Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 ID=Chr10-JGI_221_v2.0
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: 62175169
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 981721 characters in sequence are not A, C, G, or T
File 154 of 202
Found at i:48048740 original size:38 final size:38
Alignment explanation
Indices: 48048688--48048767 Score: 135
Period size: 38 Copynumber: 2.1 Consensus size: 38
48048678 ATTTCTTTCC
48048688 CAATCTGCAAAAAACCCTGCTCTTCAACT-CTTGCTCTT
1 CAATCTGCAAAAAACCCTGCTCTTCAACTCCTT-CTCTT
*
48048726 CAATCTGCAGAAAACCCTGCTCTTCAACTCCTTCTCTT
1 CAATCTGCAAAAAACCCTGCTCTTCAACTCCTTCTCTT
48048764 CAAT
1 CAAT
48048768 TGACACTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
38 37 0.93
39 3 0.08
ACGTcount: A:0.26, C:0.35, G:0.07, T:0.31
Consensus pattern (38 bp):
CAATCTGCAAAAAACCCTGCTCTTCAACTCCTTCTCTT
Found at i:48050471 original size:24 final size:24
Alignment explanation
Indices: 48050444--48050495 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
48050434 ATGGTTCTTG
48050444 ACATTAAATAAATAATGCAATAAA
1 ACATTAAATAAATAATGCAATAAA
*
48050468 ACATTAAATAAATAATGGAATAAA
1 ACATTAAATAAATAATGCAATAAA
48050492 ACAT
1 ACAT
48050496 ACCTTACAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (24 bp):
ACATTAAATAAATAATGCAATAAA
Found at i:48052408 original size:22 final size:23
Alignment explanation
Indices: 48052365--48052410 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
48052355 AAAAATGCTA
*
48052365 AAAATCATTTAAAATTATAAAAT
1 AAAATAATTTAAAATTATAAAAT
*
48052388 AAAATAATTTAAATTTA-AAAAT
1 AAAATAATTTAAAATTATAAAAT
48052410 A
1 A
48052411 TATATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAATTTAAAATTATAAAAT
Found at i:48056159 original size:21 final size:21
Alignment explanation
Indices: 48056108--48056162 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
48056098 ACCATTGTTT
*
48056108 CTAATATCACCGCTACAGTAT
1 CTAATATCACCGCTACAGTAA
* * *
48056129 CCAATTTCACTGCTACAGTAA
1 CTAATATCACCGCTACAGTAA
*
48056150 CTAATCTCACCGC
1 CTAATATCACCGC
48056163 CACCGCTATT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.31, C:0.33, G:0.09, T:0.27
Consensus pattern (21 bp):
CTAATATCACCGCTACAGTAA
Found at i:48064447 original size:24 final size:24
Alignment explanation
Indices: 48064420--48064465 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
48064410 AGAACAATCC
* *
48064420 CAAAAGGAAATGCAGGAGCAGCTT
1 CAAAAGCAAATGAAGGAGCAGCTT
*
48064444 CAAAAGCAAATGAATGAGCAGC
1 CAAAAGCAAATGAAGGAGCAGC
48064466 AAAAGATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.46, C:0.17, G:0.26, T:0.11
Consensus pattern (24 bp):
CAAAAGCAAATGAAGGAGCAGCTT
Found at i:48072601 original size:45 final size:44
Alignment explanation
Indices: 48072495--48073131 Score: 301
Period size: 45 Copynumber: 14.7 Consensus size: 44
48072485 ACATATCGAG
*
48072495 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGACT-AAG-TAGGCAAG
1 TCTTATCTCCCTGAAGTTGCAGTGAG-GCAGA-TGAAGAT-GGCAAA
48072539 TCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGGCAGA-TGAAGATGGCAAA
* * * ** *
48072584 TCTTATCTCCCTAAAGTTGCAGTGAAGCAGATTAAAGCCGG-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGAGGCAGA-TGAAGATGGCAAA
* * * * **** *
48072628 TCCTATCTCGCTGAAGTTGCAGTGA-GCAGATTAAAACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGGCAGATGAAGATGGCAAA
* * * * * *
48072671 TCTTATCTCTCTAAAGTTGCAGAGA-GCAGATCG--CAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGGCAGAT-GAAGATGGCAAA
*
48072711 TCTTATC-CTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGGCAGA-TGAAGATGGCAAA
* ** *
48072756 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGATTAAAGCCGG-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGAG-GCAGA-TGAAGATGGCAAA
* * * * * * **** *
48072800 TCCTATCTCGCTGAAGTTGTAGTGA-GCGGATTAAAACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGGCAGATGAAGATGGCAAA
* * * * *
48072843 TCTTATCTCTCTGAAGTTGCAGAGA-GCAGATCG--CAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGGCAGAT-GAAGATGGCAAA
*
48072883 TCTTATC-CTCCTGAAGCTGCAGTGAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGGCAGA-TGAAGATGGCAAA
* ** *
48072928 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGATTAAAGCCGG-TAA
1 TCTTATCTCCCTGAAGTTGCAGTGAG-GCAGA-TGAAGATGGCAAA
* * * * * * **** *
48072972 TCCTATCTCGCTGAATTTGCAGTGA-GCGGATTAAAACCTTAGA
1 TCTTATCTCCCTGAAGTTGCAGTGAGGCAGATGAAGATGGCAAA
* * * * *
48073015 TCTTATCTCTCTGAAGTTGCAGAGA-GCAGATCG--CAT--CTAG
1 TCTTATCTCCCTGAAGTTGCAGTGAGGCAGAT-GAAGATGGCAAA
48073055 TCTTATC-CTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAA
1 TCTTATCTC-CCTGAAGTTGCAGTGAGGCAGA-TGAAGATGGCAAA
48073100 TCTTATCTCCCTGAAGTTGCAGTG-GAGCAGAT
1 TCTTATCTCCCTGAAGTTGCAGTGAG-GCAGAT
48073132 TAAAGCCGAT
Statistics
Matches: 448, Mismatches: 105, Indels: 80
0.71 0.17 0.13
Matches are distributed among these distances:
39 3 0.01
40 60 0.13
41 18 0.04
42 18 0.04
43 102 0.23
44 103 0.23
45 139 0.31
46 5 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGAGGCAGATGAAGATGGCAAA
Found at i:48072787 original size:172 final size:172
Alignment explanation
Indices: 48072537--48073252 Score: 1238
Period size: 172 Copynumber: 4.2 Consensus size: 172
48072527 TAAGTAGGCA
*
48072537 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTAAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* *
48072602 GCAGTGAAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCAGATTAAAACCT
66 GCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCT
*
48072667 TAGATCTTATCTCTCTAAAGTTGCAGAGAGCAGATCGCATCT
131 TAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
*
48072709 AGTCTTATCCTCCTGAAGTTGTAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
*
48072774 GCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGTAGTGAGCGGATTAAAACCT
66 GCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCT
48072839 TAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
131 TAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
*
48072881 AGTCTTATCCTCCTGAAGCTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
*
48072946 GCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAATTTGCAGTGAGCGGATTAAAACCT
66 GCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCT
48073011 TAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
131 TAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
48073053 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
1 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
* * *
48073118 GCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTC-CTGAAGTTGTAAGTGGAGTGGATTAAAA
66 GCAGTGGAGCAGATTAAAGCCGGTAATCCTATC-TCGCTGAAGTTG-CAGT-GAGCGGATTAAAA
* * * *
48073182 CCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCATATCGTATTT
128 CCTTAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
*
48073227 AGTCTTAT-CTCCCTAAAGTTGCAGTG
1 AGTCTTATCCT-CCTGAAGTTGCAGTG
48073253 GAGCAGATTA
Statistics
Matches: 520, Mismatches: 20, Indels: 6
0.95 0.04 0.01
Matches are distributed among these distances:
172 438 0.84
173 7 0.01
174 75 0.14
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (172 bp):
AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGCAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTAAAGCCGGTAATCCTATCTCGCTGAAGTTGCAGTGAGCGGATTAAAACCT
TAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCT
Found at i:48073196 original size:45 final size:44
Alignment explanation
Indices: 48072582--48073311 Score: 175
Period size: 43 Copynumber: 16.9 Consensus size: 44
48072572 GAAGATGGCA
* * * * * *
48072582 AATCTTATCTCCCTAAAGTTGCAGTGAAGCAGATTAAAGCCGGT
1 AATCTTATCTTCCTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* * *
48072626 AATCCTATC-TCGCTGAAGTTGCAGT-GAGCAGATTAAAACC-TT
1 AATCTTATCTTC-CTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* * * *** *
48072668 AGATCTTATC-TCTCTAAAGTTGCAG-AGAGCAGA-TCGCATC--T
1 A-ATCTTATCTTC-CTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* * * * * **
48072709 AGTCTTATCCTCCTGAAGTTGTAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTTCCTGAAGTTGAAGTGGA-GCAGA-TTAAAACCG-AT
* * * *
48072754 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGT
1 AATCTTATCTTCCTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* * * *
48072798 AATCCTATC-TCGCTGAAGTTGTAGT-GAGCGGATTAAAACC-TT
1 AATCTTATCTTC-CTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* * *** *
48072840 AGATCTTATC-TCTCTGAAGTTGCAG-AGAGCAGA-TCGCATC--T
1 A-ATCTTATCTTC-CTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* * * * * * **
48072881 AGTCTTATCCTCCTGAAGCTGCAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTTCCTGAAGTTGAAGTGGA-GCAGA-TTAAAACCG-AT
* * * *
48072926 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGGT
1 AATCTTATCTTCCTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* * * * *
48072970 AATCCTATC-TCGCTGAATTTGCAGT-GAGCGGATTAAAACC-TT
1 AATCTTATCTTC-CTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* * *** *
48073012 AGATCTTATC-TCTCTGAAGTTGCAG-AGAGCAGA-TCGCATC--T
1 A-ATCTTATCTTC-CTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* * * * * **
48073053 AGTCTTATCCTCCTGAAGTTGCAGT-GAGGCAGACTGAAGATGGCA-
1 AATCTTATCTTCCTGAAGTTGAAGTGGA-GCAGA-TTAAAACCG-AT
* * *
48073098 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGAT
1 AATCTTATCTTCCTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* ** *
48073142 AATCCTATCTTCCTGAAGTTGTAAGTGGAGTGGATTAAAACC-TT
1 AATCTTATCTTCCTGAAGTTG-AAGTGGAGCAGATTAAAACCGAT
* * * * *** **
48073186 GGATCTTATC-TCTCTGAAGTTGCAG-AGAGCATA-TCGTA--TTT
1 -AATCTTATCTTC-CTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* * * * *
48073227 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGAT
1 AATCTTATCTTCCTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
* * **
48073271 AATCCTATCTTCCTAAAGTT-ACAGTGGAGTGGATTAAAACC
1 AATCTTATCTTCCTGAAGTTGA-AGTGGAGCAGATTAAAACC
48073312 TTGGATTTTA
Statistics
Matches: 511, Mismatches: 126, Indels: 98
0.70 0.17 0.13
Matches are distributed among these distances:
40 78 0.15
41 36 0.07
42 18 0.04
43 132 0.26
44 130 0.25
45 111 0.22
46 6 0.01
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.29
Consensus pattern (44 bp):
AATCTTATCTTCCTGAAGTTGAAGTGGAGCAGATTAAAACCGAT
Found at i:48073233 original size:129 final size:127
Alignment explanation
Indices: 48073100--48073376 Score: 466
Period size: 129 Copynumber: 2.2 Consensus size: 127
48073090 AGATGGCAAA
*
48073100 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTGAAGTTGTA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTAAAG-T-TA
* *
48073165 -AGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAGAGCATATCGTATTTAG
64 CAGTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAAAGAGCA-ATCGGATTTAG
*
48073229 TCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTAAAGTTACA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTAAAGTTACA
* *
48073294 GTGGAGTGGATTAAAACCTTGGATTTTATCTCTCTGAAGTTGCAAAGAGTAATCGGATTTAG
66 GTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAAAGAGCAATCGGATTTAG
48073356 TCTTATCTCCCTGAAGTTGCA
1 TCTTATCTCCCTGAAGTTGCA
48073377 CCAGGAGTGG
Statistics
Matches: 140, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
127 32 0.23
128 50 0.36
129 58 0.41
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (127 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCGATAATCCTATCTTCCTAAAGTTACA
GTGGAGTGGATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAAAGAGCAATCGGATTTAG
Found at i:48076652 original size:60 final size:60
Alignment explanation
Indices: 48076585--48076705 Score: 208
Period size: 60 Copynumber: 2.0 Consensus size: 60
48076575 ATGTGTTTTC
48076585 GCCGAAAAATGGATGAATGTATGT-GACAATATTTACAATGTACGATGATGGCAAAAATAT
1 GCCGAAAAATGGATGAATGTATGTAG-CAATATTTACAATGTACGATGATGGCAAAAATAT
* *
48076645 GCCGAAAAATGGATGAATGTATGTAGCAATATTTACCATGTACGATGATGGCGAAAATAT
1 GCCGAAAAATGGATGAATGTATGTAGCAATATTTACAATGTACGATGATGGCAAAAATAT
48076705 G
1 G
48076706 ATATTAACAA
Statistics
Matches: 58, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
60 57 0.98
61 1 0.02
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (60 bp):
GCCGAAAAATGGATGAATGTATGTAGCAATATTTACAATGTACGATGATGGCAAAAATAT
Found at i:48076764 original size:12 final size:11
Alignment explanation
Indices: 48076747--48076821 Score: 69
Period size: 12 Copynumber: 6.4 Consensus size: 11
48076737 ATGAAATGAC
48076747 AATACTATAAT
1 AATACTATAAT
48076758 GAATACTATAAT
1 -AATACTATAAT
*
48076770 AATAATAATAAT
1 AATACT-ATAAT
*
48076782 AATAATAATAAT
1 AATACT-ATAAT
*
48076794 AATAATAATAAT
1 AATACT-ATAAT
*
48076806 AATAATAATAAT
1 AATACT-ATAAT
48076818 AATA
1 AATA
48076822 ATAACTACAA
Statistics
Matches: 61, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
11 5 0.08
12 56 0.92
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (11 bp):
AATACTATAAT
Found at i:48076773 original size:3 final size:3
Alignment explanation
Indices: 48076765--48076825 Score: 122
Period size: 3 Copynumber: 20.3 Consensus size: 3
48076755 AATGAATACT
48076765 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
48076813 ATA ATA ATA ATA A
1 ATA ATA ATA ATA A
48076826 CTACAACAAC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:48083855 original size:23 final size:23
Alignment explanation
Indices: 48083829--48083873 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
48083819 ATGTTTTGGG
*
48083829 TGTAATATCCCGAAAATTACTAC
1 TGTAATAACCCGAAAATTACTAC
48083852 TGTAATAACCCGAAAATTACTA
1 TGTAATAACCCGAAAATTACTA
48083874 AAGTAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (23 bp):
TGTAATAACCCGAAAATTACTAC
Found at i:48083879 original size:23 final size:23
Alignment explanation
Indices: 48083830--48083879 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
48083820 TGTTTTGGGT
* **
48083830 GTAATATCCCGAAAATTACTACT
1 GTAATAACCCGAAAATTACTAAA
48083853 GTAATAACCCGAAAATTACTAAA
1 GTAATAACCCGAAAATTACTAAA
48083876 GTAA
1 GTAA
48083880 GAAAGTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.26
Consensus pattern (23 bp):
GTAATAACCCGAAAATTACTAAA
Found at i:48086954 original size:50 final size:50
Alignment explanation
Indices: 48086834--48087113 Score: 285
Period size: 50 Copynumber: 5.5 Consensus size: 50
48086824 TGTGAGCCAG
** * *
48086834 TGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATAAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGTGTTGGCA-C--CGAG---ATGAGAGGTCCCA
*
48086890 TGTAAGACCATGTCTGGGACATGGTGTTAGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCA
* *
48086940 TGTAAGACCTTGTCTGGGACATGGCGTTGGCACCGAGATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCA
* * *
48086990 TGTAAGACCATGTCTAGGACATAGTGTTGGCACCGAGATGAGAGGTCCCC
1 TGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCA
* * *** * * **
48087040 CGTAA-ATCCATGTCTAGGACATGG-CACGGACACCAATATGAGAACTCCCA
1 TGTAAGA-CCATGTCTGGGACATGGTGTTGG-CACCGAGATGAGAGGTCCCA
* *
48087090 TGTAAGACCATATCTGGGATATGG
1 TGTAAGACCATGTCTGGGACATGG
48087114 CATTTGCAGT
Statistics
Matches: 194, Mismatches: 27, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
49 3 0.02
50 157 0.81
51 1 0.01
53 3 0.02
55 1 0.01
56 29 0.15
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGTGTTGGCACCGAGATGAGAGGTCCCA
Found at i:48088677 original size:23 final size:23
Alignment explanation
Indices: 48088651--48088694 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
48088641 GGGAGAAATG
*
48088651 TAATATCCCAAAAATTACTACTA
1 TAATACCCCAAAAATTACTACTA
48088674 TAATACCCCAAAAATTACTAC
1 TAATACCCCAAAAATTACTAC
48088695 AGTAAGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
TAATACCCCAAAAATTACTACTA
Found at i:48099627 original size:24 final size:24
Alignment explanation
Indices: 48099575--48099648 Score: 87
Period size: 24 Copynumber: 3.0 Consensus size: 24
48099565 TCTAGGCTTA
*
48099575 TTAACGGGAAGCTCACAAAAAGC-C
1 TTAACGGGAAGCTC-CGAAAAGCAC
* *
48099599 TTTAACGGGTAGCTCTGAAAAGCAC
1 -TTAACGGGAAGCTCCGAAAAGCAC
*
48099624 TTAACGGGAAGCTCCGAAGAGCAC
1 TTAACGGGAAGCTCCGAAAAGCAC
48099648 T
1 T
48099649 ATACCCGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
24 28 0.67
25 14 0.33
ACGTcount: A:0.35, C:0.23, G:0.24, T:0.18
Consensus pattern (24 bp):
TTAACGGGAAGCTCCGAAAAGCAC
Found at i:48101397 original size:6 final size:6
Alignment explanation
Indices: 48101386--48101421 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
48101376 ACTTATTTGG
*
48101386 TAAGTT TAAGTT TAATTT TAAGTT TAAGTT TAAGTT
1 TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT TAAGTT
48101422 ATACGAGCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (6 bp):
TAAGTT
Found at i:48106520 original size:20 final size:20
Alignment explanation
Indices: 48106480--48106530 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
48106470 GTAACCCCTA
48106480 TTTTT-AAAATTTTCAATTTT
1 TTTTTCAAAATTTTC-ATTTT
48106500 TTTTTCAAAATTTTC-TGTTT
1 TTTTTCAAAATTTTCAT-TTT
*
48106520 TGTTTCAAAAT
1 TTTTTCAAAAT
48106531 GAACCCCGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 18 0.64
21 9 0.32
ACGTcount: A:0.27, C:0.08, G:0.04, T:0.61
Consensus pattern (20 bp):
TTTTTCAAAATTTTCATTTT
Found at i:48107617 original size:19 final size:20
Alignment explanation
Indices: 48107585--48107623 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
48107575 AAAATTTTAG
**
48107585 ATATAATATTTATA-TCAAT
1 ATATAATAAGTATAGTCAAT
48107604 ATATAATAAGTATAGTCAAT
1 ATATAATAAGTATAGTCAAT
48107624 TGAATCTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.41
Consensus pattern (20 bp):
ATATAATAAGTATAGTCAAT
Found at i:48107657 original size:3 final size:3
Alignment explanation
Indices: 48107637--48107693 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
48107627 ATCTTAACAC
* *
48107637 TAT TAA TAT TAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
48107685 TAT TAT TAT
1 TAT TAT TAT
48107694 CTTCACTATA
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:48109624 original size:22 final size:21
Alignment explanation
Indices: 48109585--48109628 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
48109575 AACAATACAA
* *
48109585 AATTTATCATGATTAAATATT
1 AATTTATCATAATGAAATATT
48109606 AATTTATCATAAATGAAATATT
1 AATTTATCAT-AATGAAATATT
48109628 A
1 A
48109629 TTAATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (21 bp):
AATTTATCATAATGAAATATT
Found at i:48113015 original size:5 final size:5
Alignment explanation
Indices: 48113005--48113038 Score: 52
Period size: 5 Copynumber: 6.8 Consensus size: 5
48112995 AAGCTAGTTT
48113005 TTTTG TTTTG TTTTG TTTTTG TTTTG TTTT- TTTT
1 TTTTG TTTTG TTTTG -TTTTG TTTTG TTTTG TTTT
48113039 TCCCTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.14
5 19 0.68
6 5 0.18
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:48113023 original size:16 final size:15
Alignment explanation
Indices: 48113002--48113039 Score: 67
Period size: 16 Copynumber: 2.5 Consensus size: 15
48112992 TTAAAGCTAG
48113002 TTTTTTTGTTTTGTT
1 TTTTTTTGTTTTGTT
48113017 TTGTTTTTGTTTTGTT
1 TT-TTTTTGTTTTGTT
48113033 TTTTTTT
1 TTTTTTT
48113040 CCCTCTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 7 0.32
16 15 0.68
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
TTTTTTTGTTTTGTT
Found at i:48113024 original size:11 final size:11
Alignment explanation
Indices: 48113005--48113039 Score: 56
Period size: 11 Copynumber: 3.4 Consensus size: 11
48112995 AAGCTAGTTT
48113005 TTTTG-TTTTG
1 TTTTGTTTTTG
48113015 TTTTGTTTTTG
1 TTTTGTTTTTG
48113026 TTTTGTTTTT-
1 TTTTGTTTTTG
48113036 TTTT
1 TTTT
48113040 CCCTCTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (11 bp):
TTTTGTTTTTG
Found at i:48117173 original size:19 final size:19
Alignment explanation
Indices: 48117131--48117176 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
48117121 ATTGTAACAT
*
48117131 TATTTATAATTTTAAATATC
1 TATTTA-AATTTTAAATATA
48117151 TATTTAAATTTT-AATAATA
1 TATTTAAATTTTAAAT-ATA
48117170 TATTTAA
1 TATTTAA
48117177 TTTGTAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 3 0.12
19 15 0.62
20 6 0.25
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (19 bp):
TATTTAAATTTTAAATATA
Found at i:48117188 original size:19 final size:18
Alignment explanation
Indices: 48117137--48117188 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
48117127 ACATTATTTA
* *
48117137 TAATTTTAAATATCTATT
1 TAATTTTAAAAATATATT
*
48117155 TAAATTTTAATAATATATT
1 T-AATTTTAAAAATATATT
48117174 TAATTTGTAAAAATA
1 TAATTT-TAAAAATA
48117189 GCAATAAACG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
18 6 0.21
19 22 0.79
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (18 bp):
TAATTTTAAAAATATATT
Found at i:48118220 original size:11 final size:11
Alignment explanation
Indices: 48118187--48118225 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
48118177 AAATTATTTT
*
48118187 AAAAAATCATA
1 AAAAAATTATA
48118198 AACAAAATTTATA
1 AA-AAAA-TTATA
48118211 AAAAAATTATA
1 AAAAAATTATA
48118222 AAAA
1 AAAA
48118226 TTATAAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
11 11 0.44
12 8 0.32
13 6 0.24
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (11 bp):
AAAAAATTATA
Found at i:48118235 original size:16 final size:14
Alignment explanation
Indices: 48118214--48118248 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
48118204 ATTTATAAAA
48118214 AAATTATAAAAATTAT
1 AAATTAT-AAAA-TAT
48118230 AAATTATAAAATAT
1 AAATTATAAAATAT
48118244 AAATT
1 AAATT
48118249 TTTTATTAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 4 0.21
16 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAATTATAAAATAT
Found at i:48118934 original size:100 final size:102
Alignment explanation
Indices: 48118790--48118973 Score: 275
Period size: 100 Copynumber: 1.8 Consensus size: 102
48118780 AAACTTTTTC
* * * * *
48118790 AAAATAAGCAATTAAGCTCCTGCTTTATTTTTTCACTCATTTGGGTACTTGAACTTTCAAAATAC
1 AAAAAAAGCAATTAAGCCCCTACTTTATTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATAC
48118855 ATC-AAAAGGACCCTCAAACCTTCTTTTTAAAAAAAAA
66 ATCTAAAA-GACCCTCAAACCTTCTTTTTAAAAAAAAA
* *
48118892 AAAAAAAGCAATTAAGCCCCTAC-TT-TTTTTGCACTCAATTGGGTACTTGAACTTTTAAAATGC
1 AAAAAAAGCAATTAAGCCCCTACTTTATTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATAC
48118955 ATCTAAAAGACCCTCAAAC
66 ATCTAAAAGACCCTCAAAC
48118974 TTTTTCAAGA
Statistics
Matches: 74, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
100 48 0.65
101 6 0.08
102 20 0.27
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.32
Consensus pattern (102 bp):
AAAAAAAGCAATTAAGCCCCTACTTTATTTTTGCACTCAATTGGGTACTTGAACTTTCAAAATAC
ATCTAAAAGACCCTCAAACCTTCTTTTTAAAAAAAAA
Found at i:48119016 original size:9 final size:9
Alignment explanation
Indices: 48119002--48119170 Score: 78
Period size: 9 Copynumber: 18.6 Consensus size: 9
48118992 CTGCATTTAT
48119002 TAAAAATTA
1 TAAAAATTA
*
48119011 TAAAAAAT-
1 TAAAAATTA
**
48119019 TAAAAGCTA
1 TAAAAATTA
**
48119028 TAAAAGCTA
1 TAAAAATTA
*
48119037 TAAATATTA
1 TAAAAATTA
**
48119046 TTAAATTTTAA
1 -TAAAAATT-A
48119057 TAAAAAATTA
1 T-AAAAATTA
*
48119067 -AAATATTA
1 TAAAAATTA
*
48119075 -AAAATTTA
1 TAAAAATTA
48119083 TTAAAAATTA
1 -TAAAAATTA
* *
48119093 GAAAAAATA
1 TAAAAATTA
**
48119102 TAAAAATCG
1 TAAAAATTA
*
48119111 TAAAATTTTA
1 TAAAA-ATTA
**
48119121 TAAAAATCG
1 TAAAAATTA
48119130 TAAAAATTA
1 TAAAAATTA
48119139 T-AAAATATA
1 TAAAAAT-TA
*
48119148 TAGAAA-TA
1 TAAAAATTA
48119156 TAAAAAATTA
1 T-AAAAATTA
48119166 TAAAA
1 TAAAA
48119171 TTTTATAAAG
Statistics
Matches: 120, Mismatches: 29, Indels: 22
0.70 0.17 0.13
Matches are distributed among these distances:
8 27 0.22
9 59 0.49
10 28 0.23
11 6 0.05
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (9 bp):
TAAAAATTA
Found at i:48119085 original size:19 final size:19
Alignment explanation
Indices: 48119063--48119146 Score: 57
Period size: 19 Copynumber: 4.5 Consensus size: 19
48119053 TTAATAAAAA
48119063 ATTAAAATATTAAAAATTT
1 ATTAAAATATTAAAAATTT
**
48119082 ATTAAAA-ATTAGAAAAAAT
1 ATTAAAATATTA-AAAATTT
* ** *
48119101 ATAAAAATCGTAAAATTTT
1 ATTAAAATATTAAAAATTT
* **
48119120 ATAAAAATCGTAAAAA-TT
1 ATTAAAATATTAAAAATTT
48119138 A-TAAAATAT
1 ATTAAAATAT
48119147 ATAGAAATAT
Statistics
Matches: 51, Mismatches: 12, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
17 5 0.10
18 7 0.14
19 37 0.73
20 2 0.04
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (19 bp):
ATTAAAATATTAAAAATTT
Found at i:48119125 original size:27 final size:27
Alignment explanation
Indices: 48119095--48119179 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
48119085 AAAAATTAGA
**
48119095 AAAAATATAAAAATCGTAAAATTTTAT
1 AAAAATATAAAAATTATAAAATTTTAT
* *
48119122 AAAAATCGTAAAAATTATAAAA-TATAT
1 AAAAAT-ATAAAAATTATAAAATTTTAT
*
48119149 AGAAATATAAAAAATTATAAAATTTTAT
1 AAAAATAT-AAAAATTATAAAATTTTAT
48119177 AAA
1 AAA
48119180 GTCATAAGAA
Statistics
Matches: 47, Mismatches: 8, Indels: 5
0.78 0.13 0.08
Matches are distributed among these distances:
26 1 0.02
27 28 0.60
28 18 0.38
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (27 bp):
AAAAATATAAAAATTATAAAATTTTAT
Found at i:48119135 original size:37 final size:38
Alignment explanation
Indices: 48119038--48119170 Score: 102
Period size: 37 Copynumber: 3.6 Consensus size: 38
48119028 TAAAAGCTAT
** *
48119038 AAATATTATTAAATTTTAATAAAAAAT-TAAAATATTAA
1 AAAT-TTATTAAAAATTAGTAAAAAATATAAAATATTAA
48119076 AAATTTATTAAAAATTAG-AAAAAATATAAAA-ATCGTAA
1 AAATTTATTAAAAATTAGTAAAAAATATAAAATAT--TAA
* * * *
48119114 AATTTTA-TAAAAA-TCGTAAAAATTATAAAATATATAG
1 AAATTTATTAAAAATTAGTAAAAAATATAAAATAT-TAA
*
48119151 AAA--TATAAAAAATTA-TAAAA
1 AAATTTATTAAAAATTAGTAAAA
48119171 TTTTATAAAG
Statistics
Matches: 77, Mismatches: 11, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
35 2 0.03
36 21 0.27
37 39 0.51
38 15 0.19
ACGTcount: A:0.62, C:0.02, G:0.03, T:0.33
Consensus pattern (38 bp):
AAATTTATTAAAAATTAGTAAAAAATATAAAATATTAA
Found at i:48119278 original size:11 final size:11
Alignment explanation
Indices: 48119262--48119294 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
48119252 AGAAGCATTT
*
48119262 TATAATTTTTC
1 TATAATTTTTA
48119273 TATAATTTTTA
1 TATAATTTTTA
48119284 T-TAATTTTTA
1 TATAATTTTTA
48119294 T
1 T
48119295 TTTTTATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (11 bp):
TATAATTTTTA
Found at i:48119480 original size:19 final size:19
Alignment explanation
Indices: 48119456--48119501 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
48119446 TTAAATTTTA
*
48119456 AAAATTTTATATATTTAT-T
1 AAAATTTAATA-ATTTATCT
*
48119475 AAAATTTAATAATTTTTCT
1 AAAATTTAATAATTTATCT
48119494 AAAATTTA
1 AAAATTTA
48119502 TTTTTATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 5 0.21
19 19 0.79
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
AAAATTTAATAATTTATCT
Found at i:48119491 original size:28 final size:27
Alignment explanation
Indices: 48119428--48119491 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
48119418 ATTTTTATAA
* *
48119428 AATAATTTCTAATTTTAATTAAATTTT
1 AATAATTTTTAATTTTAATTAAAATTT
*
48119455 AA-AAATTTTATATATTT-ATTAAAATTT
1 AATAATTTTTA-AT-TTTAATTAAAATTT
48119482 AATAATTTTT
1 AATAATTTTT
48119492 CTAAAATTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
26 6 0.20
27 15 0.50
28 9 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.55
Consensus pattern (27 bp):
AATAATTTTTAATTTTAATTAAAATTT
Found at i:48120964 original size:18 final size:18
Alignment explanation
Indices: 48120928--48120962 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
48120918 TTTACGATAA
48120928 CATTGATTTCTCATTTTT
1 CATTGATTTCTCATTTTT
*
48120946 CATTGA-TTCTTATTTTT
1 CATTGATTTCTCATTTTT
48120963 TCCATATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.17, C:0.14, G:0.06, T:0.63
Consensus pattern (18 bp):
CATTGATTTCTCATTTTT
Found at i:48121831 original size:34 final size:33
Alignment explanation
Indices: 48121743--48121855 Score: 124
Period size: 33 Copynumber: 3.4 Consensus size: 33
48121733 GTTTAGAGTT
* *
48121743 TTTTTAAAAAATTAATTAAATTAGATTTTTTGGG
1 TTTTTAAAAAATTAATTAAATTAG-GTTTTAGGG
48121777 -TTTTAAATAAA-TAATTAAATTAGGTTTTAGGG
1 TTTTTAAA-AAATTAATTAAATTAGGTTTTAGGG
**
48121809 TTTTTAAGAAAATTAATTAAATTATGG-TTTAGTT
1 TTTTTAA-AAAATTAATTAAATTA-GGTTTTAGGG
*
48121843 TTTTTAAATAATT
1 TTTTTAAAAAATT
48121856 TTGTTTTTAG
Statistics
Matches: 69, Mismatches: 5, Indels: 11
0.81 0.06 0.13
Matches are distributed among these distances:
32 7 0.10
33 33 0.48
34 27 0.39
35 2 0.03
ACGTcount: A:0.39, C:0.00, G:0.12, T:0.50
Consensus pattern (33 bp):
TTTTTAAAAAATTAATTAAATTAGGTTTTAGGG
Found at i:48122266 original size:125 final size:126
Alignment explanation
Indices: 48121911--48122804 Score: 1259
Period size: 125 Copynumber: 7.1 Consensus size: 126
48121901 AAAAAATTGT
* * *
48121911 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAGATAATATCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAA-ATAGTGTCAAA
* * * * *
48121975 AACGCTTCAAGTAGGATGCATTGTCAACGAAATTA-TGTAAGAAAAGCTCCCACGTGGACACTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTG-AA-AAAAGCTCCCACGTGGACGCTC
* *
48122038 TTTTTCTACAGTAGTTCTTGAAAAACA-AATTTT-AGAAGACGATTCTGAACAAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAA-ATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAA
* * * *
48122101 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCCATGTGCACGCTA
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
*
48122163 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAA-ATAATAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACA-AATAGTGTCAAA
* * * * * *
48122227 AATGCTTCAAGCAGGATGCACTATCA-TAAAATTACTGAAAAACGCTCCCACGCGAACGCTC
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * * *
48122288 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTTTGAACAAATATTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * *
48122353 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCCATGTGGACGCTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
48122414 TTTTTCTACAGTAGTTCCTGAGAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * *
48122479 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGACACTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
48122539 TTTTTCTACAGTAATTCCTGAAAAAATAATTTTGACAAGACGGTTCTGAACAAATAGTGTAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * * *
48122604 ACACTTCAAGCAGGATGCACTGTCAG-AAAATTGCTGAAAAAAGCTCCCACGCGAACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* * *
48122664 TTTGTCTACAGTAGTTCTTG--AAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
* * *
48122727 ACACTTCAATCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTC
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
48122788 TTTTTCTACAGTAGTTC
1 TTTTTCTACAGTAGTTC
48122805 TTGTTTGGCC
Statistics
Matches: 686, Mismatches: 71, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
123 65 0.09
124 55 0.08
125 301 0.44
126 228 0.33
127 36 0.05
128 1 0.00
ACGTcount: A:0.37, C:0.18, G:0.17, T:0.28
Consensus pattern (126 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:48122392 original size:251 final size:252
Alignment explanation
Indices: 48121911--48122807 Score: 1319
Period size: 251 Copynumber: 3.6 Consensus size: 252
48121901 AAAAAATTGT
* *
48121911 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCT-AAAAAGATAATATCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAA-ATAGTGTCAAA
* * * *
48121975 AACGCTTCAAGTAGGATGCATTGTCAACGAAATTA-TGTAAGAAAAGCTCCCACGTGGACACTCT
65 AACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTG-AA-AAAAGCTCCCACGTGGACACTCT
48122039 TTTTCTACAGTAGTTCTTGAAAAACA-AATTTT-AGAAGACGATTCTGAACAAATAGTGTCAAAA
128 TTTTCTACAGTAGTTCTTGAAAAA-ATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAA
*
48122102 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCCATGTGCACGCTA
192 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCCATGTGAACGCTA
* *
48122163 TTTTTCTACAGTAGTTCCTAAAAAAATAATTTTGAGAAGACGGTTCTGAAATAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * * * * *
48122228 ATGCTTCAAGCAGGATGCACTATCA-TAAAATTACTGAAAAACGCTCCCACGCGAACGCTCTTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTCTTTT
* *
48122292 TCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTTTGAACAAATATTGTCAAAAACGC
131 TCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGC
* *
48122357 TTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCCATGTGGACGCTT
196 TTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCCATGTGAACGCTA
*
48122414 TTTTTCTACAGTAGTTCCTGAGAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* *
48122479 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGACACTTTTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTCTTTT
* * * * * *
48122543 TCTACAGTAATTCCTGAAAAAATAATTTTGACAAGACGGTTCTGAACAAATAGTGTAAAAAACAC
131 TCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGC
* * *
48122608 TTCAAGCAGGATGCACTGTCAG-AAAATT-GCTGAAAAAAGCTCCCACGCGAACGCTC
196 TTCAAGCAGGATGCACTGTCAGCAAAATTAG-TGAAAAAAGCTCCCATGTGAACGCTA
* * * *
48122664 TTTGTCTACAGTAGTTCTTG--AAAATAATTTTGAGAAGACGGTTCTGAACAAATGGTGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* * * *
48122727 ACACTTCAATCAGGATGCACTGTCAGCAAAATTACTAAAAAAAGCTCCCACGTGGACGCTCTTTT
66 ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTCTTTT
48122792 TCTACAGTAGTTCTTG
131 TCTACAGTAGTTCTTG
48122808 TTTGGCCTTA
Statistics
Matches: 585, Mismatches: 53, Indels: 17
0.89 0.08 0.03
Matches are distributed among these distances:
248 75 0.13
249 41 0.07
250 95 0.16
251 282 0.48
252 88 0.15
253 4 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (252 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
ACGCTTCAAGCAGGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACACTCTTTT
TCTACAGTAGTTCTTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGC
TTCAAGCAGGATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCCCATGTGAACGCTA
Found at i:48123414 original size:126 final size:126
Alignment explanation
Indices: 48123062--48124006 Score: 1409
Period size: 125 Copynumber: 7.5 Consensus size: 126
48123052 AATCTTCAGA
* *
48123062 ATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGACGCTTTTTTTCTACAGTAGTTCT
1 ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCC
* *
48123126 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACACTTAAAGCAGG
66 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* *** * *
48123187 ATGCACTGTTAG-AAAATTACTGAAAAAAGCTCCCACACGAACGCTCTTTTTCTATAGTAGTTCC
1 ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCC
* *
48123251 TGAAAAAATAATTTTGAGAAGACGATTTTGAACAAATAGTGTCAAAAATGCTTCAAGCAGG
66 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* *
48123312 ATGCACTGTCAGCAAAATTAGTGAAAAAAGCTCTCATGTGGACGCTCTTTTTCTACAGTAGTTCC
1 ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCC
* * *
48123377 TGAGAAAATAATTTTGAGAAGACTG-TTCTGAAAAAATAGTGTCAAAACCGCTTCAAGCAGG
66 TGAAAAAATAATTTTGAGAAGAC-GATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
*
48123438 ATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGAAGCTCTTTTTCTACAGTAGTTCC
1 ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCC
*
48123502 TG-AAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCATCAAGCAGG
66 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * *
48123562 ATGCACTGTCAACAAAATTAGTGAAAAAAGCTCACATGTGGACGCTCTTTTTCTACAGTAGTTCC
1 ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCC
* * *
48123627 TGAGAAAATAATTTTGAGAAGACTG-TTCTGAAAAAATAGTGTCAAAACCGCTTCAAGCAGG
66 TGAAAAAATAATTTTGAGAAGAC-GATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * *
48123688 ATGCACTGTCAGCAAAATTACT-AAAAAAGCTCCCATGTGGAAGCTTTTTTTCTATAGTAGTTCC
1 ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCC
48123752 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
66 TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * * * *
48123813 ATGCATTGTCAGCAAAATTATTGAAAAAAAACTCCCACGTGTACGCTATTTTTCTACAGTAGTTC
1 ATGCACTGTCAGCAAAATTACTG-AAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTC
* * * * * * *
48123878 TTGAAAAAATAATTTTGAGAAGATGGTTTTGAACAAATGGTGTCAAAAACACTTCAATCAGG
65 CTGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
* * * *
48123940 ATGTACTGCCAGCAAAATTACTAAAAAAATCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCC
1 ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCC
48124005 TG
66 TG
48124007 TTTGGCCTTA
Statistics
Matches: 736, Mismatches: 74, Indels: 19
0.89 0.09 0.02
Matches are distributed among these distances:
123 1 0.00
124 82 0.11
125 312 0.42
126 231 0.31
127 110 0.15
ACGTcount: A:0.37, C:0.17, G:0.18, T:0.28
Consensus pattern (126 bp):
ATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCATGTGGACGCTCTTTTTCTACAGTAGTTCC
TGAAAAAATAATTTTGAGAAGACGATTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGG
Found at i:48127514 original size:18 final size:18
Alignment explanation
Indices: 48127493--48127527 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48127483 AAAAGGAAAC
*
48127493 ATATAAGGGTTAGGATAA
1 ATATAAGGGTCAGGATAA
48127511 ATATAAGGGTCAGGATA
1 ATATAAGGGTCAGGATA
48127528 CGCACTTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.43, C:0.03, G:0.29, T:0.26
Consensus pattern (18 bp):
ATATAAGGGTCAGGATAA
Found at i:48136066 original size:32 final size:33
Alignment explanation
Indices: 48136022--48136085 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 33
48136012 TGAAACAAGA
48136022 AAAAACAAACTTTTAGTTTCAAATAAAAGGGTC
1 AAAAACAAACTTTTAGTTTCAAATAAAAGGGTC
48136055 AAAAA-AAACTTTTAGTTTCAAATAAAAGGGT
1 AAAAACAAACTTTTAGTTTCAAATAAAAGGGT
48136086 TAATTTTGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 26 0.84
33 5 0.16
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.28
Consensus pattern (33 bp):
AAAAACAAACTTTTAGTTTCAAATAAAAGGGTC
Found at i:48137874 original size:12 final size:11
Alignment explanation
Indices: 48137849--48137886 Score: 53
Period size: 10 Copynumber: 3.5 Consensus size: 11
48137839 GAACATGAAG
48137849 AATTTTA-ATT
1 AATTTTATATT
48137859 AATTTTATAGTT
1 AATTTTATA-TT
48137871 AATTTT-TATT
1 AATTTTATATT
48137881 AATTTT
1 AATTTT
48137887 GACTATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 15 0.58
11 3 0.12
12 8 0.31
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (11 bp):
AATTTTATATT
Found at i:48143765 original size:11 final size:11
Alignment explanation
Indices: 48143749--48143787 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
48143739 TATATAAATA
48143749 TATAAATTAAT
1 TATAAATTAAT
*
48143760 TATAAAGTATAT
1 TATAAATTA-AT
48143772 TATTAAATTAAT
1 TA-TAAATTAAT
48143784 TATA
1 TATA
48143788 TTATAATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:48143802 original size:24 final size:23
Alignment explanation
Indices: 48143734--48143802 Score: 63
Period size: 24 Copynumber: 3.0 Consensus size: 23
48143724 TTTACATGAT
*
48143734 TTAATTATATA-AA-TATATAAA
1 TTAATTATATATAATTAAATAAA
* *
48143755 TTAATTATAAAGTATATT-ATTAAA
1 TTAATTATATA-TA-ATTAAATAAA
48143779 TTAATTATATTATAATTAAATAAA
1 TTAATTATA-TATAATTAAATAAA
48143803 GACAAATGTA
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
21 10 0.27
23 4 0.11
24 21 0.57
25 2 0.05
ACGTcount: A:0.54, C:0.00, G:0.01, T:0.45
Consensus pattern (23 bp):
TTAATTATATATAATTAAATAAA
Found at i:48144814 original size:21 final size:22
Alignment explanation
Indices: 48144786--48144849 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
48144776 GCTTTGCCGA
48144786 TCAGGCACTATATGTGTCGTAT
1 TCAGGCACTATATGTGTCGTAT
* **
48144808 T-AGGCACCACGTGTGTCGT-T
1 TCAGGCACTATATGTGTCGTAT
* *
48144828 TCAGGCACTTTATGTGTTGTAT
1 TCAGGCACTATATGTGTCGTAT
48144850 ACTGCTTCTG
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
20 2 0.06
21 28 0.88
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.38
Consensus pattern (22 bp):
TCAGGCACTATATGTGTCGTAT
Found at i:48150197 original size:124 final size:125
Alignment explanation
Indices: 48149977--48150290 Score: 558
Period size: 124 Copynumber: 2.5 Consensus size: 125
48149967 CCCAAACATG
* * * *
48149977 CTACTATAGCAAAAGCGCGTTCACGAGGGCACGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
*
48150042 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAGTCAAAATTATTT-TTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
48150101 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
* *
48150166 TAGAAGCGGTTTTATACTATTTGCTCAGAAACGTCAAGTCGAAATTATTTCTTCCAGGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
48150226 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
48150291 CACAAATTCT
Statistics
Matches: 182, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
124 108 0.59
125 74 0.41
ACGTcount: A:0.30, C:0.24, G:0.18, T:0.28
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTCAAAATTATTTCTTCCAGGAC
Found at i:48150423 original size:153 final size:153
Alignment explanation
Indices: 48150141--48150545 Score: 563
Period size: 153 Copynumber: 2.7 Consensus size: 153
48150131 GCGATTTCAT
*
48150141 AAATTCTTCTCAAATAGCATCCTGCTAGAAGCGGTTTTATACTATTTGCTCAGAAACGTCAAGTC
1 AAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTC
* *
48150206 GAAATTATTTCTTCCAGGACCTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATT
66 GAAATTATTTCTTCCAGGACCTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATT
* *
48150271 CTTCTCAAATAGCATCCTGCCAC
131 CTTATCAAACAGCATCCTGCCAC
*
48150294 AAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTGTATACTATTTGCTCAGAAACGTCAAGTC
1 AAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTC
48150359 GAAATTATTTCTTCCAGGACCTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATT
66 GAAATTATTTCTTCCAGGACCTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATT
* *
48150424 CTTATCAAACAGCATCCTGCTAG
131 CTTATCAAACAGCATCCTGCCAC
* * ** *
48150447 AAGCGATT-TTAT--ACTA-TTTACT-C-AGAAACGTCGATTTTATACTATTTGCTCAGAAACGT
1 AA---ATTCTTCTCAAATAGCATCCTGCTAG-AA-G-CGATTTTATACTATTTGCTCAGAAACGT
* * *
48150506 CAACTCGAAATTATTT-TTTCAAGACCTACTGTAGCAAAAG
60 CAAGTCGAAATTATTTCTTCCAGGACCTACTGTAGCAAAAG
48150546 TGCATACATG
Statistics
Matches: 229, Mismatches: 17, Indels: 13
0.88 0.07 0.05
Matches are distributed among these distances:
150 2 0.01
151 3 0.01
152 26 0.11
153 192 0.84
155 3 0.01
156 3 0.01
ACGTcount: A:0.31, C:0.23, G:0.16, T:0.30
Consensus pattern (153 bp):
AAATTCTTCTCAAATAGCATCCTGCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAGTC
GAAATTATTTCTTCCAGGACCTACTGTAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATT
CTTATCAAACAGCATCCTGCCAC
Found at i:48150482 original size:28 final size:28
Alignment explanation
Indices: 48150450--48150506 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
48150440 CTGCTAGAAG
48150450 CGATTTTATACTATTTACTCAGAAACGT
1 CGATTTTATACTATTTACTCAGAAACGT
*
48150478 CGATTTTATACTATTTGCTCAGAAACGT
1 CGATTTTATACTATTTACTCAGAAACGT
48150506 C
1 C
48150507 AACTCGAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.30, C:0.19, G:0.12, T:0.39
Consensus pattern (28 bp):
CGATTTTATACTATTTACTCAGAAACGT
Found at i:48152324 original size:20 final size:20
Alignment explanation
Indices: 48152291--48152328 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
48152281 AAATACTTTT
48152291 TTTTAAATATATTTTTATAC
1 TTTTAAATATATTTTTATAC
48152311 TTTTATAATA-ATTTTTAT
1 TTTTA-AATATATTTTTAT
48152329 TTTAATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTAAATATATTTTTATAC
Found at i:48152410 original size:22 final size:22
Alignment explanation
Indices: 48152348--48152415 Score: 109
Period size: 22 Copynumber: 3.1 Consensus size: 22
48152338 ATTGTTCAAA
* **
48152348 CATGAGAGCTTAGTACGTGAAA
1 CATGAGAGCTTAGTACGTTAGC
48152370 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
48152392 CATGAGAGCTTAGTACGTTAGC
1 CATGAGAGCTTAGTACGTTAGC
48152414 CA
1 CA
48152416 GACCACCTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (22 bp):
CATGAGAGCTTAGTACGTTAGC
Found at i:48161309 original size:11 final size:11
Alignment explanation
Indices: 48161293--48161418 Score: 71
Period size: 11 Copynumber: 12.4 Consensus size: 11
48161283 AATTTTTTAA
48161293 TTTTAAAATAT
1 TTTTAAAATAT
48161304 TTTTAAAATACT
1 TTTTAAAATA-T
***
48161316 TTTT-TGTTAT
1 TTTTAAAATAT
48161326 TTTT---A-AT
1 TTTTAAAATAT
48161333 -TTTAAAATAT
1 TTTTAAAATAT
48161343 TTTTAAAATACT
1 TTTTAAAATA-T
*
48161355 GTTTAAAAT-T
1 TTTTAAAATAT
*
48161365 TTTT----TAA
1 TTTTAAAATAT
48161372 TTTTAAAATAT
1 TTTTAAAATAT
48161383 TTTTAAAATACT
1 TTTTAAAATA-T
**
48161395 TTTT-TTA-AT
1 TTTTAAAATAT
48161404 TTTTAAAATAT
1 TTTTAAAATAT
48161415 TTTT
1 TTTT
48161419 TTGGTATTTA
Statistics
Matches: 88, Mismatches: 12, Indels: 30
0.68 0.09 0.23
Matches are distributed among these distances:
6 4 0.05
7 6 0.07
9 6 0.07
10 13 0.15
11 40 0.45
12 19 0.22
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:48161330 original size:39 final size:38
Alignment explanation
Indices: 48161277--48161409 Score: 178
Period size: 39 Copynumber: 3.4 Consensus size: 38
48161267 AATATATTTA
*
48161277 TTTTTTAATTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTTA-TTTTTAATTTTAAAATATTTTTAAAATACT
48161316 TTTTTGTTATTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTT-TTATTTTTAATTTTAAAATATTTTTAAAATACT
**
48161355 GTTTAAAATT-TTTTTAATTTTAAAATATTTTTAAAATACT
1 -TTT--TTTTATTTTTAATTTTAAAATATTTTTAAAATACT
*
48161395 TTTTTTAATTTTTAA
1 TTTTTTTATTTTTAA
48161410 AATATTTTTT
Statistics
Matches: 83, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
37 1 0.01
38 7 0.08
39 38 0.46
40 35 0.42
41 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (38 bp):
TTTTTTTATTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:48161367 original size:21 final size:20
Alignment explanation
Indices: 48161341--48161417 Score: 61
Period size: 21 Copynumber: 3.9 Consensus size: 20
48161331 ATTTTAAAAT
48161341 ATTTTTAAAATACTGTTTAAA
1 ATTTTTAAAATACT-TTTAAA
** *
48161362 ATTTTTTTAAT--TTTAAAA
1 ATTTTTAAAATACTTTTAAA
**
48161380 TATTTTTAAAATACTTTTTTTA
1 -ATTTTTAAAATAC-TTTTAAA
48161402 ATTTTTAAAATA-TTTT
1 ATTTTTAAAATACTTTT
48161418 TTTGGTATTT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
18 5 0.11
19 14 0.32
21 21 0.48
22 4 0.09
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (20 bp):
ATTTTTAAAATACTTTTAAA
Found at i:48161405 original size:40 final size:40
Alignment explanation
Indices: 48161277--48161407 Score: 196
Period size: 40 Copynumber: 3.3 Consensus size: 40
48161267 AATATATTTA
48161277 TTTTTTAA-TTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
*
48161316 TTTTTGT--TATTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTT-TAATTTTTTTAATTTTAAAATATTTTTAAAATACT
* **
48161355 GTTTAAAATTTTTTTAATTTTAAAATATTTTTAAAATACT
1 TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
48161395 TTTTTTAATTTTT
1 TTTTTTAATTTTT
48161408 AAAATATTTT
Statistics
Matches: 80, Mismatches: 8, Indels: 7
0.84 0.08 0.07
Matches are distributed among these distances:
39 38 0.47
40 42 0.52
ACGTcount: A:0.34, C:0.02, G:0.02, T:0.62
Consensus pattern (40 bp):
TTTTTTAATTTTTTTAATTTTAAAATATTTTTAAAATACT
Found at i:48161418 original size:21 final size:21
Alignment explanation
Indices: 48161381--48161420 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
48161371 ATTTTAAAAT
48161381 ATTTTTAAAATACTTTTTTTA
1 ATTTTTAAAATACTTTTTTTA
48161402 ATTTTTAAAATA-TTTTTTT
1 ATTTTTAAAATACTTTTTTT
48161421 GGTATTTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTTTAAAATACTTTTTTTA
Found at i:48161497 original size:26 final size:26
Alignment explanation
Indices: 48161446--48161497 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
48161436 ATGGACCGGG
** *
48161446 CCCGGGCCGGGCACGGGCTTATTTTT
1 CCCGGGCCGGGCACGGGCAAAATTTT
48161472 CCCGGGCCGGGC-CTGGGCAAAATTTT
1 CCCGGGCCGGGCAC-GGGCAAAATTTT
48161498 AAGCCCATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.12, C:0.31, G:0.35, T:0.23
Consensus pattern (26 bp):
CCCGGGCCGGGCACGGGCAAAATTTT
Found at i:48161743 original size:125 final size:125
Alignment explanation
Indices: 48161521--48161768 Score: 471
Period size: 125 Copynumber: 2.0 Consensus size: 125
48161511 GGGCTGGGCT
*
48161521 GAAATTTTTTATGGGCCCAGCCTGAACCCTGCCCGGCCCGGCCCATGAGCACCTCTAAGCAGGAA
1 GAAATTTTTTATGGGCCCAGCCTGAACCCAGCCCGGCCCGGCCCATGAGCACCTCTAAGCAGGAA
48161586 TAACCATTCAGCGTTTTTAACCATTCTATGGGATTATTTGAACCAAACAATGGAATGGCC
66 TAACCATTCAGCGTTTTTAACCATTCTATGGGATTATTTGAACCAAACAATGGAATGGCC
48161646 GAAATTTTTTATGGGCCCAG-CTCGAACCCAGCCCGGCCCGGCCCATGAGCACCTCTAAGCAGGA
1 GAAATTTTTTATGGGCCCAGCCT-GAACCCAGCCCGGCCCGGCCCATGAGCACCTCTAAGCAGGA
48161710 ATAACCATTCAGCGTTTTTAACCATTCTATGGGATTATTTGAACCAAACAATGGAATGG
65 ATAACCATTCAGCGTTTTTAACCATTCTATGGGATTATTTGAACCAAACAATGGAATGG
48161769 TGGTCCCCTC
Statistics
Matches: 121, Mismatches: 1, Indels: 2
0.98 0.01 0.02
Matches are distributed among these distances:
124 2 0.02
125 119 0.98
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.25
Consensus pattern (125 bp):
GAAATTTTTTATGGGCCCAGCCTGAACCCAGCCCGGCCCGGCCCATGAGCACCTCTAAGCAGGAA
TAACCATTCAGCGTTTTTAACCATTCTATGGGATTATTTGAACCAAACAATGGAATGGCC
Found at i:48164292 original size:27 final size:27
Alignment explanation
Indices: 48164262--48164318 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
48164252 GTCCCGACAT
* * *
48164262 ACTATCCCGTGTTTATTGTCCCAGTGG
1 ACTACCCCGTGTTTAGTGTCCCAATGG
48164289 ACTACCCCGTGTTTAGTGTCCCAATGG
1 ACTACCCCGTGTTTAGTGTCCCAATGG
48164316 ACT
1 ACT
48164319 TTATTGGTCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.18, C:0.28, G:0.21, T:0.33
Consensus pattern (27 bp):
ACTACCCCGTGTTTAGTGTCCCAATGG
Found at i:48168217 original size:19 final size:19
Alignment explanation
Indices: 48168189--48168234 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
48168179 TATATATAAT
*
48168189 AATAATATAAAAACCAGATA-
1 AATAA-ATAAAAA-CAAATAG
48168209 AATAAATAAAAACAAATAG
1 AATAAATAAAAACAAATAG
48168228 AATAAAT
1 AATAAAT
48168235 GTCTCATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
18 5 0.21
19 14 0.58
20 5 0.21
ACGTcount: A:0.70, C:0.07, G:0.04, T:0.20
Consensus pattern (19 bp):
AATAAATAAAAACAAATAG
Found at i:48168849 original size:15 final size:15
Alignment explanation
Indices: 48168810--48168859 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
48168800 TGATTTGAAT
48168810 TTTTTTTCTTT-TTC
1 TTTTTTTCTTTGTTC
*
48168824 TTCGCTTTTCTTTGTTC
1 TT--TTTTTCTTTGTTC
48168841 TTTTTTTC-TTGTCTC
1 TTTTTTTCTTTGT-TC
48168856 TTTT
1 TTTT
48168860 GTTCAATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
14 6 0.20
15 11 0.37
16 8 0.27
17 5 0.17
ACGTcount: A:0.00, C:0.18, G:0.06, T:0.76
Consensus pattern (15 bp):
TTTTTTTCTTTGTTC
Found at i:48171481 original size:3 final size:3
Alignment explanation
Indices: 48171473--48171527 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
48171463 ATATATTGAT
48171473 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
48171521 TTA TTA T
1 TTA TTA T
48171528 CATCTTGGTG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:48172553 original size:20 final size:21
Alignment explanation
Indices: 48172528--48172566 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
48172518 AATTTGTTGA
48172528 TTAAATATTTATG-ATTATTT
1 TTAAATATTTATGAATTATTT
*
48172548 TTAAATTTTTATGAATTAT
1 TTAAATATTTATGAATTAT
48172567 AAATGGATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (21 bp):
TTAAATATTTATGAATTATTT
Found at i:48173627 original size:23 final size:21
Alignment explanation
Indices: 48173576--48173627 Score: 50
Period size: 23 Copynumber: 2.3 Consensus size: 21
48173566 CTTTTTTAAT
48173576 TAATATTTCTAAATTAAATTA
1 TAATATTTCTAAATTAAATTA
* * *
48173597 CAATTATTTTTAAAATTAATTTA
1 TAA-TATTTCT-AAATTAAATTA
48173620 GTAATATT
1 -TAATATT
48173628 ATGAAAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
21 2 0.08
22 6 0.25
23 14 0.58
24 2 0.08
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (21 bp):
TAATATTTCTAAATTAAATTA
Found at i:48179404 original size:18 final size:18
Alignment explanation
Indices: 48179381--48179416 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
48179371 GAAATCAACA
48179381 AGAAACAAAAGAAAGATT
1 AGAAACAAAAGAAAGATT
*
48179399 AGAAACAGAAGAAAGATT
1 AGAAACAAAAGAAAGATT
48179417 TACCAATCAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.64, C:0.06, G:0.19, T:0.11
Consensus pattern (18 bp):
AGAAACAAAAGAAAGATT
Found at i:48194410 original size:16 final size:16
Alignment explanation
Indices: 48194359--48194426 Score: 55
Period size: 16 Copynumber: 4.0 Consensus size: 16
48194349 CAGAAGAATA
*
48194359 TGCCAAACCACAAATCT
1 TGCCAAAACACAAAT-T
* *
48194376 CGCCAAAAACATAAAATT
1 TGCC-AAAACA-CAAATT
48194394 TGCCAAAACACAAATT
1 TGCCAAAACACAAATT
* *
48194410 TGTCAAATCACATAATT
1 TGCCAAAACACA-AATT
48194427 CACCAATCAG
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
16 15 0.37
17 13 0.32
18 9 0.22
19 4 0.10
ACGTcount: A:0.47, C:0.25, G:0.06, T:0.22
Consensus pattern (16 bp):
TGCCAAAACACAAATT
Found at i:48195171 original size:15 final size:15
Alignment explanation
Indices: 48195148--48195179 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
48195138 CATTTCACTA
48195148 TTATCTCTTTTATAT
1 TTATCTCTTTTATAT
*
48195163 TTATGTCTTTTATAT
1 TTATCTCTTTTATAT
48195178 TT
1 TT
48195180 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.09, G:0.03, T:0.69
Consensus pattern (15 bp):
TTATCTCTTTTATAT
Found at i:48204095 original size:46 final size:46
Alignment explanation
Indices: 48204026--48204114 Score: 142
Period size: 46 Copynumber: 1.9 Consensus size: 46
48204016 GTCTACTATC
*
48204026 TTTAAACTCAATACAACAGGTGATTTAAGTCATATCACATCCTGTT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
* * *
48204072 TTTAAACTCAATATAACAAGTGATTTAAGTCCTATCAGATCCT
1 TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCT
48204115 AATATAGCAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.36, C:0.19, G:0.10, T:0.35
Consensus pattern (46 bp):
TTTAAACTCAATACAACAAGTGATTTAAGTCATATCACATCCTGTT
Found at i:48212191 original size:20 final size:20
Alignment explanation
Indices: 48212166--48212206 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
48212156 TTGCAGGGTT
48212166 TTGGAGTTAT-ATAATGTTAC
1 TTGGAGTTATAAT-ATGTTAC
*
48212186 TTGGAGTTTTAATATGTTAC
1 TTGGAGTTATAATATGTTAC
48212206 T
1 T
48212207 CTATGGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 17 0.89
21 2 0.11
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.49
Consensus pattern (20 bp):
TTGGAGTTATAATATGTTAC
Found at i:48215876 original size:26 final size:26
Alignment explanation
Indices: 48215840--48215892 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
48215830 ACCCTCACAC
* * *
48215840 TAATATTGCAGCATAGCTGCCAGTAG
1 TAATAATGCAGCAGAGCTGCCAATAG
48215866 TAATAATGCAGCAGAGCTGCCAATAG
1 TAATAATGCAGCAGAGCTGCCAATAG
48215892 T
1 T
48215893 CAGAATGGCT
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:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (26 bp):
TAATAATGCAGCAGAGCTGCCAATAG
Found at i:48215899 original size:26 final size:26
Alignment explanation
Indices: 48215846--48215899 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
48215836 ACACTAATAT
* * *
48215846 TGCAGCATAGCTGCCAGTAGTAATAA
1 TGCAGCAGAGCTGCCAATAGTAAGAA
*
48215872 TGCAGCAGAGCTGCCAATAGTCAGAA
1 TGCAGCAGAGCTGCCAATAGTAAGAA
48215898 TG
1 TG
48215900 GCTAAAAGCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.20
Consensus pattern (26 bp):
TGCAGCAGAGCTGCCAATAGTAAGAA
Found at i:48216019 original size:32 final size:32
Alignment explanation
Indices: 48215949--48216188 Score: 229
Period size: 32 Copynumber: 7.5 Consensus size: 32
48215939 AAATGGCTAC
* * * * *
48215949 AAGCCATAAGTA-CAGTAATGTGATTGTCACA
1 AAGCCATCAGTAGCAGTGATATGATCGGCACA
48215980 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAGCAGTGATATGATCGGCACA
* * * *
48216012 CAA-CCATCAGTAACGGTAACATGATCGGCACA
1 -AAGCCATCAGTAGCAGTGATATGATCGGCACA
48216044 AAGCCATCAGTAGCAGTGATATGATCGGCACA
1 AAGCCATCAGTAGCAGTGATATGATCGGCACA
* * * *
48216076 CAGCTATCAGTAACAGTGAAATATGATCGACACA
1 AAGCCATCAGTAGCAGTG--ATATGATCGGCACA
* * *
48216110 AAGCCATCAGTAAC-GAT-ACTATGAACGACACA
1 AAGCCATCAGTAGCAG-TGA-TATGATCGGCACA
* *
48216142 AAGCCATCAGTAGCGGT-ACTATGATCAGCACA
1 AAGCCATCAGTAGCAGTGA-TATGATCGGCACA
48216174 AAGCCATCAGTAGCA
1 AAGCCATCAGTAGCA
48216189 TCGCAGTAAA
Statistics
Matches: 176, Mismatches: 25, Indels: 15
0.81 0.12 0.07
Matches are distributed among these distances:
31 14 0.08
32 132 0.75
33 4 0.02
34 26 0.15
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (32 bp):
AAGCCATCAGTAGCAGTGATATGATCGGCACA
Found at i:48216077 original size:64 final size:64
Alignment explanation
Indices: 48215976--48216188 Score: 254
Period size: 64 Copynumber: 3.3 Consensus size: 64
48215966 ATGTGATTGT
48215976 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATCGG
1 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATCGG
* * * *
48216040 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAGCTATCAGTAACAGTGAAATATGATCG
1 CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAAC-G-GTAACATGATCG
*
48216105 A
64 G
* * * *
48216106 CACAAAGCCATCAGTAAC-GAT-ACTATGAACGACACA-AAGCCATCAGTAGCGGT-ACTATGAT
1 CACAAAGCCATCAGTAGCAG-TGA-TATGATCGGCACACAA-CCATCAGTAACGGTAAC-ATGAT
*
48216167 CAG
62 CGG
48216170 CACAAAGCCATCAGTAGCA
1 CACAAAGCCATCAGTAGCA
48216189 TCGCAGTAAA
Statistics
Matches: 126, Mismatches: 16, Indels: 13
0.81 0.10 0.08
Matches are distributed among these distances:
63 1 0.01
64 72 0.57
65 5 0.04
66 48 0.38
ACGTcount: A:0.38, C:0.24, G:0.20, T:0.17
Consensus pattern (64 bp):
CACAAAGCCATCAGTAGCAGTGATATGATCGGCACACAACCATCAGTAACGGTAACATGATCGG
Found at i:48216122 original size:98 final size:95
Alignment explanation
Indices: 48215949--48216185 Score: 273
Period size: 98 Copynumber: 2.5 Consensus size: 95
48215939 AAATGGCTAC
* * * * * *
48215949 AAGCCATAAGTA-CAGTAATGTGATTGTCACAAAGCCATCAGTAGCAGTGATATGATCGGCACAC
1 AAGCCATCAGTAGCAGT-ATATGATCGGCACAAAGCCATCAGTAACAGTGATATGATCGACACAC
* * *
48216013 AACCATCAGTAACGGTAAC-ATGATCGGCACA
65 AACCATCAGTAACGAT-ACTATGAACGACACA
* *
48216044 AAGCCATCAGTAGCAGTGATATGATCGGCACACAGCTATCAGTAACAGTGAAATATGATCGACAC
1 AAGCCATCAGTAGCAGT-ATATGATCGGCACAAAGCCATCAGTAACAGTG--ATATGATCGACAC
48216109 A-AAGCCATCAGTAACGATACTATGAACGACACA
63 ACAA-CCATCAGTAACGATACTATGAACGACACA
* *
48216142 AAGCCATCAGTAGCGGTACTATGATCAGCACAAAGCCATCAGTA
1 AAGCCATCAGTAGCAGTA-TATGATCGGCACAAAGCCATCAGTA
48216186 GCATCGCAGT
Statistics
Matches: 120, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
95 11 0.09
96 30 0.25
97 5 0.04
98 74 0.62
ACGTcount: A:0.38, C:0.23, G:0.20, T:0.19
Consensus pattern (95 bp):
AAGCCATCAGTAGCAGTATATGATCGGCACAAAGCCATCAGTAACAGTGATATGATCGACACACA
ACCATCAGTAACGATACTATGAACGACACA
Found at i:48216240 original size:26 final size:26
Alignment explanation
Indices: 48216188--48216241 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
48216178 CATCAGTAGC
* * *
48216188 ATCGCAGTAAAGTTGCTAGCAACAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
* *
48216214 ATCGCAGCAAAGCTGCCAGTAATAGT
1 ATCGCAGCAAAGCTGCCAGCAACAGT
48216240 AT
1 AT
48216242 ATGTGGCTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
ATCGCAGCAAAGCTGCCAGCAACAGT
Found at i:48220563 original size:28 final size:28
Alignment explanation
Indices: 48220507--48220564 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
48220497 AAAAATAATA
**
48220507 AAAATTAAATATTTTCATAATTTGAATG
1 AAAATTAAATATTTTCATAATTAAAATG
*
48220535 AAAATTAATTATTTT-ATAATTAAATATG
1 AAAATTAAATATTTTCATAATTAAA-ATG
48220563 AA
1 AA
48220565 TTTTGACAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (28 bp):
AAAATTAAATATTTTCATAATTAAAATG
Found at i:48222982 original size:20 final size:19
Alignment explanation
Indices: 48222956--48223012 Score: 62
Period size: 19 Copynumber: 3.0 Consensus size: 19
48222946 TTGTACTTCG
48222956 GTACCCCTGATTGCACTTA
1 GTACCCCTGATTGCACTTA
* *
48222975 CGTTCCCCTG-TTGTACTTA
1 -GTACCCCTGATTGCACTTA
* *
48222994 GTACCCCTCATCGCACTTA
1 GTACCCCTGATTGCACTTA
48223013 TGTGCTCCTG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 7 0.23
19 15 0.50
20 8 0.27
ACGTcount: A:0.18, C:0.35, G:0.14, T:0.33
Consensus pattern (19 bp):
GTACCCCTGATTGCACTTA
Found at i:48223010 original size:38 final size:39
Alignment explanation
Indices: 48222945--48223032 Score: 106
Period size: 38 Copynumber: 2.3 Consensus size: 39
48222935 GTAGAAAACG
* * * *
48222945 GTTGTACTTCGGTACCCCTGATTGCACTTACGTTCCCCT
1 GTTGTACTTCAGTACCCCTCATCGCACTTACGTGCCCCT
* *
48222984 GTTGTACTT-AGTACCCCTCATCGCACTTATGTGCTCCT
1 GTTGTACTTCAGTACCCCTCATCGCACTTACGTGCCCCT
*
48223022 GTTGTATTTCA
1 GTTGTACTTCA
48223033 ATTCTCCTGA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 31 0.76
39 10 0.24
ACGTcount: A:0.15, C:0.30, G:0.17, T:0.39
Consensus pattern (39 bp):
GTTGTACTTCAGTACCCCTCATCGCACTTACGTGCCCCT
Found at i:48229335 original size:19 final size:21
Alignment explanation
Indices: 48229306--48229351 Score: 60
Period size: 19 Copynumber: 2.3 Consensus size: 21
48229296 GTTATATACA
48229306 TATATATATACATACAT-TTT
1 TATATATATACATACATATTT
*
48229326 TATA-ATATACGTACATATTT
1 TATATATATACATACATATTT
*
48229346 TTTATA
1 TATATA
48229352 ACTTATATAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 11 0.50
20 10 0.45
21 1 0.05
ACGTcount: A:0.39, C:0.09, G:0.02, T:0.50
Consensus pattern (21 bp):
TATATATATACATACATATTT
Found at i:48229362 original size:22 final size:20
Alignment explanation
Indices: 48229309--48229365 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 20
48229299 ATATACATAT
*
48229309 ATATATACATACATTTTTATA
1 ATATATACATA-TTTTTTATA
48229330 ATATACGTACATATTTTTTATA
1 ATATA--TACATATTTTTTATA
48229352 ACTTATATACATAT
1 A--TATATACATAT
48229366 ATACATACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 5 0.16
22 16 0.52
23 6 0.19
24 4 0.13
ACGTcount: A:0.40, C:0.11, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATATACATATTTTTTATA
Found at i:48229553 original size:4 final size:4
Alignment explanation
Indices: 48229544--48229568 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
48229534 TTTTATTCAT
48229544 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
48229569 GCTTTCATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:48232445 original size:21 final size:21
Alignment explanation
Indices: 48232395--48232445 Score: 50
Period size: 21 Copynumber: 2.4 Consensus size: 21
48232385 GTCCCTTCTA
*
48232395 AATTAGAAATCATAAAGCAAG
1 AATTAGAAATCAGAAAGCAAG
* * *
48232416 ATTTTGAAATGAGAAATGC-AG
1 AATTAGAAATCAGAAA-GCAAG
48232437 AATTAGAAA
1 AATTAGAAA
48232446 AGAAGATAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
21 21 0.91
22 2 0.09
ACGTcount: A:0.53, C:0.06, G:0.18, T:0.24
Consensus pattern (21 bp):
AATTAGAAATCAGAAAGCAAG
Found at i:48238112 original size:50 final size:50
Alignment explanation
Indices: 48238032--48238321 Score: 307
Period size: 50 Copynumber: 5.8 Consensus size: 50
48238022 ATTTGGGTAA
*
48238032 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * * *
48238082 AGAGGTCCCATTTAAGACCATGTTTGGGACATGGCGTTGGCACTGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* * *
48238132 AGAGGTCCTATGTAAGA-CATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
48238181 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * * * *
48238231 AGAACTCTCATGTAAGACCATATCTGGGATATGACATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * * *
48238280 AAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
48238322 TGTTATATTC
Statistics
Matches: 199, Mismatches: 39, Indels: 5
0.82 0.16 0.02
Matches are distributed among these distances:
49 78 0.39
50 121 0.61
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:48238223 original size:99 final size:100
Alignment explanation
Indices: 48238032--48238272 Score: 308
Period size: 99 Copynumber: 2.4 Consensus size: 100
48238022 ATTTGGGTAA
* **
48238032 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATTTAA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCACGTAA
* * *
48238097 GACCATGTTTGGGACATGGCGTTGGCACTGAGATG
66 GACCATGTCTGGGACATGGCATGGGCACTGAGATG
* * * *
48238132 AGAGGTCCTATGTAAGA-CATGTCTGGGACATGGCGTTGGCACCAAGATGAGAGGTCCCCCGTAA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCACGTAA
*
48238196 GACCATGTCTGGGACATGGCATGGGCACCT-ATATG
66 GACCATGTCTGGGACATGGCATGGGCA-CTGAGATG
* * * *
48238231 AGA-ACTCTCATGTAAGACCATATCTGGGATATGACATTGGCA
1 AGAGA-TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
48238273 GTACAAGAAA
Statistics
Matches: 120, Mismatches: 18, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
99 83 0.69
100 37 0.31
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (100 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCAAGATGAGAGGTCCCACGTAA
GACCATGTCTGGGACATGGCATGGGCACTGAGATG
Found at i:48238320 original size:149 final size:149
Alignment explanation
Indices: 48238043--48238321 Score: 353
Period size: 149 Copynumber: 1.9 Consensus size: 149
48238033 GAGATCCCAT
* ** * * *
48238043 GTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCATTTAAGACCATGTTTG
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGTAAGACCATATCTG
* * * * * ** * *
48238108 GGACATGGCGTTGGCACTGAGATGAGAGGTCCTATGTAAGACATGTCTGGGACATGGCGTTGGCA
66 GGACATGACATTGGCACTGACAAGAAACATCCCATGTAAGACATGTCTGGGACATAGCGTTGGCA
48238173 CCAAGATGAGAGGTCCCCC
131 CCAAGATGAGAGGTCCCCC
* * *
48238192 GTAAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCTCATGTAAGACCATATCTG
1 GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGTAAGACCATATCTG
* * *
48238257 GGATATGACATTGGCAGT-ACAAGAAACATCCCATGTAAGACTATGTCTGGGACATAGCTTTGGC
66 GGACATGACATTGGCACTGACAAGAAACATCCCATGTAAGAC-ATGTCTGGGACATAGCGTTGGC
48238321 A
130 A
48238322 TGTTATATTC
Statistics
Matches: 108, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
148 17 0.16
149 91 0.84
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (149 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACTCCCATGTAAGACCATATCTG
GGACATGACATTGGCACTGACAAGAAACATCCCATGTAAGACATGTCTGGGACATAGCGTTGGCA
CCAAGATGAGAGGTCCCCC
Found at i:48249002 original size:7 final size:7
Alignment explanation
Indices: 48248992--48249033 Score: 66
Period size: 7 Copynumber: 6.0 Consensus size: 7
48248982 CTAAAAATTA
*
48248992 ATATATA
1 ATATATT
48248999 ATATATT
1 ATATATT
48249006 ATATATT
1 ATATATT
48249013 ATATATT
1 ATATATT
48249020 ATATATT
1 ATATATT
*
48249027 ATTTATT
1 ATATATT
48249034 TTTATCTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
ATATATT
Found at i:48249258 original size:28 final size:28
Alignment explanation
Indices: 48249207--48249260 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
48249197 ACTGTTCTAA
*
48249207 AATATTTATAAAAAAGGCATCTAATTTT
1 AATATTTATAAAAAAGGCAACTAATTTT
*
48249235 AATATTTA-CAAAAAGGACAACTAATT
1 AATATTTATAAAAAAGG-CAACTAATT
48249261 ATTGAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.33
Consensus pattern (28 bp):
AATATTTATAAAAAAGGCAACTAATTTT
Found at i:48266060 original size:21 final size:21
Alignment explanation
Indices: 48266031--48266071 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
48266021 AAGCCCGAAA
* *
48266031 GCTACACAGAAGCACATAAGT
1 GCTAAACAGAAACACATAAGT
*
48266052 GCTAAACAGAAACCCATAAG
1 GCTAAACAGAAACACATAAG
48266072 GGTTGAACGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.46, C:0.24, G:0.17, T:0.12
Consensus pattern (21 bp):
GCTAAACAGAAACACATAAGT
Found at i:48266090 original size:21 final size:21
Alignment explanation
Indices: 48266060--48266163 Score: 73
Period size: 21 Copynumber: 5.0 Consensus size: 21
48266050 GTGCTAAACA
48266060 GAAACCCATAAGGGTTGAACG
1 GAAACCCATAAGGGTTGAACG
** * * *
48266081 GAGGCTCATAAGAGCTGAACG
1 GAAACCCATAAGGGTTGAACG
* **
48266102 GAAACCCATAAGGGTTAAATA
1 GAAACCCATAAGGGTTGAACG
* * * * * *
48266123 GAAGCTCAAAAGAGCTAAACG
1 GAAACCCATAAGGGTTGAACG
*
48266144 GAAACCCATTAGGGTTGAAC
1 GAAACCCATAAGGGTTGAAC
48266164 AAAAACTCAT
Statistics
Matches: 56, Mismatches: 27, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.40, C:0.18, G:0.26, T:0.15
Consensus pattern (21 bp):
GAAACCCATAAGGGTTGAACG
Found at i:48266092 original size:42 final size:42
Alignment explanation
Indices: 48266036--48266174 Score: 170
Period size: 42 Copynumber: 3.3 Consensus size: 42
48266026 CGAAAGCTAC
* * *
48266036 ACAGAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* * * *
48266078 ACGGAGGCTCATAAGAGCTGAACGGAAACCCATAAGGGTTAA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* * *
48266120 ATAGAAGCTCAAAAGAGCTAAACGGAAACCCATTAGGGTTGA
1 ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
* *
48266162 ACAAAAACTCATA
1 ACAGAAGCTCATA
48266175 TGAGTTAACA
Statistics
Matches: 79, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
42 79 1.00
ACGTcount: A:0.44, C:0.19, G:0.22, T:0.15
Consensus pattern (42 bp):
ACAGAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTGA
Found at i:48270738 original size:5 final size:6
Alignment explanation
Indices: 48270722--48270747 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
48270712 TAAATATTTT
48270722 TAAAAA TAAAAA TAAAAA TAAAAA TA
1 TAAAAA TAAAAA TAAAAA TAAAAA TA
48270748 TATTATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
TAAAAA
Found at i:48272408 original size:31 final size:31
Alignment explanation
Indices: 48272370--48272449 Score: 106
Period size: 31 Copynumber: 2.6 Consensus size: 31
48272360 CAAACCTTTC
48272370 AAAGTGCTCAAATAAGGGACAAAAGTTTTTG
1 AAAGTGCTCAAATAAGGGACAAAAGTTTTTG
** * **
48272401 AAAGTGCTCAAATAAAAGCCAAACTTTTTTG
1 AAAGTGCTCAAATAAGGGACAAAAGTTTTTG
*
48272432 AAAGTACTCAAATAAGGG
1 AAAGTGCTCAAATAAGGG
48272450 CTTCTCATAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.44, C:0.12, G:0.19, T:0.25
Consensus pattern (31 bp):
AAAGTGCTCAAATAAGGGACAAAAGTTTTTG
Found at i:48272835 original size:17 final size:18
Alignment explanation
Indices: 48272813--48272846 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
48272803 ATAATTGTAA
48272813 TTTAAAT-TGTAATTATT
1 TTTAAATATGTAATTATT
48272830 TTTAAATATGTAATTAT
1 TTTAAATATGTAATTAT
48272847 CATAATTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (18 bp):
TTTAAATATGTAATTATT
Found at i:48284710 original size:19 final size:20
Alignment explanation
Indices: 48284680--48284717 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
48284670 GGGTAGGACT
48284680 GTTTTCACAAAATCTGCATC
1 GTTTTCACAAAATCTGCATC
*
48284700 GTTTT-ACAAAATGTGCAT
1 GTTTTCACAAAATCTGCAT
48284718 TAACATGATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.32, C:0.18, G:0.13, T:0.37
Consensus pattern (20 bp):
GTTTTCACAAAATCTGCATC
Found at i:48289782 original size:5 final size:5
Alignment explanation
Indices: 48289772--48289798 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
48289762 ACATATGCTC
48289772 TTCTT TTCTT TTCTT TTCTT TTCTT TT
1 TTCTT TTCTT TTCTT TTCTT TTCTT TT
48289799 TCCGAGCATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTCTT
Found at i:48310040 original size:17 final size:16
Alignment explanation
Indices: 48310018--48310061 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 16
48310008 ATGAAATAAT
*
48310018 ATATTTTATAAGTATTA
1 ATATTTTATAA-CATTA
48310035 ATATTTGTATAACATTA
1 ATATTT-TATAACATTA
*
48310052 TTATTTTATA
1 ATATTTTATA
48310062 GATTATAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 4 0.17
17 15 0.62
18 5 0.21
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.55
Consensus pattern (16 bp):
ATATTTTATAACATTA
Found at i:48321013 original size:50 final size:49
Alignment explanation
Indices: 48320943--48321126 Score: 179
Period size: 51 Copynumber: 3.6 Consensus size: 49
48320933 ATGTGAAAGT
* * *
48320943 GAAAGTGATGGTCACTTGTGTAGTACTATGCGCAGGCTACTACGTGTACCA
1 GAAAGT-A-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * **
48320994 GAAAGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCG
1 GAAAG-TAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
* * * * * *
48321044 GATAACTTCGATCACGTGTGTAGTACTATGTTCAGGCTACTACGTGTATCG
1 GA-AA-GTAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
*
48321095 GATAGTGATGGTCACATGTGTAGTACTATGTG
1 GAAAGT-A-GGTCACATGTGTAGTACTATGTG
48321127 AACCAGTATA
Statistics
Matches: 105, Mismatches: 23, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
49 1 0.01
50 38 0.36
51 65 0.62
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GAAAGTAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCG
Found at i:48324581 original size:179 final size:179
Alignment explanation
Indices: 48324280--48324621 Score: 623
Period size: 179 Copynumber: 1.9 Consensus size: 179
48324270 TGATTTCATC
*
48324280 AAAACTTGAAGGTGGATTATGGCATTTTTTTAGAGAAAATGGAGAATATGCAAGAGAAAATGGAA
1 AAAACTTGAAGGTGGATTATGGCATTTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGGAA
* *
48324345 AAAGAAGAATATAGAGGCCATGGGGGAGCTTACCAACTAGTTCTTAGCTGAATGGTGAGGGGGGG
66 AAAGAAGAACATAGAGGCCATGGGGGAGCTGACCAACTAGTTCTTAGCTGAATGGTGA-GGGGGG
48324410 TTCCCCATTCTTCATTTTAAATACAACAAAAATGAATATAGAGAAAATGG
130 TTCCCCATTCTTCATTTTAAATACAACAAAAATGAATATAGAGAAAATGG
48324460 AAAACTTGAAGGTGGATTATGGCA-TTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGGAA
1 AAAACTTGAAGGTGGATTATGGCATTTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGGAA
* *
48324524 AAAGAAGAACATAGAGGCCATGGGGGAGCTGGCCAACTAGTTCTTAGTTGAATGGTGAGGGGGGT
66 AAAGAAGAACATAGAGGCCATGGGGGAGCTGACCAACTAGTTCTTAGCTGAATGGTGAGGGGGGT
48324589 TCCCCATTCTTCATTTTAAATACAACAAAAATG
131 TCCCCATTCTTCATTTTAAATACAACAAAAATG
48324622 GGTTCAAGGC
Statistics
Matches: 157, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
178 40 0.25
179 93 0.59
180 24 0.15
ACGTcount: A:0.38, C:0.11, G:0.26, T:0.25
Consensus pattern (179 bp):
AAAACTTGAAGGTGGATTATGGCATTTTTTTAGAGAAAATGGAGAATATGCAAGAAAAAATGGAA
AAAGAAGAACATAGAGGCCATGGGGGAGCTGACCAACTAGTTCTTAGCTGAATGGTGAGGGGGGT
TCCCCATTCTTCATTTTAAATACAACAAAAATGAATATAGAGAAAATGG
Found at i:48327710 original size:39 final size:39
Alignment explanation
Indices: 48327641--48327720 Score: 106
Period size: 39 Copynumber: 2.1 Consensus size: 39
48327631 CATATGGTTG
* * *
48327641 AATGTTATGTGATTATATGAATATTATGATATATTCTTA
1 AATGTTATGTGATTATATGAATAATATGATAGATGCTTA
** *
48327680 AATGTTATGTGATTATATGTGTAATGTGATAGATGCTTA
1 AATGTTATGTGATTATATGAATAATATGATAGATGCTTA
48327719 AA
1 AA
48327721 AGTGAATATG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.35, C:0.03, G:0.17, T:0.45
Consensus pattern (39 bp):
AATGTTATGTGATTATATGAATAATATGATAGATGCTTA
Found at i:48332089 original size:39 final size:39
Alignment explanation
Indices: 48332016--48332091 Score: 109
Period size: 39 Copynumber: 1.9 Consensus size: 39
48332006 TTATGACATA
* *
48332016 TGCTTGAATGTTATGTGATTATATGATTATTGTGATATC
1 TGCTTAAATGTTATGTGATTATATGATTAATGTGATATC
*
48332055 TGCTTAAATGTTATGTGGTTATATG-TGTAATGTGATA
1 TGCTTAAATGTTATGTGATTATATGAT-TAATGTGATA
48332092 GGTGATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
38 1 0.03
39 32 0.97
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.47
Consensus pattern (39 bp):
TGCTTAAATGTTATGTGATTATATGATTAATGTGATATC
Found at i:48332101 original size:39 final size:39
Alignment explanation
Indices: 48332022--48332106 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
48332012 CATATGCTTG
* * *
48332022 AATGTTATGTGATTATATGATTATTGTGATATCTGCTTA
1 AATGTTATGTGATTATATGATTAATGTGATAGCTGATTA
* *
48332061 AATGTTATGTGGTTATATG-TGTAATGTGATAGGTGATTA
1 AATGTTATGTGATTATATGAT-TAATGTGATAGCTGATTA
*
48332100 AAAGTTA
1 AATGTTA
48332107 ATATGTTTAC
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
38 1 0.03
39 38 0.97
ACGTcount: A:0.31, C:0.02, G:0.22, T:0.45
Consensus pattern (39 bp):
AATGTTATGTGATTATATGATTAATGTGATAGCTGATTA
Found at i:48332963 original size:80 final size:80
Alignment explanation
Indices: 48332830--48332990 Score: 322
Period size: 80 Copynumber: 2.0 Consensus size: 80
48332820 TTCAAGACTT
48332830 TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
1 TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
48332895 TAAAGAAAATATCGA
66 TAAAGAAAATATCGA
48332910 TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
1 TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
48332975 TAAAGAAAATATCGA
66 TAAAGAAAATATCGA
48332990 T
1 T
48332991 ACCTTAGTAT
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 81 1.00
ACGTcount: A:0.37, C:0.12, G:0.16, T:0.34
Consensus pattern (80 bp):
TGGTTTTCAAACGAGAAATAAAATGCAAGTTTGGTATCATTTTTCCATGTGATATTGATACCACT
TAAAGAAAATATCGA
Found at i:48334765 original size:21 final size:21
Alignment explanation
Indices: 48334741--48334810 Score: 52
Period size: 21 Copynumber: 3.2 Consensus size: 21
48334731 TTTTCGACAT
48334741 TATGCCATAGTGTCTTTCAAC
1 TATGCCATAGTGTCTTTCAAC
* * * * *
48334762 TATGGTCTTA-TTTATTTTCGACAT
1 TAT-GCCATAGTGT-CTTTC-A-AC
48334786 TATGCCATAGTGTCTTTCAAC
1 TATGCCATAGTGTCTTTCAAC
48334807 TATG
1 TATG
48334811 GTCTTATTTA
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
21 10 0.29
22 9 0.26
23 9 0.26
24 6 0.18
ACGTcount: A:0.23, C:0.19, G:0.14, T:0.44
Consensus pattern (21 bp):
TATGCCATAGTGTCTTTCAAC
Found at i:48334769 original size:45 final size:45
Alignment explanation
Indices: 48334720--48334838 Score: 238
Period size: 45 Copynumber: 2.6 Consensus size: 45
48334710 TTTCAGCCAC
48334720 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
48334765 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
1 GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
48334810 GGTCTTATTTATTTTCGACATTATGCCAT
1 GGTCTTATTTATTTTCGACATTATGCCAT
48334839 TTCCATCATG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 74 1.00
ACGTcount: A:0.22, C:0.18, G:0.13, T:0.47
Consensus pattern (45 bp):
GGTCTTATTTATTTTCGACATTATGCCATAGTGTCTTTCAACTAT
Found at i:48334803 original size:23 final size:23
Alignment explanation
Indices: 48334732--48334803 Score: 60
Period size: 23 Copynumber: 3.2 Consensus size: 23
48334722 TCTTATTTAT
48334732 TTTCGACATTATGCCATAGTGTC
1 TTTCGACATTATGCCATAGTGTC
* * * * *
48334755 TTTC-A-ACTATGGTCTTA-TTTAT
1 TTTCGACATTAT-GCCATAGTGT-C
48334777 TTTCGACATTATGCCATAGTGTC
1 TTTCGACATTATGCCATAGTGTC
48334800 TTTC
1 TTTC
48334804 AACTATGGTC
Statistics
Matches: 34, Mismatches: 10, Indels: 10
0.63 0.19 0.19
Matches are distributed among these distances:
21 6 0.18
22 9 0.26
23 13 0.38
24 6 0.18
ACGTcount: A:0.21, C:0.19, G:0.14, T:0.46
Consensus pattern (23 bp):
TTTCGACATTATGCCATAGTGTC
Found at i:48342610 original size:115 final size:113
Alignment explanation
Indices: 48342146--48342679 Score: 416
Period size: 114 Copynumber: 4.7 Consensus size: 113
48342136 AGGGAAAACG
* *
48342146 CCGCTAAAGCATAATATTAACGGCG-TTTTGTGTGAAGCGCCGCAAAATATCTTAACCAAAACGC
1 CCGCTAAAGCATACTATTAACGGCGCTTTT-TGAGAAGCGCCGCAAAATATCTTAACCAAAACGC
* * * * *
48342210 AGAGTTTGGTCTTGAGGTATACTAGAATTAGTGGCGCAAAG-GGAACACG
65 AGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCTATGAGAAAC-CA
* * *** * **
48342259 CCGCTAAGGCATACTATTAGCGGCGCTTCCAGAGAAGCGCCGCAAAATTTGGTAACCAAAACGCA
1 CCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCA
* * * * * * * * *
48342324 -ACTTTTTTTCTTGATGTATAC-AGTTACTAGTGGCGAATATTAAAAAACA
66 GA-GTTTTGTCTTGAGGTATACTAG-AATTAGTGGCG-CTATGAGAAACCA
* * * * * **** * * *
48342373 CCGCTAAATCATAGTATTAGCAGTGCTTGGCAAAAAGCGCCGCAAAATATGC-TCACCAAAATGC
1 CCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAATAT-CTTAACCAAAACGC
* * * * * * *
48342437 AAAGTTTTTTCATCAGGTATATTAGAATTAGTGGCGCTTATGGGAGAA-CG
65 AGAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGC-TATGAGA-AACCA
* *
48342487 CCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAATATATTAACAAAAACGCA
1 CCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCA
* * * * * *
48342552 GCGTTTAAGTCTTGATGTACACTGGAATTAGTGGCGTCCATGAGAAACCA
66 GAGTTT-TGTCTTGAGGTATACTAGAATTAGTGGCG-CTATGAGAAACCA
* ** *
48342602 CCGCTAAAGCATAGTA-TAAGCACCGCTTTTTGAGAAGCGCCGGAAAATATCTTAACCAAAACGC
1 CCGCTAAAGCATACTATTAA-CGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGC
48342666 AGAGTTTTGGTCTT
65 AGAGTTTT-GTCTT
48342680 AACCATGCAT
Statistics
Matches: 320, Mismatches: 85, Indels: 30
0.74 0.20 0.07
Matches are distributed among these distances:
112 3 0.01
113 76 0.24
114 141 0.44
115 99 0.31
116 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.25
Consensus pattern (113 bp):
CCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAATATCTTAACCAAAACGCA
GAGTTTTGTCTTGAGGTATACTAGAATTAGTGGCGCTATGAGAAACCA
Found at i:48342662 original size:229 final size:227
Alignment explanation
Indices: 48342179--48342674 Score: 546
Period size: 229 Copynumber: 2.2 Consensus size: 227
48342169 CGTTTTGTGT
* * *
48342179 GAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTGGTCTTGAGGTATACTAGAATTAGTGG
1 GAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGTCATCAGGTATACTAGAATTAGTGG
* * *
48342244 CGCAAAGGGAACACGCCGCTAAGGCATACTATTAGCGGCGCTTCCAGAGAAGCGCCGCAAAATTT
66 CGCAAAGGGAACACGCCGCTAAAGCATACTATTAACGGCGCTTCCAGAGAAGCGCCGCAAAATAT
* * *** * ** * *
48342309 GGTAACCAAAACGCAACTTTTTTTCTTGATGTATACAGTTACTAGTGGCGAATATTAAAAAACAC
131 AGTAACAAAAACGCAACTTTAAGTCTTGATGTACACAGGAACTAGTGGCGAACATGAAAAAACAC
* * **
48342374 CGCTAAATCATAGTATTAGCAGTGCTTGGCAA
196 CGCTAAAGCATAGTATAAGCACCGCTTGGCAA
* * * * * *
48342406 AAAGCGCCGCAAAATATGC-TCACCAAAATGCAAAGTTTTTTCATCAGGTATATTAGAATTAGTG
1 GAAGCGCCGCAAAATAT-CTTAACCAAAACGCAGAGTTTTGTCATCAGGTATACTAGAATTAGTG
* * ***
48342470 GCGCTTATGGGAGA-ACGCCGCTAAAGCATACTATTAACGGCGCTTTTTGAGAAGCGCCGCAAAA
65 GCGC-AAAGGGA-ACACGCCGCTAAAGCATACTATTAACGGCGCTTCCAGAGAAGCGCCGCAAAA
* * * * ** *
48342534 TATATTAACAAAAACGCAGCGTTTAAGTCTTGATGTACACTGGAATTAGTGGCGTCCATGAGAAA
128 TATAGTAACAAAAACGCAAC-TTTAAGTCTTGATGTACACAGGAACTAGTGGCGAACATGAAAAA
* ****
48342599 CCACCGCTAAAGCATAGTATAAGCACCGCTTTTTGA
192 ACACCGCTAAAGCATAGTATAAGCACCGCTTGGCAA
*
48342635 GAAGCGCCGGAAAATATCTTAACCAAAACGCAGAGTTTTG
1 GAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTG
48342675 GTCTTAACCA
Statistics
Matches: 215, Mismatches: 49, Indels: 8
0.79 0.18 0.03
Matches are distributed among these distances:
227 57 0.27
228 67 0.31
229 91 0.42
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (227 bp):
GAAGCGCCGCAAAATATCTTAACCAAAACGCAGAGTTTTGTCATCAGGTATACTAGAATTAGTGG
CGCAAAGGGAACACGCCGCTAAAGCATACTATTAACGGCGCTTCCAGAGAAGCGCCGCAAAATAT
AGTAACAAAAACGCAACTTTAAGTCTTGATGTACACAGGAACTAGTGGCGAACATGAAAAAACAC
CGCTAAAGCATAGTATAAGCACCGCTTGGCAA
Found at i:48342763 original size:21 final size:20
Alignment explanation
Indices: 48342739--48342777 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
48342729 TTTGGTCTAT
*
48342739 GGTTTATGGTTTAAAGGTTGG
1 GGTTTAAGGTTT-AAGGTTGG
48342760 GGTTTAAGGTTTAAGGTT
1 GGTTTAAGGTTTAAGGTT
48342778 ATGTGTTAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.44
Consensus pattern (20 bp):
GGTTTAAGGTTTAAGGTTGG
Found at i:48351190 original size:21 final size:21
Alignment explanation
Indices: 48351157--48351196 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48351147 AGTAGACGCG
* *
48351157 GCAGTGAGGGAAGCAGAGGCT
1 GCAGCGAGAGAAGCAGAGGCT
48351178 GCAGCGAGAGAAGCAGAGG
1 GCAGCGAGAGAAGCAGAGG
48351197 TTCAAAAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.15, G:0.47, T:0.05
Consensus pattern (21 bp):
GCAGCGAGAGAAGCAGAGGCT
Found at i:48351635 original size:43 final size:42
Alignment explanation
Indices: 48351571--48351693 Score: 156
Period size: 43 Copynumber: 2.9 Consensus size: 42
48351561 TAGTGGTGTT
* *
48351571 TTTGTACAAAAGCGCCGCTAAAGAACATGTTCTGTAGCAGCG
1 TTTGTAAAAAAGCGCCGCTAAAGAACATGTTCTTTAGCAGCG
* *
48351613 TTTGTAAAAAAGGCGCCGCTAAAGATCATGTTCTTTAGCGGCG
1 TTTGTAAAAAA-GCGCCGCTAAAGAACATGTTCTTTAGCAGCG
* * * * *
48351656 CTTATAAAAAAACGCCGTTAAAGAACATGCTCTTTAGC
1 TTTGTAAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
48351694 GGCGCTTAAT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
42 33 0.47
43 37 0.53
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.26
Consensus pattern (42 bp):
TTTGTAAAAAAGCGCCGCTAAAGAACATGTTCTTTAGCAGCG
Found at i:48351706 original size:43 final size:42
Alignment explanation
Indices: 48351578--48351713 Score: 166
Period size: 42 Copynumber: 3.2 Consensus size: 42
48351568 GTTTTTGTAC
* * * * *
48351578 AAAAGCGCCGCTAAAGAACATGTTCTGTAGCAGCGTTTGTAA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* *
48351620 AAAAGGCGCCGCTAAAGATCATGTTCTTTAGCGGCGCTTATAA
1 AAAA-ACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
* *
48351663 AAAAACGCCGTTAAAGAACATGCTCTTTAGCGGCGCTTA-ATA
1 AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATA-A
48351705 AAAAACGCC
1 AAAAACGCC
48351714 ACTTCCACAA
Statistics
Matches: 83, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
41 1 0.01
42 45 0.54
43 37 0.45
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (42 bp):
AAAAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTATAA
Found at i:48353124 original size:21 final size:21
Alignment explanation
Indices: 48353098--48353141 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
48353088 AAAATGTACA
48353098 AATTTAAAATTTTTGTGGCAG
1 AATTTAAAATTTTTGTGGCAG
48353119 AATTTAAAATTTTTGTGGCAG
1 AATTTAAAATTTTTGTGGCAG
48353140 AA
1 AA
48353142 ATGTGAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.18, T:0.41
Consensus pattern (21 bp):
AATTTAAAATTTTTGTGGCAG
Found at i:48353150 original size:22 final size:21
Alignment explanation
Indices: 48353102--48353150 Score: 71
Period size: 21 Copynumber: 2.3 Consensus size: 21
48353092 TGTACAAATT
*
48353102 TAAAATTTTTGTGGCAGAATT
1 TAAAATTTTTGTGGCAGAATG
48353123 TAAAATTTTTGTGGCAGAAATG
1 TAAAATTTTTGTGGCAG-AATG
*
48353145 TGAAAT
1 TAAAAT
48353151 GGAGTTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.37, C:0.04, G:0.20, T:0.39
Consensus pattern (21 bp):
TAAAATTTTTGTGGCAGAATG
Found at i:48358554 original size:63 final size:63
Alignment explanation
Indices: 48358461--48358590 Score: 181
Period size: 63 Copynumber: 2.0 Consensus size: 63
48358451 ATAAATGGTG
* * *
48358461 AAATGGAGAAATAGGAAACATTTGGAAATGATTATGGTTTTCTCCAAACTGAAAATGAAAATGA
1 AAATGGAGAAATA-GAAACATTTGGAAATGAATATCGTTTTCTCCAAAATGAAAATGAAAATGA
* **
48358525 AAATGGGGAAAT-GAAATCATTTGGAAATGAATATCGTTTTCTGTAAAATGAAAATGAAAATGA
1 AAATGGAGAAATAGAAA-CATTTGGAAATGAATATCGTTTTCTCCAAAATGAAAATGAAAATGA
48358588 AAA
1 AAA
48358591 ATGAAATTGA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
62 4 0.07
63 44 0.75
64 11 0.19
ACGTcount: A:0.47, C:0.06, G:0.20, T:0.27
Consensus pattern (63 bp):
AAATGGAGAAATAGAAACATTTGGAAATGAATATCGTTTTCTCCAAAATGAAAATGAAAATGA
Found at i:48374481 original size:76 final size:76
Alignment explanation
Indices: 48374345--48374500 Score: 192
Period size: 76 Copynumber: 2.1 Consensus size: 76
48374335 TGAACCATTC
* * * *
48374345 ACTCATCATCTCGAAGAAGGCTTCCTTAGCCTCTCCTCCTCAGCCTTCAGATATGAGCCTTGCG-
1 ACTCATCATCTCGAAGAAGGCTTACTTAGCCTCTCCTCCTCAGCCCTCAAATACGAGCCTTGCGC
*
48374409 TCGCTCGATGCT
66 T-GCTCGAAGCT
* * *
48374421 ACTCATCATCTGGAAGAAGGGC-TACTTAGCCTCTCTTCC-CAGGCCCTCAAATACGGGCCTTGC
1 ACTCATCATCTCGAAGAA-GGCTTACTTAGCCTCTCCTCCTCA-GCCCTCAAATACGAGCCTTGC
48374484 GCTGCTCGAAGCT
64 GCTGCTCGAAGCT
48374497 ACTC
1 ACTC
48374501 CATGAACAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
75 2 0.03
76 63 0.91
77 4 0.06
ACGTcount: A:0.20, C:0.34, G:0.20, T:0.26
Consensus pattern (76 bp):
ACTCATCATCTCGAAGAAGGCTTACTTAGCCTCTCCTCCTCAGCCCTCAAATACGAGCCTTGCGC
TGCTCGAAGCT
Found at i:48376257 original size:24 final size:24
Alignment explanation
Indices: 48376168--48376258 Score: 96
Period size: 24 Copynumber: 3.8 Consensus size: 24
48376158 TCATGTACAT
*
48376168 GTATGCTCAT-ACGAGCTATGAATCG
1 GTATGCTC-TCACGAGCTGT-AATCG
*
48376193 GTATGCTCTCACGAGCTGTAATTG
1 GTATGCTCTCACGAGCTGTAATCG
* *
48376217 GGATGC-CCCACGAGCTGTAATCG
1 GTATGCTCTCACGAGCTGTAATCG
* *
48376240 GTCTACTCTCACGAGCTGT
1 GTATGCTCTCACGAGCTGT
48376259 GGGTCAGAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
23 18 0.33
24 21 0.38
25 16 0.29
ACGTcount: A:0.22, C:0.25, G:0.25, T:0.27
Consensus pattern (24 bp):
GTATGCTCTCACGAGCTGTAATCG
Found at i:48387010 original size:8 final size:8
Alignment explanation
Indices: 48386997--48387022 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
48386987 AATTTCAATT
48386997 TTATTTAA
1 TTATTTAA
48387005 TTATTTAA
1 TTATTTAA
48387013 TTATTTAA
1 TTATTTAA
48387021 TT
1 TT
48387023 TATTGAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TTATTTAA
Found at i:48390720 original size:19 final size:19
Alignment explanation
Indices: 48390696--48390768 Score: 119
Period size: 19 Copynumber: 3.8 Consensus size: 19
48390686 AATCTTCAAG
48390696 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
*
48390715 GATATGAAATCTTAGATAT
1 GATATGCAATCTTAGATAT
**
48390734 GATATGTTATCTTAGATAT
1 GATATGCAATCTTAGATAT
48390753 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
48390769 AGATATGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Done.