Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 217 of 356
Found at i:70959716 original size:14 final size:13
Alignment explanation
Indices: 70959685--70959722 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
70959675 TAGTAAAATA
*
70959685 ATAAATATTTGAT
1 ATAAATATTTTAT
70959698 A-AAATATTTTATT
1 ATAAATATTTTA-T
70959711 ATAAATATTTTA
1 ATAAATATTTTA
70959723 ATCAATTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 9 0.41
13 3 0.14
14 10 0.45
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (13 bp):
ATAAATATTTTAT
Found at i:70961941 original size:21 final size:21
Alignment explanation
Indices: 70961896--70961942 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
70961886 GAATTGTGAG
* *
70961896 TTCTACTGATACAACTCTGGG
1 TTCTACTGATACAACTCCGGC
70961917 TTCTACTGATACAAC-CCGGAC
1 TTCTACTGATACAACTCCGG-C
70961938 TTCTA
1 TTCTA
70961943 TCGATAGAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.32
Consensus pattern (21 bp):
TTCTACTGATACAACTCCGGC
Found at i:70964116 original size:37 final size:37
Alignment explanation
Indices: 70964014--70964152 Score: 244
Period size: 37 Copynumber: 3.8 Consensus size: 37
70964004 CGAATAGTCC
* * *
70964014 CCACACGTAGTTATTGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
70964051 CCACACGTAGTCATC-GGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
70964087 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
70964124 CCACACGTAGTCATCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
70964153 ATATATTTCC
Statistics
Matches: 98, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
36 35 0.36
37 63 0.64
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:70964133 original size:73 final size:74
Alignment explanation
Indices: 70964014--70964152 Score: 244
Period size: 73 Copynumber: 1.9 Consensus size: 74
70964004 CGAATAGTCC
* *
70964014 CCACACGTAGTTATTGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATC-GGTCTTACCCGG
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
70964078 ACATAATCT
66 ACATAATCT
*
70964087 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCTCCACACGTAGTCATCGGGTCTTACCCGG
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
70964152 A
66 A
70964153 ATATATTTCC
Statistics
Matches: 62, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
73 49 0.79
74 13 0.21
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (74 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTCATCGGGTCTTACCCGG
ACATAATCT
Found at i:70964354 original size:48 final size:48
Alignment explanation
Indices: 70964293--70964957 Score: 1150
Period size: 48 Copynumber: 13.9 Consensus size: 48
70964283 ATATACACAC
* * *
70964293 ATCTCCTACATATTTCACACTAGCCATTCGACTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
70964341 ATCTCATATATATTTCACATTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
70964389 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70964437 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
70964485 ATCACATACATATTTCACATTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70964533 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
70964581 ATGTCATATATATTTCACATTAGCCATTCGGCTTTACGACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
70964629 ATCTCATACATATTTCACATTAGCCATTCGGCCTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* * *
70964677 ATCTCATACATATTTCACACTAGCCATTCGGCCTTACCACATACACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
70964725 ATCTCATATATATTTCACATTAGTCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
70964773 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
70964821 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
70964869 ATCACATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
70964917 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
70964958 CACATATATA
Statistics
Matches: 587, Mismatches: 30, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 587 1.00
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:70967645 original size:9 final size:9
Alignment explanation
Indices: 70967631--70967716 Score: 91
Period size: 9 Copynumber: 9.6 Consensus size: 9
70967621 ATAAGTATAA
*
70967631 AATTAACTG
1 AATTAACCG
70967640 AATTAACCG
1 AATTAACCG
*
70967649 AATTAATCG
1 AATTAACCG
70967658 AATTAACCG
1 AATTAACCG
* *
70967667 AATCACCCG
1 AATTAACCG
* *
70967676 AATTACCCA
1 AATTAACCG
**
70967685 AATTAATTG
1 AATTAACCG
*
70967694 AATTAACCA
1 AATTAACCG
70967703 AATTAACCG
1 AATTAACCG
70967712 AATTA
1 AATTA
70967717 TTTGTATAAA
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 62 1.00
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:70967751 original size:5 final size:6
Alignment explanation
Indices: 70967736--70967776 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
70967726 AATTATATGT
*
70967736 TTTTTA TTTTTA TTTTTAA TTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTT-A TTTT-TA TTTTTA TTTTTA TTT
70967777 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 21 0.68
7 10 0.32
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:70974392 original size:47 final size:47
Alignment explanation
Indices: 70974228--70974434 Score: 179
Period size: 47 Copynumber: 4.4 Consensus size: 47
70974218 TGATTTTTAC
* ** * *
70974228 GCCAGTGTAAGACATGTCTGGGACAT-GCTTTGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCATACTATGAGA
* * * * * *
70974274 CCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACATCCAAACGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGCCATAC-TATGAGA
* * *
70974322 GCTAGTGTAAGACATGTCAGGGACAT-GCATCAGCCATACTATGATA
1 GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCATACTATGAGA
* ** * *
70974368 GCCAGTGTAAGACCATTTCTGGGACATGGCATCAGCACA-AAGATAAGT
1 GCCAGTGTAAGA-CATGTCTGGGACATGGCATCAGC-CATACTATGAGA
70974416 GCCAGTGTAAGACATGTCT
1 GCCAGTGTAAGACATGTCT
70974435 AAGACATGCA
Statistics
Matches: 126, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
46 30 0.24
47 53 0.42
48 41 0.33
49 2 0.02
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (47 bp):
GCCAGTGTAAGACATGTCTGGGACATGGCATCAGCCATACTATGAGA
Found at i:70974423 original size:94 final size:94
Alignment explanation
Indices: 70974228--70974446 Score: 255
Period size: 94 Copynumber: 2.3 Consensus size: 94
70974218 TGATTTTTAC
* * ** *
70974228 GCCAGTGTAAGACATGTCTGGGACATGCTTTGGCCACATTATGAGACCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCAGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTC
* *
70974293 TGGGACATGGCATCGACATCCAAACGAGG
66 TGGGACATGGCATCGACATCAAAACAAGG
* * * * *
70974322 GCTAGTGTAAGACATGTCAGGGACATGCATCAGCCATACTATGATAGCCAGTGTAAGACCATTTC
1 GCCAGTGTAAGACATGTCAGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTC
* *
70974387 TGGGACATGGCATC-AGCA-CAAAGATAAGT
66 TGGGACATGGCATCGA-CATCAAA-ACAAGG
*
70974416 GCCAGTGTAAGACATGTCTA-AGACATGCATC
1 GCCAGTGTAAGACATGTC-AGGGACATGCATC
70974447 GGCCTCGACA
Statistics
Matches: 106, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
93 4 0.04
94 101 0.95
95 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.26, T:0.22
Consensus pattern (94 bp):
GCCAGTGTAAGACATGTCAGGGACATGCATCAGCCACACTATGAGACCCAGTGTAAGACCATGTC
TGGGACATGGCATCGACATCAAAACAAGG
Found at i:70981908 original size:47 final size:46
Alignment explanation
Indices: 70981837--70982152 Score: 207
Period size: 47 Copynumber: 6.7 Consensus size: 46
70981827 TGATTTTTAC
* *
70981837 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGA
* * *
70981883 GCCAGTGTAAGACCATGTCTGGGACATGCATCAGCCATACTATG-GTA
1 GCCAGTGTAAGA-CATGTCTGGGACATGCATCGGCCACAATATGAG-A
* * * *
70981930 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGG-CACAAAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCAC-AATATGAGA
* * * * * *
70981978 GCCAGTGTAAGACATGTCTAGGTCATGCATCAGCCCCGACA-GAGTTA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAG--A
* * * * *
70982025 GCCAGTGTAAGA-AGTGTTTAGGACACGCATCGGCTA-AGAGT-T--GT
1 GCCAGTGTAAGACA-TGTCTGGGACATGCATCGGCCACA-A-TATGAGA
* * * ** * *
70982069 GCTAATGTAAAACATGTCTGGGACATGCATCAGTACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCCAC-AATATGAGA
70982117 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC
70982153 AATATATCCC
Statistics
Matches: 203, Mismatches: 46, Indels: 39
0.70 0.16 0.14
Matches are distributed among these distances:
44 23 0.11
45 6 0.03
46 25 0.12
47 96 0.47
48 32 0.16
49 16 0.08
50 5 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (46 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACAATATGAGA
Found at i:70982006 original size:94 final size:93
Alignment explanation
Indices: 70981837--70982012 Score: 239
Period size: 94 Copynumber: 1.9 Consensus size: 93
70981827 TGATTTTTAC
* * **
70981837 GCCAGTGTAAGACATGTCTGGGACATGCTTCGGCCACATTATGAGAGCCAGTGTAAGACCATGTC
1 GCCAGTGTAAGACATGTCTGGAACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACCATGTC
*
70981902 TGGGACATGCATCAGCCATACTATGGTA
66 TAGGACATGCATCAGCCATACTATGGTA
* *
70981930 GCCAGTGTAAGACCATGTTTGGAACATGGCATCGG-CACAAAGATGAGTGCCAGTGTAAGA-CAT
1 GCCAGTGTAAGA-CATGTCTGGAACAT-GCATCGGCCAC-AAGATGAGAGCCAGTGTAAGACCAT
*
70981993 GTCTAGGTCATGCATCAGCC
63 GTCTAGGACATGCATCAGCC
70982013 CCGACAGAGT
Statistics
Matches: 72, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
93 12 0.17
94 36 0.50
95 24 0.33
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (93 bp):
GCCAGTGTAAGACATGTCTGGAACATGCATCGGCCACAAGATGAGAGCCAGTGTAAGACCATGTC
TAGGACATGCATCAGCCATACTATGGTA
Found at i:70987873 original size:13 final size:13
Alignment explanation
Indices: 70987855--70987879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70987845 ATATATTTTA
70987855 TTTTTAATTAATG
1 TTTTTAATTAATG
70987868 TTTTTAATTAAT
1 TTTTTAATTAAT
70987880 AAATATGTTG
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:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (13 bp):
TTTTTAATTAATG
Found at i:70988384 original size:13 final size:13
Alignment explanation
Indices: 70988366--70988398 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
70988356 TTAGGGCTAA
70988366 TTTAAAATT-TCTT
1 TTTAAAATTAT-TT
70988379 TTTAAAATTATTT
1 TTTAAAATTATTT
70988392 TTTAAAA
1 TTTAAAA
70988399 GTGCTTTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 18 0.95
14 1 0.05
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
TTTAAAATTATTT
Found at i:70988405 original size:26 final size:26
Alignment explanation
Indices: 70988366--70988452 Score: 77
Period size: 26 Copynumber: 3.3 Consensus size: 26
70988356 TTAGGGCTAA
* * *
70988366 TTTAAAATTTCTTTTTAAAATTATTT
1 TTTAAAAGTGCTTTTTAAAAATATTT
* * *
70988392 TTTAAAAGTGCTTTTAAAAAATAATG
1 TTTAAAAGTGCTTTTTAAAAATATTT
**
70988418 TGAAAAAGTGC-TTTTAACAAATATTT
1 TTTAAAAGTGCTTTTTAA-AAATATTT
*
70988444 TTGAAAAGT
1 TTTAAAAGT
70988453 TTGGTTTAAG
Statistics
Matches: 47, Mismatches: 13, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
25 5 0.11
26 42 0.89
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (26 bp):
TTTAAAAGTGCTTTTTAAAAATATTT
Found at i:70988671 original size:20 final size:20
Alignment explanation
Indices: 70988648--70988688 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
70988638 TATATGAAAT
70988648 ATAAATTTTAAATATTTTTA
1 ATAAATTTTAAATATTTTTA
70988668 ATAAATTTTAAATATTTTTA
1 ATAAATTTTAAATATTTTTA
70988688 A
1 A
70988689 GCAATTAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATAAATTTTAAATATTTTTA
Found at i:70988694 original size:20 final size:20
Alignment explanation
Indices: 70988650--70988694 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
70988640 TATGAAATAT
*
70988650 AAATTTTAAATATTTTTAAT
1 AAATTTTAAATATTTTTAAG
70988670 AAATTTTAAATATTTTTAAG
1 AAATTTTAAATATTTTTAAG
*
70988690 CAATT
1 AAATT
70988695 AATATTAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAATTTTAAATATTTTTAAG
Found at i:70992469 original size:18 final size:18
Alignment explanation
Indices: 70992429--70992470 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 18
70992419 AAAAACTCCT
70992429 GGAGAAAATGAAAGAAGAA
1 GGAG-AAATGAAAGAAGAA
70992448 -GAGAAATGAAAG-AGAA
1 GGAGAAATGAAAGAAGAA
70992464 GGGAGAA
1 -GGAGAA
70992471 CCAAAGAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 9 0.43
18 8 0.38
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.05
Consensus pattern (18 bp):
GGAGAAATGAAAGAAGAA
Found at i:70997362 original size:42 final size:44
Alignment explanation
Indices: 70997261--70997391 Score: 135
Period size: 43 Copynumber: 3.0 Consensus size: 44
70997251 AGCTCATACA
* * ** * *
70997261 ATGCCAACGGCCCAGACGTGGTGTTACATGT-AATCAAATATCG
1 ATGCCAATGTCCCAGACAAGGTCTTACACGTAAATCAAATATCG
* *
70997304 ATGCCACTGTCCCAGACAAGGTCTTACACG-AAATCATATA-CG
1 ATGCCAATGTCCCAGACAAGGTCTTACACGTAAATCAAATATCG
* *
70997346 ATGCCAATGTCTCAGACATGGTCTTACACGTAAATCACAA-ATCG
1 ATGCCAATGTCCCAGACAAGGTCTTACACGTAAATCA-AATATCG
70997390 AT
1 AT
70997392 AACAACGCCC
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
42 29 0.40
43 38 0.53
44 5 0.07
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (44 bp):
ATGCCAATGTCCCAGACAAGGTCTTACACGTAAATCAAATATCG
Found at i:71002004 original size:32 final size:32
Alignment explanation
Indices: 71001963--71002034 Score: 108
Period size: 32 Copynumber: 2.2 Consensus size: 32
71001953 GGCATTACAG
71001963 TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
1 TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
* * *
71001995 TGTGGGCCACTCGGGCAAGGCCAATTTGGGCG
1 TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
*
71002027 TCTGGGCC
1 TGTGGGCC
71002035 CAAGATTCTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.17, C:0.28, G:0.39, T:0.17
Consensus pattern (32 bp):
TGTGGGCCACACGGGCAAGGCCAATCTGGGCA
Found at i:71006143 original size:19 final size:20
Alignment explanation
Indices: 71006114--71006158 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
71006104 AAAAATGATA
*
71006114 AAAAATAATTAAATTTTAAT
1 AAAAATAATTAAAATTTAAT
*
71006134 AAAAAT-ATTAAAATTTATT
1 AAAAATAATTAAAATTTAAT
71006153 AAAAAT
1 AAAAAT
71006159 TATAAAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (20 bp):
AAAAATAATTAAAATTTAAT
Found at i:71006166 original size:20 final size:19
Alignment explanation
Indices: 71006132--71006185 Score: 56
Period size: 20 Copynumber: 2.8 Consensus size: 19
71006122 TTAAATTTTA
*
71006132 ATAAAAA-TATTAAAATTT
1 ATAAAAATTATAAAAATTT
*
71006150 ATTAAAAATTATAAAAATCGT
1 A-TAAAAATTATAAAAAT-TT
*
71006171 AAAAAAATTATAAAA
1 ATAAAAATTATAAAA
71006186 TATATCGAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 1 0.03
19 6 0.20
20 21 0.70
21 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
ATAAAAATTATAAAAATTT
Found at i:71006253 original size:20 final size:20
Alignment explanation
Indices: 71006230--71006281 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
71006220 ATAAAATCAT
71006230 AAGAAAATTATAAAA-ATGTA
1 AAGAAAA-TATAAAATATGTA
*
71006250 AAG-AAATATAAAATTTGTA
1 AAGAAAATATAAAATATGTA
*
71006269 AAAAAAATATAAA
1 AAGAAAATATAAA
71006282 TTATCGTAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 7 0.25
19 9 0.32
20 12 0.43
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.25
Consensus pattern (20 bp):
AAGAAAATATAAAATATGTA
Found at i:71006454 original size:19 final size:18
Alignment explanation
Indices: 71006432--71006494 Score: 72
Period size: 19 Copynumber: 3.3 Consensus size: 18
71006422 TTTTGATGCA
71006432 TTTTATAATTTTTTATGAT
1 TTTTATAATTTTTTAT-AT
* * *
71006451 TTTTTTAAATTTTTAAATT
1 TTTTATAATTTTTTATA-T
71006470 TTTTATAATTCTTTTATAT
1 TTTTATAATT-TTTTATAT
71006489 TTTTAT
1 TTTTAT
71006495 TTTTATAATT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 1 0.03
19 29 0.81
20 6 0.17
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTATAATTTTTTATAT
Found at i:71006471 original size:7 final size:8
Alignment explanation
Indices: 71006452--71006524 Score: 53
Period size: 9 Copynumber: 8.6 Consensus size: 8
71006442 TTTTATGATT
71006452 TTTTTAAA
1 TTTTTAAA
71006460 TTTTTAAA
1 TTTTTAAA
71006468 TTTTTTATAA
1 -TTTTTA-AA
*
71006478 TTCTTTTATA
1 -T-TTTTAAA
71006488 TTTTT--A
1 TTTTTAAA
71006494 TTTTTATAA
1 TTTTTA-AA
71006503 TTTTT-AA
1 TTTTTAAA
71006510 TGTTTTAATA
1 T-TTTTAA-A
71006520 TTTTT
1 TTTTT
71006525 TATTAAAATT
Statistics
Matches: 55, Mismatches: 1, Indels: 17
0.75 0.01 0.23
Matches are distributed among these distances:
6 6 0.11
7 3 0.05
8 16 0.29
9 18 0.33
10 7 0.13
11 5 0.09
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.70
Consensus pattern (8 bp):
TTTTTAAA
Found at i:71006486 original size:11 final size:10
Alignment explanation
Indices: 71006432--71006492 Score: 74
Period size: 10 Copynumber: 6.3 Consensus size: 10
71006422 TTTTGATGCA
71006432 TTTTATAATT
1 TTTTATAATT
*
71006442 TTTTATGATT
1 TTTTATAATT
*
71006452 TTTT-TAAAT
1 TTTTATAATT
71006461 TTTTA-AATT
1 TTTTATAATT
71006470 TTTTATAATT
1 TTTTATAATT
71006480 CTTTTAT-ATT
1 -TTTTATAATT
71006490 TTT
1 TTT
71006493 ATTTTTATAA
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
9 18 0.41
10 20 0.45
11 6 0.14
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.70
Consensus pattern (10 bp):
TTTTATAATT
Found at i:71006896 original size:84 final size:83
Alignment explanation
Indices: 71006738--71006895 Score: 212
Period size: 83 Copynumber: 1.9 Consensus size: 83
71006728 AAAATAGGGA
* * **
71006738 CTTAATTTTTTTTTTAATTTTGAGGGCCTTTATGATAAATTTTGAAAGTTCAAGTACCCAATTTT
1 CTTAATTTTTTTTTTAAATTTGAGGGCCTTTATGATAAATTTTGAAAATTCAAGTACCCAATTGA
*
71006803 GTGCAAAAAATGCAGGAG
66 ATGCAAAAAATGCAGGAG
** *
71006821 CTTAATTTTTTTTTTTAAATTTGAGGGCCTTT-TGATGCATTTT-AAATATTCAAGTACCTAATT
1 CTTAA-TTTTTTTTTTAAATTTGAGGGCCTTTATGATAAATTTTGAAA-ATTCAAGTACCCAATT
71006884 GAATGCAAAAAA
64 GAATGCAAAAAA
71006896 AAATACAGAC
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
82 3 0.05
83 37 0.57
84 25 0.38
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (83 bp):
CTTAATTTTTTTTTTAAATTTGAGGGCCTTTATGATAAATTTTGAAAATTCAAGTACCCAATTGA
ATGCAAAAAATGCAGGAG
Found at i:71006909 original size:84 final size:85
Alignment explanation
Indices: 71006699--71006918 Score: 209
Period size: 84 Copynumber: 2.6 Consensus size: 85
71006689 TTGACAGTTT
* * *
71006699 AAGTACCCAATTGAGTGCAAAAAAAAAATAAAATAGGGACTTAA-TTTTTTTTTTAATTTTGAGG
1 AAGTACCCAATTGAATGC-AAAAAAAAAT---ACA--GACTTAATTTTTTTTTTTAAATTTGAGG
*
71006763 GCCTTTATGATAAATTTTGAAAGTTC
60 GCCTTTATGATAAATTTTGAAAATTC
*** *
71006789 AAGTACCCAATTTTGTGC---AAAAAATGCAGGAGCTTAATTTTTTTTTTTAAATTTGAGGGCCT
1 AAGTACCCAATTGAATGCAAAAAAAAATACA-GA-CTTAATTTTTTTTTTTAAATTTGAGGGCCT
**
71006851 TT-TGATGCATTTT-AAATATTC
64 TTATGATAAATTTTGAAA-ATTC
* *
71006872 AAGTACCTAATTGAATGCAAAAAAAAATACAGACTTAATTATTTTTT
1 AAGTACCCAATTGAATGCAAAAAAAAATACAGACTTAATTTTTTTTT
71006919 AAAAAATTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
82 6 0.05
83 32 0.29
84 38 0.35
85 2 0.02
86 16 0.15
90 16 0.15
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (85 bp):
AAGTACCCAATTGAATGCAAAAAAAAATACAGACTTAATTTTTTTTTTTAAATTTGAGGGCCTTT
ATGATAAATTTTGAAAATTC
Found at i:71006917 original size:83 final size:84
Alignment explanation
Indices: 71006699--71006918 Score: 207
Period size: 83 Copynumber: 2.6 Consensus size: 84
71006689 TTGACAGTTT
* * *
71006699 AAGTACCCAATTGAGTGCAAAAAAAAAATAAAATAGGGACTTAATTTTTTTTTTAATTTTGAGGG
1 AAGTACCCAATTGAATGC-AAAAAAAAAT---ACA--GACTTAATTTTTTTTTTAAATTTGAGGG
*
71006764 CCTTTATGATAAATTTTGAAAGTTC
60 CCTTTATGATAAATTTTGAAAATTC
*** *
71006789 AAGTACCCAATTTTGTGC---AAAAAATGCAGGAGCTTAATTTTTTTTTTTAAATTTGAGGGCCT
1 AAGTACCCAATTGAATGCAAAAAAAAATACA-GA-CTTAA-TTTTTTTTTTAAATTTGAGGGCCT
**
71006851 TT-TGATGCATTTT-AAATATTC
63 TTATGATAAATTTTGAAA-ATTC
* *
71006872 AAGTACCTAATTGAATGCAAAAAAAAATACAGACTTAATTATTTTTT
1 AAGTACCCAATTGAATGCAAAAAAAAATACAGACTTAATTTTTTTTT
71006919 AAAAAATTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 19
0.77 0.10 0.13
Matches are distributed among these distances:
82 6 0.05
83 40 0.36
84 30 0.27
85 2 0.02
86 16 0.15
90 16 0.15
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (84 bp):
AAGTACCCAATTGAATGCAAAAAAAAATACAGACTTAATTTTTTTTTTAAATTTGAGGGCCTTTA
TGATAAATTTTGAAAATTC
Found at i:71015680 original size:30 final size:30
Alignment explanation
Indices: 71015572--71015687 Score: 133
Period size: 30 Copynumber: 3.9 Consensus size: 30
71015562 GGAATTTTAC
* * *
71015572 ATCCTATTATAATGTTAGTTTGTGTGAGAA
1 ATCCTATTATAATGTCAGCTTGTGTGAGCA
* * * *
71015602 ATCTTATTGTAATATCAGTTTGTGTGAGCA
1 ATCCTATTATAATGTCAGCTTGTGTGAGCA
** *
71015632 AAACTATTATAATGTCAGCTTATGTGAGCA
1 ATCCTATTATAATGTCAGCTTGTGTGAGCA
*
71015662 ATCCTATTATAATGTCAGCCTGTGTG
1 ATCCTATTATAATGTCAGCTTGTGTG
71015688 TCCCAGTTCG
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
30 70 1.00
ACGTcount: A:0.29, C:0.12, G:0.19, T:0.40
Consensus pattern (30 bp):
ATCCTATTATAATGTCAGCTTGTGTGAGCA
Found at i:71016476 original size:41 final size:42
Alignment explanation
Indices: 71016428--71016551 Score: 128
Period size: 41 Copynumber: 3.0 Consensus size: 42
71016418 TTTTTGAAAA
*
71016428 TTCTAAATTTTTTATAATTTTTAAAAATTCTATATTT-TATT
1 TTCTAAATTTTTTATAATTTTTAAAAATTATATATTTCTATT
* * *
71016469 TTCTAAATGATTTTAT-ATTTTTAAAAA-AATATTTTTCTATT
1 TTCTAAAT-TTTTTATAATTTTTAAAAATTATATATTTCTATT
* ** * *
71016510 TTTTTCATTTTTTATAATTTTTCAAAATTTTATAATTTCTAT
1 TTCTAAATTTTTTATAATTTTTAAAAATTATAT-ATTTCTAT
71016552 AATTTTTATA
Statistics
Matches: 66, Mismatches: 12, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
40 12 0.18
41 38 0.58
42 9 0.14
43 7 0.11
ACGTcount: A:0.33, C:0.06, G:0.01, T:0.60
Consensus pattern (42 bp):
TTCTAAATTTTTTATAATTTTTAAAAATTATATATTTCTATT
Found at i:71016530 original size:9 final size:9
Alignment explanation
Indices: 71016518--71016562 Score: 56
Period size: 9 Copynumber: 5.0 Consensus size: 9
71016508 TTTTTTTCAT
71016518 TTTTTATAA
1 TTTTTATAA
71016527 TTTTTCA-AA
1 TTTTT-ATAA
*
71016536 ATTTTATAA
1 TTTTTATAA
*
71016545 TTTCTATAA
1 TTTTTATAA
71016554 TTTTTATAA
1 TTTTTATAA
71016563 ATTCTATTGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
8 1 0.03
9 28 0.93
10 1 0.03
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:71016558 original size:18 final size:18
Alignment explanation
Indices: 71016518--71016569 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
71016508 TTTTTTTCAT
*
71016518 TTTTTATAATTTTTCA-AA
1 TTTTTATAATTTCT-ATAA
*
71016536 ATTTTATAATTTCTATAA
1 TTTTTATAATTTCTATAA
*
71016554 TTTTTATAAATTCTAT
1 TTTTTATAATTTCTAT
71016570 TGTTTTTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
17 1 0.03
18 28 0.97
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTTATAATTTCTATAA
Found at i:71028087 original size:46 final size:46
Alignment explanation
Indices: 71028035--71028308 Score: 361
Period size: 46 Copynumber: 6.0 Consensus size: 46
71028025 GCTTTCTGAA
** *
71028035 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * *
71028081 ATGAAATGTGTATGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
71028127 ATGAAATGAACAAGACGATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * *
71028173 GA-AAAATAAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAC
1 -ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
*
71028219 ATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * * * *
71028265 AGGAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATG
71028309 TCAAAGATAA
Statistics
Matches: 201, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
45 1 0.00
46 199 0.99
47 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:71028192 original size:92 final size:92
Alignment explanation
Indices: 71028046--71028303 Score: 401
Period size: 92 Copynumber: 2.8 Consensus size: 92
71028036 TGAAATGTGT
* * * *
71028046 AAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTATGACCATGGTTGAAAGAT
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGAT
71028111 ACCATGGCAACGTGACATGAAATGAAC
66 ACCATGGCAACGTGACATGAAATGAAC
* * * *
71028138 AAGACGATGGTTGAAAGATACCATGGCAACATGAC-GAAAAATAAATAAGACCATGGTTGAAAGA
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAG-GAAATGAGTAAGACCATGGTTGAAAGA
71028202 TACCATGGCAACGTGACATGAAATGAAC
65 TACCATGGCAACGTGACATGAAATGAAC
* *
71028230 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATAGTTGAAAGAC
1 AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGAT
*
71028295 ACTATGGCA
66 ACCATGGCA
71028304 TCATGTCAAA
Statistics
Matches: 149, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
92 148 0.99
93 1 0.01
ACGTcount: A:0.42, C:0.16, G:0.24, T:0.19
Consensus pattern (92 bp):
AAGACCATGGTTGAAAGATACCATGGCAACATGACAGGAAATGAGTAAGACCATGGTTGAAAGAT
ACCATGGCAACGTGACATGAAATGAAC
Found at i:71028293 original size:138 final size:137
Alignment explanation
Indices: 71028045--71028326 Score: 402
Period size: 138 Copynumber: 2.1 Consensus size: 137
71028035 ATGAAATGTG
* *** *
71028045 TAAGACCATGGTTGAAAGATACCATGGCAACATGATATGAAATGTGTATGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
* * * * *
71028110 TACCATGGCAACGTGACATGAAATGAACAAGACGATGGTTGAAAGATACCATGGCAACATGACGA
66 TACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGAC-A
71028175 AAAATAAA
130 AAAATAAA
*
71028183 TAAGACCATGGTTGAAAGATACCATGGCAACGTGACATGAAATGAACAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
** * * *
71028248 TACCATGGCAACATGACAGGAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATGTCAA
66 TACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGACAA
*
71028313 AGATAAA
131 AAATAAA
71028320 TAAGACC
1 TAAGACC
71028327 GTGGATGGGA
Statistics
Matches: 127, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
137 15 0.12
138 112 0.88
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.20
Consensus pattern (137 bp):
TAAGACCATGGTTGAAAGATACCATGGCAACATGACATGAAATGAACAAGACCATGGTTGAAAGA
TACCATGGCAACATGACAGGAAATGAACAAGACCATAGTTGAAAGACACCATGGCAACATGACAA
AAATAAA
Found at i:71032111 original size:17 final size:17
Alignment explanation
Indices: 71032089--71032129 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
71032079 TTTTGCTCGT
71032089 GAGGCATTAACTATCTC
1 GAGGCATTAACTATCTC
*
71032106 GAGGCATTAACTGTCTC
1 GAGGCATTAACTATCTC
*
71032123 AAGGCAT
1 GAGGCAT
71032130 AATCAATTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (17 bp):
GAGGCATTAACTATCTC
Found at i:71049076 original size:47 final size:47
Alignment explanation
Indices: 71049025--71049294 Score: 416
Period size: 47 Copynumber: 5.7 Consensus size: 47
71049015 TTAGGATTCT
* * *
71049025 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
71049072 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
71049119 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
71049166 ATGTGATGAATATGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
71049213 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
71049260 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
71049295 TCCCGAAGGG
Statistics
Matches: 207, Mismatches: 15, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 206 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:71049100 original size:25 final size:25
Alignment explanation
Indices: 71049072--71049150 Score: 65
Period size: 25 Copynumber: 3.3 Consensus size: 25
71049062 CTAATGGCCG
71049072 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
* *** ****
71049097 ATGTGAT-AAGGCCTAA-TG-GCCG
1 ATGTGATGAATGTGAAAGTGTATAT
71049119 ATGTGATGAATGTGAAAGTGTATAT
1 ATGTGATGAATGTGAAAGTGTATAT
71049144 ATGTGAT
1 ATGTGAT
71049151 AAGGCCTAAT
Statistics
Matches: 35, Mismatches: 16, Indels: 6
0.61 0.28 0.11
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 7 0.20
25 14 0.40
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (25 bp):
ATGTGATGAATGTGAAAGTGTATAT
Found at i:71060761 original size:19 final size:19
Alignment explanation
Indices: 71060734--71060800 Score: 82
Period size: 19 Copynumber: 3.4 Consensus size: 19
71060724 ATATATAAAA
71060734 TTTGTAATTTTTATAAA-TAT
1 TTTG-AATTTTTA-AAATTAT
* *
71060754 TTTGAATTTTAAAAATTAG
1 TTTGAATTTTTAAAATTAT
71060773 TTTGAATTTTTGAAAATTAT
1 TTTGAATTTTT-AAAATTAT
71060793 TTTGAATT
1 TTTGAATT
71060801 ATTTTGTAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.07
19 19 0.46
20 19 0.46
ACGTcount: A:0.36, C:0.00, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTGAATTTTTAAAATTAT
Found at i:71068871 original size:54 final size:54
Alignment explanation
Indices: 71068811--71068983 Score: 206
Period size: 54 Copynumber: 3.1 Consensus size: 54
71068801 GGATAATGTT
* * *
71068811 AATAAAATGATAATAGTAATTGTGATGCATCAATTAAATCGAATGAGTAATTAC
1 AATAAAATGATAATAGTAATTGTGGTGCATCAATTAAATTGCATGAGTAATTAC
* *
71068865 AATAAAAATTAATTAAT-GCAAAATTGTGGTGCATCAATTAAATTGCATGAGTAATTAC
1 AAT-AAAA-TGA-TAATAG--TAATTGTGGTGCATCAATTAAATTGCATGAGTAATTAC
* * *
71068923 AATAAAATGATAATAATAATTGTGGTGAATTAATTAAATTGCATG-GATAATTAC
1 AATAAAATGATAATAGTAATTGTGGTGCATCAATTAAATTGCATGAG-TAATTAC
71068977 AATAAAA
1 AATAAAA
71068984 ATTAATTAAT
Statistics
Matches: 102, Mismatches: 10, Indels: 14
0.81 0.08 0.11
Matches are distributed among these distances:
53 1 0.01
54 43 0.42
55 8 0.08
56 5 0.05
57 8 0.08
58 37 0.36
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.32
Consensus pattern (54 bp):
AATAAAATGATAATAGTAATTGTGGTGCATCAATTAAATTGCATGAGTAATTAC
Found at i:71068898 original size:58 final size:57
Alignment explanation
Indices: 71068828--71069000 Score: 230
Period size: 58 Copynumber: 3.1 Consensus size: 57
71068818 TGATAATAGT
* * *
71068828 AATTGTGATGCATCAATTAAATCGAATGAGTAATTACAATAAAAATTAATTAATGCAA
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAAATTAATTAATG-AA
*
71068886 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAAT-AAAA-TGA-TAAT-AA
1 AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAAATTAATTAATGAA
* *
71068939 TAATTGTGGTGAATTAATTAAATTGCATG-GATAATTACAATAAAAATTAATTAATGAA
1 -AATTGTGGTGCATCAATTAAATTGCATGAG-TAATTACAATAAAAATTAATTAATGAA
71068997 AATT
1 AATT
71069001 CTTTTAATTG
Statistics
Matches: 102, Mismatches: 7, Indels: 13
0.84 0.06 0.11
Matches are distributed among these distances:
53 3 0.03
54 36 0.35
55 8 0.08
56 4 0.04
57 12 0.12
58 39 0.38
ACGTcount: A:0.47, C:0.06, G:0.13, T:0.34
Consensus pattern (57 bp):
AATTGTGGTGCATCAATTAAATTGCATGAGTAATTACAATAAAAATTAATTAATGAA
Found at i:71077925 original size:18 final size:18
Alignment explanation
Indices: 71077902--71077945 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
71077892 TTCTCTTTTG
*
71077902 TTTATTTTAAAAGTATGT
1 TTTATTTTAAAAGTATAT
*
71077920 TTTATTTTAGAAGTATAT
1 TTTATTTTAAAAGTATAT
*
71077938 TTTCTTTT
1 TTTATTTT
71077946 TGGTTTTGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.02, G:0.09, T:0.61
Consensus pattern (18 bp):
TTTATTTTAAAAGTATAT
Found at i:71080004 original size:76 final size:75
Alignment explanation
Indices: 71079826--71080015 Score: 220
Period size: 75 Copynumber: 2.5 Consensus size: 75
71079816 TTATTGGTGA
* * * * *
71079826 GCAAATCTTCGTTAGTTTACCTTACTAGTGCTGGGAACATCATTATAGTCATCGATTTATCCGAC
1 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATAGTCAACGATTTATCCGAC
*
71079891 TAGCACTGGT
66 TAGCACTGGC
* * *
71079901 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATATTCAAC-AGTTTCTCTGA
1 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATAGTCAACGA-TTTATCCGA
**
71079965 CTAGTGCTGGAC
65 CTAGCACTGG-C
* * **
71079977 GCAAATCTTCGTCAGTTTATCTGACTAGTTTTGGGCACA
1 GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACA
71080016 ACCTCTATAA
Statistics
Matches: 98, Mismatches: 15, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
74 1 0.01
75 62 0.63
76 35 0.36
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.34
Consensus pattern (75 bp):
GCAAATCTTCGTCAGTTTACCTAACTAGTACTGGGCACATCATTATAGTCAACGATTTATCCGAC
TAGCACTGGC
Found at i:71080667 original size:40 final size:40
Alignment explanation
Indices: 71080612--71080691 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
71080602 ATTAAATGTT
71080612 TGGTATTGTTTGAGGTTCCTTTGAATGGCATATTGGTTAA
1 TGGTATTGTTTGAGGTTCCTTTGAATGGCATATTGGTTAA
71080652 TGGTATTGTTTGAGGTTCCTTTGAATGGCATATTGGTTAA
1 TGGTATTGTTTGAGGTTCCTTTGAATGGCATATTGGTTAA
71080692 GTATAGGGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.20, C:0.07, G:0.28, T:0.45
Consensus pattern (40 bp):
TGGTATTGTTTGAGGTTCCTTTGAATGGCATATTGGTTAA
Found at i:71083840 original size:79 final size:81
Alignment explanation
Indices: 71083738--71083922 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
71083728 GCTCCTCGTT
* *
71083738 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
71083801 GGATTTAGTAAC-TCGCA
64 GGATATAGTAACTTAGCA
* **
71083818 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
71083882 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
71083898 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71083923 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:71083922 original size:40 final size:40
Alignment explanation
Indices: 71083738--71083922 Score: 234
Period size: 40 Copynumber: 4.7 Consensus size: 40
71083728 GCTCCTCGTT
* *
71083738 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
71083778 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
71083818 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
71083857 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
71083898 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
71083923 CATCATTCAA
Statistics
Matches: 126, Mismatches: 13, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
38 2 0.02
39 32 0.25
40 80 0.63
41 12 0.10
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:71086959 original size:33 final size:33
Alignment explanation
Indices: 71086912--71086977 Score: 114
Period size: 33 Copynumber: 2.0 Consensus size: 33
71086902 ATGTAAAAAC
**
71086912 GACAACACGGGTCAACTATTCCGTAACTTTGTT
1 GACAACACAAGTCAACTATTCCGTAACTTTGTT
71086945 GACAACACAAGTCAACTATTCCGTAACTTTGTT
1 GACAACACAAGTCAACTATTCCGTAACTTTGTT
71086978 CTTTCCCCGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (33 bp):
GACAACACAAGTCAACTATTCCGTAACTTTGTT
Found at i:71096129 original size:38 final size:38
Alignment explanation
Indices: 71096087--71096159 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
71096077 ATGCAGAATA
71096087 CATATTAATGATGTTCAAACTATGACATAATTAAAACT
1 CATATTAATGATGTTCAAACTATGACATAATTAAAACT
71096125 CATATTAATGATGTTCAAACTATGACATAATTAAA
1 CATATTAATGATGTTCAAACTATGACATAATTAAA
71096160 GACACAATCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.34
Consensus pattern (38 bp):
CATATTAATGATGTTCAAACTATGACATAATTAAAACT
Found at i:71096777 original size:44 final size:44
Alignment explanation
Indices: 71096714--71096816 Score: 190
Period size: 44 Copynumber: 2.4 Consensus size: 44
71096704 AAAATCTATT
*
71096714 TCATT-CATATAGTTTGCATACTTAGGATAATTTGCATTAGGGA
1 TCATTACATTTAGTTTGCATACTTAGGATAATTTGCATTAGGGA
71096757 TCATTACATTTAGTTTGCATACTTAGGATAATTTGCATTAGGGA
1 TCATTACATTTAGTTTGCATACTTAGGATAATTTGCATTAGGGA
71096801 TCATTACATTTAGTTT
1 TCATTACATTTAGTTT
71096817 AATATATTTT
Statistics
Matches: 58, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
43 5 0.09
44 53 0.91
ACGTcount: A:0.29, C:0.12, G:0.17, T:0.43
Consensus pattern (44 bp):
TCATTACATTTAGTTTGCATACTTAGGATAATTTGCATTAGGGA
Found at i:71098693 original size:25 final size:25
Alignment explanation
Indices: 71098661--71098713 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
71098651 AAACACTCTC
*
71098661 TTGAGCCATATAACAGGAAGCTCAT
1 TTGAGCCATATAAAAGGAAGCTCAT
* *
71098686 TTGAGCCATGTAAAAGGAAGCTTAT
1 TTGAGCCATATAAAAGGAAGCTCAT
71098711 TTG
1 TTG
71098714 GGCTATAACA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.34, C:0.15, G:0.23, T:0.28
Consensus pattern (25 bp):
TTGAGCCATATAAAAGGAAGCTCAT
Found at i:71106022 original size:17 final size:17
Alignment explanation
Indices: 71106000--71106038 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
71105990 ACATTTTAAC
* *
71106000 ACAATATCTTTTTGTTT
1 ACAATATATTTCTGTTT
71106017 ACAATATATTTCTGTTT
1 ACAATATATTTCTGTTT
71106034 ACAAT
1 ACAAT
71106039 TTACCACGGC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.31, C:0.13, G:0.05, T:0.51
Consensus pattern (17 bp):
ACAATATATTTCTGTTT
Found at i:71119342 original size:25 final size:25
Alignment explanation
Indices: 71119314--71119365 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
71119304 GCTATTATCA
71119314 TATTTAATTATTTAAAATTCCAATT
1 TATTTAATTATTTAAAATTCCAATT
*
71119339 TATTTAATTATTTCAAATTCCAATT
1 TATTTAATTATTTAAAATTCCAATT
71119364 TA
1 TA
71119366 GTCCTTTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.10, G:0.00, T:0.52
Consensus pattern (25 bp):
TATTTAATTATTTAAAATTCCAATT
Found at i:71129042 original size:11 final size:12
Alignment explanation
Indices: 71129028--71129059 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
71129018 TTAGTTTCTC
71129028 CTTT-TTCTTTT
1 CTTTCTTCTTTT
71129039 CTTTCTTC-TTT
1 CTTTCTTCTTTT
71129050 CTTTCTTCTT
1 CTTTCTTCTT
71129060 ATTTCCGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 15 0.79
12 4 0.21
ACGTcount: A:0.00, C:0.25, G:0.00, T:0.75
Consensus pattern (12 bp):
CTTTCTTCTTTT
Found at i:71129435 original size:31 final size:32
Alignment explanation
Indices: 71129400--71129472 Score: 87
Period size: 31 Copynumber: 2.3 Consensus size: 32
71129390 CATTTATCAT
* * *
71129400 ATAAAAATCTTATAA-TATAATAAT-TTAATTA
1 ATAAATATCTTATAACT-TAATAATAATAAATA
*
71129431 ATAAATATCTTTTAACTTAATAATAATAAATA
1 ATAAATATCTTATAACTTAATAATAATAAATA
71129463 ATAAATATCT
1 ATAAATATCT
71129473 GCTTACCAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 20 0.56
32 16 0.44
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.41
Consensus pattern (32 bp):
ATAAATATCTTATAACTTAATAATAATAAATA
Found at i:71136714 original size:20 final size:20
Alignment explanation
Indices: 71136689--71136736 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
71136679 AGTAATTATC
*
71136689 TAAAATTAATATCTCAAAA-T
1 TAAAATTAATAACT-AAAATT
*
71136709 TAAAATGAAATAACTAAAATT
1 TAAAAT-TAATAACTAAAATT
71136730 TAAAATT
1 TAAAATT
71136737 TAAAAAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.33
Consensus pattern (20 bp):
TAAAATTAATAACTAAAATT
Found at i:71138730 original size:20 final size:19
Alignment explanation
Indices: 71138707--71138759 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
71138697 AAAATTACAA
71138707 AAAAATCTAAAATAAATTT-T
1 AAAAATCTAAAAT--ATTTAT
71138727 AAAAAT-TCAAAATATTTAT
1 AAAAATCT-AAAATATTTAT
71138746 AAAAATTCTAAAAT
1 AAAAA-TCTAAAAT
71138760 TTATATATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 4 0.14
19 7 0.24
20 17 0.59
21 1 0.03
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (19 bp):
AAAAATCTAAAATATTTAT
Found at i:71138748 original size:19 final size:18
Alignment explanation
Indices: 71138720--71138764 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
71138710 AATCTAAAAT
71138720 AAATTT-TAAAAATTCAA
1 AAATTTATAAAAATTCAA
*
71138737 AATATTTATAAAAATTCTA
1 AA-ATTTATAAAAATTCAA
71138756 AAATTTATA
1 AAATTTATA
71138765 TATTTTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 2 0.08
18 11 0.44
19 12 0.48
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTTATAAAAATTCAA
Found at i:71138767 original size:26 final size:28
Alignment explanation
Indices: 71138738--71138790 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
71138728 AAAATTCAAA
*
71138738 ATATTTAT-AAAAATTCTAAAA-TTTAT
1 ATATTTATAAAAAATTATAAAAGTTTAT
*
71138764 ATATTTTTAAAAAATTATAAAAGTTTA
1 ATATTTATAAAAAATTATAAAAGTTTA
71138791 AAAAAATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 7 0.30
27 12 0.52
28 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (28 bp):
ATATTTATAAAAAATTATAAAAGTTTAT
Found at i:71144291 original size:28 final size:28
Alignment explanation
Indices: 71144205--71144318 Score: 106
Period size: 28 Copynumber: 4.0 Consensus size: 28
71144195 TACCTGTATT
* *
71144205 TGGCCCATTAAGCCCAATCATATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
* * *
71144233 TGGCCCATTAGGCACAAATCACCTGT-TTA
1 TGGCCCATTAGGC-CCAATCACAT-TCATA
* *
71144262 T-GACCATTAGGCCCAAATCACATTTATA
1 TGGCCCATTAGGCCC-AATCACATTCATA
* *
71144290 TGGCCCGTTAGGCCCAGTCACATTCATA
1 TGGCCCATTAGGCCCAATCACATTCATA
71144318 T
1 T
71144319 TCATGCTCAC
Statistics
Matches: 68, Mismatches: 13, Indels: 10
0.75 0.14 0.11
Matches are distributed among these distances:
27 2 0.03
28 44 0.65
29 21 0.31
30 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAATCACATTCATA
Found at i:71144556 original size:8 final size:8
Alignment explanation
Indices: 71144533--71144571 Score: 60
Period size: 8 Copynumber: 4.9 Consensus size: 8
71144523 CCCAACTTTA
71144533 GGCTTTTC
1 GGCTTTTC
*
71144541 GGCATTTC
1 GGCTTTTC
*
71144549 AGCTTTTC
1 GGCTTTTC
71144557 GGCTTTTC
1 GGCTTTTC
71144565 GGCTTTT
1 GGCTTTT
71144572 GCCGATTCAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.05, C:0.23, G:0.23, T:0.49
Consensus pattern (8 bp):
GGCTTTTC
Found at i:71151493 original size:20 final size:21
Alignment explanation
Indices: 71151470--71151509 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
71151460 CCCTTGAAAT
71151470 AGGGC-ACACGCCCATGTGGA
1 AGGGCAACACGCCCATGTGGA
*
71151490 AGGGCAACACGCCCTTGTGG
1 AGGGCAACACGCCCATGTGG
71151510 TCACTAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.35, T:0.12
Consensus pattern (21 bp):
AGGGCAACACGCCCATGTGGA
Found at i:71152847 original size:48 final size:47
Alignment explanation
Indices: 71152781--71152949 Score: 171
Period size: 48 Copynumber: 3.6 Consensus size: 47
71152771 AAGCTAATGC
* * * * *
71152781 CATGTCCCAAACAGGTCTTACACTAGCTTGTCCATCGCAAGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATCTATCG-AAGGCCGATG
* ** *
71152829 CATGTCCCAGACATGTCTTACACTGGCTTAAATATCAAGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATCTATCGA-AGGCCGATG
* * * * *
71152877 CATGTCCCAGACACGTCTTACACTGGC-TCTCATATTG-TGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTATC-TATCGAAGGCCGATG
71152923 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
71152950 ACACATATCA
Statistics
Matches: 101, Mismatches: 18, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 33 0.33
47 2 0.02
48 66 0.65
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (47 bp):
CATGTCCCAGACATGTCTTACACTAGCTTATCTATCGAAGGCCGATG
Found at i:71152941 original size:46 final size:47
Alignment explanation
Indices: 71152820--71152946 Score: 177
Period size: 48 Copynumber: 2.7 Consensus size: 47
71152810 GTCCATCGCA
*
71152820 AGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCAAG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATAT-AAG
* * *
71152868 AGGCCGATGCATGTCCCAGACACGTCTTACACTGGCTCT-CATAT-TG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCT-TAAATATAAG
*
71152914 TGGCCGATGCATGTCCCAGACATGTCTTACACT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACT
71152947 AGCACACATA
Statistics
Matches: 72, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
46 32 0.44
48 39 0.54
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (47 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATAAG
Found at i:71152957 original size:46 final size:47
Alignment explanation
Indices: 71152820--71152957 Score: 179
Period size: 46 Copynumber: 2.9 Consensus size: 47
71152810 GTCCATCGCA
* * *
71152820 AGGCTGATGCATGTCCCAGACATGTCTTACACTGGCTTAAATATCAAG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATAT-AAG
* * *
71152868 AGGCCGATGCATGTCCCAGACACGTCTTACACTGGCTCTCATAT-TG
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATATAAG
* * *
71152914 TGGCCGATGCATGTCCCAGACATGTCTTACACTAGCACACATAT
1 AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATAT
71152958 CACCCAATAT
Statistics
Matches: 79, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
46 40 0.51
48 39 0.49
ACGTcount: A:0.26, C:0.28, G:0.20, T:0.26
Consensus pattern (47 bp):
AGGCCGATGCATGTCCCAGACATGTCTTACACTGGCTCACATATAAG
Found at i:71155156 original size:67 final size:69
Alignment explanation
Indices: 71155001--71155244 Score: 221
Period size: 68 Copynumber: 3.6 Consensus size: 69
71154991 TTGTCCAAGT
* * * * * *
71155001 GGACTCCATATGTTGCCATAGTCAAGCTACGGGCTTACACAATGTAACCCCATGTTTACTGTCCT
1 GGACTCCATATATTACCATAGTCAAGCTATGGTCTTACACAATGTAACACCATGATTACTGTCCT
71155066 GGCA
66 GGCA
* * * * *
71155070 -GACTCCATATTTTTA-CATAGTTAAGCCATGGTCTTACACAATGTAATACCAT-ATTATTGTCC
1 GGACTCCATA-TATTACCATAGTCAAGCTATGGTCTTACACAATGTAACACCATGATTACTGTCC
71155132 TGG-A
65 TGGCA
* * * **
71155136 GGACTCCATATATTACCATAG-CAGAGCTATGATCTTACACAATGTAACCCCATGTTTTTTGTCC
1 GGACTCCATATATTACCATAGTCA-AGCTATGGTCTTACACAATGTAACACCATGATTACTGTCC
*
71155200 TAGC-
65 TGGCA
* * * * * *
71155204 GGACTCTATATGTTGCTATAGCCGAGCTATGGTCTTACACA
1 GGACTCCATATATTACCATAGTCAAGCTATGGTCTTACACA
71155245 TTAAACCCCT
Statistics
Matches: 143, Mismatches: 25, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
66 6 0.04
67 50 0.35
68 83 0.58
69 4 0.03
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (69 bp):
GGACTCCATATATTACCATAGTCAAGCTATGGTCTTACACAATGTAACACCATGATTACTGTCCT
GGCA
Found at i:71155236 original size:135 final size:135
Alignment explanation
Indices: 71155001--71155244 Score: 312
Period size: 135 Copynumber: 1.8 Consensus size: 135
71154991 TTGTCCAAGT
* * *
71155001 GGACTCCATATGTTGCCATAGTCAAGCTACGGGCTTACACAATGTAACCCCATGTTTACTGTCCT
1 GGACTCCATATATTACCATAGTCAAGCTACGAGCTTACACAATGTAACCCCATGTTTACTGTCCT
* * **
71155066 GGCAGACTCCATATTTTTACATAGTTAAGCCATGGTCTTACACAATGTAATACCATATTATTGTC
66 AGCAGACTCCATATTGTTACATAGCCAAGCCATGGTCTTACACAATGTAATACCATATTATTGTC
71155131 CTGGA
131 CTGGA
* * **
71155136 GGACTCCATATATTACCATAG-CAGAGCTATGATCTTACACAATGTAACCCCATGTTTTTTGTCC
1 GGACTCCATATATTACCATAGTCA-AGCTACGAGCTTACACAATGTAACCCCATGTTTACTGTCC
* * * * *
71155200 TAGCGGACTCTATA-TGTTGCTATAGCCGAGCTATGGTCTTACACA
65 TAGCAGACTCCATATTGTTAC-ATAGCCAAGCCATGGTCTTACACA
71155245 TTAAACCCCT
Statistics
Matches: 91, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
134 6 0.07
135 85 0.93
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.32
Consensus pattern (135 bp):
GGACTCCATATATTACCATAGTCAAGCTACGAGCTTACACAATGTAACCCCATGTTTACTGTCCT
AGCAGACTCCATATTGTTACATAGCCAAGCCATGGTCTTACACAATGTAATACCATATTATTGTC
CTGGA
Found at i:71160056 original size:27 final size:28
Alignment explanation
Indices: 71159995--71160073 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 28
71159985 AAAATAACTG
* *
71159995 AAATACCCTCAAAGGGTAAAATGA-TCA
1 AAATACCCCCATAGGGTAAAATGACTCA
**
71160022 AAATACCCCCATAGGGTAAAATGACTTT
1 AAATACCCCCATAGGGTAAAATGACTCA
***
71160050 AAA-ACCCTTGTAGGGTAAAATGAC
1 AAATACCCCCATAGGGTAAAATGAC
71160074 GGTTTTGGCC
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 40 0.91
28 4 0.09
ACGTcount: A:0.43, C:0.19, G:0.16, T:0.22
Consensus pattern (28 bp):
AAATACCCCCATAGGGTAAAATGACTCA
Found at i:71160096 original size:27 final size:27
Alignment explanation
Indices: 71160063--71160306 Score: 222
Period size: 27 Copynumber: 9.0 Consensus size: 27
71160053 ACCCTTGTAG
** *
71160063 GGTAAAATGACGGTTTTGGCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
*
71160090 GGCAAAATGACTATTTTGCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* *
71160117 GGCAAAATGACTATTTTTCCCTTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* * * *
71160144 GTTAAATTGACGATTTTGCCCTTGTGT
1 GGTAAAATGACTATTTTGCCCTTATGT
* *
71160171 GTTAAAATGA-TGATTTTTCCCTTATGT
1 GGTAAAATGACT-ATTTTGCCCTTATGT
* * *
71160198 GATAAAATGACTGTTTTGCCATTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
** * * *
71160225 GACAAAAAGACTATTTTGCCATTATAT
1 GGTAAAATGACTATTTTGCCCTTATGT
** * *
71160252 GGTAAAATGACTGA-AATGCCCCTACGT
1 GGTAAAATGACT-ATTTTGCCCTTATGT
* *
71160279 GGTAAATTGACTATTTTGCCCCTATGT
1 GGTAAAATGACTATTTTGCCCTTATGT
71160306 G
1 G
71160307 ATGTATGTTT
Statistics
Matches: 177, Mismatches: 36, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 1 0.01
27 174 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (27 bp):
GGTAAAATGACTATTTTGCCCTTATGT
Found at i:71162573 original size:17 final size:18
Alignment explanation
Indices: 71162535--71162573 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
71162525 GGTTTTGAGG
71162535 TTTTGCTCTTCAATTCAT
1 TTTTGCTCTTCAATTCAT
*
71162553 TTTTGGCTCTTC-TTTCAT
1 TTTT-GCTCTTCAATTCAT
71162571 TTT
1 TTT
71162574 ATTTTCTATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.10, C:0.21, G:0.08, T:0.62
Consensus pattern (18 bp):
TTTTGCTCTTCAATTCAT
Found at i:71165017 original size:40 final size:40
Alignment explanation
Indices: 71164936--71165156 Score: 322
Period size: 40 Copynumber: 5.6 Consensus size: 40
71164926 AAACCAAGTA
** * *
71164936 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
*
71164975 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
71165015 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAATTG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
*
71165055 CCTTCGGGACTTGGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * *
71165095 CCTTTGGGACTTGGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
71165135 CCTTCGGG-CTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
71165157 CAATCCGAAT
Statistics
Matches: 168, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
39 25 0.15
40 143 0.85
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:71174342 original size:39 final size:41
Alignment explanation
Indices: 71174271--71174410 Score: 128
Period size: 40 Copynumber: 3.5 Consensus size: 41
71174261 CTCGTTCAAG
* * * *
71174271 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * *
71174310 TGCCTTCGGGACTTAACCCGGATTTTA-AAACTCGCACGAT
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
* * * * *
71174350 TGCCTTCGGGACTTAACCCGGAAT-TAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
*
71174390 GGCCTTCGGG-CTTAACCCGGA
1 TGCCTTCGGGACTTAACCCGGA
71174411 ATTAATAACT
Statistics
Matches: 85, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 39 0.46
40 46 0.54
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (41 bp):
TGCCTTCGGGACTTAACCCGGATTATAGAAACTCACACGAA
Found at i:71174370 original size:79 final size:79
Alignment explanation
Indices: 71174271--71174425 Score: 190
Period size: 79 Copynumber: 2.0 Consensus size: 79
71174261 CTCGTTCAAG
* * * * *
71174271 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AATGCCTTCGGGACTTAACCCGGATT
1 TGCCTTCGGGACATAACCCGGAAT-TAGTAACTCACACAAAGGCCTTCGGG-CTTAACCCGGA-A
71174334 TTAA-AACTCGCACGAT
63 TTAATAACTCGCACGAT
* * *
71174350 TGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACAAAGGCCTTCGGGCTTAACCCGGAATTA
1 TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGCTTAACCCGGAATTA
71174415 ATAACTCGCAC
66 ATAACTCGCAC
71174426 AAATGCTTCG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
78 4 0.06
79 49 0.75
80 12 0.18
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
TGCCTTCGGGACATAACCCGGAATTAGTAACTCACACAAAGGCCTTCGGGCTTAACCCGGAATTA
ATAACTCGCACGAT
Found at i:71174423 original size:39 final size:40
Alignment explanation
Indices: 71174308--71174436 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
71174298 TAACTCATAC
* *
71174308 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* * *
71174348 ATTGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
71174388 AAGGCCTTCGGG-CTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
71174427 AATG-CTTCGG
1 AATGCCTTCGG
71174437 ATCTTAGTCC
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
38 6 0.08
39 31 0.40
40 41 0.53
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:71198920 original size:79 final size:80
Alignment explanation
Indices: 71198776--71198993 Score: 248
Period size: 79 Copynumber: 2.7 Consensus size: 80
71198766 GAATCACGTA
* * * ** * *
71198776 CCTTCGGAATTTAACCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGG-TTATAG
1 CCTTCGGGACTTAACCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAG
71198840 TAACTCGCACAAATG
66 TAACTCGCACAAATG
* *
71198855 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCGGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATA
71198918 GTAACTCGCACAAATG
65 GTAACTCGCACAAATG
* * * *
71198934 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAT-CATTCGGGACTTAGCCCGGA
1 CCTTCGGGA-CTTA-ACCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
71198994 CATCATTCGA
Statistics
Matches: 118, Mismatches: 15, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
78 3 0.03
79 67 0.57
80 48 0.41
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (80 bp):
CCTTCGGGACTTAACCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATATAG
TAACTCGCACAAATG
Found at i:71198993 original size:40 final size:40
Alignment explanation
Indices: 71198790--71198993 Score: 245
Period size: 40 Copynumber: 5.1 Consensus size: 40
71198780 CGGAATTTAA
* ** *
71198790 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71198830 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
71198870 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71198909 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
71198949 CCGGATATAGTCACTTAGCACAAAT-CATTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
71198989 CCGGA
1 CCGGA
71198994 CATCATTCGA
Statistics
Matches: 141, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
38 2 0.01
39 32 0.23
40 94 0.67
41 13 0.09
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:71206850 original size:40 final size:40
Alignment explanation
Indices: 71206795--71206997 Score: 209
Period size: 40 Copynumber: 5.1 Consensus size: 40
71206785 CGGAATTTAA
* * ** *
71206795 CCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71206835 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
71206875 CCGGATT-TAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
71206914 CCAG-AATTAGTAACTCGCACAGATGCCTTC-GGATCTTAGT
1 CCGGTTA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
71206954 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGTTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
71206994 CCGG
1 CCGG
71206998 ACATCATTCG
Statistics
Matches: 136, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
38 2 0.01
39 29 0.21
40 92 0.68
41 13 0.10
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:71206925 original size:79 final size:79
Alignment explanation
Indices: 71206781--71206996 Score: 224
Period size: 79 Copynumber: 2.7 Consensus size: 79
71206771 GAATCAAGTA
* * * ** * * **
71206781 CCTTCGGAATTTAACCGGATATAGCAACTCGTTCAAATGCCTTCGGGACATAGCCCGGTTATAGT
1 CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGAATATAGT
71206846 AACTCGCACAAATG
66 AACTCGCACAAATG
*
71206860 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGCCCAGAAT-TA
1 CCTTCGGGACTTAA-CCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCC-GAATATA
*
71206923 GTAACTCGCACAGATG
64 GTAACTCGCACAAATG
* * * *
71206939 CCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCCG
1 CCTTCGGGA-CTTA-ACCGGATATAGTAAC-TCGCACCAATGCCTTCGGGACTTAGCCCG
71206997 GACATCATTC
Statistics
Matches: 115, Mismatches: 16, Indels: 12
0.80 0.11 0.08
Matches are distributed among these distances:
78 3 0.03
79 70 0.61
80 42 0.37
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CCTTCGGGACTTAACCGGATATAGTAACTCGCACCAATGCCTTCGGGACTTAGCCCGAATATAGT
AACTCGCACAAATG
Found at i:71213043 original size:43 final size:44
Alignment explanation
Indices: 71212923--71213045 Score: 137
Period size: 44 Copynumber: 2.8 Consensus size: 44
71212913 ACATAGGATT
*
71212923 TCGATATGTGATT-GGTGTAAGACCACGTCTGGGAC-GTTGGCA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACAGTTGGCA
* * * *
71212965 TCGATTTTTAATTTACGTGTAAGACC-CTGTGTGGGACAG-TGGCA
1 TCGATATGTGA-TTACGTGTAAGACCAC-GTCTGGGACAGTTGGCA
* *
71213009 TCGATATGTGATTACATGTAAGACCACATCTGGGACA
1 TCGATATGTGATTACGTGTAAGACCACGTCTGGGACA
71213046 TTCGTGTTAT
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
42 8 0.12
43 24 0.37
44 32 0.49
45 1 0.02
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (44 bp):
TCGATATGTGATTACGTGTAAGACCACGTCTGGGACAGTTGGCA
Found at i:71214355 original size:42 final size:43
Alignment explanation
Indices: 71214272--71214420 Score: 128
Period size: 42 Copynumber: 3.5 Consensus size: 43
71214262 TCTGAGATGT
* * *
71214272 CGTATAAGACCATGTCTGGGACACCGGCCTCGAT-TGAGATTTA
1 CGTATAAGACCATGTCTGGGACACAGGCATCGATAT-TGATTTA
*
71214315 CGTATAAGACCAT-TCTGGGACATAGGCATC-ATATCTGATTTCA
1 CGTATAAGACCATGTCTGGGACACAGGCATCGATAT-TGATTT-A
* * * * *
71214358 C--ATAAAACCTTGTCTAGGACAGAGGCATCGATATTGAATTA
1 CGTATAAGACCATGTCTGGGACACAGGCATCGATATTGATTTA
* * *
71214399 CATGTAAGACCACGTCTGGGAC
1 CGTATAAGACCATGTCTGGGAC
71214421 GTCGGCATTG
Statistics
Matches: 85, Mismatches: 15, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
41 12 0.14
42 40 0.47
43 33 0.39
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.26
Consensus pattern (43 bp):
CGTATAAGACCATGTCTGGGACACAGGCATCGATATTGATTTA
Found at i:71215279 original size:64 final size:65
Alignment explanation
Indices: 71215211--71215334 Score: 146
Period size: 64 Copynumber: 1.9 Consensus size: 65
71215201 CAGTATTCTC
* **
71215211 CTAAGAATCACACGGTCT-T-GACACACGGGAGTGTCTA-TGGCCGTGGGCTAAAGTCAGTAGCT
1 CTAAGAATCACACGG-CTATAG-CACACGGGAGTGACTATTGGCCGTGGGAAAAAGTCAGTAGCT
71215273 AG
64 AG
* * * *
71215275 CTAAGTATCACATGGCTATAGCACACGGGCGTGACTATTGGCCGTGTGAAAAAGTCAGTA
1 CTAAGAATCACACGGCTATAGCACACGGGAGTGACTATTGGCCGTGGGAAAAAGTCAGTA
71215335 TTGGACCTAT
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
63 2 0.04
64 28 0.56
65 20 0.40
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (65 bp):
CTAAGAATCACACGGCTATAGCACACGGGAGTGACTATTGGCCGTGGGAAAAAGTCAGTAGCTAG
Found at i:71224042 original size:15 final size:15
Alignment explanation
Indices: 71224018--71224057 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
71224008 TGTAAATTGT
*
71224018 ATTTCCTTATCATGG
1 ATTTCTTTATCATGG
*
71224033 ATTTCTTTATCTTGG
1 ATTTCTTTATCATGG
*
71224048 AATTCTTTAT
1 ATTTCTTTAT
71224058 TCTGGGCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.20, C:0.15, G:0.10, T:0.55
Consensus pattern (15 bp):
ATTTCTTTATCATGG
Found at i:71224668 original size:21 final size:21
Alignment explanation
Indices: 71224644--71224688 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
71224634 TGAAATGATC
71224644 ATTGTTTATCTTTGAGTACAA
1 ATTGTTTATCTTTGAGTACAA
71224665 ATTGTTTATCTTTGAGTACAA
1 ATTGTTTATCTTTGAGTACAA
71224686 ATT
1 ATT
71224689 CTTGAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.09, G:0.13, T:0.49
Consensus pattern (21 bp):
ATTGTTTATCTTTGAGTACAA
Found at i:71231103 original size:25 final size:25
Alignment explanation
Indices: 71231065--71231118 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
71231055 CAGTGAGAAT
71231065 AAGATACACAGGGTCGATTTGATCA
1 AAGATACACAGGGTCGATTTGATCA
*
71231090 AAGATACACGGGGTCGATTTGATCA
1 AAGATACACAGGGTCGATTTGATCA
71231115 AAGA
1 AAGA
71231119 GACTAAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.37, C:0.15, G:0.26, T:0.22
Consensus pattern (25 bp):
AAGATACACAGGGTCGATTTGATCA
Found at i:71231534 original size:13 final size:13
Alignment explanation
Indices: 71231516--71231540 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71231506 TATATTATAT
71231516 GTGTGAAAATTTC
1 GTGTGAAAATTTC
71231529 GTGTGAAAATTT
1 GTGTGAAAATTT
71231541 TATCATTTGT
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:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:71232714 original size:44 final size:43
Alignment explanation
Indices: 71232650--71232776 Score: 145
Period size: 44 Copynumber: 3.0 Consensus size: 43
71232640 TAGGATTCCG
71232650 ATATGTGATT-CGA-GTAAGACCACGTCTGGGACGTTGGCATCA
1 ATATGTGATTAC-ATGTAAGACCACGTCTGGGACGTTGGCATCA
* * * *
71232692 ATTTGTGATTTACGTGTAAGACC-CTGTCTGGGATAG-TGGCATCG
1 ATATGTGA-TTACATGTAAGACCAC-GTCTGGGA-CGTTGGCATCA
*
71232736 ATATGTGATTACATGTAAGACCACGTCTGGGACGTTAGCAT
1 ATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCAT
71232777 TGCACGAGTT
Statistics
Matches: 70, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
42 8 0.11
43 29 0.41
44 32 0.46
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (43 bp):
ATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCATCA
Found at i:71240250 original size:52 final size:51
Alignment explanation
Indices: 71240185--71240283 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 51
71240175 ATAAATTTTT
* * *
71240185 TAAAATATGTTAGAATTTTTAAGAA-ATTATAAAAAAAATTATAAAAATACTA
1 TAAAATATATTAGAAATTCTAA-AATATTAT-AAAAAAATTATAAAAATACTA
* *
71240237 TAAAATATATTAGAAATTCTAAAATATTGTAAAAAATTTATAAAAAT
1 TAAAATATATTAGAAATTCTAAAATATTATAAAAAAATTATAAAAAT
71240284 TATCAGAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
51 18 0.44
52 23 0.56
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.35
Consensus pattern (51 bp):
TAAAATATATTAGAAATTCTAAAATATTATAAAAAAATTATAAAAATACTA
Found at i:71240854 original size:20 final size:19
Alignment explanation
Indices: 71240831--71240869 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
71240821 TTTTTATTTA
*
71240831 CAAATTAATATATTGGTCTT
1 CAAATAAATA-ATTGGTCTT
*
71240851 CAAATAAATAATTTGTCTT
1 CAAATAAATAATTGGTCTT
71240870 GGGATGGTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.10, G:0.08, T:0.44
Consensus pattern (19 bp):
CAAATAAATAATTGGTCTT
Found at i:71241143 original size:10 final size:10
Alignment explanation
Indices: 71241128--71241156 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
71241118 TTAAAAATAA
71241128 TAAATTTTAG
1 TAAATTTTAG
71241138 TAAATTTTAG
1 TAAATTTTAG
71241148 TAAATTTTA
1 TAAATTTTA
71241157 ATTTTTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (10 bp):
TAAATTTTAG
Found at i:71249851 original size:13 final size:13
Alignment explanation
Indices: 71249833--71249857 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71249823 CATACTAAAA
71249833 TAATTCATTTAAG
1 TAATTCATTTAAG
71249846 TAATTCATTTAA
1 TAATTCATTTAA
71249858 TATATTATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.04, T:0.48
Consensus pattern (13 bp):
TAATTCATTTAAG
Found at i:71250111 original size:42 final size:42
Alignment explanation
Indices: 71250050--71250163 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
71250040 GTGCTAAATG
* * * * * *
71250050 GAAACCCGTAAGGGCTAAACGGAAGTTCATAGGAGCTGAACA
1 GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTAAACA
* * **
71250092 GAAACTCATAAGGGTTAAACTGAAGCTCAAAAGAGCTAAATG
1 GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTAAACA
* *
71250134 GAAACCCATTAGGGTTAAACGGAAACTCAA
1 GAAACCCATAAGGGTTAAACGGAAGCTCAA
71250164 GTGAGTTAAC
Statistics
Matches: 58, Mismatches: 14, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.42, C:0.18, G:0.24, T:0.17
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACGGAAGCTCAAAAGAGCTAAACA
Found at i:71251637 original size:61 final size:61
Alignment explanation
Indices: 71251542--71251664 Score: 237
Period size: 61 Copynumber: 2.0 Consensus size: 61
71251532 TCAGTTTATG
71251542 AATTTATTCACTTGTGACGTTCATAGTGTGACATACCTTAATCCTGAGTGCATGATGAACT
1 AATTTATTCACTTGTGACGTTCATAGTGTGACATACCTTAATCCTGAGTGCATGATGAACT
*
71251603 AATTTATTCACTTGTGACGTTCATAGTGTGACATACCTTAATCCTGAGTGGATGATGAACT
1 AATTTATTCACTTGTGACGTTCATAGTGTGACATACCTTAATCCTGAGTGCATGATGAACT
71251664 A
1 A
71251665 TGTATGTGTG
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (61 bp):
AATTTATTCACTTGTGACGTTCATAGTGTGACATACCTTAATCCTGAGTGCATGATGAACT
Found at i:71254677 original size:27 final size:27
Alignment explanation
Indices: 71254637--71254711 Score: 87
Period size: 27 Copynumber: 2.8 Consensus size: 27
71254627 TTACCTAGAC
* ** * *
71254637 CCCTTATGTCGTAAAATGGTTGTTTTT
1 CCCTTATGTGGTAAAATGACTGTCTTG
*
71254664 CCTTTATGTGGTAAAATGACTGTCTTG
1 CCCTTATGTGGTAAAATGACTGTCTTG
*
71254691 CCCTTATGTGGTGAAATGACT
1 CCCTTATGTGGTAAAATGACT
71254712 ATTTTTGTAA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.41
Consensus pattern (27 bp):
CCCTTATGTGGTAAAATGACTGTCTTG
Found at i:71257053 original size:50 final size:47
Alignment explanation
Indices: 71256889--71257208 Score: 178
Period size: 46 Copynumber: 6.7 Consensus size: 47
71256879 GGTATAATGT
* * **
71256889 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCATCCATCAAGT--
1 CGATGCTATGTCCCAGACAT-GTCTTACACTAGCTTCA--CATCTCGTGC
* * * **
71256936 CGATGCCATGTACCAGACATGGTCTTACACT-GACTATCGAAATCGAG-GC
1 CGATGCTATGTCCCAGACAT-GTCTTACACTAG-CT-TC-ACATCTCGTGC
* * * *
71256985 CGACGCAACGTCCCAGACATTGTCTTACACTAGCTCTCACATATCCGTGC
1 CGATGCTATGTCCCAGACA-TGTCTTACACTAGCT-TCACATCT-CGTGC
* * *
71257035 CGATGCTATGTCCCAGACATGGTCTTACA-TTG--ACACATCTCATAGC
1 CGATGCTATGTCCCAGACAT-GTCTTACACTAGCTTCACATCTCGT-GC
* *
71257081 CGATG-TATGTCCCAAACATGTCTTACACTAGCTT-ACATCTCGAGGC
1 CGATGCTATGTCCCAGACATGTCTTACACTAGCTTCACATCTCG-TGC
* * * * *
71257127 CGATGC-ATTTCCCAGACATGTCTTACACTAGC-ACTCGTCTCAATGC
1 CGATGCTATGTCCCAGACATGTCTTACACTAGCTTCACATCTC-GTGC
* * * *
71257173 CGAAGCCATATCCCAGATATGGTCTTACACTAGCTT
1 CGATGCTATGTCCCAGACAT-GTCTTACACTAGCTT
71257209 ACAATAACCC
Statistics
Matches: 216, Mismatches: 35, Indels: 42
0.74 0.12 0.14
Matches are distributed among these distances:
44 8 0.04
45 17 0.08
46 64 0.30
47 42 0.19
48 21 0.10
49 35 0.16
50 29 0.13
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
CGATGCTATGTCCCAGACATGTCTTACACTAGCTTCACATCTCGTGC
Found at i:71258078 original size:27 final size:27
Alignment explanation
Indices: 71258047--71258352 Score: 394
Period size: 27 Copynumber: 11.6 Consensus size: 27
71258037 GCTGTTACAA
*
71258047 TTTTGCCCTTATGTGGTGAAATGATTG
1 TTTTGCCCTTATGTGGTGAAATGACTG
* * *
71258074 TTTTGTCCTTATGTGGTAAAATGATTG
1 TTTTGCCCTTATGTGGTGAAATGACTG
* * *
71258101 TTTTGCCCTTATGTGATAAAATGACTA
1 TTTTGCCCTTATGTGGTGAAATGACTG
*
71258128 TTTTGCCCTTATATGGTGAAATGACTG
1 TTTTGCCCTTATGTGGTGAAATGACTG
71258155 TTTTGCCCTTATGTGGTGAAATGACTG
1 TTTTGCCCTTATGTGGTGAAATGACTG
* * *
71258182 TTTTGTCCTTATGTGGTAAAATGATTG
1 TTTTGCCCTTATGTGGTGAAATGACTG
*
71258209 TTTTGCCCTTATGTGGTAAAATGACTG
1 TTTTGCCCTTATGTGGTGAAATGACTG
*
71258236 TTTTGCCCTTATGTGGTGAAATGACTA
1 TTTTGCCCTTATGTGGTGAAATGACTG
* *
71258263 TTTTTCCCTTATGT-G-G---TGACTA
1 TTTTGCCCTTATGTGGTGAAATGACTG
71258285 TTTTGCCCTTATGTGGT-AAGATGACTG
1 TTTTGCCCTTATGTGGTGAA-ATGACTG
*
71258312 TTTTGCCCTTATTTGGT-AAGATGACTG
1 TTTTGCCCTTATGTGGTGAA-ATGACTG
71258339 TTTTGCCC-TATGTG
1 TTTTGCCCTTATGTG
71258353 ATGTATATAT
Statistics
Matches: 250, Mismatches: 23, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
22 19 0.08
23 1 0.00
25 1 0.00
26 6 0.02
27 223 0.89
ACGTcount: A:0.20, C:0.14, G:0.22, T:0.44
Consensus pattern (27 bp):
TTTTGCCCTTATGTGGTGAAATGACTG
Found at i:71258285 original size:22 final size:22
Alignment explanation
Indices: 71258230--71258301 Score: 81
Period size: 22 Copynumber: 3.0 Consensus size: 22
71258220 TGTGGTAAAA
*
71258230 TGACTGTTTTGCCCTTATGTGGTG
1 TGACTATTTTGCCCTTATGT-G-G
*
71258254 AAATGACTATTTTTCCCTTATGTGG
1 ---TGACTATTTTGCCCTTATGTGG
71258279 TGACTATTTTGCCCTTATGTGG
1 TGACTATTTTGCCCTTATGTGG
71258301 T
1 T
71258302 AAGATGACTG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
22 22 0.52
25 1 0.02
26 1 0.02
27 18 0.43
ACGTcount: A:0.15, C:0.17, G:0.22, T:0.46
Consensus pattern (22 bp):
TGACTATTTTGCCCTTATGTGG
Found at i:71263801 original size:31 final size:31
Alignment explanation
Indices: 71263763--71263858 Score: 129
Period size: 31 Copynumber: 3.0 Consensus size: 31
71263753 TCATACATAT
71263763 GTATGATAAACATGCCATATTGTTTAGGGAA
1 GTATGATAAACATGCCATATTGTTTAGGGAA
*
71263794 GTATGATAAACATGCCATATAATAATTTAGGGAA
1 GTATGATAAACATGCCATAT--T-GTTTAGGGAA
* * *
71263828 GCATGATAAACATGCCATATAGTTTAAGGAA
1 GTATGATAAACATGCCATATTGTTTAGGGAA
71263859 AGAATGTCAC
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
31 28 0.49
33 1 0.02
34 28 0.49
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.29
Consensus pattern (31 bp):
GTATGATAAACATGCCATATTGTTTAGGGAA
Found at i:71263828 original size:34 final size:32
Alignment explanation
Indices: 71263763--71263848 Score: 129
Period size: 34 Copynumber: 2.7 Consensus size: 32
71263753 TCATACATAT
*
71263763 GTATGATAAACATGCCATAT-TGTTTAGGGAA
1 GTATGATAAACATGCCATATATATTTAGGGAA
71263794 GTATGATAAACATGCCATATAATAATTTAGGGAA
1 GTATGATAAACATGCCATAT-AT-ATTTAGGGAA
*
71263828 GCATGATAAACATGCCATATA
1 GTATGATAAACATGCCATATA
71263849 GTTTAAGGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
31 20 0.40
33 2 0.04
34 28 0.56
ACGTcount: A:0.41, C:0.12, G:0.19, T:0.29
Consensus pattern (32 bp):
GTATGATAAACATGCCATATATATTTAGGGAA
Found at i:71264692 original size:46 final size:46
Alignment explanation
Indices: 71264639--71264732 Score: 152
Period size: 46 Copynumber: 2.0 Consensus size: 46
71264629 AAAAAATAAG
**
71264639 ATTAAGGAGTTGCAATGTTGATTAGGAAAATTGGGATTACTGATGC
1 ATTAAGGAACTGCAATGTTGATTAGGAAAATTGGGATTACTGATGC
* *
71264685 ATTAAGGAACTGCAATGTTGATTAGGACAATTGGGATTATTGATGC
1 ATTAAGGAACTGCAATGTTGATTAGGAAAATTGGGATTACTGATGC
71264731 AT
1 AT
71264733 CTACCTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.33, C:0.07, G:0.27, T:0.33
Consensus pattern (46 bp):
ATTAAGGAACTGCAATGTTGATTAGGAAAATTGGGATTACTGATGC
Found at i:71274999 original size:35 final size:35
Alignment explanation
Indices: 71274947--71275016 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
71274937 AGTCGGAAAG
*
71274947 AATAATTTAGGTTTTAGAAGACATGTTACGGTGTT
1 AATAATTTAGGTATTAGAAGACATGTTACGGTGTT
71274982 AATAATTT-GGATATTAGAAGACATGTTACGGTGTT
1 AATAATTTAGG-TATTAGAAGACATGTTACGGTGTT
71275017 GTGTTCCCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
34 2 0.06
35 31 0.94
ACGTcount: A:0.33, C:0.06, G:0.23, T:0.39
Consensus pattern (35 bp):
AATAATTTAGGTATTAGAAGACATGTTACGGTGTT
Found at i:71276988 original size:44 final size:44
Alignment explanation
Indices: 71276938--71277027 Score: 139
Period size: 44 Copynumber: 2.0 Consensus size: 44
71276928 TTTGTGTGCT
71276938 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATATGTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGC-ACG-GATATGTG
*
71276982 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTG
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTG
71277026 AG
1 AG
71277028 AGCTAGTGTA
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
44 19 0.44
45 16 0.37
46 8 0.19
ACGTcount: A:0.27, C:0.16, G:0.33, T:0.24
Consensus pattern (44 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTG
Found at i:71277103 original size:49 final size:50
Alignment explanation
Indices: 71276982--71277163 Score: 160
Period size: 49 Copynumber: 3.7 Consensus size: 50
71276972 GAGATATGTG
* *
71276982 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATGGATATGTGAGAGCT
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCATCGATATGTGAGAGCT
* ** * * *
71277032 AGTGTAAGACCATTTCTGGGACATGATGTCGGCCTCGAT-TTTGATAG-T
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCATCGATATGTGAGAGCT
* * * * *
71277080 CAGTGTAAGACCATGTCTAGGACATGGCATCGAC-TTG--ATG-GATGAGCC
1 -AGTGTAAGACCATGTCTGGGACATGACATCGGCATCGATATGTGA-GAGCT
* * *
71277128 AGTGTAAAACCACGTCTGGGACATGGCATCGGCATC
1 AGTGTAAGACCATGTCTGGGACATGACATCGGCATC
71277164 ATACCCTATG
Statistics
Matches: 104, Mismatches: 23, Indels: 12
0.75 0.17 0.09
Matches are distributed among these distances:
46 2 0.02
47 32 0.31
48 4 0.04
49 33 0.32
50 33 0.32
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGACATCGGCATCGATATGTGAGAGCT
Found at i:71278048 original size:34 final size:34
Alignment explanation
Indices: 71278005--71278111 Score: 178
Period size: 34 Copynumber: 3.1 Consensus size: 34
71277995 GAGACATGAT
*
71278005 CAAATGCTCGTATGAGCTAATCCATCTAGCACAC
1 CAAATGCTCGTATGAGCTAATCCATCCAGCACAC
*
71278039 CAAATGCTCGTATGAGCTAATCGATCCAGCACAC
1 CAAATGCTCGTATGAGCTAATCCATCCAGCACAC
* *
71278073 CAAATGGTCGTATGAGCTAATCCATCCAACACAC
1 CAAATGCTCGTATGAGCTAATCCATCCAGCACAC
71278107 CAAAT
1 CAAAT
71278112 AACACTGTAA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 68 1.00
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (34 bp):
CAAATGCTCGTATGAGCTAATCCATCCAGCACAC
Found at i:71279338 original size:40 final size:37
Alignment explanation
Indices: 71279281--71279564 Score: 237
Period size: 40 Copynumber: 7.1 Consensus size: 37
71279271 TTGAATGATG
* * *
71279281 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACGATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGC-GAGT-ACTA-A
71279321 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACTAA
* * *
71279360 TTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAAA
1 -TCCGGACTAAGTCCGAAGGCATTTGTGCGAG-TACT-AA
71279400 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAG-TCCGAAGGCATTTGTGCGAG-TACT-AA
**
71279440 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAG-TACT-AA
**
71279480 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAG-TACTA-A
* * * **
71279520 ACCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGACTAAGT-CCGAAGGCATTTGTGCGAGTA-CTA-A
71279560 TCCGG
1 TCCGG
71279565 TTAAATTCCG
Statistics
Matches: 217, Mismatches: 18, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
39 37 0.17
40 171 0.79
41 9 0.04
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (37 bp):
TCCGGACTAAGTCCGAAGGCATTTGTGCGAGTACTAA
Found at i:71279505 original size:80 final size:80
Alignment explanation
Indices: 71279281--71279545 Score: 376
Period size: 80 Copynumber: 3.3 Consensus size: 80
71279271 TTGAATGATG
* * * *
71279281 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACGATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGACTAAGATCCGAAGGCATT
* *
71279345 TGTGCGAGATACTAAT
65 TGTGCGAGTTACTAAA
*
71279361 TCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
71279425 GTGCGAGTTACTAAA
66 GTGCGAGTTACTAAA
* **
71279440 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGAT-CCGAAGGCATT
71279504 TGTGCGAGTTACTATAA
65 TGTGCGAGTTACTA-AA
*
71279521 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71279546 AACGAGTAGC
Statistics
Matches: 168, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
79 65 0.39
80 101 0.60
81 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGTTACTAAA
Found at i:71279552 original size:80 final size:78
Alignment explanation
Indices: 71279282--71279578 Score: 332
Period size: 80 Copynumber: 3.7 Consensus size: 78
71279272 TGAATGATGT
* * * * * **
71279282 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACGATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTAC-GAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATTT
* *
71279346 GTGCGAGATACTAATT
64 GTGCGAGTTACTAA-A
**
71279362 CCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAG-TCCGAAGGCATTTG
71279426 TGCGAGTTACTAAA
65 TGCGAGTTACTAAA
* *
71279440 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 -CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGT-CCGAAGGCATTT
71279505 GTGCGAGTTACTATAA
64 GTGCGAGTTACTA-AA
* * * *
71279521 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTA-CTAAATCCGGGTT-AAGTCCGAAGG
71279579 TACGTGATTT
Statistics
Matches: 193, Mismatches: 17, Indels: 15
0.86 0.08 0.07
Matches are distributed among these distances:
79 77 0.40
80 114 0.59
81 2 0.01
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAATCCGGGTTAAGTCCGAAGGCATTTGT
GCGAGTTACTAAA
Found at i:71279552 original size:120 final size:118
Alignment explanation
Indices: 71279334--71279578 Score: 325
Period size: 120 Copynumber: 2.1 Consensus size: 118
71279324 GGACTAAGAT
*
71279334 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
** *
71279399 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTA-CTAAATCCGGGTTAAGTC
66 ATCCGGACTAAGATCCGAAGGCATTTGAACGAG-TAGCTAAATCC-GGTTAAATC
* * *
71279453 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTA
1 CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTACGAGTTACTA
* * * *
71279518 TAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAGTAGCTATATCCGGTTAAATT
65 -AATCCGGACTAAGAT-CCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
71279572 CCGAAGG
1 CCGAAGG
71279579 TACGTGATTT
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
119 52 0.47
120 57 0.51
121 2 0.02
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (118 bp):
CCGAAGGCATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTACGAGTTACTAA
ATCCGGACTAAGATCCGAAGGCATTTGAACGAGTAGCTAAATCCGGTTAAATC
Found at i:71286662 original size:40 final size:40
Alignment explanation
Indices: 71286612--71286797 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
71286602 TTGAGTGATG
* * * *
71286612 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACGATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
*
71286652 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71286692 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
71286732 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
71286773 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
71286798 AACGAGTAGC
Statistics
Matches: 133, Mismatches: 9, Indels: 8
0.89 0.06 0.05
Matches are distributed among these distances:
39 1 0.01
40 122 0.92
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:71286804 original size:80 final size:79
Alignment explanation
Indices: 71286665--71286830 Score: 228
Period size: 80 Copynumber: 2.1 Consensus size: 79
71286655 GGACTAAGAT
* **
71286665 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTA-CT
1 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAG-TAGCT
*
71286729 AAATCCGGGTTAAGTC
65 AAATCC-GGTTAAATC
*
71286745 CCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACGAGTAGCT
1 CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCT
* *
71286809 ATATCCGGTTAAATT
65 AAATCCGGTTAAATC
71286824 CCGAAGG
1 CCGAAGG
71286831 TACGTGATTT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 16 0.21
80 59 0.77
81 2 0.03
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTAGCTA
AATCCGGTTAAATC
Found at i:71291171 original size:33 final size:32
Alignment explanation
Indices: 71291129--71291203 Score: 132
Period size: 33 Copynumber: 2.3 Consensus size: 32
71291119 TCCAAAAAGT
71291129 AAGAGAAAACTTTTTGTGCTTCCTCTAAAGGG
1 AAGAGAAAACTTTTTGTGCTTCCTCTAAAGGG
71291161 AAAGAGAAAACTTTTTGTGCTTCCTCTAAAGGG
1 -AAGAGAAAACTTTTTGTGCTTCCTCTAAAGGG
*
71291194 AAGGGAAAAC
1 AAGAGAAAAC
71291204 ACACTAAAAG
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
32 9 0.22
33 32 0.78
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.27
Consensus pattern (32 bp):
AAGAGAAAACTTTTTGTGCTTCCTCTAAAGGG
Found at i:71299334 original size:93 final size:93
Alignment explanation
Indices: 71299222--71299392 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
71299212 GCCCATAAGT
*** *
71299222 GAACTCGGACTCAACTCAACGAGCTT-GGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
71299286 ACGAGCTCGGATGCCTAGTTACATCTCTC
65 ACGAGCTCGGATGCCTAGTTACATCTCTC
71299315 GAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
71299380 CGAGTTCGGATGC
66 CGAGCTCGGATGC
71299393 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:71299384 original size:46 final size:44
Alignment explanation
Indices: 71299214--71299387 Score: 179
Period size: 46 Copynumber: 3.8 Consensus size: 44
71299204 TGTAACCCGC
* *
71299214 CCATAAGTGAACTCGGACTCAACTCAACGAGCTTGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAG-TT-CGCATTCGCAT
* * *
71299260 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGCATTCGC-A--T
* *** *
71299306 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTC--GCATTCGCAT
71299353 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG
71299388 GATGCTCAAC
Statistics
Matches: 103, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 62 0.60
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGCATTCGCAT
Found at i:71299408 original size:46 final size:46
Alignment explanation
Indices: 71299219--71299408 Score: 119
Period size: 46 Copynumber: 4.1 Consensus size: 46
71299209 CCCGCCCATA
** * *
71299219 AGTGAACTCGGACTCAACTCAACGAGCTT-GGGCGTTC--GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAG-TTCGGATGCTCAACCATCC-T
*
71299264 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTTA-CATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC-CT
* ** * * * *
71299314 --CGAACTCGGACTCAACTCAACGAGTTCAAACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTC--GGATGCTCAACCATCCT
71299358 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
71299404 AGTGA
1 AGTGA
71299409 CATGTCACTT
Statistics
Matches: 110, Mismatches: 18, Indels: 32
0.69 0.11 0.20
Matches are distributed among these distances:
44 9 0.08
45 2 0.02
46 60 0.55
47 28 0.25
49 4 0.04
50 6 0.05
51 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
Found at i:71305543 original size:38 final size:38
Alignment explanation
Indices: 71305484--71305614 Score: 118
Period size: 38 Copynumber: 3.2 Consensus size: 38
71305474 TCTCAAATTA
*
71305484 ACATGTATAACCGTGGCATATCCACTTAGCACGACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* * *
71305522 ACATGTTTAACTGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* * *
71305563 GAATCGATATATGTAACAGTGGCATATCCAGTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
71305607 ACATGTAT
1 ACATGTAT
71305615 CAATATGTGT
Statistics
Matches: 74, Mismatches: 10, Indels: 18
0.73 0.10 0.18
Matches are distributed among these distances:
38 33 0.45
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 26 0.35
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:71305646 original size:48 final size:47
Alignment explanation
Indices: 71305529--71305651 Score: 167
Period size: 48 Copynumber: 2.6 Consensus size: 47
71305519 GTTACATGTT
* *
71305529 TAACTGTGGTATATCCACTTAGCACCACGTTAATGAATCGATATATG
1 TAACAGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
71305576 TAACAGTGGCATATCCAGTTAGCACCACGTTACATGTATCAATATGTG
1 TAACAGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
71305624 TAATC-GTGGTATATCCACTTAGCACCAC
1 TAA-CAGTGGTATATCCACTTAGCACCAC
71305652 ATTTTTCCAT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
47 29 0.44
48 36 0.55
49 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.30
Consensus pattern (47 bp):
TAACAGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:71306546 original size:84 final size:84
Alignment explanation
Indices: 71306405--71306569 Score: 330
Period size: 84 Copynumber: 2.0 Consensus size: 84
71306395 GGATTTCAAA
71306405 AATGCAAAGAACATTAAAAACGGGGCAAAGATGGACTTACAATCAAGCTTGGAAGTTTTAAAAAC
1 AATGCAAAGAACATTAAAAACGGGGCAAAGATGGACTTACAATCAAGCTTGGAAGTTTTAAAAAC
71306470 CCTAGCCATGTCTTCAGTC
66 CCTAGCCATGTCTTCAGTC
71306489 AATGCAAAGAACATTAAAAACGGGGCAAAGATGGACTTACAATCAAGCTTGGAAGTTTTAAAAAC
1 AATGCAAAGAACATTAAAAACGGGGCAAAGATGGACTTACAATCAAGCTTGGAAGTTTTAAAAAC
71306554 CCTAGCCATGTCTTCA
66 CCTAGCCATGTCTTCA
71306570 ATCTCCATAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 81 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.22
Consensus pattern (84 bp):
AATGCAAAGAACATTAAAAACGGGGCAAAGATGGACTTACAATCAAGCTTGGAAGTTTTAAAAAC
CCTAGCCATGTCTTCAGTC
Found at i:71311438 original size:48 final size:48
Alignment explanation
Indices: 71311312--71311439 Score: 150
Period size: 48 Copynumber: 2.7 Consensus size: 48
71311302 TAACATGAAT
* *
71311312 AACCATAGCATATCCACTTAGCACCACGTTA-ATGAATCGATATATGC
1 AACCATCGCATATCCACTTAGCACCACGTTACATGAATCAATATATGC
* * * *
71311359 AACCATCGCATATCCACTTAGCACCATGTTACATGTATCAATATGTGT
1 AACCATCGCATATCCACTTAGCACCACGTTACATGAATCAATATATGC
* * * * *
71311407 AATCGTGGTATATCCACTTAGCACTACGTTACA
1 AACCATCGCATATCCACTTAGCACCACGTTACA
71311440 CATATAACCG
Statistics
Matches: 68, Mismatches: 12, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
47 29 0.43
48 39 0.57
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.29
Consensus pattern (48 bp):
AACCATCGCATATCCACTTAGCACCACGTTACATGAATCAATATATGC
Found at i:71315858 original size:19 final size:19
Alignment explanation
Indices: 71315834--71315870 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
71315824 ATTATTTCCT
*
71315834 ACGCTAGCTACGGATGTAA
1 ACGCTAGCTACAGATGTAA
71315853 ACGCTAGCTACAGATGTA
1 ACGCTAGCTACAGATGTA
71315871 GCCTGAGTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (19 bp):
ACGCTAGCTACAGATGTAA
Found at i:71328411 original size:28 final size:29
Alignment explanation
Indices: 71328375--71328478 Score: 86
Period size: 29 Copynumber: 3.7 Consensus size: 29
71328365 GTAAGCATGA
*
71328375 ATATGAATGT-AATTGGGCCTAACAGGCC
1 ATATAAATGTGAATTGGGCCTAACAGGCC
* **
71328403 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGAATTGGGCCTAACAGGCC
* * * * **
71328432 ATATACAGGTGATTTAGGCCTAATGGGCC
1 ATATAAATGTGAATTGGGCCTAACAGGCC
* *
71328461 ATATGAATATG-ATTGGGC
1 ATATAAATGTGAATTGGGC
71328479 TTAATGGGCC
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
28 14 0.23
29 48 0.77
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.29
Consensus pattern (29 bp):
ATATAAATGTGAATTGGGCCTAACAGGCC
Found at i:71328424 original size:29 final size:29
Alignment explanation
Indices: 71328387--71328489 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 29
71328377 ATGAATGTAA
**
71328387 TTGGGCCTAACAGGCCATATAAATGTGAT
1 TTGGGCCTAATGGGCCATATAAATGTGAT
* *
71328416 TTGGGCCTAATGGGCCATATACAGGTGAT
1 TTGGGCCTAATGGGCCATATAAATGTGAT
* * *
71328445 TTAGGCCTAATGGGCCATATGAATATGA-
1 TTGGGCCTAATGGGCCATATAAATGTGAT
*
71328473 TTGGGCTTAATGGGCCA
1 TTGGGCCTAATGGGCCA
71328490 AATATAGATA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
28 15 0.24
29 48 0.76
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (29 bp):
TTGGGCCTAATGGGCCATATAAATGTGAT
Found at i:71331413 original size:7 final size:7
Alignment explanation
Indices: 71331401--71331426 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
71331391 CTTAGATGAA
71331401 TTGGGCT
1 TTGGGCT
71331408 TTGGGCT
1 TTGGGCT
71331415 TTGGGCT
1 TTGGGCT
71331422 TTGGG
1 TTGGG
71331427 TTTCATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.46, T:0.42
Consensus pattern (7 bp):
TTGGGCT
Done.