Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 106 of 295
Found at i:34391477 original size:152 final size:152
Alignment explanation
Indices: 34391133--34391678 Score: 923
Period size: 152 Copynumber: 3.7 Consensus size: 152
34391123 TATCTCATAC
34391133 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAC--ATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
* * * *
34391196 TTCGGCTTTACCACATATGCATATCTC----ATACATATTTCACATTAGCCATTCGGCTTTACCA
66 TTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCA
34391257 CATATACATATCTC--ATATAT
131 CATATACATATCTCATATATAT
*
34391277 ATA--TCACATTAGCCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
34391340 TTCGGCTTTACCATATATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCA
66 TTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCA
*
34391405 AATATACATATCTCATATATAT
131 CATATACATATCTCATATATAT
* *
34391427 ATATTTCGCATTAGCCATTCGGCTTTACCACATATGCATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
34391492 TTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCA
66 TTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCA
34391557 CATATACATATCTCATATATAT
131 CATATACATATCTCATATATAT
*
34391579 ATATTTCGCATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
*
34391644 TTCGGCTTTACCACATATACATATCTCATACATAT
66 TTCGGCTTTACCACATATACATATCTCATATATAT
34391679 TTCACATTAG
Statistics
Matches: 380, Mismatches: 12, Indels: 12
0.94 0.03 0.03
Matches are distributed among these distances:
142 42 0.11
144 43 0.11
148 44 0.12
150 9 0.02
152 242 0.64
ACGTcount: A:0.32, C:0.25, G:0.06, T:0.37
Consensus pattern (152 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCA
TTCGGCTTTACCACATATACATATCTCATATATATATATTTCACATTAACCATTCAGCTTTACCA
CATATACATATCTCATATATAT
Found at i:34395773 original size:46 final size:46
Alignment explanation
Indices: 34395723--34395881 Score: 148
Period size: 46 Copynumber: 3.4 Consensus size: 46
34395713 CCGAACTTAA
*
34395723 TGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGTCCGAACTCGT
1 TGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGT
* *
34395769 TGAGTTGAGTCCGAGTT--CGTGA-GG-TG-TAACTAGGCATCCGAACTCGT
1 TGAGTTGAGTCCGAGTTCACCT-ATGGATGCGAA-T--G--TCCGAACTCGT
** * * *
34395816 TGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGT
1 TGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGT
*
34395862 TGAGTTGAGTTCGAGTTCAC
1 TGAGTTGAGTCCGAGTTCAC
34395882 TTAGGGGCGG
Statistics
Matches: 91, Mismatches: 11, Indels: 22
0.73 0.09 0.18
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 4 0.04
45 2 0.02
46 43 0.47
47 28 0.31
48 2 0.02
49 3 0.03
50 2 0.02
51 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
TGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGT
Found at i:34395868 original size:93 final size:93
Alignment explanation
Indices: 34395709--34395879 Score: 252
Period size: 93 Copynumber: 1.8 Consensus size: 93
34395699 GGATGGTTGA
* * * *
34395709 GCATCCGAACTTAATGAGTTGAGTCTGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCAATGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
34395774 TGAGTCCGAGTTCGTGAGGTGTAACTAG
66 TGAGTCCGAGTTCGTGAGGTGTAACTAG
** ** *
34395802 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCAATGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
*
34395867 TGAGTTCGAGTTC
66 TGAGTCCGAGTTC
34395880 ACTTAGGGGC
Statistics
Matches: 68, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
93 68 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCAATGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGGTGTAACTAG
Found at i:34396145 original size:19 final size:20
Alignment explanation
Indices: 34396108--34396145 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
34396098 ATAAGGTGGT
34396108 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
34396128 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
34396146 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:34397293 original size:42 final size:43
Alignment explanation
Indices: 34397200--34397342 Score: 148
Period size: 42 Copynumber: 3.3 Consensus size: 43
34397190 TGGGGGCGTT
* * * *
34397200 ACATGGTCTTATATGTAATCAAATATCGATGCCATTGTCCCAA
1 ACATGGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAA
* * * * *
34397243 ATAAGGTCTTACACGAAATCATATA-CGATACCAATGTCCCAG
1 ACATGGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAA
34397285 ACATGGTCTTACACGTAAATCACGAAT-T-GATGCCAATGTCCCAA
1 ACATGGTCTTACACG-AAATCA--AATATCGATGCCAATGTCCCAA
*
34397329 ACGTGGTCTTACAC
1 ACATGGTCTTACAC
34397343 AATAACACAT
Statistics
Matches: 81, Mismatches: 15, Indels: 7
0.79 0.15 0.07
Matches are distributed among these distances:
42 27 0.33
43 25 0.31
44 27 0.33
45 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (43 bp):
ACATGGTCTTACACGAAATCAAATATCGATGCCAATGTCCCAA
Found at i:34400391 original size:56 final size:56
Alignment explanation
Indices: 34400331--34400520 Score: 299
Period size: 56 Copynumber: 3.4 Consensus size: 56
34400321 CTAGACAGGT
* * *
34400331 TCTTACTCGTAAACACATATCGGAATCCCATATCGATGCCAACATATTAAACATGG
1 TCTTACTCGCAAACACATATCGGAATCACATATCGATGCCAACATATTAAACGTGG
*
34400387 TCTTACTCGCACACACATATCGGAATCACATATCGATGCCAACATATTAAACGTGG
1 TCTTACTCGCAAACACATATCGGAATCACATATCGATGCCAACATATTAAACGTGG
* * *
34400443 TCTTAGTCGCACACACATATCGGAATCACATATCGATGCCAACGTATTAAACGTGG
1 TCTTACTCGCAAACACATATCGGAATCACATATCGATGCCAACATATTAAACGTGG
* *
34400499 TCTTACTCGTAATCACATATCG
1 TCTTACTCGCAAACACATATCG
34400521 ATGCTAATGT
Statistics
Matches: 124, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 124 1.00
ACGTcount: A:0.33, C:0.26, G:0.14, T:0.27
Consensus pattern (56 bp):
TCTTACTCGCAAACACATATCGGAATCACATATCGATGCCAACATATTAAACGTGG
Found at i:34400514 original size:43 final size:43
Alignment explanation
Indices: 34400466--34400648 Score: 231
Period size: 43 Copynumber: 4.3 Consensus size: 43
34400456 CACATATCGG
** *
34400466 AATCACATATCGATGCCAACGTATTAAACGTGGTCTTACTCGT
1 AATCACATATCGATGCCAACGTCCTAAACGTGGTCTTACACGT
* * * *
34400509 AATCACATATCGATGCTAATGTCTTAGACGTGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCTAAACGTGGTCTTACACGT
* * **
34400552 AATCACATATCGATGCCAACATCCCAAATATGGTCTTACACGT
1 AATCACATATCGATGCCAACGTCCTAAACGTGGTCTTACACGT
** * *
34400595 AATCACCGATCGATGCCAACGTCCTAGACGTGGTCTTACACAT
1 AATCACATATCGATGCCAACGTCCTAAACGTGGTCTTACACGT
34400638 AATCACATATC
1 AATCACATATC
34400649 AAAAATCCTA
Statistics
Matches: 117, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 117 1.00
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (43 bp):
AATCACATATCGATGCCAACGTCCTAAACGTGGTCTTACACGT
Found at i:34404038 original size:34 final size:34
Alignment explanation
Indices: 34403995--34404063 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
34403985 ATTCTTTTAT
* *
34403995 TGTTATTGTAATGGGCTAAGGCTCACGCTGATAC
1 TGTTATTGTAATGGGCTAAGGCCCACGCTAATAC
34404029 TGTTATTGTAATGGGCTAAGGCCCACGCTAATAC
1 TGTTATTGTAATGGGCTAAGGCCCACGCTAATAC
34404063 T
1 T
34404064 AGACTATTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (34 bp):
TGTTATTGTAATGGGCTAAGGCCCACGCTAATAC
Found at i:34413185 original size:28 final size:28
Alignment explanation
Indices: 34413117--34413326 Score: 341
Period size: 28 Copynumber: 7.5 Consensus size: 28
34413107 CATGAGATTG
* * * *
34413117 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
34413146 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
34413174 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
34413202 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
* *
34413230 GCACTAAGTGTGCAAGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
34413258 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
34413286 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34413313 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
34413327 GACTTAATAT
Statistics
Matches: 172, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
27 24 0.14
28 130 0.76
29 18 0.10
ACGTcount: A:0.28, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34421219 original size:55 final size:56
Alignment explanation
Indices: 34421127--34421307 Score: 285
Period size: 55 Copynumber: 3.2 Consensus size: 56
34421117 CATGAGATTG
* * * *
34421127 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
34421184 GCA-TAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
*
34421239 GCACTAAGTGTGC-AGTTTGATTATGTAGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
*
34421294 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
34421308 GACTTAATAT
Statistics
Matches: 116, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
55 90 0.78
56 23 0.20
57 3 0.03
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (56 bp):
GCACTAAGTGTGCGAGTTTGATTATATAGCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34421227 original size:28 final size:28
Alignment explanation
Indices: 34421127--34421307 Score: 285
Period size: 28 Copynumber: 6.5 Consensus size: 28
34421117 CATGAGATTG
* * * *
34421127 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
34421156 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
34421184 GCA-TAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
34421211 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34421239 GCACTAAGTGTGC-AGTTTGATTATGTA
1 GCACTAAGTGTGCGAGTTTGATTATATA
34421266 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
34421294 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
34421308 GACTTAATAT
Statistics
Matches: 143, Mismatches: 7, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
27 53 0.37
28 72 0.50
29 18 0.13
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:34421274 original size:83 final size:84
Alignment explanation
Indices: 34421127--34421307 Score: 285
Period size: 83 Copynumber: 2.2 Consensus size: 84
34421117 CATGAGATTG
* *
34421127 GCACTAAGTGTGCGGGTTTAAATTGTACAGCACTAAGTGTGCGAGTTTGATTATATAGCATAAGT
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCATAAGT
34421192 GTGCGAGTTTGATTATATA
66 GTGCGAGTTTGATTATATA
* * *
34421211 GCACTAAGTGTGCGAGTTT-GATTATATAGCACTAAGTGTGC-AGTTTGATTATGTAGCACTAAG
1 GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCA-TAAG
34421274 TGTGCGAGTTTGATTATATA
65 TGTGCGAGTTTGATTATATA
*
34421294 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
34421308 GACTTAATAT
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
82 16 0.18
83 56 0.62
84 18 0.20
ACGTcount: A:0.27, C:0.12, G:0.27, T:0.34
Consensus pattern (84 bp):
GCACTAAGTGTGCGAGTTTAAATTATACAGCACTAAGTGTGCGAGTTTGATTATATAGCATAAGT
GTGCGAGTTTGATTATATA
Found at i:34426102 original size:26 final size:26
Alignment explanation
Indices: 34426071--34426120 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
34426061 CATATCAAGG
34426071 TATTGTTGTCTCAGAGCATCTTCAAA
1 TATTGTTGTCTCAGAGCATCTTCAAA
34426097 TATTGTTGTCTCAGAGCATCTTCA
1 TATTGTTGTCTCAGAGCATCTTCA
34426121 GGCTCCCACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (26 bp):
TATTGTTGTCTCAGAGCATCTTCAAA
Found at i:34434039 original size:32 final size:31
Alignment explanation
Indices: 34433944--34434026 Score: 94
Period size: 32 Copynumber: 2.6 Consensus size: 31
34433934 CCCAAGGTTG
* * *
34433944 TGTGCCAATTATATTACCGTCACTGATGGCTA
1 TGTGCCAATTATAATACCGT-ACCGATGGCTT
** *
34433976 TGTGCCAAACATAATACAGTTACCGATGGCTT
1 TGTGCCAATTATAATACCG-TACCGATGGCTT
34434008 TGTGCCAATTATAATACCG
1 TGTGCCAATTATAATACCG
34434027 CTACGGAAGG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
32 40 0.98
33 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (31 bp):
TGTGCCAATTATAATACCGTACCGATGGCTT
Found at i:34434262 original size:32 final size:32
Alignment explanation
Indices: 34434226--34434288 Score: 83
Period size: 32 Copynumber: 2.0 Consensus size: 32
34434216 TGTCACCGTA
* * *
34434226 TTGGGCTTTGGCCCACTT-ATTCTGTTGTTGGT
1 TTGGGC-TAGGCCCAATTGATTCTGTTATTGGT
34434258 TTGGGCTAGGCCCAATTGATTCTGTTATTGG
1 TTGGGCTAGGCCCAATTGATTCTGTTATTGG
34434289 CTGTGATCGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
31 9 0.33
32 18 0.67
ACGTcount: A:0.11, C:0.17, G:0.29, T:0.43
Consensus pattern (32 bp):
TTGGGCTAGGCCCAATTGATTCTGTTATTGGT
Found at i:34444955 original size:40 final size:40
Alignment explanation
Indices: 34444895--34445032 Score: 163
Period size: 40 Copynumber: 3.5 Consensus size: 40
34444885 CGGATGTAAC
34444895 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* *
34444935 AACCCGCACGGATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
* ** * *
34444975 AACTAGCAC-AATTGCCTTC-GGATCTTAGTCCGGATATAGT
1 AACCAGCACGAA-TGCCTTCGGGA-CTTAACCCGGTTATAAT
* *
34445015 AACTAGCACAAATGCCTT
1 AACCAGCACGAATGCCTT
34445033 TGGATCTTCG
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 4 0.05
40 80 0.93
41 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:34445038 original size:40 final size:40
Alignment explanation
Indices: 34444885--34445051 Score: 140
Period size: 40 Copynumber: 4.2 Consensus size: 40
34444875 GAATTTGGCT
* * * * **
34444885 CGGATGTAACAACCAGCACGAATGCCTTCGGGA-CTTAACC
1 CGGATATAATAACTAGCACAAATGCCTTC-GGATCTTAGTC
* ** ** **
34444925 CGGTTATAATAACCCGCACGGATGCCTTCGGGA-CTTAACC
1 CGGATATAATAACTAGCACAAATGCCTTC-GGATCTTAGTC
* *
34444965 CGGTTATAATAACTAGCACAATTGCCTTCGGATCTTAGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
* * *
34445005 CGGATATAGTAACTAGCACAAATGCCTTTGGATCTTCGTC
1 CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
34445045 CGGATAT
1 CGGATAT
34445052 CATCCGAATA
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
39 3 0.03
40 106 0.97
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CGGATATAATAACTAGCACAAATGCCTTCGGATCTTAGTC
Found at i:34458125 original size:39 final size:40
Alignment explanation
Indices: 34458018--34458241 Score: 219
Period size: 40 Copynumber: 5.6 Consensus size: 40
34458008 TGAATGATGT
* * *
34458018 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAC-CATA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAATA
* * * *
34458057 TCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGATACTAATT
1 -CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
34458098 TCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAA-A
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
34458136 TCCGGGTTAAGTCCCGAAGGCGTTTGTGCGAGTTACTAA-A
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
34458176 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT-A
*
34458217 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
34458242 AACGAGGAGC
Statistics
Matches: 154, Mismatches: 22, Indels: 16
0.80 0.11 0.08
Matches are distributed among these distances:
39 32 0.21
40 111 0.72
41 11 0.07
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:34458221 original size:80 final size:80
Alignment explanation
Indices: 34458019--34458241 Score: 258
Period size: 80 Copynumber: 2.8 Consensus size: 80
34458009 GAATGATGTC
* * * * * *
34458019 CGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGTATTT
1 CGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCATTT
*
34458082 GTGCGAGATACTAATTT
64 GTGCGAGATACTAATCT
* * *
34458099 CGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCGTTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTG
*
34458162 TGCGAGTTACTAAATCT
65 TGCGAGATACT-AATCT
* *
34458179 -GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
34458242 AACGAGGAGC
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.02
79 51 0.42
80 66 0.55
81 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (80 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGT
GCGAGATACTAATCT
Found at i:34472299 original size:13 final size:13
Alignment explanation
Indices: 34472281--34472305 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34472271 TGAAGGGGGT
34472281 GGCAACCCTAGTA
1 GGCAACCCTAGTA
34472294 GGCAACCCTAGT
1 GGCAACCCTAGT
34472306 TAGAATACTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.32, G:0.24, T:0.16
Consensus pattern (13 bp):
GGCAACCCTAGTA
Found at i:34477845 original size:39 final size:39
Alignment explanation
Indices: 34477782--34478065 Score: 370
Period size: 39 Copynumber: 7.1 Consensus size: 39
34477772 AATTTTATTA
*
34477782 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
*
34477821 CCAGCACAAAGCCTACGGGTCTTTAGCCCAAAGACCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTT-------AG-CCCGGATACATTT
* * * *
34477868 CCAGCACGAAGCCTGCGGGTCTTTGGCCCAGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
** * *
34477907 CCAATACAAAGCCTGTGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
34477946 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
* * *
34477985 CCAGCACGAAGCCTGCGGGTCTTTGGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
*
34478024 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATATATTT
1 CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
34478063 CCA
1 CCA
34478066 TACACATTTC
Statistics
Matches: 213, Mismatches: 24, Indels: 16
0.84 0.09 0.06
Matches are distributed among these distances:
39 175 0.82
40 1 0.00
46 2 0.01
47 35 0.16
ACGTcount: A:0.24, C:0.30, G:0.23, T:0.23
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGTCTTTAGCCCGGATACATTT
Found at i:34477880 original size:47 final size:47
Alignment explanation
Indices: 34477808--34477897 Score: 153
Period size: 47 Copynumber: 1.9 Consensus size: 47
34477798 GGGACTTTAG
34477808 CCCGGATACATTTCCAGCACAAAGCCTACGGGTCTTTAGCCCAAAGA
1 CCCGGATACATTTCCAGCACAAAGCCTACGGGTCTTTAGCCCAAAGA
* * *
34477855 CCCGGATACATTTCCAGCACGAAGCCTGCGGGTCTTTGGCCCA
1 CCCGGATACATTTCCAGCACAAAGCCTACGGGTCTTTAGCCCA
34477898 GATATATTTC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.24, C:0.33, G:0.22, T:0.20
Consensus pattern (47 bp):
CCCGGATACATTTCCAGCACAAAGCCTACGGGTCTTTAGCCCAAAGA
Found at i:34487881 original size:8 final size:8
Alignment explanation
Indices: 34487858--34487899 Score: 66
Period size: 8 Copynumber: 5.0 Consensus size: 8
34487848 TTGGTGTTGG
34487858 TTTTATTTT
1 TTTTA-TTT
34487867 ATTTTATTT
1 -TTTTATTT
34487876 TTTTATTT
1 TTTTATTT
34487884 TTTTATTT
1 TTTTATTT
34487892 TTTTATTT
1 TTTTATTT
34487900 GCTTCAGCGT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 24 0.75
9 3 0.09
10 5 0.16
ACGTcount: A:0.14, C:0.00, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTATTT
Found at i:34488183 original size:18 final size:16
Alignment explanation
Indices: 34488145--34488178 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
34488135 GTCGGTAATT
34488145 AATTAATTTTTTTAAA
1 AATTAATTTTTTTAAA
34488161 AATTAATTTTTTTAAA
1 AATTAATTTTTTTAAA
34488177 AA
1 AA
34488179 AATTAGTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AATTAATTTTTTTAAA
Found at i:34488214 original size:26 final size:26
Alignment explanation
Indices: 34488160--34488214 Score: 76
Period size: 27 Copynumber: 2.1 Consensus size: 26
34488150 ATTTTTTTAA
*
34488160 AAATTAATTTTTTTAAAAAAATTAGT
1 AAATTAATTTTTTTAAAAAAAGTAGT
*
34488186 AAATTAAATTTTTTTTAAAAAAGTA-T
1 AAATT-AATTTTTTTAAAAAAAGTAGT
34488212 AAA
1 AAA
34488215 AACATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.44
Consensus pattern (26 bp):
AAATTAATTTTTTTAAAAAAAGTAGT
Found at i:34489713 original size:27 final size:27
Alignment explanation
Indices: 34489682--34489756 Score: 123
Period size: 27 Copynumber: 2.7 Consensus size: 27
34489672 GTACCTTCAT
34489682 AAAATGTCTATGTGGTACTTATATTTG
1 AAAATGTCTATGTGGTACTTATATTTG
34489709 AAAATGTCTATGTGGTACTTATATTTG
1 AAAATGTCTATGTGGTACTTATATTTG
* *
34489736 AAAATGTTCAATGTAGTACTT
1 AAAATG-TCTATGTGGTACTT
34489757 GAACTATTAA
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
27 33 0.73
28 12 0.27
ACGTcount: A:0.32, C:0.08, G:0.17, T:0.43
Consensus pattern (27 bp):
AAAATGTCTATGTGGTACTTATATTTG
Found at i:34490328 original size:26 final size:26
Alignment explanation
Indices: 34490292--34490343 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
34490282 TGTTGGAACC
34490292 TTGATTTCAAATGAGAAAG-TTTTCGG
1 TTGATTTCAAATGAG-AAGCTTTTCGG
34490318 TTGATTTCAAATGAGAAGCTTTTCGG
1 TTGATTTCAAATGAGAAGCTTTTCGG
34490344 AGAAGATGCA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
25 3 0.12
26 22 0.88
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.38
Consensus pattern (26 bp):
TTGATTTCAAATGAGAAGCTTTTCGG
Found at i:34506773 original size:13 final size:13
Alignment explanation
Indices: 34506755--34506780 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34506745 GAGAGTTACT
34506755 TGGGTTAGGGACA
1 TGGGTTAGGGACA
34506768 TGGGTTAGGGACA
1 TGGGTTAGGGACA
34506781 CGGGCGTGTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.46, T:0.23
Consensus pattern (13 bp):
TGGGTTAGGGACA
Found at i:34515968 original size:28 final size:27
Alignment explanation
Indices: 34515937--34515989 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
34515927 TAGTATCAGG
*
34515937 TGGGCCTTAGCCCATTAACAGAATCAAA
1 TGGGCCTAAGCCCATT-ACAGAATCAAA
* *
34515965 TGGGCCTAATCCCATTATAGAATCA
1 TGGGCCTAAGCCCATTACAGAATCA
34515990 GTATTAGATG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 8 0.36
28 14 0.64
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.25
Consensus pattern (27 bp):
TGGGCCTAAGCCCATTACAGAATCAAA
Found at i:34516165 original size:22 final size:22
Alignment explanation
Indices: 34516140--34516185 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
34516130 AACAGATCAA
* *
34516140 CTCAACATCGTAGACAGAACGG
1 CTCAACACCATAGACAGAACGG
*
34516162 CTCAACACCATAGATAGAACGG
1 CTCAACACCATAGACAGAACGG
34516184 CT
1 CT
34516186 AAAGGCCGTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.28, G:0.20, T:0.15
Consensus pattern (22 bp):
CTCAACACCATAGACAGAACGG
Found at i:34518737 original size:27 final size:28
Alignment explanation
Indices: 34518673--34518737 Score: 87
Period size: 28 Copynumber: 2.4 Consensus size: 28
34518663 CATCACAAAA
* * * *
34518673 ACAGTATCAGGTGGGCCTTAGGCCATTT
1 ACAGAATCAGATGGGCCTAAGCCCATTT
34518701 ACAGAATCAGATGGGCCTAAGCCCA-TT
1 ACAGAATCAGATGGGCCTAAGCCCATTT
34518728 ACAGAATCAG
1 ACAGAATCAG
34518738 TATCAGATGC
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
27 12 0.36
28 21 0.64
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (28 bp):
ACAGAATCAGATGGGCCTAAGCCCATTT
Found at i:34518907 original size:22 final size:22
Alignment explanation
Indices: 34518879--34518929 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
34518869 CACTAAGTCA
34518879 ACAGAACGACTCAACACCGTAG
1 ACAGAACGACTCAACACCGTAG
*
34518901 ACAGAACGGCTCAACACCGTAG
1 ACAGAACGACTCAACACCGTAG
*
34518923 ATAGAAC
1 ACAGAAC
34518930 TGCTAAAGGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.41, C:0.29, G:0.20, T:0.10
Consensus pattern (22 bp):
ACAGAACGACTCAACACCGTAG
Found at i:34519028 original size:22 final size:25
Alignment explanation
Indices: 34518969--34519029 Score: 65
Period size: 27 Copynumber: 2.5 Consensus size: 25
34518959 CTGCCAGTTA
*
34518969 ACAGAACGGCTATAAGCCATAAGTATC
1 ACAGAACGGCTAAAAGCCAT-A-TATC
*
34518996 ACAGAAAGGCTAAAAGCC-T-TAT-
1 ACAGAACGGCTAAAAGCCATATATC
34519018 ACAGAACGGCTA
1 ACAGAACGGCTA
34519030 CAGGCCGTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 11 0.35
23 3 0.10
26 1 0.03
27 16 0.52
ACGTcount: A:0.43, C:0.21, G:0.20, T:0.16
Consensus pattern (25 bp):
ACAGAACGGCTAAAAGCCATATATC
Found at i:34520823 original size:8 final size:8
Alignment explanation
Indices: 34520810--34520842 Score: 57
Period size: 8 Copynumber: 4.0 Consensus size: 8
34520800 TTTAGTCCCT
34520810 AAATCACA
1 AAATCACA
34520818 AAATCACA
1 AAATCACA
34520826 AAATCACA
1 AAATCACA
34520834 AAATACACA
1 AAAT-CACA
34520843 TAATTTGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 20 0.83
9 4 0.17
ACGTcount: A:0.64, C:0.24, G:0.00, T:0.12
Consensus pattern (8 bp):
AAATCACA
Found at i:34543825 original size:46 final size:45
Alignment explanation
Indices: 34543775--34543942 Score: 155
Period size: 46 Copynumber: 3.6 Consensus size: 45
34543765 TGGTTGAGCA
* *
34543775 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTCTGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCAC-TCTGGATGCAAACG
* * *
34543821 TCCGAACTCGTTGAGTTGAGTCCGAGTT--C-GTGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCTG-GATGCAA--A--CG
* *
34543868 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTC-TGGATGCAAACG
* *
34543914 CCCGAGA-TTGTTGAGTTGAGTCCGAGTTC
1 TCCGA-ACTCGTTGAGTTGAGTCCGAGTTC
34543943 GCTTATGGGC
Statistics
Matches: 99, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
42 2 0.02
43 6 0.06
44 1 0.01
45 1 0.01
46 52 0.53
47 28 0.28
48 1 0.01
49 1 0.01
50 5 0.05
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCTGGATGCAAACG
Found at i:34543931 original size:93 final size:93
Alignment explanation
Indices: 34543772--34543943 Score: 276
Period size: 93 Copynumber: 1.8 Consensus size: 93
34543762 GGATGGTTGA
* *
34543772 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTCTGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTCTGGATGCAAACGCCCGAACTCGTTGAGT
34543837 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
34543865 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCAC-TCATGGATGCGAACGCCCGAGA-TTGTTGA
1 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTC-TGGATGCAAACGCCCGA-ACTCGTTGA
34543928 GTTGAGTCCGAGTTCG
64 GTTGAGTCCGAGTTCG
34543944 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
92 2 0.03
93 70 0.96
94 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTCTGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34549312 original size:45 final size:45
Alignment explanation
Indices: 34549263--34549435 Score: 203
Period size: 45 Copynumber: 3.8 Consensus size: 45
34549253 TGGTTGAGCA
34549263 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
* * *
34549308 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA-T--G
*
34549353 CATCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AATG
* *
34549400 -CCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
34549436 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 9, Indels: 20
0.79 0.07 0.14
Matches are distributed among these distances:
42 6 0.06
43 1 0.01
44 5 0.05
45 60 0.55
46 24 0.22
47 7 0.06
49 4 0.04
50 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATG
Found at i:34549423 original size:91 final size:92
Alignment explanation
Indices: 34549260--34549428 Score: 297
Period size: 91 Copynumber: 1.8 Consensus size: 92
34549250 GGATGGTTGA
*
34549260 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGTCCGAACTCGTTGAGTT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGTCCGAACTCGTTGAGTT
34549325 GAGTCCGAGTTCGTGAGATGTAACTAG
66 GAGTCCGAGTTCGTGAGATGTAACTAG
*
34549352 GCATCCG-ACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGTCCGAACTCGTTGAGT
34549415 TGAGTCCGAGTTCG
65 TGAGTCCGAGTTCG
34549429 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 2, Indels: 3
0.94 0.03 0.04
Matches are distributed among these distances:
91 64 0.86
92 10 0.14
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (92 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGTCCGAACTCGTTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:34551164 original size:34 final size:34
Alignment explanation
Indices: 34551098--34551179 Score: 96
Period size: 34 Copynumber: 2.4 Consensus size: 34
34551088 GTATGTTACC
*
34551098 ATTAACATGCTTATAATAAGTATATACGGTAGCA
1 ATTAACATGCTTATAATAAGTATATACAGTAGCA
*
34551132 ATTATCATGCTTATAAT-AG-ATCATAACAGTAGCA
1 ATTAACATGCTTATAATAAGTAT-AT-ACAGTAGCA
* *
34551166 ATAAACTTGCTTAT
1 ATTAACATGCTTAT
34551180 TATGTATTTG
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 2 0.05
33 4 0.10
34 35 0.85
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (34 bp):
ATTAACATGCTTATAATAAGTATATACAGTAGCA
Found at i:34555108 original size:14 final size:15
Alignment explanation
Indices: 34555085--34555117 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
34555075 CACTTTGTGG
*
34555085 TAATTTTATTT-TTT
1 TAATTATATTTATTT
34555099 TAATTATATTTATTT
1 TAATTATATTTATTT
34555114 TAAT
1 TAAT
34555118 AAACGTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TAATTATATTTATTT
Found at i:34556154 original size:26 final size:26
Alignment explanation
Indices: 34556124--34556176 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
34556114 TAGTGATTTG
*
34556124 TTTTATATTCTAATGTTAATTTCTTA
1 TTTTATATTCCAATGTTAATTTCTTA
* *
34556150 TTTTATATTCCGATGTTAATTTTTTA
1 TTTTATATTCCAATGTTAATTTCTTA
34556176 T
1 T
34556177 GTCCCATGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.25, C:0.08, G:0.06, T:0.62
Consensus pattern (26 bp):
TTTTATATTCCAATGTTAATTTCTTA
Found at i:34569188 original size:92 final size:93
Alignment explanation
Indices: 34569053--34569222 Score: 270
Period size: 92 Copynumber: 1.8 Consensus size: 93
34569043 GGATGGTTGA
* * * * *
34569053 GCATCCGAGCTTGTTGAGTTGAGTCCGAGTTCACCTATGGATGCG-ATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
34569117 TGAGTCCAAGTTCGTGAGATGTAACTAG
66 TGAGTCCAAGTTCGTGAGATGTAACTAG
* *
34569145 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
34569210 TGAGTCCAAGTTC
66 TGAGTCCAAGTTC
34569223 ACTTAGGGGT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 42 0.60
93 28 0.40
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCAAGTTCGTGAGATGTAACTAG
Found at i:34569222 original size:46 final size:46
Alignment explanation
Indices: 34569065--34569227 Score: 156
Period size: 46 Copynumber: 3.5 Consensus size: 46
34569055 ATCCGAGCTT
* * * * *
34569065 GTTGAGTTGAGTCCGAGTTCACCTATGGATGCG-ATGTCTGAACTC
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTC
* * *
34569110 GTTGAGTTGAGTCCAAGTTC-GTGA--GATG-TAACTAGGCATCCGAACTC
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAAC---GC--CCGAACTC
* *
34569157 GTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTC
1 GTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTC
34569203 GTTGAGTTGAGTCCAAGTTCACTTA
1 GTTGAGTTGAGTCCAAGTTCACTTA
34569228 GGGGTGGGTT
Statistics
Matches: 94, Mismatches: 14, Indels: 19
0.74 0.11 0.15
Matches are distributed among these distances:
42 5 0.05
44 1 0.01
45 20 0.21
46 31 0.33
47 26 0.28
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.29
Consensus pattern (46 bp):
GTTGAGTTGAGTCCAAGTTCACTTATGGATGCGAACGCCCGAACTC
Found at i:34602488 original size:42 final size:42
Alignment explanation
Indices: 34602372--34602524 Score: 182
Period size: 42 Copynumber: 3.6 Consensus size: 42
34602362 ACTACACCAA
* ** *
34602372 GCCATATCCCAGATATGGTCTTACATGGGATCT-AGTATCCAT
1 GCCATATCCCAGATATGGTCTTACACGAAATCTCA-TATCGAT
* * *
34602414 GCCAATAGCCCAGTTATGGTTTTACACGAAATCTCATATCGAT
1 GCC-ATATCCCAGATATGGTCTTACACGAAATCTCATATCGAT
* * *
34602457 GCCATATCCCAGATATGGTCTTAGACAAAATCTCATATTGAT
1 GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCGAT
*
34602499 TCCATATCCCAGATATGGTCTTACAC
1 GCCATATCCCAGATATGGTCTTACAC
34602525 ATAGTCTCGG
Statistics
Matches: 94, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 60 0.64
43 33 0.35
44 1 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACGAAATCTCATATCGAT
Found at i:34610071 original size:42 final size:42
Alignment explanation
Indices: 34609964--34610114 Score: 187
Period size: 42 Copynumber: 3.6 Consensus size: 42
34609954 ACACCAATGT
* **
34609964 CATATCCCAGTTATGGTCTTACATGGGATCT-AGTATCCATGC
1 CATATCCCAGTTATGGTCTTACACGAAATCTCA-TATCCATGC
* * *
34610006 CAATAGCCCAGCTATGGTCTTACACGAAATCTCATATCGATGC
1 C-ATATCCCAGTTATGGTCTTACACGAAATCTCATATCCATGC
* **
34610049 CATATCCCAGATATGGTCTTACACGAAATCTCATATTTATGC
1 CATATCCCAGTTATGGTCTTACACGAAATCTCATATCCATGC
*
34610091 CATATCCCAGTTATGGCCTTACAC
1 CATATCCCAGTTATGGTCTTACAC
34610115 ATAGTCTCGA
Statistics
Matches: 95, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
42 60 0.63
43 34 0.36
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (42 bp):
CATATCCCAGTTATGGTCTTACACGAAATCTCATATCCATGC
Found at i:34611581 original size:20 final size:20
Alignment explanation
Indices: 34611552--34611596 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34611542 AGCACATGTA
* *
34611552 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
34611572 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
34611592 TTCAT
1 TTCAT
34611597 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:34619197 original size:20 final size:20
Alignment explanation
Indices: 34619174--34619212 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
34619164 TGTATTCACA
*
34619174 AAATTTTAGAATTTTTCATC
1 AAATTTTACAATTTTTCATC
34619194 AAATTTTACAATTTTTCAT
1 AAATTTTACAATTTTTCAT
34619213 TTTAGTCCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (20 bp):
AAATTTTACAATTTTTCATC
Found at i:34623305 original size:18 final size:18
Alignment explanation
Indices: 34623282--34623318 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34623272 CCAAACATAG
34623282 TTGATTTATCATCTTACT
1 TTGATTTATCATCTTACT
34623300 TTGATTTATCATCTTACT
1 TTGATTTATCATCTTACT
34623318 T
1 T
34623319 AAACCATAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.22, C:0.16, G:0.05, T:0.57
Consensus pattern (18 bp):
TTGATTTATCATCTTACT
Found at i:34632560 original size:8 final size:7
Alignment explanation
Indices: 34632536--34632566 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
34632526 TATGTTACTA
34632536 AAAATAT
1 AAAATAT
34632543 AAAATAT
1 AAAATAT
34632550 AAAATATT
1 AAAATA-T
34632558 AAAATAT
1 AAAATAT
34632565 AA
1 AA
34632567 TTTTCCATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 16 0.70
8 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (7 bp):
AAAATAT
Found at i:34632560 original size:15 final size:14
Alignment explanation
Indices: 34632536--34632566 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
34632526 TATGTTACTA
34632536 AAAATATAAAATAT
1 AAAATATAAAATAT
34632550 AAAATATTAAAATAT
1 AAAATA-TAAAATAT
34632565 AA
1 AA
34632567 TTTTCCATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAATATAAAATAT
Found at i:34633335 original size:125 final size:124
Alignment explanation
Indices: 34633171--34633759 Score: 829
Period size: 125 Copynumber: 4.7 Consensus size: 124
34633161 AACTTCTTAT
* * * * *
34633171 TTTTTTCTATAGTAGTATCTAAAAATAATAATTTTGAGAAGACGTTTCAGAATAAATAGTGTCGA
1 TTTTTTCTACAGTAGTATCT-GAAA-AATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCA
* * * * *
34633236 AAATGCTTCAAGTAGGATGCACTGCCAGCAAAATTACTGAAAAAAGCTCCCACATAGACGC
64 AAACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* * *
34633297 TTTTTTCTACAGTAGTATTTGAAAAATTAATTTTGAGAAGACGTTTTTGAACAAATAGTATCCAA
1 TTTTTTCTACAGTAGTATCTGAAAAA-TAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
* * * * *
34633362 AACGCTTCAAGCATGATGCATTATTAGCAAAATTACTGAAAAAAGCTCCCACGTGGGA-AC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGT-GGACGC
* *
34633422 TTTTTTCTACAGTAGTATCTAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGCCCAAA
1 TTTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
* *
34633487 ACGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCACGTTGACGC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
*
34633546 TTTTTTTCTACAATAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
1 -TTTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
* * * * * *
34633611 AATGCTTTAACCAGGATGCACTATCAGCAAAATTACTAAAAAAAGTTCCCACGTGGACGC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
* * *
34633671 TCTTTTTCTACAGTAGTATCTGAAAAATACTTTTGAGAAGACCTTTCTGAATAAATAGTGTCCAA
1 T-TTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAA
34633736 AACGCTTCAAGCAGGATGCACTGT
65 AACGCTTCAAGCAGGATGCACTGT
34633760 TTGTAACACC
Statistics
Matches: 409, Mismatches: 49, Indels: 11
0.87 0.10 0.02
Matches are distributed among these distances:
123 2 0.00
124 88 0.22
125 299 0.73
126 20 0.05
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (124 bp):
TTTTTTCTACAGTAGTATCTGAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGC
Found at i:34633642 original size:249 final size:249
Alignment explanation
Indices: 34633171--34633759 Score: 876
Period size: 249 Copynumber: 2.4 Consensus size: 249
34633161 AACTTCTTAT
* * *
34633171 TTTTTTCTATAGTAGTATCTAAAAATAATAATTTTGAGAAGACGTTTCAGAATAAATAGTGTCGA
1 TTTTTTCTACAGTAGTATCT-AAAA-AATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTCCA
* * * *
34633236 AAATGCTTCAAGTAGGATGCACTGCCAGCAAAATTACTGAAAAAAGCTCCCACATAGACGCTTTT
64 AAACGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCACATAGACGCTTTT
* * *
34633301 TTCTACAGTAGTATTTGAAAAATTAATTTTGAGAAGACGTTTTTGAACAAATAGTATCCAAAACG
129 TTCTACAATAGTATCTGAAAAATTAATTTTGAGAAGACGTTTCTGAACAAATAGTATCCAAAACG
* * * * *
34633366 CTTCAAGCATGATGCATTATTAGCAAAATTACTGAAAAAAGCTCCCACGTGGGA-AC
194 CTTCAACCAGGATGCACTATCAGCAAAATTACTAAAAAAAGCTCCCACGT-GGACAC
* *
34633422 TTTTTTCTACAGTAGTATCTAAAAAATAATTTTGAGAAGACGTTTCTGAACAAATAGTGCCCAAA
1 TTTTTTCTACAGTAGTATCTAAAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTCCAAA
* *
34633487 ACGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCACGTTGACGCTTTTTT
66 ACGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCACATAGACGC-TTTTT
* *
34633552 TCTACAATAGTATCTGAAAAA-TAATTTTGAGAAGACGTTTCTGAACAAATAGTGTCCAAAATGC
130 TCTACAATAGTATCTGAAAAATTAATTTTGAGAAGACGTTTCTGAACAAATAGTATCCAAAACGC
* * *
34633616 TTTAACCAGGATGCACTATCAGCAAAATTACTAAAAAAAGTTCCCACGTGGACGC
195 TTCAACCAGGATGCACTATCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACAC
* * *
34633671 TCTTTTTCTACAGTAGTATCTGAAAAATACTTTTGAGAAGACCTTTCTGAATAAATAGTGTCCAA
1 T-TTTTTCTACAGTAGTATCTAAAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTCCAA
34633736 AACGCTTCAAGCAGGATGCACTGT
65 AACGCTTCAAGCAGGATGCACTGT
34633760 TTGTAACACC
Statistics
Matches: 306, Mismatches: 29, Indels: 7
0.89 0.08 0.02
Matches are distributed among these distances:
248 3 0.01
249 174 0.57
250 110 0.36
251 19 0.06
ACGTcount: A:0.37, C:0.17, G:0.16, T:0.30
Consensus pattern (249 bp):
TTTTTTCTACAGTAGTATCTAAAAAATAATTTTGAGAAGACGTTTCTGAATAAATAGTGTCCAAA
ACGCTTCAAGCAGGATGCACTGTCACCAAAATTACTGAAAAAAGCTCCCACATAGACGCTTTTTT
CTACAATAGTATCTGAAAAATTAATTTTGAGAAGACGTTTCTGAACAAATAGTATCCAAAACGCT
TCAACCAGGATGCACTATCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACAC
Found at i:34634522 original size:31 final size:31
Alignment explanation
Indices: 34634484--34634562 Score: 140
Period size: 31 Copynumber: 2.5 Consensus size: 31
34634474 TTTAATAGTT
34634484 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
34634515 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
34634546 ATTGGGCCAAAGCCTTT
1 ACTGGGCCGAAGCCTTT
34634563 ACTGTAAACG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:34634633 original size:42 final size:42
Alignment explanation
Indices: 34634586--34634677 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
34634576 TGGCCCTTAG
* * ** *
34634586 GCCCATTTCAGTATCACATGTAATGTCAACGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAACGAATGTATGCAA
*
34634628 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAACGAATGTATGCAA
34634670 GCCCATTT
1 GCCCATTT
34634678 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.28
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAACGAATGTATGCAA
Found at i:34634895 original size:26 final size:26
Alignment explanation
Indices: 34634821--34634943 Score: 169
Period size: 26 Copynumber: 4.8 Consensus size: 26
34634811 CCTCTTTAAT
**
34634821 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
34634846 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
34634871 AACTGGGGCATAAACCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCAATA
* **
34634897 AACTAGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCAATA
*
34634923 AAATGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
34634944 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 33 0.38
26 55 0.62
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCAATA
Found at i:34635837 original size:27 final size:27
Alignment explanation
Indices: 34635746--34635829 Score: 116
Period size: 27 Copynumber: 3.1 Consensus size: 27
34635736 GGGCATATTC
* * *
34635746 GTCATTTTACCATACAAGGG-TATTACG
1 GTCACTTTACCCTACAGGGGCT-TTACG
34635773 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
*
34635800 ATCACTTTACCCTACAGGGGCTTTACG
1 GTCACTTTACCCTACAGGGGCTTTACG
34635827 GTC
1 GTC
34635830 TTTTTACCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
27 50 0.98
28 1 0.02
ACGTcount: A:0.23, C:0.26, G:0.20, T:0.31
Consensus pattern (27 bp):
GTCACTTTACCCTACAGGGGCTTTACG
Found at i:34635994 original size:27 final size:27
Alignment explanation
Indices: 34635974--34636293 Score: 271
Period size: 27 Copynumber: 11.9 Consensus size: 27
34635964 GTAACTTTGT
34635974 AAATCAGGGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
* ** *
34636001 AAAT-TGAGGGTATTTCAGTAATTTCAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* *
34636028 AAACCAGTGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
34636055 AAA-CTAGGGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
* *
34636082 AAAT-TGAGGGTATTTCGGTAATTTTAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * *
34636109 AAACCAGGGGTATTTTAGCAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
*
34636136 -AAGCTA-GGGTATTTTGGTAATTTTAC
1 AAATC-AGGGGTATTTTGGTAATTTTAC
** * *
34636162 TGATC-GAGGGTATTTCGGTAATTTAAC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * *
34636189 AAACCAGGGGTATTTTAGCAATTTTTAC
1 AAATCAGGGGTATTTTGGTAA-TTTTAC
**
34636217 AGGT-A-GGGTATTTTGGTAATTTTAC
1 AAATCAGGGGTATTTTGGTAATTTTAC
** *
34636242 TGATC-GAGGGTATTTTGGTAATTTTGC
1 AAATCAG-GGGTATTTTGGTAATTTTAC
* * *
34636269 AAACCAAGGGTATTTTAGTAATTTT
1 AAATCAGGGGTATTTTGGTAATTTT
34636294 GTAAATCGAT
Statistics
Matches: 232, Mismatches: 45, Indels: 32
0.75 0.15 0.10
Matches are distributed among these distances:
25 8 0.03
26 36 0.16
27 179 0.77
28 9 0.04
ACGTcount: A:0.29, C:0.09, G:0.22, T:0.40
Consensus pattern (27 bp):
AAATCAGGGGTATTTTGGTAATTTTAC
Found at i:34636191 original size:80 final size:80
Alignment explanation
Indices: 34635981--34636293 Score: 439
Period size: 80 Copynumber: 3.9 Consensus size: 80
34635971 TGTAAATCAG
* * * * *
34635981 GGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCAGTAATTTCACAAACCAGTGGTATTTTGG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
* *
34636046 TAATTTTACAAACTA
66 CAATTTTACAAGCTA
*
34636061 GGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTA
1 -GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTA
34636126 GCAATTTTACAAGCTA
65 GCAATTTTACAAGCTA
** *
34636142 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTCGGTAATTTAACAAACCAGGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
*
34636207 CAATTTTTAC-AGGTA
66 CAA-TTTTACAAGCTA
** * * *
34636222 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGCAAACCAAGGGTATTTTAG
1 GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
*
34636287 TAATTTT
66 CAATTTT
34636294 GTAAATCGAT
Statistics
Matches: 215, Mismatches: 16, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
79 4 0.02
80 131 0.61
81 80 0.37
ACGTcount: A:0.28, C:0.09, G:0.22, T:0.40
Consensus pattern (80 bp):
GGGTATTTTGGTAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAACCAGGGGTATTTTAG
CAATTTTACAAGCTA
Found at i:34636279 original size:107 final size:107
Alignment explanation
Indices: 34636008--34636292 Score: 261
Period size: 107 Copynumber: 2.7 Consensus size: 107
34635998 TACAAATTGA
* * * * * * *
34636008 GGGTATTTCAGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGG
1 GGGTATTTTAGCAATTTTACAAGCGAG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
* ** * *
34636073 TAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAG
65 TAATTTAACAAACAGAGGGTATTTCAGCAATTTTACAAACCAG
* ** * * *
34636116 GGGTATTTTAGCAATTTTACAAGCTAGGGTATTTTGGTAATTTTACTGATCGAGGGTATTTCGGT
1 GGGTATTTTAGCAATTTTACAAGCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGT
* ***
34636181 AATTTAACAAACCAG-GGGTATTTTAGCAATTTTTAC-AGGTA-
66 AATTTAACAAA-CAGAGGGTATTTCAGCAA-TTTTACAAACCAG
* * * * * *
34636222 GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGCAAACCAAGGGTATTTTAG
1 GGGTATTTTAGCAATTTTAC-AAGCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGG
34636287 TAATTT
65 TAATTT
34636293 TGTAAATCGA
Statistics
Matches: 141, Mismatches: 33, Indels: 7
0.78 0.18 0.04
Matches are distributed among these distances:
106 18 0.13
107 94 0.67
108 29 0.21
ACGTcount: A:0.28, C:0.10, G:0.22, T:0.40
Consensus pattern (107 bp):
GGGTATTTTAGCAATTTTACAAGCGAGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTGGT
AATTTAACAAACAGAGGGTATTTCAGCAATTTTACAAACCAG
Found at i:34636294 original size:27 final size:27
Alignment explanation
Indices: 34635868--34636293 Score: 268
Period size: 27 Copynumber: 15.8 Consensus size: 27
34635858 TTTCATCCTA
* * *
34635868 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*** **
34635895 CAAGGGTATTTCAATAATTTTGTAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *** * *
34635922 CAATGGTATTTCCATAATTTTTAGAAAGT
1 CAAGGGTATTTTGGTAA-TTTTACAAA-C
* * * ** *
34635951 CAATGGTATGTCT-GTAACTTTGTAAAT
1 CAAGGGTAT-TTTGGTAATTTTACAAAC
* *
34635978 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** ** *
34636005 TGAGGGTATTTCAGTAATTTCACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
34636032 C-AGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTGGTAATTTTACAAAC
* * *
34636059 TAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
** *
34636086 TGAGGGTATTTCGGTAATTTTACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
34636113 CAGGGGTATTTTAGCAATTTTAC-AAG
1 CAAGGGTATTTTGGTAATTTTACAAAC
* ** *
34636139 CTAGGGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * *
34636166 CGAGGGTATTTCGGTAATTTAACAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
* * * *
34636193 CAGGGGTATTTTAGCAATTTTTAC--AG
1 CAAGGGTATTTTGGTAA-TTTTACAAAC
** ** *
34636219 GTAGGGTATTTTGGTAATTTTACTGAT
1 CAAGGGTATTTTGGTAATTTTACAAAC
* *
34636246 CGAGGGTATTTTGGTAATTTTGCAAAC
1 CAAGGGTATTTTGGTAATTTTACAAAC
*
34636273 CAAGGGTATTTTAGTAATTTT
1 CAAGGGTATTTTGGTAATTTT
34636294 GTAAATCGAT
Statistics
Matches: 306, Mismatches: 83, Indels: 20
0.75 0.20 0.05
Matches are distributed among these distances:
25 6 0.02
26 38 0.12
27 230 0.75
28 19 0.06
29 12 0.04
30 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.21, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAC
Found at i:34636315 original size:27 final size:27
Alignment explanation
Indices: 34636285--34636415 Score: 163
Period size: 27 Copynumber: 4.9 Consensus size: 27
34636275 AGGGTATTTT
* *
34636285 AGTAATTTTGTAAATCGATGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
**
34636312 AGTAATTCTGTAAATTAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
34636339 AATAATTCTATAAGTCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
34636366 GGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* *
34636393 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
34636416 TTTTGGTAAT
Statistics
Matches: 88, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:34636426 original size:54 final size:54
Alignment explanation
Indices: 34636295--34636415 Score: 188
Period size: 54 Copynumber: 2.2 Consensus size: 54
34636285 AGTAATTTTG
* * *
34636295 TAAATCGATGGTAAAACAGTAATTCTGTAAATTAAGGGTAAAACAATAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTA
* **
34636349 TAAGTCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACGGTAATTCTA
1 TAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTA
34636403 TAAATCGAGGGTA
1 TAAATCGAGGGTA
34636416 TTTTGGTAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 60 1.00
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (54 bp):
TAAATCGAGGGTAAAACGGTAATTCTGTAAATCAAGGGTAAAACAATAATTCTA
Found at i:34640839 original size:18 final size:19
Alignment explanation
Indices: 34640802--34640840 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
34640792 TACCTGTCAT
*
34640802 TTTAAGCATAAAAATTGAA
1 TTTAAGCATAAAAATAGAA
*
34640821 TTTAA-CATAAAACTAGAA
1 TTTAAGCATAAAAATAGAA
34640839 TT
1 TT
34640841 CCATGCCTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (19 bp):
TTTAAGCATAAAAATAGAA
Found at i:34643066 original size:16 final size:16
Alignment explanation
Indices: 34643033--34643067 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
34643023 GAAAATCCTG
*
34643033 AAATGCCGAAAAGTCA
1 AAATGCCGAAAAGCCA
*
34643049 AAATGCCGAAATGCCA
1 AAATGCCGAAAAGCCA
34643065 AAA
1 AAA
34643068 AACCAGAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.20, G:0.17, T:0.11
Consensus pattern (16 bp):
AAATGCCGAAAAGCCA
Found at i:34643227 original size:17 final size:18
Alignment explanation
Indices: 34643194--34643227 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
34643184 CCAGGCCAGA
34643194 ATGGGCTAAATGGGCCCG
1 ATGGGCTAAATGGGCCCG
34643212 ATGGGCTAAA-GGGCCC
1 ATGGGCTAAATGGGCCC
34643228 ATCATAGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.24, C:0.24, G:0.38, T:0.15
Consensus pattern (18 bp):
ATGGGCTAAATGGGCCCG
Found at i:34643379 original size:29 final size:29
Alignment explanation
Indices: 34643300--34643379 Score: 88
Period size: 29 Copynumber: 2.8 Consensus size: 29
34643290 GAATGAGATC
* *
34643300 AGGCCTAATAGGCCATATGAATGTGGTTT
1 AGGCCTAATGGGCCATATGAATGTGATTT
** *
34643329 AGGCCTAGCGGGCCATACGAATGTGATTT
1 AGGCCTAATGGGCCATATGAATGTGATTT
* * *
34643358 GGGCCTAATGGGCAACATGAAT
1 AGGCCTAATGGGCCATATGAAT
34643380 AAAATTGGGC
Statistics
Matches: 40, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.25
Consensus pattern (29 bp):
AGGCCTAATGGGCCATATGAATGTGATTT
Found at i:34645981 original size:16 final size:16
Alignment explanation
Indices: 34645960--34645990 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
34645950 AATTTTTGTA
34645960 ATTATGATACTATGTG
1 ATTATGATACTATGTG
34645976 ATTATGATACTATGT
1 ATTATGATACTATGT
34645991 CTTTGTATGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.06, G:0.16, T:0.45
Consensus pattern (16 bp):
ATTATGATACTATGTG
Found at i:34648877 original size:14 final size:14
Alignment explanation
Indices: 34648855--34648908 Score: 63
Period size: 14 Copynumber: 3.9 Consensus size: 14
34648845 TTAATTATCA
*
34648855 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
* *
34648869 TTATGGTTTAAGAT
1 TTATGGTTTAGGGT
*
34648883 ATATGGTTTAGGGT
1 TTATGGTTTAGGGT
*
34648897 TTAAGGTTTAGG
1 TTATGGTTTAGG
34648909 AGTTAATTAG
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:34648964 original size:14 final size:15
Alignment explanation
Indices: 34648939--34648967 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34648929 TTGATGATGA
34648939 ATTATGGGTTTAGGG
1 ATTATGGGTTTAGGG
34648954 ATTAT-GGTTTAGGG
1 ATTATGGGTTTAGGG
34648968 TTGGAGTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.21, C:0.00, G:0.38, T:0.41
Consensus pattern (15 bp):
ATTATGGGTTTAGGG
Found at i:34649011 original size:7 final size:7
Alignment explanation
Indices: 34648944--34649057 Score: 72
Period size: 7 Copynumber: 16.1 Consensus size: 7
34648934 GATGAATTAT
34648944 GGGTTTA
1 GGGTTTA
*
34648951 GGGATTA
1 GGGTTTA
*
34648958 TGGTTTA
1 GGGTTTA
34648965 GGG-TT-
1 GGGTTTA
34648970 GGAGTTTA
1 GG-GTTTA
* *
34648978 AGGTGTA
1 GGGTTTA
*
34648985 GTGGTTTG
1 G-GGTTTA
*
34648993 GGGTTAA
1 GGGTTTA
*
34649000 TGGTTTA
1 GGGTTTA
34649007 GGGTTTA
1 GGGTTTA
*
34649014 GTGTTTA
1 GGGTTTA
*
34649021 GTGTTTA
1 GGGTTTA
*
34649028 TGGG-ATA
1 -GGGTTTA
*
34649035 GGGGTTA
1 GGGTTTA
34649042 GAGGTTTA
1 G-GGTTTA
34649050 GGGTTTA
1 GGGTTTA
34649057 G
1 G
34649058 ATTAATTAGT
Statistics
Matches: 81, Mismatches: 19, Indels: 14
0.71 0.17 0.12
Matches are distributed among these distances:
5 2 0.02
6 6 0.07
7 59 0.73
8 14 0.17
ACGTcount: A:0.18, C:0.00, G:0.41, T:0.41
Consensus pattern (7 bp):
GGGTTTA
Found at i:34649895 original size:16 final size:16
Alignment explanation
Indices: 34649842--34649895 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
34649832 ATATTAAATA
*
34649842 ATTTCAAATTTTAAAG
1 ATTTCAAATTTTCAAG
34649858 ATTTCAAATTTTC-A-
1 ATTTCAAATTTTCAAG
34649872 A--T--AATTTTCAAG
1 ATTTCAAATTTTCAAG
34649884 ATTTCAAATTTT
1 ATTTCAAATTTT
34649896 ATCTAATTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 12
0.70 0.02 0.27
Matches are distributed among these distances:
10 7 0.23
11 1 0.03
12 2 0.06
14 2 0.06
15 1 0.03
16 18 0.58
ACGTcount: A:0.39, C:0.09, G:0.04, T:0.48
Consensus pattern (16 bp):
ATTTCAAATTTTCAAG
Found at i:34652685 original size:293 final size:293
Alignment explanation
Indices: 34652158--34652742 Score: 1170
Period size: 293 Copynumber: 2.0 Consensus size: 293
34652148 ACCTGTTCAT
34652158 GGATTGTTGTAAATTTTCAAGTTGAGCCGGATATGAGACTAGTTTGTTATTTACTTTTTTATTTT
1 GGATTGTTGTAAATTTTCAAGTTGAGCCGGATATGAGACTAGTTTGTTATTTACTTTTTTATTTT
34652223 AATCTCCAAATAGAAACAAATCCTTCCTATTTTTCTTTCACATTAAGATTTGAGGAAATCTTTAT
66 AATCTCCAAATAGAAACAAATCCTTCCTATTTTTCTTTCACATTAAGATTTGAGGAAATCTTTAT
34652288 TTTTATTTTTTGTAATGGTAGTATGTCATATAAATGTTTGAAACTAGTGCATGATGAAGGCAAGG
131 TTTTATTTTTTGTAATGGTAGTATGTCATATAAATGTTTGAAACTAGTGCATGATGAAGGCAAGG
34652353 TGGCGTGTAGGGAAAGAACCAGTGGAGGGCAATCCATGTCACATGGACCCATGTCCTACATCAGC
196 TGGCGTGTAGGGAAAGAACCAGTGGAGGGCAATCCATGTCACATGGACCCATGTCCTACATCAGC
34652418 ATGCATACATGGAGGGCAAGGCTTGGAAACATA
261 ATGCATACATGGAGGGCAAGGCTTGGAAACATA
34652451 GGATTGTTGTAAATTTTCAAGTTGAGCCGGATATGAGACTAGTTTGTTATTTACTTTTTTATTTT
1 GGATTGTTGTAAATTTTCAAGTTGAGCCGGATATGAGACTAGTTTGTTATTTACTTTTTTATTTT
34652516 AATCTCCAAATAGAAACAAATCCTTCCTATTTTTCTTTCACATTAAGATTTGAGGAAATCTTTAT
66 AATCTCCAAATAGAAACAAATCCTTCCTATTTTTCTTTCACATTAAGATTTGAGGAAATCTTTAT
34652581 TTTTATTTTTTGTAATGGTAGTATGTCATATAAATGTTTGAAACTAGTGCATGATGAAGGCAAGG
131 TTTTATTTTTTGTAATGGTAGTATGTCATATAAATGTTTGAAACTAGTGCATGATGAAGGCAAGG
34652646 TGGCGTGTAGGGAAAGAACCAGTGGAGGGCAATCCATGTCACATGGACCCATGTCCTACATCAGC
196 TGGCGTGTAGGGAAAGAACCAGTGGAGGGCAATCCATGTCACATGGACCCATGTCCTACATCAGC
34652711 ATGCATACATGGAGGGCAAGGCTTGGAAACAT
261 ATGCATACATGGAGGGCAAGGCTTGGAAACAT
34652743 CTTTCCTAGT
Statistics
Matches: 292, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
293 292 1.00
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.35
Consensus pattern (293 bp):
GGATTGTTGTAAATTTTCAAGTTGAGCCGGATATGAGACTAGTTTGTTATTTACTTTTTTATTTT
AATCTCCAAATAGAAACAAATCCTTCCTATTTTTCTTTCACATTAAGATTTGAGGAAATCTTTAT
TTTTATTTTTTGTAATGGTAGTATGTCATATAAATGTTTGAAACTAGTGCATGATGAAGGCAAGG
TGGCGTGTAGGGAAAGAACCAGTGGAGGGCAATCCATGTCACATGGACCCATGTCCTACATCAGC
ATGCATACATGGAGGGCAAGGCTTGGAAACATA
Found at i:34655166 original size:17 final size:17
Alignment explanation
Indices: 34655144--34655177 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
34655134 AAAACATGAC
34655144 CTTTAGTGGCGTTTTTT
1 CTTTAGTGGCGTTTTTT
34655161 CTTTAGTGGCGTTTTTT
1 CTTTAGTGGCGTTTTTT
34655178 GGGAAAGCGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.12, G:0.24, T:0.59
Consensus pattern (17 bp):
CTTTAGTGGCGTTTTTT
Found at i:34655173 original size:59 final size:60
Alignment explanation
Indices: 34655103--34655220 Score: 148
Period size: 59 Copynumber: 2.0 Consensus size: 60
34655093 AGTGGTGATT
** * *
34655103 TTTAGCGGCGTTTTTAAGGAAAGCGTGGCTAAA-AACATGACCTTTAGTGGCGTTTTTTC
1 TTTAGCGGCGTTTTTAAGGAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCCTTTTTTC
* ** **
34655162 TTTAGTGGCGTTTTTTGGGAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCCTTTTTT
1 TTTAGCGGCGTTTTTAAGGAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCCTTTTTT
34655221 TACATAAACG
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
59 28 0.57
60 21 0.43
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.36
Consensus pattern (60 bp):
TTTAGCGGCGTTTTTAAGGAAAGCGCCGCTAAAGAACATGACCTTTAGCGGCCTTTTTTC
Found at i:34660012 original size:27 final size:27
Alignment explanation
Indices: 34659982--34660186 Score: 259
Period size: 27 Copynumber: 7.6 Consensus size: 27
34659972 TAAATTGTAC
34659982 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
34660009 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34660036 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34660062 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34660090 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34660118 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34660145 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
34660172 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34660187 GACTCAATAT
Statistics
Matches: 156, Mismatches: 19, Indels: 6
0.86 0.10 0.03
Matches are distributed among these distances:
27 133 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34660150 original size:109 final size:108
Alignment explanation
Indices: 34659983--34660186 Score: 320
Period size: 109 Copynumber: 1.9 Consensus size: 108
34659973 AAATTGTACA
* *
34659983 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGT
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
34660048 GCGAAATGAATATGAT-GCACTAAGTGTGCGAATTGACCATGCG
66 GCGAAATGAATAT-ATAGCACTAAGTGTGCGAATTGACCATGCG
*
34660091 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTG
** * *
34660156 TGCGAGTTGATTATATAGCACTGAGTGTGCG
65 TGCGAAATGAATATATAGCACTAAGTGTGCG
34660187 GACTCAATAT
Statistics
Matches: 87, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
108 17 0.20
109 70 0.80
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.30
Consensus pattern (108 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGATTTGACTACGTAGCACTAAGTGT
GCGAAATGAATATATAGCACTAAGTGTGCGAATTGACCATGCG
Found at i:34668043 original size:27 final size:27
Alignment explanation
Indices: 34668010--34668214 Score: 252
Period size: 27 Copynumber: 7.6 Consensus size: 27
34668000 TAAATTGTAC
34668010 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
34668037 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
34668064 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
34668090 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
34668118 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
34668146 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* *
34668173 AGCACTAAGTGTGCGAGTTGA-TGATAT
1 AGCACTAAGTGTGCGATTTGACT-ATGT
*
34668200 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
34668215 GACTCAATAT
Statistics
Matches: 155, Mismatches: 19, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
26 1 0.01
27 131 0.85
28 23 0.15
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:34671066 original size:17 final size:19
Alignment explanation
Indices: 34671024--34671067 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
34671014 ATGAAATTTT
*
34671024 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
34671043 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
34671061 AA-TATTA
1 AATTATTA
34671068 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:34671098 original size:12 final size:12
Alignment explanation
Indices: 34671081--34671105 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
34671071 TATGTATGTT
34671081 TGAAAATTTTTA
1 TGAAAATTTTTA
34671093 TGAAAATTTTTA
1 TGAAAATTTTTA
34671105 T
1 T
34671106 TATTTACTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TGAAAATTTTTA
Found at i:34673867 original size:34 final size:32
Alignment explanation
Indices: 34673773--34673867 Score: 95
Period size: 34 Copynumber: 2.9 Consensus size: 32
34673763 TATGGGCCAT
* **
34673773 ACTGTTATCTGAAAAGGAGCTAAGGCCCAGTTT
1 ACTGTTATCTGAAAAGG-GCTTAGGCCCAGTCC
34673806 ACTG-TATTCTGAAAAGGGCTTCA-GCCCAGTACCC
1 ACTGTTA-TCTGAAAAGGGCTT-AGGCCCAGT--CC
*
34673840 ACTGTTATCTGAATAGGGCTTAGGCCCA
1 ACTGTTATCTGAAAAGGGCTTAGGCCCA
34673868 ATGGGCTTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 11
0.78 0.06 0.16
Matches are distributed among these distances:
32 12 0.23
33 16 0.31
34 22 0.42
35 2 0.04
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (32 bp):
ACTGTTATCTGAAAAGGGCTTAGGCCCAGTCC
Found at i:34688975 original size:23 final size:22
Alignment explanation
Indices: 34688944--34688987 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
34688934 TGAAATAAAA
*
34688944 GTTTAATATTGTAATTTGTTTTT
1 GTTTAATA-TATAATTTGTTTTT
*
34688967 GTTTGATATATAATTTGTTTT
1 GTTTAATATATAATTTGTTTT
34688988 GATATATGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.23, C:0.00, G:0.14, T:0.64
Consensus pattern (22 bp):
GTTTAATATATAATTTGTTTTT
Found at i:34689310 original size:32 final size:32
Alignment explanation
Indices: 34689269--34689396 Score: 229
Period size: 32 Copynumber: 4.0 Consensus size: 32
34689259 ATATACTACG
*
34689269 ATAGTGTGATGACTTCTGACATTTAAAAATGT
1 ATAGTGTGATGACTTCTGACATTTGAAAATGT
34689301 ATAGTGTGATGACTTCTGACATTTGAAAATGT
1 ATAGTGTGATGACTTCTGACATTTGAAAATGT
*
34689333 ATAGTGTGATGACTTCTGCCATTTGAAAATGT
1 ATAGTGTGATGACTTCTGACATTTGAAAATGT
*
34689365 ATAGTGTGATGACTTCTGCCATTTGAAAATGT
1 ATAGTGTGATGACTTCTGACATTTGAAAATGT
34689397 GTTTTCATAT
Statistics
Matches: 94, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 94 1.00
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (32 bp):
ATAGTGTGATGACTTCTGACATTTGAAAATGT
Found at i:34692989 original size:46 final size:46
Alignment explanation
Indices: 34692921--34693093 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
34692911 TGTAACCCGC
* *
34692921 CCATAAGCGAACTCCGACTCAACTCAATGAGCTCGGGCATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
* * *
34692967 CCATAAGTGAACTCGGAATCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGG--G-C-A-TTCGCAT
* * *
34693017 -C-TCA-CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
*
34693060 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC
34693094 AGATGCCCAA
Statistics
Matches: 104, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 57 0.55
47 26 0.25
48 3 0.03
49 2 0.02
50 4 0.04
51 2 0.02
ACGTcount: A:0.31, C:0.31, G:0.18, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGCAT
Found at i:34693037 original size:93 final size:93
Alignment explanation
Indices: 34692928--34693100 Score: 301
Period size: 93 Copynumber: 1.9 Consensus size: 93
34692918 CGCCCATAAG
* * *
34692928 CGAACTCCGACTCAACTCAATGAGCTCGGGCATTCGCATCCATAAGTGAACTCGGAATCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
*
34692993 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCAGATGCCTAGTTACATCTCA
*
34693021 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
34693086 ACGAGCTCAGATGCC
66 ACGAGCTCAGATGCC
34693101 CAAATATCCT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGAATCAACTCA
ACGAGCTCAGATGCCTAGTTACATCTCA
Found at i:34702248 original size:50 final size:50
Alignment explanation
Indices: 34702189--34702284 Score: 174
Period size: 50 Copynumber: 1.9 Consensus size: 50
34702179 AAGTGCTAAT
34702189 ATTTTGTTATATATGGTATGTCATGTATGCTTTATAAATGGAGTTTGCAA
1 ATTTTGTTATATATGGTATGTCATGTATGCTTTATAAATGGAGTTTGCAA
**
34702239 ATTTTGTTATATATGGTATGTGGTGTATGCTTTATAAATGGAGTTT
1 ATTTTGTTATATATGGTATGTCATGTATGCTTTATAAATGGAGTTT
34702285 TAGCTTTGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 44 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (50 bp):
ATTTTGTTATATATGGTATGTCATGTATGCTTTATAAATGGAGTTTGCAA
Found at i:34702919 original size:21 final size:21
Alignment explanation
Indices: 34702893--34702962 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 21
34702883 ATTTAGAAGT
34702893 TTTAAAAACAAGTTGAAACCA
1 TTTAAAAACAAGTTGAAACCA
* *
34702914 TTTAAAAACAA-TT--CACGA
1 TTTAAAAACAAGTTGAAACCA
*
34702932 -GTAAAAACAAGTTGAAACCA
1 TTTAAAAACAAGTTGAAACCA
*
34702952 TTTAGAAACAA
1 TTTAAAAACAA
34702963 TTCACGAGTT
Statistics
Matches: 38, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
17 9 0.24
18 5 0.13
20 5 0.13
21 19 0.50
ACGTcount: A:0.53, C:0.14, G:0.10, T:0.23
Consensus pattern (21 bp):
TTTAAAAACAAGTTGAAACCA
Found at i:34702937 original size:38 final size:38
Alignment explanation
Indices: 34702895--34702971 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
34702885 TTAGAAGTTT
34702895 TAAAAACAAGTTGAAACCATTTAAAAACAATTCACGAG
1 TAAAAACAAGTTGAAACCATTTAAAAACAATTCACGAG
*
34702933 TAAAAACAAGTTGAAACCATTTAGAAACAATTCACGAG
1 TAAAAACAAGTTGAAACCATTTAAAAACAATTCACGAG
34702971 T
1 T
34702972 TATTGGAGGT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.22
Consensus pattern (38 bp):
TAAAAACAAGTTGAAACCATTTAAAAACAATTCACGAG
Found at i:34708962 original size:19 final size:19
Alignment explanation
Indices: 34708940--34708979 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
34708930 TTTATTATAA
*
34708940 TATTTTATTAT-TTTAGTTT
1 TATTTTATAATATTTA-TTT
34708959 TATTTTATAATATTTATTT
1 TATTTTATAATATTTATTT
34708978 TA
1 TA
34708980 AGTAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.70
Consensus pattern (19 bp):
TATTTTATAATATTTATTT
Found at i:34710783 original size:105 final size:105
Alignment explanation
Indices: 34710648--34710860 Score: 381
Period size: 105 Copynumber: 2.0 Consensus size: 105
34710638 AAAACCCTAC
* *
34710648 ACATCACAGTAGTGACAACTGACAACACAAAACTAAAGAACCAATAACTGCTAGCAGTGAAGTGT
1 ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAACCAATAACTGCTAGCAGTAAAGTGT
*
34710713 ATTAACCAAAGTTCATGTGCAGTCTCATTTTCACAGGCAT
66 ATTAACCAAAGTTCACGTGCAGTCTCATTTTCACAGGCAT
*
34710753 ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAATCAATAACTGCTAGCAGTAAAGTGT
1 ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAACCAATAACTGCTAGCAGTAAAGTGT
*
34710818 ATTAACCACAGTTCACGTGCAGTCTCATTTTCACAGGCAT
66 ATTAACCAAAGTTCACGTGCAGTCTCATTTTCACAGGCAT
34710858 ACA
1 ACA
34710861 CCAATGCATG
Statistics
Matches: 103, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
105 103 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (105 bp):
ACATCACAGTAGTGACAACTGACAAAACAAAACTAAAGAACCAATAACTGCTAGCAGTAAAGTGT
ATTAACCAAAGTTCACGTGCAGTCTCATTTTCACAGGCAT
Found at i:34714496 original size:15 final size:15
Alignment explanation
Indices: 34714476--34714516 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
34714466 TCACCTTCTT
34714476 CTTCTATACAATCTG
1 CTTCTATACAATCTG
34714491 CTTCTATACAATCTG
1 CTTCTATACAATCTG
*
34714506 CTACTATACAA
1 CTTCTATACAA
34714517 CCCAAGGTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (15 bp):
CTTCTATACAATCTG
Found at i:34720979 original size:15 final size:14
Alignment explanation
Indices: 34720959--34721005 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
34720949 AAGATTTTTC
34720959 TCTCAAAAATTCTGT
1 TCTCAAAAATTCT-T
*
34720974 TCTCAACAATTC-T
1 TCTCAAAAATTCTT
*
34720987 TC-CAAAACTTCTT
1 TCTCAAAAATTCTT
34721000 TCTCAA
1 TCTCAA
34721006 CATGGTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
12 7 0.26
13 6 0.22
14 3 0.11
15 11 0.41
ACGTcount: A:0.32, C:0.28, G:0.02, T:0.38
Consensus pattern (14 bp):
TCTCAAAAATTCTT
Found at i:34727604 original size:22 final size:22
Alignment explanation
Indices: 34727576--34727620 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
34727566 AGGGGGAGTG
34727576 TAGGAATATTCTGTAAATATTT
1 TAGGAATATTCTGTAAATATTT
* *
34727598 TAGGAATATTTTGTAGATATTT
1 TAGGAATATTCTGTAAATATTT
34727620 T
1 T
34727621 TTTTTATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (22 bp):
TAGGAATATTCTGTAAATATTT
Found at i:34733012 original size:33 final size:33
Alignment explanation
Indices: 34732968--34733064 Score: 142
Period size: 33 Copynumber: 2.9 Consensus size: 33
34732958 TGACATTCCT
*
34732968 GCTCCTGTCCAGCAACTAAACACTCACACTCCA
1 GCTCCTGTCCAGCAACCAAACACTCACACTCCA
* *
34733001 GCTCCTATCCAGCAACCAGACACTCACA-TCCCA
1 GCTCCTGTCCAGCAACCAAACACTCACACT-CCA
*
34733034 GCTCCTGTCCAGCAACCAAACACTCCCACTC
1 GCTCCTGTCCAGCAACCAAACACTCACACTC
34733065 AGTCCTTGCC
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
32 1 0.02
33 54 0.96
34 1 0.02
ACGTcount: A:0.29, C:0.45, G:0.09, T:0.16
Consensus pattern (33 bp):
GCTCCTGTCCAGCAACCAAACACTCACACTCCA
Found at i:34739077 original size:46 final size:46
Alignment explanation
Indices: 34739009--34739098 Score: 153
Period size: 46 Copynumber: 2.0 Consensus size: 46
34738999 TTTATTGCAA
* *
34739009 TAAGAGTTTTAGTTTTATTTATTTTCTTTATTATATCAGGTTTTAT
1 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTTAT
*
34739055 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATTAGGTTTT
1 TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTT
34739099 TATTTCCTTC
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 41 1.00
ACGTcount: A:0.23, C:0.06, G:0.11, T:0.60
Consensus pattern (46 bp):
TAAGAGTTTTAGTTTTACTTATTTTCTCTATTATATCAGGTTTTAT
Found at i:34750482 original size:21 final size:21
Alignment explanation
Indices: 34750456--34750497 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
34750446 TGCATGGATT
34750456 GGGTGAAAATTATTAAATTCC
1 GGGTGAAAATTATTAAATTCC
34750477 GGGTGAAAATTATTAAATTCC
1 GGGTGAAAATTATTAAATTCC
34750498 ATTCACCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.10, G:0.19, T:0.33
Consensus pattern (21 bp):
GGGTGAAAATTATTAAATTCC
Found at i:34752460 original size:31 final size:31
Alignment explanation
Indices: 34752422--34752488 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
34752412 TACATTAGTA
34752422 GTCACCTAACTATT-AGTAAA-TTTCTTTTCTG
1 GTCACCTAACTATTCA--AAATTTTCTTTTCTG
*
34752453 GTCACCTAACTATTCAAAATTTTCTTTTTTG
1 GTCACCTAACTATTCAAAATTTTCTTTTCTG
34752484 GTCAC
1 GTCAC
34752489 TGGTTAAATC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
30 3 0.09
31 29 0.88
32 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.09, T:0.45
Consensus pattern (31 bp):
GTCACCTAACTATTCAAAATTTTCTTTTCTG
Found at i:34757269 original size:36 final size:36
Alignment explanation
Indices: 34757229--34757305 Score: 154
Period size: 36 Copynumber: 2.1 Consensus size: 36
34757219 GACTAGTTAA
34757229 CACTTAACATTAACATATAAGCAGATATAAATGTTC
1 CACTTAACATTAACATATAAGCAGATATAAATGTTC
34757265 CACTTAACATTAACATATAAGCAGATATAAATGTTC
1 CACTTAACATTAACATATAAGCAGATATAAATGTTC
34757301 CACTT
1 CACTT
34757306 TGAACATGCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 41 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (36 bp):
CACTTAACATTAACATATAAGCAGATATAAATGTTC
Found at i:34780360 original size:46 final size:46
Alignment explanation
Indices: 34780203--34780469 Score: 231
Period size: 46 Copynumber: 5.7 Consensus size: 46
34780193 TGGATATATT
* *
34780203 GCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATA-TACGCG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTA--TG
* * * * *
34780252 TGCTGATGCATGTCCCAGACATGTCTTACACTAGC-A-CA-ACTCTTA
1 -GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAGT-ATG
*
34780297 GCCGATGCATGTCCCAGACACGTCTTACACTGGCTATCATAGTATG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAGTATG
* * ** * * *
34780343 GCTGATGCATGTCCCAGACATGTCTTACACTAGCCCTCGTCTGGAT-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCAT-AGTATG
* * * *
34780389 GCCGATGCCATGT-CCAGATATGGTCTTACATTGGCTATCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTATCATAGTATG
*
34780436 GCCGAAGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
34780470 GCCCAAATCA
Statistics
Matches: 173, Mismatches: 34, Indels: 24
0.75 0.15 0.10
Matches are distributed among these distances:
44 31 0.18
45 2 0.01
46 71 0.41
47 37 0.21
48 12 0.07
49 14 0.08
50 6 0.03
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTATCATAGTATG
Found at i:34780449 original size:93 final size:93
Alignment explanation
Indices: 34780202--34780466 Score: 342
Period size: 93 Copynumber: 2.9 Consensus size: 93
34780192 TTGGATATAT
* * *
34780202 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATATACGCGTGCTGATGCATGTCC
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATA-ATGTG-GCTGATGCATGTCC
*
34780267 CAGACATGTCTTACACTAGCACAACTCTTA
64 CAGACATGTCTTACACTAGCACAACTCTGA
* * *
34780297 -GCCGATG-CATGTCCCAGACA-CGTCTTACACTGGCTATCATAGTATGGCTGATGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCTGATGCATGTCCCA
**
34780359 GACATGTCTTACACTAGC-CCTCGTCTGGA
66 GACATGTCTTACACTAGCACAAC-TCT-GA
* * * *
34780388 TGCCGATGCCATGT-CCAGATATGGTCTTACATTGGCTATCATAATGTGGCCGAAGCATGTCCCA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCTGATGCATGTCCCA
34780452 GACATGTCTTACACT
66 GACATGTCTTACACT
34780467 GGCGCCCAAA
Statistics
Matches: 149, Mismatches: 16, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
89 2 0.01
90 37 0.25
91 2 0.01
92 32 0.21
93 69 0.46
94 7 0.05
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (93 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTATCATAATGTGGCTGATGCATGTCCCA
GACATGTCTTACACTAGCACAACTCTGA
Found at i:34780842 original size:30 final size:30
Alignment explanation
Indices: 34780808--34780865 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
34780798 AAATTTACAT
* *
34780808 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGGCAAAATGACCATTTTACCCCTAGA
34780838 CTTTGGCAAAATGACCATTTTACCCCTA
1 CTTTGGCAAAATGACCATTTTACCCCTA
34780866 TGCCCGAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (30 bp):
CTTTGGCAAAATGACCATTTTACCCCTAGA
Found at i:34782736 original size:27 final size:27
Alignment explanation
Indices: 34782669--34782764 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 27
34782659 TTTACGCCTT
* * *
34782669 TGAGATAGGCACAACTAGTTGCACCTG
1 TGAGATAGGCTCAACTAGTCGCACCTC
* *
34782696 TCAGATAGGTTCAACTAGTCGCACCTC
1 TGAGATAGGCTCAACTAGTCGCACCTC
* * **
34782723 TGAGAAAGGCTCAATTAGTCGTGCCTC
1 TGAGATAGGCTCAACTAGTCGCACCTC
34782750 TGAGATAGGCTCAAC
1 TGAGATAGGCTCAAC
34782765 CTGTATTCGT
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (27 bp):
TGAGATAGGCTCAACTAGTCGCACCTC
Found at i:34783934 original size:24 final size:24
Alignment explanation
Indices: 34783881--34783942 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 24
34783871 TTTGGAATCC
*
34783881 AAAGCT-AAATGT-AAAATTATCG
1 AAAGCTAAAATCTAAAAATTATCG
*
34783903 AAAGCTAAAATCTAAAAATTATTG
1 AAAGCTAAAATCTAAAAATTATCG
* * *
34783927 ATATCTAAATTCTAAA
1 AAAGCTAAAATCTAAA
34783943 TAAAAACTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 6 0.18
23 5 0.15
24 22 0.67
ACGTcount: A:0.52, C:0.10, G:0.08, T:0.31
Consensus pattern (24 bp):
AAAGCTAAAATCTAAAAATTATCG
Found at i:34785870 original size:42 final size:42
Alignment explanation
Indices: 34785823--34785973 Score: 185
Period size: 42 Copynumber: 3.6 Consensus size: 42
34785813 TAAGTCTATG
* *
34785823 TGTAAGACCATATCTGGGATATGACAACAATATGAGATTTCA
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCA
* * *
34785865 TGTAAGACCATAACTGGGATATGGCATCAATGTGAGATTTCG
1 TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCA
* * * ** * *
34785907 TGTAAGACCATAGCTGGGTTATTGGCATCGATACAATATTACA
1 TGTAAGACCATATCTGGGATA-TGGCATCAATATGAGATTTCA
34785950 TGTAAGACCATATCTGGGATATGG
1 TGTAAGACCATATCTGGGATATGG
34785974 TATTGGTATG
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
42 59 0.64
43 33 0.36
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (42 bp):
TGTAAGACCATATCTGGGATATGGCATCAATATGAGATTTCA
Found at i:34792344 original size:46 final size:45
Alignment explanation
Indices: 34792245--34792371 Score: 127
Period size: 46 Copynumber: 2.8 Consensus size: 45
34792235 TGATATGTAT
*
34792245 GCTAGTGTAAGACATGTCTAGGACATGCATAGGCCACATTATGAGAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATAGG-C-CATTATGAGAA
* *
34792292 -CCAGTGTAAGACATGTCTGGGACATGCATCGG-CATTGA-GACGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATAGGCCATT-ATGA-GA-A
* *
34792337 GCTAGTGTAA-AGTATGTCTGGGACATGCATTGGCC
1 GCTAGTGTAAGA-CATGTCTGGGACATGCATAGGCC
34792372 TCGAGATATG
Statistics
Matches: 68, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
43 6 0.09
44 3 0.04
45 2 0.03
46 56 0.82
47 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (45 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATAGGCCATTATGAGAA
Found at i:34792424 original size:49 final size:49
Alignment explanation
Indices: 34792357--34792466 Score: 141
Period size: 49 Copynumber: 2.3 Consensus size: 49
34792347 AGTATGTCTG
34792357 GGACAT-GCATTGGCCTCGAGATATGCAAGCCAATGTAAAACCTATCTA
1 GGACATGGCATTGGCCTCGAGATATGCAAGCCAATGTAAAACCTATCTA
* * * * * * * *
34792405 GGACATGGCATTGGCCTCGATATATGGAAGTCAGTGTAAGACCTGTTTG
1 GGACATGGCATTGGCCTCGAGATATGCAAGCCAATGTAAAACCTATCTA
34792454 GGACATGGCATTG
1 GGACATGGCATTG
34792467 TGTAAGACCT
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
48 6 0.11
49 47 0.89
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
GGACATGGCATTGGCCTCGAGATATGCAAGCCAATGTAAAACCTATCTA
Found at i:34792478 original size:28 final size:28
Alignment explanation
Indices: 34792438--34792491 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
34792428 ATGGAAGTCA
* *
34792438 GTGTAAGACCTGTTTGGGACATGGCATT
1 GTGTAAGACCTGTCTGGAACATGGCATT
34792466 GTGTAAGACCTGTCTGGAACATGGCA
1 GTGTAAGACCTGTCTGGAACATGGCA
34792492 ATGACTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (28 bp):
GTGTAAGACCTGTCTGGAACATGGCATT
Found at i:34796704 original size:42 final size:42
Alignment explanation
Indices: 34796641--34796791 Score: 169
Period size: 42 Copynumber: 3.6 Consensus size: 42
34796631 CTAAGTCTAT
* * *
34796641 GTGTAGGACCATATCTAGGATATGATAT-GAATATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGACATCG-ATATGAGATTTC
*
34796683 GTGTAAGACCATATCTGGGATATGACATCGATGTGAGATTTC
1 GTGTAAGACCATATCTGGGATATGACATCGATATGAGATTTC
* * * * * * *
34796725 GTATAAGACTATAGCTGGGCTATTAGCATCGATACGAGATTAC
1 GTGTAAGACCATATCTGGGATATGA-CATCGATATGAGATTTC
*
34796768 ATGTAAGACCATATCTGGGATATG
1 GTGTAAGACCATATCTGGGATATG
34796792 GCATTGGTAT
Statistics
Matches: 89, Mismatches: 18, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
42 56 0.63
43 33 0.37
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGACATCGATATGAGATTTC
Found at i:34796993 original size:15 final size:16
Alignment explanation
Indices: 34796966--34796995 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
34796956 GATAAACCTC
34796966 AGTAAGATTATGATTG
1 AGTAAGATTATGATTG
34796982 AGTAAG-TTATGATT
1 AGTAAGATTATGATT
34796996 ATAAGAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.37, C:0.00, G:0.23, T:0.40
Consensus pattern (16 bp):
AGTAAGATTATGATTG
Found at i:34802558 original size:16 final size:16
Alignment explanation
Indices: 34802534--34802576 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
34802524 TGGTTCACTA
*
34802534 TAATGGAATAGGGTTG
1 TAATGGAATAGGATTG
*
34802550 TAATTGAATAGGATTG
1 TAATGGAATAGGATTG
34802566 TAATGGAATAG
1 TAATGGAATAG
34802577 AGCTGTAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.00, G:0.30, T:0.33
Consensus pattern (16 bp):
TAATGGAATAGGATTG
Found at i:34802620 original size:46 final size:43
Alignment explanation
Indices: 34802567--34802659 Score: 125
Period size: 44 Copynumber: 2.1 Consensus size: 43
34802557 ATAGGATTGT
34802567 AATGGAATAGAGCTGTAATCAGTAATTCAATTG-TTTGGTTGAATGG
1 AATGGAATAGAGCTGTAAT-AGT-ATTC--TTGATTTGGTTGAATGG
*
34802613 AATGGAATAGAGTTGTAATAGTATTCTTGTATTTGGTTGAATGG
1 AATGGAATAGAGCTGTAATAGTATTCTTG-ATTTGGTTGAATGG
34802657 AAT
1 AAT
34802660 AAATATTGTA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
42 3 0.07
44 20 0.45
45 3 0.07
46 18 0.41
ACGTcount: A:0.32, C:0.04, G:0.26, T:0.38
Consensus pattern (43 bp):
AATGGAATAGAGCTGTAATAGTATTCTTGATTTGGTTGAATGG
Found at i:34805432 original size:46 final size:48
Alignment explanation
Indices: 34805335--34805694 Score: 254
Period size: 46 Copynumber: 7.6 Consensus size: 48
34805325 TTTGTGTGCC
* * * * *
34805335 AGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAACG-AGT-GCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGATGTA-TAGCT
*
34805383 AGTGTAAGA-CATGTCCGGGACATGCATCGACCTCGAGATGTA-AGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTATAGCT
* *
34805429 AGTGTAAGA-CATGTCTGGGACATGCATC-AACTACGAGA--CAT-G-T
1 AGTGTAAGACCATGTCTGGGACATGCATCGACCT-CGAGATGTATAGCT
* * * * * * *
34805472 CAGTGGAAGACCATGTCTGGGACATGGCATCGACATGGATACGCAAGAGCT
1 -AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGAGATG-TATAGCT
* * *
34805523 AGTGTAAGACCATGTTTGGGACATGGCATC-AGCCTCGATAATG-ATAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGA-CCTCGA-GATGTATAGCT
* * *
34805572 AGTGTAAGA-CATGTCTGGGACAT-CATCG-GCT-AAGA-GT-TGTGCT
1 AGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTAT-AGCT
* * *
34805615 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGA-GGATAGCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGACCTCGA-GATGTATAGCT
34805664 AGTGTAAGACCATGTCTGGGACATGCCATCG
1 AGTGTAAGACCATGTCTGGGACATG-CATCG
34805695 GTAACTTAAT
Statistics
Matches: 251, Mismatches: 35, Indels: 51
0.74 0.10 0.15
Matches are distributed among these distances:
42 2 0.01
43 13 0.05
44 25 0.10
45 19 0.08
46 64 0.25
47 18 0.07
48 24 0.10
49 49 0.20
50 34 0.14
51 3 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGACCTCGAGATGTATAGCT
Found at i:34805634 original size:142 final size:140
Alignment explanation
Indices: 34805329--34805694 Score: 431
Period size: 142 Copynumber: 2.6 Consensus size: 140
34805319 GGGTGATTTG
* * *
34805329 TGTGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAAACGAGTGCTAGTGTAAGA-C
1 TGTG-CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATACGAGAGCTAGTGTAAGACC
* * *
34805393 ATGTCCGGGACAT-GCATCGACCTCGAGATGTAAGCTAGTGTAAGACATGTCTGGGACATGCATC
65 ATGTCTGGGACATGGCATCGACCTCGAAATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATC
34805457 AACTACGAGACA
130 AACTAC-AGACA
* * *
34805469 TGT-CAGTGGAAGACCATGTCTGGGACATGGCATCGACATGGATACGCAAGAGCTAGTGTAAGAC
1 TGTGCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATACG--AGAGCTAGTGTAAGAC
*
34805533 CATGTTTGGGACATGGCATC-AGCCTCGATAATG-ATAGCCAGTGTAAGACATGTCTGGGACAT-
64 CATGTCTGGGACATGGCATCGA-CCTCGA-AATGTA-AGCCAGTGTAAGACATGTCTGGGACATG
** **
34805595 CATCGGCTA-AGAGT
126 CATCAACTACAGACA
* * * *
34805609 TGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAGGATAGCCAGTGTAAGAC
1 TGTGC-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAT-ACGAGAGCTAGTGTAAGAC
*
34805674 CATGTCTGGGACATGCCATCG
64 CATGTCTGGGACATGGCATCG
34805695 GTAACTTAAT
Statistics
Matches: 193, Mismatches: 22, Indels: 20
0.82 0.09 0.09
Matches are distributed among these distances:
138 39 0.20
140 23 0.12
141 46 0.24
142 54 0.28
143 31 0.16
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.23
Consensus pattern (140 bp):
TGTGCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGATACGAGAGCTAGTGTAAGACCA
TGTCTGGGACATGGCATCGACCTCGAAATGTAAGCCAGTGTAAGACATGTCTGGGACATGCATCA
ACTACAGACA
Found at i:34822340 original size:17 final size:19
Alignment explanation
Indices: 34822298--34822341 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 19
34822288 TATCATTTAC
34822298 CATTTATC-GAGCATTATT
1 CATTTATCGGAGCATTATT
*
34822316 -ATTGATCGGA-CATT-TT
1 CATTTATCGGAGCATTATT
34822332 CATTTATCGG
1 CATTTATCGG
34822342 GCTATAACAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
16 2 0.09
17 18 0.82
18 2 0.09
ACGTcount: A:0.25, C:0.16, G:0.16, T:0.43
Consensus pattern (19 bp):
CATTTATCGGAGCATTATT
Found at i:34823202 original size:25 final size:25
Alignment explanation
Indices: 34823168--34823220 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
34823158 AATTTTCCAT
34823168 TAATGAATCATCCAAAAATATCTAC
1 TAATGAATCATCCAAAAATATCTAC
34823193 TAATGAATCATCCAAAAATATCTAC
1 TAATGAATCATCCAAAAATATCTAC
34823218 TAA
1 TAA
34823221 CTTTTTATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.49, C:0.19, G:0.04, T:0.28
Consensus pattern (25 bp):
TAATGAATCATCCAAAAATATCTAC
Found at i:34831744 original size:43 final size:43
Alignment explanation
Indices: 34831696--34831854 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
34831686 AAGCTCTACA
* *
34831696 ATGCCAATGTCCTAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
* * * * *
34831739 ATGCC-ACTGTCCCAAACAG-GATTTTACGTGAAATCAAATAT-G
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACATGTAATCAAATATCG
* ** *
34831781 ATGCCAACGTCCCAGATGTGGTCTTACACATAAATCATAA-GTCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGT-AATCA-AATATCG
*
34831825 ATGCCAACATCCCAGACGTGGTCTTACATG
1 ATGCCAACGTCCCAGACGTGGTCTTACATG
34831855 ATAACACATA
Statistics
Matches: 89, Mismatches: 20, Indels: 13
0.73 0.16 0.11
Matches are distributed among these distances:
41 1 0.01
42 20 0.22
43 38 0.43
44 30 0.34
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
Found at i:34843291 original size:27 final size:27
Alignment explanation
Indices: 34843255--34843313 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
34843245 AAGAAAATAA
* * *
34843255 AAGCCTTTGTGGAAATATATTAAATTG
1 AAGCCCTTGTGGAAATATATGAAATGG
* *
34843282 AAGCCCTTGTGGCAATTTATGAAATGG
1 AAGCCCTTGTGGAAATATATGAAATGG
34843309 AAGCC
1 AAGCC
34843314 TTCGTGGCGA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (27 bp):
AAGCCCTTGTGGAAATATATGAAATGG
Found at i:34843320 original size:27 final size:26
Alignment explanation
Indices: 34843255--34843321 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
34843245 AAGAAAATAA
* * *
34843255 AAGCCTTTGTGGAAATATATTAAATTG
1 AAGCC-TTGTGGCAATATATGAAATGG
*
34843282 AAGCCCTTGTGGCAATTTATGAAATGG
1 AAG-CCTTGTGGCAATATATGAAATGG
34843309 AAGCCTTCGTGGC
1 AAGCCTT-GTGGC
34843322 GATCTATGGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
26 4 0.12
27 28 0.82
28 2 0.06
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (26 bp):
AAGCCTTGTGGCAATATATGAAATGG
Found at i:34843329 original size:27 final size:28
Alignment explanation
Indices: 34843276--34843346 Score: 67
Period size: 27 Copynumber: 2.6 Consensus size: 28
34843266 GAAATATATT
* *
34843276 AAATTGAAGCCCTT-GTGGCAATTTAT-G
1 AAATGGAAG-CCTTCGTGGCAATCTATGG
*
34843303 AAATGGAAGCCTTCGTGGCGATCTATGG
1 AAATGGAAGCCTTCGTGGCAATCTATGG
*
34843331 AAA-GGAATGTCTTCGT
1 AAATGGAA-GCCTTCGT
34843347 AGTGCATTCT
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
26 4 0.11
27 22 0.59
28 11 0.30
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (28 bp):
AAATGGAAGCCTTCGTGGCAATCTATGG
Found at i:34848102 original size:78 final size:80
Alignment explanation
Indices: 34847959--34848142 Score: 207
Period size: 78 Copynumber: 2.3 Consensus size: 80
34847949 GCTACTCGTT
*
34847959 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTC-GGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
* *
34848024 ATTTAGTAAC-TCGCA
65 ATATAGTAACTTAGCA
* * **
34848039 CAAATGCCTTCGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
34848101 GATATGGTCACTTAGCA
64 GATATAGTAACTTAGCA
*
34848118 CAAA-GCCTTCGGGACGTAGCCCGGA
1 CAAATGCCTTC-GGACATAGCCCGGA
34848143 CATCATTCGA
Statistics
Matches: 89, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
77 4 0.04
78 52 0.58
79 12 0.13
80 21 0.24
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.24
Consensus pattern (80 bp):
CAAATGCCTTCGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
TATAGTAACTTAGCA
Found at i:34848142 original size:40 final size:40
Alignment explanation
Indices: 34847940--34848142 Score: 220
Period size: 40 Copynumber: 5.1 Consensus size: 40
34847930 CGGAATTTAA
** *
34847940 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34847980 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
34848020 CCGGATTTAGTAACTCGCACAAATGCCTTC-GG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
34848058 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * * *
34848098 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACGTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
34848138 CCGGA
1 CCGGA
34848143 CATCATTCGA
Statistics
Matches: 139, Mismatches: 17, Indels: 14
0.82 0.10 0.08
Matches are distributed among these distances:
38 34 0.24
39 3 0.02
40 90 0.65
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Done.