Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032251.1 Gossypioides kirkii chromosome KI_09
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: 38743931
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2800 characters in sequence are not A, C, G, or T
File 98 of 144
Found at i:23004842 original size:36 final size:36
Alignment explanation
Indices: 23004795--23004871 Score: 136
Period size: 36 Copynumber: 2.1 Consensus size: 36
23004785 TCACATCGGG
*
23004795 TGGATTACGTTGAGGCCAAAATATTGTGTAGCGGCT
1 TGGATTACGTTGAGGCCAAAACATTGTGTAGCGGCT
*
23004831 TGGATTACGTTGAGGCCGAAACATTGTGTAGCGGCT
1 TGGATTACGTTGAGGCCAAAACATTGTGTAGCGGCT
23004867 TGGAT
1 TGGAT
23004872 CGACATACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.30
Consensus pattern (36 bp):
TGGATTACGTTGAGGCCAAAACATTGTGTAGCGGCT
Found at i:23005117 original size:18 final size:18
Alignment explanation
Indices: 23005075--23005118 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
23005065 ACACCTTTCA
*
23005075 ATGAGCTCGCATCTTTGG
1 ATGAGCTCGCAACTTTGG
* * *
23005093 GTAAGCTCGCAAGTTTGG
1 ATGAGCTCGCAACTTTGG
23005111 ATGAGCTC
1 ATGAGCTC
23005119 ATAACTTTAC
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (18 bp):
ATGAGCTCGCAACTTTGG
Found at i:23007627 original size:13 final size:13
Alignment explanation
Indices: 23007609--23007637 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
23007599 TGTACTTGTA
23007609 GGAGTGATAACCT
1 GGAGTGATAACCT
23007622 GGAGTGATAACCT
1 GGAGTGATAACCT
23007635 GGA
1 GGA
23007638 CATCTCCCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.14, G:0.34, T:0.21
Consensus pattern (13 bp):
GGAGTGATAACCT
Found at i:23009109 original size:43 final size:43
Alignment explanation
Indices: 23009048--23009169 Score: 181
Period size: 43 Copynumber: 2.8 Consensus size: 43
23009038 TTTGAGAGTT
*
23009048 GGAACATTGTTTTCTATTATTGAAAGTATGTGATTGATTAAGA
1 GGAACATTGTTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* *
23009091 GGAACATTGTTTCCTATTATTGAAAGCATGTGATTGATTGAGA
1 GGAACATTGTTTCCTATTATTGAAAGTATGTGATTGATTAAGA
* * *
23009134 GAAACATTGTTTCCCTATTATTAAAAGTATATGATT
1 GGAACATTGTTT-CCTATTATTGAAAGTATGTGATT
23009170 AATTGTGAGC
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
43 51 0.72
44 20 0.28
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (43 bp):
GGAACATTGTTTCCTATTATTGAAAGTATGTGATTGATTAAGA
Found at i:23009470 original size:46 final size:46
Alignment explanation
Indices: 23009417--23009505 Score: 135
Period size: 46 Copynumber: 1.9 Consensus size: 46
23009407 GCATTATTCG
*
23009417 TTATTTGGCAGACTTTC-TGCACTATTGATCATTTAGTGGTTTTTCA
1 TTATTTGGCAGAC-TTCATGCACTATTGATCATTCAGTGGTTTTTCA
* *
23009463 TTATTTGGCAGACTTCATTCACTATTGATTATTCAGTGGTTTT
1 TTATTTGGCAGACTTCATGCACTATTGATCATTCAGTGGTTTT
23009506 ACCACATCGA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
45 3 0.08
46 36 0.92
ACGTcount: A:0.20, C:0.15, G:0.17, T:0.48
Consensus pattern (46 bp):
TTATTTGGCAGACTTCATGCACTATTGATCATTCAGTGGTTTTTCA
Found at i:23010166 original size:174 final size:175
Alignment explanation
Indices: 23009867--23010229 Score: 606
Period size: 174 Copynumber: 2.1 Consensus size: 175
23009857 TTGATTGGAA
* * * *
23009867 TAAAGTTTTTCAACCTATAAATAGGCGTAGTTATCTCCTCTTGTATGGATTGAATTTTCGACATT
1 TAAACTTTATCAACCTATAAATAGGCGAAGTTATCTCCTCTTGTATGGATTGAATTTTAGACATT
*
23009932 AGTGAATCTTCTTCTCCTCTGCCCGTGGTTTTTTCCCGAAAGGGTTTCCACGTAAAATC-TGAGT
66 AGTGAATCTTCTTCTCCTCTGCCCGTGGTTTTTTCCAGAAAGGGTTTCCACGTAAAATCGTGAGT
* *
23009996 TCTTTCTTTTCGTTTTCTTTGTGATATTTATTTATTGTCGTCATT
131 TCTTTCTTTTCGTTTTCTTTGCGATATTTATTCATTGTCGTCATT
23010041 TAAA-TCTTATCAACCTATAAATAGGCGAAGTTATCTCCTCTTGTATGGATTGAATTTTAGACAT
1 TAAACT-TTATCAACCTATAAATAGGCGAAGTTATCTCCTCTTGTATGGATTGAATTTTAGACAT
23010105 TAGTGAATCTTCTTCTCCTCTGCCCGTGGTTTTTTCTCAG-AAGGGTTTCCACGTAAAATCTGTG
65 TAGTGAATCTTCTTCTCCTCTGCCCGTGGTTTTTTC-CAGAAAGGGTTTCCACGTAAAATC-GTG
*
23010169 TGTTCTTTCTTTTCGTTTTCTTTGCGATATTTATTCATTGTCGTCATT
128 AGTTCTTTCTTTTCGTTTTCTTTGCGATATTTATTCATTGTCGTCATT
23010217 TAAACTTTATCAA
1 TAAACTTTATCAA
23010230 ATTGGTATCA
Statistics
Matches: 177, Mismatches: 7, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
173 1 0.01
174 115 0.65
175 2 0.01
176 58 0.33
177 1 0.01
ACGTcount: A:0.21, C:0.18, G:0.15, T:0.45
Consensus pattern (175 bp):
TAAACTTTATCAACCTATAAATAGGCGAAGTTATCTCCTCTTGTATGGATTGAATTTTAGACATT
AGTGAATCTTCTTCTCCTCTGCCCGTGGTTTTTTCCAGAAAGGGTTTCCACGTAAAATCGTGAGT
TCTTTCTTTTCGTTTTCTTTGCGATATTTATTCATTGTCGTCATT
Found at i:23012965 original size:17 final size:17
Alignment explanation
Indices: 23012943--23012981 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
23012933 AGGTGGAGAA
* *
23012943 CTTGTTCGTTGAGAGTT
1 CTTGTTCGTAGAGAATT
23012960 CTTGTTCGTAGAGAATT
1 CTTGTTCGTAGAGAATT
23012977 CTTGT
1 CTTGT
23012982 CAAGGTGGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.15, C:0.13, G:0.26, T:0.46
Consensus pattern (17 bp):
CTTGTTCGTAGAGAATT
Found at i:23014275 original size:2 final size:2
Alignment explanation
Indices: 23014268--23014299 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
23014258 CTTTAATAGT
*
23014268 TA TA TA TA TT 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
23014300 AGAGATATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:23018901 original size:20 final size:20
Alignment explanation
Indices: 23018876--23018913 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23018866 TGATCTTGTA
23018876 CCCGCCCCATCCCCACCAAT
1 CCCGCCCCATCCCCACCAAT
* *
23018896 CCCGCCTCATTCCCACCA
1 CCCGCCCCATCCCCACCA
23018914 GCCTCGCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.18, C:0.63, G:0.05, T:0.13
Consensus pattern (20 bp):
CCCGCCCCATCCCCACCAAT
Found at i:23018963 original size:16 final size:17
Alignment explanation
Indices: 23018928--23018962 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
23018918 CGCATAATAC
23018928 AATAAGCATATTTAAAA
1 AATAAGCATATTTAAAA
23018945 AATAAGCAT-TTATAAAA
1 AATAAGCATATT-TAAAA
23018962 A
1 A
23018963 TTTAATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 2 0.12
17 15 0.88
ACGTcount: A:0.60, C:0.06, G:0.06, T:0.29
Consensus pattern (17 bp):
AATAAGCATATTTAAAA
Found at i:23029084 original size:71 final size:71
Alignment explanation
Indices: 23028942--23029094 Score: 236
Period size: 71 Copynumber: 2.2 Consensus size: 71
23028932 GTTCATAATA
* * *
23028942 GTATCGGTAGAAGATGTAGTGTAGGACTTCTTAGCTCTCTAGAGTTTTTAGTATCGGTAGAGGTC
1 GTATCGGTAGAAGATGCAGTGTAGGACTTCTTAGCTCTCTAGAGTTTTTAGTATAGGTAGAAGTC
23029007 TCACTT
66 TCACTT
* *
23029013 GTATCGATAGAAGATGCAGTGTAGGACTTCTTAGCTCTCTGGAGTTTTTAGTATAGGTAGAAG-C
1 GTATCGGTAGAAGATGCAGTGTAGGACTTCTTAGCTCTCTAGAGTTTTTAGTATAGGTAGAAGTC
*
23029077 ATGACTT
66 -TCACTT
23029084 GTATCGGTAGA
1 GTATCGGTAGA
23029095 TGTCTCACTT
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
70 1 0.01
71 73 0.99
ACGTcount: A:0.25, C:0.13, G:0.27, T:0.35
Consensus pattern (71 bp):
GTATCGGTAGAAGATGCAGTGTAGGACTTCTTAGCTCTCTAGAGTTTTTAGTATAGGTAGAAGTC
TCACTT
Found at i:23029092 original size:21 final size:21
Alignment explanation
Indices: 23029063--23029116 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
23029053 GGAGTTTTTA
* *
23029063 GTATAGGTAGAAG-CATGACTT
1 GTATCGGTAGAAGTC-TCACTT
*
23029084 GTATCGGTAGATGTCTCACTT
1 GTATCGGTAGAAGTCTCACTT
23029105 GTATCGGTAGAA
1 GTATCGGTAGAA
23029117 CTGTCATAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.31
Consensus pattern (21 bp):
GTATCGGTAGAAGTCTCACTT
Found at i:23030055 original size:2 final size:2
Alignment explanation
Indices: 23030048--23030094 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
23030038 ATCATGGCCA
* *
23030048 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AT AT AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
23030090 AC AC A
1 AC AC A
23030095 TGTTATTCAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.45, G:0.00, T:0.04
Consensus pattern (2 bp):
AC
Found at i:23037187 original size:17 final size:18
Alignment explanation
Indices: 23037157--23037190 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
23037147 TAAGAAATAA
*
23037157 TTTTTATAATTTCTAAAT
1 TTTTTATAACTTCTAAAT
23037175 TTTTTAT-ACTTCTAAA
1 TTTTTATAACTTCTAAA
23037191 CTCTTCTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTATAACTTCTAAAT
Found at i:23038074 original size:22 final size:22
Alignment explanation
Indices: 23038061--23038115 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
23038051 TATTTTAATC
23038061 TTAAATTTACTTTAAATTCAAT
1 TTAAATTTACTTTAAATTCAAT
* * *
23038083 TTAAATTTAAATTTGAATTTAAT
1 TTAAATTT-ACTTTAAATTCAAT
23038106 TTAAAATTTA
1 TT-AAATTTA
23038116 ATATTATTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 8 0.29
23 14 0.50
24 6 0.21
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAAATTTACTTTAAATTCAAT
Found at i:23038091 original size:6 final size:6
Alignment explanation
Indices: 23038044--23038116 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
23038034 CATTTGAAAA
* * *
23038044 TTAAAT TT--AT TTTAAT CTTAAAT TT-ACT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
23038089 TTAAAT TTGAAT TT-AAT TTAAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TT-AAAT TTAA
23038117 TATTATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.07
5 13 0.24
6 27 0.50
7 10 0.19
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:23038091 original size:17 final size:17
Alignment explanation
Indices: 23038064--23038131 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
23038054 TTTAATCTTA
*
23038064 AATTTACTTTAAA-TTC
1 AATTTAATTTAAATTTC
*
23038080 AATTTAAATTTAAATTTG
1 AATTT-AATTTAAATTTC
23038098 AATTTAATTTAAAATTT-
1 AATTTAATTT-AAATTTC
23038115 AATATT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
23038132 AAAAAGAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.11
17 24 0.53
18 16 0.36
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (17 bp):
AATTTAATTTAAATTTC
Found at i:23038101 original size:12 final size:12
Alignment explanation
Indices: 23038044--23038116 Score: 57
Period size: 11 Copynumber: 6.3 Consensus size: 12
23038034 CATTTGAAAA
23038044 TTAAATTT--AT
1 TTAAATTTAAAT
*
23038054 TTTAATCTTAAAT
1 TTAAAT-TTAAAT
*
23038067 TT-ACTTTAAA-
1 TTAAATTTAAAT
*
23038077 TTCAATTTAAAT
1 TTAAATTTAAAT
*
23038089 TTAAATTTGAAT
1 TTAAATTTAAAT
23038101 TT-AATTTAAAAT
1 TTAAATTT-AAAT
23038113 TTAA
1 TTAA
23038117 TATTATTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
10 7 0.14
11 19 0.38
12 19 0.38
13 5 0.10
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (12 bp):
TTAAATTTAAAT
Found at i:23038117 original size:12 final size:11
Alignment explanation
Indices: 23038041--23038117 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 11
23038031 AACCATTTGA
*
23038041 AAATTAAATTT
1 AAATTTAATTT
*
23038052 -ATTTTAATCTT
1 AAATTTAAT-TT
*
23038063 AAATTTACTTT
1 AAATTTAATTT
*
23038074 AAATTCAATTT
1 AAATTTAATTT
23038085 AAATTTAAATTT
1 AAATTT-AATTT
*
23038097 GAATTTAATTT
1 AAATTTAATTT
23038108 AAAATTTAAT
1 -AAATTTAAT
23038118 ATTATTATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
10 6 0.11
11 23 0.43
12 24 0.45
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:23038252 original size:12 final size:12
Alignment explanation
Indices: 23038229--23038274 Score: 65
Period size: 12 Copynumber: 3.6 Consensus size: 12
23038219 AAATTACAAT
23038229 GGCCCAAATTAAA
1 GGCCC-AATTAAA
23038242 GGCCCAATTAAA
1 GGCCCAATTAAA
23038254 GGCCCAATTACAA
1 GGCCCAATTA-AA
23038267 TGGCCCAA
1 -GGCCCAA
23038275 ATAGGCCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.55
13 7 0.23
14 7 0.23
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.15
Consensus pattern (12 bp):
GGCCCAATTAAA
Found at i:23039230 original size:22 final size:22
Alignment explanation
Indices: 23039202--23039244 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23039192 AATAAAGAAC
*
23039202 ACAAAAAATGAA-GAATAAAAGA
1 ACAAAAAAGGAAGGAA-AAAAGA
23039224 ACAAAAAAGGAAGGAAAAAAG
1 ACAAAAAAGGAAGGAAAAAAG
23039245 GGGAAGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.05
Consensus pattern (22 bp):
ACAAAAAAGGAAGGAAAAAAGA
Found at i:23039964 original size:163 final size:162
Alignment explanation
Indices: 23039690--23040004 Score: 427
Period size: 163 Copynumber: 1.9 Consensus size: 162
23039680 GCTTTCAATT
* * * * *
23039690 TAGTCCTTTGACTGTTTGATTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATCATTTCTGCAT
1 TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACATGTCACTTTCTGGATCATTTATGCAT
* ** *
23039755 TTAGTCCCTGACACTTCTAATTTGTTTTAATTTAATCCCCAAATCAAC-TTTATTTTAATTACGA
66 ATAGTCCCTGACACTTCTAATTCATTTTAATTTAATCCCCAAATCAACTTTTA-TTAAATTACGA
23039819 AATTGGCCCAATAATTTTTTCAAGGTTTATAAAC
130 AATTGGCCCAA-AATTTTTTCAAGGTTTATAAAC
* *
23039853 TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTTCCACATGTCACTTTCTGGATTATTTATGCAT
1 TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACATGTCACTTTCTGGATCATTTATGCAT
** * * * **
23039918 ATAGT-CCTTTCTATTTTTAATTCATTTTAATTTAGTCCTTAAATCAACTTTTATTAAATTACGA
66 ATAGTCCCTGAC-ACTTCTAATTCATTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGA
23039982 AATTGGCCCAAAATTTTTTCAAG
130 AATTGGCCCAAAATTTTTTCAAG
23040005 ATTTTCAAAT
Statistics
Matches: 132, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
162 16 0.12
163 112 0.85
164 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (162 bp):
TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACATGTCACTTTCTGGATCATTTATGCAT
ATAGTCCCTGACACTTCTAATTCATTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGAA
ATTGGCCCAAAATTTTTTCAAGGTTTATAAAC
Found at i:23040149 original size:30 final size:30
Alignment explanation
Indices: 23040097--23040575 Score: 679
Period size: 30 Copynumber: 15.9 Consensus size: 30
23040087 CCCTAAATTG
* *
23040097 TCCAGAAATTATATTTTAACCCCAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
*
23040128 TCCAAAACTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * *
23040158 TTCGAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
23040188 TCCAAAATTACATTTTGACCACAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
23040218 TCCAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23040248 TTCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*** * *
23040278 TTTGAAATTATATTTTGACCTCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23040308 TCCAAAATTACTTTTTGACCTCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23040338 TCTAAAATTACATTTCGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23040368 TCCAAAATTACATTTTAACCCCAAAAGTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23040398 TCCAAAATTATATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23040428 TCCAAAATTACATTTTGACCCTAAAACTTA
1 TCCAAAATTACATTTTGACCCCAAAACTTT
23040458 TCCAAAATTACATTTTTGACCCCCAAAACTTT
1 TCCAAAATTACA-TTTTGA-CCCCAAAACTTT
*
23040490 TCCAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
23040520 TCCAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
23040550 TCCAAAATTACATTTTGACCCAAAAA
1 TCCAAAATTACATTTTGACCCCAAAA
23040576 ATCTCCTAAA
Statistics
Matches: 402, Mismatches: 44, Indels: 5
0.89 0.10 0.01
Matches are distributed among these distances:
30 365 0.91
31 15 0.04
32 22 0.05
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:23040203 original size:15 final size:15
Alignment explanation
Indices: 23040185--23040233 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
23040175 ACCCCAAAAC
23040185 TTTTCCAAAATTACA
1 TTTTCCAAAATTACA
23040200 TTTTGACCACAAA--AC-
1 TTTT--CCA-AAATTACA
23040215 TTTTCCAAAATTACA
1 TTTTCCAAAATTACA
23040230 TTTT
1 TTTT
23040234 AACCCCAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 12
0.70 0.00 0.30
Matches are distributed among these distances:
12 3 0.11
13 3 0.11
14 2 0.07
15 12 0.43
16 2 0.07
17 3 0.11
18 3 0.11
ACGTcount: A:0.37, C:0.20, G:0.02, T:0.41
Consensus pattern (15 bp):
TTTTCCAAAATTACA
Found at i:23041716 original size:10 final size:10
Alignment explanation
Indices: 23041697--23041728 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
23041687 TAGACCGATG
23041697 TTTT-AACGT
1 TTTTAAACGT
23041706 TTTTAAACGT
1 TTTTAAACGT
23041716 TTTTAAACGT
1 TTTTAAACGT
23041726 TTT
1 TTT
23041729 GTGGTGATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.56
Consensus pattern (10 bp):
TTTTAAACGT
Found at i:23052542 original size:68 final size:68
Alignment explanation
Indices: 23052433--23052940 Score: 822
Period size: 68 Copynumber: 7.5 Consensus size: 68
23052423 AAGATCATTT
* *
23052433 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTTTTCATCTCTGAAATTGAAGAAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGAGCA
23052498 ATG
66 ATG
*
23052501 TCATCCCTTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGAGCA
23052566 ATG
66 ATG
*
23052569 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGTTTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGAGCA
*
23052634 ACG
66 ATG
* * * *
23052637 TCAGCCTCTTGAAATTGAAGTAGAGTGGATATCAAGTCTTT-ATCTCTGAAATTGAAGTAAGAGC
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG-CTTTCATCTCTGAAATTGAAGTAAGAGC
23052701 AATG
65 AATG
*
23052705 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG-TCTTCGTCTCTGAAATTGAAGTAAGAGC
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCT-TTCATCTCTGAAATTGAAGTAAGAGC
23052769 AATG
65 AATG
*
23052773 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTAAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGAGCA
*
23052838 ACG
66 ATG
* *
23052841 TCATCCTCTTGAAATTGAAGTAGAGTGGATAACACGTTTTCATCTCTGAAATTGAAGTAAGAGCA
1 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGAGCA
*
23052906 ACG
66 ATG
* *
23052909 TCATCCTCTTGAAATTGAAGTAAAGTTGGATA
1 TCATCCCCTTGAAATTGAAGTAGAG-TGGATA
23052941 GCAAAGTCTT
Statistics
Matches: 411, Mismatches: 24, Indels: 9
0.93 0.05 0.02
Matches are distributed among these distances:
66 1 0.00
67 2 0.00
68 398 0.97
69 10 0.02
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (68 bp):
TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTTTCATCTCTGAAATTGAAGTAAGAGCA
ATG
Found at i:23052582 original size:31 final size:31
Alignment explanation
Indices: 23052540--23052931 Score: 171
Period size: 31 Copynumber: 11.7 Consensus size: 31
23052530 TAACACGCTT
23052540 TCAT-CTC-TGAAATTGAAGTAAGAGCAATG
1 TCATCCTCTTGAAATTGAAGTAAGAGCAATG
* ** *
23052569 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG
1 TCATCCTCTTGAAATTGAAGTA-A---GAGCA-ATG
** * *
23052605 TTTTCATCTCTGAAATTGAAGTAAGAGCAACG
1 TCATCCTCT-TGAAATTGAAGTAAGAGCAATG
* * *
23052637 TCAGCCTCTTGAAATTGAAGTAGAGTGGATATCAAG
1 TCATCCTCTTGAAATTGAAGTA-AGAGCA-AT---G
* **
23052673 TCTTTATCTCTGAAATTGAAGTAAGAGCAATG
1 TCATCCTCT-TGAAATTGAAGTAAGAGCAATG
* ** *
23052705 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACG
1 TCATCCTCTTGAAATTGAAGTA-A---GAGCA-ATG
* *
23052741 TCTTCGTCTCTGAAATTGAAGTAAGAGCAATG
1 TCATCCTCT-TGAAATTGAAGTAAGAGCAATG
* * * *
23052773 TCATCCCCTTGAAATTGAAGTAGAGTGGATAACACGCTT
1 TCATCCTCTTGAAATTGAAGTA-A---G--AGCA--ATG
* *
23052812 TCAT-CTC-TAAAATTGAAGTAAGAGCAACG
1 TCATCCTCTTGAAATTGAAGTAAGAGCAATG
** *
23052841 TCATCCTCTTGAAATTGAAGTAGAGTGGATAACACG
1 TCATCCTCTTGAAATTGAAGTA-A---GAGCA-ATG
** * *
23052877 TTTTCATCTCTGAAATTGAAGTAAGAGCAACG
1 TCATCCTCT-TGAAATTGAAGTAAGAGCAATG
23052909 TCATCCTCTTGAAATTGAAGTAA
1 TCATCCTCTTGAAATTGAAGTAA
23052932 AGTTGGATAG
Statistics
Matches: 268, Mismatches: 59, Indels: 70
0.68 0.15 0.18
Matches are distributed among these distances:
29 8 0.03
30 5 0.02
31 81 0.30
32 39 0.15
33 11 0.04
35 12 0.04
36 38 0.14
37 67 0.25
38 2 0.01
39 5 0.02
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.29
Consensus pattern (31 bp):
TCATCCTCTTGAAATTGAAGTAAGAGCAATG
Found at i:23053280 original size:6 final size:6
Alignment explanation
Indices: 23053233--23053305 Score: 57
Period size: 6 Copynumber: 12.7 Consensus size: 6
23053223 CATTTAAAAA
* * *
23053233 TTAAAT TT--AT TTTAAT CTTAAAT TT-ACT TTAAA- TTCAAT TTAAAT
1 TTAAAT TTAAAT TTAAAT -TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
*
23053278 TTAAAT TTGAAT TT-AAT TTAAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TT-AAAT TTAA
23053306 TATTATTATA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
4 4 0.07
5 13 0.24
6 27 0.50
7 10 0.19
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:23053280 original size:17 final size:17
Alignment explanation
Indices: 23053253--23053320 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 17
23053243 TTTAATCTTA
*
23053253 AATTTACTTTAAA-TTC
1 AATTTAATTTAAATTTC
*
23053269 AATTTAAATTTAAATTTG
1 AATTT-AATTTAAATTTC
23053287 AATTTAATTTAAAATTT-
1 AATTTAATTT-AAATTTC
23053304 AATATT-ATTATAAATTT
1 AAT-TTAATT-TAAATTT
23053321 AAAAAGAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
16 5 0.11
17 24 0.53
18 16 0.36
ACGTcount: A:0.44, C:0.03, G:0.01, T:0.51
Consensus pattern (17 bp):
AATTTAATTTAAATTTC
Found at i:23053290 original size:12 final size:12
Alignment explanation
Indices: 23053233--23053305 Score: 57
Period size: 11 Copynumber: 6.3 Consensus size: 12
23053223 CATTTAAAAA
23053233 TTAAATTT--AT
1 TTAAATTTAAAT
*
23053243 TTTAATCTTAAAT
1 TTAAAT-TTAAAT
*
23053256 TT-ACTTTAAA-
1 TTAAATTTAAAT
*
23053266 TTCAATTTAAAT
1 TTAAATTTAAAT
*
23053278 TTAAATTTGAAT
1 TTAAATTTAAAT
23053290 TT-AATTTAAAAT
1 TTAAATTT-AAAT
23053302 TTAA
1 TTAA
23053306 TATTATTATA
Statistics
Matches: 50, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
10 7 0.14
11 19 0.38
12 19 0.38
13 5 0.10
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.52
Consensus pattern (12 bp):
TTAAATTTAAAT
Found at i:23053306 original size:12 final size:11
Alignment explanation
Indices: 23053230--23053306 Score: 75
Period size: 12 Copynumber: 6.8 Consensus size: 11
23053220 AACCATTTAA
*
23053230 AAATTAAATTT
1 AAATTTAATTT
*
23053241 -ATTTTAATCTT
1 AAATTTAAT-TT
*
23053252 AAATTTACTTT
1 AAATTTAATTT
*
23053263 AAATTCAATTT
1 AAATTTAATTT
23053274 AAATTTAAATTT
1 AAATTT-AATTT
*
23053286 GAATTTAATTT
1 AAATTTAATTT
23053297 AAAATTTAAT
1 -AAATTTAAT
23053307 ATTATTATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
10 6 0.11
11 23 0.43
12 24 0.45
ACGTcount: A:0.44, C:0.04, G:0.01, T:0.51
Consensus pattern (11 bp):
AAATTTAATTT
Found at i:23053441 original size:12 final size:12
Alignment explanation
Indices: 23053418--23053463 Score: 65
Period size: 12 Copynumber: 3.6 Consensus size: 12
23053408 AAATTACAAT
23053418 GGCCCAAATTAAA
1 GGCCC-AATTAAA
23053431 GGCCCAATTAAA
1 GGCCCAATTAAA
23053443 GGCCCAATTACAA
1 GGCCCAATTA-AA
23053456 TGGCCCAA
1 -GGCCCAA
23053464 ATAGGCCCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
12 17 0.55
13 7 0.23
14 7 0.23
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.15
Consensus pattern (12 bp):
GGCCCAATTAAA
Found at i:23054416 original size:22 final size:22
Alignment explanation
Indices: 23054388--23054430 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
23054378 AATAAAGAAC
*
23054388 ACAAAAAATGAA-GAATAAAAGA
1 ACAAAAAAGGAAGGAA-AAAAGA
23054410 ACAAAAAAGGAAGGAAAAAAG
1 ACAAAAAAGGAAGGAAAAAAG
23054431 GGGAAGAGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.72, C:0.05, G:0.19, T:0.05
Consensus pattern (22 bp):
ACAAAAAAGGAAGGAAAAAAGA
Found at i:23055149 original size:163 final size:162
Alignment explanation
Indices: 23054875--23055189 Score: 436
Period size: 163 Copynumber: 1.9 Consensus size: 162
23054865 GCTTTCAATT
* * * *
23054875 TAGTCCTTTGACTGTTTGATTGTACCAGAGGCTGCCACGTGTCATTTTTTGGATCATTTCTGCAT
1 TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACATGTCACTTTTTGGATCATTTATGCAT
* ** *
23054940 TTAGTCCCTGACACTTCTAATTTGTTTTAATTTAATCCCCAAATCAAC-TTTATTTTAATTACGA
66 ATAGTCCCTGACACTTCTAATTCATTTTAATTTAATCCCCAAATCAACTTTTA-TTAAATTACGA
23055004 AATTGGCCCAATAATTTTTTCAAGGTTTATAAAC
130 AATTGGCCCAA-AATTTTTTCAAGGTTTATAAAC
* *
23055038 TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTTCCACATGTCACTTTTTGGATTATTTATGCAT
1 TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACATGTCACTTTTTGGATCATTTATGCAT
** * * * **
23055103 ATAGT-CCTTTCTATTTTTAATTCATTTTAATTTAGTCCTTAAATCAACTTTTATTAAATTACGA
66 ATAGTCCCTGAC-ACTTCTAATTCATTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGA
23055167 AATTGGCCCAAAATTTTTTCAAG
130 AATTGGCCCAAAATTTTTTCAAG
23055190 ATTTTCAAAT
Statistics
Matches: 133, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
162 16 0.12
163 113 0.85
164 4 0.03
ACGTcount: A:0.26, C:0.18, G:0.13, T:0.43
Consensus pattern (162 bp):
TAGTCCTTTGACTGTTTGACTGTACCAGAGGCTGCCACATGTCACTTTTTGGATCATTTATGCAT
ATAGTCCCTGACACTTCTAATTCATTTTAATTTAATCCCCAAATCAACTTTTATTAAATTACGAA
ATTGGCCCAAAATTTTTTCAAGGTTTATAAAC
Found at i:23055339 original size:30 final size:30
Alignment explanation
Indices: 23055282--23055788 Score: 735
Period size: 30 Copynumber: 16.9 Consensus size: 30
23055272 CCCTAAATTG
* * *
23055282 TCCAGAAATTATATTTTAACCCTAAAACTTT
1 TCCA-AAATTACATTTTGACCCCAAAACTTT
*
23055313 TCCAAAACTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* * *
23055343 TTCGAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
23055373 TCCAAAATTACATTTTGACCCTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
23055403 TCCAAAATTACATTTTAACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23055433 TTCAAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*** *
23055463 TTTGAAATTATATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23055493 TCCAAAATTACATTTTAACCTCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23055523 TCTAAAATTACATTTCGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23055553 TCCAAAATTATATTTCGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
23055583 TCCAAAATTACATTTTGACCCCAAGACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
23055613 TCCAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
23055643 TCCAAAATTACATTTTGACCACAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23055673 TCCAAAATTACATTTTAACCCCAAAACATT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
**
23055703 TCCAAAATTACATTTTGACCTTAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
*
23055733 TCTAAAATTACATTTTGACCCCAAAACTTT
1 TCCAAAATTACATTTTGACCCCAAAACTTT
* *
23055763 TCCAAAATTACATTTTAACCCAAAAA
1 TCCAAAATTACATTTTGACCCCAAAA
23055789 ATCTCCTAAA
Statistics
Matches: 427, Mismatches: 49, Indels: 1
0.90 0.10 0.00
Matches are distributed among these distances:
30 423 0.99
31 4 0.01
ACGTcount: A:0.38, C:0.24, G:0.03, T:0.35
Consensus pattern (30 bp):
TCCAAAATTACATTTTGACCCCAAAACTTT
Found at i:23055894 original size:30 final size:30
Alignment explanation
Indices: 23055801--23055896 Score: 88
Period size: 29 Copynumber: 3.2 Consensus size: 30
23055791 CTCCTAAATC
** *
23055801 CCATTTTTAACCATGATTTCACCAAAATTTA
1 CCATTTTTAACCCCGATATCACCAAAA-TTA
* * * ***
23055832 CCA-TTTTACCCCCGAAACCTTTAAAATT-
1 CCATTTTTAACCCCGATATCACCAAAATTA
23055860 CCATTTTTAACCCCGATATCACCAAAATTA
1 CCATTTTTAACCCCGATATCACCAAAATTA
23055890 CCATTTT
1 CCATTTT
23055897 GCCCCCAGGT
Statistics
Matches: 48, Mismatches: 15, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
28 3 0.06
29 21 0.44
30 21 0.44
31 3 0.06
ACGTcount: A:0.33, C:0.28, G:0.03, T:0.35
Consensus pattern (30 bp):
CCATTTTTAACCCCGATATCACCAAAATTA
Found at i:23056930 original size:10 final size:10
Alignment explanation
Indices: 23056911--23056942 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
23056901 TAGACCGATG
23056911 TTTT-AACGT
1 TTTTAAACGT
23056920 TTTTAAACGT
1 TTTTAAACGT
23056930 TTTTAAACGT
1 TTTTAAACGT
23056940 TTT
1 TTT
23056943 GTGGTGATCC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.25, C:0.09, G:0.09, T:0.56
Consensus pattern (10 bp):
TTTTAAACGT
Found at i:23058359 original size:18 final size:18
Alignment explanation
Indices: 23058317--23058360 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
23058307 TTTATTTAGT
23058317 AATG-TTTTTATCTCAAA
1 AATGCTTTTTATCTCAAA
* * *
23058334 AGTACTTTTTGTCTCAAA
1 AATGCTTTTTATCTCAAA
23058352 AATGCTTTT
1 AATGCTTTT
23058361 GAGAAGCAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.48
Consensus pattern (18 bp):
AATGCTTTTTATCTCAAA
Found at i:23059441 original size:20 final size:20
Alignment explanation
Indices: 23059402--23059447 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
23059392 TAAGTTTAAG
*
23059402 TCATAAACAGTGAGATTATA
1 TCATAAACAGTGAGAATATA
* *
23059422 TCATGAACAGTGATAATATA
1 TCATAAACAGTGAGAATATA
23059442 T-ATAAA
1 TCATAAA
23059448 TACCCGAATG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.48, C:0.09, G:0.13, T:0.30
Consensus pattern (20 bp):
TCATAAACAGTGAGAATATA
Found at i:23061140 original size:23 final size:22
Alignment explanation
Indices: 23061097--23061157 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
23061087 ATTCAGTTCG
* *
23061097 GTCAAAGTCAATGATCCGATTTA
1 GTCAAAGTCAACGGTCCGA-TTA
* *
23061120 GTCAAAGTCAACGGTCTGATTC
1 GTCAAAGTCAACGGTCCGATTA
*
23061142 GATCAAATTCAACGGT
1 G-TCAAAGTCAACGGT
23061158 TTGGGTCAAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
22 3 0.09
23 29 0.91
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (22 bp):
GTCAAAGTCAACGGTCCGATTA
Found at i:23063147 original size:17 final size:16
Alignment explanation
Indices: 23063125--23063240 Score: 102
Period size: 17 Copynumber: 7.2 Consensus size: 16
23063115 AACCATTTTA
23063125 AAATTTACTTTGAAA-TT
1 AAATTTA-TTT-AAATTT
23063142 AAATTTATTTTAAATTT
1 AAATTTA-TTTAAATTT
23063159 AAATTTAATTTAAATTT
1 AAATTT-ATTTAAATTT
23063176 AAATTTATTTAAATTT
1 AAATTTATTTAAATTT
*
23063192 --A---ATTTAAGTTT
1 AAATTTATTTAAATTT
*
23063203 GAATTTAATTTAAATTT
1 AAATTT-ATTTAAATTT
23063220 -AATATTATTATAAATTT
1 AAAT-TTATT-TAAATTT
23063237 AAAT
1 AAAT
23063241 GTCCAAATTA
Statistics
Matches: 85, Mismatches: 3, Indels: 21
0.78 0.03 0.19
Matches are distributed among these distances:
11 9 0.11
13 1 0.01
14 1 0.01
16 19 0.22
17 51 0.60
18 4 0.05
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.53
Consensus pattern (16 bp):
AAATTTATTTAAATTT
Found at i:23063156 original size:11 final size:11
Alignment explanation
Indices: 23063140--23063238 Score: 91
Period size: 11 Copynumber: 8.9 Consensus size: 11
23063130 TACTTTGAAA
*
23063140 TTAAATTTATT
1 TTAAATTTAAT
23063151 TTAAATTTAAAT
1 TTAAATTT-AAT
23063163 TT-AATTTAAAT
1 TTAAATTT-AAT
23063174 TTAAATTT-AT
1 TTAAATTTAAT
23063184 TTAAATTTAAT
1 TTAAATTTAAT
*
23063195 TTAAGTTTGAAT
1 TTAAATTT-AAT
23063207 TT-AATTTAAAT
1 TTAAATTT-AAT
23063218 TT-AATATT-AT
1 TTAAAT-TTAAT
23063228 TATAAATTTAA
1 T-TAAATTTAA
23063239 ATGTCCAAAT
Statistics
Matches: 76, Mismatches: 4, Indels: 15
0.80 0.04 0.16
Matches are distributed among these distances:
10 13 0.17
11 43 0.57
12 20 0.26
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:23063185 original size:27 final size:28
Alignment explanation
Indices: 23063140--23063238 Score: 116
Period size: 28 Copynumber: 3.6 Consensus size: 28
23063130 TACTTTGAAA
*
23063140 TTAAATTT-ATTTTAAATTTAAATTTAAT
1 TTAAATTTAAATTT-AATTTAAATTTAAT
23063168 TTAAATTTAAATTT-ATTTAAATTTAAT
1 TTAAATTTAAATTTAATTTAAATTTAAT
* *
23063195 TTAAGTTTGAATTTAATTTAAATTTAAT
1 TTAAATTTAAATTTAATTTAAATTTAAT
23063223 ATT--ATTATAAATTTAA
1 -TTAAATT-TAAATTTAA
23063239 ATGTCCAAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
27 27 0.44
28 29 0.47
29 6 0.10
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (28 bp):
TTAAATTTAAATTTAATTTAAATTTAAT
Found at i:23063240 original size:6 final size:6
Alignment explanation
Indices: 23063140--23063221 Score: 95
Period size: 6 Copynumber: 14.7 Consensus size: 6
23063130 TACTTTGAAA
*
23063140 TTAAAT TT-ATT TTAAAT TTAAAT TT-AAT TTAAAT TTAAAT TT--AT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT
* *
23063184 TTAAAT TT-AAT TTAAGT TTGAAT TT-AAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAA
23063222 TATTATTATA
Statistics
Matches: 65, Mismatches: 5, Indels: 12
0.79 0.06 0.15
Matches are distributed among these distances:
4 4 0.06
5 19 0.29
6 42 0.65
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (6 bp):
TTAAAT
Found at i:23064079 original size:13 final size:13
Alignment explanation
Indices: 23064057--23064106 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
23064047 TTGATAACAG
23064057 TAATAATAAATAT
1 TAATAATAAATAT
* *
23064070 TAATATTAAATAA
1 TAATAATAAATAT
*
23064083 TATTAATAAAATAT
1 TAATAAT-AAATAT
23064097 TAATAATAAA
1 TAATAATAAA
23064107 ATAGTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
13 19 0.63
14 11 0.37
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TAATAATAAATAT
Found at i:23064103 original size:14 final size:14
Alignment explanation
Indices: 23064057--23064109 Score: 65
Period size: 14 Copynumber: 3.9 Consensus size: 14
23064047 TTGATAACAG
23064057 TAATAAT-AAATAT
1 TAATAATAAAATAT
* *
23064070 TAAT-ATTAAATAA
1 TAATAATAAAATAT
*
23064083 TATTAATAAAATAT
1 TAATAATAAAATAT
23064097 TAATAATAAAATA
1 TAATAATAAAATA
23064110 GTAAAAAGAA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
12 2 0.06
13 12 0.36
14 19 0.58
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATAATAAAATAT
Found at i:23065238 original size:29 final size:30
Alignment explanation
Indices: 23065133--23065313 Score: 131
Period size: 30 Copynumber: 5.9 Consensus size: 30
23065123 CCTTGAAGGT
*
23065133 CCCTAAACTATC-CAAAAATTATA-TTTTGAC
1 CCCTAAACT-TCTCAAAAATTACATTTTTG-C
**
23065163 CCCTAAACTTCTCAAAAATTACATTTTAAC
1 CCCTAAACTTCTCAAAAATTACATTTTTGC
* *
23065193 CTCGAAACTTCT-AAAAATTACATTTTTGC
1 CCCTAAACTTCTCAAAAATTACATTTTTGC
*
23065222 CCCTAACACTTC-CAAAAATGGATTATATTTTTGC
1 CCCTAA-ACTTCTC-AAAA---ATTACATTTTTGC
* *
23065256 CCCCAGAACTT-TCAAAAATTCCATTTTTGAC
1 CCCTA-AACTTCTCAAAAATTACATTTTTG-C
* * *
23065287 CTCGAAACTT-TTAAAAATTACCATTTT
1 CCCTAAACTTCTCAAAAATTA-CATTTT
23065314 ACCTTCGGAT
Statistics
Matches: 122, Mismatches: 17, Indels: 23
0.75 0.10 0.14
Matches are distributed among these distances:
29 21 0.17
30 58 0.48
31 17 0.14
33 4 0.03
34 21 0.17
35 1 0.01
ACGTcount: A:0.36, C:0.24, G:0.05, T:0.35
Consensus pattern (30 bp):
CCCTAAACTTCTCAAAAATTACATTTTTGC
Found at i:23065272 original size:34 final size:34
Alignment explanation
Indices: 23065209--23065274 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
23065199 ACTTCTAAAA
*
23065209 ATTACATTTTTGCCCCTAACACTTCCAAAAATGG
1 ATTACATTTTTGCCCCCAACACTTCCAAAAATGG
* *
23065243 ATTATATTTTTGCCCCCAGA-ACTTTCAAAAAT
1 ATTACATTTTTGCCCCCA-ACACTTCCAAAAAT
23065275 TCCATTTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 27 0.96
35 1 0.04
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.35
Consensus pattern (34 bp):
ATTACATTTTTGCCCCCAACACTTCCAAAAATGG
Found at i:23067489 original size:23 final size:25
Alignment explanation
Indices: 23067459--23067504 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
23067449 AAGAGGAAGA
23067459 ACAAC-AAAA-AAAATATTATGCGG
1 ACAACAAAAAGAAAATATTATGCGG
23067482 ACAACAAAAAGAAAATATTATGC
1 ACAACAAAAAGAAAATATTATGC
23067505 ATTAATTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 5 0.24
24 4 0.19
25 12 0.57
ACGTcount: A:0.59, C:0.13, G:0.11, T:0.17
Consensus pattern (25 bp):
ACAACAAAAAGAAAATATTATGCGG
Found at i:23069353 original size:16 final size:14
Alignment explanation
Indices: 23069336--23069362 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
23069326 GACTATATAA
23069336 AAAATTTTATAAAT
1 AAAATTTTATAAAT
23069350 AAAATTTTATAAA
1 AAAATTTTATAAA
23069363 ATTATTAAAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AAAATTTTATAAAT
Found at i:23075653 original size:7 final size:7
Alignment explanation
Indices: 23075641--23075670 Score: 60
Period size: 7 Copynumber: 4.3 Consensus size: 7
23075631 ATATATATAC
23075641 AGTGAAG
1 AGTGAAG
23075648 AGTGAAG
1 AGTGAAG
23075655 AGTGAAG
1 AGTGAAG
23075662 AGTGAAG
1 AGTGAAG
23075669 AG
1 AG
23075671 AGTGGGACCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.43, T:0.13
Consensus pattern (7 bp):
AGTGAAG
Found at i:23078460 original size:23 final size:23
Alignment explanation
Indices: 23078434--23078481 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
23078424 TACTTCTAGT
* *
23078434 TTTTATTCGCCTTTGTGGCACGC
1 TTTTACTCGACTTTGTGGCACGC
* *
23078457 TTTTCCTCTACTTTGTGGCACGC
1 TTTTACTCGACTTTGTGGCACGC
23078480 TT
1 TT
23078482 CTGTCTTATG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.08, C:0.27, G:0.19, T:0.46
Consensus pattern (23 bp):
TTTTACTCGACTTTGTGGCACGC
Found at i:23078953 original size:11 final size:10
Alignment explanation
Indices: 23078919--23078944 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
23078909 CATATTATTC
23078919 AAAAAAATAT
1 AAAAAAATAT
23078929 AAAAAAATAT
1 AAAAAAATAT
23078939 AAAAAA
1 AAAAAA
23078945 TTAATAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (10 bp):
AAAAAAATAT
Found at i:23080372 original size:29 final size:30
Alignment explanation
Indices: 23080324--23080390 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
23080314 TCAAATTATT
*
23080324 AATGAT-AAAATTATATTTTACTCTTTAAA
1 AATGATAAAAATTATATTTTAATCTTTAAA
*
23080353 AATGATAAAAATT-TGA-TTTAATTTTTAAA
1 AATGATAAAAATTAT-ATTTTAATCTTTAAA
*
23080382 AATTATAAA
1 AATGATAAA
23080391 TATATAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 26 0.79
30 7 0.21
ACGTcount: A:0.49, C:0.03, G:0.04, T:0.43
Consensus pattern (30 bp):
AATGATAAAAATTATATTTTAATCTTTAAA
Found at i:23081477 original size:17 final size:20
Alignment explanation
Indices: 23081455--23081503 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
23081445 CTACAAGATA
23081455 AATATTAAATTA-T-A-TTT
1 AATATTAAATTAGTCACTTT
*
23081472 AATATTAAAATAGTCACTTT
1 AATATTAAATTAGTCACTTT
23081492 AATATTAAATTA
1 AATATTAAATTA
23081504 ATAAAATACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
17 11 0.41
18 1 0.04
19 1 0.04
20 14 0.52
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.45
Consensus pattern (20 bp):
AATATTAAATTAGTCACTTT
Found at i:23081544 original size:68 final size:72
Alignment explanation
Indices: 23081417--23081548 Score: 193
Period size: 68 Copynumber: 1.9 Consensus size: 72
23081407 TTAGATTAAA
* *
23081417 TTTAATATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTATATTTAATATTAAAA
1 TTTAATATTAAATTAATAAAATATCTATCTACAAGATAAATATTAAATTATATTTAATATTAAAA
23081482 TAGTCAC
66 TAGTCAC
*
23081489 TTTAATATTAAATTAATAAAATA-CTAT-TA-AA-ATAAGTATTAAATT-TAATTTAATATTAAA
1 TTTAATATTAAATTAATAAAATATCTATCTACAAGATAAATATTAAATTAT-ATTTAATATTAAA
23081549 TCTATTAAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
67 1 0.02
68 26 0.46
69 2 0.04
70 2 0.04
71 3 0.05
72 22 0.39
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (72 bp):
TTTAATATTAAATTAATAAAATATCTATCTACAAGATAAATATTAAATTATATTTAATATTAAAA
TAGTCAC
Found at i:23081563 original size:68 final size:72
Alignment explanation
Indices: 23081419--23081566 Score: 164
Period size: 68 Copynumber: 2.1 Consensus size: 72
23081409 AGATTAAATT
* *
23081419 TAATATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTATATTTAATATTAAAATA
1 TAATATTAAATTAATAAAATATCTATCTACAAGATAAATATTAAATTATATTTAATATTAAAATA
***
23081484 GTCACTT
66 GTCAAAA
* *
23081491 TAATATTAAATTAATAAAATA-CTAT-TA-AA-ATAAGTATTAAATT-TAATTTAATATTAAATC
1 TAATATTAAATTAATAAAATATCTATCTACAAGATAAATATTAAATTAT-ATTTAATATTAAA-A
*
23081551 TA-TTAAAA
64 TAGTCAAAA
23081559 TAATATTA
1 TAATATTA
23081567 TTTTTGGAAT
Statistics
Matches: 66, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
67 1 0.02
68 36 0.55
69 4 0.06
70 2 0.03
71 3 0.05
72 20 0.30
ACGTcount: A:0.51, C:0.04, G:0.03, T:0.42
Consensus pattern (72 bp):
TAATATTAAATTAATAAAATATCTATCTACAAGATAAATATTAAATTATATTTAATATTAAAATA
GTCAAAA
Found at i:23087560 original size:23 final size:23
Alignment explanation
Indices: 23087529--23087596 Score: 66
Period size: 23 Copynumber: 2.9 Consensus size: 23
23087519 GATAATTTGC
*
23087529 ATAATAATAAAAAAATTAAAATT
1 ATAAAAATAAAAAAATTAAAATT
* *
23087552 ATAAAAATAATAAATTTAAAATT
1 ATAAAAATAAAAAAATTAAAATT
*
23087575 -TAAGAATTATATAAAAATTAAA
1 ATAA-AA--ATAAAAAAATTAAA
23087597 CATATTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
22 3 0.08
23 22 0.61
25 11 0.31
ACGTcount: A:0.66, C:0.00, G:0.01, T:0.32
Consensus pattern (23 bp):
ATAAAAATAAAAAAATTAAAATT
Found at i:23097439 original size:32 final size:33
Alignment explanation
Indices: 23097365--23097439 Score: 82
Period size: 37 Copynumber: 2.2 Consensus size: 33
23097355 AGTAACTCTC
23097365 TTATTATTTTAAATTTTTAAAAATATATATTTATAT
1 TTATTATTTTAAATTTTT---AATATATATTTATAT
*
23097401 TATATTATTTTAATATTTTT-ATATAT-TTTTTAT
1 T-TATTATTTTAA-ATTTTTAATATATATTTATAT
23097434 TTATTA
1 TTATTA
23097440 AAATTTTTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
32 5 0.14
33 7 0.19
34 6 0.17
36 1 0.03
37 11 0.31
38 6 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (33 bp):
TTATTATTTTAAATTTTTAATATATATTTATAT
Found at i:23099041 original size:65 final size:65
Alignment explanation
Indices: 23098966--23099096 Score: 262
Period size: 65 Copynumber: 2.0 Consensus size: 65
23098956 TTTTAGGGTC
23098966 TACAATTTTAGGGGTAAGATTTAGAGTTTTAGGGTTTTATAGAAAATATTAATTAATTTTTAGAA
1 TACAATTTTAGGGGTAAGATTTAGAGTTTTAGGGTTTTATAGAAAATATTAATTAATTTTTAGAA
23099031 TACAATTTTAGGGGTAAGATTTAGAGTTTTAGGGTTTTATAGAAAATATTAATTAATTTTTAGAA
1 TACAATTTTAGGGGTAAGATTTAGAGTTTTAGGGTTTTATAGAAAATATTAATTAATTTTTAGAA
23099096 T
1 T
23099097 TATATTAATA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
65 66 1.00
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.44
Consensus pattern (65 bp):
TACAATTTTAGGGGTAAGATTTAGAGTTTTAGGGTTTTATAGAAAATATTAATTAATTTTTAGAA
Found at i:23099783 original size:17 final size:17
Alignment explanation
Indices: 23099752--23099785 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23099742 CATTTTAATC
**
23099752 TTTTAAATTTTTAAAAA
1 TTTTAAATTAATAAAAA
23099769 TTTTAAATTAATAAAAA
1 TTTTAAATTAATAAAAA
23099786 AAATTACATT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTTAAATTAATAAAAA
Found at i:23105639 original size:24 final size:23
Alignment explanation
Indices: 23105595--23105646 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
23105585 TTAATCTCAA
* *
23105595 ATATTATGTTTTATTATATATTAT
1 ATATTATGTTTTAATACATATT-T
23105619 ATATTAT-TTTTAAATACATATTT
1 ATATTATGTTTT-AATACATATTT
23105642 ATATT
1 ATATT
23105647 TAAAATTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 10 0.40
24 15 0.60
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (23 bp):
ATATTATGTTTTAATACATATTT
Found at i:23107826 original size:16 final size:16
Alignment explanation
Indices: 23107805--23107837 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
23107795 TTACTTGCCT
23107805 AGTTACTCAAATTCTC
1 AGTTACTCAAATTCTC
23107821 AGTTACTCAAATTCTC
1 AGTTACTCAAATTCTC
23107837 A
1 A
23107838 CCCTTCCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.24, G:0.06, T:0.36
Consensus pattern (16 bp):
AGTTACTCAAATTCTC
Found at i:23110945 original size:16 final size:16
Alignment explanation
Indices: 23110926--23111024 Score: 53
Period size: 16 Copynumber: 5.9 Consensus size: 16
23110916 TAACATTTTA
23110926 TTAATTTAATATTAAT
1 TTAATTTAATATTAAT
* *
23110942 TTAATTTAATGTTTAT
1 TTAATTTAATATTAAT
* *
23110958 TT--TGTAGATAAATAATCT
1 TTAATTTA-AT-ATTAA--T
*
23110976 ATTAATTTAATA-AAAT
1 -TTAATTTAATATTAAT
23110992 TTAATATTAAGTATT-AT
1 TTAAT-TTAA-TATTAAT
23111009 ATTAATTTAATATTAA
1 -TTAATTTAATATTAA
23111025 AGTGATTAAG
Statistics
Matches: 62, Mismatches: 9, Indels: 23
0.66 0.10 0.24
Matches are distributed among these distances:
14 3 0.05
15 7 0.11
16 27 0.44
17 9 0.15
18 8 0.13
19 3 0.05
20 2 0.03
21 3 0.05
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.52
Consensus pattern (16 bp):
TTAATTTAATATTAAT
Found at i:23113382 original size:31 final size:31
Alignment explanation
Indices: 23113338--23113430 Score: 100
Period size: 31 Copynumber: 3.0 Consensus size: 31
23113328 CCTTGTGTGC
*
23113338 ACCAAAAGCGTGCCCACGTAGGAA-CGTTTTT
1 ACCAAAAGCGTGCCCACGT-GGAAGCGCTTTT
*
23113369 ACCAAAATG-GTGCCCATGTGGAAGCGCTTTT
1 ACCAAAA-GCGTGCCCACGTGGAAGCGCTTTT
* ** *
23113400 GCCAAAAAAGTGCACACGTGGAAGCGCTTTT
1 ACCAAAAGCGTGCCCACGTGGAAGCGCTTTT
23113431 GGCCGTGCTT
Statistics
Matches: 53, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
30 4 0.08
31 48 0.91
32 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.25, T:0.23
Consensus pattern (31 bp):
ACCAAAAGCGTGCCCACGTGGAAGCGCTTTT
Found at i:23113762 original size:10 final size:10
Alignment explanation
Indices: 23113747--23113791 Score: 65
Period size: 10 Copynumber: 4.5 Consensus size: 10
23113737 TAAGAGTTAA
23113747 TTTTAATTAT
1 TTTTAATTAT
23113757 TTTTAATTAT
1 TTTTAATTAT
*
23113767 ATTTAATTA-
1 TTTTAATTAT
23113776 TTTTATATTAT
1 TTTTA-ATTAT
23113787 TTTTA
1 TTTTA
23113792 TAATTTAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
9 4 0.13
10 22 0.71
11 5 0.16
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTAATTAT
Found at i:23113797 original size:19 final size:19
Alignment explanation
Indices: 23113757--23113806 Score: 52
Period size: 19 Copynumber: 2.7 Consensus size: 19
23113747 TTTTAATTAT
*
23113757 TTTTAATTATATTTAATTA
1 TTTTAATTATATTTAATAA
*
23113776 TTTTATATTAT-TTTTATAA
1 TTTTA-ATTATATTTAATAA
23113795 -TTTAATTA-ATTT
1 TTTTAATTATATTT
23113807 TTTTATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 7 0.26
18 4 0.15
19 11 0.41
20 5 0.19
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTAATTATATTTAATAA
Found at i:23114891 original size:3 final size:3
Alignment explanation
Indices: 23114876--23114909 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
23114866 TTAATGACAT
*
23114876 TAA TAA CAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
23114910 TACAGCATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:23115960 original size:161 final size:162
Alignment explanation
Indices: 23115740--23116084 Score: 577
Period size: 161 Copynumber: 2.1 Consensus size: 162
23115730 TTTTAATTGG
23115740 TTTTTAAATTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCACTTTTTGGTTTA
1 TTTTTAAATTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCACTTTTTGGTTTA
23115805 TTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTT
66 TTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTT
* *
23115870 AATTACAAAATTGACCCAGGAATCTTTT-GAGA
131 AATTACAAAATTGACCCAAGAAT-TTTTCAAGA
* *
23115902 TTTTTAAATTAGTCCTTTGACTGTTTGACTGCCCCA-AGGCTGCCACGTGTCACTTTTTGGTTTA
1 TTTTTAAATTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCACTTTTTGGTTTA
* * *
23115966 TTTATGTATCTGGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTGAAATCAACTTTTGTTT
66 TTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTT
*
23116031 AATTACAAAATTGGCCCAAGAATTTTTCAAGA
131 AATTACAAAATTGACCCAAGAATTTTTCAAGA
**
23116063 TTTACAAATTAGTCCTTTGACT
1 TTTTTAAATTAGTCCTTTGACT
23116085 TCTGGATGCC
Statistics
Matches: 172, Mismatches: 10, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
160 4 0.02
161 133 0.77
162 35 0.20
ACGTcount: A:0.25, C:0.18, G:0.14, T:0.44
Consensus pattern (162 bp):
TTTTTAAATTAGTCCTTTGACTGTTTGACTGCACCAGAGGCTACCACGTGTCACTTTTTGGTTTA
TTTATGTATCTAGTCCCTGTCATTTTTAATTTGTTTTAATTTAATCCTCAAATCAACTTTTGCTT
AATTACAAAATTGACCCAAGAATTTTTCAAGA
Found at i:23116201 original size:29 final size:28
Alignment explanation
Indices: 23116159--23116317 Score: 92
Period size: 29 Copynumber: 5.5 Consensus size: 28
23116149 GGATGGTCCA
*
23116159 AAAATTACCATTTTACCCCCAAACTTTCC
1 AAAATT-CCTTTTTACCCCCAAACTTTCC
* * *
23116188 AAAATTCCGTTTTTAACCCC-GATTTTACC
1 AAAATTCC-TTTTTACCCCCAAACTTT-CC
* *
23116217 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATT-CCTTTTTACCCCCAAACTTTCC
* * *
23116247 AAAATTCCATTTT-CAACCC-GA-TTTCACC
1 AAAATTCCTTTTTAC-CCCCAAACTTT--CC
* *
23116275 AAAAATTACCATTTTACCCCTAAACTTTCC
1 -AAAATT-CCTTTTTACCCCCAAACTTTCC
*
23116305 AAAATTCCATTTT
1 AAAATTCCTTTTT
23116318 CAACCTCGAT
Statistics
Matches: 102, Mismatches: 15, Indels: 27
0.71 0.10 0.19
Matches are distributed among these distances:
26 3 0.03
27 2 0.02
28 24 0.24
29 35 0.34
30 27 0.26
31 8 0.08
32 3 0.03
ACGTcount: A:0.34, C:0.30, G:0.02, T:0.35
Consensus pattern (28 bp):
AAAATTCCTTTTTACCCCCAAACTTTCC
Found at i:23116228 original size:59 final size:59
Alignment explanation
Indices: 23116156--23116659 Score: 693
Period size: 59 Copynumber: 8.6 Consensus size: 59
23116146 CCTGGATGGT
* * *
23116156 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCGTTTTTAACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
*
23116215 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAA-CCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
23116273 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCTCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
23116332 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATACCATTTTCAACCCCGATTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * *
23116391 CCAAAAATTACCATTTTACTCCTAAAC-TTCCAAAATTCCATTTTTTACCTCGGTTTCA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * *
23116449 CCAAAAATTTCCATTTTACCGCC-GAACTTCCCAAAATTCCATTTTTAACCCC-AGTTTCA
1 CCAAAAATTACCATTTTACC-CCTAAACTTTCCAAAATTCCATTTTTAACCCCGA-TTTCA
* * *
23116508 TCAAAAATTACCATTTTACCCCTAAAATTTCCAAAATTCCA-TTTTAACCCCGATTTTA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* * * * *
23116566 CC--AAATTACCATCTTACCCCTAAGCTTTTCAAAATTCCA-TTTTAACCTCGATTTAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
* *
23116622 CCAAAAATTACTATTTTA-CCCTCAAATTTTCCAAAATT
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATT
23116660 TTCCAAAATT
Statistics
Matches: 398, Mismatches: 38, Indels: 19
0.87 0.08 0.04
Matches are distributed among these distances:
56 50 0.13
57 4 0.01
58 145 0.36
59 199 0.50
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (59 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCA
Found at i:23116362 original size:117 final size:117
Alignment explanation
Indices: 23116156--23116659 Score: 698
Period size: 117 Copynumber: 4.3 Consensus size: 117
23116146 CCTGGATGGT
* * *
23116156 CCAAAAATTACCATTTTACCCCCAAACTTTCCAAAATTCCGTTTTTAACCCCGATTTTACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
23116221 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCGATTTCA
66 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCGATTTCA
* *
23116273 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCTCGATTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
*
23116338 ATTACCATTTTACCCCTAAACTTTCCAAAATACCATTTTCAACCCCGATTTCA
66 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAA-CCCGATTTCA
* * * *
23116391 CCAAAAATTACCATTTTACTCCTAAAC-TTCCAAAATTCCATTTTTTACCTCGGTTTCACCAAAA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* * * * *
23116455 ATTTCCATTTTACCGCC-GAACTTCCCAAAATTCCATTTTTAACCCCAGTTTCA
66 ATTACCATTTTACC-CCTAAACTTTCCAAAATTCCATTTTCAACCCGA-TTTCA
* * *
23116508 TCAAAAATTACCATTTTACCCCTAAAATTTCCAAAATTCCA-TTTTAACCCCGATTTTACC--AA
1 CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
* * * *
23116570 ATTACCATCTTACCCCTAAGCTTTTCAAAATTCCATTTT-AACCTCGATTTAA
66 ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACC-CGATTTCA
* *
23116622 CCAAAAATTACTATTTTA-CCCTCAAATTTTCCAAAATT
1 CCAAAAATTACCATTTTACCCCT-AAACTTTCCAAAATT
23116660 TTCCAAAATT
Statistics
Matches: 346, Mismatches: 34, Indels: 17
0.87 0.09 0.04
Matches are distributed among these distances:
113 4 0.01
114 40 0.12
115 34 0.10
116 4 0.01
117 213 0.62
118 51 0.15
ACGTcount: A:0.34, C:0.29, G:0.03, T:0.34
Consensus pattern (117 bp):
CCAAAAATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTTAACCCCGATTTCACCAAAA
ATTACCATTTTACCCCTAAACTTTCCAAAATTCCATTTTCAACCCGATTTCA
Found at i:23116660 original size:10 final size:10
Alignment explanation
Indices: 23116645--23116669 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
23116635 TTTTACCCTC
23116645 AAATTTTCCA
1 AAATTTTCCA
23116655 AAATTTTCCA
1 AAATTTTCCA
23116665 AAATT
1 AAATT
23116670 CTCTTTTGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.16, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTTTCCA
Found at i:23116749 original size:28 final size:28
Alignment explanation
Indices: 23116693--23116752 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
23116683 GATCTCATCA
* *
23116693 AAAATTACCATTTTGCCCCTGCGAGTCC
1 AAAATTACCATTTTGCCCCCGCGAATCC
23116721 AAAATTACCATTTTGCCCCCG-GATATCC
1 AAAATTACCATTTTGCCCCCGCGA-ATCC
23116749 AAAA
1 AAAA
23116753 GTCTCATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 2 0.07
28 27 0.93
ACGTcount: A:0.32, C:0.30, G:0.12, T:0.27
Consensus pattern (28 bp):
AAAATTACCATTTTGCCCCCGCGAATCC
Found at i:23120306 original size:13 final size:12
Alignment explanation
Indices: 23120290--23120319 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
23120280 TAGATTTAAA
23120290 TTAAAATTTTAT
1 TTAAAATTTTAT
23120302 GTTAAAATTTTAT
1 -TTAAAATTTTAT
23120315 TTAAA
1 TTAAA
23120320 TAGGTCGAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
TTAAAATTTTAT
Found at i:23128671 original size:2 final size:2
Alignment explanation
Indices: 23128664--23128717 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
23128654 TTTTATTATC
23128664 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT
23128706 AT AT AT AT AT AT
1 AT AT AT AT AT AT
23128718 TGGTAATTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23139138 original size:38 final size:38
Alignment explanation
Indices: 23139082--23139161 Score: 124
Period size: 38 Copynumber: 2.1 Consensus size: 38
23139072 TACTCGAGAA
23139082 ATGCTCACACAAGCTGTAACTGTATCATATAACCGTAT
1 ATGCTCACACAAGCTGTAACTGTATCATATAACCGTAT
* * * *
23139120 ATGCTCACACGAGTTGTAATTGTATCATATAATCGTAT
1 ATGCTCACACAAGCTGTAACTGTATCATATAACCGTAT
23139158 ATGC
1 ATGC
23139162 AAAATATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (38 bp):
ATGCTCACACAAGCTGTAACTGTATCATATAACCGTAT
Found at i:23144140 original size:3 final size:3
Alignment explanation
Indices: 23144132--23144201 Score: 131
Period size: 3 Copynumber: 23.3 Consensus size: 3
23144122 AGCATTGGTT
*
23144132 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
23144180 GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA G
23144202 TGACAAAAAA
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:23145680 original size:16 final size:15
Alignment explanation
Indices: 23145634--23145680 Score: 58
Period size: 15 Copynumber: 3.0 Consensus size: 15
23145624 TTTTTGAAAA
23145634 ATTTAAAAATATTTT
1 ATTTAAAAATATTTT
* *
23145649 ATTTAATAATCTTTTT
1 ATTTAAAAAT-ATTTT
23145665 ATTTTAAAAATATTTT
1 A-TTTAAAAATATTTT
23145681 TTATCTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 9 0.35
16 9 0.35
17 8 0.31
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTAAAAATATTTT
Found at i:23145680 original size:17 final size:16
Alignment explanation
Indices: 23145634--23145691 Score: 64
Period size: 17 Copynumber: 3.6 Consensus size: 16
23145624 TTTTTGAAAA
23145634 ATTTAAAAATA-TTTT
1 ATTTAAAAATATTTTT
* *
23145649 ATTTAATAATCTTTTT
1 ATTTAAAAATATTTTT
23145665 ATTTTAAAAATATTTTTT
1 A-TTTAAAAATA-TTTTT
*
23145683 ATCTAAAAA
1 ATTTAAAAA
23145692 ATAGATTCGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
15 9 0.26
16 5 0.14
17 15 0.43
18 6 0.17
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTAAAAATATTTTT
Found at i:23147395 original size:26 final size:26
Alignment explanation
Indices: 23147366--23147423 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
23147356 ATTATTTAAT
*
23147366 ATTTTATAAAAGTATAATTAAAATAA
1 ATTTTATAAAAGTACAATTAAAATAA
* * * *
23147392 ATTTTATTACATTACAATTAATATAA
1 ATTTTATAAAAGTACAATTAAAATAA
23147418 ATTTTA
1 ATTTTA
23147424 AATTTCAATT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTTTATAAAAGTACAATTAAAATAA
Found at i:23148827 original size:22 final size:23
Alignment explanation
Indices: 23148800--23148852 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
23148790 TGGGTGCAAA
23148800 ATTAAAACAAAATT-TTAAAAATT
1 ATTAAAA-AAAATTATTAAAAATT
* *
23148823 A-TAAAAAAAGTTATTAATAATT
1 ATTAAAAAAAATTATTAAAAATT
23148845 ATTAAAAA
1 ATTAAAAA
23148853 TTCTAAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 5 0.19
22 14 0.54
23 7 0.27
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
ATTAAAAAAAATTATTAAAAATT
Found at i:23148846 original size:10 final size:10
Alignment explanation
Indices: 23148808--23148877 Score: 52
Period size: 10 Copynumber: 6.6 Consensus size: 10
23148798 AAATTAAAAC
23148808 AAAATT-TTA
1 AAAATTATTA
*
23148817 AAAATTATAAA
1 AAAATTAT-TA
23148828 AAAAGTTATTA
1 AAAA-TTATTA
*
23148839 ATAATTATTA
1 AAAATTATTA
* *
23148849 AAAATTCTAA
1 AAAATTATTA
23148859 AAAATATATATA
1 AAAAT-TAT-TA
23148871 GAAAATT
1 -AAAATT
23148878 TGAAATGTAT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
9 6 0.13
10 19 0.40
11 11 0.23
12 6 0.13
13 5 0.11
ACGTcount: A:0.60, C:0.01, G:0.03, T:0.36
Consensus pattern (10 bp):
AAAATTATTA
Found at i:23152048 original size:14 final size:14
Alignment explanation
Indices: 23152029--23152089 Score: 52
Period size: 14 Copynumber: 4.4 Consensus size: 14
23152019 TTTAAACCCT
23152029 AAATCTAAAATCTC
1 AAATCTAAAATCTC
*
23152043 AAATCTTAAATC-C
1 AAATCTAAAATCTC
* *
23152056 AACATATAAAAACTC
1 AA-ATCTAAAATCTC
* * *
23152071 GAATCTCAAATCTT
1 AAATCTAAAATCTC
23152085 AAATC
1 AAATC
23152090 CCAAACCATT
Statistics
Matches: 35, Mismatches: 10, Indels: 4
0.71 0.20 0.08
Matches are distributed among these distances:
13 3 0.09
14 30 0.86
15 2 0.06
ACGTcount: A:0.49, C:0.21, G:0.02, T:0.28
Consensus pattern (14 bp):
AAATCTAAAATCTC
Found at i:23152131 original size:14 final size:13
Alignment explanation
Indices: 23152075--23152131 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
23152065 AAACTCGAAT
23152075 CTCAAATCTTAAA
1 CTCAAATCTTAAA
* *
23152088 TCCCAAACCATTAAA
1 -CTCAAATC-TTAAA
*
23152103 CTCAAATTTTAAA
1 CTCAAATCTTAAA
*
23152116 CTCCTAATCTTAAA
1 CT-CAAATCTTAAA
23152130 CT
1 CT
23152132 TAAACCTTAT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
13 7 0.21
14 22 0.65
15 5 0.15
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (13 bp):
CTCAAATCTTAAA
Found at i:23152860 original size:3 final size:3
Alignment explanation
Indices: 23152852--23152879 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
23152842 TGGGCTGATG
23152852 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA G
23152880 GAAACAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:23159597 original size:31 final size:30
Alignment explanation
Indices: 23159562--23159622 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
23159552 ATTCTTCTAA
*
23159562 AATAAAATTAATCCG-AACAACTATTAAATAT
1 AATAAAAATAA-CCGAAAC-ACTATTAAATAT
*
23159593 AATAAAAATAACCTAAACACTATTAAATAT
1 AATAAAAATAACCGAAACACTATTAAATAT
23159623 TACAAGAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (30 bp):
AATAAAAATAACCGAAACACTATTAAATAT
Found at i:23161255 original size:21 final size:20
Alignment explanation
Indices: 23161204--23161308 Score: 104
Period size: 20 Copynumber: 5.2 Consensus size: 20
23161194 GAAAATAAAA
*
23161204 CCCTGTATTACACTTCGGTG
1 CCCTGTATTGCACTTCGGTG
*
23161224 CCCTATATTGCACTTCGGTG
1 CCCTGTATTGCACTTCGGTG
*
23161244 CCTTTGTATTGCAC-TCTGGTG
1 CC-CTGTATTGCACTTC-GGTG
* * *
23161265 CCCTTGTAATGTACTTTGGTG
1 CCC-TGTATTGCACTTCGGTG
* *
23161286 CCCTGTATAGCACTTTGGTG
1 CCCTGTATTGCACTTCGGTG
23161306 CCC
1 CCC
23161309 CTGCATGTTA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
20 39 0.56
21 30 0.43
22 1 0.01
ACGTcount: A:0.13, C:0.28, G:0.22, T:0.37
Consensus pattern (20 bp):
CCCTGTATTGCACTTCGGTG
Found at i:23161265 original size:41 final size:40
Alignment explanation
Indices: 23161204--23161308 Score: 104
Period size: 41 Copynumber: 2.5 Consensus size: 40
23161194 GAAAATAAAA
* *
23161204 CCCTGTATTACACTTCGGTGCCC-TATATTGCACTTCGGTG
1 CCCTGTATTGCACTT-GGTGCCCTTATAATGCACTTCGGTG
* * * *
23161244 CCTTTGTATTGCACTCTGGTGCCCTTGTAATGTACTTTGGTG
1 CC-CTGTATTGCACT-TGGTGCCCTTATAATGCACTTCGGTG
*
23161286 CCCTGTATAGCACTTTGGTGCCC
1 CCCTGTATTGCAC-TTGGTGCCC
23161309 CTGCATGTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
40 2 0.04
41 34 0.64
42 17 0.32
ACGTcount: A:0.13, C:0.28, G:0.22, T:0.37
Consensus pattern (40 bp):
CCCTGTATTGCACTTGGTGCCCTTATAATGCACTTCGGTG
Found at i:23164356 original size:23 final size:23
Alignment explanation
Indices: 23164330--23164405 Score: 57
Period size: 23 Copynumber: 3.2 Consensus size: 23
23164320 CACATTAGTT
23164330 ACATGAACATTTCAACATTTATC
1 ACATGAACATTTCAACATTTATC
*
23164353 ACAT-CACATATT-AATCATATTTAATC
1 ACATGAACAT-TTCAA-C--ATTT-ATC
* **
23164379 ACATGAATATTTCAGTATTTATC
1 ACATGAACATTTCAACATTTATC
23164402 ACAT
1 ACAT
23164406 CACATATTAA
Statistics
Matches: 41, Mismatches: 5, Indels: 14
0.68 0.08 0.23
Matches are distributed among these distances:
22 6 0.15
23 14 0.34
24 4 0.10
25 4 0.10
26 9 0.22
27 4 0.10
ACGTcount: A:0.39, C:0.18, G:0.04, T:0.38
Consensus pattern (23 bp):
ACATGAACATTTCAACATTTATC
Found at i:23164380 original size:26 final size:25
Alignment explanation
Indices: 23164346--23164431 Score: 106
Period size: 26 Copynumber: 3.4 Consensus size: 25
23164336 ACATTTCAAC
23164346 ATTTATCACATCACATATTAATCAT
1 ATTTATCACATCACATATTAATCAT
*
23164371 ATTTAATCACATGA-ATATT--TCAGT
1 ATTT-ATCACATCACATATTAATCA-T
*
23164395 ATTTATCACATCACATATTAATCAC
1 ATTTATCACATCACATATTAATCAT
23164420 ATTTAGTCACAT
1 ATTTA-TCACAT
23164432 TTAATCACAT
Statistics
Matches: 52, Mismatches: 3, Indels: 11
0.79 0.05 0.17
Matches are distributed among these distances:
23 11 0.21
24 10 0.19
25 14 0.27
26 17 0.33
ACGTcount: A:0.38, C:0.19, G:0.03, T:0.40
Consensus pattern (25 bp):
ATTTATCACATCACATATTAATCAT
Found at i:23164399 original size:49 final size:49
Alignment explanation
Indices: 23164266--23164549 Score: 232
Period size: 59 Copynumber: 5.4 Consensus size: 49
23164256 TTTCTTACAC
* * * *
23164266 ATTAATCATA-TAAATCACATGAGTATTTAAGCATTTAAT-ACAACACAT
1 ATTAATCATATTTAATCACATGAATATTTCAGCATTT-ATCACATCACAT
* * * * *
23164314 ATTAATCACA-TTAGTTACATGAACATTTCAACATTTATCACATCACAT
1 ATTAATCATATTTAATCACATGAATATTTCAGCATTTATCACATCACAT
*
23164362 ATTAATCATATTTAATCACATGAATATTTCAGTATTTATCACATCACAT
1 ATTAATCATATTTAATCACATGAATATTTCAGCATTTATCACATCACAT
*
23164411 ATTAATCACATTTAGTCACATTTAATCACATGAATATTTCAGCATTTATCATATCACAT
1 ATTAAT--C----A-T---ATTTAATCACATGAATATTTCAGCATTTATCACATCACAT
*
23164470 ATTAATCACATTTTGTCACATTTAATTACATGAATATTTCAGCATTTATCACATCACAT
1 ATTAAT--CA-----T---ATTTAATCACATGAATATTTCAGCATTTATCACATCACAT
* *
23164529 ATTAATCACATTTAGTCACAT
1 ATTAATCATATTTAATCACAT
23164550 TTAATCACAT
Statistics
Matches: 198, Mismatches: 22, Indels: 31
0.79 0.09 0.12
Matches are distributed among these distances:
47 2 0.01
48 45 0.23
49 49 0.25
51 1 0.01
55 2 0.01
56 1 0.01
57 2 0.01
59 96 0.48
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (49 bp):
ATTAATCATATTTAATCACATGAATATTTCAGCATTTATCACATCACAT
Found at i:23164431 original size:10 final size:10
Alignment explanation
Indices: 23164404--23164560 Score: 62
Period size: 10 Copynumber: 13.8 Consensus size: 10
23164394 TATTTATCAC
23164404 ATCACATATTA
1 ATCACAT-TTA
23164415 ATCACATTTA
1 ATCACATTTA
*
23164425 GTCACATTTA
1 ATCACATTTA
*
23164435 ATCACATGAATA
1 ATCACAT--TTA
*
23164447 TTTCAGCATTTATCA
1 -ATCA-CA-TT-T-A
23164462 TATCACATATTA
1 -ATCACAT-TTA
*
23164474 ATCACATTTT
1 ATCACATTTA
*
23164484 GTCACATTTA
1 ATCACATTTA
* *
23164494 ATTACATGAATA
1 ATCACAT--TTA
*
23164506 TTTCAGCATTTATCA
1 -ATCA-CA-TT-T-A
23164521 CATCACATATTA
1 -ATCACAT-TTA
23164533 ATCACATTTA
1 ATCACATTTA
*
23164543 GTCACATTTA
1 ATCACATTTA
23164553 ATCACATT
1 ATCACATT
23164561 AAGTCATATT
Statistics
Matches: 111, Mismatches: 19, Indels: 33
0.68 0.12 0.20
Matches are distributed among these distances:
10 52 0.47
11 21 0.19
12 6 0.05
13 9 0.08
14 12 0.11
15 11 0.10
ACGTcount: A:0.37, C:0.19, G:0.04, T:0.39
Consensus pattern (10 bp):
ATCACATTTA
Found at i:23164439 original size:59 final size:59
Alignment explanation
Indices: 23164355--23164559 Score: 347
Period size: 59 Copynumber: 3.5 Consensus size: 59
23164345 CATTTATCAC
* * *
23164355 ATCACATATTAATCATATTTAATCACATGAATATTTCAGTATTTATCACATCACATATTA
1 ATCACAT-TTAGTCACATTTAATCACATGAATATTTCAGCATTTATCACATCACATATTA
*
23164415 ATCACATTTAGTCACATTTAATCACATGAATATTTCAGCATTTATCATATCACATATTA
1 ATCACATTTAGTCACATTTAATCACATGAATATTTCAGCATTTATCACATCACATATTA
* *
23164474 ATCACATTTTGTCACATTTAATTACATGAATATTTCAGCATTTATCACATCACATATTA
1 ATCACATTTAGTCACATTTAATCACATGAATATTTCAGCATTTATCACATCACATATTA
23164533 ATCACATTTAGTCACATTTAATCACAT
1 ATCACATTTAGTCACATTTAATCACAT
23164560 TAAGTCATAT
Statistics
Matches: 136, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
59 129 0.95
60 7 0.05
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.40
Consensus pattern (59 bp):
ATCACATTTAGTCACATTTAATCACATGAATATTTCAGCATTTATCACATCACATATTA
Found at i:23165123 original size:36 final size:36
Alignment explanation
Indices: 23165039--23165187 Score: 174
Period size: 36 Copynumber: 4.1 Consensus size: 36
23165029 ATTTTCACTA
* * * *
23165039 TCACATGACATAAATAACATACACATATATTTTCTG
1 TCACATGACATGAATAACATACCCACATATTTACTG
* * *
23165075 TCTCGA-GGCATGAATAACATACTCACATATTTACTG
1 TCAC-ATGACATGAATAACATACCCACATATTTACTG
* * *
23165111 TCACATGACATGAAAAATATACCCACATATTTACTA
1 TCACATGACATGAATAACATACCCACATATTTACTG
* *
23165147 TCCCATGACATGAATAACATACCCACACATTTACTG
1 TCACATGACATGAATAACATACCCACATATTTACTG
23165183 TCACA
1 TCACA
23165188 ATAGCCATCA
Statistics
Matches: 93, Mismatches: 18, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
35 1 0.01
36 91 0.98
37 1 0.01
ACGTcount: A:0.39, C:0.24, G:0.08, T:0.29
Consensus pattern (36 bp):
TCACATGACATGAATAACATACCCACATATTTACTG
Found at i:23166508 original size:21 final size:20
Alignment explanation
Indices: 23166483--23166532 Score: 55
Period size: 22 Copynumber: 2.4 Consensus size: 20
23166473 GAAAAATAAT
23166483 AAAATATCAAATAATAAACCAA
1 AAAATATC-AATAATAAA-CAA
* *
23166505 AAATATTTCAATATTAAACAA
1 AAA-ATATCAATAATAAACAA
23166526 AAAATAT
1 AAAATAT
23166533 TTCAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
20 3 0.12
21 6 0.25
22 11 0.46
23 4 0.17
ACGTcount: A:0.64, C:0.10, G:0.00, T:0.26
Consensus pattern (20 bp):
AAAATATCAATAATAAACAA
Found at i:23166522 original size:22 final size:22
Alignment explanation
Indices: 23166492--23166540 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
23166482 TAAAATATCA
*
23166492 AATAATAAACCAAAAATATTTC
1 AATAATAAACAAAAAATATTTC
*
23166514 AATATTAAACAAAAAATATTTC
1 AATAATAAACAAAAAATATTTC
23166536 AATAA
1 AATAA
23166541 ATTAAATTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.61, C:0.10, G:0.00, T:0.29
Consensus pattern (22 bp):
AATAATAAACAAAAAATATTTC
Found at i:23166959 original size:45 final size:44
Alignment explanation
Indices: 23166908--23167062 Score: 143
Period size: 45 Copynumber: 3.5 Consensus size: 44
23166898 TCTGTCACTT
*
23166908 GGCTGTGGATACACTACAAAAAATCGTAGATGAAACCTACCATTG
1 GGCTGTGGATACAC-ACAAAAAATCGTAGATGAAACCTACCATTA
* * * * *
23166953 GGCTGT-GAGTACACAAAAAAATATCGTAGATAAAATCTGCCACTA
1 GGCTGTGGA-TACACACAAAAA-ATCGTAGATGAAACCTACCATTA
* * * * *
23166998 GGCTATGGATACAGAGCAAAAATTCGCAGGTGAAACCTACCATTA
1 GGCTGTGGATACACA-CAAAAAATCGTAGATGAAACCTACCATTA
*
23167043 GGTTGTGG-TACACAACAAAA
1 GGCTGTGGATACAC-ACAAAA
23167063 TATCACAGAT
Statistics
Matches: 86, Mismatches: 19, Indels: 11
0.74 0.16 0.09
Matches are distributed among these distances:
44 17 0.20
45 62 0.72
46 7 0.08
ACGTcount: A:0.39, C:0.19, G:0.21, T:0.21
Consensus pattern (44 bp):
GGCTGTGGATACACACAAAAAATCGTAGATGAAACCTACCATTA
Found at i:23167083 original size:89 final size:90
Alignment explanation
Indices: 23166893--23167090 Score: 256
Period size: 90 Copynumber: 2.2 Consensus size: 90
23166883 AGTTTCGCAG
* * * * * *
23166893 TAAAATCTGTCACTTGGCTGTGGATACACTACAAAAAATCGTAGATGAAACCTACCATTGGGCTG
1 TAAAATCTGCCACTAGGCTATGGATACACGACAAAAAATCGCAGATGAAACCTACCATTAGGCTG
**
23166958 TGAGTACACAAAAAAATATCGTAGA
66 TGAGTACACAAAAAAATATCACAGA
* * *
23166983 TAAAATCTGCCACTAGGCTATGGATACA-GAGCAAAAATTCGCAGGTGAAACCTACCATTAGGTT
1 TAAAATCTGCCACTAGGCTATGGATACACGA-CAAAAAATCGCAGATGAAACCTACCATTAGGCT
*
23167047 GTG-GTACACAACAAAATATCACAGA
65 GTGAGTACACAAAAAAATATCACAGA
*
23167072 TAAAATTTGCCACTAGGCT
1 TAAAATCTGCCACTAGGCT
23167091 GTAGATGCAC
Statistics
Matches: 94, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
89 38 0.40
90 56 0.60
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (90 bp):
TAAAATCTGCCACTAGGCTATGGATACACGACAAAAAATCGCAGATGAAACCTACCATTAGGCTG
TGAGTACACAAAAAAATATCACAGA
Found at i:23169819 original size:44 final size:43
Alignment explanation
Indices: 23169660--23170128 Score: 373
Period size: 43 Copynumber: 11.2 Consensus size: 43
23169650 GGTGTTGTAA
* * * *
23169660 CTTCAATTTGCCCTTTTGGATTAGGAGTAAGAGATTGGATGATGA
1 CTTCAATCTGCCC-TTTGGATTAGG-GTAAAAGATTGGATGGTGG
* *
23169705 CTTTAATCTGCCCTTTGGATTAGGGT-AAAGATTGGATGGTTG
1 CTTCAATCTGCCCTTTGGATTAGGGTAAAAGATTGGATGGTGG
* *** *
23169747 CTTTAATCTGATTTTTGGATTAGGGTAAAAGATTAGATGGGTGG
1 CTTCAATCTGCCCTTTGGATTAGGGTAAAAGATTGGAT-GGTGG
* * *
23169791 CTTCAATCTGCCCTCTAGATTAGAGTAAAAGATTGGATGGTGG
1 CTTCAATCTGCCCTTTGGATTAGGGTAAAAGATTGGATGGTGG
*
23169834 CTTCAATCTGCCCTTTGGATTAGGGTAAAAGATTGGATAGTGG
1 CTTCAATCTGCCCTTTGGATTAGGGTAAAAGATTGGATGGTGG
* *
23169877 CTTCAATTTACCCTTTGGATTAGGGTAAAAGATTGGA---TGG
1 CTTCAATCTGCCCTTTGGATTAGGGTAAAAGATTGGATGGTGG
* * * * * * *
23169917 CTTCGATCTG-TCTCAT-G-TTCGAGGTAAGAGATTGGATGATGT
1 CTTCAATCTGCCCT-TTGGATTAG-GGTAAAAGATTGGATGGTGG
* * *
23169959 CTTCAATATGCCCTCTAG-TTAGGGTAAAAGATTGGA---TGG
1 CTTCAATCTGCCCTTTGGATTAGGGTAAAAGATTGGATGGTGG
** * * * **
23169998 CTTCAATCTG-CCTTATGG-TCGGGGTAAGAGATTGCATAGTAT
1 CTTCAATCTGCCCTT-TGGATTAGGGTAAAAGATTGGATGGTGG
* * *
23170040 CTTCAATCTACCCTCTGG-TTAGGGTAAAAGATTGGA---TGA
1 CTTCAATCTGCCCTTTGGATTAGGGTAAAAGATTGGATGGTGG
* * * *
23170079 CTTCAATCTG-CCTCATGG-TCAGGGTAAGAGATTGGATGGTGT
1 CTTCAATCTGCCCT-TTGGATTAGGGTAAAAGATTGGATGGTGG
23170121 CTTCAATC
1 CTTCAATC
23170129 CATCCTCTAG
Statistics
Matches: 344, Mismatches: 62, Indels: 39
0.77 0.14 0.09
Matches are distributed among these distances:
38 9 0.03
39 72 0.21
40 11 0.03
42 96 0.28
43 100 0.29
44 45 0.13
45 11 0.03
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (43 bp):
CTTCAATCTGCCCTTTGGATTAGGGTAAAAGATTGGATGGTGG
Found at i:23169819 original size:86 final size:86
Alignment explanation
Indices: 23169672--23170128 Score: 370
Period size: 81 Copynumber: 5.5 Consensus size: 86
23169662 TCAATTTGCC
* * * *
23169672 CTTTTGGATTAGGAGTAAGAGATTGGATGATGACTTTAATCTGCCCTTTGGATTAGGGT-AAAGA
1 CTTTTGGATTAGG-GTAAAAGATTGGATGGTGGCTTCAATCTGCCCTTTGGATTAGGGTAAAAGA
* *
23169736 TTGGATGGTTGCTTTAATCTGA
65 TTGGATGGTGGCTTCAATCTGA
* * * * *
23169758 TTTTTGGATTAGGGTAAAAGATTAGATGGGTGGCTTCAATCTGCCCTCTAGATTAGAGTAAAAGA
1 CTTTTGGATTAGGGTAAAAGATTGGAT-GGTGGCTTCAATCTGCCCTTTGGATTAGGGTAAAAGA
*
23169823 TTGGATGGTGGCTTCAATCTGC
65 TTGGATGGTGGCTTCAATCTGA
* * * *
23169845 CCTTTGGATTAGGGTAAAAGATTGGATAGTGGCTTCAATTTACCCTTTGGATTAGGGTAAAAGAT
1 CTTTTGGATTAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTTTGGATTAGGGTAAAAGAT
* *
23169910 TGGA---TGGCTTCGATCTGT
66 TGGATGGTGGCTTCAATCTGA
** * * * * * * *
23169928 CTCAT-G-TTCGAGGTAAGAGATTGGATGATGTCTTCAATATGCCCTCTAG-TTAGGGTAAAAGA
1 CTTTTGGATTAG-GGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTTTGGATTAGGGTAAAAGA
*
23169990 TTGGA---TGGCTTCAATCTGC
65 TTGGATGGTGGCTTCAATCTGA
* ** * * * ** * *
23170009 CTTATGG-TCGGGGTAAGAGATTGCATAGTATCTTCAATCTACCCTCTGG-TTAGGGTAAAAGAT
1 CTTTTGGATTAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTTTGGATTAGGGTAAAAGAT
* *
23170072 TGGA---TGACTTCAATCTGC
66 TGGATGGTGGCTTCAATCTGA
** * * *
23170090 CTCATGG-TCAGGGTAAGAGATTGGATGGTGTCTTCAATC
1 CTTTTGGATTAGGGTAAAAGATTGGATGGTGGCTTCAATC
23170129 CATCCTCTAG
Statistics
Matches: 314, Mismatches: 53, Indels: 13
0.83 0.14 0.03
Matches are distributed among these distances:
81 133 0.42
82 34 0.11
83 14 0.04
85 12 0.04
86 73 0.23
87 48 0.15
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.34
Consensus pattern (86 bp):
CTTTTGGATTAGGGTAAAAGATTGGATGGTGGCTTCAATCTGCCCTTTGGATTAGGGTAAAAGAT
TGGATGGTGGCTTCAATCTGA
Found at i:23169954 original size:39 final size:38
Alignment explanation
Indices: 23169899--23170117 Score: 172
Period size: 39 Copynumber: 5.5 Consensus size: 38
23169889 CTTTGGATTA
* *
23169899 GGGTAAAAGATTGGATGGCTTCGATCTGTCTCATGTTC
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCTCATGTTC
* * *
23169937 GAGGTAAGAGATTGGATGATGTCTTCAATATGCCCTC-TAGTTA
1 G-GGTAAAAGATTGGATG--G-CTTCAATCTG-CCTCAT-GTTC
* *
23169980 GGGTAAAAGATTGGATGGCTTCAATCTGCCTTATGGTC
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCTCATGTTC
* * * * *
23170018 GGGGTAAGAGATTGCATAGTATCTTCAATCTACCCTC-TGGTTA
1 -GGGTAAAAGATTGGAT-G--GCTTCAATCT-GCCTCAT-GTTC
* *
23170061 GGGTAAAAGATTGGATGACTTCAATCTGCCTCATGGTC
1 GGGTAAAAGATTGGATGGCTTCAATCTGCCTCATGTTC
*
23170099 AGGGTAAGAGATTGGATGG
1 -GGGTAAAAGATTGGATGG
23170118 TGTCTTCAAT
Statistics
Matches: 141, Mismatches: 25, Indels: 29
0.72 0.13 0.15
Matches are distributed among these distances:
38 12 0.09
39 65 0.46
40 2 0.01
41 2 0.01
42 48 0.34
43 12 0.09
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (38 bp):
GGGTAAAAGATTGGATGGCTTCAATCTGCCTCATGTTC
Found at i:23169997 original size:81 final size:81
Alignment explanation
Indices: 23169791--23170198 Score: 394
Period size: 81 Copynumber: 5.0 Consensus size: 81
23169781 AGATGGGTGG
* * * *
23169791 CTTCAATCTGCCCTCTAGATTAGAGTAAAAGATTGGATGGTGGCTTCAATCTGCC-CTTTGGAT-
1 CTTCAATATACCCTCTAG-TTAGGGTAAAAGATTGGA---TGGCTTCAATCTGCCTC-ATGG-TC
* * *
23169854 TAGGGTAAAAGATTGGATAGTGG
60 GA-GGTAAGAGATTGGATAGTGT
* * * * * *
23169877 CTTCAATTTACCCTTTGGATTAGGGTAAAAGATTGGATGGCTTCGATCTGTCTCATGTTCGAGGT
1 CTTCAATATACCCTCTAG-TTAGGGTAAAAGATTGGATGGCTTCAATCTGCCTCATGGTCGAGGT
23169942 AAGAGATTGGAT-GATGT
65 AAGAGATTGGATAG-TGT
* * *
23169959 CTTCAATATGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCAATCTGCCTTATGGTCGGGGTA
1 CTTCAATATACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCAATCTGCCTCATGGTCGAGGTA
* *
23170024 AGAGATTGCATAGTAT
66 AGAGATTGGATAGTGT
* * *
23170040 CTTCAATCTACCCTCTGGTTAGGGTAAAAGATTGGATGACTTCAATCTGCCTCATGGTC-AGGGT
1 CTTCAATATACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCAATCTGCCTCATGGTCGA-GGT
*
23170104 AAGAGATTGGATGGTGT
65 AAGAGATTGGATAGTGT
** * * * * * * *
23170121 CTTCAATCCATCCTCTAGTTAAGGTAGAAGGTTGGATGACTTCAATCTACCCCATGGTC-AGGGT
1 CTTCAATATACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCAATCTGCCTCATGGTCGA-GGT
*
23170185 AAGAGATTGAATAG
65 AAGAGATTGGATAG
23170199 GATGGTGTAA
Statistics
Matches: 275, Mismatches: 42, Indels: 15
0.83 0.13 0.05
Matches are distributed among these distances:
81 194 0.71
82 32 0.12
83 16 0.06
84 1 0.00
86 32 0.12
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (81 bp):
CTTCAATATACCCTCTAGTTAGGGTAAAAGATTGGATGGCTTCAATCTGCCTCATGGTCGAGGTA
AGAGATTGGATAGTGT
Found at i:23170074 original size:162 final size:163
Alignment explanation
Indices: 23169768--23170198 Score: 494
Period size: 162 Copynumber: 2.6 Consensus size: 163
23169758 TTTTTGGATT
* * * * * *
23169768 AGGGTAAAAGATTAGATGGGTGGCTTCAATCTGCCCTCTAGATTAGAGTAAAAGATTGGATGGTG
1 AGGGTAAGAGATTGGAT-GATGTCTTCAATATGCCCTCTAG-TTAGGGTAAAAGATTGGA---TG
* * * * * *
23169833 GCTTCAATCTGCCCTT-TGGATTAGGGTAAAAGATTGGATAGTGGCTTCAATTTACCCTTTGGAT
61 GCTTCAATCTG-CCTTATGG-TCAGGGTAAGAGATTGAATAGTAGCTTCAATCTACCCTCTGGAT
* * * *
23169897 TAGGGTAAAAGATTGGATGGCTTCGATCTGTCTCATGTTC
124 TAGGGTAAAAGATTGGATGACTTCAATCTGCCTCATGGTC
23169937 -GAGGTAAGAGATTGGATGATGTCTTCAATATGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTT
1 AG-GGTAAGAGATTGGATGATGTCTTCAATATGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTT
* * *
23170001 CAATCTGCCTTATGGTCGGGGTAAGAGATTGCATAGTATCTTCAATCTACCCTCTGG-TTAGGGT
65 CAATCTGCCTTATGGTCAGGGTAAGAGATTGAATAGTAGCTTCAATCTACCCTCTGGATTAGGGT
23170065 AAAAGATTGGATGACTTCAATCTGCCTCATGGTC
130 AAAAGATTGGATGACTTCAATCTGCCTCATGGTC
* * * * *
23170099 AGGGTAAGAGATTGGATGGTGTCTTCAATCCAT--CCTCTAGTTAAGGTAGAAGGTTGGATGACT
1 AGGGTAAGAGATTGGATGATGTCTTCAAT--ATGCCCTCTAGTTAGGGTAAAAGATTGGATGGCT
* **
23170162 TCAATCTACCCCATGGTCAGGGTAAGAGATTGAATAG
64 TCAATCTGCCTTATGGTCAGGGTAAGAGATTGAATAG
23170199 GATGGTGTAA
Statistics
Matches: 229, Mismatches: 28, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
162 121 0.53
163 39 0.17
164 18 0.08
167 17 0.07
168 21 0.09
169 13 0.06
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (163 bp):
AGGGTAAGAGATTGGATGATGTCTTCAATATGCCCTCTAGTTAGGGTAAAAGATTGGATGGCTTC
AATCTGCCTTATGGTCAGGGTAAGAGATTGAATAGTAGCTTCAATCTACCCTCTGGATTAGGGTA
AAAGATTGGATGACTTCAATCTGCCTCATGGTC
Found at i:23179830 original size:21 final size:20
Alignment explanation
Indices: 23179806--23179846 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
23179796 AACATACATA
23179806 CAATAAACATAAAATGCAAAG
1 CAATAAACAT-AAATGCAAAG
* *
23179827 CAATATATATAAATGCAAAG
1 CAATAAACATAAATGCAAAG
23179847 GATCACAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.59, C:0.12, G:0.10, T:0.20
Consensus pattern (20 bp):
CAATAAACATAAATGCAAAG
Found at i:23181698 original size:14 final size:14
Alignment explanation
Indices: 23181681--23181727 Score: 69
Period size: 13 Copynumber: 3.4 Consensus size: 14
23181671 TCAAACCCAA
23181681 CAAAACCAAATAAC
1 CAAAACCAAATAAC
*
23181695 CAAAAGCAAA-AAC
1 CAAAACCAAATAAC
23181708 CAAAACCAAATAACC
1 CAAAACCAAATAA-C
23181723 CAAAA
1 CAAAA
23181728 TCAGTAACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 12 0.41
14 11 0.38
15 6 0.21
ACGTcount: A:0.66, C:0.28, G:0.02, T:0.04
Consensus pattern (14 bp):
CAAAACCAAATAAC
Found at i:23182645 original size:13 final size:13
Alignment explanation
Indices: 23182627--23182651 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23182617 GTAATAATTT
23182627 TATTTATATATAC
1 TATTTATATATAC
23182640 TATTTATATATA
1 TATTTATATATA
23182652 TTAAATTAAA
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:0.04, G:0.00, T:0.56
Consensus pattern (13 bp):
TATTTATATATAC
Found at i:23187224 original size:5 final size:5
Alignment explanation
Indices: 23187214--23187239 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
23187204 AATAGAGTTT
23187214 TAAAA TAAAA TAAAA TAAAA TAAAA T
1 TAAAA TAAAA TAAAA TAAAA TAAAA T
23187240 CTTCATGTCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (5 bp):
TAAAA
Found at i:23188405 original size:39 final size:40
Alignment explanation
Indices: 23188361--23188450 Score: 164
Period size: 40 Copynumber: 2.3 Consensus size: 40
23188351 AGGTTCACGT
*
23188361 GTCTTCCTTTT-AATAATCTTATGCTCTATCGAGTCATAA
1 GTCTTCCTTTTAAACAATCTTATGCTCTATCGAGTCATAA
23188400 GTCTTCCTTTTAAACAATCTTATGCTCTATCGAGTCATAA
1 GTCTTCCTTTTAAACAATCTTATGCTCTATCGAGTCATAA
23188440 GTCTTCCTTTT
1 GTCTTCCTTTT
23188451 TAACCATTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
39 11 0.22
40 38 0.78
ACGTcount: A:0.23, C:0.22, G:0.10, T:0.44
Consensus pattern (40 bp):
GTCTTCCTTTTAAACAATCTTATGCTCTATCGAGTCATAA
Found at i:23188490 original size:42 final size:41
Alignment explanation
Indices: 23188389--23188539 Score: 153
Period size: 41 Copynumber: 3.7 Consensus size: 41
23188379 TTATGCTCTA
* * * * *
23188389 TCGAGTCATAAGTCTTCCTTTTAAACAATCTTA-TGCTC-TA
1 TCGAGTCATGAGTCTTCCTTTTTAACATTCTCACT-CTCATT
*
23188429 TCGAGTCATAAGTCTTCCTTTTTAACCATTCTCACTCTCATT
1 TCGAGTCATGAGTCTTCCTTTTTAA-CATTCTCACTCTCATT
* * * *
23188471 TCGAGTCATGAGTCATCCTTTATCACATTCTCATTCTCATT
1 TCGAGTCATGAGTCTTCCTTTTTAACATTCTCACTCTCATT
* * *
23188512 TCAAGACATGAGTCTTCCTTTTAAACAT
1 TCGAGTCATGAGTCTTCCTTTTTAACAT
23188540 CAAGAAATTC
Statistics
Matches: 93, Mismatches: 15, Indels: 5
0.82 0.13 0.04
Matches are distributed among these distances:
40 24 0.26
41 46 0.49
42 23 0.25
ACGTcount: A:0.25, C:0.25, G:0.09, T:0.40
Consensus pattern (41 bp):
TCGAGTCATGAGTCTTCCTTTTTAACATTCTCACTCTCATT
Found at i:23191414 original size:4 final size:4
Alignment explanation
Indices: 23191405--23191441 Score: 51
Period size: 4 Copynumber: 9.8 Consensus size: 4
23191395 GACATAAAAT
*
23191405 ATAA ATAA ATAA ATAA AT-A A-AA ATAA ATAA AAAA ATA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATA
23191442 TAAAATTGGG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
3 4 0.14
4 25 0.86
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
ATAA
Found at i:23191428 original size:14 final size:13
Alignment explanation
Indices: 23191401--23191445 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 13
23191391 CCCAGACATA
*
23191401 AAATATAAATAAAT
1 AAATA-AAAAAAAT
23191415 AAATAAATAAAAAT
1 AAATAAA-AAAAAT
23191429 AAATAAAAAAATAT
1 AAATAAAAAAA-AT
23191443 AAA
1 AAA
23191446 ATTGGGTTGC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 6 0.21
14 22 0.79
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATAAAAAAAAT
Found at i:23191428 original size:18 final size:18
Alignment explanation
Indices: 23191400--23191447 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
23191390 TCCCAGACAT
*
23191400 AAAATATAAATAAATAAA
1 AAAATAAAAATAAATAAA
*
23191418 TAAATAAAAATAAATAAA
1 AAAATAAAAATAAATAAA
23191436 AAAATATAAAAT
1 AAAATA-AAAAT
23191448 TGGGTTGCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
18 21 0.81
19 5 0.19
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAATAAAAATAAATAAA
Found at i:23191432 original size:22 final size:23
Alignment explanation
Indices: 23191398--23191441 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
23191388 TTTCCCAGAC
*
23191398 ATAAAATATAAATAAATAAATAA
1 ATAAAATATAAATAAAAAAATAA
23191421 ATAAAA-ATAAATAAAAAAATA
1 ATAAAATATAAATAAAAAAATA
23191442 TAAAATTGGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (23 bp):
ATAAAATATAAATAAAAAAATAA
Found at i:23194926 original size:40 final size:40
Alignment explanation
Indices: 23194880--23195012 Score: 135
Period size: 40 Copynumber: 3.3 Consensus size: 40
23194870 ACTAAGTTGT
* *
23194880 AGCTTGAGTTT-TGACACCGACTCAT-GTCCTGCTAAGCCGA
1 AGCTTGAATTTAT-ACACCGACTCATAG-CCTGCTAAGCCAA
* * *
23194920 AGCTTGAATTTATCCACCGGCTCGTAGCCTGCTAAGCCAA
1 AGCTTGAATTTATACACCGACTCATAGCCTGCTAAGCCAA
* * * * **
23194960 AGCTTGAATTTATTCACTGTCTCATAGCTTGCTAAGCTGA
1 AGCTTGAATTTATACACCGACTCATAGCCTGCTAAGCCAA
23195000 AGCTTGAATTTAT
1 AGCTTGAATTTAT
23195013 TCAAACATAA
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
40 77 0.97
41 2 0.03
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (40 bp):
AGCTTGAATTTATACACCGACTCATAGCCTGCTAAGCCAA
Found at i:23195013 original size:40 final size:40
Alignment explanation
Indices: 23194894--23195015 Score: 156
Period size: 40 Copynumber: 3.0 Consensus size: 40
23194884 TGAGTTTTGA
* *
23194894 CACCGACTCAT-GTCCTGCTAAGCCGAAGCTTGAATTTATC
1 CACCGGCTCATAG-CCTGCTAAGCCGAAGCTTGAATTTATT
* *
23194934 CACCGGCTCGTAGCCTGCTAAGCCAAAGCTTGAATTTATT
1 CACCGGCTCATAGCCTGCTAAGCCGAAGCTTGAATTTATT
* * * *
23194974 CACTGTCTCATAGCTTGCTAAGCTGAAGCTTGAATTTATT
1 CACCGGCTCATAGCCTGCTAAGCCGAAGCTTGAATTTATT
23195014 CA
1 CA
23195016 AACATAACTT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
40 70 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (40 bp):
CACCGGCTCATAGCCTGCTAAGCCGAAGCTTGAATTTATT
Found at i:23195838 original size:19 final size:19
Alignment explanation
Indices: 23195814--23195850 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
23195804 AAGAAGACAG
*
23195814 TTTTTCTTTAGCTTATTTT
1 TTTTTCTTTAACTTATTTT
23195833 TTTTTCTTTAACTTATTT
1 TTTTTCTTTAACTTATTT
23195851 AGACATTATC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.11, G:0.03, T:0.73
Consensus pattern (19 bp):
TTTTTCTTTAACTTATTTT
Found at i:23199483 original size:2 final size:2
Alignment explanation
Indices: 23199476--23199507 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
23199466 TAAATGCACC
*
23199476 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23199508 TCTATCCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:23201975 original size:21 final size:22
Alignment explanation
Indices: 23201943--23202020 Score: 76
Period size: 21 Copynumber: 3.7 Consensus size: 22
23201933 ATAGTAGCAA
*
23201943 ACTTCTATCGATACTTGAAATG
1 ACTTCTACCGATACTTGAAATG
23201965 AC-TCTACCGATAC---AAATG
1 ACTTCTACCGATACTTGAAATG
* *
23201983 TACTTTCTACCGACACTTGACATG
1 -AC-TTCTACCGATACTTGAAATG
23202007 -CTTCTACCGATACT
1 ACTTCTACCGATACT
23202021 AAAAACTCTA
Statistics
Matches: 46, Mismatches: 4, Indels: 13
0.73 0.06 0.21
Matches are distributed among these distances:
18 5 0.11
19 2 0.04
21 32 0.70
22 3 0.07
24 4 0.09
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.32
Consensus pattern (22 bp):
ACTTCTACCGATACTTGAAATG
Found at i:23204180 original size:19 final size:19
Alignment explanation
Indices: 23204158--23204252 Score: 109
Period size: 19 Copynumber: 5.0 Consensus size: 19
23204148 TGTTCTCACA
*
23204158 AGCCAATATTGCTCTTACG
1 AGCCAGTATTGCTCTTACG
* * *
23204177 AGCCAGTATTACTTTTTCG
1 AGCCAGTATTGCTCTTACG
*
23204196 AGCCAGTATTGCTCTTATG
1 AGCCAGTATTGCTCTTACG
** * *
23204215 AGATAGTATTTCTCTTTCG
1 AGCCAGTATTGCTCTTACG
23204234 AGCCAGTATTGCTCTTACG
1 AGCCAGTATTGCTCTTACG
23204253 TATTGCTAAT
Statistics
Matches: 59, Mismatches: 17, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 59 1.00
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.38
Consensus pattern (19 bp):
AGCCAGTATTGCTCTTACG
Done.