Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 235 of 311
Found at i:79303824 original size:41 final size:40
Alignment explanation
Indices: 79303768--79303852 Score: 109
Period size: 41 Copynumber: 2.1 Consensus size: 40
79303758 TAAGCCTTTA
* * *
79303768 AAACATAAACCCTAAACCATAAAAC-CCTAACCCTAACCAT
1 AAACATAAACACTAAACCATAAAACTAC-AACCATAACCAT
*
79303808 AAACACTAAACACTAAACCTTAAAACTACAACCATAACCAT
1 AAACA-TAAACACTAAACCATAAAACTACAACCATAACCAT
79303849 AAAC
1 AAAC
79303853 CCTTAGACCA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
40 5 0.13
41 33 0.85
42 1 0.03
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (40 bp):
AAACATAAACACTAAACCATAAAACTACAACCATAACCAT
Found at i:79303864 original size:21 final size:21
Alignment explanation
Indices: 79303838--79303878 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
79303828 TAAAACTACA
79303838 ACCATA-ACCATAAACCCTTAG
1 ACCATAGACCAT-AACCCTTAG
79303859 ACCATAGACCATAACCCTTA
1 ACCATAGACCATAACCCTTA
79303879 ACCCTTAACC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.41, C:0.34, G:0.05, T:0.20
Consensus pattern (21 bp):
ACCATAGACCATAACCCTTAG
Found at i:79303975 original size:26 final size:26
Alignment explanation
Indices: 79303946--79304016 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 26
79303936 CTAGACCTTA
79303946 AACACTAAACCTTAAACCCTAACTAT
1 AACACTAAACCTTAAACCCTAACTAT
* * * *
79303972 AACATTAAAACTCT-AACCGTAACTTT
1 AACACTAAACCT-TAAACCCTAACTAT
*
79303998 AAAACATAAAACCTTAAAC
1 AACAC-T-AAACCTTAAAC
79304017 TTTAAAAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
26 23 0.68
27 3 0.09
28 8 0.24
ACGTcount: A:0.49, C:0.25, G:0.01, T:0.24
Consensus pattern (26 bp):
AACACTAAACCTTAAACCCTAACTAT
Found at i:79303987 original size:20 final size:20
Alignment explanation
Indices: 79303959--79304002 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
79303949 ACTAAACCTT
*
79303959 AAACCCTAACTATAACATTA
1 AAACCCTAACCATAACATTA
* * *
79303979 AAACTCTAACCGTAACTTTA
1 AAACCCTAACCATAACATTA
79303999 AAAC
1 AAAC
79304003 ATAAAACCTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (20 bp):
AAACCCTAACCATAACATTA
Found at i:79304071 original size:7 final size:7
Alignment explanation
Indices: 79304061--79304175 Score: 53
Period size: 7 Copynumber: 16.9 Consensus size: 7
79304051 CACTAAACAC
79304061 TAAACCA
1 TAAACCA
*
79304068 TAAACTA
1 TAAACCA
*
79304075 TAAACCC
1 TAAACCA
* *
79304082 CAAACTA
1 TAAACCA
79304089 T-AACCA
1 TAAACCA
*
79304095 TTAAACTA
1 -TAAACCA
*
79304103 TAGACCA
1 TAAACCA
*
79304110 T-AACCC
1 TAAACCA
*
79304116 T-AACCT
1 TAAACCA
79304122 TAATACC-
1 TAA-ACCA
79304129 TAAACC-
1 TAAACCA
*
79304135 -CAACCA
1 TAAACCA
79304141 TAAACCA
1 TAAACCA
* *
79304148 TAGACCT
1 TAAACCA
*
79304155 TAACATCA
1 TAA-ACCA
79304163 TAAACCA
1 TAAACCA
79304170 TAAACC
1 TAAACC
79304176 CAATCTTATA
Statistics
Matches: 79, Mismatches: 22, Indels: 14
0.69 0.19 0.12
Matches are distributed among these distances:
5 4 0.05
6 16 0.20
7 47 0.59
8 12 0.15
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:79304078 original size:14 final size:14
Alignment explanation
Indices: 79304061--79304112 Score: 61
Period size: 14 Copynumber: 3.7 Consensus size: 14
79304051 CACTAAACAC
79304061 TAAACCATAAACTA
1 TAAACCATAAACTA
**
79304075 TAAACCCCAAACTA
1 TAAACCATAAACTA
79304089 T-AACCATTAAACTA
1 TAAACCA-TAAACTA
*
79304103 TAGACCATAA
1 TAAACCATAA
79304113 CCCTAACCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
13 4 0.13
14 23 0.74
15 4 0.13
ACGTcount: A:0.52, C:0.25, G:0.02, T:0.21
Consensus pattern (14 bp):
TAAACCATAAACTA
Found at i:79304692 original size:34 final size:34
Alignment explanation
Indices: 79304634--79304717 Score: 125
Period size: 34 Copynumber: 2.5 Consensus size: 34
79304624 TACAATATTA
79304634 AACCCTAAAC-CTTAAAATCATAAACCATAAACCC
1 AACCCTAAACTC-TAAAATCATAAACCATAAACCC
* * *
79304668 AACCTTAGACTCTAAAATCCTAAACCATAAACCC
1 AACCCTAAACTCTAAAATCATAAACCATAAACCC
79304702 AACCCTAAACTCTAAA
1 AACCCTAAACTCTAAA
79304718 CTAAAATCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 43 0.98
35 1 0.02
ACGTcount: A:0.48, C:0.32, G:0.01, T:0.19
Consensus pattern (34 bp):
AACCCTAAACTCTAAAATCATAAACCATAAACCC
Found at i:79304749 original size:16 final size:15
Alignment explanation
Indices: 79304728--79304780 Score: 61
Period size: 16 Copynumber: 3.4 Consensus size: 15
79304718 CTAAAATCAA
79304728 GATATACTTAGAATGG
1 GATATACTTAG-ATGG
**
79304744 GATATACCCAGATCGG
1 GATATACTTAGAT-GG
*
79304760 GATATACTTATATGG
1 GATATACTTAGATGG
79304775 GATATA
1 GATATA
79304781 AACGAACCAG
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 10 0.32
16 21 0.68
ACGTcount: A:0.36, C:0.11, G:0.23, T:0.30
Consensus pattern (15 bp):
GATATACTTAGATGG
Found at i:79305627 original size:23 final size:23
Alignment explanation
Indices: 79305577--79305628 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
79305567 AACAGAAACT
*
79305577 AAAACATAAGCATAACATTAGCC
1 AAAACCTAAGCATAACATTAGCC
* * *
79305600 CAAACCTAAGCATAATATTAGTC
1 AAAACCTAAGCATAACATTAGCC
79305623 AAAACC
1 AAAACC
79305629 GAGAACCACA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.50, C:0.23, G:0.08, T:0.19
Consensus pattern (23 bp):
AAAACCTAAGCATAACATTAGCC
Found at i:79306403 original size:34 final size:34
Alignment explanation
Indices: 79306355--79306434 Score: 108
Period size: 34 Copynumber: 2.4 Consensus size: 34
79306345 TATATGCTGA
* *
79306355 AATTTTG-AAAGTTATTAAATTTTTCTAGATACT
1 AATTTTGTTAAGTTATTAAATATTTCTAGATACT
* *
79306388 AATTTTGTTAAGTTATTAGATATTTCTAGATGCT
1 AATTTTGTTAAGTTATTAAATATTTCTAGATACT
*
79306422 AATTTTATTAAGT
1 AATTTTGTTAAGT
79306435 AAAAGTGTGA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 7 0.17
34 34 0.83
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.50
Consensus pattern (34 bp):
AATTTTGTTAAGTTATTAAATATTTCTAGATACT
Found at i:79307006 original size:72 final size:73
Alignment explanation
Indices: 79306924--79307094 Score: 188
Period size: 72 Copynumber: 2.3 Consensus size: 73
79306914 GAGGTGAGTA
* *
79306924 TTGATATTGAATTGAATTGAATT-ATGAATTATGTGAATATTTG-AAGGTATATTGATTGGAAA-
1 TTGA-ATTGAATTGAATTGAATTGA--AAATATGTGAATATTTGAAAGGTATATTGATTGAAAAG
*
79306986 TTAAAAGTGAT
63 TGAAAAGTGAT
** * *
79306997 TTGAATTGAATCAAATTGAATTGAAAATATGTGATTATTTGAAATGTATATTGATTGAAAAGTGA
1 TTGAATTGAATTGAATTGAATTGAAAATATGTGAATATTTGAAAGGTATATTGATTGAAAAGTGA
*
79307062 ATAGTGAT
66 AAAGTGAT
*
79307070 TTGAATTTG-ATTGAAAGTGAATTGA
1 TTGAA-TTGAATTG-AATTGAATTGA
79307095 GAAACTGAAC
Statistics
Matches: 82, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
71 15 0.18
72 33 0.40
73 21 0.26
74 13 0.16
ACGTcount: A:0.39, C:0.01, G:0.20, T:0.40
Consensus pattern (73 bp):
TTGAATTGAATTGAATTGAATTGAAAATATGTGAATATTTGAAAGGTATATTGATTGAAAAGTGA
AAAGTGAT
Found at i:79310012 original size:16 final size:16
Alignment explanation
Indices: 79309991--79310034 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
79309981 GTGAGTACTT
79309991 TTATAGTGAATTGAAA
1 TTATAGTGAATTGAAA
79310007 TTATAGTTG-ATTGAAA
1 TTATAG-TGAATTGAAA
*
79310023 TT-TATTGAATTG
1 TTATAGTGAATTG
79310035 GTATATACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 2 0.08
15 6 0.24
16 15 0.60
17 2 0.08
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (16 bp):
TTATAGTGAATTGAAA
Found at i:79313137 original size:56 final size:56
Alignment explanation
Indices: 79313071--79313180 Score: 148
Period size: 56 Copynumber: 2.0 Consensus size: 56
79313061 TTGCATCTTC
* * *
79313071 GATGTCTCGCACACTATGTACCATACTCGATACCTCGCACGCTAAGTGCTATTTTG
1 GATGTCTCGCACACTAAGTACCATACTCGATACCTCGCACACTAAGTGCCATTTTG
* * * * *
79313127 GATGTTTCGCACACTAAGTGCCATCCTCGATACTTTGCACACTAAGTGCCATTT
1 GATGTCTCGCACACTAAGTACCATACTCGATACCTCGCACACTAAGTGCCATTT
79313181 ATATATATAT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.31
Consensus pattern (56 bp):
GATGTCTCGCACACTAAGTACCATACTCGATACCTCGCACACTAAGTGCCATTTTG
Found at i:79314019 original size:5 final size:5
Alignment explanation
Indices: 79314009--79314034 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
79313999 CTAATTTGGC
79314009 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
79314035 ATAATTACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:79317282 original size:43 final size:43
Alignment explanation
Indices: 79317170--79317288 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 43
79317160 CAATGCGAAA
* * * *
79317170 TCCTAGATATGGTCTTACATGTTATCACATATCAATGCTACTG
1 TCCTAGACATGGTCTTACATGTAATCACATATCAATGCCAATG
* * *
79317213 TGCC-ACG-CAGGGTCTTACACGAAATCACA-ATACAATGCCAATG
1 T-CCTA-GACATGGTCTTACATGTAATCACATAT-CAATGCCAATG
*
79317256 TCCTAGACATGGTCTTACATGTAATCATATATC
1 TCCTAGACATGGTCTTACATGTAATCACATATC
79317289 GAGCCGATGC
Statistics
Matches: 59, Mismatches: 11, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
42 5 0.08
43 49 0.83
44 5 0.08
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (43 bp):
TCCTAGACATGGTCTTACATGTAATCACATATCAATGCCAATG
Found at i:79317318 original size:47 final size:49
Alignment explanation
Indices: 79317247--79317374 Score: 138
Period size: 50 Copynumber: 2.6 Consensus size: 49
79317237 TCACAATACA
79317247 ATGCCAATG-TCCTAGACATGGTCTTACA-TGTA-ATCATATATCGA-GCCG
1 ATGCC-ATGTTCC-AGACATGGTCTTACACTG-ACATCATATATCGAGGCCG
* * * *
79317295 ATGCCATGTTCCAGACTTGGTCTTACACTGACTCTCTTATATCGAGGCTG
1 ATGCCATGTTCCAGACATGGTCTTACACTGAC-ATCATATATCGAGGCCG
* *
79317345 ATGCCATATCCCAGACATGGTCTTACACTG
1 ATGCCATGTTCCAGACATGGTCTTACACTG
79317375 GCTCTCCTCT
Statistics
Matches: 68, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
47 18 0.26
48 10 0.15
49 10 0.15
50 30 0.44
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (49 bp):
ATGCCATGTTCCAGACATGGTCTTACACTGACATCATATATCGAGGCCG
Found at i:79317359 original size:50 final size:49
Alignment explanation
Indices: 79317283--79317423 Score: 156
Period size: 50 Copynumber: 2.8 Consensus size: 49
79317273 CATGTAATCA
* * *
79317283 TATATCGAGCCGATGCCATGTTCCAGACTTGGTCTTACACTGACTCTCT
1 TATATCGAGCCGATGCCATATCCCAGACATGGTCTTACACTGACTCTCT
* * *
79317332 TATATCGAGGCTGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCC
1 TATATCGA-GCCGATGCCATATCCCAGACATGGTCTTACACTGACTCTCT
* * * * * *
79317382 TCTTTCCGTGCCGATGCCATGTCCCAAATATGGTCTTACACT
1 TATAT-CGAGCCGATGCCATATCCCAGACATGGTCTTACACT
79317424 AGCTCACATG
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 8 0.10
50 67 0.87
51 2 0.03
ACGTcount: A:0.21, C:0.30, G:0.18, T:0.31
Consensus pattern (49 bp):
TATATCGAGCCGATGCCATATCCCAGACATGGTCTTACACTGACTCTCT
Found at i:79323039 original size:29 final size:29
Alignment explanation
Indices: 79322996--79323081 Score: 93
Period size: 29 Copynumber: 3.0 Consensus size: 29
79322986 CATGAACATG
* *
79322996 AATGTGA-CTGGGCCTAACGGGTCATATA
1 AATGTGATTTGGGCCTAACGGGCCATATA
*
79323024 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAACGGGCCATATA
* * * *
79323053 CAGGTGATTTGGACCTAAAGGGGCCATAT
1 AATGTGATTTGGGCCT-AACGGGCCATAT
79323082 GAATATAATT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
28 7 0.14
29 31 0.63
30 11 0.22
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.27
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAACGGGCCATATA
Found at i:79324195 original size:17 final size:18
Alignment explanation
Indices: 79324162--79324196 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
79324152 TTTTAAGAAG
79324162 GGTTTTCAATGAAAACAC
1 GGTTTTCAATGAAAACAC
*
79324180 GGTTTTCACT-AAAACAC
1 GGTTTTCAATGAAAACAC
79324197 TTCAATGTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.37, C:0.20, G:0.14, T:0.29
Consensus pattern (18 bp):
GGTTTTCAATGAAAACAC
Found at i:79335004 original size:76 final size:76
Alignment explanation
Indices: 79334913--79335065 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
79334903 AAATCGTTTA
79334913 AATCAGATTCATAATAATAGAAGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTCTCTCATTG
1 AATCAGATTCATAATAATAGAAGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTCTCTCATTG
79334978 GTTATTATTCG
66 GTTATTATTCG
79334989 AATCAGATTCATAATAATAGAAGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTCTCTCATTG
1 AATCAGATTCATAATAATAGAAGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTCTCTCATTG
79335054 GTTATTATTCG
66 GTTATTATTCG
79335065 A
1 A
79335066 TTATTTTCCT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.27, C:0.14, G:0.20, T:0.39
Consensus pattern (76 bp):
AATCAGATTCATAATAATAGAAGAAGTCTAGGTGGATTCTTTCCTGGGTATTGTCTCTCTCATTG
GTTATTATTCG
Found at i:79336157 original size:17 final size:19
Alignment explanation
Indices: 79336129--79336167 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
79336119 TAATTCGATT
79336129 ATACATTGTATTAATAA-A
1 ATACATTGTATTAATAATA
*
79336147 ATACA-TGTATTTATAATA
1 ATACATTGTATTAATAATA
79336165 ATA
1 ATA
79336168 ATAATAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (19 bp):
ATACATTGTATTAATAATA
Found at i:79339477 original size:21 final size:20
Alignment explanation
Indices: 79339453--79339504 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 20
79339443 TTATGCCACA
79339453 TCAGTATTCTTATCCTGAATT
1 TCAGTATT-TTATCCTGAATT
*
79339474 TCAGGATTTTATCCTGAATT
1 TCAGTATTTTATCCTGAATT
*
79339494 TTAGTATTTTA
1 TCAGTATTTTA
79339505 ATTTGGATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 21 0.75
21 7 0.25
ACGTcount: A:0.25, C:0.13, G:0.12, T:0.50
Consensus pattern (20 bp):
TCAGTATTTTATCCTGAATT
Found at i:79342786 original size:43 final size:43
Alignment explanation
Indices: 79342692--79342850 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
79342682 GGTTATCGAG
* * * *
79342692 ATGTGATTACTTGTAAGACCATGTCTGGGATATTGGCATTGTA
1 ATGTGATTACGTGTAAGACCATATCTGGGACATTGGCATCGTA
* *
79342735 TTGTGATTACGTGTAAGACCATATCTGGGACATTGGTATCGTTA
1 ATGTGATTACGTGTAAGACCATATCTGGGACATTGGCATCG-TA
* * * * * *
79342779 AT-CGATTATGTGTAAGACCTTGTCAGGGACAGTGGCATCG-A
1 ATGTGATTACGTGTAAGACCATATCTGGGACATTGGCATCGTA
* * *
79342820 TATGTGATAACATGTAAGACCATATATGGGA
1 -ATGTGATTACGTGTAAGACCATATCTGGGA
79342851 TACGACATTG
Statistics
Matches: 91, Mismatches: 22, Indels: 6
0.76 0.18 0.05
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 85 0.93
44 3 0.03
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATATCTGGGACATTGGCATCGTA
Found at i:79344328 original size:27 final size:27
Alignment explanation
Indices: 79344290--79344343 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
79344280 CGAATTAAGT
79344290 TAATATACCCTACAGGTTTGACACGGC
1 TAATATACCCTACAGGTTTGACACGGC
79344317 TAATATACCCTACAGGTTTGACACGGC
1 TAATATACCCTACAGGTTTGACACGGC
79344344 CTAGACATAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (27 bp):
TAATATACCCTACAGGTTTGACACGGC
Found at i:79352198 original size:34 final size:35
Alignment explanation
Indices: 79352138--79352206 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 35
79352128 TATAAAGAGA
*
79352138 ACTCTATGAAAATTAGGGTTTCGTATTT-GGGTTT
1 ACTCTATGAAAATTAGAGTTTCGTATTTAGGGTTT
* * *
79352172 ACTCTATGAGAGTTAGAGTTTTGTATTTAGGGTTT
1 ACTCTATGAAAATTAGAGTTTCGTATTTAGGGTTT
79352207 TAGGCAATGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
34 24 0.80
35 6 0.20
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (35 bp):
ACTCTATGAAAATTAGAGTTTCGTATTTAGGGTTT
Found at i:79355607 original size:3 final size:3
Alignment explanation
Indices: 79355599--79355628 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
79355589 TAAGGCTTCC
79355599 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
79355629 TAGCAGGGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:79364527 original size:8 final size:8
Alignment explanation
Indices: 79364514--79364560 Score: 51
Period size: 8 Copynumber: 5.8 Consensus size: 8
79364504 TAAATAATAT
79364514 TAAAATTA
1 TAAAATTA
*
79364522 TAAAATATT
1 TAAAAT-TA
*
79364531 TAGAAAATA
1 TA-AAATTA
79364540 -AAAATTA
1 TAAAATTA
79364547 TAAAATTA
1 TAAAATTA
79364555 TAAAAT
1 TAAAAT
79364561 ATGCCACTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
7 5 0.16
8 20 0.62
9 4 0.12
10 3 0.09
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (8 bp):
TAAAATTA
Found at i:79364879 original size:3 final size:3
Alignment explanation
Indices: 79364871--79364895 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
79364861 TATAACAACC
79364871 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
79364896 TTTATTATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:79381057 original size:15 final size:15
Alignment explanation
Indices: 79381037--79381066 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
79381027 CCTCAGTTAC
79381037 ATTTTAGTCACTTAT
1 ATTTTAGTCACTTAT
79381052 ATTTTAGTCACTTAT
1 ATTTTAGTCACTTAT
79381067 GTTTAAAATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (15 bp):
ATTTTAGTCACTTAT
Found at i:79382718 original size:19 final size:20
Alignment explanation
Indices: 79382694--79382732 Score: 71
Period size: 19 Copynumber: 2.0 Consensus size: 20
79382684 TCTTATTTTT
79382694 TATTTGTTTTT-TGTTTTAA
1 TATTTGTTTTTATGTTTTAA
79382713 TATTTGTTTTTATGTTTTAA
1 TATTTGTTTTTATGTTTTAA
79382733 ATGTATTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
TATTTGTTTTTATGTTTTAA
Found at i:79382750 original size:25 final size:23
Alignment explanation
Indices: 79382694--79382758 Score: 66
Period size: 19 Copynumber: 2.9 Consensus size: 23
79382684 TCTTATTTTT
*
79382694 TATTTGTTTTT-TGTTTT-AA--
1 TATTTGTTTTTATATTTTAAATG
*
79382713 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
79382736 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
79382759 GTTTTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 6 0.15
21 2 0.05
23 6 0.15
24 3 0.08
25 11 0.28
ACGTcount: A:0.25, C:0.00, G:0.09, T:0.66
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:79383840 original size:20 final size:20
Alignment explanation
Indices: 79383811--79383849 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
79383801 TGTATTGTGG
79383811 TTTTTAAAAAAATTAAATAT
1 TTTTTAAAAAAATTAAATAT
* *
79383831 TTTTTTAAAAATTTAAATA
1 TTTTTAAAAAAATTAAATA
79383850 AAATTGTTCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TTTTTAAAAAAATTAAATAT
Found at i:79384088 original size:76 final size:76
Alignment explanation
Indices: 79384008--79384156 Score: 280
Period size: 76 Copynumber: 2.0 Consensus size: 76
79383998 AGTTTTAGTA
79384008 ATTATTTTTTCAATGTTTATTTTAATTATAATATAGAAAGTTGAGGCTTAGAGCTTAATCAATTT
1 ATTATTTTTTCAATGTTTATTTTAATTATAATATAGAAAGTTGAGGCTTAGAGCTTAATCAATTT
*
79384073 TTTTACCCGTG
66 CTTTACCCGTG
*
79384084 ATTATTTTTTCAATGTTTATTTTAATTATAATATCGAAAGTTGAGGCTTAGAGCTTAATCAATTT
1 ATTATTTTTTCAATGTTTATTTTAATTATAATATAGAAAGTTGAGGCTTAGAGCTTAATCAATTT
79384149 CTTTACCC
66 CTTTACCC
79384157 TTTGTCACGC
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 71 1.00
ACGTcount: A:0.30, C:0.11, G:0.12, T:0.47
Consensus pattern (76 bp):
ATTATTTTTTCAATGTTTATTTTAATTATAATATAGAAAGTTGAGGCTTAGAGCTTAATCAATTT
CTTTACCCGTG
Found at i:79390000 original size:33 final size:35
Alignment explanation
Indices: 79389963--79390060 Score: 91
Period size: 33 Copynumber: 2.9 Consensus size: 35
79389953 ATAGTTATAT
79389963 TTAAATATTTAAAATATAATTTATATATT-C-TAA
1 TTAAATATTTAAAATATAATTTATATATTACTTAA
* *
79389996 TTAAAT-TTTATAA-ATAATTAATATTTATTACTTAA
1 TTAAATATTTAAAATATAATT--TATATATTACTTAA
*
79390031 --AAATATTTAAAATTTATATTTTATATATTA
1 TTAAATATTTAAAA--TATAATTTATATATTA
79390061 AAATATTAGC
Statistics
Matches: 52, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
31 6 0.12
32 6 0.12
33 17 0.33
34 7 0.13
35 11 0.21
37 5 0.10
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (35 bp):
TTAAATATTTAAAATATAATTTATATATTACTTAA
Found at i:79391795 original size:13 final size:13
Alignment explanation
Indices: 79391769--79391873 Score: 59
Period size: 13 Copynumber: 7.5 Consensus size: 13
79391759 GTATTAAGAG
*
79391769 TATACATATAAAAA
1 TATA-ATATTAAAA
79391783 TATAATATTAAAA
1 TATAATATTAAAA
* *
79391796 TATATATACATAATA
1 TATA-ATA-TTAAAA
* *
79391811 TAAAATATTTATAA
1 TATAATA-TTAAAA
*
79391825 TATAGTATTAAAA
1 TATAATATTAAAA
* *
79391838 TAT-ATACATAATA
1 TATAATA-TTAAAA
79391851 TATACATATTAGAAA
1 TATA-ATATTA-AAA
79391866 TAATAATA
1 T-ATAATA
79391874 ATGTTAAAAA
Statistics
Matches: 68, Mismatches: 16, Indels: 13
0.70 0.16 0.13
Matches are distributed among these distances:
12 2 0.03
13 27 0.40
14 20 0.29
15 16 0.24
16 3 0.04
ACGTcount: A:0.57, C:0.04, G:0.02, T:0.37
Consensus pattern (13 bp):
TATAATATTAAAA
Found at i:79391925 original size:15 final size:15
Alignment explanation
Indices: 79391905--79391945 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
79391895 AATACTTCAT
*
79391905 AAATATATATACTAA
1 AAATATATATAATAA
*
79391920 AAATATACATAATAA
1 AAATATATATAATAA
*
79391935 TAATATATATA
1 AAATATATATA
79391946 TATATATATA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATATATATAATAA
Found at i:79392691 original size:2 final size:2
Alignment explanation
Indices: 79392654--79392680 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
79392644 AAAAAAACAA
79392654 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
79392681 AGCCCTCTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:79393535 original size:25 final size:25
Alignment explanation
Indices: 79393504--79393551 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
79393494 TCTTTACTCA
79393504 TTGTCGTGTAACGAGAACAGAGTTG
1 TTGTCGTGTAACGAGAACAGAGTTG
*
79393529 TTGTCGTGTAACGAGAATAGAGT
1 TTGTCGTGTAACGAGAACAGAGT
79393552 AAAGACTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.29, C:0.10, G:0.31, T:0.29
Consensus pattern (25 bp):
TTGTCGTGTAACGAGAACAGAGTTG
Found at i:79393883 original size:29 final size:29
Alignment explanation
Indices: 79393841--79393898 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
79393831 CAATCTTTAT
* *
79393841 CCTCAGCGTGTGACCCGAGGCTCAACTCA
1 CCTCAGCGTATGACCCGAAGCTCAACTCA
*
79393870 CCTCAGCGTATGACCTGAAGCTCAACTCA
1 CCTCAGCGTATGACCCGAAGCTCAACTCA
79393899 TCTCTCGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (29 bp):
CCTCAGCGTATGACCCGAAGCTCAACTCA
Found at i:79393992 original size:75 final size:75
Alignment explanation
Indices: 79393889--79394091 Score: 347
Period size: 74 Copynumber: 2.7 Consensus size: 75
79393879 ATGACCTGAA
*
79393889 GCTCAACTCATCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAATACCTCAACGT
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAATACCTCAACGT
79393954 GTGAGCTAAG
66 GTGAGCTAAG
* * *
79393964 GCTCAACTCACCTCTCGCAATATAAGTTGA--TTTTTGAACACATAAATTGAAAGTACCTCAGCG
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAA-ACATAAATTGAAAATACCTCAACG
79394027 TGTGAGCTAAG
65 TGTGAGCTAAG
79394038 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAA
79394092 ATGGAAATGG
Statistics
Matches: 119, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
73 8 0.07
74 62 0.52
75 41 0.34
76 8 0.07
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (75 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAATACCTCAACGT
GTGAGCTAAG
Found at i:79394203 original size:85 final size:84
Alignment explanation
Indices: 79394036--79394332 Score: 364
Period size: 85 Copynumber: 3.4 Consensus size: 84
79394026 GTGTGAGCTA
**
79394036 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATTGAAAAATGGAAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAACATAAATTGAAAAACAGAAAT-
*
79394101 GAAATTACCTCAGCGTGTCCCG
63 TAAATTACCTCAGCGTGTCCCG
* * *
79394123 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAGACATAAGTTGAAGAACAGAAATTAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATTAA
*
79394188 AGTTACCTCAGCGTGTCCTG
66 A-TTACCTCAGCGTGTCCCG
* * * *
79394208 AGGCTTAACTCACCTCTCGCAATATGAGTTGA-TTGTGACAAACAGAAATTGAAAAACATAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG--AAACATAAATTGAAAAACAGAAATT
* **
79394272 GAAAAT-CTCTCAGCATGTGAGCCG
64 -AAATTAC-CTCAGC--GTGTCCCG
79394296 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
79394333 TTTTGAAAGA
Statistics
Matches: 182, Mismatches: 20, Indels: 14
0.84 0.09 0.06
Matches are distributed among these distances:
84 7 0.04
85 74 0.41
86 27 0.15
87 35 0.19
88 36 0.20
89 3 0.02
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (84 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACATAAATTGAAAAACAGAAATTAA
ATTACCTCAGCGTGTCCCG
Found at i:79394270 original size:14 final size:14
Alignment explanation
Indices: 79394247--79394276 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
79394237 TGATTGTGAC
79394247 AAACAGAAATTGAA
1 AAACAGAAATTGAA
*
79394261 AAACATAAATTGAA
1 AAACAGAAATTGAA
79394275 AA
1 AA
79394277 TCTCTCAGCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (14 bp):
AAACAGAAATTGAA
Found at i:79394320 original size:173 final size:163
Alignment explanation
Indices: 79393962--79394405 Score: 483
Period size: 173 Copynumber: 2.7 Consensus size: 163
79393952 GTGTGAGCTA
* * *
79393962 AGGCTCAACTCACCTCTCGCAATATAAGTTGA---TTT-TTG-AACACATAAATTGAAAGTACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGTTGAAAGACAGAAATTGAAAGTACCT
* * * *** *
79394022 CAGCGTGTGAGCTAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAACATAAATT
66 CAGCGTGT--CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTGTGACAAACAGAAATT
** * *
79394087 GAAAAATGGAAATGGAAATTACCTCAGCGTGTCCCG
128 GAAAAACAGAAATGGAAAATACCTCAGCGTGACCCG
79394123 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAGACATAAGTTG-AAGAACAGAAATT-
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT------T--GTTGAAAG-ACAGAAATTG
*
79394186 AAAGTTACCTCAGCGTGTCCTGAGGCTTAACTCACCTCTCGCAATATGAGTTGATTGTGACAAAC
57 AAAG-TACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTGTGACAAAC
* * *
79394251 AGAAATTGAAAAACATAAATTGAAAAT-CTCTCAGCATGTGAGCCG
121 AGAAATTGAAAAACAGAAATGGAAAATAC-CTCAGC--GTGACCCG
* *
79394296 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAGACAGAAATTGAAAATACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGTTGAAAGACAGAAATTGAAAGTACCT
* *
79394361 CAAC-TGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
66 CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
79394406 TTTGAAAATA
Statistics
Matches: 241, Mismatches: 23, Indels: 35
0.81 0.08 0.12
Matches are distributed among these distances:
161 31 0.13
164 41 0.17
165 20 0.08
166 6 0.02
167 1 0.00
170 2 0.01
171 34 0.14
172 33 0.14
173 52 0.22
174 21 0.09
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (163 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGTTGAAAGACAGAAATTGAAAGTACCT
CAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTGTGACAAACAGAAATTGAA
AAACAGAAATGGAAAATACCTCAGCGTGACCCG
Found at i:79397816 original size:74 final size:74
Alignment explanation
Indices: 79397733--79397891 Score: 318
Period size: 74 Copynumber: 2.1 Consensus size: 74
79397723 CCTAGCAATT
79397733 TTCCTGAGGTTGCCCCAAACGTGCACTTGGCTGGATTAAGCTTTAGCTGGAACTTTCTCAGTCTC
1 TTCCTGAGGTTGCCCCAAACGTGCACTTGGCTGGATTAAGCTTTAGCTGGAACTTTCTCAGTCTC
79397798 TGGAACAGC
66 TGGAACAGC
79397807 TTCCTGAGGTTGCCCCAAACGTGCACTTGGCTGGATTAAGCTTTAGCTGGAACTTTCTCAGTCTC
1 TTCCTGAGGTTGCCCCAAACGTGCACTTGGCTGGATTAAGCTTTAGCTGGAACTTTCTCAGTCTC
79397872 TGGAACAGC
66 TGGAACAGC
79397881 TTCCTGAGGTT
1 TTCCTGAGGTT
79397892 CTTAACATGC
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 85 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (74 bp):
TTCCTGAGGTTGCCCCAAACGTGCACTTGGCTGGATTAAGCTTTAGCTGGAACTTTCTCAGTCTC
TGGAACAGC
Found at i:79402728 original size:4 final size:4
Alignment explanation
Indices: 79402694--79402718 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
79402684 ATGTACATGC
79402694 AATG AATG AATG AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG A
79402719 CAAATGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.24, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:79402739 original size:22 final size:22
Alignment explanation
Indices: 79402698--79402752 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
79402688 ACATGCAATG
* *
79402698 AATGAATGAATGAATGAATGACA
1 AATGAATG-TTGAATAAATGACA
*
79402721 AATGAATGTTGAATAAATGACG
1 AATGAATGTTGAATAAATGACA
79402743 AATGAATGTT
1 AATGAATGTT
79402753 AGTCATGAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 21 0.72
23 8 0.28
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (22 bp):
AATGAATGTTGAATAAATGACA
Found at i:79406512 original size:19 final size:20
Alignment explanation
Indices: 79406461--79406512 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
79406451 ACATATATGT
*
79406461 AAATAATAACAATAATATTAA
1 AAATAAT-ACAATAATAGTAA
* *
79406482 AAATAA-ATAATAATAGTGA
1 AAATAATACAATAATAGTAA
79406501 AAATAATA-AATA
1 AAATAATACAATA
79406513 TAATATGGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 20 0.74
20 1 0.04
21 6 0.22
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AAATAATACAATAATAGTAA
Found at i:79406549 original size:73 final size:68
Alignment explanation
Indices: 79406472--79406639 Score: 167
Period size: 73 Copynumber: 2.4 Consensus size: 68
79406462 AATAATAACA
* * *
79406472 ATAATATTAAAAATAAATAATAATAGTGAAAATAATAAATATAATATGGTATTAAGAGTATACAT
1 ATAATATTAAAAATAAATAATAATA-T-AAAAT-ATAAATATAATATAGTATTAA-AATATACAC
79406537 ATAAAAAT
62 AT-AAAAT
* ** *
79406545 ATAATATTAAAAGTATATATACATAATATAAAATATATTTATAATATAGTATTAAAATATATACA
1 ATAATATTAAAA--ATAAATA-ATAATATAAAATATAAATATAATATAGTATTAAAATATACACA
*
79406610 TAATAT
63 TAAAAT
*
79406616 ATACATATTAGAAAT-AATAATAAT
1 ATA-ATATTAAAAATAAATAATAAT
79406640 GTTAAAAACA
Statistics
Matches: 81, Mismatches: 10, Indels: 13
0.78 0.10 0.12
Matches are distributed among these distances:
68 5 0.06
69 3 0.04
70 2 0.02
71 7 0.09
72 16 0.20
73 30 0.37
74 5 0.06
75 7 0.09
76 6 0.07
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.35
Consensus pattern (68 bp):
ATAATATTAAAAATAAATAATAATATAAAATATAAATATAATATAGTATTAAAATATACACATAA
AAT
Found at i:79406581 original size:42 final size:40
Alignment explanation
Indices: 79406535--79406616 Score: 94
Period size: 42 Copynumber: 1.9 Consensus size: 40
79406525 AAGAGTATAC
79406535 ATATA-AAAATATAATATTAAAAGTATATATACATAATATAAA
1 ATATATAAAATATAATATT-AAA--ATATATACATAATATAAA
* *
79406577 ATATATTTATAATATAGTATTAAAATATATACATAATATA
1 ATATA--TAAAATATAATATTAAAATATATACATAATATA
79406617 TACATATTAG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
42 21 0.60
44 3 0.09
45 11 0.31
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (40 bp):
ATATATAAAATATAATATTAAAATATATACATAATATAAA
Found at i:79406600 original size:24 final size:22
Alignment explanation
Indices: 79406542--79406618 Score: 70
Period size: 24 Copynumber: 3.4 Consensus size: 22
79406532 TACATATAAA
79406542 AATATAATATTAAAAGTATA-TAT
1 AATAT-ATATTAAAA-TATATTAT
79406565 ACATA-ATA-TAAAATATATTTAT
1 A-ATATATATTAAAATATA-TTAT
*
79406587 AATATAGTATTAAAATATATACAT
1 AATATA-TATTAAAATATAT-TAT
79406611 AATATATA
1 AATATATA
79406619 CATATTAGAA
Statistics
Matches: 46, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
20 4 0.09
21 8 0.17
22 8 0.17
23 6 0.13
24 20 0.43
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (22 bp):
AATATATATTAAAATATATTAT
Found at i:79406750 original size:2 final size:2
Alignment explanation
Indices: 79406671--79406731 Score: 65
Period size: 2 Copynumber: 31.5 Consensus size: 2
79406661 TACTTCATAA
* * *
79406671 AT AT AT AT AT ACT AA AA AT AT AC AT A- AT A- AT A- AT AT AT AT
1 AT AT AT AT AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
79406711 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
79406732 ATAGTAAGAC
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
1 3 0.06
2 46 0.90
3 2 0.04
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (2 bp):
AT
Found at i:79411615 original size:14 final size:15
Alignment explanation
Indices: 79411596--79411625 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
79411586 TTTTCTTTTG
79411596 AAAAATAATA-TAAT
1 AAAAATAATATTAAT
79411610 AAAAATAATATTAAT
1 AAAAATAATATTAAT
79411625 A
1 A
79411626 TTTAATAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.67
15 5 0.33
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAAATAATATTAAT
Found at i:79432232 original size:20 final size:21
Alignment explanation
Indices: 79432204--79432265 Score: 67
Period size: 20 Copynumber: 3.1 Consensus size: 21
79432194 ATTCATTTTT
*
79432204 ATTCGTATAAACTA-TAATTC
1 ATTCATATAAACTAGTAATTC
*
79432224 ATTCATAT-AACTAGTAGTTC
1 ATTCATATAAACTAGTAATTC
* *
79432244 ATCCATAT-AACCAGTAATTC
1 ATTCATATAAACTAGTAATTC
79432264 AT
1 AT
79432266 CAGTAATAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
19 5 0.14
20 31 0.86
ACGTcount: A:0.39, C:0.18, G:0.06, T:0.37
Consensus pattern (21 bp):
ATTCATATAAACTAGTAATTC
Found at i:79432266 original size:20 final size:20
Alignment explanation
Indices: 79432218--79432266 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
79432208 GTATAAACTA
* *
79432218 TAATTCATTCATATAACTAG
1 TAATTCATCCATATAACCAG
*
79432238 TAGTTCATCCATATAACCAG
1 TAATTCATCCATATAACCAG
79432258 TAATTCATC
1 TAATTCATC
79432267 AGTAATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (20 bp):
TAATTCATCCATATAACCAG
Found at i:79432549 original size:23 final size:23
Alignment explanation
Indices: 79432518--79432645 Score: 75
Period size: 22 Copynumber: 5.6 Consensus size: 23
79432508 CTGAGCTGAT
*
79432518 AAACAGTAAGCTCTATTAAGCTG
1 AAACAGTAAGCTCTATCAAGCTG
* *
79432541 AAACGGTAAGCTCTATCGAGCTG
1 AAACAGTAAGCTCTATCAAGCTG
* * * *
79432564 -AACAATAAACTTTATCGAGCT-
1 AAACAGTAAGCTCTATCAAGCTG
* * *
79432585 AAACAATAACCTCATAT-GAGCT-
1 AAACAGTAAGCTC-TATCAAGCTG
* * * *
79432607 AAATCGGTAAGCTCCAACGAGCTG
1 AAA-CAGTAAGCTCTATCAAGCTG
79432631 AAAACAGTAAGCTCT
1 -AAACAGTAAGCTCT
79432646 TACGAGCTGA
Statistics
Matches: 83, Mismatches: 16, Indels: 11
0.75 0.15 0.10
Matches are distributed among these distances:
22 36 0.43
23 35 0.42
24 9 0.11
25 3 0.04
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (23 bp):
AAACAGTAAGCTCTATCAAGCTG
Found at i:79444033 original size:4 final size:5
Alignment explanation
Indices: 79444005--79444034 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
79443995 TCTTTTCATC
79444005 AATAA AATAA AATAA AATAA AAT-A AATAA A
1 AATAA AATAA AATAA AATAA AATAA AATAA A
79444035 CAACTATCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:79454171 original size:23 final size:22
Alignment explanation
Indices: 79454140--79454190 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
79454130 GGTCAAAGTC
79454140 AATTTTTTTAATACTTAATATTA
1 AATTTTTTTAA-ACTTAATATTA
* * *
79454163 TATTTTTTTAAATTTAATCTTA
1 AATTTTTTTAAACTTAATATTA
79454185 AATTTT
1 AATTTT
79454191 ATTTTAAATA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (22 bp):
AATTTTTTTAAACTTAATATTA
Found at i:79454179 original size:22 final size:22
Alignment explanation
Indices: 79454140--79454199 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
79454130 GGTCAAAGTC
*
79454140 AATTTTTTTAATACTTAATATTA
1 AATTTTTTTAA-ATTTAATATTA
* *
79454163 TATTTTTTTAAATTTAATCTTA
1 AATTTTTTTAAATTTAATATTA
79454185 AATTTTATTTTAAAT
1 AA-TTT-TTTTAAAT
79454200 AAATTTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
22 10 0.32
23 13 0.42
24 8 0.26
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (22 bp):
AATTTTTTTAAATTTAATATTA
Found at i:79460229 original size:22 final size:22
Alignment explanation
Indices: 79460169--79460230 Score: 70
Period size: 26 Copynumber: 2.6 Consensus size: 22
79460159 CTAGTAATAT
*
79460169 AAAAATATAAAACAAATGCATA
1 AAAAATATAAAACAAATACATA
*
79460191 AGGAAAATGAAATAAACAAATACATA
1 A--AAAAT-ATA-AAACAAATACATA
79460217 AAAAATATAAAACA
1 AAAAATATAAAACA
79460231 TGAAAAAATA
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
22 6 0.18
23 2 0.06
24 10 0.30
25 2 0.06
26 13 0.39
ACGTcount: A:0.69, C:0.08, G:0.06, T:0.16
Consensus pattern (22 bp):
AAAAATATAAAACAAATACATA
Found at i:79460253 original size:6 final size:6
Alignment explanation
Indices: 79460244--79460324 Score: 56
Period size: 6 Copynumber: 13.5 Consensus size: 6
79460234 AAAAATAAAA
* * * * * *
79460244 AATGAC AATGAT AATGAT AATGAG AACGAT AATAAT AATAAT AATAAT
1 AATGAT AATGAT AATGAT AATGAT AATGAT AATGAT AATGAT AATGAT
* * * *
79460292 AATAAT ATTAAT AAT-ACT AATGAT AATAAT AAT
1 AATGAT AATGAT AATGA-T AATGAT AATGAT AAT
79460325 AATAGTAATA
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
5 1 0.02
6 62 0.97
7 1 0.02
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.31
Consensus pattern (6 bp):
AATGAT
Found at i:79460756 original size:3 final size:3
Alignment explanation
Indices: 79460272--79460739 Score: 227
Period size: 3 Copynumber: 158.0 Consensus size: 3
79460262 AATGAGAACG
* * *
79460272 ATA ATA ATA ATA ATA ATA ATA ATA ATA TTA ATA ATA CTA ATG ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
79460320 ATA ATA ATA GTA ATA ATA AGA ATA TTA ATA TTA GTA ATA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
79460368 ATA ATA GTA ATGGA A-A ATA AAA ATA AT- ATA ATA AT- ATA ATA AT-
1 ATA ATA ATA AT--A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * *
79460411 ATA ATA ATA GTAA ATA A-A AGTA A-A AGTA ATA GTA AT- ATA ATG ATA
1 ATA ATA ATA AT-A ATA ATA A-TA ATA A-TA ATA ATA ATA ATA ATA ATA
* * * * *
79460456 ATA ATAA ATA GTA ATA ATA ACA ATA ATA AAA ATA GTA ATA AT- GTA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * * *
79460501 TTAA ATG GTA A-A AGA ATA ATA GTA ACA ATA ATT TTA A-A A-A ATG
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
79460544 ATA GTA GTA ATA A-A ATA A-G ATT ATA ATA ATA ATA TTA ATA ATA AAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
79460590 ATGA A-C ATA A-A AAA ATA GTA ATA ATA GTA ATA ATA ATA ATA ATA
1 AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** ** * *
79460634 GTA A-A AGGA ATA ATA ATA GCA ATA ATA A-A AGCG TTA ATA ATA GTA
1 ATA ATA A-TA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA
* ** * *
79460679 ATA ATA CA-A ATA ATA ATA TATA TGTA CGA AAA ATA ATA ATA GTA A-A
1 ATA ATA -ATA ATA ATA ATA -ATA -ATA ATA ATA ATA ATA ATA ATA ATA
79460725 ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA
79460740 GAAGTAGTAA
Statistics
Matches: 344, Mismatches: 91, Indels: 60
0.69 0.18 0.12
Matches are distributed among these distances:
2 34 0.10
3 286 0.83
4 22 0.06
5 2 0.01
ACGTcount: A:0.60, C:0.02, G:0.08, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:79461251 original size:121 final size:120
Alignment explanation
Indices: 79461075--79461316 Score: 457
Period size: 121 Copynumber: 2.0 Consensus size: 120
79461065 AAAAGTGCAA
*
79461075 TTGTTAGTACAAAACTCCGGTAAGGAAAAATCTCGAACACACGATCGGAACTCGAAAAGAAAAAG
1 TTGTTAGTACAAAACTCCGGTAAGGAAAAAACTCGAACACACGATCGGAACTCGAAAAGAAAAAG
*
79461140 AAGAAATAGGACAGGCTCCAAGGCGTGTATCAAGCCACTATCTTTAAGGTTATAT
66 AAGAAATAGGACAGGCTCCAAGACGTGTATCAAGCCACTATCTTTAAGGTTATAT
79461195 TTGTTAGTACAAAACTCCGGTAAGGAAAAAAACTCGAACACACGATCGGAACTCGAAAAGAAAAA
1 TTGTTAGTACAAAACTCCGGTAAGG-AAAAAACTCGAACACACGATCGGAACTCGAAAAGAAAAA
79461260 GAAGAAATAGGACAGGCTCCAAGACGTGTATCAAGCCACTATCTTTAAGGTTATAT
65 GAAGAAATAGGACAGGCTCCAAGACGTGTATCAAGCCACTATCTTTAAGGTTATAT
79461316 T
1 T
79461317 CGCCCCCACT
Statistics
Matches: 119, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
120 25 0.21
121 94 0.79
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (120 bp):
TTGTTAGTACAAAACTCCGGTAAGGAAAAAACTCGAACACACGATCGGAACTCGAAAAGAAAAAG
AAGAAATAGGACAGGCTCCAAGACGTGTATCAAGCCACTATCTTTAAGGTTATAT
Found at i:79467379 original size:27 final size:27
Alignment explanation
Indices: 79467348--79467525 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
79467338 TAAATTGTAC
79467348 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
79467375 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
79467401 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
79467429 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
79467457 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
79467484 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
79467511 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
79467526 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:79467462 original size:82 final size:81
Alignment explanation
Indices: 79467349--79467504 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
79467339 AAATTGTACA
* *
79467349 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
79467413 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
79467430 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
79467495 TGCGAGTTGA
65 TGCGAATTGA
79467505 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:79467516 original size:82 final size:81
Alignment explanation
Indices: 79467345--79467525 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
79467335 GATTAAATTG
* *
79467345 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
79467410 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
79467426 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
79467490 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
79467508 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
79467526 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:79476142 original size:4 final size:4
Alignment explanation
Indices: 79476122--79476156 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
79476112 TGAAATGATC
* *
79476122 AAAT ACAT AAGT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
79476157 AATAAAACAT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:79476208 original size:3 final size:3
Alignment explanation
Indices: 79476200--79476248 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
79476190 AACGAAAACG
* *
79476200 ATA ATA ATA ATA ATA AT- ATAA ATA ATA ATA GT- ATA A-A ACA ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA
79476243 ATA ATA
1 ATA ATA
79476249 CATATGGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
2 5 0.13
3 32 0.82
4 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:79476223 original size:15 final size:16
Alignment explanation
Indices: 79476200--79476248 Score: 64
Period size: 15 Copynumber: 3.1 Consensus size: 16
79476190 AACGAAAACG
79476200 ATAATAATAATAATAAT
1 ATAA-AATAATAATAAT
*
79476217 AT-AAATAATAATAGT
1 ATAAAATAATAATAAT
*
79476232 ATAAAACAATAATAAT
1 ATAAAATAATAATAAT
79476248 A
1 A
79476249 CATATGGTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 13 0.46
16 13 0.46
17 2 0.07
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (16 bp):
ATAAAATAATAATAAT
Found at i:79476559 original size:24 final size:27
Alignment explanation
Indices: 79476532--79476588 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 27
79476522 AATATATAAA
*
79476532 AAATGTATACATA-ATATA-ATATT-G
1 AAATATATACATAGATATACATATTAG
*
79476556 AAATATTTACATAGGATATACATATTAG
1 AAATATATACATA-GATATACATATTAG
79476584 AAATA
1 AAATA
79476589 ATAATAATGT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
24 11 0.41
26 5 0.19
27 5 0.19
28 6 0.22
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (27 bp):
AAATATATACATAGATATACATATTAG
Found at i:79476888 original size:22 final size:21
Alignment explanation
Indices: 79476857--79476910 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
79476847 ATATATATAT
*
79476857 TAAAAGATATA-TACATATGTAA
1 TAAAAAATATACTA-ATAT-TAA
* *
79476879 TGAAACATATACTAATATTAA
1 TAAAAAATATACTAATATTAA
79476900 TAAAAAATATA
1 TAAAAAATATA
79476911 ATAAGAGTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 12 0.44
22 13 0.48
23 2 0.07
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (21 bp):
TAAAAAATATACTAATATTAA
Found at i:79476980 original size:23 final size:23
Alignment explanation
Indices: 79476954--79476999 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
79476944 ATATAACGTG
*
79476954 GTATTAAAGATGTGTATA-ATATA
1 GTATTAAA-ATATGTATACATATA
*
79476977 GTATTTAAATATGTATACATATA
1 GTATTAAAATATGTATACATATA
79477000 TTTATTAGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (23 bp):
GTATTAAAATATGTATACATATA
Found at i:79477114 original size:20 final size:21
Alignment explanation
Indices: 79477080--79477119 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
79477070 AGTTGAAACT
*
79477080 AAAAAATAATTCTAATAATAG
1 AAAAAATAATACTAATAATAG
79477101 AAAAAAT-ATACTAATAATA
1 AAAAAATAATACTAATAATA
79477120 ATAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.65, C:0.05, G:0.03, T:0.28
Consensus pattern (21 bp):
AAAAAATAATACTAATAATAG
Found at i:79477157 original size:22 final size:20
Alignment explanation
Indices: 79477122--79477190 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
79477112 TAATAATAAT
*
79477122 AATAATAACGATAATGGTAAA
1 AATAATAA-AATAATGGTAAA
* **
79477143 TATAATAGTAAATAATATTAAA
1 AATAATA--AAATAATGGTAAA
*
79477165 AATAATAAAAAAATGGTAAA
1 AATAATAAAATAATGGTAAA
*
79477185 AGTAAT
1 AATAAT
79477191 GTATAAACTA
Statistics
Matches: 37, Mismatches: 9, Indels: 5
0.73 0.18 0.10
Matches are distributed among these distances:
20 15 0.41
21 6 0.16
22 15 0.41
23 1 0.03
ACGTcount: A:0.61, C:0.01, G:0.10, T:0.28
Consensus pattern (20 bp):
AATAATAAAATAATGGTAAA
Found at i:79479016 original size:46 final size:46
Alignment explanation
Indices: 79478966--79479094 Score: 186
Period size: 46 Copynumber: 2.8 Consensus size: 46
79478956 TGGTTGAGCA
* *
79478966 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
79479012 TCCGAACTCGTTGAGTTAAGTCCGAGTTCACCTATTGATACGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
* * *
79479058 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
79479095 GCGGGTTACA
Statistics
Matches: 72, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATACGAACG
Found at i:79483389 original size:47 final size:47
Alignment explanation
Indices: 79483338--79483687 Score: 529
Period size: 47 Copynumber: 7.4 Consensus size: 47
79483328 ATTGATGTAC
*
79483338 AAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
79483385 AAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
79483432 AAAGTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* *
79483479 AAAGTGTGTATATGTGATAAAGCCTAATGGCCGATGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * *
79483526 AAAGTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * *
79483573 AAAGTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
* * * * *
79483620 AAGGTGTATATATGTGATATGGCCGAATGGCCAATGTGATGGATGTG
1 AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
*
79483667 AAAGTGTATAAATGTGATAAG
1 AAAGTGTATATATGTGATAAG
79483688 TCCCGAAGGG
Statistics
Matches: 274, Mismatches: 29, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 274 1.00
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
AAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG
Found at i:79492748 original size:25 final size:25
Alignment explanation
Indices: 79492700--79492749 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
79492690 TTTGGCTTGA
**
79492700 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
79492725 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
79492750 AAAATTATTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.38, C:0.14, G:0.10, T:0.38
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:79497537 original size:21 final size:20
Alignment explanation
Indices: 79497490--79497530 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
79497480 TTGTCGATTA
*
79497490 AGTTA-ATTTTTGAATTTTG
1 AGTTATATTTTTGAATTTGG
79497509 AGTTATATTTTGTGAATTTGG
1 AGTTATATTTT-TGAATTTGG
79497530 A
1 A
79497531 TTAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 5 0.26
20 5 0.26
21 9 0.47
ACGTcount: A:0.27, C:0.00, G:0.20, T:0.54
Consensus pattern (20 bp):
AGTTATATTTTTGAATTTGG
Found at i:79499070 original size:30 final size:30
Alignment explanation
Indices: 79499024--79499083 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
79499014 CCATAATGAG
*
79499024 AGCACCGATTGAACACCAAGAGAAAAACAA
1 AGCACCGATCGAACACCAAGAGAAAAACAA
*
79499054 AGCATCGATCGAACACCAAGAGAAAAACAA
1 AGCACCGATCGAACACCAAGAGAAAAACAA
79499084 CTTATGAGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.53, C:0.23, G:0.17, T:0.07
Consensus pattern (30 bp):
AGCACCGATCGAACACCAAGAGAAAAACAA
Found at i:79500125 original size:17 final size:15
Alignment explanation
Indices: 79500103--79500136 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
79500093 ATGATATATC
79500103 TTTCTTTTCTTTTTCTT
1 TTTCTTTT-TTTTT-TT
79500120 TTTCTTTTTTTTTTT
1 TTTCTTTTTTTTTTT
79500135 TT
1 TT
79500137 GTAGTTTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 5 0.29
17 8 0.47
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (15 bp):
TTTCTTTTTTTTTTT
Found at i:79500472 original size:27 final size:28
Alignment explanation
Indices: 79500423--79500475 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
79500413 CTCATTACAA
*
79500423 TAATTAAAAATACAATATTTATAAAAAT
1 TAATTAAAAATACAATATGTATAAAAAT
**
79500451 TAATTAAAAATTTAA-ATGTATAAAA
1 TAATTAAAAATACAATATGTATAAAA
79500476 TCACATACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (28 bp):
TAATTAAAAATACAATATGTATAAAAAT
Found at i:79509921 original size:6 final size:6
Alignment explanation
Indices: 79509910--79509944 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
79509900 TTAAAGGTGT
*
79509910 TGGGGG TGGGGG TGGGGG TGGGGG TAGGGG TGGGG
1 TGGGGG TGGGGG TGGGGG TGGGGG TGGGGG TGGGG
79509945 AGGCGGAGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.80, T:0.17
Consensus pattern (6 bp):
TGGGGG
Found at i:79512311 original size:9 final size:8
Alignment explanation
Indices: 79512296--79512320 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
79512286 GATCCTTTGG
79512296 TAAAAAAA
1 TAAAAAAA
79512304 TAAAAAAA
1 TAAAAAAA
79512312 TAAAAAAA
1 TAAAAAAA
79512320 T
1 T
79512321 CTTCTGCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:79514039 original size:6 final size:6
Alignment explanation
Indices: 79514028--79514054 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
79514018 CGCTGCTTCA
79514028 GCCCCT GCCCCT GCCCCT GCCCCT GCC
1 GCCCCT GCCCCT GCCCCT GCCCCT GCC
79514055 TCCTCTCTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.67, G:0.19, T:0.15
Consensus pattern (6 bp):
GCCCCT
Found at i:79520787 original size:41 final size:42
Alignment explanation
Indices: 79520739--79520827 Score: 110
Period size: 41 Copynumber: 2.1 Consensus size: 42
79520729 AATAAAAGAG
*
79520739 TTAAAAATAAAAAAAAATACATTAATTAAAAA-TAAAAATAA-
1 TTAAAAATAAAAAAAAA-ACATTAATTAAAAATTAAAAAAAAC
** **
79520780 TTAAAAATATCATCAAAACATTAATTAAAAATTAAAAAAAAC
1 TTAAAAATAAAAAAAAAACATTAATTAAAAATTAAAAAAAAC
79520822 TTAAAA
1 TTAAAA
79520828 CAATATGAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
40 14 0.34
41 21 0.51
42 6 0.15
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (42 bp):
TTAAAAATAAAAAAAAAACATTAATTAAAAATTAAAAAAAAC
Found at i:79520817 original size:20 final size:20
Alignment explanation
Indices: 79520752--79520817 Score: 59
Period size: 24 Copynumber: 3.2 Consensus size: 20
79520742 AAAATAAAAA
79520752 AAAATACATTAATTAAAAA-T
1 AAAA-ACATTAATTAAAAATT
79520772 -AAAA-A-TAATTAAAAATAT
1 AAAAACATTAATTAAAAAT-T
79520790 CATCAAAACATTAATTAAAAATT
1 -A--AAAACATTAATTAAAAATT
79520813 AAAAA
1 AAAAA
79520818 AAACTTAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
16 10 0.26
17 1 0.03
18 2 0.05
19 3 0.08
20 4 0.11
22 5 0.13
23 2 0.05
24 11 0.29
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (20 bp):
AAAAACATTAATTAAAAATT
Found at i:79522211 original size:25 final size:26
Alignment explanation
Indices: 79522169--79522222 Score: 69
Period size: 25 Copynumber: 2.1 Consensus size: 26
79522159 AAATAATTAC
79522169 TTATTCGAATTGATTTAAA-AAATAAA
1 TTATTCGAATTGATTTAAATAAA-AAA
79522195 TTATTC-AATTCGA-TTAAATAAAAAA
1 TTATTCGAATT-GATTTAAATAAAAAA
79522220 TTA
1 TTA
79522223 AATTTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 15 0.58
26 11 0.42
ACGTcount: A:0.50, C:0.06, G:0.06, T:0.39
Consensus pattern (26 bp):
TTATTCGAATTGATTTAAATAAAAAA
Found at i:79523185 original size:13 final size:13
Alignment explanation
Indices: 79523169--79523214 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
79523159 GGTTGACGAG
*
79523169 AAAAAGTAAATAT
1 AAAAATTAAATAT
* *
79523182 AAAATTTTAAATTT
1 AAAA-ATTAAATAT
79523196 AAAAATTAAATAT
1 AAAAATTAAATAT
79523209 AAAAAT
1 AAAAAT
79523215 ATTTTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (13 bp):
AAAAATTAAATAT
Found at i:79523743 original size:23 final size:20
Alignment explanation
Indices: 79523716--79523759 Score: 52
Period size: 23 Copynumber: 2.0 Consensus size: 20
79523706 GTAGTACAAA
79523716 TTATAATTATAAAATTATATAAT
1 TTATAATTA-AAAA-TAT-TAAT
*
79523739 TTATACTTAAAAATATTAAT
1 TTATAATTAAAAATATTAAT
79523759 T
1 T
79523760 ATTGTAAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 5 0.25
21 3 0.15
22 4 0.20
23 8 0.40
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTATAATTAAAAATATTAAT
Found at i:79524009 original size:46 final size:46
Alignment explanation
Indices: 79523950--79524041 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
79523940 TTGGGTTATT
*
79523950 TCCTCTTCAATATTTAACATAAGCTCACTTTTATCAAATGTTGGTA
1 TCCTCTTCAATATTTAACATAAGCTCACTTTCATCAAATGTTGGTA
*
79523996 TCCTCTTTAATATTTAACATAAGCTCACTTTCATCAAATGTTGGTA
1 TCCTCTTCAATATTTAACATAAGCTCACTTTCATCAAATGTTGGTA
79524042 CTTGATCAAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.30, C:0.20, G:0.09, T:0.41
Consensus pattern (46 bp):
TCCTCTTCAATATTTAACATAAGCTCACTTTCATCAAATGTTGGTA
Found at i:79524338 original size:29 final size:30
Alignment explanation
Indices: 79524296--79524353 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
79524286 GTAAGTTATC
79524296 TCTTGTTACATTCTCTCAAATAAT-TCATT
1 TCTTGTTACATTCTCTCAAATAATATCATT
* *
79524325 TCTTGTTCCGTTCTCTCAAATAATATCAT
1 TCTTGTTACATTCTCTCAAATAATATCAT
79524354 AATCCACGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.26, C:0.22, G:0.05, T:0.47
Consensus pattern (30 bp):
TCTTGTTACATTCTCTCAAATAATATCATT
Found at i:79526361 original size:7 final size:7
Alignment explanation
Indices: 79526351--79526376 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
79526341 ATGTTAAGTA
79526351 TATATAT
1 TATATAT
79526358 TATATAT
1 TATATAT
79526365 TATATAT
1 TATATAT
79526372 TATAT
1 TATAT
79526377 TATATTATAA
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:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (7 bp):
TATATAT
Found at i:79526392 original size:19 final size:19
Alignment explanation
Indices: 79526349--79526392 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
79526339 AAATGTTAAG
*
79526349 TATA-TATATTATATATTA
1 TATATTATATTATATATAA
79526367 TATATTATATTATATTATAA
1 TATATTATATTATA-TATAA
79526387 TA-ATTA
1 TATATTA
79526393 AGTAAAAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 4 0.17
19 13 0.57
20 6 0.26
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTATATTATATATAA
Found at i:79527333 original size:41 final size:40
Alignment explanation
Indices: 79527284--79527394 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 40
79527274 TTTGACTTCG
79527284 AGTCGATGAGACACTGGGTGTCAATTTATTACTTCGGATTA
1 AGTCGATGAGACACTGGGTGTCAATTTATTACTTCGG-TTA
* * * * *
79527325 ATTCGATGAGGCATTGGGTGCCAATTTA-T--TTCGGTTT
1 AGTCGATGAGACACTGGGTGTCAATTTATTACTTCGGTTA
* * *
79527362 AGCCGATGAGACACTGTGTGTCAACTTATTACT
1 AGTCGATGAGACACTGGGTGTCAATTTATTACT
79527395 GCGAATTATC
Statistics
Matches: 55, Mismatches: 12, Indels: 7
0.74 0.16 0.09
Matches are distributed among these distances:
37 23 0.42
38 6 0.11
40 2 0.04
41 24 0.44
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (40 bp):
AGTCGATGAGACACTGGGTGTCAATTTATTACTTCGGTTA
Found at i:79527391 original size:37 final size:38
Alignment explanation
Indices: 79527287--79527391 Score: 104
Period size: 37 Copynumber: 2.7 Consensus size: 38
79527277 GACTTCGAGT
**
79527287 CGATGAGACACTGGGTGTCAATTTATTACTTCGGATTAATT
1 CGATGAGACACTGGGTGTCAATTTA-T--TTCGGATTAAGC
* * * *
79527328 CGATGAGGCATTGGGTGCCAATTTATTTCGG-TTTAGC
1 CGATGAGACACTGGGTGTCAATTTATTTCGGATTAAGC
* *
79527365 CGATGAGACACTGTGTGTCAACTTATT
1 CGATGAGACACTGGGTGTCAATTTATT
79527392 ACTGCGAATT
Statistics
Matches: 53, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
37 25 0.47
38 5 0.09
40 1 0.02
41 22 0.42
ACGTcount: A:0.24, C:0.16, G:0.25, T:0.35
Consensus pattern (38 bp):
CGATGAGACACTGGGTGTCAATTTATTTCGGATTAAGC
Found at i:79533724 original size:16 final size:18
Alignment explanation
Indices: 79533703--79533740 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
79533693 TTCTATATGG
79533703 ATTTTACT-TT-TATTTT
1 ATTTTACTGTTGTATTTT
79533719 ATTTTACTGTTGTATTTT
1 ATTTTACTGTTGTATTTT
79533737 ATTT
1 ATTT
79533741 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.18, C:0.05, G:0.05, T:0.71
Consensus pattern (18 bp):
ATTTTACTGTTGTATTTT
Found at i:79538196 original size:16 final size:18
Alignment explanation
Indices: 79538175--79538212 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
79538165 TTTTATATGA
79538175 ATTTTACT-TT-TATTTT
1 ATTTTACTATTGTATTTT
79538191 ATTTTACTATTGTATTTT
1 ATTTTACTATTGTATTTT
79538209 ATTT
1 ATTT
79538213 AAATAAGGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 8 0.40
17 2 0.10
18 10 0.50
ACGTcount: A:0.21, C:0.05, G:0.03, T:0.71
Consensus pattern (18 bp):
ATTTTACTATTGTATTTT
Found at i:79538281 original size:31 final size:31
Alignment explanation
Indices: 79538244--79538302 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
79538234 AATTCTAAAA
79538244 AAAATTAATATGAT-TATTTTTATTTAATATT
1 AAAATTAATAT-ATATATTTTTATTTAATATT
79538275 AAAATTAATATATATATTTTTATTTAAT
1 AAAATTAATATATATATTTTTATTTAAT
79538303 TAGATTTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (31 bp):
AAAATTAATATATATATTTTTATTTAATATT
Found at i:79544923 original size:46 final size:46
Alignment explanation
Indices: 79544873--79545136 Score: 413
Period size: 46 Copynumber: 5.7 Consensus size: 46
79544863 TGCCATAATG
* * * *
79544873 TCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACA-TTTCATATCAGGTTGCCATGGTA
* **** *
79544919 TCTTTCAACTATGGTCTTGTTTATTTCATATCACGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
79544965 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
*
79545011 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
79545057 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
79545103 TCTTTCAACCATGGTCTTACACATTTCATATCAG
1 TCTTTCAACCATGGTCTTACACATTTCATATCAG
79545137 AGAGCACACT
Statistics
Matches: 204, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 4 0.02
46 200 0.98
ACGTcount: A:0.22, C:0.23, G:0.14, T:0.40
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGGTA
Found at i:79547911 original size:30 final size:30
Alignment explanation
Indices: 79547876--79547956 Score: 105
Period size: 29 Copynumber: 2.7 Consensus size: 30
79547866 TTCGATAACG
79547876 TTAGTGACTATTTTGTTATTTTTGTAAAA-T
1 TTAGTGACTATTTTGTTATTTTT-TAAAATT
* *
79547906 TTAGTGACTGA-GTTG-TATCTTTTAAAATT
1 TTAGTGACT-ATTTTGTTATTTTTTAAAATT
79547935 TTAGTGACTATTTTGTTATTTT
1 TTAGTGACTATTTTGTTATTTT
79547957 AATCAAAGTT
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
28 6 0.14
29 19 0.44
30 17 0.40
31 1 0.02
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.56
Consensus pattern (30 bp):
TTAGTGACTATTTTGTTATTTTTTAAAATT
Found at i:79548369 original size:9 final size:9
Alignment explanation
Indices: 79548352--79548390 Score: 60
Period size: 9 Copynumber: 4.3 Consensus size: 9
79548342 GTTAAATTTT
79548352 ATAATTCGA
1 ATAATTCGA
*
79548361 ATAACTCGA
1 ATAATTCGA
*
79548370 ATAATTTGA
1 ATAATTCGA
79548379 ATAATTCGA
1 ATAATTCGA
79548388 ATA
1 ATA
79548391 GCATATGTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.10, G:0.10, T:0.33
Consensus pattern (9 bp):
ATAATTCGA
Found at i:79549746 original size:6 final size:6
Alignment explanation
Indices: 79549737--79549775 Score: 51
Period size: 6 Copynumber: 6.5 Consensus size: 6
79549727 GAAATATACC
* * *
79549737 GTAATA GTAACA GTAACA GTAATA GTAACA GTAATA GTA
1 GTAACA GTAACA GTAACA GTAACA GTAACA GTAACA GTA
79549776 GTGGTCAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.26
Consensus pattern (6 bp):
GTAACA
Found at i:79549757 original size:12 final size:12
Alignment explanation
Indices: 79549737--79549775 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
79549727 GAAATATACC
* *
79549737 GTAATAGTAACA
1 GTAACAGTAATA
79549749 GTAACAGTAATA
1 GTAACAGTAATA
79549761 GTAACAGTAATA
1 GTAACAGTAATA
79549773 GTA
1 GTA
79549776 GTGGTCAACA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.26
Consensus pattern (12 bp):
GTAACAGTAATA
Found at i:79549760 original size:18 final size:18
Alignment explanation
Indices: 79549737--79549775 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
79549727 GAAATATACC
79549737 GTAATAGTAACAGTAACA
1 GTAATAGTAACAGTAACA
*
79549755 GTAATAGTAACAGTAATA
1 GTAATAGTAACAGTAACA
79549773 GTA
1 GTA
79549776 GTGGTCAACA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.26
Consensus pattern (18 bp):
GTAATAGTAACAGTAACA
Found at i:79550400 original size:23 final size:23
Alignment explanation
Indices: 79550373--79550421 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
79550363 TCAATTGTAA
79550373 CTTGAATTTCTCCCACTTCAATC
1 CTTGAATTTCTCCCACTTCAATC
79550396 CTTGAATTTCTCCCACTTCAATC
1 CTTGAATTTCTCCCACTTCAATC
79550419 CTT
1 CTT
79550422 TTTATCTCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.35, G:0.04, T:0.41
Consensus pattern (23 bp):
CTTGAATTTCTCCCACTTCAATC
Found at i:79551116 original size:12 final size:12
Alignment explanation
Indices: 79551099--79551128 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
79551089 AGTCTCTTTT
79551099 AACAAAAATTAC
1 AACAAAAATTAC
79551111 AACAAAAATTAC
1 AACAAAAATTAC
79551123 AA-AAAA
1 AACAAAA
79551129 GATTTGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 4 0.22
12 14 0.78
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (12 bp):
AACAAAAATTAC
Found at i:79551229 original size:20 final size:17
Alignment explanation
Indices: 79551187--79551229 Score: 50
Period size: 20 Copynumber: 2.4 Consensus size: 17
79551177 TTTATATTTT
*
79551187 TTAAAAATTATAAAAAT
1 TTAAAAATTATAAAAAG
79551204 TTAAAAATATATAAGGAAAG
1 TTAAAAAT-TATAA--AAAG
79551224 TTAAAA
1 TTAAAA
79551230 TTTTAAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 8 0.36
18 5 0.23
20 9 0.41
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (17 bp):
TTAAAAATTATAAAAAG
Found at i:79556229 original size:15 final size:16
Alignment explanation
Indices: 79556204--79556233 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
79556194 AAGAGTCGAA
79556204 TTTTATATATTTATAC
1 TTTTATATATTTATAC
79556220 TTTT-TATATTTATA
1 TTTTATATATTTATA
79556234 TCTATAAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (16 bp):
TTTTATATATTTATAC
Found at i:79556481 original size:29 final size:29
Alignment explanation
Indices: 79556448--79556506 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
79556438 GTATAACAGT
79556448 AGGTGTCCTCGTTCATTTTATGATTTGAG
1 AGGTGTCCTCGTTCATTTTATGATTTGAG
79556477 AGGTGTCCTCGTTCATTTTATGATTTGAG
1 AGGTGTCCTCGTTCATTTTATGATTTGAG
79556506 A
1 A
79556507 TTATTTTTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.19, C:0.14, G:0.24, T:0.44
Consensus pattern (29 bp):
AGGTGTCCTCGTTCATTTTATGATTTGAG
Found at i:79558739 original size:17 final size:17
Alignment explanation
Indices: 79558717--79558753 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
79558707 GAAGTGAAAA
79558717 AGACAAAAAGGTTAATT
1 AGACAAAAAGGTTAATT
*
79558734 AGACAAAAAGGTTACTT
1 AGACAAAAAGGTTAATT
79558751 AGA
1 AGA
79558754 GTAGGTAAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.51, C:0.08, G:0.19, T:0.22
Consensus pattern (17 bp):
AGACAAAAAGGTTAATT
Found at i:79563335 original size:22 final size:23
Alignment explanation
Indices: 79563310--79563355 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
79563300 CAACCAAATC
79563310 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
79563332 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
79563355 A
1 A
79563356 CGTTATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:79567054 original size:23 final size:23
Alignment explanation
Indices: 79567028--79567072 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
79567018 TAGAAATGTG
*
79567028 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
79567051 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
79567073 TTGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:79581036 original size:26 final size:26
Alignment explanation
Indices: 79580999--79581057 Score: 100
Period size: 26 Copynumber: 2.2 Consensus size: 26
79580989 AATGAAAGCG
*
79580999 GTGATGATTTCTTGTTAGTGTCAATGA
1 GTGAT-ATTTCTTATTAGTGTCAATGA
79581026 GTGATATTTCTTATTAGTGTCAATGA
1 GTGATATTTCTTATTAGTGTCAATGA
79581052 GTGATA
1 GTGATA
79581058 AATCCAAGCT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
26 26 0.84
27 5 0.16
ACGTcount: A:0.25, C:0.07, G:0.24, T:0.44
Consensus pattern (26 bp):
GTGATATTTCTTATTAGTGTCAATGA
Found at i:79582048 original size:18 final size:19
Alignment explanation
Indices: 79582017--79582060 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
79582007 ACAGTACCTA
*
79582017 AACAGTAATCAGTAACGGT
1 AACAGTAATCAGTAACAGT
*
79582036 AGCAGTAAT-AGTAACAGT
1 AACAGTAATCAGTAACAGT
79582054 AACAGTA
1 AACAGTA
79582061 TTCAACACAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.20
Consensus pattern (19 bp):
AACAGTAATCAGTAACAGT
Found at i:79582054 original size:6 final size:6
Alignment explanation
Indices: 79582017--79582060 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
79582007 ACAGTACCTA
* * *
79582017 AACAGT AATCAGT AACGGT AGCAGT AATAGT AACAGT AACAGT A
1 AACAGT AA-CAGT AACAGT AACAGT AACAGT AACAGT AACAGT A
79582061 TTCAACACAC
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.45, C:0.14, G:0.20, T:0.20
Consensus pattern (6 bp):
AACAGT
Found at i:79582091 original size:45 final size:45
Alignment explanation
Indices: 79582041--79582150 Score: 159
Period size: 45 Copynumber: 2.4 Consensus size: 45
79582031 ACGGTAGCAG
* *
79582041 TAATAGTAACAGTAACAGTATTCAACACACAAAGTG-CTGAATCTA
1 TAATAGTAACGGTAACAGTATTCAACACACAAAGTGTC-GAATCGA
* *
79582086 TAATAGTAACGGTAACAGTATTCGACACACAAAGTGTCGAATCGG
1 TAATAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGA
*
79582131 TAATAGTAATGGTAACAGTA
1 TAATAGTAACGGTAACAGTA
79582151 ACAGTAGTCG
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 58 0.98
46 1 0.02
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (45 bp):
TAATAGTAACGGTAACAGTATTCAACACACAAAGTGTCGAATCGA
Found at i:79583250 original size:19 final size:17
Alignment explanation
Indices: 79583216--79583252 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
79583206 CTTTCTTTGT
79583216 TTTTCTTTTATATTTTA
1 TTTTCTTTTATATTTTA
79583233 TTTTCTTTGTATTATTTTA
1 TTTTCTTT-TA-TATTTTA
79583252 T
1 T
79583253 CATTTAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 2 0.11
19 8 0.44
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (17 bp):
TTTTCTTTTATATTTTA
Found at i:79583284 original size:25 final size:26
Alignment explanation
Indices: 79583254--79583303 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
79583244 TTATTTTATC
*
79583254 ATTTAACTAA-TATAAATTAT-TATTA
1 ATTTAA-TAATTATAAAATATCTATTA
79583279 ATTTAATAATTATAAAATATCTATT
1 ATTTAATAATTATAAAATATCTATT
79583304 TAATAATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 3 0.14
25 15 0.68
26 4 0.18
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
ATTTAATAATTATAAAATATCTATTA
Found at i:79585095 original size:14 final size:14
Alignment explanation
Indices: 79585076--79585103 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
79585066 TAAAGATTAA
79585076 AACTCATAACACAT
1 AACTCATAACACAT
79585090 AACTCATAACACAT
1 AACTCATAACACAT
79585104 TTAGAGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.29, G:0.00, T:0.21
Consensus pattern (14 bp):
AACTCATAACACAT
Found at i:79586808 original size:19 final size:19
Alignment explanation
Indices: 79586784--79586821 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
79586774 AGCCATTGTC
*
79586784 ACCCACTATAATCAAATTT
1 ACCCACCATAATCAAATTT
*
79586803 ACCCACCGTAATCAAATTT
1 ACCCACCATAATCAAATTT
79586822 GTTATTAACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.29, G:0.03, T:0.29
Consensus pattern (19 bp):
ACCCACCATAATCAAATTT
Found at i:79587862 original size:19 final size:19
Alignment explanation
Indices: 79587840--79587931 Score: 66
Period size: 19 Copynumber: 4.8 Consensus size: 19
79587830 TGAAAATTTA
79587840 AAAAATATATAAAAATCAT
1 AAAAATATATAAAAATCAT
* *
79587859 AAAAATGTA-AAGAAATTAT
1 AAAAATATATAA-AAATCAT
*
79587878 AAAAAGTATATATAAACTC-T
1 AAAAA-TATATA-AAAATCAT
* *
79587898 -AAAATATATATGAAATAAT
1 AAAAATATATA-AAAATCAT
*
79587917 -TAAATATATAAAAAT
1 AAAAATATATAAAAAT
79587932 TCAGGAAAAA
Statistics
Matches: 58, Mismatches: 10, Indels: 11
0.73 0.13 0.14
Matches are distributed among these distances:
18 16 0.28
19 33 0.57
20 4 0.07
21 4 0.07
22 1 0.02
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.29
Consensus pattern (19 bp):
AAAAATATATAAAAATCAT
Done.