Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 157 of 425
Found at i:47815778 original size:31 final size:31
Alignment explanation
Indices: 47815740--47815798 Score: 118
Period size: 31 Copynumber: 1.9 Consensus size: 31
47815730 CCAGAGTTAG
47815740 AAAAAAATTCATAATGTGTTTCATGTATTAC
1 AAAAAAATTCATAATGTGTTTCATGTATTAC
47815771 AAAAAAATTCATAATGTGTTTCATGTAT
1 AAAAAAATTCATAATGTGTTTCATGTAT
47815799 CGATGTTTCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.42, C:0.08, G:0.10, T:0.39
Consensus pattern (31 bp):
AAAAAAATTCATAATGTGTTTCATGTATTAC
Found at i:47819241 original size:13 final size:13
Alignment explanation
Indices: 47819223--47819252 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
47819213 GACATCACCG
47819223 TGTGTCTCAGCCA
1 TGTGTCTCAGCCA
47819236 TGTGTCTCAGCCA
1 TGTGTCTCAGCCA
47819249 TGTG
1 TGTG
47819253 AAGCACACGG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.27, G:0.27, T:0.33
Consensus pattern (13 bp):
TGTGTCTCAGCCA
Found at i:47822019 original size:40 final size:40
Alignment explanation
Indices: 47821974--47822140 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
47821964 CGGAATATAA
47821974 CCGGATATAATCAC-ATGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTA-GCACAAATGCCTTCGGGTCTTAGC
* * * *
47822014 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** ** *
47822054 CCGGATATAGCCACTAGCACATTTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
47822094 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
47822133 CCGGATAT
1 CCGGATAT
47822141 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 13 0.12
40 91 0.88
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:47825138 original size:47 final size:47
Alignment explanation
Indices: 47825082--47825201 Score: 204
Period size: 47 Copynumber: 2.6 Consensus size: 47
47825072 ATTGGCACTT
47825082 AGACAAGGATACCATGTAAGACCATGTTTGGAACATGCCATTTGGTA
1 AGACAAGGATACCATGTAAGACCATGTTTGGAACATGCCATTTGGTA
* *
47825129 AGACAAGGATACAATGTAAGACCATGTTTGGAACATGGCATTTGGTA
1 AGACAAGGATACCATGTAAGACCATGTTTGGAACATGCCATTTGGTA
* *
47825176 AGATAAGGATATCATGTAAGACCATG
1 AGACAAGGATACCATGTAAGACCATG
47825202 CCAAGGCATG
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 68 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (47 bp):
AGACAAGGATACCATGTAAGACCATGTTTGGAACATGCCATTTGGTA
Found at i:47825304 original size:55 final size:54
Alignment explanation
Indices: 47825180--47825374 Score: 214
Period size: 54 Copynumber: 3.6 Consensus size: 54
47825170 TTGGTAAGAT
* * * *
47825180 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGC
1 AAGGATACCATGTAAGAACATGCCAAGACATGGTATTGATAAGTTCTATAAGGC
* * *
47825234 AAGGAAATCATGTAAGAACATGTCAAGACATGGTATTGATAAGTTACTATAAGGC
1 AAGGATACCATGTAAGAACATGCCAAGACATGGTATTGATAAGTT-CTATAAGGC
* * * * *
47825289 AAAGG-TCCCATGTAAGAAAATGCCAAGGCATGGTATTGGTGAGTTC-ATAAGGC
1 -AAGGATACCATGTAAGAACATGCCAAGACATGGTATTGATAAGTTCTATAAGGC
* * * *
47825342 TAGGATACCACGTAAGACCATGTCAAGACATGG
1 AAGGATACCATGTAAGAACATGCCAAGACATGG
47825375 AAATGGTAAG
Statistics
Matches: 118, Mismatches: 20, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
52 3 0.03
53 29 0.25
54 41 0.35
55 41 0.35
56 4 0.03
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.23
Consensus pattern (54 bp):
AAGGATACCATGTAAGAACATGCCAAGACATGGTATTGATAAGTTCTATAAGGC
Found at i:47825385 original size:108 final size:109
Alignment explanation
Indices: 47825188--47825386 Score: 274
Period size: 108 Copynumber: 1.8 Consensus size: 109
47825178 ATAAGGATAT
** * *
47825188 CATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGAAC
1 CATGTAAGAAAATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGAAC
* *
47825253 ATGTCAAGACATGGTATTGATAAGTTACTATAAGGCAAAGGTCC
66 ATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTCC
* * * * * *
47825297 CATGTAAGAAAATGCCAAGGCATGGTATTGGTGAGTTC-ATAAGGCTAGGATACCACGTAAGACC
1 CATGTAAGAAAATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGAAC
*
47825361 ATGTCAAGACATGGAAATGGTAAGTT
66 ATGTCAAGACATGGAAATGATAAGTT
47825387 CAAAAAGGAA
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
108 44 0.57
109 33 0.43
ACGTcount: A:0.37, C:0.15, G:0.25, T:0.24
Consensus pattern (109 bp):
CATGTAAGAAAATGCCAAGGCATGGCATTGATAAGTTCTATAAGGCAAGGAAACCACGTAAGAAC
ATGTCAAGACATGGAAATGATAAGTTACTATAAGGCAAAGGTCC
Found at i:47830097 original size:15 final size:16
Alignment explanation
Indices: 47830061--47830098 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
47830051 ATTGTTTTCT
47830061 TTTTCATTTAATTAAA
1 TTTTCATTTAATTAAA
*
47830077 TTTTCATTTAA-TAAC
1 TTTTCATTTAATTAAA
47830092 TTTTCAT
1 TTTTCAT
47830099 CTTTCTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.32, C:0.11, G:0.00, T:0.58
Consensus pattern (16 bp):
TTTTCATTTAATTAAA
Found at i:47830512 original size:27 final size:27
Alignment explanation
Indices: 47830446--47830525 Score: 72
Period size: 27 Copynumber: 3.0 Consensus size: 27
47830436 ATTACATGGT
*
47830446 GTACGCCAGTAGGCCTGGCAAGTTGAA
1 GTACGCCAATAGGCCTGGCAAGTTGAA
* ** * *
47830473 GAAAACCACTAGGCCTGGCGAA-TTGGA
1 GTACGCCAATAGGCCTGGC-AAGTTGAA
* *
47830500 GTACGCCAATAGGCTTAGCAAGTTGA
1 GTACGCCAATAGGCCTGGCAAGTTGA
47830526 GGCTCGCCAG
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
26 2 0.05
27 35 0.90
28 2 0.05
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (27 bp):
GTACGCCAATAGGCCTGGCAAGTTGAA
Found at i:47835954 original size:26 final size:26
Alignment explanation
Indices: 47835878--47835954 Score: 82
Period size: 26 Copynumber: 3.0 Consensus size: 26
47835868 ACACCAATAT
* * *
47835878 CGCAGCAAAGCTACCAGTAATAATAT
1 CGCAGCAAAGCTGCCAGTAATAGTAA
** * *
47835904 CATAGCAGAGCTGCCAGTAACAGTAA
1 CGCAGCAAAGCTGCCAGTAATAGTAA
*
47835930 CGCAGCAAAGCTGCCAGTATTAGTA
1 CGCAGCAAAGCTGCCAGTAATAGTA
47835955 TATGTGGCAA
Statistics
Matches: 39, Mismatches: 12, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.18
Consensus pattern (26 bp):
CGCAGCAAAGCTGCCAGTAATAGTAA
Found at i:47837600 original size:24 final size:24
Alignment explanation
Indices: 47837573--47837625 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
47837563 TCCTAAAATC
* *
47837573 TCTCCATAATCCTATCCTTGATTT
1 TCTCCACAATCCTATCATTGATTT
* *
47837597 TCTCCCCAATCCTCTCATTGATTT
1 TCTCCACAATCCTATCATTGATTT
*
47837621 CCTCC
1 TCTCC
47837626 TCATAACACT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.38, G:0.04, T:0.42
Consensus pattern (24 bp):
TCTCCACAATCCTATCATTGATTT
Found at i:47844194 original size:19 final size:19
Alignment explanation
Indices: 47844159--47844196 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
47844149 GCGTGGAGCC
*
47844159 CACGAGCCCATTGGGCCCA
1 CACGAGCCCATTCGGCCCA
47844178 CACGA-CCCATTTCGGCCCA
1 CACGAGCCCA-TTCGGCCCA
47844197 ACATGGCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.21, C:0.45, G:0.21, T:0.13
Consensus pattern (19 bp):
CACGAGCCCATTCGGCCCA
Found at i:47847088 original size:48 final size:48
Alignment explanation
Indices: 47847017--47847303 Score: 402
Period size: 48 Copynumber: 6.0 Consensus size: 48
47847007 GACACCGTGC
* *
47847017 TAAATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGA
1 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
*
47847065 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGTGATGA
1 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
*
47847113 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGTCATCGGCGATGA
1 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* * *
47847161 TATATGTGCCTGTGTAAGACCATGTCTGGGACATGGCATTGGCGATGA
1 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
* * *
47847209 TATATGTGCCTGTGTAAGACCATGTATGGGACATGGCAT---CGATGA
1 TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
** ** *
47847254 TATGTGTGCCA-GTGTAAGACCATGTCCAGGACATGGCATCAGCGATGA
1 TAAATGTG-CATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
47847302 TA
1 TA
47847304 TGTGGATTCA
Statistics
Matches: 222, Mismatches: 13, Indels: 8
0.91 0.05 0.03
Matches are distributed among these distances:
45 38 0.17
46 1 0.00
48 183 0.82
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (48 bp):
TAAATGTGCATGTGTAAGACCATGTCTGGGACATGGCATCGGCGATGA
Found at i:47870319 original size:22 final size:20
Alignment explanation
Indices: 47870279--47870319 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
47870269 AGTCCTATTA
*
47870279 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
47870299 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
47870320 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:47871528 original size:16 final size:16
Alignment explanation
Indices: 47871507--47871547 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
47871497 TCAAATTACC
47871507 GGCACGAAGCCTACTA
1 GGCACGAAGCCTACTA
47871523 GGCACGAAGCCTACTA
1 GGCACGAAGCCTACTA
47871539 GGCACGAAG
1 GGCACGAAG
47871548 GCCCAAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.32, C:0.29, G:0.29, T:0.10
Consensus pattern (16 bp):
GGCACGAAGCCTACTA
Found at i:47871617 original size:40 final size:40
Alignment explanation
Indices: 47871562--47871917 Score: 559
Period size: 40 Copynumber: 8.9 Consensus size: 40
47871552 AAATACACAT
* * *
47871562 CACCAGCATGAATGCTCTTTGGGACCTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
47871602 CACCAGCACGAATGCTCTTCGGGACTTAACCCTGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
47871642 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
47871682 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * *
47871722 CTCCAGCACGAATGCTCTTCGAGACTTAGCCCGAATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
47871762 CACCAGCACGAATGCTCTTCGGGACTTAACCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
47871802 CTCCACCACGAATGCTCTTCGGGACTTAGCCCAGATATAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
47871842 CACCAGCACGTATGCTCTTCGGGACTTAGCCCGGATATAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
*
47871882 CTCCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
47871918 CATCGGCGAG
Statistics
Matches: 286, Mismatches: 30, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 286 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:47874330 original size:40 final size:40
Alignment explanation
Indices: 47874260--47874517 Score: 412
Period size: 40 Copynumber: 6.5 Consensus size: 40
47874250 AAGCCAAGTA
* * * *
47874260 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* * *
47874299 CCTTCGGGACATAGCCTGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47874339 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47874379 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATA
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47874419 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47874459 CCTTCGGGACTTAGCCCGGATATAGTAATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47874499 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
47874518 TTATCATCCA
Statistics
Matches: 205, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 12 0.06
40 193 0.94
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47882306 original size:40 final size:40
Alignment explanation
Indices: 47882244--47882500 Score: 410
Period size: 40 Copynumber: 6.5 Consensus size: 40
47882234 AAGCCAAGTA
* * * *
47882244 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCGAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
47882283 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47882323 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47882363 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATT
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47882403 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
47882443 CCTTCGGGACTTAGCCCGGATATAGTAACTCGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
47882483 CCTTCGGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
47882501 ATTATCATCC
Statistics
Matches: 206, Mismatches: 10, Indels: 3
0.94 0.05 0.01
Matches are distributed among these distances:
39 12 0.06
40 194 0.94
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:47888366 original size:45 final size:45
Alignment explanation
Indices: 47888311--47888412 Score: 143
Period size: 45 Copynumber: 2.3 Consensus size: 45
47888301 ACTTTTTACA
* ** *
47888311 ATTGGTCATTCGGCCTTATCACATATTCACTTACACATAT-ATCAT
1 ATTGGCCATTCGGCCTTATCACATACACACTTACACAT-TCATCAC
*
47888356 ATTGGCCATTCGGCCTTATCACATACACACTTTCACATTCATCAC
1 ATTGGCCATTCGGCCTTATCACATACACACTTACACATTCATCAC
47888401 ATTGGCCATTCG
1 ATTGGCCATTCG
47888413 ATCTTAAGCT
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 1 0.02
45 50 0.98
ACGTcount: A:0.26, C:0.28, G:0.11, T:0.34
Consensus pattern (45 bp):
ATTGGCCATTCGGCCTTATCACATACACACTTACACATTCATCAC
Found at i:47890996 original size:22 final size:20
Alignment explanation
Indices: 47890956--47890996 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
47890946 AGTCCTATTA
*
47890956 ACTAAATTCACATGCAATTG
1 ACTAAATTCACATGAAATTG
47890976 ACTAAATTCAAACATGAAATT
1 ACTAAATTC--ACATGAAATT
47890997 TTCACACATG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
22 9 0.50
ACGTcount: A:0.46, C:0.17, G:0.07, T:0.29
Consensus pattern (20 bp):
ACTAAATTCACATGAAATTG
Found at i:47894252 original size:12 final size:12
Alignment explanation
Indices: 47894237--47894262 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
47894227 GCATGCATAC
47894237 ATAAATATATAT
1 ATAAATATATAT
47894249 ATAAATATATAT
1 ATAAATATATAT
47894261 AT
1 AT
47894263 GCTTACAACC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAAATATATAT
Found at i:47901219 original size:2 final size:2
Alignment explanation
Indices: 47901212--47901239 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47901202 GCACCTTCCC
47901212 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47901240 CGAACAGAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47903578 original size:39 final size:40
Alignment explanation
Indices: 47903437--47903643 Score: 213
Period size: 40 Copynumber: 5.2 Consensus size: 40
47903427 TCAATGATAC
*
47903437 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* *
47903477 CCGGGCTAAGCCCCGAAGGCATTTATGCTAGTGATTACAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
** *
47903517 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
47903557 CCGGGC-AAGACCCGAAGGCATTTGTGCAAGTTACGAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * * * *
47903596 CCGGGTTATGACCCAAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
47903636 CC-GGCTAA
1 CCGGGCTAA
47903644 ATTTCGAAGA
Statistics
Matches: 138, Mismatches: 26, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
38 1 0.01
39 34 0.25
40 101 0.73
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:47903609 original size:79 final size:79
Alignment explanation
Indices: 47903437--47903643 Score: 222
Period size: 79 Copynumber: 2.6 Consensus size: 79
47903427 TCAATGATAC
* * *
47903437 CCGGGCTAAGTCCCGAAGGCATTTATGCTAG-TGATTATATCCGGGCTAAGCCCCGAAGGCATTT
1 CCGGGCTAAGACCCGAAGGCA-TTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTT
* ** *
47903501 ATGCTAGTGATTACAT
64 ATGCAAGTGACGAAAT
* *
47903517 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGC-AAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATT-GTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTA
*
47903581 TGCAAGTTACGAAAT
65 TGCAAGTGACGAAAT
* * * * *
47903596 CCGGGTTATGACCCAAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGACCCGAAGGC-ATTGTGCTAGTTGTTATATCCGGGCTAA
47903644 ATTTCGAAGA
Statistics
Matches: 107, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 62 0.58
80 40 0.37
81 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTAT
GCAAGTGACGAAAT
Found at i:47911553 original size:37 final size:40
Alignment explanation
Indices: 47911486--47911687 Score: 204
Period size: 40 Copynumber: 5.2 Consensus size: 40
47911476 TGAATGATAC
*
47911486 CCGGGCTAAGTCCCGAAGGCA-TTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
47911525 CCGGGCTAAG-CCCG-AGG-ATTTATGCTAGTGATTA-AT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
** *
47911561 CCGGGCTAAGA-CCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAG-TGATTATAT
* * * ** *
47911600 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
* * * * *
47911640 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
47911680 CC-GGCTAA
1 CCGGGCTAA
47911688 ATTCCGAAGA
Statistics
Matches: 136, Mismatches: 19, Indels: 16
0.80 0.11 0.09
Matches are distributed among these distances:
36 16 0.12
37 21 0.15
38 15 0.11
39 31 0.23
40 53 0.39
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCTAGTGATTATAT
Found at i:47911609 original size:75 final size:78
Alignment explanation
Indices: 47911486--47911687 Score: 218
Period size: 75 Copynumber: 2.6 Consensus size: 78
47911476 TGAATGATAC
* *
47911486 CCGGGCTAAGTCCCGAAGGCATTATGCTAG-TGATTATATCCGGGCTAAG-CCCG-AGG-ATTTA
1 CCGGGCTAAG-ACCGAAGGCATTGTGCTAGTTG-TTATATCCGGGCTAAGACCCGAAGGCATTTA
* **
47911547 TGCTAGTGA-TTAAT
64 TGCAAGTGACCAAAT
* *
47911561 CCGGGCTAAGACCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTGT
1 CCGGGCTAAGACCGAAGGCATT-GTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTAT
*
47911626 GCAAGTTACCAAAT
65 GCAAGTGACCAAAT
* * *
47911640 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC-GGCTAA
1 CCGGGCTAAGA-CCGAAGGC-ATTGTGCTAGTTGTTATATCCGGGCTAA
47911688 ATTCCGAAGA
Statistics
Matches: 107, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
74 11 0.10
75 31 0.29
76 6 0.06
77 3 0.03
78 11 0.10
79 19 0.18
80 23 0.21
81 3 0.03
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (78 bp):
CCGGGCTAAGACCGAAGGCATTGTGCTAGTTGTTATATCCGGGCTAAGACCCGAAGGCATTTATG
CAAGTGACCAAAT
Found at i:47913464 original size:32 final size:33
Alignment explanation
Indices: 47913418--47913490 Score: 112
Period size: 32 Copynumber: 2.2 Consensus size: 33
47913408 ATTTGCATTT
*
47913418 CTGATACTGAACTGTAATGGGCTAA-GCCCACA
1 CTGATACTGAACTGTAATGAGCTAAGGCCCACA
*
47913450 CTGATACTGTACTGTAATGAGCTAAGGCCCACA
1 CTGATACTGAACTGTAATGAGCTAAGGCCCACA
*
47913483 CCGATACT
1 CTGATACT
47913491 AGACTGATAC
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
32 23 0.62
33 14 0.38
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.23
Consensus pattern (33 bp):
CTGATACTGAACTGTAATGAGCTAAGGCCCACA
Found at i:47921253 original size:32 final size:33
Alignment explanation
Indices: 47921208--47921271 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
47921198 TTTGCATTTC
47921208 TGATACTGAACTGTAATGGGCTA-AGCCCACAT
1 TGATACTGAACTGTAATGGGCTATAGCCCACAT
** *
47921240 TGATACTTTACTGTAATGGGCTATGGCCCACA
1 TGATACTGAACTGTAATGGGCTATAGCCCACA
47921272 CCAATACTAG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 21 0.75
33 7 0.25
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (33 bp):
TGATACTGAACTGTAATGGGCTATAGCCCACAT
Found at i:47921279 original size:33 final size:32
Alignment explanation
Indices: 47921217--47921279 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 32
47921207 CTGATACTGA
***
47921217 ACTGTAATGGGCTAAGCCCACATTGATACTTT
1 ACTGTAATGGGCTAAGCCCACACCAATACTTT
*
47921249 ACTGTAATGGGCTATGGCCCACACCAATACT
1 ACTGTAATGGGCTA-AGCCCACACCAATACT
47921280 AGACTGATAC
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 14 0.54
33 12 0.46
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (32 bp):
ACTGTAATGGGCTAAGCCCACACCAATACTTT
Found at i:47922891 original size:27 final size:28
Alignment explanation
Indices: 47922861--47922930 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
47922851 ATAGTGAATC
*
47922861 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
47922888 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
47922916 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47922931 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:47923002 original size:42 final size:42
Alignment explanation
Indices: 47922938--47923044 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
47922928 GCTGTACAAT
* *
47922938 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
47922980 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
47923022 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
47923045 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:47929811 original size:27 final size:28
Alignment explanation
Indices: 47929781--47929850 Score: 97
Period size: 27 Copynumber: 2.5 Consensus size: 28
47929771 ATAGTGAATC
*
47929781 CGCACACTTAGTGCTATAAAATC-AGCT
1 CGCACACTTAGTGCTATAAAATCAAACT
* * *
47929808 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATAAAATCAAACT
47929836 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
47929851 GTACAATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
27 21 0.57
28 16 0.43
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATAAAATCAAACT
Found at i:47929922 original size:42 final size:42
Alignment explanation
Indices: 47929858--47929964 Score: 196
Period size: 42 Copynumber: 2.5 Consensus size: 42
47929848 GCTGTACAAT
* *
47929858 TTTAAACCCGCACACGTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
47929900 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
1 TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
47929942 TTTATACCCGCACACTTAGTGCC
1 TTTATACCCGCACACTTAGTGCC
47929965 GAGACCAATA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.22, C:0.34, G:0.15, T:0.29
Consensus pattern (42 bp):
TTTATACCCGCACACTTAGTGCCAATCTTGTCACCGTGTCCA
Found at i:47936450 original size:28 final size:29
Alignment explanation
Indices: 47936383--47936483 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
47936373 ATAGTGAATC
*
47936383 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
47936412 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
47936440 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
47936470 CGCACACTTAGTGC
1 CGCACACTTAGTGC
47936484 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:47940798 original size:48 final size:48
Alignment explanation
Indices: 47940715--47940850 Score: 155
Period size: 48 Copynumber: 2.8 Consensus size: 48
47940705 GGCTATTGGC
* * * *
47940715 ATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATCTACA
1 ATCCCATGTAAGACCATGTCTAGGATATGGAATTGGCATCGATATACA
* * * * ***
47940763 ATCCCATGTAAGACCATGTCTAAGATAGGGTATTGGCATTGATATGTG
1 ATCCCATGTAAGACCATGTCTAGGATATGGAATTGGCATCGATATACA
* *
47940811 ATCCCATGTAAAACCATATCTAGGATATGGAATTGGCATC
1 ATCCCATGTAAGACCATGTCTAGGATATGGAATTGGCATC
47940851 CTACCATGTG
Statistics
Matches: 72, Mismatches: 16, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
48 72 1.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (48 bp):
ATCCCATGTAAGACCATGTCTAGGATATGGAATTGGCATCGATATACA
Found at i:47946497 original size:27 final size:27
Alignment explanation
Indices: 47946467--47946635 Score: 194
Period size: 27 Copynumber: 6.3 Consensus size: 27
47946457 GGGGCAAAAT
* * * *
47946467 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47946494 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47946521 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
47946548 AGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47946575 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* **** *
47946602 GGTAATTTTACAAGCCAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
47946629 GGTAATT
1 GGTAATT
47946636 TTACAAACCA
Statistics
Matches: 124, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:47946621 original size:81 final size:81
Alignment explanation
Indices: 47946468--47946692 Score: 240
Period size: 81 Copynumber: 2.8 Consensus size: 81
47946458 GGGCAAAATG
* * * * * * *
47946468 GTAATTTTACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTCGATAATTCTACC
1 GTAATTTTACCCAACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACA
**
47946533 CTACAGGGGTATTTCA
66 AGACAGGGGTATTTCA
*
47946549 GT-ATTTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTAC
1 GTAATTT-TACCCAACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTAC
* **
47946613 AAGCCAGGGGTATTTTG
65 AAGACAGGGGTATTTCA
* * * **
47946630 GTAATTTTA-CAAACCAAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTAATTTTA
1 GTAATTTTACCCAA-CAAGGGTATTTCAGTAATTCTACCCTA-CAGGGGTATTTTGGTAATTTTA
47946693 TCATATAACT
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
80 8 0.07
81 110 0.90
82 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (81 bp):
GTAATTTTACCCAACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACA
AGACAGGGGTATTTCA
Found at i:47946624 original size:54 final size:53
Alignment explanation
Indices: 47946509--47946681 Score: 172
Period size: 54 Copynumber: 3.2 Consensus size: 53
47946499 TTCTACCCTA
* **
47946509 CAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCAGT-ATTTCTACCCTA-
1 CAGGGGTATTTCG-TAATTCTACCCTACAGGGGTATTTTAGTAATTT-TA-CAAAC
* * *
47946563 CAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTC-GTAATTCTACCCTACAGGGGTATTTTAGTAATTTTACAAAC
* * ** *
47946617 CAGGGGTATTTTGGTAATTTTA-CAAACCAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTA-TTTCGTAATTCTACCCTA-CAGGGGTATTTTAGTAATTTTACAAAC
47946671 CAGGGGTATTT
1 CAGGGGTATTT
47946682 TGGTAATTTT
Statistics
Matches: 100, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
53 6 0.06
54 86 0.86
55 8 0.08
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (53 bp):
CAGGGGTATTTCGTAATTCTACCCTACAGGGGTATTTTAGTAATTTTACAAAC
Found at i:47946636 original size:27 final size:27
Alignment explanation
Indices: 47946590--47946692 Score: 179
Period size: 27 Copynumber: 3.8 Consensus size: 27
47946580 TTCTACCCTA
*
47946590 CAGGGGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAAAC
47946617 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
* *
47946644 CAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
47946671 CAGGGGTATTTTGGTAATTTTA
1 CAGGGGTATTTTGGTAATTTTA
47946693 TCATATAACT
Statistics
Matches: 71, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.29, C:0.10, G:0.22, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:47946752 original size:25 final size:25
Alignment explanation
Indices: 47946724--47946811 Score: 133
Period size: 25 Copynumber: 3.5 Consensus size: 25
47946714 CTCTTTTAAT
*
47946724 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTTGGTA
47946749 AACTGGGGCAAAG-CCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTT-GGTA
*
47946774 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTGGTA
*
47946799 AACTGAGGCAAAG
1 AACTGGGGCAAAG
47946812 TTCGTTTAGC
Statistics
Matches: 58, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
24 7 0.12
25 45 0.78
26 6 0.10
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTTGGTA
Found at i:47947082 original size:27 final size:27
Alignment explanation
Indices: 47947021--47947161 Score: 187
Period size: 27 Copynumber: 5.3 Consensus size: 27
47947011 GGGGCAAAAT
* *
47947021 GGTAATTTTACCCCACAAGGGT-TTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47947047 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
47947074 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
**
47947101 GGTGTTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
47947128 GGTAATTCTACCCTAC-AGGAGTATTTT
1 GGTAATTCTACCCTACAAGG-GTATTTC
47947155 GGTAATT
1 GGTAATT
47947162 TTACAAGCCA
Statistics
Matches: 100, Mismatches: 13, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
26 22 0.22
27 78 0.78
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.37
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:47947109 original size:54 final size:54
Alignment explanation
Indices: 47947021--47947158 Score: 206
Period size: 54 Copynumber: 2.6 Consensus size: 54
47947011 GGGGCAAAAT
* * *
47947021 GGTAATTTTACCCCACAAGGGT-TTTCGGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
* *
47947074 GGTAATTCTACCCTATAGGGGTATTTCGGTGTTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
* *
47947128 GGTAATTCTACCCTACAGGAGTATTTTGGTA
1 GGTAATTCTACCCTACAGGGGTATTTCGGTA
47947159 ATTTTACAAG
Statistics
Matches: 75, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
53 18 0.24
54 57 0.76
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (54 bp):
GGTAATTCTACCCTACAGGGGTATTTCGGTATTTCTACCCTACAAGGGTATTTC
Found at i:47947175 original size:81 final size:80
Alignment explanation
Indices: 47947029--47947180 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 80
47947019 ATGGTAATTT
* *** *
47947029 TACCCCACAAGGGTTTTCGGTATTTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTATAGGG
1 TACCCCACAAGGGTTTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACAAGACAGGG
47947094 GTATTTCGGTGTTTC
66 GTATTTCGGTGTTTC
* * * *
47947109 TACCCTACAAGGGTATTTCGGTAATTCTACCCTAC-AGGAGTATTTTGGTAATTTTACAAGCCAG
1 TACCCCACAAGGGT-TTTCGGTAATTCTACCCTACAAGG-GTATTTCGGTAATTCTACAAGACAG
47947173 GGGTATTT
64 GGGTATTT
47947181 TGGTAATTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
80 16 0.26
81 45 0.74
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (80 bp):
TACCCCACAAGGGTTTTCGGTAATTCTACCCTACAAGGGTATTTCGGTAATTCTACAAGACAGGG
GTATTTCGGTGTTTC
Found at i:47947177 original size:54 final size:54
Alignment explanation
Indices: 47947065--47947242 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 54
47947055 TACCCTACAA
* * * ** *
47947065 GGGTATTTCGGTAATTCTACCCTATAGGGGTATTTCGGT-GTTTCTACCCTA-CAA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTT-TA-CAAACCAG
* *
47947119 GGGTATTTCGGTAATTCTACCCTACAGGAGTATTTTGGTAATTTTACAAGCCAG
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAG
* * ** *
47947173 GGGTATTTTGGTAATTTTA-CAAACCAGGGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTCGGTAATTCTACCCTA-CAGGGGTATTTTGGTAATTTTACAAACCAG
*
47947227 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
47947243 TTTCTAATCG
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
53 3 0.03
54 100 0.94
55 3 0.03
ACGTcount: A:0.25, C:0.15, G:0.22, T:0.38
Consensus pattern (54 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTTTACAAACCAG
Found at i:47947258 original size:27 final size:27
Alignment explanation
Indices: 47947143--47947244 Score: 177
Period size: 27 Copynumber: 3.8 Consensus size: 27
47947133 TTCTACCCTA
* *
47947143 CAGGAGTATTTTGGTAATTTTACAAGC
1 CAGGGGTATTTTGGTAATTTTACAAAC
47947170 CAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
*
47947197 CAGGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTACAAAC
47947224 CAGGGGTATTTTGGTAATTTT
1 CAGGGGTATTTTGGTAATTTT
47947245 TCTAATCGAG
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 71 1.00
ACGTcount: A:0.28, C:0.10, G:0.23, T:0.39
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTACAAAC
Found at i:47947268 original size:27 final size:27
Alignment explanation
Indices: 47947248--47947393 Score: 222
Period size: 27 Copynumber: 5.4 Consensus size: 27
47947238 TAATTTTTCT
* *
47947248 AATCGAGGGTAAAACGATAATTTTGTA
1 AATCGAGGGTAAAACGATAATTCTATA
47947275 AATCGAGGGTAAAACGATAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTATA
* *
47947302 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGATAATTCTATA
*
47947329 AATCGAGGGTAAAAC-AGTAATTCTGTA
1 AATCGAGGGTAAAACGA-TAATTCTATA
*
47947356 AATCGAGGGTAAAACGATAATTCTGTA
1 AATCGAGGGTAAAACGATAATTCTATA
47947383 AATCGAGGGTA
1 AATCGAGGGTA
47947394 CTTTGGTAAT
Statistics
Matches: 110, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
27 109 0.99
28 1 0.01
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACGATAATTCTATA
Found at i:47947410 original size:81 final size:81
Alignment explanation
Indices: 47947227--47947410 Score: 264
Period size: 81 Copynumber: 2.3 Consensus size: 81
47947217 TACAAACCAG
* * *
47947227 GGGTATTTTGGTAATTTT-TCTAATCGAGGGTAAAACGATAATTTTGTAAATCGAGGGTAAAACG
1 GGGTAATTTGGTAATTTTAT-AAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACG
47947291 ATAATTCTATAAATCGA
65 ATAATTCTATAAATCGA
** *
47947308 GGGTAAAATGGTAATTCTATAAATCGAGGGTAAAAC-AGTAATTCTGTAAATCGAGGGTAAAACG
1 GGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACGA-TAATTCTGTAAATCGAGGGTAAAACG
*
47947372 ATAATTCTGTAAATCGA
65 ATAATTCTATAAATCGA
*
47947389 GGGTACTTTGGTAATTTTATAA
1 GGGTAATTTGGTAATTTTATAA
47947411 TTGAAGGCAT
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
80 1 0.01
81 88 0.98
82 1 0.01
ACGTcount: A:0.37, C:0.09, G:0.22, T:0.33
Consensus pattern (81 bp):
GGGTAATTTGGTAATTTTATAAATCGAGGGTAAAACGATAATTCTGTAAATCGAGGGTAAAACGA
TAATTCTATAAATCGA
Found at i:47949861 original size:24 final size:23
Alignment explanation
Indices: 47949820--47949916 Score: 77
Period size: 25 Copynumber: 4.0 Consensus size: 23
47949810 GCTTTATCAT
**
47949820 ATAACTGGAGGCCTAGCCTCTTTTA
1 ATAACT-GAGGCAAAGCC-CTTTTA
*
47949845 ATAACTGAGGCAAAGCCCTTTTTG
1 ATAACTGAGGCAAAGCCC-TTTTA
* *
47949869 ATAAACTGGGGCAAAGCCCTTTTCG
1 AT-AACTGAGGCAAAGCCCTTTT-A
* *
47949894 GTAAACTGGGGCAAAGCCCTTTT
1 AT-AACTGAGGCAAAGCCCTTTT
47949917 CCGTAAACTG
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
23 1 0.02
24 19 0.30
25 44 0.69
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (23 bp):
ATAACTGAGGCAAAGCCCTTTTA
Found at i:47949875 original size:25 final size:24
Alignment explanation
Indices: 47949847--47949937 Score: 137
Period size: 25 Copynumber: 3.7 Consensus size: 24
47949837 CTCTTTTAAT
* *
47949847 AACTGAGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCG-TA
47949872 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTC-GTA
47949897 AACTGGGGCAAAGCCCTTTTCCGTA
1 AACTGGGGCAAAGCCCTTTT-CGTA
47949922 AACTGGGGCAAAGCCC
1 AACTGGGGCAAAGCCC
47949938 GTTTAGCACT
Statistics
Matches: 62, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
25 60 0.97
26 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.22
Consensus pattern (24 bp):
AACTGGGGCAAAGCCCTTTTCGTA
Found at i:47950174 original size:27 final size:27
Alignment explanation
Indices: 47950144--47950368 Score: 177
Period size: 27 Copynumber: 8.3 Consensus size: 27
47950134 GGGGCAAAAT
* * *
47950144 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTTTACCCTACAGGGGTATTTC
*
47950171 GGTAATTTTACCTTACAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
47950198 GGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* *
47950225 GGT-ATTTCTACCCTACAAGGGTATTTT
1 GGTAATTT-TACCCTACAGGGGTATTTC
* * *
47950252 AGTAATTCTACCCTATAGGGGTATTTC
1 GGTAATTTTACCCTACAGGGGTATTTC
* **** *
47950279 TGTAATTTTACAAGCCAGGGGTATTTT
1 GGTAATTTTACCCTACAGGGGTATTTC
** * *
47950306 GGTAATTTTA-CAAACTAGGGTTATTTT
1 GGTAATTTTACCCTAC-AGGGGTATTTC
* ** *
47950333 AGTAATTTTA-CAAACCAGGGGTATTTT
1 GGTAATTTTACCCTA-CAGGGGTATTTC
47950360 GGTAATTTT
1 GGTAATTTT
47950369 TCTAATCGAG
Statistics
Matches: 162, Mismatches: 32, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
26 5 0.03
27 153 0.94
28 4 0.02
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (27 bp):
GGTAATTTTACCCTACAGGGGTATTTC
Found at i:47950202 original size:54 final size:54
Alignment explanation
Indices: 47950143--47950366 Score: 211
Period size: 54 Copynumber: 4.1 Consensus size: 54
47950133 AGGGGCAAAA
* * * * * *
47950143 TGGTAATTTTACCCCACAAGGGTATCTCGGTAATTTTACCTTACAGGGGTATTT
1 TGGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTACCATACAGGGGTATTT
* * *
47950197 CGGTAATTCTACCCTATAGGGGTATTTCGGT-ATTTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTATAGGGGTATTTCGGTAATTT-TACCATACAGGGGTATTT
* * * **
47950251 TAGTAATTCTACCCTATAGGGGTATTTCTGTAATTTTACAAGCCAGGGGTATTT
1 TGGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTACCATACAGGGGTATTT
* ** * ** *
47950305 TGGTAATTTTA-CAAACTAGGGTTATTTTAGTAATTTTA-CAAACCAGGGGTATTT
1 TGGTAATTCTACCCTA-TAGGGGTATTTCGGTAATTTTACCATA-CAGGGGTATTT
47950359 TGGTAATT
1 TGGTAATT
47950367 TTTCTAATCG
Statistics
Matches: 140, Mismatches: 26, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
53 7 0.05
54 129 0.92
55 4 0.03
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (54 bp):
TGGTAATTCTACCCTATAGGGGTATTTCGGTAATTTTACCATACAGGGGTATTT
Found at i:47950392 original size:54 final size:54
Alignment explanation
Indices: 47950280--47950393 Score: 140
Period size: 54 Copynumber: 2.1 Consensus size: 54
47950270 GGGTATTTCT
* * ***
47950280 GTAATTTTACAAGCCAGGGGTATTTTGGTAATTTTACAAACTAGGGTTATTTTA
1 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACGAGGGTTAAAATA
* * *
47950334 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTTCTAATCGAGGG-TAAAATG
1 GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTAC-AAACGAGGGTTAAAATA
47950388 GTAATT
1 GTAATT
47950394 CTGTAAATCG
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 44 0.86
55 7 0.14
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GTAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAACGAGGGTTAAAATA
Found at i:47950528 original size:27 final size:27
Alignment explanation
Indices: 47950372--47950517 Score: 238
Period size: 27 Copynumber: 5.4 Consensus size: 27
47950362 TAATTTTTCT
47950372 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
**
47950399 AATCGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
* *
47950426 AATCGATGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATGGTAATTCTGTA
47950453 AATCGAGGGTAAAATGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
47950480 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAATGGTAATTCTGTA
*
47950507 AATCAAGGGTA
1 AATCGAGGGTA
47950518 CTTTGGTAAT
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 109 1.00
ACGTcount: A:0.39, C:0.09, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAATGGTAATTCTGTA
Found at i:47950542 original size:81 final size:81
Alignment explanation
Indices: 47950351--47950542 Score: 276
Period size: 81 Copynumber: 2.4 Consensus size: 81
47950341 TACAAACCAG
* * *
47950351 GGGTATTTTGGTAATTTTTCTAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAG
1 GGGTAATTTGGTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAG
*
47950416 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCAA
* ** * * *
47950432 TGGTAAAATGGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGG
1 GGGTAATTTGGTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAG
47950497 TAATTCTGTAAATCAA
66 TAATTCTGTAAATCAA
* *
47950513 GGGTACTTTGGTAATTTTACAAATTGAGGG
1 GGGTAATTTGGTAATTTTACAAATCGAGGG
47950543 CATTTCAGTA
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.35, C:0.08, G:0.24, T:0.33
Consensus pattern (81 bp):
GGGTAATTTGGTAATTTTACAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAG
TAATTCTGTAAATCAA
Found at i:47952723 original size:40 final size:40
Alignment explanation
Indices: 47952668--47952884 Score: 262
Period size: 40 Copynumber: 5.5 Consensus size: 40
47952658 TGGATGATAA
* * *
47952668 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAT
* * *
47952708 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
47952748 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
** *
47952788 CCGAACTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
47952828 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
47952867 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
47952885 TACTTGGCTT
Statistics
Matches: 153, Mismatches: 22, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
38 15 0.10
39 15 0.10
40 123 0.80
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:47959163 original size:46 final size:44
Alignment explanation
Indices: 47959064--47959176 Score: 138
Period size: 46 Copynumber: 2.5 Consensus size: 44
47959054 GTAACCGTGT
* *
47959064 CGATGCATGTCCCAGACATTTCTTACACTAGCACATCTCGTAGC
1 CGATGCATGTCCCAGACATGTCTGACACTAGCACATCTCGTAGC
* *
47959108 CGACGCATGTCCCAGACATGTCTGACACTGGCTAACATCTCG-AGGC
1 CGATGCATGTCCCAGACATGTCTGACACTAGC--ACATCTCGTA-GC
* *
47959154 CGGTGCATGTCCCAGACAAGTCT
1 CGATGCATGTCCCAGACATGTCT
47959177 TACTTTTCAA
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
44 28 0.47
45 1 0.02
46 30 0.51
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (44 bp):
CGATGCATGTCCCAGACATGTCTGACACTAGCACATCTCGTAGC
Found at i:47962036 original size:40 final size:40
Alignment explanation
Indices: 47961980--47962204 Score: 351
Period size: 40 Copynumber: 5.6 Consensus size: 40
47961970 CAAACTCAAG
* *
47961980 TGCCTTCGGGATTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
47962020 AGCCTTCGGGACTTAGCCCGGATATAGTCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* * *
47962060 AGCCTTCGGGACTTAGCCCAGATATAATCATTAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
47962100 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
47962140 TGCCTTCGGGACTTAGCCCGGATATAATCACTAGCATAAA
1 TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
* *
47962180 TGCCCTCGGGACTTAACCCGGATAT
1 TGCCTTCGGGACTTAGCCCGGATAT
47962205 CATTCGAATA
Statistics
Matches: 173, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 173 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAA
Found at i:47965740 original size:28 final size:29
Alignment explanation
Indices: 47965697--47965764 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 29
47965687 CAAGTCTACA
*
47965697 TACATGCATATAGCCCACTAGGCCC-AAT
1 TACATTCATATAGCCCACTAGGCCCAAAT
* *
47965725 CT-CATTCATATGGCCCATTAGGCCCAAAT
1 -TACATTCATATAGCCCACTAGGCCCAAAT
47965754 TACATTCATAT
1 TACATTCATAT
47965765 TCATGCTTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
28 21 0.62
29 13 0.38
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.28
Consensus pattern (29 bp):
TACATTCATATAGCCCACTAGGCCCAAAT
Found at i:47966024 original size:15 final size:16
Alignment explanation
Indices: 47965981--47966026 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 16
47965971 AAACTTTTGA
*
47965981 CTTTTCTGCATTTCGG
1 CTTTTCAGCATTTCGG
**
47965997 CTTTTTGGC-TTTCGG
1 CTTTTCAGCATTTCGG
47966012 C-TTTCAGCATTTCGG
1 CTTTTCAGCATTTCGG
47966027 GATTTGTCGA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
14 5 0.20
15 13 0.52
16 7 0.28
ACGTcount: A:0.07, C:0.24, G:0.22, T:0.48
Consensus pattern (16 bp):
CTTTTCAGCATTTCGG
Found at i:47967105 original size:27 final size:27
Alignment explanation
Indices: 47967067--47967120 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
47967057 GGCTTTCTTG
47967067 TGTCCAATTCTTCCTTCATTTATTTAA
1 TGTCCAATTCTTCCTTCATTTATTTAA
47967094 TGTCCAATTCTTCCTTCATTTATTTAA
1 TGTCCAATTCTTCCTTCATTTATTTAA
47967121 AAGCCAACTT
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:0.22, C:0.22, G:0.04, T:0.52
Consensus pattern (27 bp):
TGTCCAATTCTTCCTTCATTTATTTAA
Found at i:47975033 original size:16 final size:16
Alignment explanation
Indices: 47975009--47975039 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47974999 TGGTTATTTA
*
47975009 ATATTTGATGCAAATT
1 ATATATGATGCAAATT
47975025 ATATATGATGCAAAT
1 ATATATGATGCAAAT
47975040 GAAAATATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.13, T:0.39
Consensus pattern (16 bp):
ATATATGATGCAAATT
Found at i:47975049 original size:19 final size:19
Alignment explanation
Indices: 47975025--47975068 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
47975015 GATGCAAATT
47975025 ATATATGATGCAAATG-AAA
1 ATATATG-TGCAAATGAAAA
* *
47975044 ATATATGTGTATATGAAAA
1 ATATATGTGCAAATGAAAA
47975063 ATATAT
1 ATATAT
47975069 TCAGCCAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.50, C:0.02, G:0.14, T:0.34
Consensus pattern (19 bp):
ATATATGTGCAAATGAAAA
Found at i:47982035 original size:39 final size:39
Alignment explanation
Indices: 47981896--47982062 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 39
47981886 CAATTGAATG
* *
47981896 ATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTG--TT
*
47981937 -TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAG-TGTT
* *
47981976 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-GTT
*
47982016 ATAT-CGGGCTAAGACCCGAAGGCATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGT-GTT
47982055 ATATCCGG
1 ATATCCGG
47982063 TTGTATTCCG
Statistics
Matches: 112, Mismatches: 9, Indels: 11
0.85 0.07 0.08
Matches are distributed among these distances:
39 41 0.37
40 69 0.62
41 2 0.02
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGTT
Found at i:47982045 original size:79 final size:79
Alignment explanation
Indices: 47981896--47982062 Score: 230
Period size: 79 Copynumber: 2.1 Consensus size: 79
47981886 CAATTGAATG
* *
47981896 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
47981961 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
47981976 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATAT-CGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
47982039 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
47982055 ATATCCGG
1 ATATCCGG
47982063 TTGTATTCCG
Statistics
Matches: 78, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
79 42 0.54
80 35 0.45
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:47994707 original size:8 final size:8
Alignment explanation
Indices: 47994691--47994723 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
47994681 TAATGTTAGT
*
47994691 AAAAGAAG
1 AAAAAAAG
47994699 AAAAAAAG
1 AAAAAAAG
47994707 AAAAAAA-
1 AAAAAAAG
47994714 AAAAAAAG
1 AAAAAAAG
47994722 AA
1 AA
47994724 TGCTCATCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
7 7 0.30
8 16 0.70
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:47996030 original size:29 final size:29
Alignment explanation
Indices: 47995997--47996128 Score: 201
Period size: 29 Copynumber: 4.6 Consensus size: 29
47995987 GTGACGAGAT
47995997 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
47996026 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
47996055 TGGCACTAAGTGTGCGTGCTGGAAATATT
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
** *
47996084 TGGCACTAAGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
47996113 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
47996129 AGTTCGGAGG
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 94 1.00
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:48003053 original size:93 final size:92
Alignment explanation
Indices: 48002913--48003082 Score: 313
Period size: 93 Copynumber: 1.8 Consensus size: 92
48002903 GCCCCTAAGT
*
48002913 GAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAACGAGCTCGGACTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
48002978 GAGTTCGGATGCCTAGTTACATTTCAC
66 GAGTTCGGATGCCTAGTTACATTTCAC
*
48003005 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGAC-TTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48003070 CGAGTTCGGATGC
65 CGAGTTCGGATGC
48003083 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
92 28 0.37
93 47 0.63
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACTTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCAC
Found at i:48003098 original size:46 final size:46
Alignment explanation
Indices: 48002907--48003091 Score: 159
Period size: 45 Copynumber: 4.0 Consensus size: 46
48002897 TAACCCGCCC
* * * * *
48002907 CTAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTC-GGATGCTCAACCAT
48002953 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCAT
* * * * * *
48003000 TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA-
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCAT
48003046 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
1 CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
48003091 C
1 C
48003092 CTAGTGACAT
Statistics
Matches: 113, Mismatches: 13, Indels: 26
0.74 0.09 0.17
Matches are distributed among these distances:
43 1 0.01
44 13 0.12
45 32 0.28
46 30 0.27
47 30 0.27
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (46 bp):
CTAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT
Found at i:48003536 original size:30 final size:30
Alignment explanation
Indices: 48003502--48003561 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
48003492 ATTTAATACG
48003502 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
48003532 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
48003562 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:48005960 original size:27 final size:27
Alignment explanation
Indices: 48005929--48005987 Score: 109
Period size: 27 Copynumber: 2.2 Consensus size: 27
48005919 TGGACTTGTA
*
48005929 TGAGTGCTATGAATATTCGTCCAAGCT
1 TGAGTGCTATGAATATTCGGCCAAGCT
48005956 TGAGTGCTATGAATATTCGGCCAAGCT
1 TGAGTGCTATGAATATTCGGCCAAGCT
48005983 TGAGT
1 TGAGT
48005988 ATATGCAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.32
Consensus pattern (27 bp):
TGAGTGCTATGAATATTCGGCCAAGCT
Found at i:48007213 original size:23 final size:22
Alignment explanation
Indices: 48007182--48007225 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
48007172 TTGATCATAT
*
48007182 GTTTAGGTATGATTTTAGTTTAA
1 GTTTAGGTATGAATTTA-TTTAA
*
48007205 GTTTTGGTATGAATTTATTTA
1 GTTTAGGTATGAATTTATTTA
48007226 TGAATTGAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.25, C:0.00, G:0.20, T:0.55
Consensus pattern (22 bp):
GTTTAGGTATGAATTTATTTAA
Found at i:48009089 original size:46 final size:46
Alignment explanation
Indices: 48009036--48009160 Score: 196
Period size: 46 Copynumber: 2.7 Consensus size: 46
48009026 TGAGCATCCG
* *
48009036 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
* *
48009082 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
* *
48009128 AGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48009161 GCGGGTTACA
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.23, C:0.21, G:0.26, T:0.30
Consensus pattern (46 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCA
Found at i:48018654 original size:2 final size:2
Alignment explanation
Indices: 48018647--48018671 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
48018637 GAGACTAGTC
48018647 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
48018672 CATGTCATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48021732 original size:56 final size:56
Alignment explanation
Indices: 48021666--48021778 Score: 163
Period size: 56 Copynumber: 2.0 Consensus size: 56
48021656 AGACCATGGC
* * * *
48021666 TTCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATTGATATGTGAT
1 TTCGATATATGTGTGCGAGTAAGACCACGTCTAAGACATTGGCATCGATATGTGAT
* **
48021722 TTCGATATATGTGTGCGAGTAAGACTACGTCTGGGACATTGGCATCGATATGTGAT
1 TTCGATATATGTGTGCGAGTAAGACCACGTCTAAGACATTGGCATCGATATGTGAT
48021778 T
1 T
48021779 ACATGTAAGA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.35
Consensus pattern (56 bp):
TTCGATATATGTGTGCGAGTAAGACCACGTCTAAGACATTGGCATCGATATGTGAT
Found at i:48022612 original size:2 final size:2
Alignment explanation
Indices: 48022605--48022636 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
48022595 GTTAATTTTG
*
48022605 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
48022637 TGGTTTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:48023451 original size:2 final size:2
Alignment explanation
Indices: 48023444--48023478 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
48023434 ATATGGATAA
48023444 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48023479 CTTAGCCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:48026892 original size:53 final size:53
Alignment explanation
Indices: 48026823--48027021 Score: 197
Period size: 53 Copynumber: 3.7 Consensus size: 53
48026813 TTTTCCTTTT
* * **
48026823 TGAACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTA
1 TGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* * * *
48026876 TGAACTCACCAATGCCATGCCTTGGCAT-GTCTTACATGGGA-CCTTTGTCTTATA
1 TGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTG-CCT-TA
* * ** * *
48026930 TTAACTTATCAATGCCATGTGTTGACATGGT-TTACATGATTTCCTTGCCTTA
1 TGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
* *
48026982 TAGAACTTATCAATGCCATGCCTTGGCATGGTCTTACATG
1 T-GAACTTACCAATGCCATGCCTTGACATGGTCTTACATG
48027022 ATAACCTTAT
Statistics
Matches: 117, Mismatches: 22, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
51 2 0.02
52 16 0.14
53 54 0.46
54 41 0.35
55 4 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (53 bp):
TGAACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTA
Found at i:48026996 original size:107 final size:108
Alignment explanation
Indices: 48026825--48027021 Score: 290
Period size: 107 Copynumber: 1.8 Consensus size: 108
48026815 TTCCTTTTTG
* ** *
48026825 AACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATGAACTCACCAATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATG
48026890 CCATGCCTTGGCAT-GTCTTACATGGGACCTTTGTCTTATATT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATATT
* * * * *
48026932 AACTTATCAATGCCATGTGTTGACATGGT-TTACATGATTTCCTTGCCTTATAGAACTTATCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAAT
48026996 GCCATGCCTTGGCATGGTCTTACATG
65 GCCATGCCTTGGCATGGTCTTACATG
48027022 ATAACCTTAT
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
106 18 0.23
107 51 0.65
108 10 0.13
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (108 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATG
CCATGCCTTGGCATGGTCTTACATGGGACCTTTGTCTTATATT
Found at i:48027023 original size:54 final size:54
Alignment explanation
Indices: 48026824--48027029 Score: 204
Period size: 54 Copynumber: 3.9 Consensus size: 54
48026814 TTTCCTTTTT
* * ** *
48026824 GAACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTAT-
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * ** *
48026877 GAACTCACCAATGCCATGCCTTGGCAT-GTCTTACATGGGA-CCTTTGTCTTATA
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * ** *
48026930 TTAACTTATCAATGCCATGTGTTGACATGGT-TTACATGATTTCCTTGCCTTATA
1 -GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * *
48026984 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATAACCTT
1 GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
48027030 ATCTTACCAA
Statistics
Matches: 123, Mismatches: 24, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
51 2 0.02
52 18 0.15
53 49 0.40
54 50 0.41
55 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (54 bp):
GAACTTACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:48027287 original size:44 final size:44
Alignment explanation
Indices: 48027219--48027304 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
48027209 TATCCTTAAC
* *
48027219 CGTCAATTCCTCCTTAAATGCCATGTTATGAA-CATGGAATTTTT
1 CGTCAATTCCTCCTTAAATGCCATGGTA-CAACCATGGAATTTTT
* * *
48027263 CGTCAATTCTTCCTTAATTTCCATGGTACAACCATGGAATTT
1 CGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGAATTT
48027305 AAGATTCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 2 0.06
44 34 0.94
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (44 bp):
CGTCAATTCCTCCTTAAATGCCATGGTACAACCATGGAATTTTT
Found at i:48033516 original size:53 final size:53
Alignment explanation
Indices: 48033436--48033642 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 53
48033426 TTCCTTTTTG
* * **
48033436 AACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATA
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
48033489 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTACATT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTT--ATA
* * * * * * *
48033544 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCATGCGTTATGG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-A
* * *
48033598 AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
48033643 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 41 0.32
55 40 0.31
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:48033633 original size:109 final size:108
Alignment explanation
Indices: 48033436--48033634 Score: 290
Period size: 108 Copynumber: 1.8 Consensus size: 108
48033426 TTCCTTTTTG
* ** * *
48033436 AACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATAAACTCACCAATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCATGCCTTATAAACTCACCAATG
48033501 CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTACATT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTACATT
* * * * * *
48033544 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCATGCGTTATGGAACTTATCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCATGCCTTAT-AAACTCACCAAT
48033609 GCCATGCCTTGGCATGGTCTTACATG
65 GCCATGCCTTGGCATGGTCTTACATG
48033635 ATATCCTTAT
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
108 44 0.56
109 35 0.44
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (108 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCATGCCTTATAAACTCACCAATG
CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTACATT
Found at i:48034496 original size:30 final size:30
Alignment explanation
Indices: 48034451--48034511 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
48034441 TCCCTAACTC
* *
48034451 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACCTTTACAAAATTACAATTTTGCCCCT
**
48034481 AAACCTTTACAAAATTATGATTTTGCCCCT
1 AAACCTTTACAAAATTACAATTTTGCCCCT
48034511 A
1 A
48034512 GGCTCGGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACCTTTACAAAATTACAATTTTGCCCCT
Found at i:48035726 original size:31 final size:31
Alignment explanation
Indices: 48035685--48035748 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
48035675 CCTTTTCATA
*
48035685 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
48035716 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
48035747 TT
1 TT
48035749 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:48035991 original size:24 final size:24
Alignment explanation
Indices: 48035939--48036104 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
48035929 GCTTTATCAT
*
48035939 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
48035964 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
48035988 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
48036011 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
48036035 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
48036059 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
48036082 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
48036105 TCATTCCTCC
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 43 0.33
24 74 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:48036015 original size:47 final size:48
Alignment explanation
Indices: 48035938--48036104 Score: 241
Period size: 47 Copynumber: 3.5 Consensus size: 48
48035928 TGCTTTATCA
* *
48035938 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
48035987 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
48036034 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
48036081 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
48036105 TCATTCCTCC
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
47 70 0.64
48 26 0.24
49 13 0.12
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:48036039 original size:71 final size:71
Alignment explanation
Indices: 48035939--48036104 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
48035929 GCTTTATCAT
* *
48035939 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
48036003 GCCCTTTA
64 GCCCTTTA
* * *
48036011 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
48036076 CCTTTA
66 CCTTTA
48036082 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
48036105 TCATTCCTCC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 76 0.86
72 12 0.14
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:48036180 original size:20 final size:20
Alignment explanation
Indices: 48036157--48036237 Score: 139
Period size: 20 Copynumber: 4.2 Consensus size: 20
48036147 GAACATCTCG
48036157 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
48036177 TGTGCATATCAT--ATGTCA
1 TGTGCATATCATACATATCA
48036195 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
48036215 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
48036235 TGT
1 TGT
48036238 TTATCAAAAT
Statistics
Matches: 57, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
18 17 0.30
20 40 0.70
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:48036186 original size:11 final size:11
Alignment explanation
Indices: 48036157--48036226 Score: 57
Period size: 11 Copynumber: 7.1 Consensus size: 11
48036147 GAACATCTCG
48036157 TGTGCATATCA
1 TGTGCATATCA
*
48036168 --TACATATCA
1 TGTGCATATCA
48036177 TGTGCATATCA
1 TGTGCATATCA
*
48036188 --T--ATGTCA
1 TGTGCATATCA
48036195 TGTGCATATCA
1 TGTGCATATCA
*
48036206 --TACATATCA
1 TGTGCATATCA
48036215 TGTGCATATCA
1 TGTGCATATCA
48036226 T
1 T
48036227 ACATATCATG
Statistics
Matches: 45, Mismatches: 6, Indels: 16
0.67 0.09 0.24
Matches are distributed among these distances:
7 5 0.11
9 18 0.40
11 22 0.49
ACGTcount: A:0.31, C:0.19, G:0.13, T:0.37
Consensus pattern (11 bp):
TGTGCATATCA
Found at i:48036243 original size:38 final size:37
Alignment explanation
Indices: 48036161--48036237 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 37
48036151 ATCTCGTGTG
*
48036161 CATATCATACATATCATGTGCATATCATATGTCATGT
1 CATATCATACATATCATGTGCATATCATATATCATGT
48036198 GCATATCATACATATCATGTGCATATCATACATATCATGT
1 -CATATCATACATATCATGTGCATATCAT--ATATCATGT
48036238 TTATCAAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
38 28 0.78
40 8 0.22
ACGTcount: A:0.34, C:0.19, G:0.10, T:0.36
Consensus pattern (37 bp):
CATATCATACATATCATGTGCATATCATATATCATGT
Found at i:48037564 original size:27 final size:27
Alignment explanation
Indices: 48037473--48037556 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
48037463 GGGCATATTC
* *
48037473 GTCATTTTACCATACAGGGG-TATTACA
1 GTCACTTTACCATACAGGGGCT-TTACG
*
48037500 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
*
48037527 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCATACAGGGGCTTTACG
48037554 GTC
1 GTC
48037557 TTTTTACCTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 51 0.98
28 1 0.02
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.32
Consensus pattern (27 bp):
GTCACTTTACCATACAGGGGCTTTACG
Found at i:48037573 original size:27 final size:26
Alignment explanation
Indices: 48037473--48037566 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 26
48037463 GGGCATATTC
* *
48037473 GTCATTTTACCATACAGGGG-TATTACA
1 GTCACTTTACC-TACAGGGGCT-TTACG
48037500 GTCACTTTACCTTACAGGGGCTTTACG
1 GTCACTTTACC-TACAGGGGCTTTACG
48037527 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTA-CCTACAGGGGCTTTACG
**
48037554 GTCTTTTTACCTA
1 GTCACTTTACCTA
48037567 ATAGGGGTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
26 4 0.07
27 53 0.88
28 3 0.05
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.35
Consensus pattern (26 bp):
GTCACTTTACCTACAGGGGCTTTACG
Found at i:48037686 original size:52 final size:54
Alignment explanation
Indices: 48037603--48037738 Score: 156
Period size: 52 Copynumber: 2.6 Consensus size: 54
48037593 TACAAGGGTG
* * *
48037603 TTTTGGTAAATCTAC-AAACCAAGGGTATTTCTG-TAATTTTGCAAA-CAAGGTA
1 TTTTGGTAATTTTACAAAATCAAGGGTATTTCTGATAA-TTTGCAAATCAAGGTA
* * *
48037655 TTTT-TTGAATTTT-CAGAATCAAGGGTATTTCTGATAATTTGCAAATCAGGGTA
1 TTTTGGT-AATTTTACAAAATCAAGGGTATTTCTGATAATTTGCAAATCAAGGTA
*
48037708 TTTTGGTAATTTTACAAAATCGAGGGTATTT
1 TTTTGGTAATTTTACAAAATCAAGGGTATTT
48037739 GTAATCAACG
Statistics
Matches: 69, Mismatches: 9, Indels: 10
0.78 0.10 0.11
Matches are distributed among these distances:
51 2 0.03
52 32 0.46
53 19 0.28
54 16 0.23
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (54 bp):
TTTTGGTAATTTTACAAAATCAAGGGTATTTCTGATAATTTGCAAATCAAGGTA
Found at i:48037727 original size:27 final size:27
Alignment explanation
Indices: 48037595--48037738 Score: 113
Period size: 27 Copynumber: 5.4 Consensus size: 27
48037585 TTTCATCCTA
* * * *
48037595 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
48037622 CAAGGGTATTTCT-GTAATTTTGCAAA-
1 CAAGGGTATTT-TGGTAATTTTACAAAT
*
48037648 CAA-GGTATTTT-TTGAATTTT-CAGAAT
1 CAAGGGTATTTTGGT-AATTTTACA-AAT
* *
48037674 CAAGGGTATTTCTGATAA-TTTGCAAAT
1 CAAGGGTATTT-TGGTAATTTTACAAAT
48037701 C-AGGGTATTTTGGTAATTTTACAAAAT
1 CAAGGGTATTTTGGTAATTTTAC-AAAT
*
48037728 CGAGGGTATTT
1 CAAGGGTATTT
48037739 GTAATCAACG
Statistics
Matches: 98, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
24 4 0.04
25 20 0.20
26 19 0.19
27 39 0.40
28 15 0.15
29 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.20, T:0.38
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:48037736 original size:28 final size:27
Alignment explanation
Indices: 48037624--48037738 Score: 91
Period size: 25 Copynumber: 4.3 Consensus size: 27
48037614 CTACAAACCA
48037624 AGGGTATTTCTG-TAATTTTGC-AAA-C
1 AGGGTATTTCTGATAATTTT-CAAAATC
* * *
48037649 AAGGTATTT-T-TTGAATTTTCAGAATC
1 AGGGTATTTCTGAT-AATTTTCAAAATC
*
48037675 AAGGGTATTTCTGATAATTTGC-AAATC
1 -AGGGTATTTCTGATAATTTTCAAAATC
*
48037702 AGGGTATTT-TGGTAATTTTACAAAATC
1 AGGGTATTTCTGATAATTTT-CAAAATC
48037729 GAGGGTATTT
1 -AGGGTATTT
48037739 GTAATCAACG
Statistics
Matches: 72, Mismatches: 8, Indels: 17
0.74 0.08 0.18
Matches are distributed among these distances:
24 3 0.04
25 24 0.33
26 11 0.15
27 17 0.24
28 16 0.22
29 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (27 bp):
AGGGTATTTCTGATAATTTTCAAAATC
Found at i:48037944 original size:27 final size:27
Alignment explanation
Indices: 48037866--48038082 Score: 138
Period size: 27 Copynumber: 7.8 Consensus size: 27
48037856 GTAATTTTGG
* *
48037866 TAATTCTATAAATCGA-GGTAAAACAA
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
48037892 TAATTTTGTAAATCGAGGGTAAAACGA
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
48037919 TAATTCTGTAAGTCGAGGGTAAAACGGGGGTA
1 TAATTCTGTAAATCGAGGGTAAAAC----G-A
* * * *
48037951 AAATGGTAATTATGTAAATC-AGGGGTAAAATGG
1 TAAT--T----CTGTAAATCGA-GGGTAAAACGA
*
48037984 TAATTCTGTAAATCAAGGGTAAAAC--
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * *
48038009 TAATTCTATAAATCAAGGGTAAAACGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
* * * *
48038036 TACTTCTATAAATCGAGGGTAAAATGG
1 TAATTCTGTAAATCGAGGGTAAAACGA
*
48038063 TAATTATGTAAATCG-GGGTA
1 TAATTCTGTAAATCGAGGGTA
48038083 CTTTGGTAAT
Statistics
Matches: 155, Mismatches: 20, Indels: 32
0.75 0.10 0.15
Matches are distributed among these distances:
25 24 0.15
26 19 0.12
27 84 0.54
28 1 0.01
31 2 0.01
32 4 0.03
33 3 0.02
34 2 0.01
37 1 0.01
38 15 0.10
ACGTcount: A:0.41, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
TAATTCTGTAAATCGAGGGTAAAACGA
Found at i:48037950 original size:38 final size:38
Alignment explanation
Indices: 48037899--48037980 Score: 94
Period size: 38 Copynumber: 2.2 Consensus size: 38
48037889 CAATAATTTT
* * *
48037899 GTAAATCGAGGGTAAAACGATAATTCTGTAAGTC-GAGG
1 GTAAAACGAGGGTAAAACGATAATTATGTAAATCAG-GG
* * *
48037937 GTAAAACGGGGGTAAAATGGTAATTATGTAAATCAGGG
1 GTAAAACGAGGGTAAAACGATAATTATGTAAATCAGGG
48037975 GTAAAA
1 GTAAAA
48037981 TGGTAATTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
38 36 0.97
39 1 0.03
ACGTcount: A:0.40, C:0.07, G:0.29, T:0.23
Consensus pattern (38 bp):
GTAAAACGAGGGTAAAACGATAATTATGTAAATCAGGG
Found at i:48038056 original size:117 final size:117
Alignment explanation
Indices: 48037828--48038059 Score: 290
Period size: 117 Copynumber: 2.0 Consensus size: 117
48037818 GTAACATCGA
* ** *
48037828 GGGTAAAATTGTAATTTGAAATTAAGGGGTAATTTTGGTAATTCTATAAATCGAGGTAAAACAAT
1 GGGTAAAATGGTAATTTGAAATTAAGGGGTAATAATGGTAATTCTATAAATCAAGGTAAAAC-AT
* * * * *
48037893 AATTTTGTAAATCGAGGGTAAAACGATAATTCTGTAAGTCGAGGGTAAAACGG
65 AATTCTATAAATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGG
* *
48037946 GGGTAAAATGGTAATTATGTAAA-TCAGGGGTAA-AATGGTAATTCTGTAAATCAAGGGTAAAAC
1 GGGTAAAATGGTAATT-TG-AAATTAAGGGGTAATAATGGTAATTCTATAAATCAA-GGTAAAAC
* *
48038009 -TAATTCTATAAATCAAGGGTAAAACGGTACTTCTATAAATCGAGGGTAAAA
63 ATAATTCTATAAATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAA
48038060 TGGTAATTAT
Statistics
Matches: 98, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
117 44 0.45
118 32 0.33
119 19 0.19
120 3 0.03
ACGTcount: A:0.41, C:0.08, G:0.23, T:0.29
Consensus pattern (117 bp):
GGGTAAAATGGTAATTTGAAATTAAGGGGTAATAATGGTAATTCTATAAATCAAGGTAAAACATA
ATTCTATAAATCAAGGGTAAAACGATAATTCTATAAATCGAGGGTAAAACGG
Found at i:48040602 original size:54 final size:54
Alignment explanation
Indices: 48040425--48040619 Score: 241
Period size: 55 Copynumber: 3.6 Consensus size: 54
48040415 CTTACCATTA
* * * *
48040425 CCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
* * ** *
48040478 CCATGCCTTGGCATGGTCTTACGTGGCA-CCTTTGCTTTATAGTAACTCATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAATG
* * *
48040533 CCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAATG
1 CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
*
48040587 CCATGCCTTGGCATGGTCTTACATGATATCCTT
1 CCATGCCTTGACATGGTCTTACATGATATCCTT
48040620 ATCTTACCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
52 2 0.02
53 33 0.27
54 42 0.34
55 43 0.35
56 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
CCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAATG
Found at i:48041472 original size:30 final size:30
Alignment explanation
Indices: 48041429--48041485 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
48041419 CTAACTCAAA
48041429 CTTTGGCAAAATTACAATTTTGCCCCTAAAC
1 CTTTGGCAAAATTACAATTTT-CCCCTAAAC
* *
48041460 CTTT-GCAGAATTACGATTTTCCCCTA
1 CTTTGGCAAAATTACAATTTTCCCCTA
48041486 GGCTCGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 6 0.25
30 14 0.58
31 4 0.17
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (30 bp):
CTTTGGCAAAATTACAATTTTCCCCTAAAC
Found at i:48047120 original size:53 final size:53
Alignment explanation
Indices: 48047040--48047246 Score: 209
Period size: 53 Copynumber: 3.8 Consensus size: 53
48047030 TTCCTTTTTG
* * **
48047040 AACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATA
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
48047093 AACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTACATT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCC-TTGCCTT--ATA
* * * * * * *
48047148 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCATGCGTTATGG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-A
* * *
48047202 AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGATATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
48047247 ATCTTACCAA
Statistics
Matches: 127, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
52 2 0.02
53 42 0.33
54 41 0.32
55 40 0.31
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (53 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:48047237 original size:109 final size:108
Alignment explanation
Indices: 48047040--48047238 Score: 290
Period size: 108 Copynumber: 1.8 Consensus size: 108
48047030 TTCCTTTTTG
* ** * *
48047040 AACTTACCATTGCCATGTCTTGACATGGTCTTATGTGGTATCCTTGCCTTATAAACTCACCAATG
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCATGCCTTATAAACTCACCAATG
48047105 CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTACATT
66 CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTACATT
* * * * * *
48047148 AACTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCATGCGTTATGGAACTTATCAAT
1 AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCATGCCTTAT-AAACTCACCAAT
48047213 GCCATGCCTTGGCATGGTCTTACATG
65 GCCATGCCTTGGCATGGTCTTACATG
48047239 ATATCCTTAT
Statistics
Matches: 79, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
108 44 0.56
109 35 0.44
ACGTcount: A:0.23, C:0.24, G:0.18, T:0.35
Consensus pattern (108 bp):
AACTTACCAATGCCATGTCTTGACATGGTCTTACATGATATCCATGCCTTATAAACTCACCAATG
CCATGCCTTGGCATGGTCTTACATGGGACCTTTGCCTTACATT
Found at i:48048102 original size:30 final size:30
Alignment explanation
Indices: 48048057--48048117 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
48048047 TCCCTAACTC
* *
48048057 AAACTTTTGCAAAATTACAATTTTGCCCCT
1 AAACCTTTACAAAATTACAATTTTGCCCCT
**
48048087 AAACCTTTACAAAATTATGATTTTGCCCCT
1 AAACCTTTACAAAATTACAATTTTGCCCCT
48048117 A
1 A
48048118 GGCTCGGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.23, G:0.07, T:0.36
Consensus pattern (30 bp):
AAACCTTTACAAAATTACAATTTTGCCCCT
Found at i:48049302 original size:27 final size:27
Alignment explanation
Indices: 48049272--48049621 Score: 243
Period size: 27 Copynumber: 12.9 Consensus size: 27
48049262 TGTAAGGTAG
* * *
48049272 AATTACTGAAATACCCTTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
48049299 AATTACTG-AATACCCTTGGTTTACAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * * **
48049325 AATTACCAAAATACCCCTAATTTGTGA
1 AATTACCGAAATACCCTTGATTTGCAA
* * ** *
48049352 AATTACCAAAATACCCTCGACCTGTAA
1 AATTACCGAAATACCCTTGATTTGCAA
** * * *
48049379 AATTACCGAAATACCCTCAACTTGTAC
1 AATTACCGAAATACCCTTGATTTGCAA
* *** * * *
48049406 TATTTTTGAAATACCCTCGACTTGTAA
1 AATTACCGAAATACCCTTGATTTGCAA
* * *
48049433 AATTACCAAAATACCCTCGATTTGTAA
1 AATTACCGAAATACCCTTGATTTGCAA
* *
48049460 AATTACCAAAATACCCTTGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGCAA
* *
48049487 AATTATCGAAATACCCTTGATTTGGAA
1 AATTACCGAAATACCCTTGATTTGCAA
**
48049514 AATTACAAAAATACCCTTGATTTGCAA
1 AATTACCGAAATACCCTTGATTTGCAA
** **
48049541 AATTACAAAAATACCCTTGACTTTAAAAAA
1 AATTACCGAAATACCCTTGA-TTT--GCAA
* * *
48049571 AATTACAGAAATACCATTGGTTTGCAA
1 AATTACCGAAATACCCTTGATTTGCAA
** *
48049598 AATTATTGAAATACCCTTGGTTTG
1 AATTACCGAAATACCCTTGATTTG
48049622 TATATTTACC
Statistics
Matches: 271, Mismatches: 48, Indels: 8
0.83 0.15 0.02
Matches are distributed among these distances:
26 24 0.09
27 222 0.82
28 3 0.01
29 3 0.01
30 19 0.07
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGATTTGCAA
Found at i:48049663 original size:111 final size:110
Alignment explanation
Indices: 48049458--48049667 Score: 244
Period size: 111 Copynumber: 1.9 Consensus size: 110
48049448 CTCGATTTGT
* *
48049458 AAAATTACCAAAATACCCTTGATTTGGAAAATTATCGAAATACCCTTGATTTGGAAAATTACAAA
1 AAAATTACCAAAATACCATTGATTTGCAAAATTATCGAAATACCCTTGATTTGGAAAATTACAAA
* ** *
48049523 AATACCCTTGATTTGCAAAATTACAAAAATACCCTTGACTTTAAAA
66 AACACCCTTGAGGTG-AAAATCACAAAAATACCCTTGACTTTAAAA
* * * * * * *
48049569 AAAATTA-CAGAAATACCATTGGTTTGCAAAATTATTGAAATACCCTTGGTTTGTATATTTACCA
1 AAAATTACCA-AAATACCATTGATTTGCAAAATTATCGAAATACCCTTGATTTGGAAAATTACAA
*
48049633 AAACACCCTTGTAGGGTG-AAATCACTAAAATACCC
65 AAACACCCTTG-A-GGTGAAAATCACAAAAATACCC
48049668 CTAATAGGTA
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
110 2 0.02
111 77 0.94
112 1 0.01
113 2 0.02
ACGTcount: A:0.41, C:0.18, G:0.11, T:0.30
Consensus pattern (110 bp):
AAAATTACCAAAATACCATTGATTTGCAAAATTATCGAAATACCCTTGATTTGGAAAATTACAAA
AACACCCTTGAGGTGAAAATCACAAAAATACCCTTGACTTTAAAA
Found at i:48049926 original size:41 final size:41
Alignment explanation
Indices: 48049881--48049996 Score: 141
Period size: 41 Copynumber: 2.9 Consensus size: 41
48049871 GGAGGAAGAA
* **
48049881 ATTGAGGATCGCATGGTTGCTTGTTGACCGTGGATCCATCG
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCATCG
48049922 ATTGAGGATCACATGGTTGCTTGACGACCGTGGAT-C--C-
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCATCG
* * * *
48049959 ATTAAGGATCGCATGGTTGATTGACGATCGTGGATCCA
1 ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCA
48049997 CTGGTGGATT
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
37 31 0.47
38 2 0.03
40 1 0.02
41 32 0.48
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (41 bp):
ATTGAGGATCACATGGTTGCTTGACGACCGTGGATCCATCG
Found at i:48049976 original size:37 final size:37
Alignment explanation
Indices: 48049885--48049996 Score: 134
Period size: 37 Copynumber: 2.9 Consensus size: 37
48049875 GAAGAAATTG
** *
48049885 AGGATCGCATGGTTGCTTGTTGACCGTGGATCCATCGATTG
1 AGGATCGCATGGTTGCTTGACGACCGTGGAT-C--C-ATTA
*
48049926 AGGATCACATGGTTGCTTGACGACCGTGGATCCATTA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCATTA
* *
48049963 AGGATCGCATGGTTGATTGACGATCGTGGATCCA
1 AGGATCGCATGGTTGCTTGACGACCGTGGATCCA
48049997 CTGGTGGATT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
37 34 0.53
38 1 0.02
40 1 0.02
41 28 0.44
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.29
Consensus pattern (37 bp):
AGGATCGCATGGTTGCTTGACGACCGTGGATCCATTA
Found at i:48053437 original size:33 final size:33
Alignment explanation
Indices: 48053400--48053496 Score: 131
Period size: 33 Copynumber: 2.9 Consensus size: 33
48053390 ATGCAGTAAT
* * *
48053400 AGTCTGGGCCTGAGCCCTATCCAGTATCAGTAC
1 AGTCTGGGCCTTAGCCCTATACAGTAACAGTAC
*
48053433 AGTCTGGGCCTTAGCCCTATACAGTAACAGAAC
1 AGTCTGGGCCTTAGCCCTATACAGTAACAGTAC
** *
48053466 AGTCCAGGCTTTAGCCCTATACAGTAACAGT
1 AGTCTGGGCCTTAGCCCTATACAGTAACAGT
48053497 GTGGGCCTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 56 1.00
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (33 bp):
AGTCTGGGCCTTAGCCCTATACAGTAACAGTAC
Found at i:48053905 original size:27 final size:27
Alignment explanation
Indices: 48053875--48054018 Score: 146
Period size: 27 Copynumber: 5.4 Consensus size: 27
48053865 GGGCATAATC
*
48053875 GTCATTTTACCATACAGGGGTATTAAA
1 GTCATTTTACCATACAGGGGTATTACA
*
48053902 GTCATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACA
* * ** **
48053929 GTCATTTTACCATATAGCGACATTATG
1 GTCATTTTACCATACAGGGGTATTACA
* * *
48053956 GTTA-TTTACCTTACAAGGGTATTACA
1 GTCATTTTACCATACAGGGGTATTACA
* * * *
48053982 GTCATTTTACCCTATAGGGGTATCACG
1 GTCATTTTACCATACAGGGGTATTACA
48054009 GTCATTTTAC
1 GTCATTTTAC
48054019 AACCTAAGGT
Statistics
Matches: 92, Mismatches: 24, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
26 17 0.18
27 75 0.82
ACGTcount: A:0.28, C:0.19, G:0.17, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACA
Found at i:48054041 original size:26 final size:27
Alignment explanation
Indices: 48054012--48054074 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
48054002 TATCACGGTC
*
48054012 ATTTTACAACCTAA-GGTATTTCGATA
1 ATTTTACAAACTAAGGGTATTTCGATA
* * *
48054038 ATTTCACAAATTAAGGGTATTTCGGTA
1 ATTTTACAAACTAAGGGTATTTCGATA
48054065 ATTTTACAAA
1 ATTTTACAAA
48054075 TTGGGGTCTT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
26 11 0.35
27 20 0.65
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (27 bp):
ATTTTACAAACTAAGGGTATTTCGATA
Found at i:48061965 original size:29 final size:28
Alignment explanation
Indices: 48061933--48062035 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
48061923 GTGACGAGAT
* *
48061933 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
48061962 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
48061991 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
48062020 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48062036 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:48065942 original size:6 final size:6
Alignment explanation
Indices: 48065912--48066086 Score: 119
Period size: 6 Copynumber: 28.3 Consensus size: 6
48065902 AAGAAACATT
* * *
48065912 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAGA ATCAGGTG
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* *
48065962 AT-AGA ATCAAA ATCAGA ATCAGA ATCAGA ATTAGGTA A-CAGA ATCAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
* * * *
48066010 ATCAGT ATCAGGTA A-CAGA ATTAGA ATCAGA ATTAGGTA A-CAGA ATCAAA
1 ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA
*
48066060 ATCAGT ATCAGGTA A-CAGA ATCAGA AT
1 ATCAGA ATCA-G-A ATCAGA ATCAGA AT
48066087 GTGAATGCAA
Statistics
Matches: 132, Mismatches: 20, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
5 11 0.08
6 100 0.76
7 13 0.10
8 8 0.06
ACGTcount: A:0.49, C:0.13, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:48065978 original size:37 final size:37
Alignment explanation
Indices: 48065935--48066082 Score: 133
Period size: 37 Copynumber: 4.0 Consensus size: 37
48065925 TCAAAATGAG
* *
48065935 AATCAGAATCAGAATCAGAATCAGGTGATAGAATCAA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
* *
48065972 AATCAGAATCAGAATCAGAATTAGGTAACAGAATCAG
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
* * * *
48066009 AATCAGTATCAGGTAA-CAGAATTA-G-AATCAGAATTAGGT
1 AATCAGAATCA-G-AATCAGAATCAGGTAA-CAGAATCA--A
* *
48066048 AA-CAGAATCAAAATCAGTATCAGGTAACAGAATCA
1 AATCAGAATCAGAATCAGAATCAGGTAACAGAATCA
48066083 GAATGTGAAT
Statistics
Matches: 91, Mismatches: 12, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
36 4 0.04
37 57 0.63
38 24 0.26
39 6 0.07
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGAATCAGGTAACAGAATCAA
Found at i:48066003 original size:25 final size:25
Alignment explanation
Indices: 48065975--48066086 Score: 170
Period size: 25 Copynumber: 4.5 Consensus size: 25
48065965 GAATCAAAAT
*
48065975 CAGAATCAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
*
48066000 CAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
48066025 CAGAATTAGAATCAGAATTAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
* *
48066050 CAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGGTAA
48066075 CAGAATCAGAAT
1 CAGAATCAGAAT
48066087 GTGAATGCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 77 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (25 bp):
CAGAATCAGAATCAGAATCAGGTAA
Found at i:48066029 original size:50 final size:50
Alignment explanation
Indices: 48065975--48066086 Score: 206
Period size: 50 Copynumber: 2.2 Consensus size: 50
48065965 GAATCAAAAT
*
48065975 CAGAATCAGAATCAGAATTAGGTAACAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAACAGAATCAAAATCAGTATCAGGTAA
*
48066025 CAGAATTAGAATCAGAATTAGGTAACAGAATCAAAATCAGTATCAGGTAA
1 CAGAATCAGAATCAGAATTAGGTAACAGAATCAAAATCAGTATCAGGTAA
48066075 CAGAATCAGAAT
1 CAGAATCAGAAT
48066087 GTGAATGCAA
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
50 59 1.00
ACGTcount: A:0.47, C:0.13, G:0.19, T:0.21
Consensus pattern (50 bp):
CAGAATCAGAATCAGAATTAGGTAACAGAATCAAAATCAGTATCAGGTAA
Found at i:48066036 original size:31 final size:31
Alignment explanation
Indices: 48065933--48066042 Score: 127
Period size: 31 Copynumber: 3.5 Consensus size: 31
48065923 AATCAAAATG
*
48065933 AGAATCAGAATCAGAATCAGAATCAGGTGAT
1 AGAATCAGAATCAGAATCAGAATCAGGTAAT
*
48065964 AGAATCAAAATCAGAATCAGAATCA-G-AATT
1 AGAATCAGAATCAGAATCAGAATCAGGTAA-T
* *
48065994 AGGTAA-CAGAATCAGAATCAGTATCAGGTAAC
1 A-G-AATCAGAATCAGAATCAGAATCAGGTAAT
*
48066026 AGAATTAGAATCAGAAT
1 AGAATCAGAATCAGAAT
48066043 TAGGTAACAG
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
29 1 0.01
30 5 0.07
31 55 0.82
32 4 0.06
33 2 0.03
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGAATCAGGTAAT
Found at i:48066621 original size:27 final size:26
Alignment explanation
Indices: 48066559--48066624 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
48066549 CATTCACTTG
* *
48066559 CCCACAAGGGCAAAATAGTCATTTAA
1 CCCACAAGGGTAAAATAGTAATTTAA
*
48066585 CACC-CTAAGGGTAAAATGGTAATTTTAA
1 C-CCAC-AAGGGTAAAATAGTAA-TTTAA
48066613 CCCACAAGGGTA
1 CCCACAAGGGTA
48066625 TCTCCGAAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
26 2 0.06
27 24 0.73
28 7 0.21
ACGTcount: A:0.39, C:0.21, G:0.18, T:0.21
Consensus pattern (26 bp):
CCCACAAGGGTAAAATAGTAATTTAA
Found at i:48066845 original size:27 final size:27
Alignment explanation
Indices: 48066649--48066844 Score: 275
Period size: 27 Copynumber: 7.3 Consensus size: 27
48066639 CCTTATAGGA
*
48066649 GTATTTCAGTAACTCTACCCTACAGGG
1 GTATTTCAGTAATTCTACCCTACAGGG
* * *
48066676 GTATTTCGGTATTTCTACCCTACAAGG
1 GTATTTCAGTAATTCTACCCTACAGGG
* *
48066703 GTATTTCTGTAATTATACCCTACAGGG
1 GTATTTCAGTAATTCTACCCTACAGGG
*
48066730 GTATTTTAGTAATTCTACCCTACAGGG
1 GTATTTCAGTAATTCTACCCTACAGGG
*
48066757 GTATTTTAGTAATTCTACCCTACAGGG
1 GTATTTCAGTAATTCTACCCTACAGGG
*
48066784 GTATTTTAGTAATTCTACCCTACAGGG
1 GTATTTCAGTAATTCTACCCTACAGGG
* * * *
48066811 GTATTTCGGTATTTCTACTCTACAAGG
1 GTATTTCAGTAATTCTACCCTACAGGG
48066838 GTATTTC
1 GTATTTC
48066845 GATAATTTTG
Statistics
Matches: 153, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 153 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GTATTTCAGTAATTCTACCCTACAGGG
Found at i:48067002 original size:54 final size:54
Alignment explanation
Indices: 48066890--48067176 Score: 310
Period size: 54 Copynumber: 5.3 Consensus size: 54
48066880 TGTAAATCAA
* **** * * ** *
48066890 GGGTACTTTGGTAATTTTACAAGTTGAGGGTATTTCAATAATTTTAC-AGGTCG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
** * * * *
48066943 AGGGTATTTAAGTAATTTCACAAATC-AGGTGTATTTCAATAATTTTACAAACTAG
1 -GGGTATTTTGGTAATTTTACAAACCAAGG-GTATTTTAGTAATTTTACAAACTAG
* * *
48066998 GGGTATTTTGATAATTTTACAAACCATGGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
*
48067052 GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTACAAA-TCAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACT-AG
** * *
48067106 GGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGGTAATTTTACAAACAAG
1 GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
48067160 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
48067177 GGTAAACTAA
Statistics
Matches: 203, Mismatches: 25, Indels: 10
0.85 0.11 0.04
Matches are distributed among these distances:
53 4 0.02
54 194 0.96
55 5 0.02
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTACAAACTAG
Found at i:48067136 original size:27 final size:27
Alignment explanation
Indices: 48066887--48067176 Score: 269
Period size: 27 Copynumber: 10.7 Consensus size: 27
48066877 TTCTGTAAAT
* **
48066887 CAAGGGTACTTTGGTAATTTTACAAGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** *** ***
48066914 TGAGGGTATTTCAATAATTTTACAGGT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** * *
48066941 CGAGGGTATTTAAGTAATTTCACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
***
48066968 C-AGGTGTATTTCAATAATTTTACAAAC
1 CAAGG-GTATTTTGGTAATTTTACAAAC
* * *
48066995 TAGGGGTATTTTGATAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
48067022 CATGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
48067049 TAGGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
48067076 CAAGGGTATTTTAGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* **
48067103 CAGGGGTATTTTGGTAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
48067130 CAAGGGTATTTTGGTAATTTTACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAC
48067156 CAAGGGGTATTTTGGTAATTT
1 CAA-GGGTATTTTGGTAATTT
48067177 GGTAAACTAA
Statistics
Matches: 220, Mismatches: 40, Indels: 6
0.83 0.15 0.02
Matches are distributed among these distances:
26 6 0.03
27 212 0.96
28 2 0.01
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:48067183 original size:54 final size:54
Alignment explanation
Indices: 48066982--48067176 Score: 320
Period size: 54 Copynumber: 3.6 Consensus size: 54
48066972 TGTATTTCAA
* * *
48066982 TAATTTTACAAACTAGGGGTATTTTGATAATTTTACAAACCATGGGTATTTTGG
1 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGG
*
48067036 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAG
1 TAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGG
*
48067090 TAATTTTACAAA-TCAGGGGTATTTTGGTAATTTTGTAAACCAAGGGTATTTTGG
1 TAATTTTACAAACT-AGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGG
*
48067144 TAATTTTACAAACAAGGGGTATTTTGGTAATTT
1 TAATTTTACAAACTAGGGGTATTTTGGTAATTT
48067177 GGTAAACTAA
Statistics
Matches: 132, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
53 1 0.01
54 131 0.99
ACGTcount: A:0.32, C:0.08, G:0.19, T:0.41
Consensus pattern (54 bp):
TAATTTTACAAACTAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTGG
Done.