Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 97507971
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: 97507971
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 232 characters in sequence are not A, C, G, or T
File 30 of 328
Found at i:8763318 original size:21 final size:20
Alignment explanation
Indices: 8763290--8763328 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
8763280 TTTGGGATTA
8763290 AAATATGAAAATGATAATCC
1 AAATATGAAAATGATAATCC
8763310 AAATGATGAAAATGATAAT
1 AAAT-ATGAAAATGATAAT
8763329 TATTTTTTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.56, C:0.05, G:0.13, T:0.26
Consensus pattern (20 bp):
AAATATGAAAATGATAATCC
Found at i:8767846 original size:39 final size:40
Alignment explanation
Indices: 8767765--8767847 Score: 107
Period size: 39 Copynumber: 2.1 Consensus size: 40
8767755 TTAGCATTTT
**
8767765 AATTGATTTTTTAAAATTTTAAAAATTCAAAAAAATTTCAA
1 AATTGATTTTTTAAAA-TTTAAAAATTCAAAAAAATGACAA
*
8767806 AATTTATTTTTTAAAA-TTAAAAATT-ATAAAAAATGACAA
1 AATTGATTTTTTAAAATTTAAAAATTCA-AAAAAATGACAA
8767845 AAT
1 AAT
8767848 AATTAAATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
38 1 0.03
39 22 0.58
41 15 0.39
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (40 bp):
AATTGATTTTTTAAAATTTAAAAATTCAAAAAAATGACAA
Found at i:8772358 original size:23 final size:24
Alignment explanation
Indices: 8772327--8772371 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
8772317 TAGCATAGAG
8772327 ATCCTCCAAATACCACAAAACCAT
1 ATCCTCCAAATACCACAAAACCAT
*
8772351 ATCC-CCAAATACTACAAAACC
1 ATCCTCCAAATACCACAAAACC
8772372 CAATTCGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.47, C:0.38, G:0.00, T:0.16
Consensus pattern (24 bp):
ATCCTCCAAATACCACAAAACCAT
Found at i:8774480 original size:389 final size:389
Alignment explanation
Indices: 8773761--8775310 Score: 2740
Period size: 389 Copynumber: 4.0 Consensus size: 389
8773751 GTAAACATAG
8773761 CCACGGGTCGTCCGTCTTTATGATGAATGACTTGATCACTATTTAATAGTGATTGATTTTTAATG
1 CCACGGGTCGTCCGTCTTTATGATGAATGACTTGATCACTATTTAATAGTGATTGATTTTTAATG
* * * * *
8773826 AAAGAAGATGTAATGGTTACCATGAGATAAAATATGATCACATTGGGAGAATTGATATTATCCCA
66 AAGGAAGATGTAATGGTTACCATGAGAT-AAATAAGATCATATTAGGAGAACTGATATTATCCCA
8773891 AAAAGATCAATGATACCTTATGAGGGTAACACACTTATGACAAAGTCATTGGATGAACTCTGAGT
130 AAAAGATCAATGATACCTTATGAGGGTAACACACTTATGACAAAGTCATTGGATGAACTCTGAGT
* *
8773956 AGTTGCTTTCGTAATGGTATGTCATTGGGGAGAGTTCAGTCACGATACTATAGTGGAATTACTTT
195 AGTTGCTTTCGTAATGGTATGTCATTGGGGAGAGTTCAGTCACGATACTACAGTGGAATGACTTT
* *
8774021 GTGACTAAATGTGTTTATTATTAATAGACGAAAAGCTGAAACTTAATTACAAACCATTTGAGCTT
260 GTGACTAAATGAGTTTATTATTAATAGACGAAAAGCTGAAACTTAATTACAAACCATTTGAGCCT
8774086 CAACTACATATATCCAATCGGTCCCTCCGCTAGCTCATTGAAACTATCAATGAATTGTAACGTAA
325 CAACTACATATATCCAATCGGTCCCTCCGCTAGCTCATTGAAACTATCAATGAATTGTAACGTAA
8774151 CCACGGGTCGTCCGTCTTTATGATGAATGACTTGATCACTATTTAATAGTGATTGATTTTTAATG
1 CCACGGGTCGTCCGTCTTTATGATGAATGACTTGATCACTATTTAATAGTGATTGATTTTTAATG
8774216 AAGGAAGATGTAATGGTTACCATGAGATAAATAAGATCATATTAGGAGAACTGATATTATCCCAA
66 AAGGAAGATGTAATGGTTACCATGAGATAAATAAGATCATATTAGGAGAACTGATATTATCCCAA
*
8774281 AAAGATCAATGATACCTTATGAGGGTAACACACTTATGACAAGGTCATTGGATGAACTCTGAGTA
131 AAAGATCAATGATACCTTATGAGGGTAACACACTTATGACAAAGTCATTGGATGAACTCTGAGTA
* *
8774346 GTTTCTTTCGTAATGGTATGTCGTTGGGGAGAGTTCAGTCACGATACTACAGTGGAATGACTTTG
196 GTTGCTTTCGTAATGGTATGTCATTGGGGAGAGTTCAGTCACGATACTACAGTGGAATGACTTTG
8774411 TGACTAAATGAGTTTATTATTAATAGACGAAAAGCTGAAACTTAATTACAAACCATTTGAGCCTC
261 TGACTAAATGAGTTTATTATTAATAGACGAAAAGCTGAAACTTAATTACAAACCATTTGAGCCTC
* *
8774476 AACTACACATATCCAATCAGTCCCTCCGCTAGCTCATTGAAACTATCAATGAATTGTAACGTAA
326 AACTACATATATCCAATCGGTCCCTCCGCTAGCTCATTGAAACTATCAATGAATTGTAACGTAA
8774540 CCACGGGTCGTCCGTCTTTATGATGAATGACTTGATCACTATTTAATAGTGATTGATTTTTAATG
1 CCACGGGTCGTCCGTCTTTATGATGAATGACTTGATCACTATTTAATAGTGATTGATTTTTAATG
*
8774605 AAGGAAGATGTAATGGTTACCATGAGATAAATAAGATTATATTAGGAGAACTGATATTATCCCAA
66 AAGGAAGATGTAATGGTTACCATGAGATAAATAAGATCATATTAGGAGAACTGATATTATCCCAA
* * *
8774670 AAAGATCAATGATACCTTATGAGGGTAACACACTTATGACAAGGTTATTGGTTGAACTCTGAGTA
131 AAAGATCAATGATACCTTATGAGGGTAACACACTTATGACAAAGTCATTGGATGAACTCTGAGTA
* *
8774735 GTTGCTTTTGTAATGGTATGTCGTTGGGGAGAGTTCAGTCACGATACTACAGTGGAATGACTTTG
196 GTTGCTTTCGTAATGGTATGTCATTGGGGAGAGTTCAGTCACGATACTACAGTGGAATGACTTTG
*
8774800 TGACTAAATGAGTTTATTATTAATAGACGAAAAGCTAAAACTTAATTACAAACCATTTGAGCCTC
261 TGACTAAATGAGTTTATTATTAATAGACGAAAAGCTGAAACTTAATTACAAACCATTTGAGCCTC
* *
8774865 AACAACATATATCCAATCGGTCCCTCAGCTAGCTCATTGAAACTATCAATGAATTGTAACGTAA
326 AACTACATATATCCAATCGGTCCCTCCGCTAGCTCATTGAAACTATCAATGAATTGTAACGTAA
*
8774929 CCACGGGTCGTCCATCTTTATGATGAATGACTTGATCACTATTTAATAGTGATTGATTTTTAATG
1 CCACGGGTCGTCCGTCTTTATGATGAATGACTTGATCACTATTTAATAGTGATTGATTTTTAATG
* * * *
8774994 AAGGAAGATGTAATAGTGACCATGAGATAAATAGGATCATATTGGGAGAACTGATATTATCCCAA
66 AAGGAAGATGTAATGGTTACCATGAGATAAATAAGATCATATTAGGAGAACTGATATTATCCCAA
**
8775059 AAAGATCAATGATACCTTATGAGGGTAACACACTTATGACAAAGTCATTGGACAAACTCTGAGTA
131 AAAGATCAATGATACCTTATGAGGGTAACACACTTATGACAAAGTCATTGGATGAACTCTGAGTA
* * * * *
8775124 GTTGTTTTCGTAATGGTATATCATTGGGGAGAGCTCAATCACGATACTACAGTGGAGTGACTTTG
196 GTTGCTTTCGTAATGGTATGTCATTGGGGAGAGTTCAGTCACGATACTACAGTGGAATGACTTTG
* * *
8775189 TGACTAAATGAGTTTATTATTAATAGGCAAAAAGCTGGAACTTAATTACAAACCATTTGAGCCTC
261 TGACTAAATGAGTTTATTATTAATAGACGAAAAGCTGAAACTTAATTACAAACCATTTGAGCCTC
*
8775254 AACTACATATATCCAATCGGTCCCTCCGCTAGCTCATTGAAACTATAAATGAATTGT
326 AACTACATATATCCAATCGGTCCCTCCGCTAGCTCATTGAAACTATCAATGAATTGT
8775311 GTGTTTAAAT
Statistics
Matches: 1111, Mismatches: 49, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
389 1019 0.92
390 92 0.08
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (389 bp):
CCACGGGTCGTCCGTCTTTATGATGAATGACTTGATCACTATTTAATAGTGATTGATTTTTAATG
AAGGAAGATGTAATGGTTACCATGAGATAAATAAGATCATATTAGGAGAACTGATATTATCCCAA
AAAGATCAATGATACCTTATGAGGGTAACACACTTATGACAAAGTCATTGGATGAACTCTGAGTA
GTTGCTTTCGTAATGGTATGTCATTGGGGAGAGTTCAGTCACGATACTACAGTGGAATGACTTTG
TGACTAAATGAGTTTATTATTAATAGACGAAAAGCTGAAACTTAATTACAAACCATTTGAGCCTC
AACTACATATATCCAATCGGTCCCTCCGCTAGCTCATTGAAACTATCAATGAATTGTAACGTAA
Found at i:8777909 original size:24 final size:24
Alignment explanation
Indices: 8777871--8777925 Score: 74
Period size: 24 Copynumber: 2.3 Consensus size: 24
8777861 TACATGTTAT
* *
8777871 CAACATCATCTTTCAATTTAGCAC
1 CAACATCATCATTCAATCTAGCAC
* *
8777895 CAACATTATCATTCAATCTATCAC
1 CAACATCATCATTCAATCTAGCAC
8777919 CAACATC
1 CAACATC
8777926 CCAATTTCAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.36, C:0.31, G:0.02, T:0.31
Consensus pattern (24 bp):
CAACATCATCATTCAATCTAGCAC
Found at i:8778092 original size:19 final size:19
Alignment explanation
Indices: 8778068--8778106 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
8778058 AAGTAAGTAG
8778068 TAACCATTATTATAACATC
1 TAACCATTATTATAACATC
*
8778087 TAACCATTATTATCACATC
1 TAACCATTATTATAACATC
8778106 T
1 T
8778107 TTATAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (19 bp):
TAACCATTATTATAACATC
Found at i:8782712 original size:19 final size:20
Alignment explanation
Indices: 8782680--8782736 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 20
8782670 ATACAAATTT
8782680 TAAAAAA-T-AAAAAATATA
1 TAAAAAATTGAAAAAATATA
* *
8782698 T-CAATATTGAAAAAAT-TA
1 TAAAAAATTGAAAAAATATA
*
8782716 TAAAAAATTTAAAAAATATA
1 TAAAAAATTGAAAAAATATA
8782736 T
1 T
8782737 TAACTTTAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
17 3 0.10
18 5 0.17
19 19 0.63
20 3 0.10
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
TAAAAAATTGAAAAAATATA
Found at i:8782729 original size:18 final size:19
Alignment explanation
Indices: 8782707--8782759 Score: 63
Period size: 18 Copynumber: 2.8 Consensus size: 19
8782697 ATCAATATTG
8782707 AAAAAATTATAAAAAATTT
1 AAAAAATTATAAAAAATTT
** *
8782726 AAAAAA-TATATTAACTTT
1 AAAAAATTATAAAAAATTT
*
8782744 AAAAAATTACAAAAAA
1 AAAAAATTATAAAAAA
8782760 AGCTTTTTTT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 15 0.58
19 11 0.42
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (19 bp):
AAAAAATTATAAAAAATTT
Found at i:8782748 original size:36 final size:35
Alignment explanation
Indices: 8782674--8782759 Score: 102
Period size: 38 Copynumber: 2.4 Consensus size: 35
8782664 TTATAAATAC
*
8782674 AAATTTTAAAAAATAAAAAATATATCAATATTGAAA
1 AAATTATAAAAAATAAAAAATATATCAATATT-AAA
*
8782710 AAATTATAAAAAATTTAAAAAATATATTAACT-TTAAA
1 AAATTATAAAAAA--TAAAAAATATATCAA-TATTAAA
*
8782747 AAATTACAAAAAA
1 AAATTATAAAAAA
8782760 AGCTTTTTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
36 12 0.27
37 15 0.34
38 16 0.36
39 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.01, T:0.30
Consensus pattern (35 bp):
AAATTATAAAAAATAAAAAATATATCAATATTAAA
Found at i:8783044 original size:16 final size:17
Alignment explanation
Indices: 8782967--8783044 Score: 67
Period size: 16 Copynumber: 4.8 Consensus size: 17
8782957 TTTTTGACAA
*
8782967 ATTTTCAATTTTTATAT
1 ATTTTAAATTTTTATAT
*
8782984 AATATTTAGATTTTTATA-
1 -AT-TTTAAATTTTTATAT
*
8783002 AATTT--ATTTTTATAT
1 ATTTTAAATTTTTATAT
*
8783017 ATTTTAGA-TTTTATAT
1 ATTTTAAATTTTTATAT
8783033 -TTTTAAATTTTT
1 ATTTTAAATTTTT
8783045 TTTGAATTAT
Statistics
Matches: 50, Mismatches: 5, Indels: 12
0.75 0.07 0.18
Matches are distributed among these distances:
14 9 0.18
15 10 0.20
16 15 0.30
17 2 0.04
18 2 0.04
19 12 0.24
ACGTcount: A:0.32, C:0.01, G:0.03, T:0.64
Consensus pattern (17 bp):
ATTTTAAATTTTTATAT
Found at i:8794351 original size:61 final size:61
Alignment explanation
Indices: 8794256--8794379 Score: 248
Period size: 61 Copynumber: 2.0 Consensus size: 61
8794246 GTTAACATGC
8794256 TTGTTTGGAATTTGAGCCTAATCATGTGCTGAATCATTTTATTGGTTGATTAATAAGTGTG
1 TTGTTTGGAATTTGAGCCTAATCATGTGCTGAATCATTTTATTGGTTGATTAATAAGTGTG
8794317 TTGTTTGGAATTTGAGCCTAATCATGTGCTGAATCATTTTATTGGTTGATTAATAAGTGTG
1 TTGTTTGGAATTTGAGCCTAATCATGTGCTGAATCATTTTATTGGTTGATTAATAAGTGTG
8794378 TT
1 TT
8794380 ACTTAACTAA
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 63 1.00
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (61 bp):
TTGTTTGGAATTTGAGCCTAATCATGTGCTGAATCATTTTATTGGTTGATTAATAAGTGTG
Found at i:8802496 original size:12 final size:12
Alignment explanation
Indices: 8802479--8802526 Score: 60
Period size: 12 Copynumber: 4.0 Consensus size: 12
8802469 ACAGGGAAAA
*
8802479 GATGATGACGAG
1 GATGATGACGAT
*
8802491 GATGATGATGAT
1 GATGATGACGAT
*
8802503 GATGAAGACGAT
1 GATGATGACGAT
*
8802515 GACGATGACGAT
1 GATGATGACGAT
8802527 AACTAAATTC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 30 1.00
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.21
Consensus pattern (12 bp):
GATGATGACGAT
Found at i:8803253 original size:18 final size:19
Alignment explanation
Indices: 8803220--8803255 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
8803210 AAAACTCCAC
*
8803220 CGGTTGTTGAATAAAAAAT
1 CGGTTGTTGAAAAAAAAAT
8803239 CGGTT-TTGAAAAAAAAA
1 CGGTTGTTGAAAAAAAAA
8803256 ATCAGATTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.47, C:0.06, G:0.19, T:0.28
Consensus pattern (19 bp):
CGGTTGTTGAAAAAAAAAT
Found at i:8805626 original size:19 final size:20
Alignment explanation
Indices: 8805585--8805637 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
8805575 AAATTACACC
* *
8805585 AATAATTTTATAAATTGCAA
1 AATAATTTTAAAAAATGCAA
8805605 AATAATTTTAAAAAAT-CAA
1 AATAATTTTAAAAAATGCAA
8805624 AAT-ATTTATAAAAA
1 AATAATTT-TAAAAA
8805638 TTCTAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
18 4 0.13
19 12 0.40
20 14 0.47
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (20 bp):
AATAATTTTAAAAAATGCAA
Found at i:8805638 original size:18 final size:19
Alignment explanation
Indices: 8805596--8805651 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
8805586 ATAATTTTAT
8805596 AAATTGCAAAATAATTT-TAA
1 AAATT-CAAAAT-ATTTATAA
*
8805616 AAAATCAAAATATTTATAA
1 AAATTCAAAATATTTATAA
*
8805635 AAATTCTAAA-ATTTATA
1 AAATTCAAAATATTTATA
8805652 TTTTTAACAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 11 0.34
19 17 0.53
20 4 0.12
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (19 bp):
AAATTCAAAATATTTATAA
Found at i:8807293 original size:25 final size:25
Alignment explanation
Indices: 8807264--8807375 Score: 145
Period size: 25 Copynumber: 4.5 Consensus size: 25
8807254 CAAATAACAA
8807264 GCCACAAAGGCTTTCTAGAGAATTC
1 GCCACAAAGGCTTTCTAGAGAATTC
**
8807289 GCCACATTGGCTTTCTAGAGAATTC
1 GCCACAAAGGCTTTCTAGAGAATTC
* *
8807314 GCCATATAGGCTTTCTAGAGAATTC
1 GCCACAAAGGCTTTCTAGAGAATTC
* *
8807339 GCCACAAAGGCTTT-TCAAAGGATTC
1 GCCACAAAGGCTTTCT-AGAGAATTC
*
8807364 GCTACAAAGGCT
1 GCCACAAAGGCT
8807376 CTCCATGAAA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
24 1 0.01
25 76 0.99
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (25 bp):
GCCACAAAGGCTTTCTAGAGAATTC
Found at i:8811076 original size:39 final size:39
Alignment explanation
Indices: 8811001--8811105 Score: 129
Period size: 39 Copynumber: 2.6 Consensus size: 39
8810991 ATCCAATGTT
** *
8811001 CCATTTCATATATCTATTTCCATATAACCAATTCATATAA
1 CCATTTCATATATC-ATTTTTATATAACCAAGTCATATAA
** * *
8811041 TTATTTCATATATCATTTTTATATAACCGAGTCATATGA
1 CCATTTCATATATCATTTTTATATAACCAAGTCATATAA
8811080 CCATTTCATATATCATTTTTCATATA
1 CCATTTCATATATCATTTTT-ATATA
8811106 TTATTTTTTC
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
39 38 0.69
40 17 0.31
ACGTcount: A:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (39 bp):
CCATTTCATATATCATTTTTATATAACCAAGTCATATAA
Found at i:8811116 original size:15 final size:14
Alignment explanation
Indices: 8811083--8811113 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
8811073 CATATGACCA
8811083 TTTCATATATCATT
1 TTTCATATATCATT
*
8811097 TTTCATATATTATT
1 TTTCATATATCATT
8811111 TTT
1 TTT
8811114 TCACCTAATG
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:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (14 bp):
TTTCATATATCATT
Found at i:8814026 original size:9 final size:9
Alignment explanation
Indices: 8814014--8814046 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
8814004 GAATTATTCG
8814014 AATCGAGTT
1 AATCGAGTT
8814023 AATCGAGTT
1 AATCGAGTT
*
8814032 AATCGAATT
1 AATCGAGTT
8814041 AATCGA
1 AATCGA
8814047 ATCAACTCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:8814047 original size:9 final size:9
Alignment explanation
Indices: 8814014--8814059 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
8814004 GAATTATTCG
*
8814014 AATCGAGTT
1 AATCGAATT
*
8814023 AATCGAGTT
1 AATCGAATT
8814032 AATCGAATT
1 AATCGAATT
*
8814041 AATCGAATC
1 AATCGAATT
8814050 AACTCGAATT
1 AA-TCGAATT
8814060 TTTTTTTCGA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
9 27 0.82
10 6 0.18
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (9 bp):
AATCGAATT
Found at i:8814451 original size:24 final size:24
Alignment explanation
Indices: 8814422--8814469 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8814412 TTATTCAAAC
8814422 CCCTTACCCCCCATTTCAACGAAA
1 CCCTTACCCCCCATTTCAACGAAA
*
8814446 CCCTTACCCCCCATTTCTACGAAA
1 CCCTTACCCCCCATTTCAACGAAA
8814470 GACGAAACCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.27, C:0.46, G:0.04, T:0.23
Consensus pattern (24 bp):
CCCTTACCCCCCATTTCAACGAAA
Found at i:8824463 original size:24 final size:25
Alignment explanation
Indices: 8824404--8824474 Score: 117
Period size: 24 Copynumber: 2.9 Consensus size: 25
8824394 AAGCAGGCCC
*
8824404 ATATTCATAGCTCATGTGAGCACTT
1 ATATTCACAGCTCATGTGAGCACTT
*
8824429 ACATTCACAGCTCATGTGAGCA-TT
1 ATATTCACAGCTCATGTGAGCACTT
8824453 ATATTCACAGCTCATGTGAGCA
1 ATATTCACAGCTCATGTGAGCA
8824475 AATTTTATCC
Statistics
Matches: 43, Mismatches: 3, Indels: 1
0.91 0.06 0.02
Matches are distributed among these distances:
24 23 0.53
25 20 0.47
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (25 bp):
ATATTCACAGCTCATGTGAGCACTT
Found at i:8826938 original size:19 final size:20
Alignment explanation
Indices: 8826906--8826943 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
8826896 TCATCATGTT
8826906 TATGTTGATAATTACGATTG
1 TATGTTGATAATTACGATTG
* *
8826926 TATG-TGATTATTATGATT
1 TATGTTGATAATTACGATT
8826944 TAATGTCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 12 0.75
20 4 0.25
ACGTcount: A:0.29, C:0.03, G:0.18, T:0.50
Consensus pattern (20 bp):
TATGTTGATAATTACGATTG
Found at i:8828470 original size:36 final size:32
Alignment explanation
Indices: 8828404--8828495 Score: 80
Period size: 36 Copynumber: 2.7 Consensus size: 32
8828394 ATTAATCTAA
*
8828404 TAATAT-ATATATATTAAT-TAATTAATATTATATT
1 TAATATCA-ATATAATAATATAA-TAA-ATTAT-TT
*
8828438 TATTATCATCATATAATAATACTAATAAATTATTT
1 TAATATCA--ATATAATAATA-TAATAAATTATTT
*
8828473 TAATATCAATTTAATAATATAAT
1 TAATATCAATATAATAATATAAT
8828496 TAACAATAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 10
0.77 0.08 0.16
Matches are distributed among these distances:
32 4 0.08
33 10 0.20
34 5 0.10
35 10 0.20
36 14 0.29
37 3 0.06
38 3 0.06
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (32 bp):
TAATATCAATATAATAATATAATAAATTATTT
Found at i:8828638 original size:15 final size:15
Alignment explanation
Indices: 8828601--8828645 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
8828591 GTTTCAATAC
*
8828601 TTTTTTGCTTTCTTTT
1 TTTTTTACTTT-TTTT
**
8828617 TACTTTACTTTTTTT
1 TTTTTTACTTTTTTT
8828632 TTTTTTACTTTTTT
1 TTTTTTACTTTTTT
8828646 AAAATTTTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 16 0.67
16 8 0.33
ACGTcount: A:0.07, C:0.11, G:0.02, T:0.80
Consensus pattern (15 bp):
TTTTTTACTTTTTTT
Found at i:8828795 original size:26 final size:27
Alignment explanation
Indices: 8828728--8828798 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 27
8828718 TTTTTCTTGA
* *
8828728 ATTTTTAT-ATATTTTTAAAATTCTATT
1 ATTTTTATGA-ATTTTTTAAATTATATT
* *
8828755 -TTTTTCTGAA-ATTTTAAA-TATATT
1 ATTTTTATGAATTTTTTAAATTATATT
8828779 ATTTTTATGAATTTTTTAAA
1 ATTTTTATGAATTTTTTAAA
8828799 GTTTTAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
24 5 0.14
25 15 0.43
26 14 0.40
27 1 0.03
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.61
Consensus pattern (27 bp):
ATTTTTATGAATTTTTTAAATTATATT
Found at i:8830379 original size:17 final size:19
Alignment explanation
Indices: 8830335--8830379 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
8830325 TCTACTTTAC
8830335 TTTATTTG-TTACTAATTT
1 TTTATTTGATTACTAATTT
*
8830353 TTTTTCTTGATTACT-A-TT
1 TTTAT-TTGATTACTAATTT
8830371 TTTATTTGA
1 TTTATTTGA
8830380 GTTAAAATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
17 4 0.17
18 10 0.43
19 4 0.17
20 5 0.22
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.67
Consensus pattern (19 bp):
TTTATTTGATTACTAATTT
Found at i:8830452 original size:22 final size:23
Alignment explanation
Indices: 8830427--8830473 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
8830417 GTTCCTGTAC
8830427 TTTTATTT-T-ATAAATTTAAAAT
1 TTTTATTTGTCAT-AATTTAAAAT
*
8830449 TTTTATTTGTCATATTTTAAAAT
1 TTTTATTTGTCATAATTTAAAAT
8830472 TT
1 TT
8830474 AGGTCCAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 12 0.55
24 2 0.09
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (23 bp):
TTTTATTTGTCATAATTTAAAAT
Found at i:8831359 original size:24 final size:26
Alignment explanation
Indices: 8831332--8831382 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 26
8831322 AATACATGAA
8831332 GAAAT-GAAAGA-AAG-AAAATTATAT
1 GAAATAGAAAGATAAGTAAAA-TATAT
*
8831356 GAAATAGAAGGATAAGTAAAATATAT
1 GAAATAGAAAGATAAGTAAAATATAT
8831382 G
1 G
8831383 TTCAAGAGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
24 5 0.22
25 5 0.22
26 9 0.39
27 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.20, T:0.22
Consensus pattern (26 bp):
GAAATAGAAAGATAAGTAAAATATAT
Found at i:8833193 original size:132 final size:132
Alignment explanation
Indices: 8832984--8833389 Score: 430
Period size: 132 Copynumber: 3.1 Consensus size: 132
8832974 CGGTTCTTCG
* * * ** *
8832984 AATTTCTAAACATCGAGCATTGCCTT-ATTTTTTAGAGTTTTTAAGAAACATGAGGGAAATTCCA
1 AATTTCCAAACATCGAACATTGCCTTCGTTTTGGAGAGTTTTTAA-AAACATGAGTGAAATT-CA
* * * * *
8833048 AAGGGGATGTTCGATTATTTGGAACCAAC-AGGAAATTGCAACCCAACATGATAGGGCACGATTC
64 AAAGGGATATTCGATTATTTGGAACAAACGA-GAAATTGCAACCCAACACGTTAGGGCACGATTC
8833112 CC-CA
128 CCGCA
* *
8833116 AATTTCCAAACATCGAACATTACCTTCGTTTTGGAGAGTTTTTAGAAAACATAAGTGAAATTCAA
1 AATTTCCAAACATCGAACATTGCCTTCGTTTTGGAGAGTTTTTA-AAAACATGAGTGAAATTCAA
** * * *
8833181 AAGGGACCTTCGATTATTTTGAACAAACGAGAAATTGCCACCCAACACGTTAGGGCAC-AATCCC
65 AAGGGATATTCGATTATTTGGAACAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCC
8833245 GCA
130 GCA
* * * * * *
8833248 AATTGCCAAATATCGAATATCGCCTCCGTTTTAAGG-G-GTTTTTAAAAGACATGGGTGAAATTC
1 AATTTCCAAACATCGAACATTGCCTTCGTTTT--GGAGAGTTTTTAAAA-ACATGAGTGAAATTC
* * * *
8833311 TAAAGGGATATTCGATCATTTGGAGCAAACGCGAAATTGCAACCCAACACGTTAGGGCACGATT-
63 AAAAGGGATATTCGATTATTTGGAACAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTC
*
8833375 CCGCG
128 CCGCA
*
8833380 AATTGCCAAA
1 AATTTCCAAA
8833390 TATCAAATCT
Statistics
Matches: 231, Mismatches: 35, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
131 8 0.03
132 188 0.81
133 32 0.14
134 3 0.01
ACGTcount: A:0.34, C:0.20, G:0.19, T:0.26
Consensus pattern (132 bp):
AATTTCCAAACATCGAACATTGCCTTCGTTTTGGAGAGTTTTTAAAAACATGAGTGAAATTCAAA
AGGGATATTCGATTATTTGGAACAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCCG
CA
Found at i:8839236 original size:3 final size:3
Alignment explanation
Indices: 8839223--8839278 Score: 103
Period size: 3 Copynumber: 18.3 Consensus size: 3
8839213 ACGAAAATTG
8839223 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8839269 TAA TAA TAA T
1 TAA TAA TAA T
8839279 CTAGGCCATT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 49 0.94
4 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:8839695 original size:2 final size:2
Alignment explanation
Indices: 8839688--8839730 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
8839678 ATCGATGAAA
8839688 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
8839730 A
1 A
8839731 AAGGTGGCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8841685 original size:16 final size:16
Alignment explanation
Indices: 8841664--8841720 Score: 60
Period size: 16 Copynumber: 3.4 Consensus size: 16
8841654 TTCTTATAAC
8841664 TTTTATAATTTTGAAT
1 TTTTATAATTTTGAAT
**
8841680 TTTTATTTTTTTGAAT
1 TTTTATAATTTTGAAT
*
8841696 ATTTTATCAATTTTAAAT
1 -TTTTAT-AATTTTGAAT
8841714 TATTTAT
1 T-TTTAT
8841721 TGATATAACA
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
16 14 0.42
17 7 0.21
18 12 0.36
ACGTcount: A:0.30, C:0.02, G:0.04, T:0.65
Consensus pattern (16 bp):
TTTTATAATTTTGAAT
Found at i:8842683 original size:28 final size:28
Alignment explanation
Indices: 8842596--8842691 Score: 122
Period size: 28 Copynumber: 3.4 Consensus size: 28
8842586 TACAATAGTT
*
8842596 TCTGAAAAAATAAATTAGAGAAGACGTA
1 TCTGAAAAAATAATTTAGAGAAGACGTA
*
8842624 TCTAAAAAAAT-ATATTAGAGAAGACGTA
1 TCTGAAAAAATAAT-TTAGAGAAGACGTA
* * *
8842652 TCTGAAAAAATAATTTTGAGAAGATGTT
1 TCTGAAAAAATAATTTAGAGAAGACGTA
*
8842680 TCTGAACAAATA
1 TCTGAAAAAATA
8842692 GTGTCAAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
27 1 0.02
28 56 0.95
29 2 0.03
ACGTcount: A:0.50, C:0.07, G:0.16, T:0.27
Consensus pattern (28 bp):
TCTGAAAAAATAATTTAGAGAAGACGTA
Found at i:8843090 original size:127 final size:126
Alignment explanation
Indices: 8842656--8843156 Score: 885
Period size: 126 Copynumber: 4.0 Consensus size: 126
8842646 GACGTATCTG
8842656 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* * * *
8842721 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACATGGAAGCTTTTTTTCTACAGTAGTTTCTG
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTTCTA
* *
8842782 AAAAAATAATTTTGAGAAGATATTTCTGAACAAATAGTGTCAAAAACGCTTCAAGTAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
*
8842847 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTATAGTAGTTTCTA
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTTCTA
* *
8842908 AAAAAATAATTTTGAAAAGATGTTTCTGAACAAATAGTGTCAACAACGCTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
8842973 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTTCTAA
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTTCT-A
*
8843035 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACACTTCAAGCAGGATGCAC
1 AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
* *
8843100 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTAGACGCTCATTTTCTACAGTAGTT
66 TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTT
8843157 CCTATTTTGT
Statistics
Matches: 357, Mismatches: 17, Indels: 1
0.95 0.05 0.00
Matches are distributed among these distances:
126 239 0.67
127 118 0.33
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.27
Consensus pattern (126 bp):
AAAAAATAATTTTGAGAAGATGTTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCAC
TGTCAGCAAAAGTACTGAAAAAAGCTCCCACGTGGACGCTCTTTTTCTACAGTAGTTTCTA
Found at i:8845219 original size:46 final size:46
Alignment explanation
Indices: 8844917--8845221 Score: 396
Period size: 46 Copynumber: 6.6 Consensus size: 46
8844907 TGCCATAATG
** *
8844917 TCTTTCAAATATGGTCTTACTCATTTTC-TGTCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCA-TTTCATGTCACGTTGCCATGGTA
** * * * *
8844963 TCTTTCAACCATGGTCTTGTTTATTTCATGTTACATTGCCGTGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* * *
8845009 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATAGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* *
8845055 TCTTTCAACCATGGTCTTATTCTTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* * * *
8845101 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTG
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
* * *
8845147 TCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
*
8845193 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
8845222 TTCAGAAAGC
Statistics
Matches: 234, Mismatches: 24, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 230 0.98
ACGTcount: A:0.20, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCACGTTGCCATGGTA
Found at i:8848506 original size:13 final size:13
Alignment explanation
Indices: 8848484--8848516 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
8848474 TGCAAGCCAT
*
8848484 TGGTAGAAATTGA
1 TGGTACAAATTGA
8848497 TGGTACAAATTGA
1 TGGTACAAATTGA
8848510 TGGTACA
1 TGGTACA
8848517 TTTATGTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.30
Consensus pattern (13 bp):
TGGTACAAATTGA
Found at i:8850482 original size:30 final size:30
Alignment explanation
Indices: 8850448--8850506 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
8850438 GATGACTGTG
*
8850448 TGGGCGCTGTTGAT-GGGCCTAGTGATTGTA
1 TGGGCACTGTTGATAGGGCC-AGTGATTGTA
*
8850478 TGGGCACTGTTGATAGGGCCGGTGATTGT
1 TGGGCACTGTTGATAGGGCCAGTGATTGT
8850507 GTAAGCGCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.14, C:0.14, G:0.41, T:0.32
Consensus pattern (30 bp):
TGGGCACTGTTGATAGGGCCAGTGATTGTA
Found at i:8850518 original size:30 final size:30
Alignment explanation
Indices: 8850451--8850527 Score: 75
Period size: 30 Copynumber: 2.6 Consensus size: 30
8850441 GACTGTGTGG
**
8850451 GCGCTGTTGATGGGCCTAGTGATTGTATGG
1 GCGCTGTTGATGGGCCTAGTGATTGTATAA
* * *
8850481 GCACTGTTGATAGGGCC-GGTGATTGTGTAA
1 GCGCTGTTGAT-GGGCCTAGTGATTGTATAA
* *
8850511 GCGCTGTTAATGAGCCT
1 GCGCTGTTGATGGGCCT
8850528 GTGTCGTCAT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 4 0.11
30 28 0.76
31 5 0.14
ACGTcount: A:0.17, C:0.16, G:0.36, T:0.31
Consensus pattern (30 bp):
GCGCTGTTGATGGGCCTAGTGATTGTATAA
Found at i:8852018 original size:24 final size:23
Alignment explanation
Indices: 8851968--8852020 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 23
8851958 AACTTTTATA
*
8851968 AAAATTATAAAATAAAAATTAATT
1 AAAATTACAAAATAAAAA-TAATT
8851992 AAAATTACATAAATAAAAA-AATCT
1 AAAATTACA-AAATAAAAATAAT-T
8852016 AAAAT
1 AAAAT
8852021 AATATTGAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 3 0.12
24 14 0.54
25 9 0.35
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.28
Consensus pattern (23 bp):
AAAATTACAAAATAAAAATAATT
Found at i:8857034 original size:6 final size:6
Alignment explanation
Indices: 8857025--8857063 Score: 69
Period size: 6 Copynumber: 6.5 Consensus size: 6
8857015 ATAAAATAAA
*
8857025 AAAAAT AAAAAT AAAAAT AAACAT AAAAAT AAAAAT AAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA
8857064 TAGACTCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:8857052 original size:18 final size:17
Alignment explanation
Indices: 8857012--8857063 Score: 74
Period size: 18 Copynumber: 3.2 Consensus size: 17
8857002 TCAAAAGAGG
8857012 AAAAT-AAAAT-AAAA-
1 AAAATAAAAATAAAAAT
8857026 AAAATAAAAATAAAAAT
1 AAAATAAAAATAAAAAT
8857043 AAACATAAAAATAAAAAT
1 AAA-ATAAAAATAAAAAT
8857061 AAA
1 AAA
8857064 TAGACTCAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.15
15 5 0.15
16 4 0.12
17 3 0.09
18 17 0.50
ACGTcount: A:0.83, C:0.02, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATAAAAATAAAAAT
Found at i:8859555 original size:13 final size:13
Alignment explanation
Indices: 8859537--8859569 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
8859527 AAGGACACAC
8859537 CCGTGTGTCCTGG
1 CCGTGTGTCCTGG
8859550 CCGTGTGTCCTGG
1 CCGTGTGTCCTGG
8859563 CCGTGTG
1 CCGTGTG
8859570 GCCGTGTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.00, C:0.30, G:0.39, T:0.30
Consensus pattern (13 bp):
CCGTGTGTCCTGG
Found at i:8863853 original size:42 final size:42
Alignment explanation
Indices: 8863796--8863882 Score: 174
Period size: 42 Copynumber: 2.1 Consensus size: 42
8863786 TAATTCAATA
8863796 AAACTAATGATAAGTCATCCATAAATATGCCAAGCATGGGAT
1 AAACTAATGATAAGTCATCCATAAATATGCCAAGCATGGGAT
8863838 AAACTAATGATAAGTCATCCATAAATATGCCAAGCATGGGAT
1 AAACTAATGATAAGTCATCCATAAATATGCCAAGCATGGGAT
8863880 AAA
1 AAA
8863883 AATATGTATA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.45, C:0.16, G:0.16, T:0.23
Consensus pattern (42 bp):
AAACTAATGATAAGTCATCCATAAATATGCCAAGCATGGGAT
Found at i:8864280 original size:2 final size:2
Alignment explanation
Indices: 8864273--8864310 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
8864263 TGTTAAAATC
8864273 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
8864311 TAATTGTGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8866110 original size:2 final size:2
Alignment explanation
Indices: 8866103--8866145 Score: 77
Period size: 2 Copynumber: 21.0 Consensus size: 2
8866093 TAATGAGTAG
8866103 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
8866146 TAATAACCCT
Statistics
Matches: 40, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 38 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8868043 original size:2 final size:2
Alignment explanation
Indices: 8868038--8868078 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
8868028 TTCAAAATTA
8868038 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
8868079 GTGAATTACC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8868193 original size:32 final size:30
Alignment explanation
Indices: 8868153--8868215 Score: 74
Period size: 32 Copynumber: 2.0 Consensus size: 30
8868143 AATCAATTAC
8868153 TTTTAAAAGATTGAT-AATAAAATTAAACTAT
1 TTTTAAAAG-TTGATGAATAAAATTAAA-TAT
* *
8868184 TTTTAAAAAGTTGATGATTAAATTTAAATAT
1 TTTT-AAAAGTTGATGAATAAAATTAAATAT
8868215 T
1 T
8868216 AAAAAATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 13 0.46
32 15 0.54
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.43
Consensus pattern (30 bp):
TTTTAAAAGTTGATGAATAAAATTAAATAT
Found at i:8868198 original size:31 final size:31
Alignment explanation
Indices: 8868153--8868215 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
8868143 AATCAATTAC
8868153 TTTTAAAAGATTGAT-AATAAAATTAAACTAT
1 TTTTAAAAGATTGATGAATAAAATTAAA-TAT
* *
8868184 TTTTAAAA-AGTTGATGATTAAATTTAAATAT
1 TTTTAAAAGA-TTGATGAATAAAATTAAATAT
8868215 T
1 T
8868216 AAAAAATTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 1 0.04
31 17 0.61
32 10 0.36
ACGTcount: A:0.48, C:0.02, G:0.08, T:0.43
Consensus pattern (31 bp):
TTTTAAAAGATTGATGAATAAAATTAAATAT
Found at i:8869127 original size:2 final size:2
Alignment explanation
Indices: 8869120--8869155 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
8869110 GCCCTCAACC
8869120 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
8869156 CTTCCTATTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8870389 original size:132 final size:131
Alignment explanation
Indices: 8870212--8870503 Score: 319
Period size: 132 Copynumber: 2.2 Consensus size: 131
8870202 ACGGGAGATT
* * * * *
8870212 GCAACCCGGCACGATAGGGCACTACTCCCCGAATTGCCAAACATCG-AGTATTTC-CTTT-GTTT
1 GCAACCCAGCACGATAGGGCACGA-TTCCCAAATCGCCAAACATCGAAG-A--TCGCTTTCGTTT
* * * * *
8870274 T-AAAGAGTTTTTAGA-AAACGTGAGTGAAATTCCG-AAGGAATCTTCGATTGTTTTGAACAAAA
62 TGAAAG-GTTTTTA-ATAAACATGAATGAAA-ACCGAAAGGAATATTCGATTGTTTTAAAC-AAA
8870336 TGA-AAATGC
123 TGAGAAAT-C
*
8870345 GCAACCCAGCACGATAGGGCACGATTCTCAAATCGCCAAACATCGAAGATCGCTTTCGTTTTGAA
1 GCAACCCAGCACGATAGGGCACGATTCCCAAATCGCCAAACATCGAAGATCGCTTTCGTTTTGAA
*
8870410 AGGTTTTTAATGAACATGAATGAAAACCGAAAGGAATATTCGATTGTTTTAAACAAATGAGAAAT
66 AGGTTTTTAATAAACATGAATGAAAACCGAAAGGAATATTCGATTGTTTTAAACAAATGAGAAAT
8870475 C
131 C
* * *
8870476 ACAACCCAGCACAATAGGGCATGATTCC
1 GCAACCCAGCACGATAGGGCACGATTCC
8870504 TGAATTATCA
Statistics
Matches: 136, Mismatches: 16, Indels: 16
0.81 0.10 0.10
Matches are distributed among these distances:
130 2 0.01
131 39 0.29
132 67 0.49
133 28 0.21
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (131 bp):
GCAACCCAGCACGATAGGGCACGATTCCCAAATCGCCAAACATCGAAGATCGCTTTCGTTTTGAA
AGGTTTTTAATAAACATGAATGAAAACCGAAAGGAATATTCGATTGTTTTAAACAAATGAGAAAT
C
Found at i:8870534 original size:131 final size:132
Alignment explanation
Indices: 8870248--8870566 Score: 321
Period size: 131 Copynumber: 2.4 Consensus size: 132
8870238 CCCCGAATTG
* * * * *
8870248 CCAAACATCGAGTATTTCCTTTGTTTTAAAGAGTTTTTAGAAAACGTGAGTGAAATTCCGAAGGA
1 CCAAACATCGAGTATTGCCTTCGTTTTAAAGAGTTTTTAGAAAACATGAATGAAATACCGAAGGA
* * * *
8870313 ATCTTCGATTGTTTTGAACAAAATGAAAATGCGCAACCCAGCACGATAGGGCACGATTCTCAAAT
66 ATATTCGATTGTTTTAAACAAAATGAAAATGCACAACCCAGCACAATAGGGCACGATTCTCAAAT
*
8870378 CG
131 CA
* * *
8870380 CCAAACATCGAAG-ATCGCTTTCGTTTTGAAAG-GTTTTTA-ATGAACATGAATGAAA-ACCGAA
1 CCAAACATCG-AGTATTGCCTTCGTTTT-AAAGAGTTTTTAGA-AAACATGAATGAAATACCG-A
*
8870441 AGGAATATTCGATTGTTTTAAAC-AAATGAGAAAT-CACAACCCAGCACAATAGGGCATGATTC-
62 AGGAATATTCGATTGTTTTAAACAAAATGA-AAATGCACAACCCAGCACAATAGGGCACGATTCT
* *
8870503 CTGAATTA
126 C-AAATCA
* * * * * *
8870511 TCAAACACCGAGTATTGCCTTCGTTTTAGAG-GATTTTTTGAAGACATGAGTGAAAT
1 CCAAACATCGAGTATTGCCTTCGTTTTAAAGAG-TTTTTAGAAAACATGAATGAAAT
8870567 TTTGGAGGGA
Statistics
Matches: 152, Mismatches: 25, Indels: 20
0.77 0.13 0.10
Matches are distributed among these distances:
130 7 0.05
131 74 0.49
132 65 0.43
133 6 0.04
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (132 bp):
CCAAACATCGAGTATTGCCTTCGTTTTAAAGAGTTTTTAGAAAACATGAATGAAATACCGAAGGA
ATATTCGATTGTTTTAAACAAAATGAAAATGCACAACCCAGCACAATAGGGCACGATTCTCAAAT
CA
Found at i:8870612 original size:131 final size:132
Alignment explanation
Indices: 8870490--8870780 Score: 338
Period size: 133 Copynumber: 2.2 Consensus size: 132
8870480 CCCAGCACAA
* * * * * * * *
8870490 TAGGGCATGATTCC-TGAATTATCAAACACCG-AGTATTGCCTTCGTTTTAGAGGA-TTTTTTGA
1 TAGGGCACGATTCCGCGAATTACCAAACACCGCA-CATCGCCTTCATTTAAG-GGATTTTTTTAA
* ** * * *
8870552 AGACATGAGTGAAATTTTGGAGGGATATTTGATTA-TTTGAAGCAATCGAGGAATTGCAACCCAA
64 AGACATGAGTGAAATTCTAAAGGGACATTCGATTACTTTG-AGCAAACGAGGAATTGCAACCCAA
8870616 CACGT
128 CACGT
* * *
8870621 TAGGGCACGATTCCGCGAATTGCCAAATATCGCACATCGCCTTCATTTAAGGGATTTTTTTTAAA
1 TAGGGCACGATTCCGCGAATTACCAAACACCGCACATCGCCTTCATTTAAGGGA-TTTTTTTAAA
* *
8870686 GACATGGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAGCAAACGAGGAATTGCAACCCAACA
65 GACATGAGTGAAATTCTAAAGGGACATTCGATTACTTTGAGCAAACGAGGAATTGCAACCCAACA
8870751 CGT
130 CGT
*
8870754 TAGGGCACGATTCCACGAATTACCAAA
1 TAGGGCACGATTCCGCGAATTACCAAA
8870781 TATCGAATAT
Statistics
Matches: 134, Mismatches: 21, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
131 16 0.12
132 25 0.19
133 89 0.66
134 4 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (132 bp):
TAGGGCACGATTCCGCGAATTACCAAACACCGCACATCGCCTTCATTTAAGGGATTTTTTTAAAG
ACATGAGTGAAATTCTAAAGGGACATTCGATTACTTTGAGCAAACGAGGAATTGCAACCCAACAC
GT
Found at i:8870719 original size:133 final size:133
Alignment explanation
Indices: 8870544--8870785 Score: 369
Period size: 133 Copynumber: 1.8 Consensus size: 133
8870534 TTTTAGAGGA
* * ** * * *
8870544 TTTTTTGAAGACATGAGTGAAATTTTGGAGGGATATTTGATTA-TTTGAAGCAATCGAGGAATTG
1 TTTTTTAAAGACATGAGTGAAATTCTAAAGGGACATTCGATTACTTTG-AGCAAACGAGGAATTG
* *
8870608 CAACCCAACACGTTAGGGCACGATTCCGCGAATTGCCAAATATCGCACATCGCCTTCATTTAAGG
65 CAACCCAACACGTTAGGGCACGATTCCACGAATTACCAAATATCGCACATCGCCTTCATTTAAGG
8870673 GATT
130 GATT
* *
8870677 TTTTTTAAAGACATGGGTGAAATTCTAAAGGGACCTTCGATTACTTTGAGCAAACGAGGAATTGC
1 TTTTTTAAAGACATGAGTGAAATTCTAAAGGGACATTCGATTACTTTGAGCAAACGAGGAATTGC
8870742 AACCCAACACGTTAGGGCACGATTCCACGAATTACCAAATATCG
66 AACCCAACACGTTAGGGCACGATTCCACGAATTACCAAATATCG
8870786 AATATCGCAT
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
133 93 0.96
134 4 0.04
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (133 bp):
TTTTTTAAAGACATGAGTGAAATTCTAAAGGGACATTCGATTACTTTGAGCAAACGAGGAATTGC
AACCCAACACGTTAGGGCACGATTCCACGAATTACCAAATATCGCACATCGCCTTCATTTAAGGG
ATT
Found at i:8877289 original size:14 final size:15
Alignment explanation
Indices: 8877272--8877304 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
8877262 TAGTAATATA
8877272 ATAATCTAAT-TAAT
1 ATAATCTAATGTAAT
8877286 ATAA-CTAATGTAAT
1 ATAATCTAATGTAAT
8877300 ATAAT
1 ATAAT
8877305 TAACTCAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAATCTAATGTAAT
Found at i:8885525 original size:59 final size:59
Alignment explanation
Indices: 8885452--8885569 Score: 184
Period size: 59 Copynumber: 2.0 Consensus size: 59
8885442 TATGTACTAA
* *
8885452 AAGTTAGATTATAATTTATCTCTTTTATTC-AAAAAATAGATAAATTAATCCATATACAT
1 AAGTTAAATTATAATTTATCTCTTTCATTCAAAAAAATAGAT-AATTAATCCATATACAT
* *
8885511 AAGTTAAATTATAATTTGTCTCTTTCATTCAAAAAAATAGATAATTAATCTATATACAT
1 AAGTTAAATTATAATTTATCTCTTTCATTCAAAAAAATAGATAATTAATCCATATACAT
8885570 TAGATCAAAG
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
59 43 0.80
60 11 0.20
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (59 bp):
AAGTTAAATTATAATTTATCTCTTTCATTCAAAAAAATAGATAATTAATCCATATACAT
Found at i:8886314 original size:2 final size:2
Alignment explanation
Indices: 8886309--8886335 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8886299 CATTTGTGTG
8886309 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8886336 CTTAAACAAG
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:8887942 original size:31 final size:30
Alignment explanation
Indices: 8887907--8887977 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 30
8887897 TTTAATTTAA
*
8887907 TTAATTTTAGTTTTTATATTTTTTGAATTAG
1 TTAATTTTAGTCTTTATATTTTTTGAATT-G
*
8887938 TTAATTTTAGTCTTTATATTTTTTGGATTG
1 TTAATTTTAGTCTTTATATTTTTTGAATTG
8887968 TTCAATTTTA
1 TT-AATTTTA
8887978 TTCATGATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 3 0.08
31 34 0.92
ACGTcount: A:0.24, C:0.03, G:0.10, T:0.63
Consensus pattern (30 bp):
TTAATTTTAGTCTTTATATTTTTTGAATTG
Found at i:8889042 original size:90 final size:90
Alignment explanation
Indices: 8888889--8889123 Score: 249
Period size: 90 Copynumber: 2.6 Consensus size: 90
8888879 GACTTGAATT
* * * * * * *
8888889 TTTTTATTCAAGTTAATCCCTAAATGTGACAACTGTTCTCACATTGAGACTTGAACTAGCCAATT
1 TTTTTGTTCAAGTTAAT-CCTTAATTTGGCAATTGTTCCCACATTGAGACTTGAACTAACCAATT
*
8888954 GTTCCCATATTAAGGTCTGAAC-TTC
65 GTTCACATATTAAGGTCTGAACTTTC
*
8888979 TTTTTGTTCAAGTTAATCTCTTAATTTGGCAATTGTTCCCACATTG-GAGTGTGAACTAACCAAT
1 TTTTTGTTCAAGTTAATC-CTTAATTTGGCAATTGTTCCCACATTGAGACT-TGAACTAACCAAT
* *
8889043 TGTTCACATATTAGGGTTTGAACTTTC
64 TGTTCACATATTAAGGTCTGAACTTTC
* ** * * * * *
8889070 TTTTGGCCCAACTTAGTCCTTGAATTAGGCAATTGTTCCCACATTAAGATTTGA
1 TTTTTGTTCAAGTTAATCCTT-AATTTGGCAATTGTTCCCACATTGAGACTTGA
8889124 GCGAGATAAT
Statistics
Matches: 121, Mismatches: 19, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
89 4 0.03
90 73 0.60
91 41 0.34
92 3 0.02
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (90 bp):
TTTTTGTTCAAGTTAATCCTTAATTTGGCAATTGTTCCCACATTGAGACTTGAACTAACCAATTG
TTCACATATTAAGGTCTGAACTTTC
Found at i:8890430 original size:23 final size:23
Alignment explanation
Indices: 8890380--8890423 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8890370 TCTAATAAAT
* *
8890380 AAGAGAAAACTTGAGGTTTTTAC
1 AAGAAAAAACTTGAGATTTTTAC
8890403 AAGAAAAAACTTGA-ATTTTTA
1 AAGAAAAAACTTGAGATTTTTA
8890424 TAGAGAATTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (23 bp):
AAGAAAAAACTTGAGATTTTTAC
Found at i:8895127 original size:14 final size:13
Alignment explanation
Indices: 8895104--8895135 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
8895094 TTTTAAATGA
8895104 TATTTTATTATTT
1 TATTTTATTATTT
8895117 TATTATTATTATTT
1 TATT-TTATTATTT
8895131 TATTT
1 TATTT
8895136 AGTATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (13 bp):
TATTTTATTATTT
Found at i:8897322 original size:46 final size:46
Alignment explanation
Indices: 8897270--8897399 Score: 206
Period size: 46 Copynumber: 2.8 Consensus size: 46
8897260 GCTTTCTGAA
*
8897270 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACATGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACAGGAT
* *
8897316 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAATAGGAT
1 ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACAGGAT
* *
8897362 ATAAAATGTGTAAGACCATGGTTGAAAGAAGACCATGG
1 ATGAAATGTGTAAGACCATGGTTGAAAG-ACACCATGG
8897400 TTGAAAGATA
Statistics
Matches: 78, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
46 70 0.90
47 8 0.10
ACGTcount: A:0.40, C:0.12, G:0.25, T:0.22
Consensus pattern (46 bp):
ATGAAATGTGTAAGACCATGGTTGAAAGACACCATGGCAACAGGAT
Found at i:8897399 original size:63 final size:63
Alignment explanation
Indices: 8897327--8897461 Score: 227
Period size: 63 Copynumber: 2.2 Consensus size: 63
8897317 TGAAATGTGT
*
8897327 AAGACCATGGTTGAAAGATACCATGGCAATAGGATATAAAATGTGTAAGACCATGGTTGAAAG
1 AAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAG
* *
8897390 AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAG
1 AAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAG
*
8897453 -ATACCATGG
1 AAGACCATGG
8897462 CAACAGGATA
Statistics
Matches: 68, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
62 8 0.12
63 60 0.88
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (63 bp):
AAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGTAAGACCATGGTTGAAAG
Found at i:8897415 original size:16 final size:17
Alignment explanation
Indices: 8897373--8897407 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
8897363 TAAAATGTGT
8897373 AAGACCATGGTTGAAAG
1 AAGACCATGGTTGAAAG
8897390 AAGACCATGGTTGAAAG
1 AAGACCATGGTTGAAAG
8897407 A
1 A
8897408 TACCATGGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.11, G:0.29, T:0.17
Consensus pattern (17 bp):
AAGACCATGGTTGAAAG
Found at i:8897442 original size:46 final size:46
Alignment explanation
Indices: 8897390--8897651 Score: 303
Period size: 46 Copynumber: 5.7 Consensus size: 46
8897380 TGGTTGAAAG
* *
8897390 AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGT
* * * *
8897436 AAGACCATGGTTGAAAGATACCATGGCAACAGGATATAAAATGTGT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGT
* * * *
8897482 AAGACCATAGTTGAAAGATACCATGGCAACATGAC-GGGAATGAAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGT
** * * **
8897527 AAGACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATAAAC
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGT
*
8897573 AAGACCATGGTTGAAAGATACCATGGCAACCTGACA-GAAAATGAGT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACATG-AAATGAGT
* * * * *
8897619 AAAACCATAGTTGAAAGACACTATGGCATCATG
1 AAGACCATGGTTGAAAGATACCATGGCAACATG
8897652 TCAAAGATAA
Statistics
Matches: 184, Mismatches: 30, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
45 37 0.20
46 147 0.80
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (46 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAGT
Found at i:8897472 original size:109 final size:109
Alignment explanation
Indices: 8897281--8897507 Score: 411
Period size: 109 Copynumber: 2.1 Consensus size: 109
8897271 TGAAATGTGT
8897281 AAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
* *
8897346 ACCATGGCAATAGGATATAAAATGTGTAAGACCATGGTTGAAAG
66 ACCATGGCAACAGGATATAAAATGTGTAAGACCATAGTTGAAAG
*
8897390 AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
8897455 ACCATGGCAACAGGATATAAAATGTGTAAGACCATAGTTGAAAG
66 ACCATGGCAACAGGATATAAAATGTGTAAGACCATAGTTGAAAG
*
8897499 -ATACCATGG
1 AAGACCATGG
8897508 CAACATGACG
Statistics
Matches: 114, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
108 8 0.07
109 106 0.93
ACGTcount: A:0.41, C:0.13, G:0.24, T:0.22
Consensus pattern (109 bp):
AAGACCATGGTTGAAAGACACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
ACCATGGCAACAGGATATAAAATGTGTAAGACCATAGTTGAAAG
Found at i:8897566 original size:137 final size:137
Alignment explanation
Indices: 8897390--8897651 Score: 371
Period size: 137 Copynumber: 1.9 Consensus size: 137
8897380 TGGTTGAAAG
* * ****
8897390 AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATAACATGAAATAAACAAGACCATGGTTGAAAGAT
* * * * *
8897455 ACCATGGCAACAGGATATAAAATGTGTAAGACCATAGTTGAAAGATACCATGGCAACATGACGGG
66 ACCATGGCAACAGGACAGAAAATGAGTAAAACCATAGTTGAAAGACACCATGGCAACATGACGGG
8897520 AATGAAT
131 AATGAAT
**
8897527 AAGACCATGGTTGAAAGATACCATGGCAATGTAACATGAAATAAACAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATAACATGAAATAAACAAGACCATGGTTGAAAGAT
** * *
8897592 ACCATGGCAACCTGACAGAAAATGAGTAAAACCATAGTTGAAAGACACTATGGCATCATG
66 ACCATGGCAACAGGACAGAAAATGAGTAAAACCATAGTTGAAAGACACCATGGCAACATG
8897652 TCAAAGATAA
Statistics
Matches: 108, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
137 108 1.00
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.20
Consensus pattern (137 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATAACATGAAATAAACAAGACCATGGTTGAAAGAT
ACCATGGCAACAGGACAGAAAATGAGTAAAACCATAGTTGAAAGACACCATGGCAACATGACGGG
AATGAAT
Found at i:8897662 original size:91 final size:88
Alignment explanation
Indices: 8897390--8897669 Score: 301
Period size: 91 Copynumber: 3.1 Consensus size: 88
8897380 TGGTTGAAAG
* *
8897390 AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTAAGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACA-GAAATGAGTAAGACCATGGTTGAAAGAT
* * ***
8897455 ACCATGGCAACAGGATATAAAATGTGT
65 ACCATGGC-ACATG-TA-AAGATAAAT
* * * *
8897482 AAGACCATAGTTGAAAGATACCATGGCAACATGACGGGAATGAATAAGACCATGGTTGAAAGATA
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAGTAAGACCATGGTTGAAAGATA
*
8897547 CCATGGCA-ATGTAACATGAAATAAAC
66 CCATGGCACATGTAA-A-G--ATAAAT
* * * *
8897573 AAGACCATGGTTGAAAGATACCATGGCAACCTGACAGAAAATGAGTAAAACCATAGTTGAAAGAC
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAG-AAATGAGTAAGACCATGGTTGAAAGAT
*
8897638 ACTATGGCATCATGTCAAAGATAAAT
65 ACCATGGCA-CATGT-AAAGATAAAT
8897664 AAGACC
1 AAGACC
8897670 GTGGATGGGA
Statistics
Matches: 158, Mismatches: 22, Indels: 17
0.80 0.11 0.09
Matches are distributed among these distances:
87 1 0.01
88 3 0.02
89 2 0.01
90 1 0.01
91 80 0.51
92 63 0.40
93 1 0.01
94 5 0.03
95 2 0.01
ACGTcount: A:0.43, C:0.15, G:0.22, T:0.20
Consensus pattern (88 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACAGAAATGAGTAAGACCATGGTTGAAAGATA
CCATGGCACATGTAAAGATAAAT
Found at i:8897953 original size:16 final size:17
Alignment explanation
Indices: 8897932--8897964 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
8897922 ATGATGGAGC
8897932 ATGAAAT-ATTGATATA
1 ATGAAATGATTGATATA
8897948 ATGAAATGATTGATATA
1 ATGAAATGATTGATATA
8897965 TACTTATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.15, T:0.36
Consensus pattern (17 bp):
ATGAAATGATTGATATA
Found at i:8901449 original size:2 final size:2
Alignment explanation
Indices: 8901444--8901511 Score: 111
Period size: 2 Copynumber: 34.5 Consensus size: 2
8901434 AATCAATTTC
*
8901444 TA TA TA TA TA TT TA TA TA TA TA TA TA TA TA T- 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
*
8901485 TA TA TA TA TT TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8901512 TTTAAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
1 1 0.02
2 60 0.98
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:8903488 original size:20 final size:19
Alignment explanation
Indices: 8903463--8903513 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
8903453 GTATGAAAGA
8903463 AAAATATAACTAATA-ATATT
1 AAAATATAA-TAATATATA-T
8903483 AAAATATATATAATATATAT
1 AAAATATA-ATAATATATAT
8903503 AAAATATAATA
1 AAAATATAATA
8903514 TTAAGAACTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.10
20 22 0.76
21 4 0.14
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAATATAATAATATATAT
Found at i:8903729 original size:13 final size:14
Alignment explanation
Indices: 8903711--8903741 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
8903701 ATGTATGAAT
8903711 ATATACATATA-TA
1 ATATACATATATTA
8903724 ATATACATATATTA
1 ATATACATATATTA
8903738 ATAT
1 ATAT
8903742 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:8904319 original size:27 final size:28
Alignment explanation
Indices: 8904284--8904336 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
8904274 AAGGGGAAGA
8904284 AAAAAAAAGAAGAGA-GGAGAGGGAGAG
1 AAAAAAAAGAAGAGAGGGAGAGGGAGAG
* **
8904311 AAAAGAAAGGGGAGAGGGAGAGGGAG
1 AAAAAAAAGAAGAGAGGGAGAGGGAG
8904337 CTCCGGTGGG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 12 0.55
28 10 0.45
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (28 bp):
AAAAAAAAGAAGAGAGGGAGAGGGAGAG
Found at i:8904331 original size:20 final size:23
Alignment explanation
Indices: 8904288--8904332 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
8904278 GGAAGAAAAA
8904288 AAAAGAAGAGAGGAGAGGGAGAG
1 AAAAGAAGAGAGGAGAGGGAGAG
*
8904311 AAAAGAA-AGGGGAGAGGGAGAG
1 AAAAGAAGAGAGGAGAGGGAGAG
8904333 GGAGCTCCGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (23 bp):
AAAAGAAGAGAGGAGAGGGAGAG
Found at i:8904449 original size:16 final size:16
Alignment explanation
Indices: 8904428--8904468 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
8904418 TAAAAATCTG
*
8904428 ATTTTTTTTATTTTTT
1 ATTTTTATTATTTTTT
8904444 ATTTTTATTATTTTTAT
1 ATTTTTATTATTTTT-T
8904461 ATATTTTA
1 AT-TTTTA
8904469 GTACGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.64
17 3 0.14
18 5 0.23
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTTTATTATTTTTT
Found at i:8904865 original size:23 final size:23
Alignment explanation
Indices: 8904818--8904889 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
8904808 TACGAGGACT
* *
8904818 GTGGCGGTATGGGG-TTGTTGCA
1 GTGGGGGTATGGGGCTTGTTGTA
8904840 GTGGGGGTATGGGGCTTGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
*
8904863 GTGGGGGTATGGGGCTGGTTGTA
1 GTGGGGGTATGGGGCTTGTTGTA
8904886 GTGG
1 GTGG
8904890 TTGCGGCACA
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
22 13 0.28
23 33 0.72
ACGTcount: A:0.08, C:0.06, G:0.54, T:0.32
Consensus pattern (23 bp):
GTGGGGGTATGGGGCTTGTTGTA
Found at i:8905033 original size:33 final size:34
Alignment explanation
Indices: 8904988--8905055 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 34
8904978 TTCGAGTTTA
8904988 GGGGTTAGTGGGTTTAGTGGGTCTT-GGT-TAGTT
1 GGGGTTAGTGGG-TTAGTGGGTCTTGGGTCTAGTT
* *
8905021 GGGGTTATTGGGTTAGTGGGTTTTGGGTCTAGTT
1 GGGGTTAGTGGGTTAGTGGGTCTTGGGTCTAGTT
8905055 G
1 G
8905056 TTGGGCTCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 11 0.35
33 14 0.45
34 6 0.19
ACGTcount: A:0.09, C:0.03, G:0.46, T:0.43
Consensus pattern (34 bp):
GGGGTTAGTGGGTTAGTGGGTCTTGGGTCTAGTT
Found at i:8905041 original size:16 final size:16
Alignment explanation
Indices: 8904985--8905053 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 16
8904975 GGCTTCGAGT
*
8904985 TTAG-GGGTTAGTGGG
1 TTAGTGGGTTATTGGG
*
8905000 TTTAGTGGG-TCTT-GG
1 -TTAGTGGGTTATTGGG
8905015 TTAGTTGGGGTTATTGGG
1 TTAG-T-GGGTTATTGGG
8905033 TTAGTGGGTT-TTGGG
1 TTAGTGGGTTATTGGG
8905048 TCTAGT
1 T-TAGT
8905054 TGTTGGGCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 4 0.09
15 9 0.20
16 18 0.41
17 7 0.16
18 6 0.14
ACGTcount: A:0.10, C:0.03, G:0.43, T:0.43
Consensus pattern (16 bp):
TTAGTGGGTTATTGGG
Found at i:8905670 original size:13 final size:13
Alignment explanation
Indices: 8905652--8905676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
8905642 TTTGAAACAT
8905652 AGAAATTAAAAGC
1 AGAAATTAAAAGC
8905665 AGAAATTAAAAG
1 AGAAATTAAAAG
8905677 GCTCAACTCA
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:0.64, C:0.04, G:0.16, T:0.16
Consensus pattern (13 bp):
AGAAATTAAAAGC
Found at i:8905891 original size:59 final size:59
Alignment explanation
Indices: 8905818--8906028 Score: 181
Period size: 59 Copynumber: 3.5 Consensus size: 59
8905808 TAGAAATTAA
*
8905818 AAAGACTCAACTCACCTCTCGCAATATGAACTGATTTTTGAAAATACCTTAGCGTGCCG
1 AAAGGCTCAACTCACCTCTCGCAATATGAACTGATTTTTGAAAATACCTTAGCGTGCCG
* ** ***** *** ** ***
8905877 TAAGGCTCAACTCACCTCTCGCAATATGAGTTGATAAAAAACAGGAATTGAAAATAGAAAT-TAA
1 AAAGGCTCAACTCACCTCTCGCAATATGAACTGATTTTTGA-A--AA-T-ACCTTAG-CGTGCCG
* *
8905941 AAAGACTCAACTCACCTCTCGCAATATGAACTGACTTTTGAAAATACCTTAGCGTGCCG
1 AAAGGCTCAACTCACCTCTCGCAATATGAACTGATTTTTGAAAATACCTTAGCGTGCCG
*
8906000 CAAGGCTCAACTCACCTCTCGCAATATGA
1 AAAGGCTCAACTCACCTCTCGCAATATGA
8906029 GTTGATGAAA
Statistics
Matches: 108, Mismatches: 37, Indels: 14
0.68 0.23 0.09
Matches are distributed among these distances:
58 1 0.01
59 63 0.58
60 2 0.02
61 2 0.02
62 2 0.02
63 2 0.02
64 35 0.32
65 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.25
Consensus pattern (59 bp):
AAAGGCTCAACTCACCTCTCGCAATATGAACTGATTTTTGAAAATACCTTAGCGTGCCG
Found at i:8905953 original size:123 final size:123
Alignment explanation
Indices: 8905792--8906108 Score: 564
Period size: 123 Copynumber: 2.6 Consensus size: 123
8905782 AAAATCAAAG
* *
8905792 AAACAGAAATTGAAAATAGAAATTAAAAAGACTCAACTCACCTCTCGCAATATGAACTGATTTTT
1 AAACAGGAATTGAAAATAGAAATTAAAAAGACTCAACTCACCTCTCGCAATATGAACTGACTTTT
*
8905857 GAAAATACCTTAGCGTGCCGTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATAAA
66 GAAAATACCTTAGCGTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATAAA
8905915 AAACAGGAATTGAAAATAGAAATTAAAAAGACTCAACTCACCTCTCGCAATATGAACTGACTTTT
1 AAACAGGAATTGAAAATAGAAATTAAAAAGACTCAACTCACCTCTCGCAATATGAACTGACTTTT
*
8905980 GAAAATACCTTAGCGTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATGAA
66 GAAAATACCTTAGCGTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATAAA
* * *
8906038 AAA-AGGAATTGAAAATAGAAATTAAAAAGACTCAACTCATCTCTTGCAATATGAATTGACTTTT
1 AAACAGGAATTGAAAATAGAAATTAAAAAGACTCAACTCACCTCTCGCAATATGAACTGACTTTT
8906102 GAAAATA
66 GAAAATA
8906109 GAATTTGAAA
Statistics
Matches: 187, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
122 65 0.35
123 122 0.65
ACGTcount: A:0.41, C:0.19, G:0.15, T:0.25
Consensus pattern (123 bp):
AAACAGGAATTGAAAATAGAAATTAAAAAGACTCAACTCACCTCTCGCAATATGAACTGACTTTT
GAAAATACCTTAGCGTGCCGCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATAAA
Found at i:8906263 original size:71 final size:71
Alignment explanation
Indices: 8906121--8906534 Score: 499
Period size: 71 Copynumber: 5.7 Consensus size: 71
8906111 ATTTGAAAAT
* * * * * **
8906121 ACCTCTCGCAATATGAGTCGATTTTAGATTTA-ATAGGAATTGAAATTACCTCAGCGTGCCCCGA
1 ACCTCTCGCAATATGAGTTGATTTTTGA--AACATA--AATTGAAATTACCTCAACGTGTCTTGA
*
8906185 GGTTCAACTC
62 GGCTCAACTC
*
8906195 ACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
1 ACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
8906260 CAACTC
66 CAACTC
* * * * **
8906266 ACCTCTCGCAATATGAGTTGATTTTAGGATTTA-ATAAGAATTGAAATTACCTCAGCGTGCCCCG
1 ACCTCTCGCAATATGAGTTGATTTT-TGA--AACAT-A-AATTGAAATTACCTCAACGTGTCTTG
*
8906330 AGGTTCAACTC
61 AGGCTCAACTC
*
8906341 ACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
1 ACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
8906406 CAACTC
66 CAACTC
* *
8906412 ACCTCTCGCAATATGAGTTGATTTTTGGAATATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
1 ACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
8906477 CAACTC
66 CAACTC
* * *
8906483 ACCTCTCGCAATATGAGCTGATTTCCTTGGAAAGCAGAAATTGAAAATACCT
1 ACCTCTCGCAATATGAGTTGATTT--TT-GAAA-CATAAATTGAAATTACCT
8906535 GTCATTTGGT
Statistics
Matches: 296, Mismatches: 33, Indels: 21
0.85 0.09 0.06
Matches are distributed among these distances:
71 179 0.60
72 5 0.02
73 9 0.03
74 32 0.11
75 71 0.24
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (71 bp):
ACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTGTCTTGAGGCT
CAACTC
Found at i:8906384 original size:146 final size:146
Alignment explanation
Indices: 8906121--8906534 Score: 640
Period size: 146 Copynumber: 2.8 Consensus size: 146
8906111 ATTTGAAAAT
* *
8906121 ACCTCTCGCAATATGAGTCGATTTTA-GATTTAATAGGAATTGAAATTACCTCAGCGTGCCCCGA
1 ACCTCTCGCAATATGAGTTGATTTTAGGATTTAATAAGAATTGAAATTACCTCAGCGTGCCCCGA
8906185 GGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTG
66 GGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTG
8906250 TCTTGAGGCTCAACTC
131 TCTTGAGGCTCAACTC
8906266 ACCTCTCGCAATATGAGTTGATTTTAGGATTTAATAAGAATTGAAATTACCTCAGCGTGCCCCGA
1 ACCTCTCGCAATATGAGTTGATTTTAGGATTTAATAAGAATTGAAATTACCTCAGCGTGCCCCGA
8906331 GGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTG
66 GGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTG
8906396 TCTTGAGGCTCAACTC
131 TCTTGAGGCTCAACTC
* * * * **
8906412 ACCTCTCGCAATATGAGTTGATTTTTGGA-AT-AT-A-AATTGAAATTACCTCAACGTGTCTTGA
1 ACCTCTCGCAATATGAGTTGATTTTAGGATTTAATAAGAATTGAAATTACCTCAGCGTGCCCCGA
* * * * *
8906473 GGCTCAACTCACCTCTCGCAATATGAGCTGATTTCCTTGGAAAGCAGAAATTGAAAATACCT
66 GGTTCAACTCACTTCTCGCAATATGAGTTGATTT--TT-GAAA-CATAAATTGAAATTACCT
8906535 GTCATTTGGT
Statistics
Matches: 251, Mismatches: 13, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
142 54 0.22
143 1 0.00
144 4 0.02
145 30 0.12
146 162 0.65
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (146 bp):
ACCTCTCGCAATATGAGTTGATTTTAGGATTTAATAAGAATTGAAATTACCTCAGCGTGCCCCGA
GGTTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAATTACCTCAACGTG
TCTTGAGGCTCAACTC
Found at i:8919004 original size:2 final size:2
Alignment explanation
Indices: 8918985--8919021 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
8918975 GAAATATACC
*
8918985 AT AT A- AT AT -T AG AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8919022 ATAGTATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8919014 original size:21 final size:21
Alignment explanation
Indices: 8918953--8919014 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
8918943 CACACATATA
*
8918953 ATATATATAAATAATAGTATTAG
1 ATATATATATAT-ATA-TATTAG
* *
8918976 AAATATACCATATA-ATATTAG
1 ATATATA-TATATATATATTAG
8918997 ATATATATATATATATAT
1 ATATATATATATATATAT
8919015 ATATATAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.16
21 16 0.50
22 1 0.03
23 7 0.22
24 3 0.09
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (21 bp):
ATATATATATATATATATTAG
Found at i:8919057 original size:20 final size:19
Alignment explanation
Indices: 8919005--8919084 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 19
8918995 AGATATATAT
*
8919005 ATATATATATATATATAATA
1 ATATATATA-AAATATAATA
* * *
8919025 GTATAAAGAAAAATATAACTA
1 ATATATA-TAAAATATAA-TA
8919046 ATA-ATATTAAAATATATATA
1 ATATATA-TAAAATATA-ATA
8919066 ATATATATAAAATATAATA
1 ATATATATAAAATATAATA
8919085 TTAAGAACTT
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.06
20 36 0.75
21 9 0.19
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (19 bp):
ATATATATAAAATATAATA
Found at i:8919299 original size:13 final size:14
Alignment explanation
Indices: 8919281--8919311 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
8919271 ATGTATGAAT
8919281 ATATACATATA-TA
1 ATATACATATATTA
8919294 ATATACATATATTA
1 ATATACATATATTA
8919308 ATAT
1 ATAT
8919312 TAATAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (14 bp):
ATATACATATATTA
Found at i:8929871 original size:2 final size:2
Alignment explanation
Indices: 8929852--8929888 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
8929842 GAAATATACC
*
8929852 AT AT A- AT AT -T AG AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8929889 GTATGAAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 2 0.06
2 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:8929881 original size:21 final size:21
Alignment explanation
Indices: 8929820--8929881 Score: 63
Period size: 21 Copynumber: 2.9 Consensus size: 21
8929810 ACACATATAA
*
8929820 ATATATATAAATAATAGTATTAG
1 ATATATATATAT-ATA-TATTAG
* *
8929843 AAATATACCATATA-ATATTAG
1 ATATATA-TATATATATATTAG
8929864 ATATATATATATATATAT
1 ATATATATATATATATAT
8929882 ATATATAGTA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
20 5 0.16
21 16 0.50
22 1 0.03
23 7 0.22
24 3 0.09
ACGTcount: A:0.52, C:0.03, G:0.05, T:0.40
Consensus pattern (21 bp):
ATATATATATATATATATTAG
Found at i:8929922 original size:20 final size:19
Alignment explanation
Indices: 8929899--8929949 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
8929889 GTATGAAAGA
8929899 AAAATATAACTAATAATAT-T
1 AAAATATAA-T-ATAATATAT
8929919 AAAATAT-ATATAATATAT
1 AAAATATAATATAATATAT
8929937 ATAAATATAATAT
1 A-AAATATAATAT
8929950 TAAGAACTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 7 0.25
18 3 0.11
19 7 0.25
20 11 0.39
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (19 bp):
AAAATATAATATAATATAT
Found at i:8929933 original size:17 final size:19
Alignment explanation
Indices: 8929864--8929945 Score: 60
Period size: 20 Copynumber: 4.2 Consensus size: 19
8929854 ATAATATTAG
*
8929864 ATATAT-ATATATATATAT
1 ATATATAATATATATAAAT
* * * *
8929882 ATATATAGTATGAAAGAAAA
1 ATATATAATAT-ATATAAAT
8929902 ATATAACTAATA-ATATTAAAAT
1 ATAT-A-TAATATATA-T-AAAT
8929924 ATATATAATATATATAAAT
1 ATATATAATATATATAAAT
8929943 ATA
1 ATA
8929946 ATATTAAGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 13
0.69 0.13 0.19
Matches are distributed among these distances:
18 6 0.12
19 10 0.21
20 16 0.33
21 5 0.10
22 11 0.23
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (19 bp):
ATATATAATATATATAAAT
Found at i:8930885 original size:16 final size:16
Alignment explanation
Indices: 8930864--8930904 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 16
8930854 TAAAAATCTG
*
8930864 ATTTTTTTTATTTTTT
1 ATTTTTATTATTTTTT
8930880 ATTTTTATTATTTTTAT
1 ATTTTTATTATTTTT-T
8930897 ATATTTTA
1 AT-TTTTA
8930905 GTACGTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 14 0.64
17 3 0.14
18 5 0.23
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
ATTTTTATTATTTTTT
Found at i:8931293 original size:22 final size:23
Alignment explanation
Indices: 8931254--8931324 Score: 110
Period size: 23 Copynumber: 3.2 Consensus size: 23
8931244 TACGAGGACT
*
8931254 GTGGCGGTATGGGG-TTGTTGTA
1 GTGGAGGTATGGGGCTTGTTGTA
8931276 GTGG-GGTATGGGGCTTGTTGTA
1 GTGGAGGTATGGGGCTTGTTGTA
*
8931298 GTGGAGGTATGGGGCTGGTTGTA
1 GTGGAGGTATGGGGCTTGTTGTA
8931321 GTGG
1 GTGG
8931325 TTGCGGCACA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
21 9 0.20
22 16 0.35
23 21 0.46
ACGTcount: A:0.10, C:0.04, G:0.52, T:0.34
Consensus pattern (23 bp):
GTGGAGGTATGGGGCTTGTTGTA
Found at i:8931469 original size:33 final size:34
Alignment explanation
Indices: 8931424--8931491 Score: 95
Period size: 33 Copynumber: 2.0 Consensus size: 34
8931414 TTCGGGTTTA
8931424 GGGGTTAGTGGGTTTAGTGGGTCTT-GGT-TAGTT
1 GGGGTTAGTGGG-TTAGTGGGTCTTGGGTCTAGTT
* *
8931457 GGGGTTATTGGGTTAGTGGGTTTTGGGTCTAGTT
1 GGGGTTAGTGGGTTAGTGGGTCTTGGGTCTAGTT
8931491 G
1 G
8931492 TTGGGCTCCG
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
32 11 0.35
33 14 0.45
34 6 0.19
ACGTcount: A:0.09, C:0.03, G:0.46, T:0.43
Consensus pattern (34 bp):
GGGGTTAGTGGGTTAGTGGGTCTTGGGTCTAGTT
Found at i:8931477 original size:16 final size:16
Alignment explanation
Indices: 8931421--8931489 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 16
8931411 GGCTTCGGGT
*
8931421 TTAG-GGGTTAGTGGG
1 TTAGTGGGTTATTGGG
*
8931436 TTTAGTGGG-TCTT-GG
1 -TTAGTGGGTTATTGGG
8931451 TTAGTTGGGGTTATTGGG
1 TTAG-T-GGGTTATTGGG
8931469 TTAGTGGGTT-TTGGG
1 TTAGTGGGTTATTGGG
8931484 TCTAGT
1 T-TAGT
8931490 TGTTGGGCTC
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
14 4 0.09
15 9 0.20
16 18 0.41
17 7 0.16
18 6 0.14
ACGTcount: A:0.10, C:0.03, G:0.43, T:0.43
Consensus pattern (16 bp):
TTAGTGGGTTATTGGG
Found at i:8934887 original size:28 final size:28
Alignment explanation
Indices: 8934847--8934903 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
8934837 TGTGAGAGAG
*
8934847 TATGAGTGTAGGAAAAAATTCTACAGAA
1 TATGAGTATAGGAAAAAATTCTACAGAA
8934875 TATGAGTATAGGAAAAAATTCTACAGAA
1 TATGAGTATAGGAAAAAATTCTACAGAA
8934903 T
1 T
8934904 TCATAGTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.26
Consensus pattern (28 bp):
TATGAGTATAGGAAAAAATTCTACAGAA
Found at i:8935022 original size:20 final size:20
Alignment explanation
Indices: 8934979--8935027 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
8934969 AGAAGCCAAT
* *
8934979 AAATCAATTTGATTAAAATT
1 AAATCAAATTGATTAAAATC
**
8934999 AAATCAAATTGATTGGAATC
1 AAATCAAATTGATTAAAATC
*
8935019 AAATAAAAT
1 AAATCAAAT
8935028 AAGATAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (20 bp):
AAATCAAATTGATTAAAATC
Found at i:8935812 original size:14 final size:15
Alignment explanation
Indices: 8935781--8935812 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
8935771 TTTTTTTCTT
8935781 TTTTAATTTTAGTTA
1 TTTTAATTTTAGTTA
8935796 TTTTAATTTTA-TTA
1 TTTTAATTTTAGTTA
8935810 TTT
1 TTT
8935813 GATAAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.35
15 11 0.65
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTAATTTTAGTTA
Found at i:8941699 original size:34 final size:34
Alignment explanation
Indices: 8941633--8941701 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
8941623 TAGAATAACA
8941633 TAGAATTAATATTGCTTATAAAATAAAACTAATT
1 TAGAATTAATATTGCTTATAAAATAAAACTAATT
8941667 TAGAATTAATATTGCTTATAAAATAAAACTAATT
1 TAGAATTAATATTGCTTATAAAATAAAACTAATT
8941701 T
1 T
8941702 TAATATAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.39
Consensus pattern (34 bp):
TAGAATTAATATTGCTTATAAAATAAAACTAATT
Found at i:8942751 original size:13 final size:14
Alignment explanation
Indices: 8942733--8942763 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
8942723 TTTATAGCCA
8942733 AAATAAAT-AAAAG
1 AAATAAATAAAAAG
8942746 AAATAAATAAAAAG
1 AAATAAATAAAAAG
8942760 AAAT
1 AAAT
8942764 CCAAATTTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.47
14 9 0.53
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.16
Consensus pattern (14 bp):
AAATAAATAAAAAG
Found at i:8947498 original size:26 final size:26
Alignment explanation
Indices: 8947469--8947518 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
8947459 ACTTTTTTTT
* *
8947469 TTTTTTGCAGTGAATTAATTTATATA
1 TTTTTTGAAGGGAATTAATTTATATA
*
8947495 TTTTTTTAAGGGAATTAATTTATA
1 TTTTTTGAAGGGAATTAATTTATA
8947519 ATGTATCTTC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.32, C:0.02, G:0.12, T:0.54
Consensus pattern (26 bp):
TTTTTTGAAGGGAATTAATTTATATA
Found at i:8962500 original size:30 final size:29
Alignment explanation
Indices: 8962466--8962527 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
8962456 TGGCTAAATA
8962466 AGGTCTATAGGCCGATTTTGAA-ATTTATTT
1 AGGTCTATAGGCCGATTTT-AATA-TTATTT
* * *
8962496 AGGTCTTTAGGTCGGTTTTAATATTATTT
1 AGGTCTATAGGCCGATTTTAATATTATTT
8962525 AGG
1 AGG
8962528 GAAATAAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 11 0.39
30 17 0.61
ACGTcount: A:0.24, C:0.08, G:0.23, T:0.45
Consensus pattern (29 bp):
AGGTCTATAGGCCGATTTTAATATTATTT
Found at i:8964051 original size:29 final size:29
Alignment explanation
Indices: 8964013--8964069 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
8964003 TTGTAATAAA
*
8964013 TATATATTTATTATGTAA-AAATAATTTTT
1 TATAGATTTATTATGTAATAAAT-ATTTTT
8964042 TATAGATTTATTATGTAATAAATATTTT
1 TATAGATTTATTATGTAATAAATATTTT
8964070 ATAATATTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.54
Consensus pattern (29 bp):
TATAGATTTATTATGTAATAAATATTTTT
Found at i:8964080 original size:29 final size:28
Alignment explanation
Indices: 8964014--8964082 Score: 77
Period size: 29 Copynumber: 2.4 Consensus size: 28
8964004 TGTAATAAAT
*
8964014 ATATATTTATTATGTAAAAATAATTTTTT
1 ATAT-TTTATTATGTAAAAATAATTTTTA
*
8964043 ATAGATTTATTATGTAATAAAT-ATTTTATA
1 ATA-TTTTATTATGTAA-AAATAATTTT-TA
8964073 ATATTTTATT
1 ATATTTTATT
8964083 TACCAAATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 26 0.76
30 8 0.24
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (28 bp):
ATATTTTATTATGTAAAAATAATTTTTA
Found at i:8982089 original size:31 final size:31
Alignment explanation
Indices: 8982047--8982110 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
8982037 TACGCTTCCC
*
8982047 ATCATTTTACACATCTCTCATTCTATGAATA
1 ATCATTGTACACATCTCTCATTCTATGAATA
*
8982078 ATCATTGTACACATCTCTCATTCTATGGATA
1 ATCATTGTACACATCTCTCATTCTATGAATA
8982109 AT
1 AT
8982111 ACGACACTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.31, C:0.22, G:0.06, T:0.41
Consensus pattern (31 bp):
ATCATTGTACACATCTCTCATTCTATGAATA
Found at i:8986276 original size:12 final size:12
Alignment explanation
Indices: 8986261--8986303 Score: 54
Period size: 11 Copynumber: 3.8 Consensus size: 12
8986251 TTTGTTTTCA
8986261 TATTTATATAAT
1 TATTTATATAAT
*
8986273 TATTTTTAT-AT
1 TATTTATATAAT
*
8986284 TTTTTA-ATAAT
1 TATTTATATAAT
8986295 TATTTATAT
1 TATTTATAT
8986304 TTTCTTGGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
10 2 0.08
11 13 0.52
12 10 0.40
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TATTTATATAAT
Found at i:8986283 original size:20 final size:19
Alignment explanation
Indices: 8986255--8986306 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
8986245 CCTAGATTTG
* *
8986255 TTTTCATATTTATATAATTA
1 TTTTTATATTT-TATAATAA
*
8986275 TTTTTATATTTTTTAATAA
1 TTTTTATATTTTATAATAA
8986294 TTATTTATATTTT
1 TT-TTTATATTTT
8986307 CTTGGTAATC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 8 0.29
20 20 0.71
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (19 bp):
TTTTTATATTTTATAATAA
Found at i:8986296 original size:22 final size:21
Alignment explanation
Indices: 8986263--8986306 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 21
8986253 TGTTTTCATA
8986263 TTTATATAATTATTTTTATATTT
1 TTTATATAATTA--TTTATATTT
8986286 TTTA-ATAATTATTTATATTT
1 TTTATATAATTATTTATATTT
8986306 T
1 T
8986307 CTTGGTAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.48
22 7 0.33
23 4 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTATATAATTATTTATATTT
Found at i:8986797 original size:22 final size:20
Alignment explanation
Indices: 8986771--8986827 Score: 53
Period size: 21 Copynumber: 2.7 Consensus size: 20
8986761 TATTACCTAG
*
8986771 AAAAAGTATAAAAGTTTTCAA
1 AAAAAATATAAAA-TTTTCAA
*
8986792 AAAAAAT-TCCAAATTTTCAAA
1 AAAAAATAT-AAAATTTTC-AA
8986813 AAGAAAATATAAAAT
1 AA-AAAATATAAAAT
8986828 AAATTTATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
20 6 0.21
21 13 0.45
22 9 0.31
23 1 0.03
ACGTcount: A:0.61, C:0.07, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAAAATATAAAATTTTCAA
Found at i:8992016 original size:18 final size:18
Alignment explanation
Indices: 8991981--8992017 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8991971 TAAAATCCGT
*
8991981 ACGTCCAACGATTACGTC
1 ACGTCCAACGATGACGTC
*
8991999 ACGTCCAACGATGGCGTC
1 ACGTCCAACGATGACGTC
8992017 A
1 A
8992018 AAACGAAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.32, G:0.22, T:0.19
Consensus pattern (18 bp):
ACGTCCAACGATGACGTC
Found at i:8996489 original size:21 final size:22
Alignment explanation
Indices: 8996450--8996490 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
8996440 ATTTTCTGAA
*
8996450 TAATATTTATATTATTTTAATT
1 TAATATTTATATAATTTTAATT
8996472 TAATATTTA-ATAATTTTAA
1 TAATATTTATATAATTTTAA
8996491 ATATTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TAATATTTATATAATTTTAATT
Found at i:8998908 original size:30 final size:31
Alignment explanation
Indices: 8998868--8998930 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
8998858 CGAAATAATG
8998868 AGTAAGAAATGATAAGAAAAGATTGATTGCT
1 AGTAAGAAATGATAAGAAAAGATTGATTGCT
* *
8998899 AGTAA-AAATGGTAAGGAAAGATTGATTGCT
1 AGTAAGAAATGATAAGAAAAGATTGATTGCT
8998929 AG
1 AG
8998931 ATATGAGGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.46, C:0.03, G:0.25, T:0.25
Consensus pattern (31 bp):
AGTAAGAAATGATAAGAAAAGATTGATTGCT
Found at i:9007222 original size:3 final size:3
Alignment explanation
Indices: 9007214--9007243 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
9007204 GGAGTTGTTA
9007214 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
9007244 CACATAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:9012922 original size:15 final size:15
Alignment explanation
Indices: 9012875--9012925 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
9012865 TTGCTTTATG
*
9012875 TTACGTTTTAGTCAC
1 TTACATTTTAGTCAC
* *
9012890 TTACATTTAAAAT-A-
1 TTACATTT-TAGTCAC
9012904 TTACATTTTAGTCAC
1 TTACATTTTAGTCAC
9012919 TTACATT
1 TTACATT
9012926 ATTGTGTTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 2 0.07
14 9 0.32
15 15 0.54
16 2 0.07
ACGTcount: A:0.31, C:0.16, G:0.06, T:0.47
Consensus pattern (15 bp):
TTACATTTTAGTCAC
Found at i:9016472 original size:21 final size:20
Alignment explanation
Indices: 9016448--9016486 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
9016438 GTTAAAAATA
*
9016448 ATTATCATTTTCATCATTTGG
1 ATTATCATGTTCAT-ATTTGG
9016469 ATTATCATGTTCATATTT
1 ATTATCATGTTCATATTT
9016487 TAATCTCAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.26, C:0.13, G:0.08, T:0.54
Consensus pattern (20 bp):
ATTATCATGTTCATATTTGG
Found at i:9022831 original size:29 final size:29
Alignment explanation
Indices: 9022798--9022884 Score: 156
Period size: 29 Copynumber: 3.0 Consensus size: 29
9022788 GGAAAGCCCC
9022798 ATATAGCCCTTTCAAAGCTCACCTCTTCA
1 ATATAGCCCTTTCAAAGCTCACCTCTTCA
9022827 ATATAGCCCTTTCAAAGCTCACCTCTTCA
1 ATATAGCCCTTTCAAAGCTCACCTCTTCA
* *
9022856 ATATAGCCCGTTCAAGGCTCACCTCTTCA
1 ATATAGCCCTTTCAAAGCTCACCTCTTCA
9022885 GAGAAAGAAT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 56 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.30
Consensus pattern (29 bp):
ATATAGCCCTTTCAAAGCTCACCTCTTCA
Found at i:9022902 original size:3 final size:3
Alignment explanation
Indices: 9022894--9022922 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
9022884 AGAGAAAGAA
9022894 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TC
9022923 ACTTTACATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TCT
Found at i:9024671 original size:58 final size:60
Alignment explanation
Indices: 9024599--9024719 Score: 183
Period size: 58 Copynumber: 2.0 Consensus size: 60
9024589 ATTTAAAATT
* *
9024599 TTTATTATGTGACTTTCTTTATTTGTGCTGTTTACATAAATTAAAAG-TTT-TTTTTTTC
1 TTTATTATATGACTTTCTCTATTTGTGCTGTTTACATAAATTAAAAGTTTTCTTTTTTTC
* * *
9024657 TTTATTGTATGACTTTCTCTGTTTGTGTTGTTTACATAAATTAAAAGTTTTCTTTTTTTC
1 TTTATTATATGACTTTCTCTATTTGTGCTGTTTACATAAATTAAAAGTTTTCTTTTTTTC
9024717 TTT
1 TTT
9024720 TCTATTATAA
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
58 42 0.75
59 3 0.05
60 11 0.20
ACGTcount: A:0.21, C:0.09, G:0.11, T:0.60
Consensus pattern (60 bp):
TTTATTATATGACTTTCTCTATTTGTGCTGTTTACATAAATTAAAAGTTTTCTTTTTTTC
Found at i:9032056 original size:84 final size:84
Alignment explanation
Indices: 9031903--9032063 Score: 193
Period size: 84 Copynumber: 1.9 Consensus size: 84
9031893 TTTGATTTAA
* * *
9031903 CTGATGATGCACTTACGTTCCAGTATATTTTCTTCAGTACATTCGATGATACACTTACATGCCAA
1 CTGATGATGCACTTACATTCCAGAATATTTTCTTCAGTACATTCGATGATACACTTACATACCAA
9031968 TATGATTGCTTCAGTATAT
66 TATGATTGCTTCAGTATAT
* * * **
9031987 CTGATGATTCACTTACATGT-CAGAATATTTTCTT-TGTTACA-TCTGATGATGCACTTATGTAC
1 CTGATGATGCACTTACAT-TCCAGAATATTTTCTTCAG-TACATTC-GATGATACACTTACATAC
*
9032049 CAGTATGATTGCTTC
63 CAATATGATTGCTTC
9032064 GGTTTAACCA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
83 3 0.05
84 61 0.94
85 1 0.02
ACGTcount: A:0.26, C:0.19, G:0.15, T:0.40
Consensus pattern (84 bp):
CTGATGATGCACTTACATTCCAGAATATTTTCTTCAGTACATTCGATGATACACTTACATACCAA
TATGATTGCTTCAGTATAT
Found at i:9037165 original size:18 final size:18
Alignment explanation
Indices: 9037142--9037178 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
9037132 CAACATTTTC
9037142 AGAAAAA-AATAAAACAAA
1 AGAAAAATAATAAAA-AAA
9037160 AGAAAAATAATAAAAAAA
1 AGAAAAATAATAAAAAAA
9037178 A
1 A
9037179 CCCTAGCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.84, C:0.03, G:0.05, T:0.08
Consensus pattern (18 bp):
AGAAAAATAATAAAAAAA
Done.