATT
1 TTTAGTTTTAATT
26067765 TATTATTTAC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
16 7 0.25
17 6 0.21
18 1 0.04
19 6 0.21
20 8 0.29
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (16 bp):
TTTAGTTTTAATTAAA
Found at i:26069481 original size:2 final size:2
Alignment explanation
Indices: 26069469--26069518 Score: 93
Period size: 2 Copynumber: 25.5 Consensus size: 2
26069459 TTTCTCTAGT
26069469 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26069510 TA TA TA TA T
1 TA TA TA TA T
26069519 GTGTGTGTGT
Statistics
Matches: 47, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26069572 original size:2 final size:2
Alignment explanation
Indices: 26069518--26069563 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
26069508 TATATATATA
*
26069518 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TC TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
26069560 TG TG
1 TG TG
26069564 CATGTGTGTC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.00, C:0.02, G:0.48, T:0.50
Consensus pattern (2 bp):
TG
Found at i:26070777 original size:21 final size:21
Alignment explanation
Indices: 26070747--26070798 Score: 95
Period size: 21 Copynumber: 2.5 Consensus size: 21
26070737 ACCATAATCG
26070747 ACCCTATAACTTCCCTAGTCA
1 ACCCTATAACTTCCCTAGTCA
*
26070768 ACCTTATAACTTCCCTAGTCA
1 ACCCTATAACTTCCCTAGTCA
26070789 ACCCTATAAC
1 ACCCTATAAC
26070799 AGAAAATATG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.31, C:0.37, G:0.04, T:0.29
Consensus pattern (21 bp):
ACCCTATAACTTCCCTAGTCA
Found at i:26077295 original size:38 final size:39
Alignment explanation
Indices: 26077235--26077310 Score: 100
Period size: 38 Copynumber: 2.0 Consensus size: 39
26077225 ATGTTTACTC
* *
26077235 ATTTTATATGTAGTATACTTATC-TTATGAGAAGTGATT
1 ATTTTATATGTAATACACTTATCTTTATGAGAAGTGATT
* * *
26077273 ATTTTGTATGTAATACATTTATCTTTTTGAGAAGTGAT
1 ATTTTATATGTAATACACTTATCTTTATGAGAAGTGAT
26077311 ATGATCCATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
38 19 0.59
39 13 0.41
ACGTcount: A:0.30, C:0.05, G:0.16, T:0.49
Consensus pattern (39 bp):
ATTTTATATGTAATACACTTATCTTTATGAGAAGTGATT
Found at i:26078957 original size:249 final size:250
Alignment explanation
Indices: 26078534--26079216 Score: 940
Period size: 249 Copynumber: 2.7 Consensus size: 250
26078524 CGTAAAGCAA
* ** * *
26078534 TAAGAATTGACATAAAAACTCGTAAAGGT-AGAATAATTAAATTTAAAATCTTAATGTAAATGTG
1 TAAGAATTGACGTAAAAACTTATAAAGGTGA-AATAACTAAATTTTAAATCTTAATGTAAATGTG
* * * * * *
26078598 TAAAAGTTAACGTAGCAAGTCAATTAAGAAAAAAATTTAATTTTTAATAAAAAATAAATATTTAA
65 TAAAAGTTAACGTAACAAGTTAATTAAGAAAAAAA-TCAAATTTTAGTGAAAAATAAATATTTAA
* * *
26078663 ATTTATATTCTCAAACTAAAAGTATTTAATGATATACGAATTTTAATTTTTAAAT-AA-AATAAT
129 ATTTATATTCTCAAATTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAAT
* * * * * *
26078726 AATAATAAAAATAATTATAGTTCAAAATTAATATAGATAAGTCTTAACGTAAAATTG
194 AAGAATAAAAATAATTATAATTCAAAATTAATATAAAAAAGTCTTAACATAAAACTG
* * *
26078783 TAATAATTGACGTAAAAACTTATAAATGTGAAATAACTAAATTTTAAATCTTAACGTAAATGTGT
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAATGTAAATGTGT
*
26078848 AAGAGTTAACGTAACAAGTTAATTAAGTAAAAAAATCAAATTTTAGTGAAAAATAAATATTTAAA
66 AAAAGTTAACGTAACAAGTTAATTAAG-AAAAAAATCAAATTTTAGTGAAAAATAAATATTTAAA
** *
26078913 TTTATATTCTCGGATTAAAAGTATTTAACAATATACAAATTTTAATTTTTAAATAAAGAATAATA
130 TTTATATTCTCAAATTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATA
* * * * * *
26078978 AGGATAAAAATAATTATAATTTAAAATTGATATAAAAAAGTTTTGACATTAAACTG
195 AGAATAAAAATAATTATAATTCAAAATTAATATAAAAAAGTCTTAACATAAAACTG
* * * *
26079034 TAAGAATTGATGTAAAAACCTATAAAGGTGGAATAACTAAATTTTAAATCTTAATGTAAACGTGT
1 TAAGAATTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAATGTAAATGTGT
* *
26079099 AAAAGTTAACGTAACAAATTAATTAAGAAAAAAAAATCTAATTTTAGTGAAAAATAAATATTTAA
66 AAAAGTTAACGTAACAAGTTAATTAAG--AAAAAAATCAAATTTTAGTGAAAAATAAATATTTAA
*
26079164 ATTTATATTCTCAAATTAAAAGTATTTAACGATATATAAATTTTAATTTTTAA
129 ATTTATATTCTCAAATTAAAAGTATTTAACGATATACAAATTTTAATTTTTAA
26079217 GTTTTGACAT
Statistics
Matches: 381, Mismatches: 48, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
249 153 0.40
250 10 0.03
251 134 0.35
252 84 0.22
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (250 bp):
TAAGAATTGACGTAAAAACTTATAAAGGTGAAATAACTAAATTTTAAATCTTAATGTAAATGTGT
AAAAGTTAACGTAACAAGTTAATTAAGAAAAAAATCAAATTTTAGTGAAAAATAAATATTTAAAT
TTATATTCTCAAATTAAAAGTATTTAACGATATACAAATTTTAATTTTTAAATAAAGAATAATAA
GAATAAAAATAATTATAATTCAAAATTAATATAAAAAAGTCTTAACATAAAACTG
Found at i:26081135 original size:17 final size:19
Alignment explanation
Indices: 26081115--26081151 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
26081105 TTAACATAAC
26081115 AAATC-AATTAAGT-AAAA
1 AAATCTAATTAAGTGAAAA
*
26081132 AAATCTAATTTAGTGAAAA
1 AAATCTAATTAAGTGAAAA
26081151 A
1 A
26081152 CAAATATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 5 0.29
18 7 0.41
19 5 0.29
ACGTcount: A:0.59, C:0.05, G:0.08, T:0.27
Consensus pattern (19 bp):
AAATCTAATTAAGTGAAAA
Found at i:26081275 original size:248 final size:249
Alignment explanation
Indices: 26080825--26082118 Score: 1449
Period size: 248 Copynumber: 5.2 Consensus size: 249
26080815 CTTGACAACT
**
26080825 AAATTTTAAATCTTAGTGTAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAAATC
1 AAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAAATC
* * *
26080890 TAATTTTAGTGAAAAATAAATATTAAAATTTATATTCTAAGACTAAAAGTGTTTAACA-ATATAT
66 TAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCAGACTAAAAGTGTTTAA-AGATATAC
* * *
26080954 AAATTTTAATTTTTAAAT-AATAATAATAATAATAATAATTATAGTTCAAAATTGACATAGATAA
130 AAATTTTAATTTTTAAATAAAAAATAATAATAAAAATAATTATAGTTCAAAATTGACATAGAAAA
* * *
26081018 GTGTTGACGTAAAACTGTAACAATTGACGAAAAAACTTATAAAGGTGGAATAACA
195 GTCTTGACGTAAAACTGTAACAATTAACGAAAAAACTTATAAAGGTAGAATAACA
* * *
26081073 AAATTTTAAATATGAACGTAAATGTGTGAGAGTTAACATAACAAATCAATTAAGT-AAAAAAATC
1 AAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAAATC
* * * * *
26081137 TAA-TTTAGTGAAAAACAAATATTTAAATTTATACTCTCGGAATAAAAGTGTTTAAAGATAAACA
66 TAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCAGACTAAAAGTGTTTAAAGATATACA
* *
26081201 AATTTTAA-TTTTAAATAAAAAATAATAGGATGAAAATAATTATAGTTCAAAATTGATATAGAAA
131 AATTTTAATTTTTAAATAAAAAATAATA--ATAAAAATAATTATAGTTCAAAATTGACATAGAAA
* * * * *
26081265 AGACTTGACGTAAAACTGTAAGAATTAAC-ATAAAACCTTATAAAGGTGGAATAACT
194 AGTCTTGACGTAAAACTGTAACAATTAACGA-AAAAACTTATAAAGGTAGAATAACA
* * ** *
26081321 AAATTTTAAATCTTAACGTAAATATGTGAGAATTAATGTAACAAGTCAATTAAGT-AAAAAAATA
1 AAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAAATC
* * *
26081385 TAATTTTAGTTAAAAATAAATATTTAAATTTATATTCTCAGACTACAAGTGTTTAACA-ATATAT
66 TAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCAGACTAAAAGTGTTTAA-AGATATAC
* *
26081449 AAATTTTAATTTTTAAATAAATAATAATAATAAAAATAATTATAGTTCAAAATTTACATA-AATA
130 AAATTTTAATTTTTAAATAAAAAATAATAATAAAAATAATTATAGTTCAAAATTGACATAGAA-A
* * * * * *
26081513 AGCCTTGACATAAAACTGTAACAATTGATGAAAAAATTTATAAAAGTAGAATAACA
194 AGTCTTGACGTAAAACTGTAACAATTAACGAAAAAACTTATAAAGGTAGAATAACA
* *
26081569 AAATTTTAAATCTTAACGTAAATATGCGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAAAAT
1 AAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGT-AAAAAAAAT
* * *
26081634 CT-ATTTTAGTGAAAAATAAATATTTAAATTTATATTCT-TGAGCTAAAAGTATTTAACGATATA
65 CTAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCAGA-CTAAAAGTGTTTAAAGATATA
* *
26081697 AAAATTTTAATTTTTAAATAAAAAATAATAAAGATAAAAATAATTATAGTTCAAAATTGATATAG
129 CAAATTTTAATTTTTAAATAAAAAATAAT--A-ATAAAAATAATTATAGTTCAAAATTGACATAG
* * * * * **
26081762 ATAAGTTTTGATGCAAAACTGTAACAATTAACGTAAAAACTTATAAAGGTAGAATAATT
191 AAAAGTCTTGACGTAAAACTGTAACAATTAACGAAAAAACTTATAAAGGTAGAATAACA
* * * * * *
26081821 AAA-TTTAAATTTTAACGTAAATATGTATGAGAATTAACGTAATAAGTTAATTAAGTAAAAAAAA
1 AAATTTTAAATCTTAACGT-AA-ATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAAA
* ** * * * * * *
26081885 TCTAATTTTAATGAAAAGCAAACATTTATATTTATATTATCA-AGCTAAAAGTATGTAATGATAT
64 TCTAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCAGA-CTAAAAGTGTTTAAAGATAT
* * * *
26081949 TCAAATTTTTA-TTTTAAATAAAAAATAATAA-AGATAACGATAATTATAATTAAAAATT-ACTA
128 ACAAATTTTAATTTTTAAATAAAAAATAATAATA-A-AA--ATAATTATAGTTCAAAATTGAC-A
* ** * * * ** * *
26082011 TTA-AAAAGGT-TTAACGTAAAGTTGTGAGAATTGAC-ATAAAATTTTATAAAAGTAAAATAA-A
188 -TAGAAAA-GTCTTGACGTAAAACTGTAACAATTAACGA-AAAAACTTATAAAGGTAGAATAACA
* * *
26082072 TAAATTTAAAATCTTAACGTAAATGTGTGAAAGTTATCATAACAAGT
1 -AAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACATAACAAGT
26082119 GATAACAATA
Statistics
Matches: 887, Mismatches: 127, Indels: 61
0.83 0.12 0.06
Matches are distributed among these distances:
245 9 0.01
246 68 0.08
247 15 0.02
248 315 0.36
249 141 0.16
250 31 0.03
251 35 0.04
252 170 0.19
253 103 0.12
ACGTcount: A:0.50, C:0.06, G:0.10, T:0.33
Consensus pattern (249 bp):
AAATTTTAAATCTTAACGTAAATGTGTGAGAGTTAACATAACAAGTCAATTAAGTAAAAAAAATC
TAATTTTAGTGAAAAATAAATATTTAAATTTATATTCTCAGACTAAAAGTGTTTAAAGATATACA
AATTTTAATTTTTAAATAAAAAATAATAATAAAAATAATTATAGTTCAAAATTGACATAGAAAAG
TCTTGACGTAAAACTGTAACAATTAACGAAAAAACTTATAAAGGTAGAATAACA
Found at i:26113450 original size:28 final size:29
Alignment explanation
Indices: 26113414--26113468 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 29
26113404 AAATGATAAC
*
26113414 ACTTATTAACATTGAA-AAATAAAATATT
1 ACTTATTAAAATTGAATAAATAAAATATT
* *
26113442 ACTTTTTAAAATTGAATAATTAAAATA
1 ACTTATTAAAATTGAATAAATAAAATA
26113469 AAAAATCTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 14 0.61
29 9 0.39
ACGTcount: A:0.53, C:0.05, G:0.04, T:0.38
Consensus pattern (29 bp):
ACTTATTAAAATTGAATAAATAAAATATT
Found at i:26123663 original size:17 final size:17
Alignment explanation
Indices: 26123619--26123665 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 17
26123609 AATTTGTTCA
26123619 ATATTTACAAAGAGTTG
1 ATATTTACAAAGAGTTG
* *
26123636 A-A-AT-GAAAGAGTTG
1 ATATTTACAAAGAGTTG
26123650 ATATTTACAAAGAGTT
1 ATATTTACAAAGAGTT
26123666 CAATATAGCA
Statistics
Matches: 23, Mismatches: 4, Indels: 6
0.70 0.12 0.18
Matches are distributed among these distances:
14 10 0.43
15 2 0.09
16 2 0.09
17 9 0.39
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (17 bp):
ATATTTACAAAGAGTTG
Found at i:26132015 original size:2 final size:2
Alignment explanation
Indices: 26132008--26132035 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26131998 TATCTCAAAT
26132008 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26132036 AATAAAAAAT
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26133780 original size:16 final size:15
Alignment explanation
Indices: 26133761--26133803 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
26133751 TTATTTATTT
26133761 TTAGTTATTTTTATAA
1 TTAGTTATTTTTA-AA
*
26133777 TTAGTTTATTTTTAAG
1 TTAG-TTATTTTTAAA
*
26133793 TGAGTTATTTT
1 TTAGTTATTTT
26133804 AATTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 8 0.33
17 9 0.38
ACGTcount: A:0.26, C:0.00, G:0.12, T:0.63
Consensus pattern (15 bp):
TTAGTTATTTTTAAA
Found at i:26138478 original size:21 final size:19
Alignment explanation
Indices: 26138445--26138483 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 19
26138435 TGGTTTAGAA
26138445 TTTTGTTAGTTTATTTTAT
1 TTTTGTTAGTTTATTTTAT
26138464 TTTTAGTTAGCTTTATTTTA
1 TTTT-GTTAG-TTTATTTTA
26138484 AGATATGTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 5 0.28
21 9 0.50
ACGTcount: A:0.18, C:0.03, G:0.10, T:0.69
Consensus pattern (19 bp):
TTTTGTTAGTTTATTTTAT
Found at i:26139817 original size:16 final size:16
Alignment explanation
Indices: 26139798--26139839 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
26139788 TTATTTATTT
26139798 TTAGTTATTTTTATAA-
1 TTAGTTATTTTT-TAAG
26139814 TTAGTT-TTTTTTAAG
1 TTAGTTATTTTTTAAG
*
26139829 TAAGTTATTTT
1 TTAGTTATTTT
26139840 AATTTTATGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (16 bp):
TTAGTTATTTTTTAAG
Found at i:26139871 original size:18 final size:19
Alignment explanation
Indices: 26139848--26139883 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
26139838 TTAATTTTAT
26139848 GTTATTATTT-TTAATTTG
1 GTTATTATTTATTAATTTG
26139866 GTTATTATTTATTAATTT
1 GTTATTATTTATTAATTT
26139884 TTATATTTTT
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:0.25, C:0.00, G:0.08, T:0.67
Consensus pattern (19 bp):
GTTATTATTTATTAATTTG
Found at i:26149361 original size:3 final size:3
Alignment explanation
Indices: 26149353--26149400 Score: 89
Period size: 3 Copynumber: 16.3 Consensus size: 3
26149343 CTCAATAAAT
26149353 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
26149400 T
1 T
26149401 AAAATCATTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.05
3 42 0.95
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:26149863 original size:2 final size:2
Alignment explanation
Indices: 26149856--26149882 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26149846 ATGCAATCAC
26149856 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
26149883 ATGTATAAGA
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:26150089 original size:27 final size:27
Alignment explanation
Indices: 26150059--26150110 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
26150049 CATGAAAGTA
*
26150059 TATTAATTAAT-CGATGAATTAATAATT
1 TATTAATTAATAC-ATCAATTAATAATT
*
26150086 TATTAATTTATACATCAATTAATAA
1 TATTAATTAATACATCAATTAATAA
26150111 AAATTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.44
Consensus pattern (27 bp):
TATTAATTAATACATCAATTAATAATT
Found at i:26150498 original size:17 final size:17
Alignment explanation
Indices: 26150476--26150509 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
26150466 AAGTCGGGAG
26150476 CAATCAAAAATATTAAT
1 CAATCAAAAATATTAAT
* *
26150493 CAATCAAGATTATTAAT
1 CAATCAAAAATATTAAT
26150510 TTGTAGAGAT
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:0.53, C:0.12, G:0.03, T:0.32
Consensus pattern (17 bp):
CAATCAAAAATATTAAT
Found at i:26157384 original size:12 final size:12
Alignment explanation
Indices: 26157364--26157392 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
26157354 GGCGGAGAAA
26157364 TTTTT-TAAATT
1 TTTTTATAAATT
26157375 TTTTTATAAATT
1 TTTTTATAAATT
26157387 TTTTTA
1 TTTTTA
26157393 ATGATCCCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTTTATAAATT
Found at i:26157683 original size:15 final size:16
Alignment explanation
Indices: 26157663--26157692 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
26157653 CTATTATGTG
26157663 GATTTT-ATTTTTTAT
1 GATTTTAATTTTTTAT
26157678 GATTTTAATTTTTTA
1 GATTTTAATTTTTTA
26157693 AAATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (16 bp):
GATTTTAATTTTTTAT
Found at i:26158813 original size:4 final size:4
Alignment explanation
Indices: 26158804--26158828 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
26158794 CTCAACATAC
26158804 AGAA AGAA AGAA AGAA AGAA AGAA A
1 AGAA AGAA AGAA AGAA AGAA AGAA A
26158829 TCAATCAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:26167598 original size:43 final size:44
Alignment explanation
Indices: 26167489--26167618 Score: 235
Period size: 44 Copynumber: 3.0 Consensus size: 44
26167479 ATAAAAAAAT
*
26167489 CTAGAAGCATTGCTTTCAGTTTGTCTTTATCCCATTTATCATTG
1 CTAGAAGCATTGCTTTCAGTTTGTCCTTATCCCATTTATCATTG
*
26167533 CTAGAAGCATTGCTTTCCGTTTGTCCTTATCCCATTTATCATTG
1 CTAGAAGCATTGCTTTCAGTTTGTCCTTATCCCATTTATCATTG
26167577 CTA-AAGCATTGCTTTCAGTTTGTCCTTATCCCATTTATCATT
1 CTAGAAGCATTGCTTTCAGTTTGTCCTTATCCCATTTATCATT
26167619 ATTATAAAAT
Statistics
Matches: 83, Mismatches: 3, Indels: 1
0.95 0.03 0.01
Matches are distributed among these distances:
43 38 0.46
44 45 0.54
ACGTcount: A:0.20, C:0.23, G:0.12, T:0.45
Consensus pattern (44 bp):
CTAGAAGCATTGCTTTCAGTTTGTCCTTATCCCATTTATCATTG
Found at i:26177373 original size:24 final size:24
Alignment explanation
Indices: 26177343--26177389 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
26177333 GCACAATGGT
26177343 AAAATTGGTAGTGGTGAGATTGAA
1 AAAATTGGTAGTGGTGAGATTGAA
*
26177367 AAAATTGGTGGTGGTGAGATTGA
1 AAAATTGGTAGTGGTGAGATTGA
26177390 TAATAATGCG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.34, C:0.00, G:0.36, T:0.30
Consensus pattern (24 bp):
AAAATTGGTAGTGGTGAGATTGAA
Found at i:26177735 original size:36 final size:35
Alignment explanation
Indices: 26177694--26177766 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 35
26177684 TATTTATTCT
* * * * *
26177694 TAATTATTTATGTATTTATTTTTTTTTTATTTCATA
1 TAATTAATTATGAATGTATTATTTGTTTATTT-ATA
26177730 TAATTAATTATGAATGTATTATTTGTTTATTTATA
1 TAATTAATTATGAATGTATTATTTGTTTATTTATA
26177765 TA
1 TA
26177767 TCTATTAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
35 5 0.16
36 27 0.84
ACGTcount: A:0.30, C:0.01, G:0.05, T:0.63
Consensus pattern (35 bp):
TAATTAATTATGAATGTATTATTTGTTTATTTATA
Found at i:26183784 original size:15 final size:16
Alignment explanation
Indices: 26183764--26183796 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
26183754 AACGAAACTT
26183764 ATATATT-TTTTAAAA
1 ATATATTATTTTAAAA
*
26183779 ATATATTATTTTATAA
1 ATATATTATTTTAAAA
26183795 AT
1 AT
26183797 TTAACGAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
ATATATTATTTTAAAA
Found at i:26183894 original size:32 final size:31
Alignment explanation
Indices: 26183847--26183908 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
26183837 ATCGATCAAA
* *
26183847 AATATTATTTAATAAAAGTTATTAGTTTATAG
1 AATATTATTTAATAAAAATT-TTACTTTATAG
26183879 AATATTAATTT-ATAAAAATTTTACTTTATA
1 AATATT-ATTTAATAAAAATTTTACTTTATA
26183909 TAAAAAAATG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 9 0.33
32 14 0.52
33 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (31 bp):
AATATTATTTAATAAAAATTTTACTTTATAG
Found at i:26201676 original size:18 final size:18
Alignment explanation
Indices: 26201653--26201688 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
26201643 GAAGCTCAGA
26201653 GGAAGAAAAAGAAAACTT
1 GGAAGAAAAAGAAAACTT
* *
26201671 GGAAGAAATAGCAAACTT
1 GGAAGAAAAAGAAAACTT
26201689 CTACCTGATG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.56, C:0.08, G:0.22, T:0.14
Consensus pattern (18 bp):
GGAAGAAAAAGAAAACTT
Found at i:26205059 original size:20 final size:20
Alignment explanation
Indices: 26205034--26205073 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
26205024 TCAATTCCTT
26205034 AACAAACTATATAAGAGATC
1 AACAAACTATATAAGAGATC
*
26205054 AACAAACTGTATAAGAGATC
1 AACAAACTATATAAGAGATC
26205074 TTTATAGACT
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:0.53, C:0.15, G:0.12, T:0.20
Consensus pattern (20 bp):
AACAAACTATATAAGAGATC
Found at i:26206874 original size:26 final size:27
Alignment explanation
Indices: 26206845--26206895 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
26206835 ATTTCAAAAG
*
26206845 TGATATTATACAT-TGAAAAAAATAAT
1 TGATATTATACATAGGAAAAAAATAAT
* *
26206871 TGATTTTATATATAGGAAAAAAATA
1 TGATATTATACATAGGAAAAAAATA
26206896 GTTGTTGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.53, C:0.02, G:0.10, T:0.35
Consensus pattern (27 bp):
TGATATTATACATAGGAAAAAAATAAT
Found at i:26207141 original size:28 final size:28
Alignment explanation
Indices: 26207103--26207160 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
26207093 AGAACAAATA
26207103 ATTTTATTAATTATTTTT-TACTTTTACAT
1 ATTTTATTAATT-TTTTTATACTTTTA-AT
*
26207132 ATTTT-TTAATTTTTTTATATTTTTAAT
1 ATTTTATTAATTTTTTTATACTTTTAAT
26207159 AT
1 AT
26207161 AATTAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
27 9 0.33
28 13 0.48
29 5 0.19
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (28 bp):
ATTTTATTAATTTTTTTATACTTTTAAT
Found at i:26209968 original size:33 final size:33
Alignment explanation
Indices: 26209931--26210044 Score: 102
Period size: 33 Copynumber: 3.3 Consensus size: 33
26209921 TATTTCAAAG
* *
26209931 CATTTATGATAAACAAGGCCAATTATCTGACAA
1 CATTTATGATAAACAAGGCCAATTATCTAAAAA
** ** * *
26209964 CATTTATGATGGTACGAGGGAAGGCCAACGATCCAAAAG
1 CATTTATGA---TA--A-ACAAGGCCAATTATCTAAAAA
26210003 CATTTATGATAAACAAGGCCAATTATCTAAAAA
1 CATTTATGATAAACAAGGCCAATTATCTAAAAA
26210036 CATTTATGA
1 CATTTATGA
26210045 GGGATGGAGT
Statistics
Matches: 61, Mismatches: 14, Indels: 12
0.70 0.16 0.14
Matches are distributed among these distances:
33 33 0.54
34 1 0.02
36 4 0.07
38 1 0.02
39 22 0.36
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.25
Consensus pattern (33 bp):
CATTTATGATAAACAAGGCCAATTATCTAAAAA
Found at i:26211493 original size:10 final size:10
Alignment explanation
Indices: 26211465--26211493 Score: 51
Period size: 9 Copynumber: 3.0 Consensus size: 10
26211455 TAAATCCATT
26211465 TTTCATAAAA
1 TTTCATAAAA
26211475 TTT-ATAAAA
1 TTTCATAAAA
26211484 TTTCATAAAA
1 TTTCATAAAA
26211494 ACTACCTTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
9 9 0.50
10 9 0.50
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (10 bp):
TTTCATAAAA
Found at i:26213250 original size:19 final size:18
Alignment explanation
Indices: 26213228--26213277 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
26213218 TATAAATAAA
26213228 TATAAAATTAATAATTTTT
1 TATAAAATTAA-AATTTTT
* *
26213247 TATATAATTAAAATTGTT
1 TATAAAATTAAAATTTTT
* *
26213265 GAAAAAATTAAAA
1 TATAAAATTAAAA
26213278 ATTTACGTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
18 16 0.62
19 10 0.38
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TATAAAATTAAAATTTTT
Found at i:26213320 original size:25 final size:26
Alignment explanation
Indices: 26213292--26213346 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
26213282 ACGTTATATA
26213292 AATAGTTAAA-ATGATATATAAAATT
1 AATAGTTAAATATGATATATAAAATT
26213317 AATAGTTAAATATGATATATAAAATT
1 AATAGTTAAATATGATATATAAAATT
26213343 AATA
1 AATA
26213347 ATTTTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.36
Consensus pattern (26 bp):
AATAGTTAAATATGATATATAAAATT
Found at i:26213814 original size:19 final size:19
Alignment explanation
Indices: 26213790--26213839 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
26213780 AAAAGAGGGG
26213790 TAGAGAAAATTTAAAAAGT
1 TAGAGAAAATTTAAAAAGT
* *
26213809 TAGAGAAAAATTAAAGAGT
1 TAGAGAAAATTTAAAAAGT
26213828 TAGAGTAAAATT
1 TAGAG-AAAATT
26213840 AAATAAGACT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 22 0.81
20 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.18, T:0.26
Consensus pattern (19 bp):
TAGAGAAAATTTAAAAAGT
Found at i:26227753 original size:215 final size:213
Alignment explanation
Indices: 26227230--26227760 Score: 522
Period size: 213 Copynumber: 2.5 Consensus size: 213
26227220 ATTCACATCA
* * * * *
26227230 ATATTGTAACAATA-TTTATTTCAATTTTATGAACTTTTACATTTATTCTTATAAATTTACGTTA
1 ATATTTTAATAATATTTTATTTCAACTTTATGAAATTTTACATTTATTTTTATAAATTTACGTTA
* * * *
26227294 AGCTTTTTAACAAGTTAATTTTCGTTATAAGTATTTTTATGCTTTTTATTACGCATCTACATTAA
66 AGATTTTTAA-AAGTTAATTTTCATTATAAGTATTTTTATGCTTATTATTACACATCTACATTAA
* * *
26227359 TATTTATAAATAATTAACTTTTATTAAAAATATGTTTATTTGTCTAACATGAATTGTTATACTAA
130 CATTTATAAATAATTAACTTTTATAAAAAATATGTTTATTTGTCTAACATGAATTGTTAGACTAA
* *
26227424 CCCTTGCACATTTATGTCT
195 CCCTTACACATTTATGTCG
* * * * **
26227443 ATGTTTTAAT--TATGTTTATTTTAACCTTATTAAGGTTTACATTTATTCTTT-TAAATTTACGT
1 ATATTTTAATAATAT-TTTATTTCAACTTTATGAAATTTTACATTTATT-TTTATAAATTTACGT
* * * * * ** * *
26227505 CAAAATTTTTAAAAATTTAATTTTCACTATAAGTATTTTTATTCTTATTATTGTACATTTACGTT
64 TAAGATTTTT-AAAAGTTAATTTTCATTATAAGTATTTTTATGCTTATTATTACACATCTACATT
* ** *
26227570 AACATTTGTAAATGGTTAA-TTTTCACTAAAAAATATGTTTACTTTGTCTAACATGATTTGTTAC
128 AACATTTATAAATAATTAACTTTT-A-TAAAAAATATGTTTA-TTTGTCTAACATGAATTGTTA-
* *
26227634 GA-TAACTCTTACATATTTAAT-T-G
189 GACTAACCCTTACACATTT-ATGTCG
** * * *
26227657 ATATTTTAATAATATTTTATTTCAACTTTATGAAATTTTATGTTTATTTTTATATACTTACATTA
1 ATATTTTAATAATATTTTATTTCAACTTTATGAAATTTTACATTTATTTTTATAAATTTACGTTA
* *
26227722 AGATTCTTAAAAGGTTAATATTT-ATTATAAGTGTTTTTA
66 AGATTTTTAAAA-GTTAAT-TTTCATTATAAGTATTTTTA
26227761 GACTAAATAT
Statistics
Matches: 253, Mismatches: 51, Indels: 26
0.77 0.15 0.08
Matches are distributed among these distances:
211 2 0.01
212 4 0.02
213 110 0.43
214 34 0.13
215 94 0.37
216 9 0.04
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.50
Consensus pattern (213 bp):
ATATTTTAATAATATTTTATTTCAACTTTATGAAATTTTACATTTATTTTTATAAATTTACGTTA
AGATTTTTAAAAGTTAATTTTCATTATAAGTATTTTTATGCTTATTATTACACATCTACATTAAC
ATTTATAAATAATTAACTTTTATAAAAAATATGTTTATTTGTCTAACATGAATTGTTAGACTAAC
CCTTACACATTTATGTCG
Found at i:26230086 original size:22 final size:23
Alignment explanation
Indices: 26230061--26230120 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 23
26230051 GTCCAATAAC
26230061 TTAA-TTTAATCAATTTAATTAA
1 TTAAGTTTAATCAATTTAATTAA
**
26230083 TTAAGCCTAA-CAATTTAATTAA
1 TTAAGTTTAATCAATTTAATTAA
** *
26230105 ACAATTTTAATCAATT
1 TTAAGTTTAATCAATT
26230121 AGCCCAATGA
Statistics
Matches: 29, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (23 bp):
TTAAGTTTAATCAATTTAATTAA
Found at i:26230138 original size:35 final size:35
Alignment explanation
Indices: 26230039--26230319 Score: 212
Period size: 35 Copynumber: 8.1 Consensus size: 35
26230029 AATTGTTTAA
* * * *
26230039 TTAATCAATTAGGTCCAATAACTTAATTTAATCAAT
1 TTAATTAATTAGGCCCAATGACTTAA-TTAAACAAT
* * ** *
26230075 TTAATTAATTAAGCCTAACAATTTAATTAAACAATT
1 TTAATTAATTAGGCCCAATGACTTAATTAAACAA-T
*
26230111 TTAATCAATTA-GCCCAATGA-TTGAATTAAACAAAT
1 TTAATTAATTAGGCCCAATGACTT-AATTAAAC-AAT
* * * * ****
26230146 TTAATCAATTAAGCTCAATTACTTAATTGTTTAAT
1 TTAATTAATTAGGCCCAATGACTTAATTAAACAAT
* * * *
26230181 TTAATTAATTAGGCCAAATGATTTAATTAAATACT
1 TTAATTAATTAGGCCCAATGACTTAATTAAACAAT
* * * *
26230216 TTGATTAATTAGGTCAAATGACTTAATTAAACACT
1 TTAATTAATTAGGCCCAATGACTTAATTAAACAAT
* * *
26230251 TTAATTAATTACGCCCAATGATTTAATTAAATAAT
1 TTAATTAATTAGGCCCAATGACTTAATTAAACAAT
* *
26230286 TTAATTAATTAGG--CACT-ACTTAATTAAATAAT
1 TTAATTAATTAGGCCCAATGACTTAATTAAACAAT
26230318 TT
1 TT
26230320 TAATCAAGTG
Statistics
Matches: 199, Mismatches: 41, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
32 16 0.08
33 3 0.02
34 2 0.01
35 132 0.66
36 44 0.22
37 2 0.01
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (35 bp):
TTAATTAATTAGGCCCAATGACTTAATTAAACAAT
Found at i:26230177 original size:141 final size:141
Alignment explanation
Indices: 26230014--26230296 Score: 340
Period size: 141 Copynumber: 2.0 Consensus size: 141
26230004 AGTCGTTAAA
* *
26230014 AAGCTTAATTAACTTAATTGTTTAA-TTAATCAATTAGGTCC-AATAACTTAATTTAATCAATTT
1 AAGCTCAATTAACTTAATTGTTTAATTTAATCAATTAGG-CCAAATAACTTAATTAAAT-AATTT
* * *
26230077 AATTAATTAAGCCTAACAATTTAATTAAACAATTTTAATCAATTA-GCCCAATGATTGAATTAAA
64 AATTAATTAAGCCAAACAACTTAATTAAAC-ACTTTAATCAATTACGCCCAATGATTGAATTAAA
26230141 CAAATTTAATCAATT
128 -AAATTTAATCAATT
* * * * *
26230156 AAGCTCAATT-ACTTAATTGTTTAATTTAATTAATTAGGCCAAATGATTTAATTAAATACTTTGA
1 AAGCTCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCAAATAACTTAATTAAATAATTTAA
* * ** * * *
26230220 TTAATTAGGTCAAATGACTTAATTAAACACTTTAATTAATTACGCCCAATGATTTAATTAAATAA
66 TTAATTAAGCCAAACAACTTAATTAAACACTTTAATCAATTACGCCCAATGATTGAATTAAAAAA
*
26230285 TTTAATTAATT
131 TTTAATCAATT
26230296 A
1 A
26230297 GGCACTACTT
Statistics
Matches: 120, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
140 25 0.21
141 61 0.51
142 34 0.28
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (141 bp):
AAGCTCAATTAACTTAATTGTTTAATTTAATCAATTAGGCCAAATAACTTAATTAAATAATTTAA
TTAATTAAGCCAAACAACTTAATTAAACACTTTAATCAATTACGCCCAATGATTGAATTAAAAAA
TTTAATCAATT
Found at i:26232404 original size:213 final size:212
Alignment explanation
Indices: 26232029--26232948 Score: 1004
Period size: 213 Copynumber: 4.3 Consensus size: 212
26232019 ATGGTCCCAT
* * * * *
26232029 TTGTTACCGTAACTTTTATCAATTTACATTAATATTTTAACAATGTATATTTCAATTTTATGAAT
1 TTGTTACGGTAACTCTTA-CAATTTACGTCAATATTTTAACAATGT-TATTTCAACTTTATGAA-
* * * * *
26232094 TTTTTACGTTTGTTCTTATAAATTTATGTCAAGA-TTTTAAATAATTAATTTTCACTATAAATAT
63 TTTTTACGTTTATTCTTATAAATTTAAGTCAAGATTTTTAAATGACTAATTTTCACTATAAGTAT
* * * * * * * *
26232158 TTTTATGTTTATTGTTAGACATTTACATTAACATCTATAAAGGATTAA-TTTCACTAAAATTATG
128 TTTTATGCTTATTATTATACATTTATATTAACATTTGTAAATGATTAATTTTCACTAAAAGTATG
* *
26232222 TTTCTTTTATCTAATATGAA
193 TTTATTTTGTCTAATATGAA
* * * *
26232242 CTGTTATGGTAACTTTTACATATTTACGTAAATATTTTAACAATAGTTATTTCAACTTTATGAAT
1 TTGTTACGGTAACTCTTACA-ATTTACGTCAATATTTTAACAAT-GTTATTTCAACTTTATGAAT
* * *
26232307 TTTTACGCTTATTCTTGTAAATTTAAGTCAAGATTTTTAAATGACTAATTTTGACTATAAGTATT
64 TTTTACGTTTATTCTTATAAATTTAAGTCAAGATTTTTAAATGACTAATTTTCACTATAAGTATT
* * * *
26232372 TTTATTCTTATTATTATACATTTATATTAACATTTGCAAATGATTAATTTTCAATAATAGTATGT
129 TTTATGCTTATTATTATACATTTATATTAACATTTGTAAATGATTAATTTTCACTAAAAGTATGT
* *
26232437 TTGA-TTTGTTTAAAATGAA
194 TT-ATTTTGTCTAATATGAA
* * *
26232456 TTGTTACGGTAACTCTTATACATTTATGTGAATATTTTTAACAATGATTATTTCAACTTTATGAA
1 TTGTTACGGTAACTCTTACA-ATTTACGTCAATA-TTTTAACAATG-TTATTTCAACTTTATGAA
* * ** *
26232521 TTTTTACATTTATTCTTATAATTAAGTTTACA-TCAAAAAGTTTAAATGGCTAATTTTCACTATA
63 TTTTTACGTTTATTCTTAT-A--AA-TTTA-AGTCAAGATTTTTAAATGACTAATTTTCACTATA
* * *
26232585 AGTATTTTTATGCTTATTATAATAAATTTATATTAACATTTGTAAATGTTTAATTTTCACTAAAA
123 AGTATTTTTATGCTTATTATTATACATTTATATTAACATTTGTAAATGATTAATTTTCACTAAAA
*
26232650 GTAGGTTTATTTTGTCTAATATGAA
188 GTATGTTTATTTTGTCTAATATGAA
* * * * * *
26232675 TTGTTACAGTATCTCTTACACATTTACGTCAATATTGTAATAATTCTTATTTCAACTTTTTGAAT
1 TTGTTACGGTAACTCTTACA-ATTTACGTCAATATTTTAACAA-TGTTATTTCAACTTTATGAAT
* * * * ** * *
26232740 ATATACGTTTATTTTTATAAATTTACGTCAAGATTTTTAAATGGTTAATTTTCATTATACGT-TT
64 TTTTACGTTTATTCTTATAAATTTAAGTCAAGATTTTTAAATGACTAATTTTCACTATAAGTATT
* * * * *
26232804 TTTATGCTTATTATCATACATTTATGTTAATATTTGTAAATGATTAATTTTCACTAAAAGCATAT
129 TTTATGCTTATTATTATACATTTATATTAACATTTGTAAATGATTAATTTTCACTAAAAGTATGT
* *
26232869 TTATTTTGTCTGACATGAA
194 TTATTTTGTCTAATATGAA
* * * * *
26232888 TTGTTACCGTAACTCTCACCAATTTATGTCAATATTTTAACAATACTTATTTCAATTTTAT
1 TTGTTACGGTAACTCTTA-CAATTTACGTCAATATTTTAACAAT-GTTATTTCAACTTTAT
26232949 AAGGAGTGGT
Statistics
Matches: 597, Mismatches: 93, Indels: 34
0.82 0.13 0.05
Matches are distributed among these distances:
212 33 0.06
213 241 0.40
214 93 0.16
215 46 0.08
216 1 0.00
217 1 0.00
218 42 0.07
219 139 0.23
220 1 0.00
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (212 bp):
TTGTTACGGTAACTCTTACAATTTACGTCAATATTTTAACAATGTTATTTCAACTTTATGAATTT
TTACGTTTATTCTTATAAATTTAAGTCAAGATTTTTAAATGACTAATTTTCACTATAAGTATTTT
TATGCTTATTATTATACATTTATATTAACATTTGTAAATGATTAATTTTCACTAAAAGTATGTTT
ATTTTGTCTAATATGAA
Found at i:26232847 original size:432 final size:427
Alignment explanation
Indices: 26232029--26232948 Score: 1069
Period size: 432 Copynumber: 2.1 Consensus size: 427
26232019 ATGGTCCCAT
* * * ** *
26232029 TTGTTACCGTAACTTTTATCAATTTACATTAATATTTTAACAATG-TATATTTCAATTTTATGAA
1 TTGTTACCGTAACTCTCAACAATTTATGTCAATATTTTAACAATGAT-TATTTCAATTTTATGAA
* * ** * * *
26232093 TTTTTTACGTTTGTTCTTATAAATTTATGTCAAGATTTTAAATAATTAATTTTCACTATAAATAT
65 TTTTTTACATTTATTCTTATAAATTTACATCAAAAGTTTAAATAACTAATTTTCACTATAAATAT
* * * * * *
26232158 TTTTATGTTTATTGTTAGACATTTACATTAACATCTATAAAGGATTAATTTCACTAAAATTATGT
130 TTTTATGCTTATTATAAGAAATTTACATTAACATCTATAAAGGATTAATTTCACTAAAAGTAGGT
* ** * * * *
26232223 TTCTTTTATCTAATATGAACTGTTATGGTAACTTTTACATATTTACGTAAATATTTTAACAATAG
195 TTATTTTATCTAATATGAACTGTTACAGTAACTCTTACACATTTACGTAAATATTGTAACAATAC
* * *
26232288 TTATTTCAACTTTATGAATTTTTACGCTTATTCTTGTAAATTTAAGTCAAGATTTTTAAATGACT
260 TTATTTCAACTTTATGAATATATACGCTTATTCTTATAAATTTAAGTCAAGATTTTTAAATGACT
* * *
26232353 AATTTTGACTATAAGTATTTTTATTCTTATTATTATACATTTATATTAACATTTGCAAATGATTA
325 AATTTTCACTATAAGTATTTTTATGCTTATTATCATACATTTATATTAACATTTGCAAATGATTA
* * * *
26232418 ATTTTCAATAATAGTATGTTTGA-TTTGTTTAAAATGAA
390 ATTTTCAATAAAAGCATATTT-ATTTTGTCTAAAATGAA
* * * *
26232456 TTGTTACGGTAACTCTTATAC-ATTTATGTGAATATTTTTAACAATGATTATTTCAACTTTATGA
1 TTGTTACCGTAACTCTCA-ACAATTTATGTCAATA-TTTTAACAATGATTATTTCAATTTTATGA
**
26232520 A-TTTTTACATTTATTCTTATAATTAAGTTTACATCAAAAAGTTTAAATGGCTAATTTTCACTAT
64 ATTTTTTACATTTATTCTTAT-A--AA-TTTACATC-AAAAGTTTAAATAACTAATTTTCACTAT
* * * * * * *
26232584 AAGTATTTTTATGCTTATTATAATAAATTTATATTAACATTTGTAAATGTTTAATTTTCACTAAA
124 AAATATTTTTATGCTTATTATAAGAAATTTACATTAACATCTATAAAGGATTAA-TTTCACTAAA
* * * *
26232649 AGTAGGTTTATTTTGTCTAATATGAATTGTTACAGTATCTCTTACACATTTACGTCAATATTGTA
188 AGTAGGTTTATTTTATCTAATATGAACTGTTACAGTAACTCTTACACATTTACGTAAATATTGTA
* * * * * *
26232714 ATAATTCTTATTTCAACTTTTTGAATATATACGTTTATTTTTATAAATTTACGTCAAGATTTTTA
253 ACAATACTTATTTCAACTTTATGAATATATACGCTTATTCTTATAAATTTAAGTCAAGATTTTTA
** * * * * *
26232779 AATGGTTAATTTTCATTATACGT-TTTTTATGCTTATTATCATACATTTATGTTAATATTTGTAA
318 AATGACTAATTTTCACTATAAGTATTTTTATGCTTATTATCATACATTTATATTAACATTTGCAA
* * *
26232843 ATGATTAATTTTCACTAAAAGCATATTTATTTTGTCTGACATGAA
383 ATGATTAATTTTCAATAAAAGCATATTTATTTTGTCTAAAATGAA
*
26232888 TTGTTACCGTAACTCTCACCAATTTATGTCAATATTTTAACAAT-ACTTATTTCAATTTTAT
1 TTGTTACCGTAACTCTCAACAATTTATGTCAATATTTTAACAATGA-TTATTTCAATTTTAT
26232949 AAGGAGTGGT
Statistics
Matches: 410, Mismatches: 71, Indels: 20
0.82 0.14 0.04
Matches are distributed among these distances:
427 43 0.10
428 29 0.07
429 1 0.00
430 3 0.01
431 32 0.08
432 166 0.40
433 136 0.33
ACGTcount: A:0.33, C:0.10, G:0.08, T:0.48
Consensus pattern (427 bp):
TTGTTACCGTAACTCTCAACAATTTATGTCAATATTTTAACAATGATTATTTCAATTTTATGAAT
TTTTTACATTTATTCTTATAAATTTACATCAAAAGTTTAAATAACTAATTTTCACTATAAATATT
TTTATGCTTATTATAAGAAATTTACATTAACATCTATAAAGGATTAATTTCACTAAAAGTAGGTT
TATTTTATCTAATATGAACTGTTACAGTAACTCTTACACATTTACGTAAATATTGTAACAATACT
TATTTCAACTTTATGAATATATACGCTTATTCTTATAAATTTAAGTCAAGATTTTTAAATGACTA
ATTTTCACTATAAGTATTTTTATGCTTATTATCATACATTTATATTAACATTTGCAAATGATTAA
TTTTCAATAAAAGCATATTTATTTTGTCTAAAATGAA
Found at i:26233338 original size:21 final size:20
Alignment explanation
Indices: 26233312--26233365 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 20
26233302 GCATACTTAT
*
26233312 AAAGAGAAAAAAAAAGAAAA
1 AAAGAGAAAAAAAAACAAAA
26233332 AGAAGAGAAAAAAAAACAAAA
1 A-AAGAGAAAAAAAAACAAAA
26233353 AAAGAGAGAAAAA
1 AAAGAGA-AAAAA
26233366 GGAAAATGCA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
20 7 0.23
21 24 0.77
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (20 bp):
AAAGAGAAAAAAAAACAAAA
Found at i:26233344 original size:20 final size:20
Alignment explanation
Indices: 26233312--26233371 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
26233302 GCATACTTAT
26233312 AAAGAGAAAAAAAAAGAAAAA
1 AAAGAG-AAAAAAAAGAAAAA
*
26233333 GAAGAGAAAAAAAA-ACAAAA
1 AAAGAGAAAAAAAAGA-AAAA
* *
26233353 AAAGAGAGAAAAAGGAAAA
1 AAAGAGAAAAAAAAGAAAA
26233372 TGCAATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 1 0.03
20 26 0.79
21 6 0.18
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (20 bp):
AAAGAGAAAAAAAAGAAAAA
Found at i:26233346 original size:22 final size:23
Alignment explanation
Indices: 26233313--26233365 Score: 76
Period size: 22 Copynumber: 2.4 Consensus size: 23
26233303 CATACTTATA
*
26233313 AAGAG-AAAAAAAA-AGAAAAAG
1 AAGAGAAAAAAAAACAAAAAAAG
26233334 AAGAGAAAAAAAAACAAAAAAAG
1 AAGAGAAAAAAAAACAAAAAAAG
26233357 -AGAGAAAAA
1 AAGAGAAAAA
26233366 GGAAAATGCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.17
22 17 0.59
23 7 0.24
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (23 bp):
AAGAGAAAAAAAAACAAAAAAAG
Found at i:26233538 original size:12 final size:12
Alignment explanation
Indices: 26233523--26233552 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
26233513 GTAGAAAAAT
26233523 AAAAAAAGAGAAA
1 AAAAAAAG-GAAA
26233536 AAAAAAAGGAAA
1 AAAAAAAGGAAA
26233548 AAAAA
1 AAAAA
26233553 TAATTCCAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (12 bp):
AAAAAAAGGAAA
Found at i:26233548 original size:27 final size:26
Alignment explanation
Indices: 26233500--26233552 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
26233490 GTATACTTAT
* **
26233500 AAAGAGAAAAAGAGTAGAAAAATAAAA
1 AAAGAGAAAAAAAAAAGAAAAA-AAAA
*
26233527 AAAGAGAAAAAAAAAAGGAAAAAAAA
1 AAAGAGAAAAAAAAAAGAAAAAAAAA
26233553 TAATTCCAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (26 bp):
AAAGAGAAAAAAAAAAGAAAAAAAAA
Found at i:26235986 original size:101 final size:101
Alignment explanation
Indices: 26235862--26236064 Score: 397
Period size: 101 Copynumber: 2.0 Consensus size: 101
26235852 TAAATACAAA
*
26235862 ACAAATGTCCAAGTCTCAGATAATGGCAACACTTCTGAAAGGAAGAAGTTAGTAGAAAGAGTAAA
1 ACAAATGTCCAAGTCTCAGATAATGGCAACACTTCTGAAAGGAAGAAGTCAGTAGAAAGAGTAAA
26235927 CAAAAAGCTTTTCTCTTGCACAAATAACCATTTGCC
66 CAAAAAGCTTTTCTCTTGCACAAATAACCATTTGCC
26235963 ACAAATGTCCAAGTCTCAGATAATGGCAACACTTCTGAAAGGAAGAAGTCAGTAGAAAGAGTAAA
1 ACAAATGTCCAAGTCTCAGATAATGGCAACACTTCTGAAAGGAAGAAGTCAGTAGAAAGAGTAAA
26236028 CAAAAAGCTTTTCTCTTGCACAAATAACCATTTGCC
66 CAAAAAGCTTTTCTCTTGCACAAATAACCATTTGCC
26236064 A
1 A
26236065 TTGCAAATTC
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (101 bp):
ACAAATGTCCAAGTCTCAGATAATGGCAACACTTCTGAAAGGAAGAAGTCAGTAGAAAGAGTAAA
CAAAAAGCTTTTCTCTTGCACAAATAACCATTTGCC
Found at i:26240593 original size:12 final size:12
Alignment explanation
Indices: 26240576--26240601 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
26240566 AACAGAAGAC
26240576 AGTGAGAGAGAG
1 AGTGAGAGAGAG
26240588 AGTGAGAGAGAG
1 AGTGAGAGAGAG
26240600 AG
1 AG
26240602 AGGAGATAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.00, G:0.50, T:0.08
Consensus pattern (12 bp):
AGTGAGAGAGAG
Done.