Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 145 of 150
Found at i:43750654 original size:43 final size:43
Alignment explanation
Indices: 43750603--43750826 Score: 145
Period size: 43 Copynumber: 5.2 Consensus size: 43
43750593 GATATCAGAT
43750603 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
* * * * * * ** * *
43750646 CTTGCCTTCATTG-GTT-GCAGTGGAGCTGGTTAAAGAAGCAGA-T
1 CTTGCCTTC-CTGCGTTAACAGCGAAGCAGATCGAA-AA-CAAAGC
43750689 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
* * ** * * * * * * * *
43750732 ATTGCCTTCATTAGTT-GCAGTGGAGCTGGT-TAAAGA-AGTAGAT
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAA-ACA-AAG-C
*
43750775 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAATAAAGC
1 CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
43750818 CTTGCCTTC
1 CTTGCCTTC
43750827 ATTAGTTGCA
Statistics
Matches: 125, Mismatches: 44, Indels: 24
0.65 0.23 0.12
Matches are distributed among these distances:
41 4 0.03
42 28 0.22
43 61 0.49
44 28 0.22
45 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.25
Consensus pattern (43 bp):
CTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAAAACAAAGC
Found at i:43751030 original size:88 final size:88
Alignment explanation
Indices: 43750579--43751641 Score: 1255
Period size: 88 Copynumber: 12.2 Consensus size: 88
43750569 TTAGTTGCAG
* * ** * * *
43750579 TGGAGCTGGTTAAAGATATCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA-A-ACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
* *
43750642 AAGCCTTGCCT-TCATTGGTTG-CA
66 AA-CCTTGCCTCTC-TCGGTTGTGA
* ** * * *
43750665 GTGGAGCTGGTTAAAGA-AGCAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA-A-AC
1 -TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
* ** *
43750727 AAAGCATTGCCT-TCATTAGTTG-CA
65 AAA-CCTTGCCTCTC-TCGGTTGTGA
* ** * * * *
43750751 GTGGAGCTGGTTAAAGA-AGTAGATCTTGCCTTCCTGCGTTAACAGCGAAGCAGATCGAA-A-AT
1 -TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
** *
43750813 AAAGCCTTGCCT-TCATTAGTTG-CA
65 AAA-CCTTGCCTCTC-TCGGTTGTGA
* * ** * * * * *
43750837 GTGGAGCTGGTTAAAGATAGCAGATCTTGCCTTTCTGCGTTAACAGTGAAGCAGATCGAA-A-AC
1 -TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACAC
43750900 AAACCTTGCCTCTCTCGGTTGTGA
65 AAACCTTGCCTCTCTCGGTTGTGA
* *
43750924 TGGAGCTGGTTAAAGACAAAAGAGCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
43750989 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* * * *
43751012 TGGAGCTGGTCGAGGACAAAAGATCTTGCCTTCTTGTATTGACAGCGAAGCAGGTCGAAGACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
43751077 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* * * * *
43751100 TGGAGCTGGTTGAAGACAAAAGATCTTACCTTCCTGCATTGACGGTGAAGCAGGTCAAAGGCACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
43751165 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* * * *
43751188 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTGACGGCGAAGCAGGTCAAAGACACG
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
43751253 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* * * * *
43751276 TGGAGCTGGTTGAAGACAAAATATCTTGCCTTCCTACATTGACGGCGAAGCAGGTCAAAGACACG
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
*
43751341 AACCTTGCCTCTCTTGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* * * *
43751364 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTACATTGACGGCGAAGCAGGTCAAAGACACG
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
43751429 AACCTTGCCTCTCTCGGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* *
43751452 TGGAGCTGGTTGAAGACAAAAGATCTTTCCTTCCTGCATTGACAGCGAAGCAGGTCGAAAACACA
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
* *
43751517 AACCTTGCCTCCCTCAGTTGTGA
66 AACCTTGCCTCTCTCGGTTGTGA
* * *
43751540 TGGAGCTGGTTGAAGACAACAGATCTTGCCTTCTTGCATTGACAGCGAAGCAGGTCGAAG--ACG
1 TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
*
43751603 AACCTTACCTCTCTCGGTTGT-A
66 AACCTTGCCTCTCTCGGTTGTGA
*
43751625 GTGGAGCTAGTTGAAGA
1 -TGGAGCTGGTTGAAGA
43751642 ATTTCAGATC
Statistics
Matches: 907, Mismatches: 63, Indels: 13
0.92 0.06 0.01
Matches are distributed among these distances:
85 1 0.00
86 264 0.29
87 64 0.07
88 578 0.64
ACGTcount: A:0.27, C:0.22, G:0.25, T:0.25
Consensus pattern (88 bp):
TGGAGCTGGTTGAAGACAAAAGATCTTGCCTTCCTGCATTGACAGCGAAGCAGGTCGAAGACACA
AACCTTGCCTCTCTCGGTTGTGA
Found at i:43751745 original size:44 final size:44
Alignment explanation
Indices: 43751648--43751769 Score: 113
Period size: 44 Copynumber: 2.8 Consensus size: 44
43751638 AAGAATTTCA
* * *
43751648 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGTTAGT
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGT
* * * **
43751692 AATCCTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATGAAG-
1 GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAAT-AAGT
* * *
43751736 GATCTTATCTCTCTGA-AGTTACAGCAGAGTAGAT
1 GATCTTATCTCCCTGAGA-TTACAGCGGAGCAGAT
43751770 CGCGTCAGGT
Statistics
Matches: 62, Mismatches: 14, Indels: 4
0.77 0.17 0.05
Matches are distributed among these distances:
43 1 0.02
44 59 0.95
45 2 0.03
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (44 bp):
GATCTTATCTCCCTGAGATTACAGCGGAGCAGATTAAAATAAGT
Found at i:43752032 original size:49 final size:43
Alignment explanation
Indices: 43752007--43752241 Score: 126
Period size: 41 Copynumber: 5.4 Consensus size: 43
43751997 ATCTTATCTC
* * *
43752007 TCTCTCTCTGAAGTTACAGTAGAGTAGATCGCA-TCAGGTCTTA
1 TCTCTC-CTGAGGTTACAGTAGAGTAGATCGAAGACAGGTCTTA
* *
43752050 TCTC-CCTGAGGTTACAGTAGAGTAGACCGAAGACTTTCAGATCTTA
1 TCTCTCCTGAGGTTACAGTAGAGTAGATCGAAGA----CAGGTCTTA
** * ** *
43752096 TCTC-CCTGAGGTTACAGCGGAGCAGATCGAAGACATAATCCTA
1 TCTCTCCTGAGGTTACAGTAGAGTAGATCGAAGACA-GGTCTTA
* * ** ** * *
43752139 TCTC-CCTGAAGTTACAGTGGAGCGGATTAAAATAAAGGATCTTA
1 TCTCTCCTGAGGTTACAGTAGAGTAGA-TCGAAGACAGG-TCTTA
* * * *
43752183 TCTCT-CTGAAGTTACAGTAGAGCAGGTC-ACA-CCAGGTCTTA
1 TCTCTCCTGAGGTTACAGTAGAGTAGATCGA-AGACAGGTCTTA
43752224 TCTC-CCTGAGGTTACAGT
1 TCTCTCCTGAGGTTACAGT
43752242 CGATTTTTCT
Statistics
Matches: 153, Mismatches: 28, Indels: 24
0.75 0.14 0.12
Matches are distributed among these distances:
41 44 0.29
42 7 0.05
43 34 0.22
44 31 0.20
46 37 0.24
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (43 bp):
TCTCTCCTGAGGTTACAGTAGAGTAGATCGAAGACAGGTCTTA
Found at i:43752104 original size:136 final size:130
Alignment explanation
Indices: 43751734--43752156 Score: 720
Period size: 130 Copynumber: 3.2 Consensus size: 130
43751724 ATTAAAATGA
* *
43751734 AGGATCTTATCTCTCTGAAGTTACAGCAGAGTAGATCGCGTCAGGTCTTATCTCCCTGAGGTTAC
1 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
*
43751799 AGTAGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTACGGCGGAGCAGATCGAAGAC
66 AGTAGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAC
43751864 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
1 AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
*
43751929 AGTAGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGTAGATCGAAGAC
66 AGTAGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAC
43751994 AGGATCTTATCTCTCTCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGA
1 AGGATCTTA------TCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGA
43752059 GGTTACAGTAGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATC
60 GGTTACAGTAGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATC
43752124 GAAGAC
125 GAAGAC
** * *
43752130 ATAATCCTATCTCCCTGAAGTTACAGT
1 AGGATCTTATCTCTCTGAAGTTACAGT
43752157 GGAGCGGATT
Statistics
Matches: 278, Mismatches: 9, Indels: 12
0.93 0.03 0.04
Matches are distributed among these distances:
130 152 0.55
136 126 0.45
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (130 bp):
AGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCATCAGGTCTTATCTCCCTGAGGTTAC
AGTAGAGTAGACCGAAGACTTTCAGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGAC
Found at i:43752186 original size:44 final size:44
Alignment explanation
Indices: 43751779--43752241 Score: 205
Period size: 46 Copynumber: 10.5 Consensus size: 44
43751769 TCGCGTCAGG
* * * * * **
43751779 TCTTATCTCCCTGAGGTTACAGTAGAGTAGACCGAAGACTTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAAC--AAAGA
* * * * *
43751825 TCTTATCTCCCTGAGGTTACGGCGGAGCAGATCGAAGAC-AGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
* * * * * *
43751868 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCG-CATC--AGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
* * * * * **
43751909 TCTTATCTCCCTGAGGTTACAGTAGAGTAGACCGAAGACTTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAAC--AAAGA
* * * * *
43751955 TCTTATCTCCCTGAGGTTACAGCGGAGTAGATCGAAGAC-AGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
* * * * *
43751998 TCTTATCTCTCTCTCTCTGAAGTTACAGTAGAGTAGATCG-CATC--AGG
1 TCTTA----TCTC-C-CTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
* * * * * **
43752045 TCTTATCTCCCTGAGGTTACAGTAGAGTAGACCGAAGACTTTCAGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAAC--AAAGA
* * * *
43752091 TCTTATCTCCCTGAGGTTACAGCGGAGCAGATCGAAGACATA-A
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
* * * *
43752134 TCCTATCTCCCTGAAGTTACAGTGGAGCGGAT-TAAAATAAAGGA
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAA-GA
* * * * * *
43752178 TCTTATCTCTCTGAAGTTACAGTAGAGCAGGTC--ACAC-CAGG
1 TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
*
43752219 TCTTATCTCCCTGAGGTTACAGT
1 TCTTATCTCCCTGAAGTTACAGT
43752242 CGATTTTTCT
Statistics
Matches: 329, Mismatches: 69, Indels: 43
0.75 0.16 0.10
Matches are distributed among these distances:
41 76 0.23
42 10 0.03
43 72 0.22
44 29 0.09
46 109 0.33
47 10 0.03
48 2 0.01
49 21 0.06
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTACAGTGGAGCAGATCGAAAACAAAGA
Found at i:43758881 original size:26 final size:26
Alignment explanation
Indices: 43758823--43758881 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
43758813 TCTAACAAAG
* *
43758823 ATGTTTATATTTAAAAATAAGTAATT
1 ATGTTTAAATTAAAAAATAAGTAATT
* *
43758849 TTGTTTAAATTAAAAAATAAATTAATT
1 ATGTTTAAATTAAAAAAT-AAGTAATT
43758876 AT-TTTA
1 ATGTTTA
43758882 TTAAAATTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
26 19 0.70
27 8 0.30
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (26 bp):
ATGTTTAAATTAAAAAATAAGTAATT
Found at i:43760047 original size:13 final size:13
Alignment explanation
Indices: 43760010--43760047 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
43760000 TTTTTTAATA
43760010 TTTAAAATT-AAT
1 TTTAAAATTAAAT
*
43760022 TTTAAAATAAAAT
1 TTTAAAATTAAAT
*
43760035 TTTAATATTAAAT
1 TTTAAAATTAAAT
43760048 AATTTTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
12 8 0.36
13 14 0.64
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TTTAAAATTAAAT
Found at i:43760998 original size:27 final size:28
Alignment explanation
Indices: 43760942--43760999 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
43760932 AAAAATTATT
*
43760942 TTTTACATATATTAAATTATTTATATAA
1 TTTTACATATATTAAATTATTTATAAAA
*
43760970 TTTTATCATATATTATATT-TTTA-AAAA
1 TTTTA-CATATATTAAATTATTTATAAAA
43760997 TTT
1 TTT
43761000 GTATTTTCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 6 0.22
28 9 0.33
29 12 0.44
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (28 bp):
TTTTACATATATTAAATTATTTATAAAA
Found at i:43761757 original size:6 final size:6
Alignment explanation
Indices: 43761720--43761762 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
43761710 CCAAACACAC
* *
43761720 CAGTAAA CAGTAA TCAGTAA CGGTAG CAGTAA CAGTAA CAGTA
1 CAGT-AA CAGTAA -CAGTAA CAGTAA CAGTAA CAGTAA CAGTA
43761763 TTCAACACAC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
6 21 0.68
7 10 0.32
ACGTcount: A:0.44, C:0.16, G:0.21, T:0.19
Consensus pattern (6 bp):
CAGTAA
Found at i:43761801 original size:51 final size:49
Alignment explanation
Indices: 43761731--43761878 Score: 147
Period size: 45 Copynumber: 3.2 Consensus size: 49
43761721 AGTAAACAGT
*
43761731 AATCAGTAACGGTAGCAGTAACAGTAACAGTATTCAACACACAAAGTG-CTG
1 AATC-GTAAC-GTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTC-G
*
43761782 AATC-T---GTAACAGTAACAGTAACAGTATTCGACACACAAAGTGTCG
1 AATCGTAACGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCG
* *
43761827 AATCG--A--TAACAGTAACAGTAACAG--TTCGACACACAAAGTGCCG
1 AATCGTAACGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCG
43761870 AATCAGTAA
1 AATC-GTAA
43761879 GCCGGCAAAT
Statistics
Matches: 88, Mismatches: 3, Indels: 17
0.81 0.03 0.16
Matches are distributed among these distances:
43 22 0.25
44 1 0.01
45 58 0.66
46 2 0.02
49 1 0.01
51 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (49 bp):
AATCGTAACGTAACAGTAACAGTAACAGTATTCAACACACAAAGTGTCG
Found at i:43761810 original size:45 final size:44
Alignment explanation
Indices: 43761746--43761878 Score: 191
Period size: 45 Copynumber: 3.0 Consensus size: 44
43761736 GTAACGGTAG
*
43761746 CAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC-GTAA
43761791 CAGTAACAGTAACAGTATTCGACACACAAAGTG-TCGAATCGATAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCT-GAATCG-TAA
*
43761836 CAGTAACAGTAACAG--TTCGACACACAAAGTGCCGAATCAGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATC-GTAA
43761879 GCCGGCAAAT
Statistics
Matches: 82, Mismatches: 2, Indels: 10
0.87 0.02 0.11
Matches are distributed among these distances:
43 24 0.29
44 3 0.04
45 55 0.67
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.20
Consensus pattern (44 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCGTAA
Found at i:43764684 original size:13 final size:13
Alignment explanation
Indices: 43764666--43764697 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
43764656 AATTCATCTT
43764666 CATTTCTTCTCTC
1 CATTTCTTCTCTC
43764679 CATTTCTTCTCTC
1 CATTTCTTCTCTC
43764692 CATTTC
1 CATTTC
43764698 GGTTCCTGGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.09, C:0.38, G:0.00, T:0.53
Consensus pattern (13 bp):
CATTTCTTCTCTC
Found at i:43767823 original size:210 final size:210
Alignment explanation
Indices: 43767449--43768694 Score: 1531
Period size: 210 Copynumber: 5.9 Consensus size: 210
43767439 TACGGGACAA
*
43767449 TGTTCATCTCTTGAAAAGCTTAGCATTTTCGATTGC-AAAAACTTAAGCAAGATTGGAGACGGAT
1 TGTTCATCTCTTGAAAAGCTTAGCATTTTCGATTGCGAAAAA-TTAAGAAAGATTGGAGACGGAT
*
43767513 TATCTACCTCCACTTGTCTCAAAGAATTAGCTCTAAAGAATTGTCCTAATTTAAGTTGGATTCCA
65 TATCTACCTCCACTTGTCTCAAAGAATTAGGTCTAAAGAATTGTCCTAATTTAAGTTGGATTCCA
* *
43767578 AATTTGGAAGGATTTTCCTCTCTTCAAATTCTGTCAATTGATAGCTGCAATGAATTGGAAGCTCT
130 AATTTGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAATGAATTGGAAGTTCT
43767643 TCCAATAACTGGGAGG
195 TCCAATAACTGGGAGG
* * * *
43767659 TGTTCATCTCTTGAAAAGCTTAGCATTCTCGATTGCGAGAAATTAAGAAAGATTGGGGACGGTTT
1 TGTTCATCTCTTGAAAAGCTTAGCATTTTCGATTGCGAAAAATTAAGAAAGATTGGAGACGGATT
* ** *** * **
43767724 ATCTACCTCCACTTGTCTTAAAGAATTAGAG-CTATTGTGGTGTCCTAATTTAACTTCCATTCCA
66 ATCTACCTCCACTTGTCTCAAAGAATTAG-GTCTAAAGAATTGTCCTAATTTAAGTTGGATTCCA
* * * *
43767788 AAATTGGAAGGATTTTCGTCTATTCAAAATCTGTCAATTGATAGCTGC-ATCAAATTGGAAGTTC
130 AATTTGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAAT-GAATTGGAAGTTC
* * *
43767852 TT-GAGATATC-CGGAGG
194 TTCCA-ATAACTGGGAGG
* * * * * * *** * *
43767868 ATGTTCAGCTTTTGAAAAGCTTAGCATTTCCAAGTG-TAAAACATTATCCAAGACTGGAGACAGA
1 -TGTTCATCTCTTGAAAAGCTTAGCATTTTCGATTGCGAAAA-ATTAAGAAAGATTGGAGACGGA
* * ** *
43767932 TTATTTACCTACACTTGTCTCAAAGAATTAAATCTAGAAG-ATTGTCCTAATTTAAGTTCGATTC
64 TTATCTACCTCCACTTGTCTCAAAGAATTAGGTCTA-AAGAATTGTCCTAATTTAAGTTGGATTC
* * * * * * * *
43767996 CAAATTTGAAAGGATTTTCGTGTCTCCAAAATCTGTCAATTCATACCTGCAACGGATTGGAAGTT
128 CAAATTTGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAATGAATTGGAAGTT
* * *
43768061 CTTCCGATAA-TTGGAGCA
193 CTTCCAATAACTGGGAG-G
* * * *
43768079 TGCTCATCTCTTGAAAAGCTTAACATTTTCGGTTGCGAAAAATTAAGCAAGATTGGAGACGGATT
1 TGTTCATCTCTTGAAAAGCTTAGCATTTTCGATTGCGAAAAATTAAGAAAGATTGGAGACGGATT
* ** *
43768144 GTCTACCTCCACTTGTCTCAAAGAATTAGGTCTAAAGAATTGTCCTAATTTAAGTTTAATCCCAA
66 ATCTACCTCCACTTGTCTCAAAGAATTAGGTCTAAAGAATTGTCCTAATTTAAGTTGGATTCCAA
* * * * *
43768209 ATTTGGAAGGATTTTCCTGTCTTCAAAATATCTCGATTGATAGCTGCAA-CAGATTGGAAGTTCT
131 ATTTGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAATGA-ATTGGAAGTTCT
* *
43768273 TCCAATAATTGGAAGG
195 TCCAATAACTGGGAGG
* * *
43768289 TGTTCATCTCTCGAAAAGCTTAGCATTTTCGACTGCAAAAAATTAAGCAAA-ATTGGAGACGGAT
1 TGTTCATCTCTTGAAAAGCTTAGCATTTTCGATTGCGAAAAATTAAG-AAAGATTGGAGACGGAT
* * *
43768353 TATCTAACTCTACTTGTCTCAGAGAATTAGGTCTAAAGAATTGTCCTAATTTAAGTTGGATTCCA
65 TATCTACCTCCACTTGTCTCAAAGAATTAGGTCTAAAGAATTGTCCTAATTTAAGTTGGATTCCA
* *
43768418 AATTTGGAAGGATTTTCCTCTCTTCAAATTCTGTCAATTGATAGCTGCAACGAATTGGAAGTTCT
130 AATTTGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAATGAATTGGAAGTTCT
* * *
43768483 TGCGATAACTGGAAGG
195 TCCAATAACTGGGAGG
* * * * * **
43768499 TGTTCATCTATTAAAAAGCTTAGCATTTTCAATTGTGAAAAACTAAGAAAGATTGGAGACAAATT
1 TGTTCATCTCTTGAAAAGCTTAGCATTTTCGATTGCGAAAAATTAAGAAAGATTGGAGACGGATT
* * * *
43768564 GTCTACCTTCATTTGTCTCAAGGAATTAGGTCTAAAGAATTGTCCTAATTTAAGTTGGATTCCAA
66 ATCTACCTCCACTTGTCTCAAAGAATTAGGTCTAAAGAATTGTCCTAATTTAAGTTGGATTCCAA
*
43768629 ATTTGGAAGGATTTTCCTCTCTTCAAGATCTGTCAATTGATAGCTGCAATGAATTGGAAGTTCTT
131 ATTTGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAATGAATTGGAAGTTCTT
43768694 C
196 C
43768695 TGATACAAGA
Statistics
Matches: 873, Mismatches: 144, Indels: 38
0.83 0.14 0.04
Matches are distributed among these distances:
209 17 0.02
210 839 0.96
211 17 0.02
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (210 bp):
TGTTCATCTCTTGAAAAGCTTAGCATTTTCGATTGCGAAAAATTAAGAAAGATTGGAGACGGATT
ATCTACCTCCACTTGTCTCAAAGAATTAGGTCTAAAGAATTGTCCTAATTTAAGTTGGATTCCAA
ATTTGGAAGGATTTTCCTCTCTTCAAAATCTGTCAATTGATAGCTGCAATGAATTGGAAGTTCTT
CCAATAACTGGGAGG
Found at i:43768662 original size:630 final size:630
Alignment explanation
Indices: 43767452--43768699 Score: 1727
Period size: 630 Copynumber: 2.0 Consensus size: 630
43767442 GGGACAATGT
*
43767452 TCATCTCTTGAAAAGCTTAGCATTTTCGATTGCAAAAACTTAAGCAAGATTGGAGACGGATTATC
1 TCATCTCTTGAAAAGCTTAACATTTTCGATTGCAAAAACTTAAGCAAGATTGGAGACGGATTATC
* *
43767517 TACCTCCACTTGTCTCAAAGAATTAGCTCTAAAGAATTGTCCTAATTTAAGTTGGATTCCAAATT
66 TACCTCCACTTGTCTCAAAGAATTAGCTCTAAAGAATTGTCCTAATTTAAGTTGAATCCCAAATT
* * * *
43767582 TGGAAGGATTTTCCTCTCTTCAAATTCTGTCAATTGATAGCTGCAATGAATTGGAAGCTCTTCCA
131 TGGAAGGATTTTCCTCTCTTCAAAATATCTCAATTGATAGCTGCAAAGAATTGGAAGCTCTTCCA
* * * * *
43767647 ATAACTGGGAGGTGTTCATCTCTTGAAAAGCTTAGCATTCTCGATTGCGAGAAATTAAGAAAGAT
196 ATAACTGGAAGGTGTTCATCTCTCGAAAAGCTTAGCATTCTCGACTGCAAAAAATTAAGAAAGAT
* * * * ** **
43767712 TGGGGACGGTTTATCTACCTCCACTTGTCTTAAAGAATTAGAGCTATTGTGGTGTCCTAATTTAA
261 TGGAGACGGATTATCTAACTCCACTTGTCTCAAAGAATTAGAGCTAAAGAAGTGTCCTAATTTAA
* *
43767777 CTTCCATTCCAAAATTGGAAGGATTTTCGTCTATTCAAAATCTGTCAATTGATAGCTGCATCAAA
326 CTTCCATTCCAAAATTGGAAGGATTTTCCTCTATTCAAAATCTGTCAATTGATAGCTGCAACAAA
* * *
43767842 TTGGAAGTTCTTGAGATATCCGGAGGATGTTCAGCTTTTGAAAAGCTTAGCATTTCCAAGTGTAA
391 TTGGAAGTTCTTGAGATAACCGGAGGATGTTCAGCTATTAAAAAGCTTAGCATTTCCAAGTGTAA
* * * * *
43767907 AACATTATCCAAGACTGGAGACAGATTATTTACCTACACTTGTCTCAAAGAATTAAATCTAGAAG
456 AACACTAACAAAGACTGGAGACAAATTATCTACCTACACTTGTCTCAAAGAATTAAATCTAGAAG
* *
43767972 ATTGTCCTAATTTAAGTTCGATTCCAAATTTGAAAGGATTTTCGTGTCTCCAAAATCTGTCAATT
521 ATTGTCCTAATTTAAGTTCGATTCCAAATTTGAAAGGATTTTCCTCTCTCCAAAATCTGTCAATT
*
43768037 CATACCTGCAACGGATTGGAAGTTCTTCCGATAATTGGAGCATGC
586 CATACCTGCAACGAATTGGAAGTTCTTCCGATAATTGGAGCATGC
* *
43768082 TCATCTCTTGAAAAGCTTAACATTTTCGGTTGCGAAAAA-TTAAGCAAGATTGGAGACGGATTGT
1 TCATCTCTTGAAAAGCTTAACATTTTCGATTGC-AAAAACTTAAGCAAGATTGGAGACGGATTAT
* *
43768146 CTACCTCCACTTGTCTCAAAGAATTAGGTCTAAAGAATTGTCCTAATTTAAGTTTAATCCCAAAT
65 CTACCTCCACTTGTCTCAAAGAATTAGCTCTAAAGAATTGTCCTAATTTAAGTTGAATCCCAAAT
* * *
43768211 TTGGAAGGATTTTCCTGTCTTCAAAATATCTCGATTGATAGCTGCAACAG-ATTGGAAGTTCTTC
130 TTGGAAGGATTTTCCTCTCTTCAAAATATCTCAATTGATAGCTGCAA-AGAATTGGAAGCTCTTC
* *
43768275 CAATAATTGGAAGGTGTTCATCTCTCGAAAAGCTTAGCATTTTCGACTGCAAAAAATTAAGCAAA
194 CAATAACTGGAAGGTGTTCATCTCTCGAAAAGCTTAGCATTCTCGACTGCAAAAAATTAAG-AAA
* * *
43768340 -ATTGGAGACGGATTATCTAACTCTACTTGTCTCAGAGAATTAG-GTCTAAAGAATTGTCCTAAT
258 GATTGGAGACGGATTATCTAACTCCACTTGTCTCAAAGAATTAGAG-CTAAAGAAGTGTCCTAAT
* ** * * *
43768403 TTAAGTTGGATTCCAAATTTGGAAGGATTTTCCTCTCTTCAAATTCTGTCAATTGATAGCTGCAA
322 TTAACTTCCATTCCAAAATTGGAAGGATTTTCCTCTATTCAAAATCTGTCAATTGATAGCTGCAA
* * * * * *
43768468 CGAATTGGAAGTTCTTGCGATAACTGGAAGG-TGTTCATCTATTAAAAAGCTTAGCATTTTCAAT
387 CAAATTGGAAGTTCTTGAGATAACCGG-AGGATGTTCAGCTATTAAAAAGCTTAGCATTTCCAAG
* * * * * * **
43768532 TGTGAAAA-ACTAAGAAAGATTGGAGACAAATTGTCTACCTTCATTTGTCTCAAGGAATTAGGTC
451 TGT-AAAACACTAACAAAGACTGGAGACAAATTATCTACCTACACTTGTCTCAAAGAATTAAATC
* * * *
43768596 TA-AAGAATTGTCCTAATTTAAGTTGGATTCCAAATTTGGAAGGATTTTCCTCTCTTCAAGATCT
515 TAGAAG-ATTGTCCTAATTTAAGTTCGATTCCAAATTTGAAAGGATTTTCCTCTCTCCAAAATCT
* * * *
43768660 GTCAATTGATAGCTGCAATGAATTGGAAGTTCTTCTGATA
579 GTCAATTCATACCTGCAACGAATTGGAAGTTCTTCCGATA
43768700 CAAGAGTTTC
Statistics
Matches: 538, Mismatches: 73, Indels: 14
0.86 0.12 0.02
Matches are distributed among these distances:
629 4 0.01
630 518 0.96
631 16 0.03
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.33
Consensus pattern (630 bp):
TCATCTCTTGAAAAGCTTAACATTTTCGATTGCAAAAACTTAAGCAAGATTGGAGACGGATTATC
TACCTCCACTTGTCTCAAAGAATTAGCTCTAAAGAATTGTCCTAATTTAAGTTGAATCCCAAATT
TGGAAGGATTTTCCTCTCTTCAAAATATCTCAATTGATAGCTGCAAAGAATTGGAAGCTCTTCCA
ATAACTGGAAGGTGTTCATCTCTCGAAAAGCTTAGCATTCTCGACTGCAAAAAATTAAGAAAGAT
TGGAGACGGATTATCTAACTCCACTTGTCTCAAAGAATTAGAGCTAAAGAAGTGTCCTAATTTAA
CTTCCATTCCAAAATTGGAAGGATTTTCCTCTATTCAAAATCTGTCAATTGATAGCTGCAACAAA
TTGGAAGTTCTTGAGATAACCGGAGGATGTTCAGCTATTAAAAAGCTTAGCATTTCCAAGTGTAA
AACACTAACAAAGACTGGAGACAAATTATCTACCTACACTTGTCTCAAAGAATTAAATCTAGAAG
ATTGTCCTAATTTAAGTTCGATTCCAAATTTGAAAGGATTTTCCTCTCTCCAAAATCTGTCAATT
CATACCTGCAACGAATTGGAAGTTCTTCCGATAATTGGAGCATGC
Found at i:43768972 original size:144 final size:144
Alignment explanation
Indices: 43768703--43769196 Score: 634
Period size: 144 Copynumber: 3.4 Consensus size: 144
43768693 TCTGATACAA
* * * *
43768703 GAGTTTCAAGGAATAGAAGCCTTTCCGGAGTGGTTGGGAAATCTCTCTTCTCTATGGCGTCTA-A
1 GAGTTTCAAGAAATAGAAGCCTTGCCAGAGTGGTTGGGAAATCTCTCTTCTCTAAGGCGTCTATA
* *
43768767 GTTTGATTGGTTTTGGAAAGCTAAAGAGTTTTCCTCACCAACTTCAACACCTCACTGCCCTTGAA
66 -TTTGAGTGGTTTTGGAAAGCTAAAGAGTTTTCCTCACCAACTTCAACTCCTCACTGCCCTTGAA
43768832 GATTTGACTATGTCG
130 GATTTGACTATGTCG
* * *
43768847 GGGTTTCATGAAATAGAAGCCTTGCCAGAGTGGTTGGGAAATCTCTCTTCTCTAAAGCGTCTATA
1 GAGTTTCAAGAAATAGAAGCCTTGCCAGAGTGGTTGGGAAATCTCTCTTCTCTAAGGCGTCTATA
* * * ** * * *
43768912 TTTGAGTGGTTTTCGAAAGTTAAAGAGTTTTCCTCACCAACTTCAGCTCCTTTCTACCCTTAAAT
66 TTTGAGTGGTTTTGGAAAGCTAAAGAGTTTTCCTCACCAACTTCAACTCCTCACTGCCCTTGAAG
**
43768977 ATTTGACTATAG-AA
131 ATTTGACTAT-GTCG
* * * * * **
43768991 GAGTTTCAAGGAATAGAAGCCTTTCCGGAGTGGTTGGGAAAGCTCTCTTCGCTAAGGTATCTATA
1 GAGTTTCAAGAAATAGAAGCCTTGCCAGAGTGGTTGGGAAATCTCTCTTCTCTAAGGCGTCTATA
** * * *
43769056 TTTGAGTGGTTTTGGAAAGCTAAAGAGCCTTCCTCACCAACTTCATCTCCCCAGTGCCCTTGAAG
66 TTTGAGTGGTTTTGGAAAGCTAAAGAGTTTTCCTCACCAACTTCAACTCCTCACTGCCCTTGAAG
43769121 ATTTGACTATGTC-
131 ATTTGACTATGTCG
* * *
43769134 GATGTTTCATGAAATAGAAGCCTTGCCAGAGTTGTTGGGAAATCTCTCTTCCCTAAGGCGTCT
1 GA-GTTTCAAGAAATAGAAGCCTTGCCAGAGTGGTTGGGAAATCTCTCTTCTCTAAGGCGTCT
43769197 GCATATCAAT
Statistics
Matches: 295, Mismatches: 51, Indels: 8
0.83 0.14 0.02
Matches are distributed among these distances:
143 3 0.01
144 290 0.98
145 2 0.01
ACGTcount: A:0.25, C:0.21, G:0.22, T:0.33
Consensus pattern (144 bp):
GAGTTTCAAGAAATAGAAGCCTTGCCAGAGTGGTTGGGAAATCTCTCTTCTCTAAGGCGTCTATA
TTTGAGTGGTTTTGGAAAGCTAAAGAGTTTTCCTCACCAACTTCAACTCCTCACTGCCCTTGAAG
ATTTGACTATGTCG
Found at i:43778942 original size:25 final size:28
Alignment explanation
Indices: 43778908--43778983 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 28
43778898 ATATTTATGG
43778908 AAAGTCAAAGATATGGGTATC-AA-AT-
1 AAAGTCAAAGATATGGGTATCAAATATA
43778933 AAAGTCAAAGATATGGGTATCAAATATCGA
1 AAAGTCAAAGATATGGGTATCAAATAT--A
43778963 AAAGTCAAAGATATGGGTATC
1 AAAGTCAAAGATATGGGTATC
43778984 GAGATATTAG
Statistics
Matches: 46, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
25 21 0.46
26 2 0.04
27 2 0.04
30 21 0.46
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.24
Consensus pattern (28 bp):
AAAGTCAAAGATATGGGTATCAAATATA
Found at i:43783638 original size:25 final size:25
Alignment explanation
Indices: 43783604--43783679 Score: 134
Period size: 25 Copynumber: 3.0 Consensus size: 25
43783594 ATATTTATGG
43783604 AAAGTCAAAGATATGGGTATCAAAT
1 AAAGTCAAAGATATGGGTATCAAAT
43783629 AAAGTCAAAGATATGGGTATCAAAT
1 AAAGTCAAAGATATGGGTATCAAAT
* *
43783654 AAAGTCAAAAATATGGGTATTAAAT
1 AAAGTCAAAGATATGGGTATCAAAT
43783679 A
1 A
43783680 TTAGAAAGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 49 1.00
ACGTcount: A:0.50, C:0.07, G:0.18, T:0.25
Consensus pattern (25 bp):
AAAGTCAAAGATATGGGTATCAAAT
Found at i:43786626 original size:15 final size:16
Alignment explanation
Indices: 43786590--43786627 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
43786580 TTATAGTTTG
*
43786590 AATTTGTTCTAGCTAGT
1 AATTTGTTCTA-CTAAT
43786607 AATTTGTTCTA-TAAT
1 AATTTGTTCTACTAAT
43786622 AATTTG
1 AATTTG
43786628 GTGATACATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 9 0.45
17 11 0.55
ACGTcount: A:0.29, C:0.08, G:0.13, T:0.50
Consensus pattern (16 bp):
AATTTGTTCTACTAAT
Found at i:43787387 original size:31 final size:31
Alignment explanation
Indices: 43787346--43787404 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
43787336 ACCTACTGAC
43787346 TAAATAAAAACTTTCGAATAGTTTAGTGATT
1 TAAATAAAAACTTTCGAATAGTTTAGTGATT
* *
43787377 TAAATGAAAACTTTTGAATAGTTTAGTG
1 TAAATAAAAACTTTCGAATAGTTTAGTG
43787405 GTCATTTTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.39
Consensus pattern (31 bp):
TAAATAAAAACTTTCGAATAGTTTAGTGATT
Found at i:43787967 original size:12 final size:12
Alignment explanation
Indices: 43787950--43787978 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
43787940 AATAAAAAAA
43787950 TTAAAAAATATT
1 TTAAAAAATATT
43787962 TT-AAAAATATT
1 TTAAAAAATATT
43787973 TTAAAA
1 TTAAAA
43787979 TTAAAAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTAAAAAATATT
Found at i:43787979 original size:10 final size:11
Alignment explanation
Indices: 43787953--43787978 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
43787943 AAAAAAATTA
43787953 AAAAATATTTT
1 AAAAATATTTT
43787964 AAAAATATTTT
1 AAAAATATTTT
43787975 AAAA
1 AAAA
43787979 TTAAAAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:43788963 original size:21 final size:19
Alignment explanation
Indices: 43788933--43788992 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 19
43788923 TTTTCTAATG
43788933 TTTA-TATTATAATATTATT
1 TTTATTATTATAA-ATTATT
43788952 ATTTATTATTATAAATTTAATT
1 -TTTATTATTATAAA-TT-ATT
43788974 TTTATGTATTATAAATTAT
1 TTTAT-TATTATAAATTAT
43788993 ATAATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
20 7 0.19
21 17 0.47
22 12 0.33
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (19 bp):
TTTATTATTATAAATTATT
Found at i:43788986 original size:22 final size:21
Alignment explanation
Indices: 43788933--43788990 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
43788923 TTTTCTAATG
43788933 TTTA-TATTAT-AATATTATTA
1 TTTATTATTATAAAT-TTATTA
43788953 TTTATTATTATAAATTTAATT-
1 TTTATTATTATAAATTT-ATTA
43788974 TTTATGTATTATAAATT
1 TTTAT-TATTATAAATT
43788991 ATATAATATA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.12
21 13 0.38
22 17 0.50
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTATTATTATAAATTTATTA
Found at i:43788997 original size:25 final size:24
Alignment explanation
Indices: 43788933--43788997 Score: 63
Period size: 22 Copynumber: 2.9 Consensus size: 24
43788923 TTTTCTAATG
43788933 TTTA-TATTAT-AATAT-T-ATTA
1 TTTATTATTATAAATATATAATTA
43788953 TTTATTATTATAAAT-T-TAATT-
1 TTTATTATTATAAATATATAATTA
43788974 TTTATGTATTATAAATTATATAAT
1 TTTAT-TATTATAAA-TATATAAT
43788998 ATATAAAAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
20 4 0.11
21 13 0.34
22 15 0.39
23 1 0.03
24 1 0.03
25 4 0.11
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (24 bp):
TTTATTATTATAAATATATAATTA
Found at i:43789145 original size:23 final size:24
Alignment explanation
Indices: 43789093--43789145 Score: 58
Period size: 23 Copynumber: 2.3 Consensus size: 24
43789083 CGATTTATAT
43789093 TTTAAATAAGATTAATTAATTTTA
1 TTTAAATAAGATTAATTAATTTTA
* *
43789117 -TAAAATAA-ATCTAATT-TTTTTA
1 TTTAAATAAGAT-TAATTAATTTTA
43789139 TTTAAAT
1 TTTAAAT
43789146 CTTCACAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
22 7 0.29
23 17 0.71
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TTTAAATAAGATTAATTAATTTTA
Found at i:43789643 original size:27 final size:27
Alignment explanation
Indices: 43789613--43789666 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
43789603 CCTATCAGGT
43789613 AGGCGCCAATGAAGGTGCCTCATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
*
43789640 AGGCGCCAATGAAGGTGCCTTATAGAG
1 AGGCGCCAATGAAGGTGCCTCATAGAG
43789667 NNNNNNNNNN
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.30, C:0.20, G:0.33, T:0.17
Consensus pattern (27 bp):
AGGCGCCAATGAAGGTGCCTCATAGAG
Found at i:43790839 original size:27 final size:28
Alignment explanation
Indices: 43790809--43790885 Score: 115
Period size: 27 Copynumber: 2.9 Consensus size: 28
43790799 CTGGCCCGGC
*
43790809 CCATTGGCGCCTCTCAGAAT-GGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
*
43790836 CCATTGGCGCCTCCCA-AGTAGGCACCA
1 CCATTGGCGCCTCCCAGAATAGGCACCA
43790863 CCATTGGCGCCTCCCAG-ATAGGC
1 CCATTGGCGCCTCCCAGAATAGGC
43790886 GCCAATACTA
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 2 0.04
27 43 0.96
ACGTcount: A:0.21, C:0.39, G:0.23, T:0.17
Consensus pattern (28 bp):
CCATTGGCGCCTCCCAGAATAGGCACCA
Found at i:43790961 original size:17 final size:18
Alignment explanation
Indices: 43790931--43790965 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
43790921 CCGAAAAAGT
*
43790931 AAAAAAATTATTTTATTA
1 AAAAAAAATATTTTATTA
43790949 AAAAAAAAT-TTTTATTA
1 AAAAAAAATATTTTATTA
43790966 TTATTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAAAAAATATTTTATTA
Found at i:43791987 original size:31 final size:31
Alignment explanation
Indices: 43791947--43792012 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
43791937 CTTAACAACC
* *
43791947 TAGTGACTTAAATAAAAACTTTCGCATAGTT
1 TAGTAACTTAAATAAAAACTTTCGAATAGTT
* *
43791978 TAGTAACTTAAATGAAAACTTTTGAATAGTT
1 TAGTAACTTAAATAAAAACTTTCGAATAGTT
43792009 TAGT
1 TAGT
43792013 GATCATTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.38
Consensus pattern (31 bp):
TAGTAACTTAAATAAAAACTTTCGAATAGTT
Found at i:43794383 original size:46 final size:46
Alignment explanation
Indices: 43794309--43794493 Score: 246
Period size: 46 Copynumber: 4.0 Consensus size: 46
43794299 CATGGTAAAG
**
43794309 TGTGGAACGTAGGTATGGCATTTCAGTAAAGAAAACCATACTGAGT
1 TGTGGAACGTAGGTATGATATTTCAGTAAAGAAAACCATACTGAGT
** * *
43794355 TGTGGAACGTAAATATGATATTAT-AGTAAAGAAAACCATATTGAAT
1 TGTGGAACGTAGGTATGATATT-TCAGTAAAGAAAACCATACTGAGT
*
43794401 TGTGGAACGTAGGTATGATATTTCAGTAAAGAAAACCATACTAAGT
1 TGTGGAACGTAGGTATGATATTTCAGTAAAGAAAACCATACTGAGT
* * * * *
43794447 TGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAATCATACTGAGT
1 TGTGGAACGTAGGTATGATATTTCAGTAAAGAAAACCATACTGAGT
43794493 T
1 T
43794494 ATAGCATTGT
Statistics
Matches: 120, Mismatches: 17, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
45 1 0.01
46 118 0.98
47 1 0.01
ACGTcount: A:0.39, C:0.09, G:0.23, T:0.29
Consensus pattern (46 bp):
TGTGGAACGTAGGTATGATATTTCAGTAAAGAAAACCATACTGAGT
Found at i:43795242 original size:21 final size:19
Alignment explanation
Indices: 43795191--43795243 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 19
43795181 ATTAACATTT
*
43795191 TTTAATGTTTATATTATAA
1 TTTAATTTTTATATTATAA
43795210 TATT-ATTATTTACTATTATAGA
1 T-TTAATT-TTTA-TATTATA-A
43795232 TTTAATTTTTAT
1 TTTAATTTTTAT
43795244 GTATTATAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 9
0.74 0.03 0.24
Matches are distributed among these distances:
19 3 0.11
20 7 0.25
21 13 0.46
22 5 0.18
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTAATTTTTATATTATAA
Found at i:43796211 original size:23 final size:24
Alignment explanation
Indices: 43796185--43796235 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
43796175 TTTTAAGATT
43796185 AATTTTCAAAAAAC-AAATCAATA
1 AATTTTCAAAAAACTAAATCAATA
* * *
43796208 AA-TTTGAAAAACCTAATTCAATA
1 AATTTTCAAAAAACTAAATCAATA
43796231 AATTT
1 AATTT
43796236 AATATCAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
22 9 0.39
23 12 0.52
24 2 0.09
ACGTcount: A:0.55, C:0.12, G:0.02, T:0.31
Consensus pattern (24 bp):
AATTTTCAAAAAACTAAATCAATA
Found at i:43796218 original size:22 final size:23
Alignment explanation
Indices: 43796192--43796235 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
43796182 ATTAATTTTC
43796192 AAAAAAC-AAATCAATAAATTTG
1 AAAAAACTAAATCAATAAATTTG
* *
43796214 AAAAACCTAATTCAATAAATTT
1 AAAAAACTAAATCAATAAATTT
43796236 AATATCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.59, C:0.11, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAAAACTAAATCAATAAATTTG
Found at i:43796450 original size:13 final size:13
Alignment explanation
Indices: 43796432--43796456 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43796422 ATATTCATCC
43796432 AATCATATGTTAT
1 AATCATATGTTAT
43796445 AATCATATGTTA
1 AATCATATGTTA
43796457 CTACATGTCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (13 bp):
AATCATATGTTAT
Found at i:43796568 original size:9 final size:9
Alignment explanation
Indices: 43796518--43796568 Score: 50
Period size: 9 Copynumber: 5.6 Consensus size: 9
43796508 AATTACAAAA
43796518 AAAAAGTTAT
1 AAAAA-TTAT
*
43796528 TAAAATTATT
1 AAAAATTA-T
* *
43796538 TAAAA-TAG
1 AAAAATTAT
43796546 AAAAATTAT
1 AAAAATTAT
43796555 AAAAATTAT
1 AAAAATTAT
43796564 AAAAA
1 AAAAA
43796569 CTAACATAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
8 4 0.11
9 21 0.60
10 10 0.29
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (9 bp):
AAAAATTAT
Found at i:43797625 original size:57 final size:56
Alignment explanation
Indices: 43797508--43797623 Score: 189
Period size: 55 Copynumber: 2.1 Consensus size: 56
43797498 ATATTTTATT
*
43797508 AAAAGAAAAAAATTTAATATAAAAAATTCATTGGCGCCTGTCAGAGAGGCGCCATTA
1 AAAAGAAAAAAA-TTAATATAAAAAATTCATTAGCGCCTGTCAGAGAGGCGCCATTA
* *
43797565 AAAAGAAAAAAA-TAATATAAAAAATTCATTAGCGCCTGTCAGATAGGCGGCATTA
1 AAAAGAAAAAAATTAATATAAAAAATTCATTAGCGCCTGTCAGAGAGGCGCCATTA
43797620 AAAA
1 AAAA
43797624 AACATACCAT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
55 44 0.79
57 12 0.21
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.22
Consensus pattern (56 bp):
AAAAGAAAAAAATTAATATAAAAAATTCATTAGCGCCTGTCAGAGAGGCGCCATTA
Found at i:43798925 original size:31 final size:31
Alignment explanation
Indices: 43798890--43798954 Score: 112
Period size: 31 Copynumber: 2.1 Consensus size: 31
43798880 AACAATCTAA
43798890 TAACTTAAATAAAAACTTTCGAATAGTTTAG
1 TAACTTAAATAAAAACTTTCGAATAGTTTAG
* *
43798921 TAACTTAAATGAAAACTTTTGAATAGTTTAG
1 TAACTTAAATAAAAACTTTCGAATAGTTTAG
43798952 TAA
1 TAA
43798955 TCATTTTGTA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.08, G:0.11, T:0.37
Consensus pattern (31 bp):
TAACTTAAATAAAAACTTTCGAATAGTTTAG
Found at i:43804600 original size:210 final size:210
Alignment explanation
Indices: 43803992--43804580 Score: 1049
Period size: 210 Copynumber: 2.8 Consensus size: 210
43803982 TAACGGGACA
43803992 ATGTTCATCTCTTGAAAAGCTTCACATTGTCGGTTGTGGAAAATTAAGCAAGATTGGAGATGGAT
1 ATGTTCATCTCTTGAAAAGCTTCACATTGTCGGTTGTGGAAAATTAAGCAAGATTGGAGATGGAT
43804057 TATCTACCTCCACTTGTCTCAAAGAATTAGATCTAGACGATTGTCCTGATTTAAGTTCGATCCCA
66 TATCTACCTCCACTTGTCTCAAAGAATTAGATCTAGACGATTGTCCTGATTTAAGTTCGATCCCA
43804122 AATTTGGAAGGATTTTCCTCTCTTCAATATCTGTCAGTTCAAA-GGTGCAACAAATTGGAAGTTC
131 AATTTGGAAGGATTTTCCTCTCTTCAATATCTGTCAGTT-AAATGGTGCAACAAATTGGAAGTTC
43804186 TTCCAATAACTGGAGG
195 TTCCAATAACTGGAGG
*
43804202 ATGTTCATCTCTTGAAAAGCTTCACATTGGCGGTTGTGGAAAATTAAGCAAGATTGGAGATGGAT
1 ATGTTCATCTCTTGAAAAGCTTCACATTGTCGGTTGTGGAAAATTAAGCAAGATTGGAGATGGAT
43804267 TATCTACCTCCACTTGTCTCAAAGAATTAGATCTAGACGATTGTCCTGATTTAAGTTCGATCCCA
66 TATCTACCTCCACTTGTCTCAAAGAATTAGATCTAGACGATTGTCCTGATTTAAGTTCGATCCCA
43804332 AATTTGGAAGGATTTTCCTCTCTTCAATATCTGTCAGTTAAATGGTGCAACAAATTGGAAGTTCT
131 AATTTGGAAGGATTTTCCTCTCTTCAATATCTGTCAGTTAAATGGTGCAACAAATTGGAAGTTCT
43804397 TCCAATAACTGGAGG
196 TCCAATAACTGGAGG
* ** *
43804412 GTGTTCATCTCTTGAAAAGCTTTGCATTGTCGGTTGTGAAAAATTAAGCAAGATTGGAGATGGAT
1 ATGTTCATCTCTTGAAAAGCTTCACATTGTCGGTTGTGGAAAATTAAGCAAGATTGGAGATGGAT
*
43804477 TATCTACCTCCACTTGTCTCAAAGAATTACG-TCTATACTG-TTGTCCTGATTTAAGTTCGATCC
66 TATCTACCTCCACTTGTCTCAAAGAATTA-GATCTAGAC-GATTGTCCTGATTTAAGTTCGATCC
* * *
43804540 CAAATTTGGAAGGATTTTCATCTCTTCAAAATCTATCAGTT
129 CAAATTTGGAAGGATTTTCCTCTCTTCAATATCTGTCAGTT
43804581 GATGGCTGTG
Statistics
Matches: 366, Mismatches: 10, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
209 3 0.01
210 361 0.99
211 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (210 bp):
ATGTTCATCTCTTGAAAAGCTTCACATTGTCGGTTGTGGAAAATTAAGCAAGATTGGAGATGGAT
TATCTACCTCCACTTGTCTCAAAGAATTAGATCTAGACGATTGTCCTGATTTAAGTTCGATCCCA
AATTTGGAAGGATTTTCCTCTCTTCAATATCTGTCAGTTAAATGGTGCAACAAATTGGAAGTTCT
TCCAATAACTGGAGG
Found at i:43805214 original size:142 final size:143
Alignment explanation
Indices: 43804967--43805288 Score: 458
Period size: 142 Copynumber: 2.3 Consensus size: 143
43804957 CTGGTTGGGA
** * * *
43804967 AAAGCTAAAGAGTCTTCCTCACCAACTTCAGT-TCTTCACTGCCCTCGAAGAATTGAGGATGGAA
1 AAAGCTAAAGAGTCTTCCTCACCAACTTCA-TCTCCCCAATGCCCTCGAAGAATTGAGCATGCAA
* * *
43805031 GGGTTTGAAGGAGTAGAAGCCTTTCCAGAGTGGTTGGGAAA-TCTCTTCTCTAAAGCGTCTATAT
65 GGGTTTCAAGGAATAGAAGCCTTTCCAGAGCGGTTGGGAAACTCTCTTCTCTAAAGCGTCTATAT
43805095 TTG-AGTGGTTTTGG
130 TTGTA-TGGTTTTGG
* * * *
43805109 AAAGCTAAAGAGTCTTCCTCACCAACTTCATCTCCCCAATGCCCTTGAAGATTTGA-CATTCATG
1 AAAGCTAAAGAGTCTTCCTCACCAACTTCATCTCCCCAATGCCCTCGAAGAATTGAGCATGCA-A
43805173 GGGTTTCAAGGAATAGAAGCCTTTCCAGAGCGGTTGGGAAATCTCTCTTCTCTAAAGCGTCTATA
65 GGGTTTCAAGGAATAGAAGCCTTTCCAGAGCGGTTGGGAAA-CTCTCTTCTCTAAAGCGTCTATA
43805238 TTTGTATGGTTTTGG
129 TTTGTATGGTTTTGG
43805253 AAAGCT-AA-AGTCTTCCTCACCAACTTCATCTCCCCA
1 AAAGCTAAAGAGTCTTCCTCACCAACTTCATCTCCCCA
43805289 CTACCATTAA
Statistics
Matches: 163, Mismatches: 12, Indels: 10
0.88 0.06 0.05
Matches are distributed among these distances:
141 4 0.02
142 115 0.71
143 2 0.01
144 41 0.25
145 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.30
Consensus pattern (143 bp):
AAAGCTAAAGAGTCTTCCTCACCAACTTCATCTCCCCAATGCCCTCGAAGAATTGAGCATGCAAG
GGTTTCAAGGAATAGAAGCCTTTCCAGAGCGGTTGGGAAACTCTCTTCTCTAAAGCGTCTATATT
TGTATGGTTTTGG
Found at i:43805305 original size:142 final size:144
Alignment explanation
Indices: 43805031--43805368 Score: 438
Period size: 142 Copynumber: 2.4 Consensus size: 144
43805021 GAGGATGGAA
* * *
43805031 GGGTTTGAAGGAGTAGAAGCCTTTCCAGAGTGGTTGGGAAA--TCTCTTCTCTAAAGCGTCTATA
1 GGGTTTCAAGGAATAGAAGCCTTTCCAGAGCGGTTGGGAAATCTCTCTTCTCTAAAGCGTCTATA
* * *
43805094 TTTGAGTGGTTTTGGAAAGCTAAAGAGTCTTCCTCACCAACTTCATCTCCCCAATGCCCTTGAAG
66 TTTGAGTGGTTTTGGAAAGCTAAAGAGTCTTCCTCACCAACTTCATCTCCCCAATACCATTAAAG
**
43805159 ATTTGAC-ATTCATG
131 ATTTGACTATT-AAC
43805173 GGGTTTCAAGGAATAGAAGCCTTTCCAGAGCGGTTGGGAAATCTCTCTTCTCTAAAGCGTCTATA
1 GGGTTTCAAGGAATAGAAGCCTTTCCAGAGCGGTTGGGAAATCTCTCTTCTCTAAAGCGTCTATA
*
43805238 TTTGTA-TGGTTTTGGAAAGCT-AA-AGTCTTCCTCACCAACTTCATCTCCCCACTACCATTAAA
66 TTTG-AGTGGTTTTGGAAAGCTAAAGAGTCTTCCTCACCAACTTCATCTCCCCAATACCATTAAA
*
43805300 TATTTGACTATTAAC
130 GATTTGACTATTAAC
* * * * * * **
43805315 AGTTTTCATGAAATAGAAGCCTTGCCAGA-CTCGTTTAGAAATCTCTCTTCTCTA
1 GGGTTTCAAGGAATAGAAGCCTTTCCAGAGC-GGTTGGGAAATCTCTCTTCTCTA
43805369 GAGTGGCTGA
Statistics
Matches: 173, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
141 1 0.01
142 125 0.72
143 5 0.03
144 41 0.24
145 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (144 bp):
GGGTTTCAAGGAATAGAAGCCTTTCCAGAGCGGTTGGGAAATCTCTCTTCTCTAAAGCGTCTATA
TTTGAGTGGTTTTGGAAAGCTAAAGAGTCTTCCTCACCAACTTCATCTCCCCAATACCATTAAAG
ATTTGACTATTAAC
Found at i:43808936 original size:29 final size:27
Alignment explanation
Indices: 43808885--43808939 Score: 83
Period size: 29 Copynumber: 2.0 Consensus size: 27
43808875 TATTTTTATA
43808885 TTTTATATTTTTTTGTAAATTTTAAAG
1 TTTTATATTTTTTTGTAAATTTTAAAG
*
43808912 TTTTAATATTTTTTTTGTAAGTTTTAAA
1 TTTT-ATA-TTTTTTTGTAAATTTTAAA
43808940 AAAATTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 4 0.16
28 3 0.12
29 18 0.72
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (27 bp):
TTTTATATTTTTTTGTAAATTTTAAAG
Found at i:43822592 original size:29 final size:30
Alignment explanation
Indices: 43822524--43822592 Score: 68
Period size: 29 Copynumber: 2.3 Consensus size: 30
43822514 ATAAATTTTG
* * *
43822524 TAAACATTGATAATTAAATTAATTAAAATTTT
1 TAAA-ATT-ATAACTAAATTAATTAAAATATA
*
43822556 TAAAATTATAACTAAATTGA-TAAAATATA
1 TAAAATTATAACTAAATTAATTAAAATATA
*
43822585 TAATATTA
1 TAAAATTA
43822593 AAAAAATATT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 14 0.44
30 11 0.34
31 3 0.09
32 4 0.12
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (30 bp):
TAAAATTATAACTAAATTAATTAAAATATA
Found at i:43827073 original size:6 final size:6
Alignment explanation
Indices: 43827062--43827089 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
43827052 ACAATTTTAC
43827062 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
43827090 GCCCGTTGCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:43833182 original size:65 final size:65
Alignment explanation
Indices: 43833103--43833236 Score: 259
Period size: 65 Copynumber: 2.1 Consensus size: 65
43833093 AAATTGTTAG
*
43833103 TGAACTATTTGAATATGAAGTTTTGGCATAGTATGTGATTTCCATATTCATGAATGAAATGAGAT
1 TGAACTATTTGAATATAAAGTTTTGGCATAGTATGTGATTTCCATATTCATGAATGAAATGAGAT
43833168 TGAACTATTTGAATATAAAGTTTTGGCATAGTATGTGATTTCCATATTCATGAATGAAATGAGAT
1 TGAACTATTTGAATATAAAGTTTTGGCATAGTATGTGATTTCCATATTCATGAATGAAATGAGAT
43833233 TGAA
1 TGAA
43833237 TAGGTTACTT
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 68 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.38
Consensus pattern (65 bp):
TGAACTATTTGAATATAAAGTTTTGGCATAGTATGTGATTTCCATATTCATGAATGAAATGAGAT
Found at i:43835960 original size:2 final size:2
Alignment explanation
Indices: 43835953--43835999 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
43835943 GACAATAAGC
43835953 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43835995 TA TA T
1 TA TA T
43836000 GACACTTGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:43836669 original size:109 final size:111
Alignment explanation
Indices: 43836504--43836772 Score: 402
Period size: 113 Copynumber: 2.4 Consensus size: 111
43836494 TCGGTCAATC
* * * * *
43836504 GAGAAATCGAAACCCAGCACATTAGGGC-CGTTCT-TCGAATTTCCAAACGCAAAACATTGCCTT
1 GAGAAATCGACACTCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTT
* *
43836567 A-TTTTGAAA-TTTTTAAAAGGATATTAAGCCATTTGGTTGAACGA
66 ATTTTTAAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACAA
43836611 GAGAAATCGACACTCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTT
1 GAGAAATCGACACTCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTT
*
43836676 ATTTTTAAAATTTTTTTTAAAAGGATATTAAGCTATTTGGTTGAACAA
66 ATTTTTAAAA--TTTTTTAAAAGGATATTAAGCCATTTGGTTGAACAA
* *
43836724 GAAAAAACGACACTCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAA
1 GAGAAATCGACACTCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAA
43836773 TACTAAATAT
Statistics
Matches: 146, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
107 25 0.17
108 4 0.03
109 30 0.21
110 7 0.05
113 80 0.55
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.30
Consensus pattern (111 bp):
GAGAAATCGACACTCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAACATTGCCTT
ATTTTTAAAATTTTTTAAAAGGATATTAAGCCATTTGGTTGAACAA
Found at i:43836920 original size:4 final size:4
Alignment explanation
Indices: 43836911--43836945 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
43836901 ATACCATAAC
43836911 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
43836946 ACATAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:43836977 original size:12 final size:12
Alignment explanation
Indices: 43836913--43836979 Score: 59
Period size: 12 Copynumber: 5.5 Consensus size: 12
43836903 ACCATAACAA
*
43836913 ATAAATAAATAA
1 ATAAATAAATAC
*
43836925 ATAAATAAATAA
1 ATAAATAAATAC
43836937 ATAAATAAA-AC
1 ATAAATAAATAC
43836948 AT-AA-AAATGGAC
1 ATAAATAAAT--AC
43836960 ATATAAATAAATAC
1 --ATAAATAAATAC
43836974 ATAAAT
1 ATAAAT
43836980 GAACATAAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 14
0.76 0.02 0.23
Matches are distributed among these distances:
9 3 0.06
10 2 0.04
11 3 0.06
12 29 0.62
14 4 0.09
15 2 0.04
16 4 0.09
ACGTcount: A:0.69, C:0.04, G:0.03, T:0.24
Consensus pattern (12 bp):
ATAAATAAATAC
Found at i:43837505 original size:3 final size:3
Alignment explanation
Indices: 43837482--43837586 Score: 183
Period size: 3 Copynumber: 35.0 Consensus size: 3
43837472 AATATAATGG
* * *
43837482 TAA TAA CAA TAA CAT TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43837530 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
43837578 TAA TAA TAA
1 TAA TAA TAA
43837587 AAGACGCTAC
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 96 1.00
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:43841811 original size:27 final size:26
Alignment explanation
Indices: 43841777--43841829 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
43841767 TAAAATTTAA
* *
43841777 AATTTAATTTTTTAAGGAATTCAAAT
1 AATTTAATTTTATAAAGAATTCAAAT
43841803 AATTATAATTTTATAAAGAATTCAAAT
1 AATT-TAATTTTATAAAGAATTCAAAT
43841830 TTAAAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (26 bp):
AATTTAATTTTATAAAGAATTCAAAT
Found at i:43842346 original size:23 final size:24
Alignment explanation
Indices: 43842305--43842349 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
43842295 CTTTAAATGA
43842305 ATTTTAATGTTTTTAAATTTTACC
1 ATTTTAATGTTTTTAAATTTTACC
* *
43842329 ATTTT-ATTTTTTTTAATTTTA
1 ATTTTAATGTTTTTAAATTTTA
43842350 AATAAATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.27, C:0.04, G:0.02, T:0.67
Consensus pattern (24 bp):
ATTTTAATGTTTTTAAATTTTACC
Found at i:43858532 original size:34 final size:33
Alignment explanation
Indices: 43858470--43858551 Score: 87
Period size: 34 Copynumber: 2.5 Consensus size: 33
43858460 AAAATTCTAA
* *
43858470 TAAATGAAAA-AATATATAAATTTATTAAATAT
1 TAAATAAAAATAATATATAAATTTATTAAAAAT
* *
43858502 TAAATTAAGAATAATATA-AATATTTTTTAAAAAT
1 TAAA-TAAAAATAATATATAA-ATTTATTAAAAAT
*
43858536 TTAATAAAAATAATAT
1 TAAATAAAAATAATAT
43858552 GAGTATCAGT
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
32 4 0.10
33 17 0.41
34 20 0.49
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (33 bp):
TAAATAAAAATAATATATAAATTTATTAAAAAT
Found at i:43867931 original size:4 final size:4
Alignment explanation
Indices: 43867917--43867968 Score: 59
Period size: 4 Copynumber: 13.0 Consensus size: 4
43867907 ACAAAAAGAG
* * ** *
43867917 TAAA GAAA TAAA TAAA TGAA TGGA TACA TAAA TAAA TAAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA
43867965 TAAA
1 TAAA
43867969 ACAAAACAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (4 bp):
TAAA
Found at i:43869417 original size:22 final size:23
Alignment explanation
Indices: 43869374--43869417 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
43869364 TGTAATGGAC
* *
43869374 TTTTAATTTTTGGTTTTATTTTA
1 TTTTAATTTTTGATTTGATTTTA
*
43869397 TTTT-ATTTTTGATTTGGTTTT
1 TTTTAATTTTTGATTTGATTTT
43869418 TTTGTTTGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.14, C:0.00, G:0.11, T:0.75
Consensus pattern (23 bp):
TTTTAATTTTTGATTTGATTTTA
Found at i:43873277 original size:188 final size:189
Alignment explanation
Indices: 43873055--43873431 Score: 571
Period size: 188 Copynumber: 2.0 Consensus size: 189
43873045 TTTCAATTTT
* *
43873055 AAAATTTTCAATCCCTGTACTTTATTTGACTTATTTGATAGCCCAAGCTAC-TTGAGTTTAAACT
1 AAAAATTTCAATCCCTGTACTTTATTTGACTTATTTGATAGCCCAAGCT-CTTTGAGTTCAAACT
* *
43873119 TGACTTTGCAATTATGGAGCTAAATTTGAAATTCTTTTATGAGTTGTTGTTTTTAGAGATCATAG
65 TGACTTTGCAATTATCGAGCTAAATTTGAAATTCTTTTATGAGTTGTTGTTTTTAGAGACCATAG
* *
43873184 AGTAATTATAAGAAAATTGAATTATT-A-AGGTAGTAATTATATCTTCTTGTAATTACAA
130 AGTAATTATAAGAAAATTGAACTATTAATAGGTAGTAATTATATCTTCTAGTAATTACAA
* *
43873242 AAAAATTTCAATCCCTGTACTTTAATTTGACTTATTTGATAGCTCAAGCTCTTTGAGTTCAAGCT
1 AAAAATTTCAATCCCTGTACTTT-ATTTGACTTATTTGATAGCCCAAGCTCTTTGAGTTCAAACT
* **
43873307 TGACTTTGCAATTATCGAGGTAAATTTGAGTTTCTTTTATGAGTTGTTGTTTTTAGAGACCATAG
65 TGACTTTGCAATTATCGAGCTAAATTTGAAATTCTTTTATGAGTTGTTGTTTTTAGAGACCATAG
* * * * *
43873372 AGTAGTTGTAAGAAAGTTTAACTATTAATATGTAGTAATTATATCTTCTAGTAATTACAA
130 AGTAATTATAAGAAAATTGAACTATTAATAGGTAGTAATTATATCTTCTAGTAATTACAA
43873432 TAAATTTTAA
Statistics
Matches: 170, Mismatches: 16, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
187 23 0.14
188 117 0.69
189 1 0.01
190 29 0.17
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (189 bp):
AAAAATTTCAATCCCTGTACTTTATTTGACTTATTTGATAGCCCAAGCTCTTTGAGTTCAAACTT
GACTTTGCAATTATCGAGCTAAATTTGAAATTCTTTTATGAGTTGTTGTTTTTAGAGACCATAGA
GTAATTATAAGAAAATTGAACTATTAATAGGTAGTAATTATATCTTCTAGTAATTACAA
Found at i:43876709 original size:19 final size:21
Alignment explanation
Indices: 43876680--43876724 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
43876670 AGTTTTGAAA
43876680 TAAAAACTAAAATAAA-A-TTT
1 TAAAAACT-AAATAAATACTTT
43876700 TAAAAA-TAAATAAATACTTT
1 TAAAAACTAAATAAATACTTT
43876720 TAAAA
1 TAAAA
43876725 CTTAAAACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 7 0.30
19 2 0.09
20 14 0.61
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.31
Consensus pattern (21 bp):
TAAAAACTAAATAAATACTTT
Found at i:43878888 original size:19 final size:19
Alignment explanation
Indices: 43878866--43878917 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
43878856 CACACGGTTT
43878866 CACTAATCAGACACAATTC
1 CACTAATCAGACACAATTC
43878885 CACTAATCAGACACAATTC
1 CACTAATCAGACACAATTC
* *
43878904 TACTAATCAAACAC
1 CACTAATCAGACAC
43878918 CATTAACGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.44, C:0.31, G:0.04, T:0.21
Consensus pattern (19 bp):
CACTAATCAGACACAATTC
Found at i:43880305 original size:3 final size:3
Alignment explanation
Indices: 43880299--43880339 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
43880289 ATTCAACTGC
43880299 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
43880340 GATGGAGGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:43885009 original size:59 final size:59
Alignment explanation
Indices: 43884943--43885061 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
43884933 TATATTTAAG
43884943 ATAATCGAGTTAAATCAAATTTAAATTGAATCAATTGAATTAGGTTCTCATTTCATGTC
1 ATAATCGAGTTAAATCAAATTTAAATTGAATCAATTGAATTAGGTTCTCATTTCATGTC
*
43885002 ATAATCGAGTTAAATCAAATTTAAATTGAATCAATTGAATTAGGTTTTCATTTCATGTC
1 ATAATCGAGTTAAATCAAATTTAAATTGAATCAATTGAATTAGGTTCTCATTTCATGTC
43885061 A
1 A
43885062 AATAAAAATT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.39
Consensus pattern (59 bp):
ATAATCGAGTTAAATCAAATTTAAATTGAATCAATTGAATTAGGTTCTCATTTCATGTC
Found at i:43889122 original size:15 final size:14
Alignment explanation
Indices: 43889101--43889136 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
43889091 ATAATCATTA
*
43889101 ATAATTATCTTAAT
1 ATAATTATCCTAAT
43889115 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
43889130 ATAATTA
1 ATAATTA
43889137 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:43891832 original size:7 final size:7
Alignment explanation
Indices: 43891820--43891855 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
43891810 AAATGCTCTC
43891820 TTTATTA
1 TTTATTA
43891827 TTTATTA
1 TTTATTA
43891834 TTTATTA
1 TTTATTA
43891841 TTTATTA
1 TTTATTA
43891848 TTTATTA
1 TTTATTA
43891855 T
1 T
43891856 GAGATGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:43894895 original size:23 final size:24
Alignment explanation
Indices: 43894834--43894900 Score: 75
Period size: 23 Copynumber: 2.9 Consensus size: 24
43894824 TTAAAAAAAT
43894834 ATAAATTATAATTA-AAATTAATA
1 ATAAATTATAATTATAAATTAATA
** * *
43894857 ATAACGTACAATTATAATTTAA-A
1 ATAAATTATAATTATAAATTAATA
*
43894880 ATAAATTATAAATATAAATTA
1 ATAAATTATAATTATAAATTA
43894901 TATGAAATTT
Statistics
Matches: 34, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 28 0.82
24 6 0.18
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.37
Consensus pattern (24 bp):
ATAAATTATAATTATAAATTAATA
Found at i:43894898 original size:13 final size:13
Alignment explanation
Indices: 43894830--43894902 Score: 50
Period size: 13 Copynumber: 6.1 Consensus size: 13
43894820 GTACTTAAAA
43894830 AAATATAAATTAT
1 AAATATAAATTAT
*
43894843 AATTA-AAATTA-
1 AAATATAAATTAT
* ** *
43894854 ATA-ATAACGTAC
1 AAATATAAATTAT
*
43894866 AATTAT-AATT-T
1 AAATATAAATTAT
43894877 AAA-ATAAATTAT
1 AAATATAAATTAT
43894889 AAATATAAATTAT
1 AAATATAAATTAT
43894902 A
1 A
43894903 TGAAATTTTC
Statistics
Matches: 43, Mismatches: 11, Indels: 12
0.65 0.17 0.18
Matches are distributed among these distances:
10 3 0.07
11 11 0.26
12 13 0.30
13 16 0.37
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (13 bp):
AAATATAAATTAT
Found at i:43897938 original size:56 final size:53
Alignment explanation
Indices: 43897818--43897939 Score: 131
Period size: 56 Copynumber: 2.2 Consensus size: 53
43897808 TTATTTTTTC
* *
43897818 AATTATATCTTATTTTAAATTTTCTAGAAGTTAGATTTTTTTTAATTTATCTAT
1 AATT-TATTTTATTTTAAATTTTCTAGAAGTTAAATTTTTTTTAATTTATCTAT
* * *
43897872 -ATATACTTTTATTTTAATTATTTT-TAGGAAGTTAAAATTTTTTTTAATTTGTCTTT
1 AATTTA-TTTTATTTTAA--ATTTTCTA-GAAGTT-AAATTTTTTTTAATTTATCTAT
43897928 AATTTATTTTAT
1 AATTTATTTTAT
43897940 ATTTTTAATA
Statistics
Matches: 56, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
52 2 0.04
53 12 0.21
54 2 0.04
55 11 0.20
56 25 0.45
57 4 0.07
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (53 bp):
AATTTATTTTATTTTAAATTTTCTAGAAGTTAAATTTTTTTTAATTTATCTAT
Found at i:43899399 original size:15 final size:15
Alignment explanation
Indices: 43899381--43899409 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
43899371 CAAATATATA
43899381 TATTTAAAAAAAATT
1 TATTTAAAAAAAATT
43899396 TATTTAAAAAAAAT
1 TATTTAAAAAAAAT
43899410 CTTAATTCAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TATTTAAAAAAAATT
Found at i:43905266 original size:17 final size:18
Alignment explanation
Indices: 43905232--43905266 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
43905222 GTATTTCATT
43905232 AACTGAATATGAATAATAA
1 AACTGAATAT-AATAATAA
43905251 AACTGAATAT-ATAATA
1 AACTGAATATAATAATA
43905267 TTAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.57, C:0.06, G:0.09, T:0.29
Consensus pattern (18 bp):
AACTGAATATAATAATAA
Found at i:43907139 original size:17 final size:18
Alignment explanation
Indices: 43907102--43907140 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
43907092 TTACAAAAAA
*
43907102 AAAATCAAAATAATTTTT
1 AAAATCAAAATAATTTAT
*
43907120 AAAATTAAAAT-ATTTAT
1 AAAATCAAAATAATTTAT
43907137 AAAA
1 AAAA
43907141 ATTCTAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (18 bp):
AAAATCAAAATAATTTAT
Found at i:43907582 original size:27 final size:27
Alignment explanation
Indices: 43907551--43907611 Score: 79
Period size: 27 Copynumber: 2.2 Consensus size: 27
43907541 AAAAATAATT
43907551 TTTAAAATTTAAAGTA-TTTATAAAAAA
1 TTTAAAATTTAAA-TATTTTATAAAAAA
* *
43907578 TTTAAAATTTATATATTTTTTAAAAAA
1 TTTAAAATTTAAATATTTTATAAAAAA
43907605 TTCTAAA
1 TT-TAAA
43907612 GAATATATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 2 0.07
27 24 0.80
28 4 0.13
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (27 bp):
TTTAAAATTTAAATATTTTATAAAAAA
Found at i:43907587 original size:18 final size:19
Alignment explanation
Indices: 43907554--43907590 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
43907544 AATAATTTTT
43907554 AAAATTTAAAGTATTTATAA
1 AAAATTTAAAG-ATTTATAA
43907574 AAAATTTAAA-ATTTATA
1 AAAATTTAAAGATTTATA
43907591 TATTTTTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.41
Consensus pattern (19 bp):
AAAATTTAAAGATTTATAA
Found at i:43913558 original size:31 final size:29
Alignment explanation
Indices: 43913484--43913569 Score: 95
Period size: 29 Copynumber: 2.9 Consensus size: 29
43913474 TATAATACTC
*
43913484 ATTAAATC-AATCAAAATTCATGTATATA
1 ATTACATCAAATCAAAATTCATGTATATA
43913512 ATTACATCAAATCAAAATTCATGTATCA-A
1 ATTACATCAAATCAAAATTCATGTAT-ATA
* * *
43913541 ATTACTCATTAAATCAAAGTTCAAGTATA
1 ATTA--CATCAAATCAAAATTCATGTATA
43913570 ATTTTGATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.14
29 22 0.44
30 2 0.04
31 19 0.38
ACGTcount: A:0.48, C:0.14, G:0.05, T:0.34
Consensus pattern (29 bp):
ATTACATCAAATCAAAATTCATGTATATA
Found at i:43924873 original size:19 final size:20
Alignment explanation
Indices: 43924840--43924884 Score: 74
Period size: 19 Copynumber: 2.3 Consensus size: 20
43924830 GACGGAAAGC
43924840 AAAAACAAGACAAAAACCAT
1 AAAAACAAGACAAAAACCAT
*
43924860 AAAAACAAGA-AAAAACCCT
1 AAAAACAAGACAAAAACCAT
43924879 AAAAAC
1 AAAAAC
43924885 TACAATAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.71, C:0.20, G:0.04, T:0.04
Consensus pattern (20 bp):
AAAAACAAGACAAAAACCAT
Found at i:43933153 original size:55 final size:55
Alignment explanation
Indices: 43933064--43933240 Score: 266
Period size: 55 Copynumber: 3.2 Consensus size: 55
43933054 ACATGCTACG
* * * *
43933064 TAACAATTC-ATTTAAACATATAAACAACCGATTCAAAAGAAGCAGCAATCCAATA
1 TAACAA-TCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
* *
43933119 TAACAATCGATTTGAACATATAAACAATCAATTCAAAAGAAGCAGTATTCCAACA
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
* *
43933174 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAACAATATTCCAACA
1 TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
43933229 TAACAATCGATT
1 TAACAATCGATT
43933241 CAAAAGAAGC
Statistics
Matches: 111, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
54 2 0.02
55 109 0.98
ACGTcount: A:0.50, C:0.19, G:0.07, T:0.24
Consensus pattern (55 bp):
TAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAGCAGTATTCCAACA
Found at i:43933193 original size:18 final size:18
Alignment explanation
Indices: 43933165--43933338 Score: 69
Period size: 18 Copynumber: 9.7 Consensus size: 18
43933155 AAGAAGCAGT
*
43933165 ATTCCAACATAACAATCG
1 ATTCAAACATAACAATCG
*
43933183 ATTTAAACATATAAACAATCG
1 ATTCAAAC--AT-AACAATCG
*
43933204 ATTCAAA-AGAAACAAT--
1 ATTCAAACA-TAACAATCG
*
43933220 ATTCCAACATAACAATCG
1 ATTCAAACATAACAATCG
* *
43933238 ATTCAAA-AGAAGC-AGCG
1 ATTCAAACATAA-CAATCG
* * *
43933255 -TTCTAACATGACAATCA
1 ATTCAAACATAACAATCG
*
43933272 ATTTAAACATATAAACAATCG
1 ATTCAAAC--AT-AACAATCG
*
43933293 ATTCAAACGA-AGCAAT--
1 ATTCAAAC-ATAACAATCG
* * *
43933309 ATTCTAGCATAACAATTG
1 ATTCAAACATAACAATCG
*
43933327 ATTTAAACATAA
1 ATTCAAACATAA
43933339 AAATAATCGA
Statistics
Matches: 112, Mismatches: 27, Indels: 34
0.65 0.16 0.20
Matches are distributed among these distances:
15 1 0.01
16 29 0.26
17 11 0.10
18 39 0.35
20 5 0.04
21 27 0.24
ACGTcount: A:0.49, C:0.18, G:0.08, T:0.25
Consensus pattern (18 bp):
ATTCAAACATAACAATCG
Found at i:43933234 original size:89 final size:89
Alignment explanation
Indices: 43933141--43933324 Score: 278
Period size: 89 Copynumber: 2.1 Consensus size: 89
43933131 TGAACATATA
* *
43933141 AACAATCAATTCAAAAGAAGCAGTATTCCAACATAACAATCGATTTAAACATATAAACAATCGAT
1 AACAATCAATTCAAAAGAAGCAGCATTCCAACATAACAATCAATTTAAACATATAAACAATCGAT
43933206 TCAAAAGAAACAATATTCCAACAT
66 TCAAAAGAAACAATATTCCAACAT
* * * *
43933230 AACAATCGATTCAAAAGAAGCAGCGTTCTAACATGACAATCAATTTAAACATATAAACAATCGAT
1 AACAATCAATTCAAAAGAAGCAGCATTCCAACATAACAATCAATTTAAACATATAAACAATCGAT
* * * *
43933295 TCAAACGAAGCAATATTCTAGCAT
66 TCAAAAGAAACAATATTCCAACAT
43933319 AACAAT
1 AACAAT
43933325 TGATTTAAAC
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
89 85 1.00
ACGTcount: A:0.49, C:0.19, G:0.09, T:0.23
Consensus pattern (89 bp):
AACAATCAATTCAAAAGAAGCAGCATTCCAACATAACAATCAATTTAAACATATAAACAATCGAT
TCAAAAGAAACAATATTCCAACAT
Found at i:43933289 original size:55 final size:55
Alignment explanation
Indices: 43933230--43933353 Score: 158
Period size: 55 Copynumber: 2.3 Consensus size: 55
43933220 ATTCCAACAT
* * * *
43933230 AACAATCGATTCAAAAGAAGCAGCGTTCTAACATGACAATCAATTTAAACATATA
1 AACAATCGATTCAAAAGAAGCAACATTCTAACATAACAATCAATTTAAACATAAA
* * * **
43933285 AACAATCGATTCAAACGAAGCAATATTCTAGCATAACAATTGATTTAAACATAAA
1 AACAATCGATTCAAAAGAAGCAACATTCTAACATAACAATCAATTTAAACATAAA
*
43933340 AATAATCGATTCAA
1 AACAATCGATTCAA
43933354 TCCAAAATCA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
55 59 1.00
ACGTcount: A:0.48, C:0.17, G:0.10, T:0.25
Consensus pattern (55 bp):
AACAATCGATTCAAAAGAAGCAACATTCTAACATAACAATCAATTTAAACATAAA
Found at i:43933347 original size:144 final size:144
Alignment explanation
Indices: 43933086--43933353 Score: 392
Period size: 144 Copynumber: 1.9 Consensus size: 144
43933076 TAAACATATA
* * *
43933086 AACAACCGATTCAAAAGAAGCAGCAATCCAATATAACAATCGATTTGAACATATAAACAATCAAT
1 AACAACCGATTCAAAAGAAGCAGCAATCCAACATAACAATCAATTTAAACATATAAACAATCAAT
* *
43933151 TCAAAAGAAGCAGTATTCCAACATAACAATCGATTTAAACATATAAACAATCGATTCAAAAGAAA
66 TCAAAAGAAGCAATATTCCAACATAACAATCGATTTAAACATAAAAACAATCGATTCAAAAGAAA
43933216 CAATATTCCAACAT
131 CAATATTCCAACAT
* ** * * *
43933230 AACAATCGATTCAAAAGAAGCAGCGTTCTAACATGACAATCAATTTAAACATATAAACAATCGAT
1 AACAACCGATTCAAAAGAAGCAGCAATCCAACATAACAATCAATTTAAACATATAAACAATCAAT
* * * * *
43933295 TCAAACGAAGCAATATTCTAGCATAACAATTGATTTAAACATAAAAATAATCGATTCAA
66 TCAAAAGAAGCAATATTCCAACATAACAATCGATTTAAACATAAAAACAATCGATTCAA
43933354 TCCAAAATCA
Statistics
Matches: 108, Mismatches: 16, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
144 108 1.00
ACGTcount: A:0.50, C:0.18, G:0.09, T:0.23
Consensus pattern (144 bp):
AACAACCGATTCAAAAGAAGCAGCAATCCAACATAACAATCAATTTAAACATATAAACAATCAAT
TCAAAAGAAGCAATATTCCAACATAACAATCGATTTAAACATAAAAACAATCGATTCAAAAGAAA
CAATATTCCAACAT
Found at i:43936449 original size:42 final size:42
Alignment explanation
Indices: 43936353--43936451 Score: 166
Period size: 42 Copynumber: 2.4 Consensus size: 42
43936343 GTCAGCAAAG
43936353 CGCGCTGACGT-GACCGCGATTTCCTGGCACGTCCCCTGACAT
1 CGCGCTGACGTGGACCGC-ATTTCCTGGCACGTCCCCTGACAT
43936395 CGCGCTGACGTGGACACGC-TTTCCTGGCACGTCCCCTGACAT
1 CGCGCTGACGTGGAC-CGCATTTCCTGGCACGTCCCCTGACAT
43936437 CGCGCTGACGTGGAC
1 CGCGCTGACGTGGAC
43936452 GCAATTCATT
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
42 49 0.89
43 3 0.05
44 3 0.05
ACGTcount: A:0.14, C:0.37, G:0.28, T:0.20
Consensus pattern (42 bp):
CGCGCTGACGTGGACCGCATTTCCTGGCACGTCCCCTGACAT
Found at i:43941737 original size:2 final size:2
Alignment explanation
Indices: 43941730--43941779 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
43941720 CTTTACTACT
43941730 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
43941772 TC TA TA TA
1 TA TA TA TA
43941780 AAGGCACTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43943585 original size:22 final size:22
Alignment explanation
Indices: 43943544--43943585 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
43943534 AAATTAAATT
* *
43943544 ATATATTTTTATTATCTTAAAA
1 ATATAATTTTATCATCTTAAAA
*
43943566 ATATAATTTTATCATTTTAA
1 ATATAATTTTATCATCTTAA
43943586 TAGTTTAAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATAATTTTATCATCTTAAAA
Found at i:43949107 original size:58 final size:58
Alignment explanation
Indices: 43949017--43949133 Score: 234
Period size: 58 Copynumber: 2.0 Consensus size: 58
43949007 ATTTTCTTAA
43949017 TCTATTCAAGTGGTCAAGGAAGTTTTTCTGATGGTATGGCTCTAGGAATATTTGGTAC
1 TCTATTCAAGTGGTCAAGGAAGTTTTTCTGATGGTATGGCTCTAGGAATATTTGGTAC
43949075 TCTATTCAAGTGGTCAAGGAAGTTTTTCTGATGGTATGGCTCTAGGAATATTTGGTAC
1 TCTATTCAAGTGGTCAAGGAAGTTTTTCTGATGGTATGGCTCTAGGAATATTTGGTAC
43949133 T
1 T
43949134 TTCAACTTCG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 59 1.00
ACGTcount: A:0.24, C:0.12, G:0.26, T:0.38
Consensus pattern (58 bp):
TCTATTCAAGTGGTCAAGGAAGTTTTTCTGATGGTATGGCTCTAGGAATATTTGGTAC
Found at i:43962370 original size:19 final size:18
Alignment explanation
Indices: 43962338--43962379 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
43962328 ATATATTTCG
43962338 ATTATGAATATGAGTATA
1 ATTATGAATATGAGTATA
43962356 TATTAT-AATATTGAGTATA
1 -ATTATGAATA-TGAGTATA
43962375 ATTAT
1 ATTAT
43962380 TCAGATTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (18 bp):
ATTATGAATATGAGTATA
Found at i:43966065 original size:36 final size:36
Alignment explanation
Indices: 43966018--43966090 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
43966008 AACCTCAAAA
*
43966018 GGATTATATTCTATAAACCGTAAAACGGACTTGGAT
1 GGATTATATTCTATAAACCGTAAAACGAACTTGGAT
43966054 GGATTATATTCTATAAACCGTAAAACGAACTTGGAT
1 GGATTATATTCTATAAACCGTAAAACGAACTTGGAT
43966090 G
1 G
43966091 AGACGTTGGT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (36 bp):
GGATTATATTCTATAAACCGTAAAACGAACTTGGAT
Found at i:43977559 original size:24 final size:24
Alignment explanation
Indices: 43977496--43977547 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
43977486 TTTCTAGAAG
* * *
43977496 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
43977520 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
43977544 ATTT
1 ATTT
43977548 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:43982791 original size:19 final size:19
Alignment explanation
Indices: 43982769--43982810 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
43982759 ATATATATAA
*
43982769 ATATTATATTCTATA-CCTT
1 ATATTAT-TTATATATCCTT
43982788 ATATTATTTATATATCCTT
1 ATATTATTTATATATCCTT
43982807 ATAT
1 ATAT
43982811 ATGCATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTATTTATATATCCTT
Found at i:43982863 original size:11 final size:11
Alignment explanation
Indices: 43982832--43982869 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
43982822 ATTTTCATAA
43982832 ATATATATTTT
1 ATATATATTTT
*
43982843 ATAT-TTTTTT
1 ATATATATTTT
*
43982853 ATATATCTTTT
1 ATATATATTTT
43982864 ATATAT
1 ATATAT
43982870 TTCTAATCTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
10 9 0.38
11 15 0.62
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.66
Consensus pattern (11 bp):
ATATATATTTT
Found at i:43986545 original size:26 final size:27
Alignment explanation
Indices: 43986490--43986538 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
43986480 ATAAAATACA
*
43986490 TCTTTGCATTCCTTTTTGAGCCAATAT
1 TCTTTGCATTCCTTTTTGAGACAATAT
43986517 TCTTT-CATT-CTTTTTGA-ACAAT
1 TCTTTGCATTCCTTTTTGAGACAAT
43986539 TATTTCTGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 4 0.19
27 5 0.24
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.51
Consensus pattern (27 bp):
TCTTTGCATTCCTTTTTGAGACAATAT
Found at i:43987245 original size:12 final size:12
Alignment explanation
Indices: 43987199--43987250 Score: 50
Period size: 12 Copynumber: 4.3 Consensus size: 12
43987189 AAAGTGAAGA
* *
43987199 AAAAGAAAAATC
1 AAAATAAAAATG
* * *
43987211 AAAATCAAAGTC
1 AAAATAAAAATG
43987223 AAAATAAAAATG
1 AAAATAAAAATG
*
43987235 AAAATGAAAATG
1 AAAATAAAAATG
43987247 AAAA
1 AAAA
43987251 AAATAAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.71, C:0.06, G:0.10, T:0.13
Consensus pattern (12 bp):
AAAATAAAAATG
Found at i:43988284 original size:13 final size:13
Alignment explanation
Indices: 43988263--43988301 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
43988253 CAAAAAGAAA
43988263 AAAATGAAAAATG
1 AAAATGAAAAATG
**
43988276 AGGATGAAAAATG
1 AAAATGAAAAATG
43988289 AAAATGAAAAATG
1 AAAATGAAAAATG
43988302 GAGAGGCTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.21, T:0.15
Consensus pattern (13 bp):
AAAATGAAAAATG
Found at i:43990707 original size:31 final size:31
Alignment explanation
Indices: 43990670--43990732 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
43990660 TAGTATAAAG
43990670 AAAGCCACACAAACTAGGAATAAATAAAGAT
1 AAAGCCACACAAACTAGGAATAAATAAAGAT
43990701 AAAGCCACACAAACTAGGAATAAATAAAGAT
1 AAAGCCACACAAACTAGGAATAAATAAAGAT
43990732 A
1 A
43990733 TAACAGACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.59, C:0.16, G:0.13, T:0.13
Consensus pattern (31 bp):
AAAGCCACACAAACTAGGAATAAATAAAGAT
Found at i:43994942 original size:33 final size:33
Alignment explanation
Indices: 43994896--43994961 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
43994886 CTTGAAAACT
43994896 AATGATCACAAGACCAAAACATACATAAATACG
1 AATGATCACAAGACCAAAACATACATAAATACG
* **
43994929 AATGATCATAAGACCAAAACATATGTAAATACG
1 AATGATCACAAGACCAAAACATACATAAATACG
43994962 TAAATACTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.53, C:0.18, G:0.11, T:0.18
Consensus pattern (33 bp):
AATGATCACAAGACCAAAACATACATAAATACG
Found at i:43995672 original size:33 final size:33
Alignment explanation
Indices: 43995611--43995673 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
43995601 TCATAGATTA
*
43995611 ATAAAAAGAAAAAGAAGAAAAAAGTATTAAATC
1 ATAAAAAGAAAAAGAAGAAAAAACTATTAAATC
*
43995644 ATAAAAAGAAAAAGAA-ATAATAACTATTAA
1 ATAAAAAGAAAAAGAAGA-AAAAACTATTAA
43995674 GTTATTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
32 1 0.04
33 26 0.96
ACGTcount: A:0.70, C:0.03, G:0.10, T:0.17
Consensus pattern (33 bp):
ATAAAAAGAAAAAGAAGAAAAAACTATTAAATC
Found at i:43997669 original size:24 final size:25
Alignment explanation
Indices: 43997639--43997687 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
43997629 TAATCGTGAT
43997639 TAAATT-ATGTCAAATTAAAATATA
1 TAAATTAATGTCAAATTAAAATATA
* * *
43997663 TAAATTAATTTTAAATTTAAATATA
1 TAAATTAATGTCAAATTAAAATATA
43997688 ATATAAAAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (25 bp):
TAAATTAATGTCAAATTAAAATATA
Found at i:43999417 original size:64 final size:64
Alignment explanation
Indices: 43999308--43999427 Score: 159
Period size: 64 Copynumber: 1.9 Consensus size: 64
43999298 GCTAGCATCT
* * * * * *
43999308 TGATCAGTATTGATCCTGCATGTGTTGCGAACATACCGCATCTCTTTGTGAGCGTCCTGTTATA
1 TGATCAGTATTGATCCTACATATATTGCGAACATACCGCAACTCTTTATAAGCGTCCTGTTATA
* * *
43999372 TGATCGGTATTGATCCTACATATATTGCGGACATACTGCAACTCTTTATAAGCGTC
1 TGATCAGTATTGATCCTACATATATTGCGAACATACCGCAACTCTTTATAAGCGTC
43999428 TCGATATAGG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
64 47 1.00
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.35
Consensus pattern (64 bp):
TGATCAGTATTGATCCTACATATATTGCGAACATACCGCAACTCTTTATAAGCGTCCTGTTATA
Found at i:44000110 original size:4 final size:4
Alignment explanation
Indices: 44000101--44000138 Score: 67
Period size: 4 Copynumber: 9.2 Consensus size: 4
44000091 AAATAATGAA
44000101 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT ATAAT A
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT A-AAT A
44000139 CAAAATAGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 29 0.88
5 4 0.12
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AAAT
Found at i:44002153 original size:20 final size:20
Alignment explanation
Indices: 44002125--44002163 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
44002115 ATGTATAAAA
44002125 TTATAAATAATTA-AATATTT
1 TTATAAAT-ATTATAATATTT
*
44002145 TTATTAATATTATAATATT
1 TTATAAATATTATAATATT
44002164 AAAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTATAAATATTATAATATTT
Found at i:44002215 original size:18 final size:18
Alignment explanation
Indices: 44002194--44002291 Score: 67
Period size: 18 Copynumber: 5.5 Consensus size: 18
44002184 TTTTTAATAA
*
44002194 TTTTAATAATTTATATGT
1 TTTTAATAATTTATATAT
** *
44002212 TTTTTCTAAATTATATAT
1 TTTTAATAATTTATATAT
44002230 TTTT-ATGAATTTATATAT
1 TTTTAAT-AATTTATATAT
* * *
44002248 ATTTTTAT-TTTTATATTT
1 -TTTTAATAATTTATATAT
* *
44002266 TTTTAAT-ATGTATATAC
1 TTTTAATAATTTATATAT
*
44002283 ATTTAATAA
1 TTTTAATAA
44002292 AAGAAATTGT
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
17 19 0.31
18 37 0.60
19 4 0.06
20 2 0.03
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (18 bp):
TTTTAATAATTTATATAT
Found at i:44011124 original size:23 final size:23
Alignment explanation
Indices: 44011098--44011169 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
44011088 TCCCCATTAA
44011098 AAGCTGGTCCTTATACATCACAT
1 AAGCTGGTCCTTATACATCACAT
*** * *
44011121 AAGCTACACGTGAT--ATGC-CAT
1 AAGCTGGTCCTTATACAT-CACAT
44011142 AAGCTGGTCCTTATACATCACAT
1 AAGCTGGTCCTTATACATCACAT
44011165 AAGCT
1 AAGCT
44011170 ACACGTGATA
Statistics
Matches: 35, Mismatches: 10, Indels: 8
0.66 0.19 0.15
Matches are distributed among these distances:
21 14 0.40
22 2 0.06
23 19 0.54
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (23 bp):
AAGCTGGTCCTTATACATCACAT
Found at i:44011161 original size:44 final size:44
Alignment explanation
Indices: 44011098--44011185 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
44011088 TCCCCATTAA
44011098 AAGCTGGTCCTTATACATCACATAAGCTACACGTGATATGCCAT
1 AAGCTGGTCCTTATACATCACATAAGCTACACGTGATATGCCAT
44011142 AAGCTGGTCCTTATACATCACATAAGCTACACGTGATATGCCAT
1 AAGCTGGTCCTTATACATCACATAAGCTACACGTGATATGCCAT
44011186 GTGTCATTGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.32, C:0.25, G:0.16, T:0.27
Consensus pattern (44 bp):
AAGCTGGTCCTTATACATCACATAAGCTACACGTGATATGCCAT
Found at i:44021967 original size:139 final size:135
Alignment explanation
Indices: 44021668--44022014 Score: 352
Period size: 132 Copynumber: 2.6 Consensus size: 135
44021658 GTTAGTGCTA
* * **
44021668 AGTATGAAGAAATGGGCTTAGACCCACTCATCTT-TAGAGGTCAAATAACAAGTAGTTTGATGCC
1 AGTATGAAGAAATGGGCTTAGACCTACTCATCTTAT-GGGGTCAAATGGCAAGTAGTTTGATGCC
* * * *
44021732 TTT---TATGGTCTCAGATTCAAATAAATGTGTGCGAGTTAATTATAAATGTACTAAAAAAATTA
65 TTTAAGTAAGGTCTCAGATTCAAATAAATGTATGCGAATCAATTATAAATGTACTAAAAAAATTA
* *
44021794 GTGCAT
130 CTGCAC
* ** *
44021800 AGTATTAAGAAATGGGCTTAGATGTACTCATCTTATGGGGTCGAATGGCAAGTAGTTTGATGCCT
1 AGTATGAAGAAATGGGCTTAGACCTACTCATCTTATGGGGTCAAATGGCAAGTAGTTTGATGCCT
* ** *
44021865 TATAAGTAAGGTTTC-GAGTTCAAATCGATGCGTATGTGAATCAATTATAAATGTACTCAAAAAA
66 T-TAAGTAAGGTCTCAGA-TTCAAATAAAT--GTATGCGAATCAATTATAAATGTACT-AAAAAA
44021929 GA-TACTGCAC
126 -ATTACTGCAC
* * *
44021939 AGTACGAAGAAATGGGCTTAGACCTACTCCTATC-TA--GGGTCAAATGGTAAGTAGTTCGATGC
1 AGTATGAAGAAATGGGCTTAGACCTACT-C-ATCTTATGGGGTCAAATGGCAAGTAGTTTGATGC
44022001 CTTTTAAGTAAGGT
64 C-TTTAAGTAAGGT
44022015 ATTAATTTTT
Statistics
Matches: 177, Mismatches: 25, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
132 56 0.32
133 2 0.01
135 2 0.01
136 16 0.09
138 56 0.32
139 38 0.21
140 4 0.02
141 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (135 bp):
AGTATGAAGAAATGGGCTTAGACCTACTCATCTTATGGGGTCAAATGGCAAGTAGTTTGATGCCT
TTAAGTAAGGTCTCAGATTCAAATAAATGTATGCGAATCAATTATAAATGTACTAAAAAAATTAC
TGCAC
Found at i:44021985 original size:138 final size:134
Alignment explanation
Indices: 44021668--44022014 Score: 339
Period size: 138 Copynumber: 2.6 Consensus size: 134
44021658 GTTAGTGCTA
* * * * **
44021668 AGTATGAAGAAATGGGCTTAGACCCACTCATCTTTAGAGGTCAAATAACAAGTAGTTTGATGCCT
1 AGTATGAAGAAATGGGCTTAGACCTACTCCTATCTAG-GGTCAAATGGCAAGTAGTTTGATGCCT
* * * * *
44021733 TT---TATGGTCTCAGATTCAAATAAATGTGTGCGAGTTAATTATAAATGTACTAAAAAAATTAG
65 TTAAGTAAGGTCTCAGATTCAAATAAATGTATGCGAATCAATTATAAATGTACTAAAAAAATTAC
*
44021795 TGCAT
130 TGCAC
* ** *
44021800 AGTATTAAGAAATGGGCTTAGATGTACT-C-ATCTTATGGGGTCGAATGGCAAGTAGTTTGATGC
1 AGTATGAAGAAATGGGCTTAGACCTACTCCTATC-TA--GGGTCAAATGGCAAGTAGTTTGATGC
* ** *
44021863 CTTATAAGTAAGGTTTC-GAGTTCAAATCGATGCGTATGTGAATCAATTATAAATGTACTCAAAA
63 CTT-TAAGTAAGGTCTCAGA-TTCAAATAAAT--GTATGCGAATCAATTATAAATGTACT-AAAA
44021927 AAGA-TACTGCAC
123 AA-ATTACTGCAC
* * *
44021939 AGTACGAAGAAATGGGCTTAGACCTACTCCTATCTAGGGTCAAATGGTAAGTAGTTCGATGCCTT
1 AGTATGAAGAAATGGGCTTAGACCTACTCCTATCTAGGGTCAAATGGCAAGTAGTTTGATGCC-T
44022004 TTAAGTAAGGT
65 TTAAGTAAGGT
44022015 ATTAATTTTT
Statistics
Matches: 173, Mismatches: 27, Indels: 24
0.77 0.12 0.11
Matches are distributed among these distances:
130 1 0.01
131 2 0.01
132 49 0.28
133 2 0.01
135 2 0.01
136 16 0.09
138 56 0.32
139 38 0.22
140 4 0.02
141 3 0.02
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (134 bp):
AGTATGAAGAAATGGGCTTAGACCTACTCCTATCTAGGGTCAAATGGCAAGTAGTTTGATGCCTT
TAAGTAAGGTCTCAGATTCAAATAAATGTATGCGAATCAATTATAAATGTACTAAAAAAATTACT
GCAC
Found at i:44032029 original size:18 final size:20
Alignment explanation
Indices: 44032006--44032052 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
44031996 ATTTTTTATA
*
44032006 TAAAATAAATTTAAT-ACAT
1 TAAAATAAATTTAATAAAAT
*
44032025 T-AAATATA-TTAATAAAAT
1 TAAAATAAATTTAATAAAAT
44032043 TAAAATAAAT
1 TAAAATAAAT
44032053 ATTTCTCAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 5
0.73 0.10 0.17
Matches are distributed among these distances:
17 5 0.23
18 10 0.45
19 7 0.32
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAAATAAATTTAATAAAAT
Found at i:44032474 original size:17 final size:18
Alignment explanation
Indices: 44032452--44032485 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44032442 AAAAATTGAT
*
44032452 TTTAAA-AATCTTTTAAA
1 TTTAAATAATATTTTAAA
44032469 TTTAAATAATATTTTAA
1 TTTAAATAATATTTTAA
44032486 TTATATTTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTAAATAATATTTTAAA
Found at i:44033659 original size:13 final size:13
Alignment explanation
Indices: 44033637--44033678 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
44033627 TCATTTTATT
*
44033637 AAAATAAATACAA
1 AAAATTAATACAA
*
44033650 AAAATTAATAC-C
1 AAAATTAATACAA
*
44033662 AAAATTAATATAA
1 AAAATTAATACAA
44033675 AAAA
1 AAAA
44033679 CAAAAAAGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 10 0.42
13 14 0.58
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATTAATACAA
Found at i:44037434 original size:6 final size:6
Alignment explanation
Indices: 44037410--44037444 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
44037400 TTCATTTTTG
44037410 TTGTTT TGTGTTGT TTGTTT TTGTTT TTGTTT TTG
1 TTGTTT T-TGTT-T TTGTTT TTGTTT TTGTTT TTG
44037445 GCAGGGGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 17 0.63
7 8 0.30
8 2 0.07
ACGTcount: A:0.00, C:0.00, G:0.23, T:0.77
Consensus pattern (6 bp):
TTGTTT
Found at i:44038200 original size:12 final size:13
Alignment explanation
Indices: 44038183--44038217 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
44038173 ATATTTTGAT
44038183 ATTAAATTAT-AA
1 ATTAAATTATCAA
44038195 ATTAAATTATCAA
1 ATTAAATTATCAA
*
44038208 ATTAAGTTAT
1 ATTAAATTAT
44038218 TAAAAACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (13 bp):
ATTAAATTATCAA
Found at i:44042767 original size:16 final size:17
Alignment explanation
Indices: 44042741--44042772 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
44042731 TTAAAATTTT
44042741 TTTATAAATATTTTAAA
1 TTTATAAATATTTTAAA
44042758 TTTA-AAATATTTTAA
1 TTTATAAATATTTTAA
44042773 TATAACATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTATAAATATTTTAAA
Found at i:44043790 original size:22 final size:22
Alignment explanation
Indices: 44043765--44043813 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
44043755 TTTTTTATAG
* * *
44043765 AATTTAATAACACTTTTAGTTT
1 AATTTAACAACACTTTTAATTC
*
44043787 AATTTAACAACATTTTTAATTC
1 AATTTAACAACACTTTTAATTC
44043809 AATTT
1 AATTT
44043814 GGTAAACTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.39, C:0.10, G:0.02, T:0.49
Consensus pattern (22 bp):
AATTTAACAACACTTTTAATTC
Found at i:44054349 original size:2 final size:2
Alignment explanation
Indices: 44054342--44054369 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
44054332 TACATCAATA
44054342 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
44054370 GATGCATATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:44054693 original size:28 final size:28
Alignment explanation
Indices: 44054640--44054693 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
44054630 AACTTGAGAT
* **
44054640 TCAATTTTATTTTTAAATACTGTAATAC
1 TCAATTTTATTGTTAAATACAATAATAC
44054668 TCAATTTTATTGTTATAATA-AATAAT
1 TCAATTTTATTGTTA-AATACAATAAT
44054694 TAATCTCATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 18 0.82
29 4 0.18
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (28 bp):
TCAATTTTATTGTTAAATACAATAATAC
Found at i:44059859 original size:26 final size:26
Alignment explanation
Indices: 44059823--44059894 Score: 117
Period size: 26 Copynumber: 2.8 Consensus size: 26
44059813 CAAGCACTAA
44059823 CGGGAAGCTCACAAAGAGCCTTTAAT
1 CGGGAAGCTCACAAAGAGCCTTTAAT
44059849 CGGGAAGCTCACAAAGAGCCTTTAAT
1 CGGGAAGCTCACAAAGAGCCTTTAAT
** *
44059875 CAAGAAGCTCATAAAGAGCC
1 CGGGAAGCTCACAAAGAGCC
44059895 ATATAACAAG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (26 bp):
CGGGAAGCTCACAAAGAGCCTTTAAT
Found at i:44059904 original size:26 final size:26
Alignment explanation
Indices: 44059826--44059911 Score: 111
Period size: 26 Copynumber: 3.3 Consensus size: 26
44059816 GCACTAACGG
**
44059826 GAAGCTCACAAAGAGCCTTTAATCGG
1 GAAGCTCACAAAGAGCCTTTAATCAA
44059852 GAAGCTCACAAAGAGCCTTTAATCAA
1 GAAGCTCACAAAGAGCCTTTAATCAA
* *
44059878 GAAGCTCATAAAGAGCCATATAA-CAA
1 GAAGCTCACAAAGAGCC-TTTAATCAA
*
44059904 GACGCTCA
1 GAAGCTCA
44059912 TAAGATCTGC
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
26 50 0.93
27 4 0.07
ACGTcount: A:0.41, C:0.23, G:0.19, T:0.17
Consensus pattern (26 bp):
GAAGCTCACAAAGAGCCTTTAATCAA
Found at i:44066073 original size:17 final size:17
Alignment explanation
Indices: 44066042--44066075 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
44066032 AACCCTAAAT
**
44066042 TGCATATATTTCAAAAG
1 TGCATATATAACAAAAG
44066059 TGCATATATAACAAAAG
1 TGCATATATAACAAAAG
44066076 GATAAGATAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
TGCATATATAACAAAAG
Found at i:44068201 original size:14 final size:14
Alignment explanation
Indices: 44068182--44068208 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
44068172 TTGTGCCTCC
44068182 CTAATAGGGTATTG
1 CTAATAGGGTATTG
44068196 CTAATAGGGTATT
1 CTAATAGGGTATT
44068209 TCAAGAGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.07, G:0.26, T:0.37
Consensus pattern (14 bp):
CTAATAGGGTATTG
Found at i:44068720 original size:83 final size:83
Alignment explanation
Indices: 44068581--44068747 Score: 334
Period size: 83 Copynumber: 2.0 Consensus size: 83
44068571 TACCAGTTTC
44068581 AGCCCAACTATATTTGTACCAGAAAAATCTACCTAAAAAAGAGGAGAGGATATCGAGGGTTTTTG
1 AGCCCAACTATATTTGTACCAGAAAAATCTACCTAAAAAAGAGGAGAGGATATCGAGGGTTTTTG
44068646 GAGCTATCCTAGGAAGAA
66 GAGCTATCCTAGGAAGAA
44068664 AGCCCAACTATATTTGTACCAGAAAAATCTACCTAAAAAAGAGGAGAGGATATCGAGGGTTTTTG
1 AGCCCAACTATATTTGTACCAGAAAAATCTACCTAAAAAAGAGGAGAGGATATCGAGGGTTTTTG
44068729 GAGCTATCCTAGGAAGAA
66 GAGCTATCCTAGGAAGAA
44068747 A
1 A
44068748 TGCTTATAAA
Statistics
Matches: 84, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (83 bp):
AGCCCAACTATATTTGTACCAGAAAAATCTACCTAAAAAAGAGGAGAGGATATCGAGGGTTTTTG
GAGCTATCCTAGGAAGAA
Found at i:44072333 original size:17 final size:19
Alignment explanation
Indices: 44072313--44072351 Score: 64
Period size: 17 Copynumber: 2.2 Consensus size: 19
44072303 AATAATATGT
44072313 AATTAAAT-TAAA-ACAAA
1 AATTAAATATAAATACAAA
44072330 AATTAAATATAAATACAAA
1 AATTAAATATAAATACAAA
44072349 AAT
1 AAT
44072352 ATTCATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
AATTAAATATAAATACAAA
Found at i:44073192 original size:60 final size:57
Alignment explanation
Indices: 44073125--44073236 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 57
44073115 GACCATACTA
44073125 TAACTTTTCATAATT-GAGTGA-CCAATAGAGAAATTTACTAATAATT-AGATGACTATTTTG
1 TAACTTTTCATAATTAG-GTGACCCAA-A-A-AAA-TTACTAATAATTAAG-TGACTATTTTG
*
44073185 TAACTTTTTATAATTAGGTGACCCAAAAAAATTACTAATAATTAAGTGACTA
1 TAACTTTTCATAATTAGGTGACCCAAAAAAATTACTAATAATTAAGTGACTA
44073237 CTAATGTAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 9
0.83 0.02 0.16
Matches are distributed among these distances:
57 18 0.38
58 5 0.10
59 1 0.02
60 19 0.40
61 5 0.10
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.37
Consensus pattern (57 bp):
TAACTTTTCATAATTAGGTGACCCAAAAAAATTACTAATAATTAAGTGACTATTTTG
Found at i:44076237 original size:5 final size:5
Alignment explanation
Indices: 44076227--44076254 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
44076217 ATCCCTTCCG
44076227 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
44076255 CTTTTTAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:44076349 original size:10 final size:10
Alignment explanation
Indices: 44076334--44076363 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
44076324 TAATATGTGC
44076334 TATTATTATT
1 TATTATTATT
*
44076344 TATTATTATA
1 TATTATTATT
44076354 TATTATTATT
1 TATTATTATT
44076364 AAAACTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (10 bp):
TATTATTATT
Found at i:44087080 original size:13 final size:14
Alignment explanation
Indices: 44087062--44087094 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
44087052 GTTTAGTATT
44087062 AAAAATTAAT-TTA
1 AAAAATTAATGTTA
44087075 AAAAATTAATGTTA
1 AAAAATTAATGTTA
44087089 ATAAAA
1 A-AAAA
44087095 GGTGTATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 4 0.22
15 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AAAAATTAATGTTA
Done.