Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold159
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: 552906
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 499 characters in sequence are not A, C, G, or T
File 2 of 4
Found at i:110850 original size:33 final size:33
Alignment explanation
Indices: 110808--110874 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
110798 GCCAAGGAAA
***
110808 TGTATCGATACATTTTTCTATGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
*
110841 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTATGTATCGATACAT
110874 T
1 T
110875 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTATGTATCGATACAT
Found at i:113087 original size:51 final size:53
Alignment explanation
Indices: 113018--113359 Score: 201
Period size: 52 Copynumber: 6.5 Consensus size: 53
113008 AGTTTATCAA
* * * * *
113018 TTCTCCACAATCGAGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
113069 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * *** * * *
113123 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC-CAAAAACACCAAT
** ** * * *
113176 CCCGTT-A-TTTCTGAGGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAAT
1 TTC-TTCACAATC---GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * *
113230 TT-TTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* *
113283 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
113335 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
113360 CTCGTTATTT
Statistics
Matches: 220, Mismatches: 45, Indels: 51
0.70 0.14 0.16
Matches are distributed among these distances:
50 4 0.02
51 35 0.16
52 83 0.38
53 35 0.16
54 36 0.16
55 24 0.11
57 3 0.01
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:113202 original size:28 final size:27
Alignment explanation
Indices: 113135--113203 Score: 95
Period size: 27 Copynumber: 2.5 Consensus size: 27
113125 CTTCACAATC
*
113135 GGGGATACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
113162 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
113190 GGGGATACTCCAAC
1 GGGGATACTCCAAC
113204 TCCGGTTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.25, C:0.30, G:0.22, T:0.23
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:113343 original size:104 final size:103
Alignment explanation
Indices: 113023--113358 Score: 297
Period size: 104 Copynumber: 3.2 Consensus size: 103
113013 ATCAATTCTC
* * * *
113023 CACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTT-CTATAATCGGGGAT
1 CACAATCGAGGATACTCCAA-TCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGAT
*
113087 ACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTT
65 ACTCCAACTCCGATTTTATTTCC-AAAAACACCAATTT-TT
* * * * ** * * * ** * *
113128 CACAATCGGGGATACTCCAACCCCG-TTAATCATCGGGGATACTCCAA--CCCCGTTATTTCTGA
1 CACAATCGAGGATACTCCAATCCGGTTTTATTTTC---AAAACACCAATTTTCCTTTA-ATC---
* * *
113190 GGGGATACTCCAACTCCGGTTTTA--TCGCTAAAACACTAATTTTT
59 GGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAATTTTT
* *
113234 CCACAATCGGGGATACTCCAATCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGGGA
1 -CACAATCGAGGATACTCCAATCC-GGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGA
*
113299 TACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTT
64 TACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
113339 CACAATCGAGGATACTCCAA
1 CACAATCGAGGATACTCCAA
113359 CCTCGTTATT
Statistics
Matches: 177, Mismatches: 38, Indels: 33
0.71 0.15 0.13
Matches are distributed among these distances:
103 6 0.03
104 44 0.25
105 35 0.20
106 19 0.11
107 38 0.21
108 7 0.04
109 28 0.16
ACGTcount: A:0.30, C:0.26, G:0.12, T:0.32
Consensus pattern (103 bp):
CACAATCGAGGATACTCCAATCCGGTTTTATTTTCAAAACACCAATTTTCCTTTAATCGGGGATA
CTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTT
Found at i:113380 original size:28 final size:28
Alignment explanation
Indices: 113348--113416 Score: 102
Period size: 28 Copynumber: 2.5 Consensus size: 28
113338 TCACAATCGA
* **
113348 GGATACTCCAACCTCGTTATTTCATTGG
1 GGATACTCCAACCTCGTTACTTCAGAGG
*
113376 GGATACTCCAACCTCGTTACTTCCGAGG
1 GGATACTCCAACCTCGTTACTTCAGAGG
113404 GGATACTCCAACC
1 GGATACTCCAACC
113417 CCGGCTTTAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 37 1.00
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (28 bp):
GGATACTCCAACCTCGTTACTTCAGAGG
Found at i:113388 original size:212 final size:212
Alignment explanation
Indices: 113021--113426 Score: 611
Period size: 212 Copynumber: 1.9 Consensus size: 212
113011 TTATCAATTC
* *
113021 TCCACAATCGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
113086 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
* * * *
113151 CGTTAATCATCGGGGATACTCCAACCCCGTTATTTCTGAGGGGATACTCCAACTCCGGTTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
113216 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
113233 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
113297 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * * *
113360 CTCGTTATTTCATTGGGGATACTCCAACCTCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTT
113425 AT
193 AT
113427 TCCCAAAATA
Statistics
Matches: 174, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
211 31 0.18
212 108 0.62
213 35 0.20
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATC
GCTAAAACACTAATTTT
Found at i:125994 original size:11 final size:11
Alignment explanation
Indices: 125978--126015 Score: 53
Period size: 10 Copynumber: 3.6 Consensus size: 11
125968 TTCTCTTCGA
125978 AAAAAAAAAGC
1 AAAAAAAAAGC
125989 AAAAAAAAAG-
1 AAAAAAAAAGC
*
125999 GAAAAAAAA-C
1 AAAAAAAAAGC
126009 AAAAAAA
1 AAAAAAA
126016 CAAAATAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.87, C:0.05, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAGC
Found at i:126015 original size:23 final size:23
Alignment explanation
Indices: 125976--126046 Score: 56
Period size: 23 Copynumber: 3.0 Consensus size: 23
125966 CCTTCTCTTC
*
125976 GAAAAAAAAAAGCAAAAAAAAAG
1 GAAAAAAAAAAGAAAAAAAAAAG
*
125999 GAAAAAAAACAA-AAAAACAAAA-
1 GAAAAAAAA-AAGAAAAAAAAAAG
*
126021 TAAAGAAAAAGAGAGAAAAGAAAAAA
1 GAAA-AAAAA-A-AGAAAA-AAAAAA
126047 CCTACTTAAG
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 3 0.08
23 23 0.61
24 3 0.08
25 4 0.11
26 5 0.13
ACGTcount: A:0.82, C:0.04, G:0.13, T:0.01
Consensus pattern (23 bp):
GAAAAAAAAAAGAAAAAAAAAAG
Found at i:127089 original size:55 final size:55
Alignment explanation
Indices: 127006--127686 Score: 841
Period size: 55 Copynumber: 12.1 Consensus size: 55
126996 CTCCTTCCGC
* *
127006 TTTT-CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
127060 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
127115 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
127170 TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
127225 TTTTTCAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
127286 CCTTT-AAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCTACACAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
127341 -TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGCTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
127395 TTTTTCAGTCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
127456 CCTTT-CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
127511 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
127566 TTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCA
1 TTTTCCAGTCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
127627 CCTTT-CAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
1 -TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
127682 CTTTT
1 -TTTT
127687 TACTCCTCAA
Statistics
Matches: 549, Mismatches: 53, Indels: 49
0.84 0.08 0.08
Matches are distributed among these distances:
53 3 0.01
54 52 0.09
55 349 0.64
57 3 0.01
59 3 0.01
61 130 0.24
62 9 0.02
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (55 bp):
TTTTCCAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:127091 original size:27 final size:27
Alignment explanation
Indices: 127061--127146 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
127051 TTGGTGGTAT
127061 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
127088 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
127116 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
127143 TTTC
1 TTTC
127147 AAAGCCCACA
Statistics
Matches: 40, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 14 0.35
28 10 0.25
29 5 0.12
30 3 0.08
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:127639 original size:341 final size:335
Alignment explanation
Indices: 127010--127681 Score: 1094
Period size: 341 Copynumber: 2.0 Consensus size: 335
127000 TTCCGCTTTT
* *
127010 CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTATTTTCCAGTCCTCAA
1 CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGCTGGTGGCATTTTCCAGTCCTCAA
* * *
127075 AGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGAC
66 AGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCCCAAAGAGCAGGAC
127140 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAA
131 ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAA
127205 GCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCC
196 GCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCC
* *
127270 ACATAAGTTGGTGGCACCTTTAAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCTACACAAGTTG
261 ACACAAGTTGGTGGCACCTTTAAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
127335 GTGGCATTTC
326 GTGGCATTTC
* * * *
127345 CAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGCTGGTGGCATTTTTCAGTCCTCAA
1 CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGCTGGTGGCATTTTCCAGTCCTCAA
* * *
127410 AGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTT-CAGTCCCCAAAGA
66 AGAGCAAGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCCAGTCCCCAAAGA
* *
127474 GCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCATTTTCCAGTCCTCAAAGAGCAGGACACC
124 GCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACC
*
127539 TTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAGAGCAGGATGCTTTTTCTTTTC
189 TTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTC
* *
127604 AAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCAAAGAGCAGGACGCCTTTCAAAGCCCACA
254 AAAGCCCACACAAGTTGGTGGCACCTTTAAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACA
*
127669 CGAGTTGGTGGCA
319 CAAGTTGGTGGCA
127682 CTTTTTACTC
Statistics
Matches: 310, Mismatches: 20, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
335 67 0.22
337 1 0.00
341 239 0.77
342 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (335 bp):
CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGCTGGTGGCATTTTCCAGTCCTCAA
AGAGCAAGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCCAGTCCCCAAAGAGCAGGAC
ACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAA
GCCCACACAGGTTGGTGGCATTTTTCAGTCCTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCC
ACACAAGTTGGTGGCACCTTTAAGTCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTG
GTGGCATTTC
Found at i:127696 original size:171 final size:171
Alignment explanation
Indices: 127006--127686 Score: 1101
Period size: 171 Copynumber: 4.0 Consensus size: 171
126996 CTCCTTCCGC
* * * * *
127006 TTTT-CAGTCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGTATTTTCCAGTC
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
* * *
127070 CTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-TTTTCCAGTCCTC
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTT-CAGTCCTC
127128 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
130 AAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
127170 TTTTCCAATCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
* * *
127235 CTCAAAAAGCAGGATGCTTTTTCTTTTCAAAGCCCACATAAGTTGGTGGCACCTTTAAGTCCTCA
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
*
127300 AAGAGCAGGACACCTTTCAAAGCCTACACAAGTTGGTGGCA
131 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
*
127341 -TTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGCTGGTGGCATTTTTCAGTC
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
* * *
127405 CTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAGGTTGGTGGCACCTTTCAGTCCCCA
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
*
127470 AAGAGCAGGACACCTTTCAAAGCCCACATAAGTTGGTGGCA
131 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
127511 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
1 TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
127576 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
66 CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
* *
127641 AAGAGCAGGACGCCTTTCAAAGCCCACACGAGTTGGTGGCA
131 AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
127682 CTTTT
1 -TTTT
127687 TACTCCTCAA
Statistics
Matches: 477, Mismatches: 30, Indels: 12
0.92 0.06 0.02
Matches are distributed among these distances:
164 4 0.01
165 67 0.14
167 1 0.00
170 160 0.34
171 238 0.50
172 7 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (171 bp):
TTTTCCAGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAGGTTGGTGGCATTTTTCAGTC
CTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAGTCCTCA
AAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:128538 original size:19 final size:19
Alignment explanation
Indices: 128514--128581 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
128504 AATTCAACAA
128514 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
128533 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
128548 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
128565 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
128582 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:128553 original size:13 final size:13
Alignment explanation
Indices: 128535--128559 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
128525 ACATAAGTTT
128535 TGTATCGATACAA
1 TGTATCGATACAA
128548 TGTATCGATACA
1 TGTATCGATACA
128560 TAAGTATTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:128557 original size:32 final size:32
Alignment explanation
Indices: 128516--128578 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
128506 TTCAACAATT
*
128516 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
128548 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
128579 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:128639 original size:13 final size:13
Alignment explanation
Indices: 128621--128646 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
128611 CATTTTTCTG
128621 TGTATCGATACAT
1 TGTATCGATACAT
128634 TGTATCGATACAT
1 TGTATCGATACAT
128647 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:128643 original size:33 final size:33
Alignment explanation
Indices: 128601--128667 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
128591 GCCAAGGAAA
***
128601 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
128634 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
128667 T
1 T
128668 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:131078 original size:51 final size:53
Alignment explanation
Indices: 131000--131341 Score: 207
Period size: 52 Copynumber: 6.5 Consensus size: 53
130990 AGTTTATCAA
* * * * * *
131000 TTCTCCACAATTGAGGATATTCCAACTCCGATTTTATTTTC-AAAACACTAA-
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
* *
131051 TT-TTCTATAATCGGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAAT
1 TTCTTC-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAAACACCAAT
* * * * * *
131105 TTCTTCACAATCGGGGATACTCCAACCCCG--TTAATCATCGGGGATACTCCAAC-CCCAT
1 TTCTTCACAATCGGGGATACTCCAACTCCGATTTTAT-TTC---CA-A---AAACACCAAT
* * *
131163 TAT-TTC-CCA--GGGGATACTCCAACTCCGATTTTA--TCGCTAAAACACTAAT
1 T-TCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTC-CAAAAACACCAAT
* * *
131212 TT-TTCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTC-AAAACGCCAATT
1 TTCTT-CACAATCGGGGATACTCCAACTCC-GATTTTATTTCCAAAAACACCAA-T
* *
131265 TTCCTT--TAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAT
1 TT-CTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
*
131317 TT-TTCACAATCGAGGATACTCCAAC
1 TTCTTCACAATCGGGGATACTCCAAC
131342 CTCGTTATTT
Statistics
Matches: 224, Mismatches: 36, Indels: 61
0.70 0.11 0.19
Matches are distributed among these distances:
48 6 0.03
49 5 0.02
50 6 0.03
51 35 0.16
52 79 0.35
53 26 0.12
54 26 0.12
55 23 0.10
56 1 0.00
57 5 0.02
58 8 0.04
59 4 0.02
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.32
Consensus pattern (53 bp):
TTCTTCACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAAT
Found at i:131184 original size:28 final size:27
Alignment explanation
Indices: 131116--131185 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 27
131106 TCTTCACAAT
* *
131116 CGGGGATACTCCAACCCCGTTAATCAT
1 CGGGGATACTCCAACCCCATTAATCAC
*
131143 CGGGGATACTCCAACCCCATTATTTC-C
1 CGGGGATACTCCAACCCCATTA-ATCAC
131170 CAGGGGATACTCCAAC
1 C-GGGGATACTCCAAC
131186 TCCGATTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.26, C:0.34, G:0.19, T:0.21
Consensus pattern (27 bp):
CGGGGATACTCCAACCCCATTAATCAC
Found at i:131361 original size:28 final size:28
Alignment explanation
Indices: 131325--131401 Score: 100
Period size: 28 Copynumber: 2.8 Consensus size: 28
131315 ATTTTTCACA
* * *
131325 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
131353 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCCCGTTACTTC
***
131381 CGAGGGGATACTCCAACCCCG
1 ATCGGGGATACTCCAACCCCG
131402 GCTTTATTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.23
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCCGTTACTTC
Found at i:131370 original size:212 final size:212
Alignment explanation
Indices: 131003--131397 Score: 607
Period size: 212 Copynumber: 1.9 Consensus size: 212
130993 TTATCAATTC
* * *
131003 TCCACAATTGAGGATATTCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATAATCGGGGA
1 TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
* *
131068 TACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCCAACCC
66 TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
*
131133 CGTTAATCATCGGGGATACTCCAACCCCATTATTTCCCAGGGGATACTCCAACTCCGATTTTATC
131 CGTTAATCATCGGGGATACTCCAACCCCATTACTTCCCAGGGGATACTCCAACTCCGATTTTATC
131198 GCTAAAACACTAATTTT
196 GCTAAAACACTAATTTT
* * * *
131215 TCCACAATCGGGGATACTCCAA-TCCTGGTTTTATTTTCAAAACGCCAATTTTCCTTTAATCGGG
1 TCCACAATCGAGGATACTCCAACTCC-GATTTTATTTTCAAAACACCAATTTT-CTATAATCGGG
*
131279 GATACTCCAACTCCGATTTTATTTCC-AAAAATACCAATTT-TTCACAATCGAGGATACTCCAAC
64 GATACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAAC
* * * *
131342 CTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAAC
129 CCCGTTA-ATCATCGGGGATACTCCAACCCCATTACTTCCCAGGGGATACTCCAAC
131398 CCCGGCTTTA
Statistics
Matches: 165, Mismatches: 15, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
211 31 0.19
212 99 0.60
213 35 0.21
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (212 bp):
TCCACAATCGAGGATACTCCAACTCCGATTTTATTTTCAAAACACCAATTTTCTATAATCGGGGA
TACTCCAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGAGGATACTCCAACCC
CGTTAATCATCGGGGATACTCCAACCCCATTACTTCCCAGGGGATACTCCAACTCCGATTTTATC
GCTAAAACACTAATTTT
Found at i:131468 original size:107 final size:107
Alignment explanation
Indices: 131063--131480 Score: 296
Period size: 107 Copynumber: 3.9 Consensus size: 107
131053 TTCTATAATC
* * * * *
131063 GGGGATACTCTAACTCCGATTTTATTTCCAAAAAACACCAATTTCTTCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTCC-AAAAATACCAATTTC-TCACAATCGAGGATACTCC
* * * * *
131128 AACCCCGTTAATCATCGGGGATACTCCAACCCCATTATTTCCCA
64 AACCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
* * * * * * *
131172 GGGGATACTCCAACTCCGA-TTT-TATCGCTAAAACACTAATTTTTCCACAATCGGGGATACTCC
1 GGGGATACTCCAACCCCGACTTTATTTC-CAAAAATACCAATTTCT-CACAATCGAGGATACTCC
* * * ***** * * ** * *
131235 AATCCTGGT-TTTATTTTCAAAACGCCAATTTTCCTTTA-AT-C--
64 AACCCCGTTATTTATCGGGGATACTCCAA--CCCCGTTACTTCCGA
* * *
131276 GGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATCGAGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
131341 CCTCGTTATTTCATCGGGGATACTCCAACCCCGTTACTTCCGA
66 CCCCGTTATTT-ATCGGGGATACTCCAACCCCGTTACTTCCGA
* * *** * * *
131384 GGGGATACTCCAACCCCGGCTTTA-TTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAA
1 GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
*
131448 CCCCGTTATTT-TCGAAGGGATACTCCAATCCCG
66 CCCCGTTATTTATCG--GGGATACTCCAACCCCG
131481 ATTTTTTTTT
Statistics
Matches: 241, Mismatches: 54, Indels: 30
0.74 0.17 0.09
Matches are distributed among these distances:
104 46 0.19
105 24 0.10
106 25 0.10
107 98 0.41
108 30 0.12
109 18 0.07
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (107 bp):
GGGGATACTCCAACCCCGACTTTATTTCCAAAAATACCAATTTCTCACAATCGAGGATACTCCAA
CCCCGTTATTTATCGGGGATACTCCAACCCCGTTACTTCCGA
Found at i:131504 original size:79 final size:79
Alignment explanation
Indices: 131355--131557 Score: 230
Period size: 79 Copynumber: 2.6 Consensus size: 79
131345 GTTATTTCAT
* * * *
131355 CGGGGATACTCCAACCCCGTTACTTCCGAGGGGATACTCCAACCCCGGCTTTATTCCCAAAATAT
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
* * *
131420 TGATTTCTCATAAT
66 CGATTTCTCACAAC
* * * * ** *
131434 TGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAATCCCGATTTTTTTTTC-TAATCA
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAAT-A
131498 TCGATTTCTCACAAC
65 TCGATTTCTCACAAC
* *
131513 CGGGGATACTCCAGCCCCGTTATTTTC-AAGGGAACACTCCAACCC
1 CGGGGATACTCCAACCCCGTTATTTTCGAAGGG-ATACTCCAACCC
131558 TGTTATTATC
Statistics
Matches: 104, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
78 8 0.08
79 96 0.92
ACGTcount: A:0.25, C:0.30, G:0.16, T:0.29
Consensus pattern (79 bp):
CGGGGATACTCCAACCCCGTTATTTTCGAAGGGATACTCCAACCCCGACTTTATTCCCAAAATAT
CGATTTCTCACAAC
Found at i:132696 original size:52 final size:52
Alignment explanation
Indices: 132539--133178 Score: 839
Period size: 52 Copynumber: 12.7 Consensus size: 52
132529 GATACAATGT
* *
132539 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
* * * * * **
132591 CCAGTGTTGCTGGCCTTGAATCAGCACATTGTCA-C--CATCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
* **
132640 CCAATATCGCTGGCCTTGAATTGGCATATTGGCACCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
*
132692 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTT-G--ATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
* * **
132741 CCAATGTCGCTGGCCTTGAATTAGCACATTGGCACC-T--TCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
*
132790 CCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
132842 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
132894 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
132946 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
* * **
132995 CCAATGTCGCTGGCCTTAAATCAGCACATTGGCACC-T--TCATCTTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
* * *
133044 CCAATATCACTGGCCTTGAATGAGCATATTGGCACCTTCGTCATCTTTAAAA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
* * * * **
133096 CCAATGTCGCTGGCCTAGAATCAGCACATTGGAACC-T--TCATCCTTAAGT
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
* * **
133145 CCAATATCGTTGGCCTTGAATCAGTGTATTGGCA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
133179 TCTTTAACAT
Statistics
Matches: 518, Mismatches: 59, Indels: 25
0.86 0.10 0.04
Matches are distributed among these distances:
48 1 0.00
49 248 0.48
50 3 0.01
51 4 0.01
52 262 0.51
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (52 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAA
Found at i:132712 original size:101 final size:101
Alignment explanation
Indices: 132537--133178 Score: 891
Period size: 101 Copynumber: 6.4 Consensus size: 101
132527 CAGATACAAT
* * *
132537 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAGTGTTGCT
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCT
* *
132602 GGCCTTGAATCAGCACATTGTCACCATCATCTTTAA
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
**
132638 GTCCAATATCGCTGGCCTTGAATTGGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCT
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCT
*
132703 GGCCTTGAATCAGCACATTGGCACCTTGATCTTTAA
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
** * * * ** *
132739 AACCAATGTCGCTGGCCTTGAATTAGCACATTGGCACC-T--TCATCTTTAAGTCCAATATCGCT
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCT
*
132801 GGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAA
66 GGCCTTGAATCAGCACATTGGCACC-T--TCATCTTTAA
** *
132840 AACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCT
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCT
*
132905 GGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAA
66 GGCCTTGAATCAGCACATTGGCACC-T--TCATCTTTAA
** *
132944 AACCAATGTCGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTTAAAACCAATGTCGCT
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCT
*
133006 GGCCTTAAATCAGCACATTGGCACCTTCATCTTTAA
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
* *
133042 GTCCAATATCACTGGCCTTGAATGAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCT
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCT
* * *
133107 GGCCTAGAATCAGCACATTGGAACCTTCATCCTTAA
66 GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
* **
133143 GTCCAATATCGTTGGCCTTGAATCAGTGTATTGGCA
1 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA
133179 TCTTTAACAT
Statistics
Matches: 493, Mismatches: 39, Indels: 18
0.90 0.07 0.03
Matches are distributed among these distances:
98 87 0.18
99 2 0.00
100 2 0.00
101 303 0.61
102 1 0.00
103 1 0.00
104 97 0.20
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (101 bp):
GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCT
GGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
Found at i:133176 original size:150 final size:153
Alignment explanation
Indices: 132539--133178 Score: 818
Period size: 150 Copynumber: 4.2 Consensus size: 153
132529 GATACAATGT
* * * *
132539 CCAATATCGCTGGCCTTGAATCAGCATATTGGCGCCTTCGTCATCTTTAAAACCAGTGTTGCTGG
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCATCTTTAAAACCAATGTCGCTGG
* * ** **
132604 CCTTGAATCAGCACATTGTCA-C-CATCATCTTTAAGTCCAATATCGCTGGCCTTGAATTGGCAT
65 CCTTGAATCAGCACATTGGCACCTCGTCATCTTTAAAACCAATATCGCTGGCCTTGAATCAGCAT
132667 ATTGGCACCTTCGTCATCTTTAAAA
130 ATTGGCACCTTC-TCATCTTTAAAA
* *
132692 CCAATGTCGCTGGCCTTGAATCAGCACATTGGCACC-T-TGATCTTTAAAACCAATGTCGCTGGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCATCTTTAAAACCAATGTCGCTGGC
* **
132755 CTTGAATTAGCACATTGGCACCT--TCATCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATA
66 CTTGAATCAGCACATTGGCACCTCGTCATCTTTAAAACCAATATCGCTGGCCTTGAATCAGCATA
132818 TTGGCACCTTCGTCATCTTTAAAA
131 TTGGCACCTTC-TCATCTTTAAAA
132842 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCTGG
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTC-TCATCTTTAAAACCAATGTCGCTGG
* *
132907 CCTTGAATCAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTTGAATCAGCA
65 CCTTGAATCAGCACATTGGCACC-TCGTCATCTTTAAAACCAATATCGCTGGCCTTGAATCAGCA
132972 TATTGGCACC-T-TCATCTTTAAAA
129 TATTGGCACCTTCTCATCTTTAAAA
* * ** * *
132995 CCAATGTCGCTGGCCTTAAATCAGCACATTGGCACC-T-TCATCTTTAAGTCCAATATCACTGGC
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCATCTTTAAAACCAATGTCGCTGGC
* * * * *
133058 CTTGAATGAGCATATTGGCACCTTCGTCATCTTTAAAACCAATGTCGCTGGCCTAGAATCAGCAC
66 CTTGAATCAGCACATTGGCACC-TCGTCATCTTTAAAACCAATATCGCTGGCCTTGAATCAGCAT
* * **
133123 ATTGGAACC-T-TCATCCTTAAGT
130 ATTGGCACCTTCTCATCTTTAAAA
* * **
133145 CCAATATCGTTGGCCTTGAATCAGTGTATTGGCA
1 CCAATGTCGCTGGCCTTGAATCAGCATATTGGCA
133179 TCTTTAACAT
Statistics
Matches: 443, Mismatches: 36, Indels: 19
0.89 0.07 0.04
Matches are distributed among these distances:
150 268 0.60
151 2 0.00
152 2 0.00
153 124 0.28
154 1 0.00
155 1 0.00
156 45 0.10
ACGTcount: A:0.25, C:0.26, G:0.17, T:0.31
Consensus pattern (153 bp):
CCAATGTCGCTGGCCTTGAATCAGCATATTGGCACCTTCTCATCTTTAAAACCAATGTCGCTGGC
CTTGAATCAGCACATTGGCACCTCGTCATCTTTAAAACCAATATCGCTGGCCTTGAATCAGCATA
TTGGCACCTTCTCATCTTTAAAA
Found at i:134092 original size:19 final size:19
Alignment explanation
Indices: 134068--134117 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
134058 AAATAGTAAC
134068 TGTATCGATACATAAATGT
1 TGTATCGATACATAAATGT
*
134087 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAATGT
134106 TGTATCGATACA
1 TGTATCGATACA
134118 ATGTATCACT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (19 bp):
TGTATCGATACATAAATGT
Found at i:134383 original size:19 final size:20
Alignment explanation
Indices: 134359--134396 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
134349 AATATCAATT
134359 GCCACAT-GTCAAAACCCAA
1 GCCACATGGTCAAAACCCAA
*
134378 GCCACATGGTCCAAACCCA
1 GCCACATGGTCAAAACCCA
134397 TTGGCTACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.37, C:0.39, G:0.13, T:0.11
Consensus pattern (20 bp):
GCCACATGGTCAAAACCCAA
Found at i:136873 original size:16 final size:16
Alignment explanation
Indices: 136852--136884 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
136842 AGGGGATCAT
136852 ATCGAAAT-AATGATAA
1 ATCGAAATCAATG-TAA
136868 ATCGAAATCAATGTAA
1 ATCGAAATCAATGTAA
136884 A
1 A
136885 CAATATCGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.55, C:0.09, G:0.12, T:0.24
Consensus pattern (16 bp):
ATCGAAATCAATGTAA
Found at i:140053 original size:51 final size:51
Alignment explanation
Indices: 139997--140108 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
139987 AACGGGGTTG
* * *
139997 GAGTATCCCCGATTGTGAGAAATTGATGTTTT-GAAACTAAAATCGGAGTTA
1 GAGTATCCCCGATTATGAAAAATTGATATTTTAGAAA-TAAAATCGGAGTTA
* * *
140048 GAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTG
1 GAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAATCGGAGTTA
140099 GAGTATCCCC
1 GAGTATCCCC
140109 TCAAAAATAA
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 50 0.93
52 4 0.07
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.30
Consensus pattern (51 bp):
GAGTATCCCCGATTATGAAAAATTGATATTTTAGAAATAAAATCGGAGTTA
Found at i:140121 original size:130 final size:130
Alignment explanation
Indices: 139903--140139 Score: 345
Period size: 130 Copynumber: 1.8 Consensus size: 130
139893 GTTCTAAAAA
* **
139903 TAAAATCAGGGTTAGAGTATCCCCGATTGTGAAAAAATCGATGCTTTAGAAATAAGGCCGGGGTT
1 TAAAATCAGGGTTAGAGTATCCCCGATTATGAAAAAATCGAT-CTTTAGAAATAAAACCGGGGTT
* *
139968 GGAGTATCCCCGTGAAAATAACGGGGTTGGAGTATCCCCGATTGTGAGAAATTGATGTTTTGAAA
65 GGAGTATCCCCGTAAAAATAACGGGATTGGAGTATCCCCGATTGTGAGAAATTGATGTTTTGAAA
140033 C
130 C
* * *
140034 TAAAATC-GGAGTTAGAGTATCCCCGATTATGAAAAATTGGTAT-TTTAGAAATAAAATCGGGGT
1 TAAAATCAGG-GTTAGAGTATCCCCGATTATGAAAAAATCG-ATCTTTAGAAATAAAACCGGGGT
140097 TGGAGTATCCCC-TCAAAAATAACGGGATTGGAGTATCCCCGAT
64 TGGAGTATCCCCGT-AAAAATAACGGGATTGGAGTATCCCCGAT
140140 GACATAACGG
Statistics
Matches: 95, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
129 1 0.01
130 58 0.61
131 34 0.36
132 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (130 bp):
TAAAATCAGGGTTAGAGTATCCCCGATTATGAAAAAATCGATCTTTAGAAATAAAACCGGGGTTG
GAGTATCCCCGTAAAAATAACGGGATTGGAGTATCCCCGATTGTGAGAAATTGATGTTTTGAAAC
Found at i:140204 original size:109 final size:107
Alignment explanation
Indices: 140044--140315 Score: 355
Period size: 109 Copynumber: 2.5 Consensus size: 107
140034 TAAAATCGGA
* ** * *
140044 GTTAGAGTATCCCCGATTATGAAAAATTGGTATTTTAGAAATAAAATCGGGGTTGGAGTATCCCC
1 GTTAGAGTACCCCCGATTATGAAAAATTAATATTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
*
140109 TCAAAAATAACGGGATTGGAGTATCCCCGATGACATAACGGG
66 TCAAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGGG
* * * *
140151 GTTAGAGTGCCCCCCGATTATGAAAAAATCAATATTTTGGATATAAAGCCGGGGTTGGAGTATCC
1 GTTAGAGT-ACCCCCGATTATG-AAAAATTAATATTTTGGAAATAAAACCGGGGTTGGAGTATCC
** *
140216 CCTCGGAAATAACGGGGTTGGAGTATCCCCGATGAAATAACGGG
64 CCTCAAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGGG
* * * * * *
140260 GTTTGAGTATCCCCGATTGTGAAAAATTAATGTTTTGGAAATAAAATCGGAGTTGG
1 GTTAGAGTACCCCCGATTATGAAAAATTAATATTTTGGAAATAAAACCGGGGTTGG
140316 TATATCCTTG
Statistics
Matches: 140, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
107 37 0.26
108 21 0.15
109 82 0.59
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (107 bp):
GTTAGAGTACCCCCGATTATGAAAAATTAATATTTTGGAAATAAAACCGGGGTTGGAGTATCCCC
TCAAAAATAACGGGATTGGAGTATCCCCGATGAAATAACGGG
Found at i:140276 original size:28 final size:28
Alignment explanation
Indices: 140200--140276 Score: 118
Period size: 28 Copynumber: 2.8 Consensus size: 28
140190 GATATAAAGC
***
140200 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
140228 CGGGGTTGGAGTATCCCCGATGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
140256 CGGGGTTTGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
140277 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.23, C:0.21, G:0.32, T:0.23
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:142647 original size:20 final size:20
Alignment explanation
Indices: 142622--142676 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
142612 AAAATGCCTG
*
142622 AATGTATCGATACATTGTAA
1 AATGTATCGATACATTGCAA
*
142642 AATGTATCGATACAATGCAA
1 AATGTATCGATACATTGCAA
142662 AATGTATCGATACAT
1 AATGTATCGATACAT
142677 CTGGGTAAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
AATGTATCGATACATTGCAA
Found at i:142732 original size:13 final size:13
Alignment explanation
Indices: 142714--142739 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
142704 ACAAAGATCG
142714 ATGTATCGATACA
1 ATGTATCGATACA
142727 ATGTATCGATACA
1 ATGTATCGATACA
142740 TTGAATAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:147344 original size:52 final size:52
Alignment explanation
Indices: 147259--147383 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
147249 ATATGAAAAG
* *
147259 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
*
147311 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
147363 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
147384 AAGATCAGTG
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAAT
Found at i:147396 original size:52 final size:51
Alignment explanation
Indices: 147259--147403 Score: 211
Period size: 52 Copynumber: 2.8 Consensus size: 51
147249 ATATGAAAAG
*
147259 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
* *
147311 TTGCCTGCATGTATCGATACATTTTATAATGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA-TTAATAGTGTATCGATACATCTGGGCAAAT
*
147363 TTGCCTGCATGTATCGATACA-AAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACATTA-AT-AGTGTATCGATACA
147404 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 83 0.98
ACGTcount: A:0.30, C:0.17, G:0.19, T:0.34
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTAATAGTGTATCGATACATCTGGGCAAAT
Found at i:147410 original size:13 final size:13
Alignment explanation
Indices: 147392--147416 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
147382 CAAAGATCAG
147392 TGTATCGATACAA
1 TGTATCGATACAA
147405 TGTATCGATACA
1 TGTATCGATACA
147417 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:147494 original size:33 final size:33
Alignment explanation
Indices: 147457--147523 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
147447 AGTAGCTTAA
147457 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
147490 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
147523 A
1 A
147524 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:147497 original size:13 final size:13
Alignment explanation
Indices: 147479--147503 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
147469 CAAAAAAATA
147479 TGTATCGATACAT
1 TGTATCGATACAT
147492 TGTATCGATACA
1 TGTATCGATACA
147504 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:148420 original size:67 final size:67
Alignment explanation
Indices: 148300--148426 Score: 159
Period size: 67 Copynumber: 1.9 Consensus size: 67
148290 ATTGGGTTTT
* *
148300 AAAGATGATAAAGGTGCTAATATGCTGATTCAAGGCCAGCAATATTAGACTTAAAGATGAAGATG
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAGC-ATATTAGACTTAAAGATGAAGATG
148365 AGA
65 AGA
* * * *
148368 AAAG-TGATAAAGATGCCAATATGTTGATTCACGGCCAATGC-TATTGGGCTTAAAGATGA
1 AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCC-A-GCATATTAGACTTAAAGATGA
148427 GAAAAAGGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
67 44 0.86
68 5 0.10
69 2 0.04
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (67 bp):
AAAGATGATAAAGATGCCAATATGCTGATTCAAGGCCAGCATATTAGACTTAAAGATGAAGATGA
GA
Found at i:148648 original size:49 final size:49
Alignment explanation
Indices: 148439--149048 Score: 765
Period size: 49 Copynumber: 12.7 Consensus size: 49
148429 AAAAGGATGT
* * *
148439 CAATATGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAATGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * *
148491 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTAC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
148534 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
148582 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
148631 CAATGTGCTGAGTCAAGGCTAGCTACATTGGACGTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
148680 CAATATGCTGATTCAAGGCCAGCAATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
148723 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
148772 CAATATGCTGATTCAAGGCCAGCTATATTGGGCTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
148821 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* *
148873 CAATATGCTGATTCAAGGCCAGCTATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
148916 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGGTG-AGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
148964 TAATGTGCTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
149013 CAATATGCTGATTCAGGGCCAGCTATATTGGGCTTA
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTA
149049 GAAGGGTTGC
Statistics
Matches: 489, Mismatches: 46, Indels: 49
0.84 0.08 0.08
Matches are distributed among these distances:
43 117 0.24
45 1 0.00
47 1 0.00
48 93 0.19
49 204 0.42
50 1 0.00
52 72 0.15
ACGTcount: A:0.30, C:0.18, G:0.26, T:0.26
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:149094 original size:33 final size:32
Alignment explanation
Indices: 149041--149220 Score: 249
Period size: 33 Copynumber: 5.5 Consensus size: 32
149031 CCAGCTATAT
149041 TGGGC-TTA-GAAGGGTTGCCACCGACTTGTG
1 TGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
*
149071 TGGGCTTTAGGAAGGGATTGCCACCAACTTGTG
1 TGGGCTTTAGGAAGGG-TTGCCACCGACTTGTG
149104 TGGGCTTTAGAGGAA-GGTTGCCACCGACTTGTG
1 TGGGCTTT--AGGAAGGGTTGCCACCGACTTGTG
149137 TGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTG
1 TGGGCTTTAG-GAAGGG-TTGCCACCGACTTGTG
* *
149171 TGGGATTTAGAGAAGGTTTGCCACCGACTTGTG
1 TGGGCTTTAG-GAAGGGTTGCCACCGACTTGTG
*
149204 TGGGCTTTAGAAAGGGT
1 TGGGCTTTAGGAAGGGT
149221 GAAAGATGCC
Statistics
Matches: 135, Mismatches: 7, Indels: 14
0.87 0.04 0.09
Matches are distributed among these distances:
30 5 0.04
31 5 0.04
32 14 0.10
33 73 0.54
34 33 0.24
35 5 0.04
ACGTcount: A:0.19, C:0.17, G:0.36, T:0.28
Consensus pattern (32 bp):
TGGGCTTTAGGAAGGGTTGCCACCGACTTGTG
Found at i:149168 original size:67 final size:66
Alignment explanation
Indices: 149048--149220 Score: 278
Period size: 67 Copynumber: 2.6 Consensus size: 66
149038 TATTGGGCTT
* *
149048 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTAG-GAAGGGATTGCCACCAACTTGTGTGGGCTTT
1 AGAA-GGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGATTT
149112 AG
65 AG
*
149114 AGGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCGACTTGTGTGGGATTT
1 A-GAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGATTT
149179 AG
65 AG
149181 AGAAGGTTTGCCACCGACTTGTGTGGGCTTTAGA-AAGGGT
1 AGAAGG-TTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGT
149221 GAAAGATGCC
Statistics
Matches: 101, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
66 40 0.40
67 61 0.60
ACGTcount: A:0.20, C:0.17, G:0.35, T:0.28
Consensus pattern (66 bp):
AGAAGGTTGCCACCGACTTGTGTGGGCTTTAGAGAAGGGTTTGCCACCAACTTGTGTGGGATTTA
G
Found at i:149332 original size:34 final size:34
Alignment explanation
Indices: 149222--149712 Score: 496
Period size: 34 Copynumber: 14.6 Consensus size: 34
149212 AGAAAGGGTG
* * * *
149222 AAAGA-TGCCATGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
149255 CAAG-GTGCCATGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-GG-AA
*
149291 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
149325 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
149359 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
149393 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
149426 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
149459 AAAGAGTGCCACGTAGTCGTGGACTTAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
**
149490 ---G-GTGCCACGGAGTTGTGGGCTTTGAA--AA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
149518 GAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
** *
149554 AAAGAGTGCCACAAAGTTGTGGGCTGTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCT-TAAAAGGAA
149589 AAAG-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
** *
149625 AAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* * *
149660 AAAGTGTGCCACAGAGTTGTGGGCTTTAAA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
149693 AAA-A-TGCCACTGAGTCGTGG
1 AAAGAGTGCCACGGAGTTGTGG
149713 ACTTTGAGAC
Statistics
Matches: 401, Mismatches: 36, Indels: 44
0.83 0.07 0.09
Matches are distributed among these distances:
27 20 0.05
28 1 0.00
31 34 0.08
32 3 0.01
33 85 0.21
34 131 0.33
35 40 0.10
36 31 0.08
37 56 0.14
ACGTcount: A:0.33, C:0.12, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:149591 original size:35 final size:34
Alignment explanation
Indices: 149485--149689 Score: 236
Period size: 35 Copynumber: 5.9 Consensus size: 34
149475 TCGTGGACTT
* * *
149485 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAG
* *
149519 ---AAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTT-AAAA-AG
* *
149552 AAAAAGAGTGCCACAAAGTTGTGGGCTGTAAAAAG
1 AAAAAG-GTGCCACAGAGTTGTGGGCTTTAAAAAG
* *
149587 AAAAAGGTGCCACGGAGTTGTGGGCTTTGAAAAGGG
1 AAAAAGGTGCCACAGAGTTGTGGGCTTT-AAAA-AG
*
149623 AAAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAAG
1 AAAAAG-GTGCCACAGAGTTGTGGGCTTTAAAAAG
149658 AAAAAGTGTGCCACAGAGTTGTGGGCTTTAAA
1 AAAAAG-GTGCCACAGAGTTGTGGGCTTTAAA
149690 GAAAAAATGC
Statistics
Matches: 146, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
31 24 0.16
32 3 0.02
33 1 0.01
34 19 0.13
35 42 0.29
36 18 0.12
37 39 0.27
ACGTcount: A:0.34, C:0.12, G:0.34, T:0.20
Consensus pattern (34 bp):
AAAAAGGTGCCACAGAGTTGTGGGCTTTAAAAAG
Found at i:149733 original size:30 final size:30
Alignment explanation
Indices: 149693--149749 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
149683 CTTTAAAGAA
*
149693 AAAATGCCACTGAGTCGTGGACTTTGAGAC
1 AAAATACCACTGAGTCGTGGACTTTGAGAC
149723 AAAATACCACTGAGTCGTGGACTTTGA
1 AAAATACCACTGAGTCGTGGACTTTGA
149750 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAATACCACTGAGTCGTGGACTTTGAGAC
Found at i:156237 original size:20 final size:20
Alignment explanation
Indices: 156212--156285 Score: 80
Period size: 20 Copynumber: 3.7 Consensus size: 20
156202 TTTTAACTAG
*
156212 ATGTATCGATACATTGAAGA
1 ATGTATCGATACATTGAAAA
* * *
156232 ATGTATTGATACATTCATACA
1 ATGTATCGATACATTGA-AAA
156253 A-GTATTC-ATACATTGAAAA
1 ATGTA-TCGATACATTGAAAA
156272 ATGTATCGATACAT
1 ATGTATCGATACAT
156286 CTGGGTAAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
19 5 0.11
20 35 0.80
21 4 0.09
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACATTGAAAA
Found at i:156345 original size:71 final size:71
Alignment explanation
Indices: 156229--156367 Score: 217
Period size: 71 Copynumber: 2.0 Consensus size: 71
156219 GATACATTGA
* * *
156229 AGAATGTATTGATACATTCATACAAGTATTCATACATTGAAAAATGTATCGATACATCTGGGTAA
1 AGAATGTATCGATACATTCATACAAGTATTCATACATTGAAAAATGTATCAATACATCTAGGTAA
156294 AAAGAT
66 AAAGAT
**
156300 AGAATGTATCGATACATTCATACCTGTA-TCGATACATTGAAAAATGTATCAATACATCTAGGTA
1 AGAATGTATCGATACATTCATACAAGTATTC-ATACATTGAAAAATGTATCAATACATCTAGGTA
156364 AAAA
65 AAAA
156368 TGTAACTTTT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
70 2 0.03
71 60 0.97
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.30
Consensus pattern (71 bp):
AGAATGTATCGATACATTCATACAAGTATTCATACATTGAAAAATGTATCAATACATCTAGGTAA
AAAGAT
Found at i:156347 original size:20 final size:20
Alignment explanation
Indices: 156302--156356 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
156292 AAAAAGATAG
*
156302 AATGTATCGATACATTCATA
1 AATGTATCGATACATTCAAA
** *
156322 CCTGTATCGATACATTGAAA
1 AATGTATCGATACATTCAAA
*
156342 AATGTATCAATACAT
1 AATGTATCGATACAT
156357 CTAGGTAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (20 bp):
AATGTATCGATACATTCAAA
Found at i:157192 original size:45 final size:49
Alignment explanation
Indices: 157087--157201 Score: 139
Period size: 45 Copynumber: 2.4 Consensus size: 49
157077 CAATGTGCCA
* *
157087 ATTCAAGGCCAGCGACATTAGGCTAAAGGAAAAGTGGACCAATGTGCTG
1 ATTCAAGGCCAGCGACATTGGGCTAAAGGAAAAGTGGACCAATATGCTG
* * *
157136 ATTCAAGGCCAGCGACATTGGGCT-AA-TAAAGGT-G-CCAATATGTTG
1 ATTCAAGGCCAGCGACATTGGGCTAAAGGAAAAGTGGACCAATATGCTG
* *
157181 ATTCAATGCCAGCGATATTGG
1 ATTCAAGGCCAGCGACATTGG
157202 ACTTTAAGAT
Statistics
Matches: 59, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
45 28 0.47
46 1 0.02
47 5 0.08
48 2 0.03
49 23 0.39
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (49 bp):
ATTCAAGGCCAGCGACATTGGGCTAAAGGAAAAGTGGACCAATATGCTG
Found at i:157378 original size:28 final size:28
Alignment explanation
Indices: 157275--157702 Score: 455
Period size: 28 Copynumber: 14.9 Consensus size: 28
157265 TTAAAAAAAA
*
157275 GTGCCACTAACTTGTGTAGGCTTTGAAAAGAG
1 GTGCCACTGACTTGTG--GGCTTTG-AAAG-G
* * *
157307 TTGCCA-TCGATTTATGGGCTTTGAAAGG
1 GTGCCACT-GACTTGTGGGCTTTGAAAGG
*
157335 GTATGCCACTGACTTGTAGGCTTTGAAAGG
1 G--TGCCACTGACTTGTGGGCTTTGAAAGG
157365 GTGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * * *
157393 GTGCTACTGAATTTTGAGCTTCGGAAA-G
1 GTGCCACTGACTTGTGGGCTT-TGAAAGG
* * *
157421 GTGCGATTGATTTGTGTGGGCTTTGAAAGG
1 GTGCCACTGA-CT-TGTGGGCTTTGAAAGG
*
157451 GTATGCTACTGACTTGTGGGCTTTGAAAGG
1 G--TGCCACTGACTTGTGGGCTTTGAAAGG
*
157481 GTGCCACTGACTTGTGGGCTTTAAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
157509 ATGCCACTGACTTGTGGTCTTTTGAAAGG
1 GTGCCACTGACTTGTGGGC-TTTGAAAGG
*
157538 ATGCCACTGACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * * *
157566 ATGCTACTAACTTGTGAGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
157594 ATGCCACTAACTTGTGGGCTTTGAAAGG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
*
157622 GTGCCACTGACTTGTGGGCTTTGAAAAG
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* * *
157650 ATGCCACTAACTTGTGGGCTTTGAAAGA
1 GTGCCACTGACTTGTGGGCTTTGAAAGG
* *
157678 ATGCCACTGACCTGTGGGCTTTGAA
1 GTGCCACTGACTTGTGGGCTTTGAA
157703 GACATAAACG
Statistics
Matches: 342, Mismatches: 43, Indels: 26
0.83 0.10 0.06
Matches are distributed among these distances:
28 227 0.66
29 39 0.11
30 56 0.16
31 3 0.01
32 17 0.05
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (28 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGG
Found at i:157536 original size:116 final size:112
Alignment explanation
Indices: 157321--157702 Score: 473
Period size: 116 Copynumber: 3.4 Consensus size: 112
157311 CATCGATTTA
*
157321 TGGGCTTTGAAAGGGTATGCCACTGACTTGTAGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAA-GGTATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
* * * ** * * *
157386 TGAAAGGGTGCTACTGAATTTTGAGCTTCGGAAAGGTGCGATTGATTTGTG
65 TGAAAGGGTGCCACTGACTTGTG-GCTTTTGAAAGGTGCCACTGA-CT-TG
*
157437 TGGGCTTTGAAAGGGTATGCTACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
1 TGGGCTTTGAAA-GGTATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
* *
157502 TAAAAGGATGCCACTGACTTGTGGTCTTTTGAAAGGATGCCACTGACTTG
65 TGAAAGGGTGCCACTGACTTGTGG-CTTTTGAAAGG-TGCCACTGACTTG
* * * * *
157552 TGGGCTTTGAAAGG-ATGCTACTAACTTGTGAGCTTTGAAAGGATGCCACTAACTTGTGGGCTTT
1 TGGGCTTTGAAAGGTATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
* *
157616 GAAAGGGTGCCACTGACTTGTGGGC-TTTGAAAAGATGCCACTAACTTG
66 GAAAGGGTGCCACTGACTTGT-GGCTTTTG-AAAGGTGCCACTGACTTG
* *
157664 TGGGCTTTGAAA-GAATGCCACTGACCTGTGGGCTTTGAA
1 TGGGCTTTGAAAGGTATGCCACTGACTTGTGGGCTTTGAA
157703 GACATAAACG
Statistics
Matches: 237, Mismatches: 24, Indels: 14
0.86 0.09 0.05
Matches are distributed among these distances:
111 1 0.00
112 49 0.21
113 70 0.30
114 4 0.02
115 15 0.06
116 91 0.38
117 7 0.03
ACGTcount: A:0.22, C:0.16, G:0.31, T:0.31
Consensus pattern (112 bp):
TGGGCTTTGAAAGGTATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTT
GAAAGGGTGCCACTGACTTGTGGCTTTTGAAAGGTGCCACTGACTTG
Found at i:158973 original size:8 final size:8
Alignment explanation
Indices: 158955--159032 Score: 63
Period size: 8 Copynumber: 9.9 Consensus size: 8
158945 TAGACCCCTT
158955 TTTTGTTTG
1 TTTT-TTTG
158964 TTTTTTTG
1 TTTTTTTG
*
158972 -TTTTTGG
1 TTTTTTTG
*
158979 TTTTTTCTA
1 TTTTTT-TG
158988 TTTTTTTG
1 TTTTTTTG
*
158996 TTTTTTTA
1 TTTTTTTG
159004 TTTTTTT-
1 TTTTTTTG
* **
159011 CTTGGTT-
1 TTTTTTTG
159018 TTTTTTTG
1 TTTTTTTG
159026 TTTTTTT
1 TTTTTTT
159033 TGGTACAAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
7 14 0.25
8 31 0.56
9 10 0.18
ACGTcount: A:0.03, C:0.03, G:0.12, T:0.83
Consensus pattern (8 bp):
TTTTTTTG
Found at i:168958 original size:20 final size:20
Alignment explanation
Indices: 168935--169007 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
168925 ACAATTCAAA
168935 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
168955 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
168976 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
168996 GTATCGATACAT
1 GTATCGATACAT
169008 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:168979 original size:21 final size:21
Alignment explanation
Indices: 168953--169028 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
168943 ACATGTTGCA
168953 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
168974 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
168994 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
169015 ATGTATCGATACAT
1 ATGTATCGATACAT
169029 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:168986 original size:41 final size:41
Alignment explanation
Indices: 168935--169028 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
168925 ACAATTCAAA
*
168935 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
168976 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
169017 GTATCGATACAT
1 GTATCGATACAT
169029 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:169085 original size:13 final size:13
Alignment explanation
Indices: 169067--169092 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
169057 TACGGCAAGT
169067 ATGTATCGATACA
1 ATGTATCGATACA
169080 ATGTATCGATACA
1 ATGTATCGATACA
169093 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:173175 original size:15 final size:15
Alignment explanation
Indices: 173155--173185 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
173145 TAAAAATGTC
*
173155 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
173170 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
173185 C
1 C
173186 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:175278 original size:20 final size:21
Alignment explanation
Indices: 175199--175277 Score: 72
Period size: 20 Copynumber: 3.7 Consensus size: 21
175189 AATGTCCAAA
*
175199 ATGTATCGATACATGTTTT-T
1 ATGTATCGATACATCTTTTCT
* *
175219 GTGTATCGATACATCTGGAAATTCT
1 ATGTATCGATACATCT----TTTCT
175244 ATGTATCGATACAT-TTTTCT
1 ATGTATCGATACATCTTTTCT
*
175264 TTGTATCGATACAT
1 ATGTATCGATACAT
175278 TGTATCGATA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
20 31 0.65
24 3 0.06
25 14 0.29
ACGTcount: A:0.27, C:0.14, G:0.15, T:0.44
Consensus pattern (21 bp):
ATGTATCGATACATCTTTTCT
Found at i:175282 original size:13 final size:13
Alignment explanation
Indices: 175264--175302 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
175254 ACATTTTTCT
175264 TTGTATCGATACA
1 TTGTATCGATACA
175277 TTGTATCGATACA
1 TTGTATCGATACA
*
175290 CTGTATCGATACA
1 TTGTATCGATACA
175303 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:177179 original size:61 final size:61
Alignment explanation
Indices: 177112--177314 Score: 168
Period size: 61 Copynumber: 3.4 Consensus size: 61
177102 AATTTTGATA
177112 TGAATTA-CTTGATTAAGGGGGAGATTTATTAATAAACGGGGGAGATAAAGGAGAGAATGCG
1 TGAATTACCTT-ATTAAGGGGGAGATTTATTAATAAACGGGGGAGATAAAGGAGAGAATGCG
* * ** **** ** ********
177173 TGAATTACCTTATTAAGGGGGAGAATGTA-CAA-ATTCGTAAAATTTATTTTTTTTAA-G-G
1 TGAATTACCTTATTAAGGGGGAG-ATTTATTAATAAACGGGGGAGATAAAGGAGAGAATGCG
177231 -GAATTA-CTTGATTAAGGGGGAGATTTATTAATAAACGGGGGAGATAAAGGAGAGAATGCG
1 TGAATTACCTT-ATTAAGGGGGAGATTTATTAATAAACGGGGGAGATAAAGGAGAGAATGCG
177291 TGAATTACCTTATTAAGGGGGAGA
1 TGAATTACCTTATTAAGGGGGAGA
177315 ATGTACAAAT
Statistics
Matches: 97, Mismatches: 36, Indels: 18
0.64 0.24 0.12
Matches are distributed among these distances:
56 7 0.07
57 20 0.21
58 9 0.09
59 2 0.02
60 9 0.09
61 40 0.41
62 10 0.10
ACGTcount: A:0.36, C:0.06, G:0.29, T:0.29
Consensus pattern (61 bp):
TGAATTACCTTATTAAGGGGGAGATTTATTAATAAACGGGGGAGATAAAGGAGAGAATGCG
Found at i:177321 original size:118 final size:118
Alignment explanation
Indices: 177113--177351 Score: 478
Period size: 118 Copynumber: 2.0 Consensus size: 118
177103 ATTTTGATAT
177113 GAATTACTTGATTAAGGGGGAGATTTATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTGAAT
1 GAATTACTTGATTAAGGGGGAGATTTATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTGAAT
177178 TACCTTATTAAGGGGGAGAATGTACAAATTCGTAAAATTTATTTTTTTTAAGG
66 TACCTTATTAAGGGGGAGAATGTACAAATTCGTAAAATTTATTTTTTTTAAGG
177231 GAATTACTTGATTAAGGGGGAGATTTATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTGAAT
1 GAATTACTTGATTAAGGGGGAGATTTATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTGAAT
177296 TACCTTATTAAGGGGGAGAATGTACAAATTCGTAAAATTTATTTTTTTTAAGG
66 TACCTTATTAAGGGGGAGAATGTACAAATTCGTAAAATTTATTTTTTTTAAGG
177349 GAA
1 GAA
177352 AAATAAAGGA
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
118 121 1.00
ACGTcount: A:0.37, C:0.06, G:0.26, T:0.31
Consensus pattern (118 bp):
GAATTACTTGATTAAGGGGGAGATTTATTAATAAACGGGGGAGATAAAGGAGAGAATGCGTGAAT
TACCTTATTAAGGGGGAGAATGTACAAATTCGTAAAATTTATTTTTTTTAAGG
Found at i:177903 original size:20 final size:20
Alignment explanation
Indices: 177880--177952 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
177870 ACAATTCAAA
177880 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
177900 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
177921 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
177941 GTATCGATACAT
1 GTATCGATACAT
177953 AAAAAAGATG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:177924 original size:21 final size:21
Alignment explanation
Indices: 177898--177973 Score: 100
Period size: 21 Copynumber: 3.7 Consensus size: 21
177888 ACATGTTGCA
177898 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
177919 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
177939 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
177960 ATGTATCGATACAT
1 ATGTATCGATACAT
177974 TTCTTGGCAG
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 15 0.33
21 30 0.67
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:177931 original size:41 final size:41
Alignment explanation
Indices: 177880--177973 Score: 179
Period size: 41 Copynumber: 2.3 Consensus size: 41
177870 ACAATTCAAA
*
177880 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
177921 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
177962 GTATCGATACAT
1 GTATCGATACAT
177974 TTCTTGGCAG
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.39, C:0.13, G:0.18, T:0.30
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:178030 original size:13 final size:13
Alignment explanation
Indices: 178012--178037 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
178002 TACAGCAAGT
178012 ATGTATCGATACA
1 ATGTATCGATACA
178025 ATGTATCGATACA
1 ATGTATCGATACA
178038 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:186852 original size:9 final size:9
Alignment explanation
Indices: 186838--186889 Score: 68
Period size: 9 Copynumber: 5.6 Consensus size: 9
186828 TTTTTCTAAA
186838 AAAAACAAC
1 AAAAACAAC
*
186847 AAAAACAAA
1 AAAAACAAC
186856 AAAAACAAC
1 AAAAACAAC
*
186865 AAAAAACAAAA
1 -AAAAAC-AAC
186876 AAAAACAAC
1 AAAAACAAC
186885 AAAAA
1 AAAAA
186890 AAGAGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
9 23 0.62
10 12 0.32
11 2 0.05
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (9 bp):
AAAAACAAC
Found at i:186858 original size:18 final size:19
Alignment explanation
Indices: 186835--186889 Score: 94
Period size: 18 Copynumber: 2.9 Consensus size: 19
186825 TCCTTTTTCT
186835 AAAAAAAACAACAAAAAC-
1 AAAAAAAACAACAAAAACA
186853 AAAAAAAACAACAAAAAACA
1 AAAAAAAACAAC-AAAAACA
186873 AAAAAAAACAACAAAAA
1 AAAAAAAACAACAAAAA
186890 AAGAGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
18 12 0.34
19 11 0.31
20 12 0.34
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAACAAAAACA
Found at i:186890 original size:20 final size:19
Alignment explanation
Indices: 186835--186890 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 19
186825 TCCTTTTTCT
186835 AAAAAAAACAAC-AAAAAC
1 AAAAAAAACAACAAAAAAC
186853 AAAAAAAACAACAAAAAAC
1 AAAAAAAACAACAAAAAAC
186872 AAAAAAAAACAACAAAAAA
1 -AAAAAAAACAACAAAAAA
186891 AGAGAAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.33
19 6 0.17
20 18 0.50
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAACAAAAAAC
Found at i:186898 original size:18 final size:19
Alignment explanation
Indices: 186837--186899 Score: 85
Period size: 19 Copynumber: 3.3 Consensus size: 19
186827 CTTTTTCTAA
186837 AAAAAACAACAAAAACAA-
1 AAAAAACAACAAAAACAAG
*
186855 AAAAAACAACAAAAAACAAA
1 AAAAAACAAC-AAAAACAAG
186875 AAAAAACAACAAAAA-AAG
1 AAAAAACAACAAAAACAAG
186893 AGAAAAA
1 A-AAAAA
186900 AGAAAAAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
18 13 0.32
19 18 0.44
20 10 0.24
ACGTcount: A:0.84, C:0.13, G:0.03, T:0.00
Consensus pattern (19 bp):
AAAAAACAACAAAAACAAG
Found at i:186905 original size:14 final size:14
Alignment explanation
Indices: 186888--186921 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
186878 AAACAACAAA
186888 AAAAGAGAAAAAAG
1 AAAAGAGAAAAAAG
* *
186902 AAAAAAGAGAAAAG
1 AAAAGAGAAAAAAG
186916 AAAAGA
1 AAAAGA
186922 ACCTGCTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAAAGAGAAAAAAG
Found at i:188165 original size:59 final size:59
Alignment explanation
Indices: 187864--188467 Score: 744
Period size: 59 Copynumber: 10.1 Consensus size: 59
187854 AACCTTTTAT
* * *
187864 CCTTTCAGTCCTCAAAGTA-CAGGACGCATTTTTCTTTTCAAAGGCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAG-AGCAGGACG---TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * * *
187926 CCTTTCAGTCCTCAAAAAGCAGGATGCCTTCTCCTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGA--CGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
** * * * * *
187987 CCTTTTAATCCTTAAAGAGCAAGACGCCTTTTCCTTTTAAAGCCTACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACG--TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
188048 CCTGT-CAGTCCTTAAACAACAGGACGCCTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCT-TCCAGTCCTCAAAGAGCAGGACG--TTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* *
188109 CCTTCCAGTCCTCAAAAAGCAGGATGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
188168 CCTTTCAGTCCTCAAAGAGCAGGATGTTTTCCTTTCAAAGCCCACACAAGTTTGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
188227 CCTTCTAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACATAAGTTGGTGGTA
1 CCTTCCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * *
188286 CCTCCCAGTCCTCAAAGAGCATGACGTTTTCCTTTCAAACCCCACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * *
188345 CCTTCCAGTCCTCAAAGAGTAGGATGCTTTCCTTTCAAAGCCAACACAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
* * * * *
188404 CCTTCTAGTCCTCAAAGAGTAAGACGTTTTCCTTTTAAAGCCCACATAAGTTGGTGGCA
1 CCTTCCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
188463 CCTTC
1 CCTTC
188468 TTATCCCCAA
Statistics
Matches: 481, Mismatches: 54, Indels: 17
0.87 0.10 0.03
Matches are distributed among these distances:
59 305 0.63
60 1 0.00
61 152 0.32
62 22 0.05
64 1 0.00
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (59 bp):
CCTTCCAGTCCTCAAAGAGCAGGACGTTTTCCTTTCAAAGCCCACACAAGTTGGTGGCA
Found at i:188567 original size:42 final size:44
Alignment explanation
Indices: 188476--188572 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 44
188466 TCTTATCCCC
* *
188476 AAAGAGTAGGACGCGCTTTAATTTCCTTCTTTTCCTTTGTCCTT
1 AAAGAGCAGGACGCGATTTAATTTCCTTCTTTTCCTTTGTCCTT
*
188520 AAAGAGCAGGACGC-ATTTTATTTCCTT-TTTTCCTTT-TCCCTT
1 AAAGAGCAGGACGCGATTTAATTTCCTTCTTTTCCTTTGT-CCTT
*
188562 GAAGAGCAGGA
1 AAAGAGCAGGA
188573 TGTACTCCTT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
41 1 0.02
42 23 0.48
43 11 0.23
44 13 0.27
ACGTcount: A:0.22, C:0.22, G:0.18, T:0.39
Consensus pattern (44 bp):
AAAGAGCAGGACGCGATTTAATTTCCTTCTTTTCCTTTGTCCTT
Found at i:189327 original size:23 final size:22
Alignment explanation
Indices: 189290--189332 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
189280 CTTTTCTTGA
*
189290 TTTTGCTTTTATTTTGTTTTTTT
1 TTTTGCTGTTATTTT-TTTTTTT
*
189313 TTTTGCTGTTCTTTTTTTTT
1 TTTTGCTGTTATTTTTTTTT
189333 CATTTTAAGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.02, C:0.07, G:0.09, T:0.81
Consensus pattern (22 bp):
TTTTGCTGTTATTTTTTTTTTT
Found at i:189338 original size:23 final size:23
Alignment explanation
Indices: 189290--189338 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
189280 CTTTTCTTGA
* *
189290 TTTTGCTTTTATTTTGTTTTTTT
1 TTTTGCTGTTATTTTGTTTTTAT
*
189313 TTTTGCTGTTCTTTT-TTTTTCAT
1 TTTTGCTGTTATTTTGTTTTT-AT
189336 TTT
1 TTT
189339 AAGCTTTTGC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.04, C:0.08, G:0.08, T:0.80
Consensus pattern (23 bp):
TTTTGCTGTTATTTTGTTTTTAT
Found at i:189766 original size:13 final size:13
Alignment explanation
Indices: 189748--189809 Score: 64
Period size: 13 Copynumber: 5.2 Consensus size: 13
189738 ATACATTATT
189748 CATTGTATCAATA
1 CATTGTATCAATA
*
189761 CATTGTATCGATA
1 CATTGTATCAATA
189774 CA-T-TAT---T-
1 CATTGTATCAATA
189781 CATTGTATCAATA
1 CATTGTATCAATA
*
189794 CATTGTATCGATA
1 CATTGTATCAATA
189807 CAT
1 CAT
189810 CTAGAATGTA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 2 0.05
8 2 0.05
9 3 0.07
11 3 0.07
12 2 0.05
13 29 0.71
ACGTcount: A:0.34, C:0.16, G:0.10, T:0.40
Consensus pattern (13 bp):
CATTGTATCAATA
Found at i:189773 original size:33 final size:33
Alignment explanation
Indices: 189731--189809 Score: 158
Period size: 33 Copynumber: 2.4 Consensus size: 33
189721 CATTATTCAC
189731 TGTATCGATACATTATTCATTGTATCAATACAT
1 TGTATCGATACATTATTCATTGTATCAATACAT
189764 TGTATCGATACATTATTCATTGTATCAATACAT
1 TGTATCGATACATTATTCATTGTATCAATACAT
189797 TGTATCGATACAT
1 TGTATCGATACAT
189810 CTAGAATGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (33 bp):
TGTATCGATACATTATTCATTGTATCAATACAT
Found at i:189786 original size:20 final size:20
Alignment explanation
Indices: 189710--189797 Score: 109
Period size: 20 Copynumber: 4.8 Consensus size: 20
189700 TTTTCACAAT
189710 TTGTATCGATACATTATTCA
1 TTGTATCGATACATTATTCA
*
189730 CTGTATCGATACATTATTCA
1 TTGTATCGATACATTATTCA
189750 TTGTATC---A-A-TA--CA
1 TTGTATCGATACATTATTCA
189763 TTGTATCGATACATTATTCA
1 TTGTATCGATACATTATTCA
*
189783 TTGTATCAATACATT
1 TTGTATCGATACATT
189798 GTATCGATAC
Statistics
Matches: 58, Mismatches: 3, Indels: 14
0.77 0.04 0.19
Matches are distributed among these distances:
13 9 0.16
15 2 0.03
16 2 0.03
17 2 0.03
18 2 0.03
20 41 0.71
ACGTcount: A:0.32, C:0.16, G:0.09, T:0.43
Consensus pattern (20 bp):
TTGTATCGATACATTATTCA
Found at i:192263 original size:28 final size:29
Alignment explanation
Indices: 192223--192296 Score: 107
Period size: 28 Copynumber: 2.6 Consensus size: 29
192213 TTTCCACAAT
192223 CGGAGATACTCCAACCCCATTATTTTCG-
1 CGGAGATACTCCAACCCCATTATTTTCGA
*
192251 CGGAGATACTCCAACCTCATTATTTTCGA
1 CGGAGATACTCCAACCCCATTATTTTCGA
* *
192280 AGG-GAAACTCCAACCCC
1 CGGAGATACTCCAACCCC
192297 GATTTTATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 39 0.95
29 2 0.05
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.24
Consensus pattern (29 bp):
CGGAGATACTCCAACCCCATTATTTTCGA
Found at i:192868 original size:157 final size:159
Alignment explanation
Indices: 192255--192901 Score: 624
Period size: 157 Copynumber: 4.1 Consensus size: 159
192245 TTTTCGCGGA
* *
192255 GATACTCCAACCTCATTATTTTCGAAGGGAAACTCCAACCCCGATTTTATTTCCAAAATA-CTAA
1 GATACTCCAACCTCATTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATC-AA
* * *
192319 TTTTTCATAATC-GGGCATACTCCAATCTCATTATTTTTGAAGGGATGGGATACTCCAACCCCGA
65 TTTTTCACAATCAGGG-ATACTCCAACCCCATTATTTTTGAA--GA--GGATACTCCAACCCCGA
*
192383 TTTTATTTCCAAAACA-CTAATTTTTCATAATCGGG
125 TTTTATTTCCAAAATATC-AATTTTTCATAATCGGG
* * ** * *
192418 AATAC-CCAACCTCGTTA-TTTCTGAAGGGATACTCTGACCCCGGTTTTATTTCCAAAACACCAA
1 GATACTCCAACCTCATTATTTTC-GAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAA
* * * *
192481 TATTTCACAATCGGGGATACTCCAACCCCATTATTTTTG-AGGGGATACTCCAACCTCGATTTTA
65 TTTTTCACAATCAGGGATACTCCAACCCCATTATTTTTGAAGAGGATACTCCAACCCCGATTTTA
* ** *
192545 TTTCCAAAATACCAATTTTTCGCAATTGGG
130 TTTCCAAAATATCAATTTTTCATAATCGGG
*
192575 GATACTCCAACC-CTATTATTTTCGAGGGGATACTCCAACCCC-AGTTTTATTTCCAAAACATCA
1 GATACTCCAACCTC-ATTATTTTCGAAGGGATACTCCAACCCCGA-TTTTATTTCCAAAACATCA
* * * * * * * * * *
192638 GTCTTTCACAATCAGTGATACTCCAATCTCGTTA-TTTTCAAGGGGATACTCTAACCCTGATTTT
64 ATTTTTCACAATCAGGGATACTCCAACCCCATTATTTTTGAAGAGGATACTCCAACCCCGATTTT
* *
192702 ATTT-TAAAATATCGA-TTTTCTATAATCGGG
129 ATTTCCAAAATATCAATTTTTC-ATAATCGGG
* * * * * * *
192732 GATACTCCAACCTTATTA-TTTCTGATGGGATATTTCAACCTCGATTTTATTTCTAGAACATCAA
1 GATACTCCAACCTCATTATTTTC-GAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAA
* * *
192796 TTTTTTATAATC-GGGATACTCCAACCCCGTTATTTTTGAA-AGGATACTCCAACCCCG-TCTTT
65 TTTTTCACAATCAGGGATACTCCAACCCCATTATTTTTGAAGAGGATACTCCAACCCCGAT-TTT
* * *
192858 ATCTCCAAAATATTAAATTTTTCATCAA-CGAG
129 ATTTCCAAAATA-TCAATTTTTCAT-AATCGGG
*
192890 TATACTCCAACC
1 GATACTCCAACC
192902 GCGTACCCCG
Statistics
Matches: 400, Mismatches: 65, Indels: 43
0.79 0.13 0.08
Matches are distributed among these distances:
155 1 0.00
156 46 0.12
157 137 0.34
158 115 0.29
159 12 0.03
161 5 0.01
162 76 0.19
163 8 0.02
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (159 bp):
GATACTCCAACCTCATTATTTTCGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAAT
TTTTCACAATCAGGGATACTCCAACCCCATTATTTTTGAAGAGGATACTCCAACCCCGATTTTAT
TTCCAAAATATCAATTTTTCATAATCGGG
Found at i:192879 original size:78 final size:78
Alignment explanation
Indices: 192255--192901 Score: 585
Period size: 79 Copynumber: 8.2 Consensus size: 78
192245 TTTTCGCGGA
* * *
192255 GATACTCCAACCTCATTATTTTCGAAGGGAAACTCCAACCCCGATTTTATTTCCAAAATA-CTAA
1 GATACTCCAACCTCATTATTTTTGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATC-AA
192319 TTTTTCATAATCGG
65 TTTTTCATAATCGG
*
192333 GCATACTCCAATCTCATTATTTTTGAAGGGATGGGATACTCCAACCCCGATTTTATTTCCAAAAC
1 G-ATACTCCAACCTCATTATTTTTG-A---A-GGGATACTCCAACCCCGATTTTATTTCCAAAAC
192398 A-CTAATTTTTCATAATCGG
60 ATC-AATTTTTCATAATCGG
* * ** * *
192417 GAATAC-CCAACCTCGTTATTTCTGAAGGGATACTCTGACCCCGGTTTTATTTCCAAAACACCAA
1 G-ATACTCCAACCTCATTATTTTTGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAA
* *
192481 TATTTCACAATCGGG
65 TTTTTCATAATC-GG
* * * * *
192496 GATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCTCGATTTTATTTCCAAAATACCAAT
1 GATACTCCAACCTCATTATTTTTGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAAT
** *
192561 TTTTCGCAATTGGG
66 TTTTCATAA-TCGG
* *
192575 GATACTCCAACC-CTATTATTTTCGAGGGGATACTCCAACCCC-AGTTTTATTTCCAAAACATCA
1 GATACTCCAACCTC-ATTATTTTTGAAGGGATACTCCAACCCCGA-TTTTATTTCCAAAACATCA
* * * *
192638 GTCTTTCACAATCAGT
64 ATTTTTCATAATC-GG
* * * * * * * *
192654 GATACTCCAATCTCGTTA-TTTTCAAGGGGATACTCTAACCCTGATTTTATTT-TAAAATATCGA
1 GATACTCCAACCTCATTATTTTTGAA-GGGATACTCCAACCCCGATTTTATTTCCAAAACATCAA
192717 -TTTTCTATAATCGGG
65 TTTTTC-ATAATC-GG
* * * * * * * *
192732 GATACTCCAACCTTATTATTTCTGATGGGATATTTCAACCTCGATTTTATTTCTAGAACATCAAT
1 GATACTCCAACCTCATTATTTTTGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAAT
*
192797 TTTTTATAATCGG
66 TTTTCATAATCGG
* * * * * *
192810 GATACTCCAACCCCGTTATTTTTGAAAGGATACTCCAACCCCG-TCTTTATCTCCAAAATATTAA
1 GATACTCCAACCTCATTATTTTTGAAGGGATACTCCAACCCCGAT-TTTATTTCCAAAACA-TCA
192874 ATTTTTCATCAA-CGAG
64 ATTTTTCAT-AATCG-G
*
192890 TATACTCCAACC
1 GATACTCCAACC
192902 GCGTACCCCG
Statistics
Matches: 465, Mismatches: 80, Indels: 46
0.79 0.14 0.08
Matches are distributed among these distances:
77 5 0.01
78 151 0.32
79 215 0.46
80 22 0.05
82 1 0.00
83 16 0.03
84 55 0.12
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (78 bp):
GATACTCCAACCTCATTATTTTTGAAGGGATACTCCAACCCCGATTTTATTTCCAAAACATCAAT
TTTTCATAATCGG
Found at i:192897 original size:236 final size:232
Alignment explanation
Indices: 192255--192901 Score: 680
Period size: 236 Copynumber: 2.7 Consensus size: 232
192245 TTTTCGCGGA
* *
192255 GATACTCCAACCTCATTATTTTCGAAGGGAAACTCCAACCCCGATTTTATTTCCAAAATACTAAT
1 GATACTCCAACCTCATTATTTT-GAAGGGATACTCCAACCTCGATTTTATTTCCAAAAT-C-AAT
* *
192320 TTTTCATAATCGGGCATACTCCAATCTCATTATTTTTGAAGGGATGGGATACTCCAACCCCGATT
63 TTTTCATAATCGGG-ATACTCCAACCCCATTATTTTTGAA---A--GGATACTCCAACCCCG-TT
* * *
192385 TTATTTCCAAAACACTAATTTTTCAT-AATCGGGAATAC-CCAACCTCGTTATTTCTGAAGGGAT
121 TTATTTCCAAAACA-TAATTTTTCATCAATCGAGTATACTCCAACCTCGTTATTTCTCAAGGGAT
* *
192448 ACTCTGACCCCGGTTTTATTTCCAAAACACCAATATTTCACAATCGGG
185 ACTCTAACCCCGATTTTATTTCCAAAACACCAATATTTCACAATCGGG
* *
192496 GATACTCCAACCCCATTATTTTTGAGGGGATACTCCAACCTCGATTTTATTTCCAAAATACCAAT
1 GATACTCCAACCTCATTA-TTTTGAAGGGATACTCCAACCTCGATTTTATTTCCAAAAT--CAAT
** * * * **
192561 TTTTCGCAATTGGGGATACTCCAACCCTATTATTTTCGAGGGGATACTCCAACCCCAGTTTTATT
63 TTTTCATAA-TCGGGATACTCCAACCCCATTATTTTTGAAAGGATACTCCAACCCC-GTTTTATT
* * *
192626 TCCAAAACATCAGTCTTTCA-CAATC-AGTGATACTCCAATCTCGTTATTT-TCAAGGGGATACT
126 TCCAAAACAT-AATTTTTCATCAATCGAGT-ATACTCCAACCTCGTTATTTCTCAA-GGGATACT
* * * * * *
192688 CTAACCCTGATTTTATTT-TAAAATATCGAT-TTTCTATAATCGGG
188 CTAACCCCGATTTTATTTCCAAAACACCAATATTTC-ACAATCGGG
* * * * *
192732 GATACTCCAACCTTATTATTTCTGATGGGATATTTCAACCTCGATTTTATTTCTAGAACATCAAT
1 GATACTCCAACCTCATTATTT-TGAAGGGATACTCCAACCTCGATTTTATTTCCA-AA-ATCAAT
* * *
192797 TTTTTATAATCGGGATACTCCAACCCCGTTATTTTTGAAAGGATACTCCAACCCCGTCTTTATCT
63 TTTTCATAATCGGGATACTCCAACCCCATTATTTTTGAAAGGATACTCCAACCCCGT-TTTATTT
*
192862 CCAAAATATTAAATTTTTCATCAA-CGAGTATACTCCAACC
127 CCAAAACA-T-AATTTTTCATCAATCGAGTATACTCCAACC
192902 GCGTACCCCG
Statistics
Matches: 340, Mismatches: 49, Indels: 39
0.79 0.11 0.09
Matches are distributed among these distances:
234 2 0.01
235 62 0.18
236 139 0.41
237 46 0.14
238 2 0.01
241 80 0.24
242 9 0.03
ACGTcount: A:0.30, C:0.24, G:0.12, T:0.34
Consensus pattern (232 bp):
GATACTCCAACCTCATTATTTTGAAGGGATACTCCAACCTCGATTTTATTTCCAAAATCAATTTT
TCATAATCGGGATACTCCAACCCCATTATTTTTGAAAGGATACTCCAACCCCGTTTTATTTCCAA
AACATAATTTTTCATCAATCGAGTATACTCCAACCTCGTTATTTCTCAAGGGATACTCTAACCCC
GATTTTATTTCCAAAACACCAATATTTCACAATCGGG
Found at i:194082 original size:19 final size:18
Alignment explanation
Indices: 194058--194120 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
194048 AAACCGTAAC
194058 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
194077 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
194090 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
194109 TGTATCGATACA
1 TGTATCGATACA
194121 ATGTATTGCT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:194095 original size:13 final size:13
Alignment explanation
Indices: 194077--194101 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
194067 ACATAAGTGT
194077 TGTATCGATACAA
1 TGTATCGATACAA
194090 TGTATCGATACA
1 TGTATCGATACA
194102 TAAGTTTTGT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:194099 original size:32 final size:32
Alignment explanation
Indices: 194058--194126 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
194048 AAACCGTAAC
194058 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
194090 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
194122 TGTAT
1 TGTAT
194127 TGCTACGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:197822 original size:13 final size:13
Alignment explanation
Indices: 197804--197830 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
197794 TTGTTTATTG
197804 TATCGATACATTA
1 TATCGATACATTA
197817 TATCGATACATTA
1 TATCGATACATTA
197830 T
1 T
197831 GGGTTTACCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (13 bp):
TATCGATACATTA
Found at i:202366 original size:10 final size:9
Alignment explanation
Indices: 202351--202401 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
202341 CTTCTTTTTA
202351 AAAAAAAAG
1 AAAAAAAAG
202360 CAAAAAAAA-
1 -AAAAAAAAG
202369 ACAAAACAAAG
1 A-AAAA-AAAG
202380 AAAAAAAGAG
1 AAAAAAA-AG
202390 AGAAAAAAAG
1 A-AAAAAAAG
202400 AA
1 AA
202402 CCTGCTTAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
8 1 0.03
9 7 0.19
10 21 0.58
11 7 0.19
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:202399 original size:20 final size:18
Alignment explanation
Indices: 202352--202401 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 18
202342 TTCTTTTTAA
202352 AAAAAAAGCAAAAAAAAAC
1 AAAAAAAG-AAAAAAAAAC
*
202371 AAAACAAAGAAAAAAAGAGAG
1 AAAA-AAAGAAAAAAA-A-AC
202392 AAAAAAAGAA
1 AAAAAAAGAA
202402 CCTGCTTAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 11 0.41
20 11 0.41
21 5 0.19
ACGTcount: A:0.82, C:0.06, G:0.12, T:0.00
Consensus pattern (18 bp):
AAAAAAAGAAAAAAAAAC
Found at i:203676 original size:61 final size:61
Alignment explanation
Indices: 203486--204185 Score: 913
Period size: 61 Copynumber: 11.5 Consensus size: 61
203476 GAGCAGGACG
* * * *
203486 CCTTTCAAAGCCCACACAAGCTGGTGGCACTTTC-AGTCCTCAAAGAGCAGGACGTCTTCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
203546 CCTTTTAAAGCCCACACAAGTTGGTGACACTTTTATAGTCCTCAAAGAGTAGGACGCATTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* ** *
203608 CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTGGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* *
203669 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * *
203731 -TTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCTTTAAAGAGCAGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
203792 CCTTTTCAAGCCCACACAAATTGGTGGCACCTTCTAGTCCTCAAAGAGC-GAGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAG-GACGCCTTTT
* * * *
203853 CCTTTTAAAGCCTACACAAGTTGGTGACACTTTGTAGTCCTCAAAGAGCGGGACGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * *
203914 CTTTTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCGGGACACCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
** * * *
203974 CCTTTTAAAGGTCACGCAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
204035 CCTTTTAAAGCCTACACAAGTTGGTAGCACTTTTTAGTCCTCAAGGAGCAGGAAGCCTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
* * * * *
204096 CCTTTTAAAGCCCACACAAATTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
** *
204157 CCTTGCAAAGCCCATACAAGTTGGTGGCA
1 CCTTTTAAAGCCCACACAAGTTGGTGGCA
204186 AACCTTTCCA
Statistics
Matches: 559, Mismatches: 74, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
60 83 0.15
61 373 0.67
62 103 0.18
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (61 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTCTAGTCCTCAAAGAGCAGGACGCCTTTT
Found at i:203786 original size:184 final size:183
Alignment explanation
Indices: 203486--204185 Score: 960
Period size: 184 Copynumber: 3.8 Consensus size: 183
203476 GAGCAGGACG
* * ** *
203486 CCTTTCAAAGCCCACACAAGCTGGTGGCAC-TTTCAGTCCTCAAAGAGCAGGACGTCTTCTCCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTT
* * * * *
203550 TTAAAGCCCACACAAGTTGGTGACACTTTTATAGTCCTCAAAGAGTAGGACGCATTTTCCTTTTA
66 TTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTA
*
203615 AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGTGGGATGCCTTTT
130 AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCGGGATGCCTTTT
*
203669 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCCAGTCCTCAAAGAGCAGGACACCTTTT-TT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTT-CAGTCCTCAAAGAGCAGGACACCTTTTCCT
* * *
203733 TTTAAAGCCCACACAAGTTGGTGGCACTTTTCTAGTCTTTAAAGAGCAGGACGCCTTTTCCTTTT
65 TTTAAAGCCCACACAAGTTGGTGGCAC-CTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTT
* * *
203798 CAAGCCCACACAAATTGGTGGCACCTTCTAGTCCTCAAAGAGCGAGATGCCTTTT
129 AAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCGGGATGCCTTTT
* * * * *
203853 CCTTTTAAAGCCTACACAAGTTGGTGACACTTTGT-AGTCCTCAAAGAGCGGGACGCCTTTTCTT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-TCAGTCCTCAAAGAGCAGGACACCTTTTCCT
* *
203917 TTTAAAGCCCACACAAGTTGGTGGCACCTTC-AGTCCTCAAAGAGCGGGACACCTTTTCCTTTTA
65 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTA
** * *
203981 AAGGTCACGCAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGATGCCTTTT
130 AAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCGGGATGCCTTTT
* * * *
204035 CCTTTTAAAGCCTACACAAGTTGGTAGCACTTTTTAGTCCTCAAGGAGCAGGA-AGCCTTTTCCT
1 CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACA-CCTTTTCCT
* * * * **
204099 TTTAAAGCCCACACAAATTGGTGGCACCTTCCAGTCCTCAAAGAGCAGGATGCTTTTTCCTTGCA
65 TTTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTA
*
204164 AAGCCCATACAAGTTGGTGGCA
130 AAGCCCACACAAGTTGGTGGCA
204186 AACCTTTCCA
Statistics
Matches: 461, Mismatches: 49, Indels: 14
0.88 0.09 0.03
Matches are distributed among these distances:
181 1 0.00
182 161 0.35
183 100 0.22
184 174 0.38
185 25 0.05
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (183 bp):
CCTTTTAAAGCCCACACAAGTTGGTGGCACTTTTCAGTCCTCAAAGAGCAGGACACCTTTTCCTT
TTAAAGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCAGGACGCCTTTTCCTTTTAA
AGCCCACACAAGTTGGTGGCACCTTCTAGTCCTCAAAGAGCGGGATGCCTTTT
Found at i:206934 original size:51 final size:51
Alignment explanation
Indices: 206870--206978 Score: 139
Period size: 51 Copynumber: 2.1 Consensus size: 51
206860 GGGATATTTT
** *
206870 AACCCCGGTTTTATTT-TCAAAACATCAATTTTTCACAATCGGAGATACTCC
1 AACCCCGACTTTATTTCT-AAAACATCAATTTCTCACAATCGGAGATACTCC
* ** *
206921 AACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCC
1 AACCCCGACTTTATTTCTAAAACATCAATTTCTCACAATCGGAGATACTCC
206972 AACCCCG
1 AACCCCG
206979 TTATTTTTGT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 49 0.98
52 1 0.02
ACGTcount: A:0.30, C:0.28, G:0.11, T:0.31
Consensus pattern (51 bp):
AACCCCGACTTTATTTCTAAAACATCAATTTCTCACAATCGGAGATACTCC
Found at i:207014 original size:79 final size:79
Alignment explanation
Indices: 206910--207217 Score: 309
Period size: 79 Copynumber: 3.9 Consensus size: 79
206900 TTTCACAATC
* * *
206910 GGAGATACTCCAACCCCGACTTTATTTCTAAAATATTGA-TTTCTCACAATCGGGGATACTCCAA
1 GGAGATACTCCAACCCCGACTTTATTTCTAAAACACTGATTTTC-CACAATCAGGGATACTCCAA
*
206974 CCCCGTTATTTTTGT
65 CCCCGTTATTTTTGA
* * * *
206989 GGAGATACTCCAACCTCGACCTTATTTCTAAAGCA-TCGATTTTCCACAATCAGAGATACTCCAA
1 GGAGATACTCCAACCCCGACTTTATTTCTAAAACACT-GATTTTCCACAATCAGGGATACTCCAA
* * **
207053 CTCCATTATTTTCAA
65 CCCCGTTATTTTTGA
* * * * * * *
207068 GGGGATACTCCAACCCCAATTTTATTT-TCAAGACACTGATTTTCTATAATCAGGGATACTCTAA
1 GGAGATACTCCAACCCCGACTTTATTTCT-AAAACACTGATTTTCCACAATCAGGGATACTCCAA
** *
207132 CCTTGTTATTTCTGA
65 CCCCGTTATTTTTGA
* * * * *
207147 GGGGATACTCCAACCCCGATTTTATTTCTAGAACACTGATTTTCCATAATC-GAGGATACTCCAG
1 GGAGATACTCCAACCCCGACTTTATTTCTAAAACACTGATTTTCCACAATCAG-GGATACTCCAA
207211 CCCCGTT
65 CCCCGTT
207218 GTTATCCCCA
Statistics
Matches: 186, Mismatches: 37, Indels: 12
0.79 0.16 0.05
Matches are distributed among these distances:
78 3 0.02
79 177 0.95
80 6 0.03
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.33
Consensus pattern (79 bp):
GGAGATACTCCAACCCCGACTTTATTTCTAAAACACTGATTTTCCACAATCAGGGATACTCCAAC
CCCGTTATTTTTGA
Found at i:207096 original size:31 final size:28
Alignment explanation
Indices: 207043--207099 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 28
207033 CACAATCAGA
*
207043 GATACTCCAACTCCATTATTTTCAAGGG
1 GATACTCCAACCCCATTATTTTCAAGGG
207071 GATACTCCAACCCCAATTTTATTTTCAAG
1 GATACTCCAACCCC-A--TTATTTTCAAG
207100 ACACTGATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
29 1 0.04
31 11 0.44
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (28 bp):
GATACTCCAACCCCATTATTTTCAAGGG
Found at i:207205 original size:158 final size:158
Alignment explanation
Indices: 206913--207209 Score: 361
Period size: 158 Copynumber: 1.9 Consensus size: 158
206903 CACAATCGGA
* * * *
206913 GATACTCCAACCCCGACTTTATTTCTAAAATATTGATTTCTCACAATCGGGGATACTCCAACCCC
1 GATACTCCAACCCCAACTTTATTTCTAAAACACTGATTTCTCACAATCAGGGATACTCCAACCCC
* * *
206978 GTTATTTTTGTGGAGATACTCCAACCTCGACCTTATTTCTAAAGCATCGATTTTCCACAATCAGA
66 GTTATTTCTGAGGAGATACTCCAACCCCGACCTTATTTCTAAAGCATCGATTTTCCACAATCAGA
207043 GATACTCCAACTCCATTATTTTCAAGGG
131 GATACTCCAACTCCATTATTTTCAAGGG
* * * *
207071 GATACTCCAACCCCAATTTTATTT-TCAAGACACTGATTT-TCTATAATCAGGGATACTCTAACC
1 GATACTCCAACCCCAACTTTATTTCT-AAAACACTGATTTCTC-ACAATCAGGGATACTCCAACC
** * ** *
207134 TTGTTATTTCTGAGGGGATACTCCAACCCCGATTTTATTTCTAGAA-CA-CTGATTTTCCATAAT
64 CCGTTATTTCTGAGGAGATACTCCAACCCCGACCTTATTTCTA-AAGCATC-GATTTTCCACAAT
207197 C-GAGGATACTCCA
127 CAGA-GATACTCCA
207210 GCCCCGTTGT
Statistics
Matches: 117, Mismatches: 17, Indels: 10
0.81 0.12 0.07
Matches are distributed among these distances:
157 6 0.05
158 109 0.93
159 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (158 bp):
GATACTCCAACCCCAACTTTATTTCTAAAACACTGATTTCTCACAATCAGGGATACTCCAACCCC
GTTATTTCTGAGGAGATACTCCAACCCCGACCTTATTTCTAAAGCATCGATTTTCCACAATCAGA
GATACTCCAACTCCATTATTTTCAAGGG
Found at i:214142 original size:122 final size:122
Alignment explanation
Indices: 213925--214167 Score: 486
Period size: 122 Copynumber: 2.0 Consensus size: 122
213915 GGGGAGAGGG
213925 TGCAGTAAACTTTGAAAAATCATCTCGGACCTATTGGAATCATTAAATTACAAATGATACCTACA
1 TGCAGTAAACTTTGAAAAATCATCTCGGACCTATTGGAATCATTAAATTACAAATGATACCTACA
213990 TTGAAAGGGAATTTCATGTAGGTTTCAACAATAATATTTAAAATTCCAAAAAAAAAA
66 TTGAAAGGGAATTTCATGTAGGTTTCAACAATAATATTTAAAATTCCAAAAAAAAAA
214047 TGCAGTAAACTTTGAAAAATCATCTCGGACCTATTGGAATCATTAAATTACAAATGATACCTACA
1 TGCAGTAAACTTTGAAAAATCATCTCGGACCTATTGGAATCATTAAATTACAAATGATACCTACA
214112 TTGAAAGGGAATTTCATGTAGGTTTCAACAATAATATTTAAAATTCCAAAAAAAAA
66 TTGAAAGGGAATTTCATGTAGGTTTCAACAATAATATTTAAAATTCCAAAAAAAAA
214168 TCATTTGGTG
Statistics
Matches: 121, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
122 121 1.00
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (122 bp):
TGCAGTAAACTTTGAAAAATCATCTCGGACCTATTGGAATCATTAAATTACAAATGATACCTACA
TTGAAAGGGAATTTCATGTAGGTTTCAACAATAATATTTAAAATTCCAAAAAAAAAA
Found at i:216935 original size:19 final size:19
Alignment explanation
Indices: 216908--216944 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
216898 AATATAGGCA
216908 TTTTACTTTTAGAATTAAG
1 TTTTACTTTTAGAATTAAG
* *
216927 TTTTCCTTTTAGATTTAA
1 TTTTACTTTTAGAATTAA
216945 AATCATTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.27, C:0.08, G:0.08, T:0.57
Consensus pattern (19 bp):
TTTTACTTTTAGAATTAAG
Found at i:218251 original size:13 final size:13
Alignment explanation
Indices: 218233--218258 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
218223 ACATTTTGGG
218233 ATGTATCGATACA
1 ATGTATCGATACA
218246 ATGTATCGATACA
1 ATGTATCGATACA
218259 TCTTGTGTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:218253 original size:33 final size:32
Alignment explanation
Indices: 218211--218278 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 32
218201 CGTTACAAGC
*
218211 CAATGTATCGATACATTTTGGGATGTATCGATA
1 CAATGTATCGATACATCTTGGG-TGTATCGATA
*
218244 CAATGTATCGATACATCTTGTGTGTATCGATA
1 CAATGTATCGATACATCTTGGGTGTATCGATA
218276 CAA
1 CAA
218279 ACAGTTAAGG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
32 13 0.39
33 20 0.61
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (32 bp):
CAATGTATCGATACATCTTGGGTGTATCGATA
Found at i:218964 original size:22 final size:22
Alignment explanation
Indices: 218936--218980 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
218926 TTTCCTTATC
218936 TCTCCCCCTTAATCAAAAAATT
1 TCTCCCCCTTAATCAAAAAATT
*
218958 TCTCCCCCTTAATCATAAAATT
1 TCTCCCCCTTAATCAAAAAATT
218980 T
1 T
218981 ATTTGCAGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (22 bp):
TCTCCCCCTTAATCAAAAAATT
Found at i:220352 original size:20 final size:22
Alignment explanation
Indices: 220313--220357 Score: 67
Period size: 20 Copynumber: 2.1 Consensus size: 22
220303 GCTGTGAGTG
*
220313 TGGGGGCTGCCCGGTTGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
220335 TGGGGG-TG-CCGGTCGCGACC
1 TGGGGGCTGCCCGGTCGCGACC
220355 TGG
1 TGG
220358 TGAGTGCTGC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 14 0.64
21 2 0.09
22 6 0.27
ACGTcount: A:0.04, C:0.29, G:0.49, T:0.18
Consensus pattern (22 bp):
TGGGGGCTGCCCGGTCGCGACC
Found at i:227006 original size:19 final size:20
Alignment explanation
Indices: 226961--227012 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
226951 TTACAAGCCA
*
226961 ATGTATCGATACATTTTGGG
1 ATGTATCGATACATCTTGGG
*
226981 ATGTATCGATACATCTTGTG
1 ATGTATCGATACATCTTGGG
227001 -TGTATCGATACA
1 ATGTATCGATACA
227013 AACAGTTAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATCTTGGG
Found at i:227112 original size:13 final size:13
Alignment explanation
Indices: 227094--227118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
227084 ACATTTGGTC
227094 ATGTATCGATACA
1 ATGTATCGATACA
227107 ATGTATCGATAC
1 ATGTATCGATAC
227119 TGTGCAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:227677 original size:12 final size:12
Alignment explanation
Indices: 227660--227684 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
227650 ATGCATTATA
227660 TTTTACTTAAGT
1 TTTTACTTAAGT
227672 TTTTACTTAAGT
1 TTTTACTTAAGT
227684 T
1 T
227685 GTGAGGAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (12 bp):
TTTTACTTAAGT
Found at i:228853 original size:14 final size:15
Alignment explanation
Indices: 228824--228856 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
228814 AAAATAATAA
*
228824 TTTTGTAAATAGATT
1 TTTTGTAAATACATT
228839 TTTTGTAAA-ACATT
1 TTTTGTAAATACATT
228853 TTTT
1 TTTT
228857 AAAATAAGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (15 bp):
TTTTGTAAATACATT
Found at i:228870 original size:16 final size:17
Alignment explanation
Indices: 228851--228885 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
228841 TTGTAAAACA
228851 TTTTTTA-AAATAAGTT
1 TTTTTTACAAATAAGTT
*
228867 TTTTTTACAAATACGTT
1 TTTTTTACAAATAAGTT
228884 TT
1 TT
228886 AAACTGCAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.31, C:0.06, G:0.06, T:0.57
Consensus pattern (17 bp):
TTTTTTACAAATAAGTT
Found at i:229201 original size:115 final size:110
Alignment explanation
Indices: 229045--229324 Score: 329
Period size: 109 Copynumber: 2.5 Consensus size: 110
229035 GTTATTTTAT
*
229045 AATAAAAAACTAATATTTAAATT-AATTTTAAAAAATTTTACATTAATAAATTAAAATATTAATT
1 AATAAAAAA-TAATATTT-AATTAAATTTTAAAAAA-TTTACATTAACAAATTAAAATATTAATT
229109 AT-T-TTTAAAATAAAAATTAAATTAAAAAAAGTTTTTATTATTATTTTTTAATAA
63 ATATATTT-AAAT-AAAA-T--A--AAAAAAA-TTTTTATTATTATTTTTTAATAA
*
229163 AAT-TAAAATAATATTTAATTAAAGTTTTAAAAAA-TTACATTAACAAATTAAAATATTAATTAT
1 AATAAAAAATAATATTTAATTAAA-TTTTAAAAAATTTACATTAACAAATTAAAATATTAATTAT
** ** *
229226 ATATTTTTATAAAATAAAAAGTATTTTTATTCTTATTTTTTAATAA
65 ATATTTAAATAAAATAAAAAAAATTTTTATTATTATTTTTTAATAA
* *
229272 AATAAAAAATGATATTTAATTAAA-TTAAAAAAATTTACATTAACAAATTAAAA
1 AATAAAAAATAATATTTAATTAAATTTTAAAAAATTTACATTAACAAATTAAAA
229325 AATAACATTT
Statistics
Matches: 146, Mismatches: 10, Indels: 21
0.82 0.06 0.12
Matches are distributed among these distances:
108 8 0.05
109 44 0.30
110 23 0.16
112 1 0.01
114 1 0.01
115 36 0.25
116 13 0.09
117 17 0.12
118 3 0.02
ACGTcount: A:0.54, C:0.03, G:0.01, T:0.42
Consensus pattern (110 bp):
AATAAAAAATAATATTTAATTAAATTTTAAAAAATTTACATTAACAAATTAAAATATTAATTATA
TATTTAAATAAAATAAAAAAAATTTTTATTATTATTTTTTAATAA
Found at i:229336 original size:22 final size:22
Alignment explanation
Indices: 229264--229336 Score: 67
Period size: 22 Copynumber: 3.2 Consensus size: 22
229254 ATTCTTATTT
* * *
229264 TTTAATAAAATAAAAAATGATA
1 TTTAATAAATTAAAAAATAACA
*
229286 TTTAATTAAATTAAAAAAATTTACA
1 TTTAA-TAAATT-AAAAAA-TAACA
*
229311 -TTAACAAATTAAAAAATAACA
1 TTTAATAAATTAAAAAATAACA
229332 TTTAA
1 TTTAA
229337 GGCATTAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
21 4 0.10
22 15 0.36
23 10 0.24
24 10 0.24
25 3 0.07
ACGTcount: A:0.60, C:0.04, G:0.01, T:0.34
Consensus pattern (22 bp):
TTTAATAAATTAAAAAATAACA
Found at i:229349 original size:109 final size:108
Alignment explanation
Indices: 229140--229349 Score: 264
Period size: 109 Copynumber: 1.9 Consensus size: 108
229130 TTAAAAAAAG
* *
229140 TTTTTATTATTATTTTTTAATAAAATTAAAATAATATTTAATTAAAGTTTTAAAAAATTACATTA
1 TTTTTATTATTATTTTTTAATAAAATAAAAATAATATTTAATTAAAG-TTAAAAAAATTACATTA
* * *** *
229205 ACAAATTAAAATATTAATTATATATTTTTATAAAATAAAAAGTA
65 ACAAATTAAAAAATAAATTATATAGCATTAAAAAATAAAAAGTA
* *
229249 TTTTTATTCTTATTTTTTAATAAAATAAAAAATGATATTTAATTAAA-TTAAAAAAATTTACATT
1 TTTTTATTATTATTTTTTAATAAAAT-AAAAATAATATTTAATTAAAGTTAAAAAAA-TTACATT
229313 AACAAATTAAAAAATAACATT-TA-AGGCATTAAAAAAT
64 AACAAATTAAAAAATAA-ATTATATA-GCATTAAAAAAT
229350 TTATCATATC
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
108 9 0.10
109 57 0.66
110 21 0.24
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.43
Consensus pattern (108 bp):
TTTTTATTATTATTTTTTAATAAAATAAAAATAATATTTAATTAAAGTTAAAAAAATTACATTAA
CAAATTAAAAAATAAATTATATAGCATTAAAAAATAAAAAGTA
Found at i:229826 original size:120 final size:121
Alignment explanation
Indices: 229640--229997 Score: 408
Period size: 120 Copynumber: 2.9 Consensus size: 121
229630 AAGAAATATT
* * *
229640 ATTATAATAAAAAACTTTTTAATTTAAATTTTTTTA-TTTT-TAAAAACATAATAATTAATATTT
1 ATTATAAT-AAAAACCTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTT
*
229703 TAATTTGTTAATGTAAATTTTTAAACTGAATTAAATATTATTTTTATTTTATTAAAA
65 TAATTTGTTAATGTAAATTTTTAAACTTAATTAAATATTATTTTTATTTTATTAAAA
*
229760 ATTACAATAAAAACCTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAA-ATTTT
1 ATTATAATAAAAACCTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTT
* * *
229824 AATTTGTTAATGTAATTTTTTAAAATTTAATT-AATATTATTTTTAAGTTTATTAAAA
66 AATTTGTTAATGTAAATTTTT-AAACTTAATTAAATATTATTTTT-ATTTTATTAAAA
* *** *
229881 ATTAATAATAATAAACCCTTTTTATTTT--TATTTAAAAATTTTTATTATTAAA-A-AATAATTA
1 ATT-ATAATAA-AAA-CC-TTTTATTTTAAAATTT-TTTATTTTTA-TA-AAAACATAATAATTA
* * *
229942 ATATCTTAATTTGTTAATATAAATTTCTTTAAAGTTAATTAAATATTATTTTTATT
59 ATATTTTAATTTGTTAATGTAAA-TT-TTTAAACTTAATTAAATATTATTTTTATT
229998 AAAATAATAA
Statistics
Matches: 204, Mismatches: 19, Indels: 24
0.83 0.08 0.10
Matches are distributed among these distances:
119 24 0.12
120 48 0.24
121 40 0.20
122 6 0.03
123 7 0.03
124 18 0.09
125 30 0.15
126 16 0.08
127 15 0.07
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (121 bp):
ATTATAATAAAAACCTTTTATTTTAAAATTTTTTATTTTTATAAAAACATAATAATTAATATTTT
AATTTGTTAATGTAAATTTTTAAACTTAATTAAATATTATTTTTATTTTATTAAAA
Found at i:231109 original size:69 final size:70
Alignment explanation
Indices: 230998--231209 Score: 367
Period size: 68 Copynumber: 3.1 Consensus size: 70
230988 GCTGCCTTCT
*
230998 ACTGCAAGGATTAGGCTAATGCATGAATTATATCTGAGAATCGGATTC-TTTTTATAGAAAAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
231062 GAAAG
66 GAAAG
*
231067 ACTGCAAGGATTAGACTAATGTATGAATTATATCTGAGAATCGGATTCTTTTTTATAG--AAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
231130 GAAAG
66 GAAAG
*
231135 ACTGCAAGGATTAGACTAATGCATGCATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
1 ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAG-AAAAAA
231200 AGAAAG
65 AGAAAG
231206 ACTG
1 ACTG
231210 ATTGATTGTA
Statistics
Matches: 135, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
68 66 0.49
69 46 0.34
70 9 0.07
71 14 0.10
ACGTcount: A:0.40, C:0.10, G:0.19, T:0.30
Consensus pattern (70 bp):
ACTGCAAGGATTAGACTAATGCATGAATTATATCTGAGAATCGGATTCTTTTTTATAGAAAAAAA
GAAAG
Found at i:231266 original size:93 final size:94
Alignment explanation
Indices: 231133--231414 Score: 288
Period size: 96 Copynumber: 3.0 Consensus size: 94
231123 AGAAAAAGAA
** **
231133 AGACTGCAAGGATTAGACTAATGCATGCATTATATC-TGAGAATCGGATTCTTTTTTATAGAAAA
1 AGACTGCAAGGATTAGACTAATGCATAAATTATA-CATGAGAATTAGATTCTTTTTTATAGAAAA
* *
231197 -AAAAG-AAAGACTGATTGATTGTAAATGTC
65 GAAAAGAAAAG-CTGATTGATTATAAATATC
* * * *
231226 AGACTGCAAGGATTAGACTAATGCATAAATTGTACATGAGAATTAGATTTCTTTTGATAAAAAAA
1 AGACTGCAAGGATTAGACTAATGCATAAATTATACATGAGAATTAGA-TTCTTTT-TTATAGAAA
* * * *
231291 AGAAAAGAAAAGTTGGTTGATTATAAGTATG
64 AGAAAAGAAAAGCTGATTGATTATAAATATC
* * * *
231322 ACACTACAAAGATTATACTAATGCATAAATTATA-ATTGAGAATTAGATTCTTTTTTATAGAAAA
1 AGACTGCAAGGATTAGACTAATGCATAAATTATACA-TGAGAATTAGATTCTTTTTTATAGAAAA
** *
231386 G-CTA-AAAAGTTGATTGATTATAAATATC
65 GAAAAGAAAAGCTGATTGATTATAAATATC
231414 A
1 A
231415 CAGTTGAAAG
Statistics
Matches: 156, Mismatches: 27, Indels: 13
0.80 0.14 0.07
Matches are distributed among these distances:
92 23 0.15
93 41 0.26
94 15 0.10
95 15 0.10
96 58 0.37
97 4 0.03
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.32
Consensus pattern (94 bp):
AGACTGCAAGGATTAGACTAATGCATAAATTATACATGAGAATTAGATTCTTTTTTATAGAAAAG
AAAAGAAAAGCTGATTGATTATAAATATC
Found at i:236819 original size:120 final size:121
Alignment explanation
Indices: 236558--236917 Score: 444
Period size: 120 Copynumber: 2.9 Consensus size: 121
236548 TATTATTTCT
* * *
236558 AATAAAAAATAATATTTAATTAATTTTAAAGAAATTTATATTAACAAATTAAAA--T-ATTAAT-
1 AATAAAAAATAATATTTAATTAAATTTAAA-AAATTTACATTAACAAATTAAAATTTAATTATTA
* * *
236619 TTTTTTTAATAATAAAAAATTTTAAATAAAAATAAAAAGGGTTTATTATTATTATTTTTTAATAA
65 TTTTTTTAA-AATAAAAAA-TTT---T-AAAATAAAAA-GATTTTTTATTA-TAATTTTTAATAA
* *
236684 AATTAAAAATAATATTTAATTAAATTTAAAAAAATTACATTAACAAATTAAAATTTAATTATTAT
1 AATAAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATTTAATTATTAT
*
236749 TTTTTTAAAATAATAAATTTTAAAAT-AAAAGATTTTTTATTATAATTTTTAATAA
66 TTTTTTAAAATAAAAAATTTTAAAATAAAAAGATTTTTTATTATAATTTTTAATAA
* *
236804 AATAAAAAATAATATTTAATTCAGTTT-AAAAATTTACATTAACAAATTAAAATATTAATTATTA
1 AATAAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAAT-TTAATTATTA
* * *
236868 TGTTTTTAAAAATAAAAAATTTTAAATTAAAAAAATTTTTTTATTATAAT
65 T-TTTTTTAAAATAAAAAATTTTAAAATAAAAAGA-TTTTTTATTATAAT
236918 AATATTTTTT
Statistics
Matches: 209, Mismatches: 17, Indels: 19
0.85 0.07 0.08
Matches are distributed among these distances:
119 25 0.12
120 47 0.22
121 33 0.16
122 9 0.04
123 19 0.09
124 1 0.00
125 21 0.10
126 28 0.13
127 4 0.02
128 13 0.06
129 9 0.04
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (121 bp):
AATAAAAAATAATATTTAATTAAATTTAAAAAATTTACATTAACAAATTAAAATTTAATTATTAT
TTTTTTAAAATAAAAAATTTTAAAATAAAAAGATTTTTTATTATAATTTTTAATAA
Found at i:237262 original size:23 final size:24
Alignment explanation
Indices: 237190--237265 Score: 70
Period size: 23 Copynumber: 3.2 Consensus size: 24
237180 GAATAAAAGG
*
237190 TTTTTTT-ATTTGAATAATGATAAA
1 TTTTTTTAATTTG-TTAATGATAAA
** *
237214 TTTTTTTAATTCCTTAAATGCT--A
1 TTTTTTTAATTTGTT-AATGATAAA
237237 TTTTTTTAATTTGTTAATG-TAAA
1 TTTTTTTAATTTGTTAATGATAAA
237260 TTTTTT
1 TTTTTT
237266 AAAATTTAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
21 1 0.02
22 4 0.10
23 21 0.50
24 8 0.19
25 8 0.19
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.61
Consensus pattern (24 bp):
TTTTTTTAATTTGTTAATGATAAA
Found at i:237440 original size:111 final size:108
Alignment explanation
Indices: 237240--237508 Score: 263
Period size: 109 Copynumber: 2.5 Consensus size: 108
237230 AATGCTATTT
*
237240 TTTTAATTTGTTAATGTAAATTTTTTAAAATTTAATTAAATATCA-TTTTTATTTTAGTAAAAAA
1 TTTTAATTTGTTAAT-T-AA-TTTTTAAAA-TTAATTAAATATTATTTTTTATTTTAGTAAAAAA
237304 TAATAATAACAAAAACTTTTTA-TTTTTA-TAAAAACATATAATTAATA
62 TAATAATAACAAAAACTTTTTATTTTTTATTAAAAA-A-ATAATTAATA
*
237351 TTTTAATTTGTTAATATAATTTTTAAAATGTAAGTAAATATTATTTTTTATTTTA-T-AAAAATA
1 TTTTAATTTGTTAAT-TAATTTTTAAAAT-TAATTAAATATTATTTTTTATTTTAGTAAAAAATA
*****
237414 ATAATAA-ACCCTTTTTAATTTAATTTTTTATTTTAAAAAAATAATTAATA
64 ATAATAACA-AAAACTT--TTT-ATTTTTTA--TTAAAAAAATAATTAATA
*
237464 TTTTAATTTATTAATT-A--TTTAAAA-TAATTAAA-ATTATTTTTTATT
1 TTTTAATTTGTTAATTAATTTTTAAAATTAATTAAATATTATTTTTTATT
237509 ATAAAATAAG
Statistics
Matches: 138, Mismatches: 10, Indels: 25
0.80 0.06 0.14
Matches are distributed among these distances:
106 13 0.09
107 8 0.06
108 17 0.12
109 28 0.20
110 16 0.12
111 18 0.13
112 7 0.05
113 24 0.17
114 1 0.01
115 6 0.04
ACGTcount: A:0.44, C:0.03, G:0.02, T:0.51
Consensus pattern (108 bp):
TTTTAATTTGTTAATTAATTTTTAAAATTAATTAAATATTATTTTTTATTTTAGTAAAAAATAAT
AATAACAAAAACTTTTTATTTTTTATTAAAAAAATAATTAATA
Found at i:237557 original size:17 final size:19
Alignment explanation
Indices: 237535--237571 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
237525 CTATATTATT
*
237535 ATTTAC-TT-ATTTTTAAA
1 ATTTACATTAATTTATAAA
237552 ATTTACATTAATTTATAAA
1 ATTTACATTAATTTATAAA
237571 A
1 A
237572 AAACTAACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
17 6 0.35
18 2 0.12
19 9 0.53
ACGTcount: A:0.43, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTACATTAATTTATAAA
Found at i:240356 original size:22 final size:22
Alignment explanation
Indices: 240329--240376 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 22
240319 AAAAACCAAA
*
240329 GAAATTGC-AGAAAATGATAAGG
1 GAAATTGCGA-AAAATGAGAAGG
240351 GAAATTGCGCAAAAATGAGAAGG
1 GAAATTGCG-AAAAATGAGAAGG
240374 GAA
1 GAA
240377 TCGGTGCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 8 0.35
23 14 0.61
24 1 0.04
ACGTcount: A:0.50, C:0.06, G:0.29, T:0.15
Consensus pattern (22 bp):
GAAATTGCGAAAAATGAGAAGG
Found at i:240538 original size:19 final size:18
Alignment explanation
Indices: 240519--240553 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
240509 ATTTTTGATA
*
240519 AAAAATTTTGTCAAAAAT
1 AAAAATTTTGACAAAAAT
*
240537 AATAATTTTGACAAAAA
1 AAAAATTTTGACAAAAA
240554 ATTTCACCGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.06, G:0.06, T:0.31
Consensus pattern (18 bp):
AAAAATTTTGACAAAAAT
Found at i:241239 original size:31 final size:33
Alignment explanation
Indices: 241179--241240 Score: 92
Period size: 33 Copynumber: 1.9 Consensus size: 33
241169 ATTCACGAAA
* *
241179 ATATTATATAGATCAATTTCCGACCATAATTTT
1 ATATTAAATAGAGCAATTTCCGACCATAATTTT
241212 ATATTAAATAGAGC-ATTTCC-ACCATAATT
1 ATATTAAATAGAGCAATTTCCGACCATAATT
241241 AAATAATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
31 9 0.33
32 6 0.22
33 12 0.44
ACGTcount: A:0.39, C:0.16, G:0.06, T:0.39
Consensus pattern (33 bp):
ATATTAAATAGAGCAATTTCCGACCATAATTTT
Found at i:247309 original size:2 final size:2
Alignment explanation
Indices: 247302--247343 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
247292 CATTATTATG
*
247302 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT 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
247344 GCTGGTATGC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Done.