Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold104
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: 327367
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
File 2 of 3
Found at i:149198 original size:55 final size:53
Alignment explanation
Indices: 149014--149400 Score: 252
Period size: 52 Copynumber: 7.1 Consensus size: 53
149004 ACATTGGTAC
* * * * *
149014 CTTTAAGTCCAATATCGCTGGACTTGAATCAGCATATTGGCACC---T-TCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCAT
* *
149063 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCACCTTTTC-CAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCAT
* *
149115 CTTTAAGTTCAATGTAGCTGGCCTTGAATCAGTACATTGACATCCTTGTTCTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA-CCTT-TTCTCAT
* * * * * * *
149170 CTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCACTTTTCTCATCTTC
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATT-G-A-C---A-C-CTTTTCTCA-----
149235 AT
53 -T
* * * *
149237 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACC--TTCATCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTTTC-TCAT
* * * *
149289 CTTTAAAATCCAATGTTGTTGGCCTTGAATCAGCACATTGGCA--TATTTCTCAT
1 CTTT-AAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCT-TTTCTCAT
* * * * * *
149342 CTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTGACATTCTTTTTCTCAT
1 CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACA--CCTTTTCTCAT
149397 CTTT
1 CTTT
149401 GAACCCAATA
Statistics
Matches: 274, Mismatches: 35, Indels: 52
0.76 0.10 0.14
Matches are distributed among these distances:
49 41 0.15
52 78 0.28
53 45 0.16
54 6 0.02
55 43 0.16
56 2 0.01
57 4 0.01
58 4 0.01
59 1 0.00
60 1 0.00
61 10 0.04
62 3 0.01
64 1 0.00
66 1 0.00
67 34 0.12
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (53 bp):
CTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGACACCTTTTCTCAT
Found at i:149274 original size:67 final size:68
Alignment explanation
Indices: 149166--149292 Score: 184
Period size: 67 Copynumber: 1.9 Consensus size: 68
149156 ATCCTTGTTC
* * *
149166 TCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTGGCATCTTTATCA-CTTTTCTCA
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
149230 TCT
66 TCT
* * * *
149233 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTT
1 TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTT
149293 AAAATCCAAT
Statistics
Matches: 52, Mismatches: 7, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
67 48 0.92
68 4 0.08
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.39
Consensus pattern (68 bp):
TCATCTTTAAGCCCAATATCGCTGGCCGTGAATCAACATATTGGCACCTTCATCATCTTTTCTCA
TCT
Found at i:149342 original size:53 final size:52
Alignment explanation
Indices: 149233--149380 Score: 172
Period size: 53 Copynumber: 2.8 Consensus size: 52
149223 TTTCTCATCT
* * *
149233 TCATCTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCA
1 TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCAACTTCA
* * *
149285 TCATCTTTAAAATCCAATGTTGTTGGCCTTGAATCAGCACATTGGCATATTTC-
1 TCATCTTT-AAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCA-ACTTCA
* * * * *
149338 TCATCTTCAAGTCTAATGTCGCTGACCGTGAATCAGCACATTG
1 TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTG
149381 ACATTCTTTT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
52 37 0.46
53 41 0.51
54 3 0.04
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (52 bp):
TCATCTTTAAGTCCAATGTTGCTGGCCTTGAATCAGCACATTGGCAACTTCA
Found at i:149410 original size:227 final size:223
Alignment explanation
Indices: 149014--149507 Score: 647
Period size: 227 Copynumber: 2.2 Consensus size: 223
149004 ACATTGGTAC
* * *
149014 CTTTAAGTCCAATATCGCTGGACTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAATCCAATGTA
* * * *
149079 GCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTTTAAGTTCAATGTAGCTGGCCTTGAAT
66 GCTGGCCTTGAATCAGCACATTGGCA-CTTTTCCATCTTCAAGTTCAATGTAGCTGACCGTGAAT
* *
149144 CAGTACATTGACATCCTTGTTCTCATCTTTAAGCCCAATATCGTTGGCCGTGAATCAACATATTG
130 CAGCACATTGACATCCTTGTTCTCATCTTTAAGCCCAATATCGTTGGCCGCGAATCAACATATTG
* *
149209 G-CATCTTTATCACTTTTC-TCATCTTCAT
195 GTCAT-TTTATCACTCTTCATCATCATCAT
149237 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCATCTTTAAAATCCAA
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACC-T--TCATCTTT-AAATCCAA
* * *
149302 TGTTGTTGGCCTTGAATCAGCACATTGGCA-TATTTCTCATCTTCAAG-TCTAATGTCGCTGACC
62 TGTAGCTGGCCTTGAATCAGCACATTGGCACT-TTTC-CATCTTCAAGTTC-AATGTAGCTGACC
* * *
149365 GTGAATCAGCACATTGACATTCTTTTTCTCATCTTTGAA-CCCAATATCGTTGGTCGCGAATCAA
124 GTGAATCAGCACATTGACATCCTTGTTCTCATCTTT-AAGCCCAATATCGTTGGCCGCGAATCAA
* * *
149429 CGTATTGGTCCTTTTATCACTCTTCATCCTCATCAT
188 CATATTGGTCATTTTATCACTCTTCATCATCATCAT
* * * *
149465 CTTTAAGTCCAGTGTTGCAGGCCTTGAATCTGCATATTGGCAC
1 CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCAC
149508 ATTGCAATGA
Statistics
Matches: 237, Mismatches: 24, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
223 42 0.18
224 1 0.00
225 1 0.00
226 14 0.06
227 128 0.54
228 51 0.22
ACGTcount: A:0.24, C:0.24, G:0.16, T:0.36
Consensus pattern (223 bp):
CTTTAAGTCCAATATTGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAATCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCACTTTTCCATCTTCAAGTTCAATGTAGCTGACCGTGAATC
AGCACATTGACATCCTTGTTCTCATCTTTAAGCCCAATATCGTTGGCCGCGAATCAACATATTGG
TCATTTTATCACTCTTCATCATCATCAT
Found at i:150106 original size:13 final size:13
Alignment explanation
Indices: 150088--150143 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 13
150078 CATAAAGTGT
150088 TGTATCGATACAA
1 TGTATCGATACAA
150101 TGTATCGATACGTAA
1 TGTATCGATAC--AA
150116 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
150133 TGTATCGATAC
1 TGTATCGATAC
150144 GTAAGTTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:150123 original size:32 final size:32
Alignment explanation
Indices: 150068--150168 Score: 175
Period size: 32 Copynumber: 3.1 Consensus size: 32
150058 TTCAACGATT
*
150068 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACGT-AAGTGTTGTATCGATACAA
150101 TGTATCGATACGTAAGTGTTGTATCGATACAA
1 TGTATCGATACGTAAGTGTTGTATCGATACAA
*
150133 TGTATCGATACGTAAGTTTTGTATCGATACAA
1 TGTATCGATACGTAAGTGTTGTATCGATACAA
150165 TGTA
1 TGTA
150169 AGCTACTGCC
Statistics
Matches: 66, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
32 54 0.82
33 12 0.18
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.36
Consensus pattern (32 bp):
TGTATCGATACGTAAGTGTTGTATCGATACAA
Found at i:150125 original size:19 final size:17
Alignment explanation
Indices: 150066--150162 Score: 75
Period size: 19 Copynumber: 5.8 Consensus size: 17
150056 ATTTCAACGA
150066 TTTGTATCGATACATAAAG
1 TTTGTATCGATAC-T-AAG
150085 TGTTGTATCGATAC-AA-
1 T-TTGTATCGATACTAAG
150101 --TGTATCGATACGTAAG
1 TTTGTATCGATAC-TAAG
150117 TGTTGTATCGATAC-AA-
1 T-TTGTATCGATACTAAG
150133 --TGTATCGATACGTAAG
1 TTTGTATCGATAC-TAAG
150149 TTTTGTATCGATAC
1 -TTTGTATCGATAC
150163 AATGTAAGCT
Statistics
Matches: 65, Mismatches: 0, Indels: 26
0.71 0.00 0.29
Matches are distributed among these distances:
13 22 0.34
15 4 0.06
17 4 0.06
19 23 0.35
20 12 0.18
ACGTcount: A:0.31, C:0.12, G:0.20, T:0.37
Consensus pattern (17 bp):
TTTGTATCGATACTAAG
Found at i:150224 original size:13 final size:13
Alignment explanation
Indices: 150206--150230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
150196 ACTACCCAAA
150206 TGTATCGATACAT
1 TGTATCGATACAT
150219 TGTATCGATACA
1 TGTATCGATACA
150231 CTGATCTTTG
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:150280 original size:52 final size:52
Alignment explanation
Indices: 150239--150419 Score: 326
Period size: 52 Copynumber: 3.5 Consensus size: 52
150229 CACTGATCTT
150239 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
150291 TGTATCGATACATGCAGGCAACTTTGCCCAGATGTATCGATAGACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
* *
150343 TGTATTGATACATGCAGGCAAATTTGCCCAGATGTATCGATAGACTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
150395 TGTATCGATACATGCAGGCAAATTT
1 TGTATCGATACATGCAGGCAAATTT
150420 TCATATTTCG
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 124 1.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:154985 original size:16 final size:16
Alignment explanation
Indices: 154933--155020 Score: 72
Period size: 16 Copynumber: 5.4 Consensus size: 16
154923 AAATTTTTGG
* *
154933 GTCATTTTCGGGTTCGG
1 GTCA-TTTCGAGTTCGA
* *
154950 GTCATTTTGAGTT-TA
1 GTCATTTCGAGTTCGA
*
154965 GGTCATTTCGGGTTCGA
1 -GTCATTTCGAGTTCGA
*
154982 GTCATTTCAAGTTCG-
1 GTCATTTCGAGTTCGA
*
154997 GATAATTTCGAGTTCGA
1 G-TCATTTCGAGTTCGA
155014 GTCATTT
1 GTCATTT
155021 TGGATTCGGG
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
15 1 0.02
16 48 0.87
17 6 0.11
ACGTcount: A:0.17, C:0.15, G:0.26, T:0.42
Consensus pattern (16 bp):
GTCATTTCGAGTTCGA
Found at i:155005 original size:32 final size:32
Alignment explanation
Indices: 154938--155020 Score: 96
Period size: 32 Copynumber: 2.6 Consensus size: 32
154928 TTTGGGTCAT
* ** *
154938 TTTCGGGTTCGGGTCATTTTGAGTTTAGGTCA
1 TTTCGGGTTCGAGTCATTTCAAGTTTAGGTAA
*
154970 TTTCGGGTTCGAGTCATTTCAAG-TTCGGATAA
1 TTTCGGGTTCGAGTCATTTCAAGTTTAGG-TAA
*
155002 TTTCGAGTTCGAGTCATTT
1 TTTCGGGTTCGAGTCATTT
155021 TGGATTCGGG
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
31 4 0.09
32 40 0.91
ACGTcount: A:0.17, C:0.14, G:0.27, T:0.42
Consensus pattern (32 bp):
TTTCGGGTTCGAGTCATTTCAAGTTTAGGTAA
Found at i:155071 original size:53 final size:52
Alignment explanation
Indices: 155008--155125 Score: 146
Period size: 53 Copynumber: 2.2 Consensus size: 52
154998 ATAATTTCGA
* * * *
155008 GTTCGAGTCATTTTGGATTCGGGTCAATTGGGTTTAATACTCAGGTTAATTGG
1 GTTCGAGTCATTCTGGATTCAGATCAATTGGG-TTAACACTCAGGTTAATTGG
* *
155061 GTTCGGGTCATTCTGGATTCAGATCAATTGGGTTAACATTCAGGTTAATTTGG
1 GTTCGAGTCATTCTGGATTCAGATCAATTGGGTTAACACTCAGGTTAA-TTGG
* *
155114 TTTCAAGTCATT
1 GTTCGAGTCATT
155126 TTAGATTTAG
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
52 14 0.25
53 41 0.75
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.40
Consensus pattern (52 bp):
GTTCGAGTCATTCTGGATTCAGATCAATTGGGTTAACACTCAGGTTAATTGG
Found at i:161911 original size:18 final size:19
Alignment explanation
Indices: 161878--161913 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
161868 TATTTATTTC
161878 AAATTAATTCCATTTTCAA
1 AAATTAATTCCATTTTCAA
*
161897 AAATTCATT-CATTTTCA
1 AAATTAATTCCATTTTCA
161914 TTCATTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.39, C:0.17, G:0.00, T:0.44
Consensus pattern (19 bp):
AAATTAATTCCATTTTCAA
Found at i:162051 original size:165 final size:164
Alignment explanation
Indices: 161518--162095 Score: 603
Period size: 165 Copynumber: 3.5 Consensus size: 164
161508 TCAAGCATCA
* * * *
161518 AAATTCATCAAATATTATCACTTATTTCATATTAATTTAGTTTTCAAAAATTCATTCATTTTCAT
1 AAATTCATCAAACATCATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCAT
* * **
161583 GAGCTTTTGA-TTTTTCCTTGAAACTCTCATTTTTCTAAAATACGGTGTTTTCTACTTTGTAAAT
66 GAGTTTTTGATTTTTTCCTTGAAACTCTCATTTTTCT-AAATACAGTGTTTTCTACTCCGTAAAT
* * * *
161647 TTTTTCAAGGGGATTTTTCTTGGTTTTCAATTTTT
130 TTTTTCGAGAGGATTTTTCTCGGTTTTTAATTTTT
* * * * * *
161682 AAAATTCATCAAACATAATTATTT-TTTTATATTAATTCAATTTTTTAAAAATTCACTCATTTTC
1 -AAATTCATCAAACATCATCATTTATTTCATATTAATTC-AGTTTTCAAAAATTCATTCATTTTC
* * * * * *
161746 ATGAGTTTTTGGTTTATTCCTTGAAACTTCCCCTTTTTTTTAAATA-AGGTGTTTTCTATTCCGT
64 ATGAGTTTTTGATTTTTTCCTTGAAAC-T-CTCATTTTTCTAAATACA-GTGTTTTCTACTCCGT
* **
161810 AAATTTTTTTGAGAGGATTTTTC-CTATTTTTTAATTTTTT
126 AAATTTTTTCGAGAGGATTTTTCTC-GGTTTTTAA-TTTTT
* * *
161850 AAATTGATCAAACATCATTATTTATTTCAAATTAATTCCA-TTTTCAAAAATTCATTCATTTTCA
1 AAATTCATCAAACATCATCATTTATTTCATATTAATT-CAGTTTTCAAAAATTCATTCATTTTCA
* * ** * *
161914 TTCA-TTTTTTATTTTTTTTTTGAAACTCTCATTTTTACTAAATACAATGGTTTCTACTCCGTAA
65 -TGAGTTTTTGATTTTTTCCTTGAAACTCTCATTTTT-CTAAATACAGTGTTTTCTACTCCGTAA
* *
161978 A-TTTTTGGAGAGGATTTTTCTCGGTTTTTAAATTTT
128 ATTTTTTCGAGAGGATTTTTCTCGGTTTTTAATTTTT
* * * *
162014 AGAATTCATCAAACATCATCATTTAATTCTTATTAATTCAGTTTTAAAAAATTAATTCATTTTCA
1 A-AATTCATCAAACATCATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCA
* *
162079 TGAATTTTGGATTTTTT
65 TGAGTTTTTGATTTTTT
162096 TGTTGAAATT
Statistics
Matches: 339, Mismatches: 58, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
164 21 0.06
165 147 0.43
166 37 0.11
167 106 0.31
168 27 0.08
169 1 0.00
ACGTcount: A:0.29, C:0.13, G:0.08, T:0.51
Consensus pattern (164 bp):
AAATTCATCAAACATCATCATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTCAT
GAGTTTTTGATTTTTTCCTTGAAACTCTCATTTTTCTAAATACAGTGTTTTCTACTCCGTAAATT
TTTTCGAGAGGATTTTTCTCGGTTTTTAATTTTT
Found at i:163647 original size:162 final size:164
Alignment explanation
Indices: 163379--163675 Score: 481
Period size: 162 Copynumber: 1.8 Consensus size: 164
163369 TAAATATTTT
*
163379 AAATATTAATCATTTTTAAATCTTTTATATTCCTATGGGTATCCGTAAGGGTACAAAAGATTTCA
1 AAATATTAATCATTTTTAAATCTTTTATATTCCTATGGGTATCCGTAAGGGTACAAAAGATTACA
*
163444 AAAACTTTTCGTATCTTTTCGGGTATCCATTAAGGTACGAAATGA-TTGTTTTCAAAAATAAATA
66 AAAACTTTTCATATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTGTTTTCAAAAATAAATA
163508 AATAATTTTACATTCACTCATCATTAATTACAAC
131 AATAATTTTACATTCACTCATCATTAATTACAAC
* * * * * *
163542 AAATATTAATCGTTTTT-AATTTTTTATATTCCTATGGTTATCTGTAGGGGTATAAAAGATTACA
1 AAATATTAATCATTTTTAAATCTTTTATATTCCTATGGGTATCCGTAAGGGTACAAAAGATTACA
* *
163606 AAAACTTTTCATATTTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTTTCAAAAATAAAT
66 AAAACTTTTCATATCTTTTCGGGTATCCATTAAGGTACGAAATGA-TTTGTTTTCAAAAATAAAT
163671 AAATA
130 AAATA
163676 TTAATCGTTT
Statistics
Matches: 122, Mismatches: 10, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
162 84 0.69
163 16 0.13
164 22 0.18
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (164 bp):
AAATATTAATCATTTTTAAATCTTTTATATTCCTATGGGTATCCGTAAGGGTACAAAAGATTACA
AAAACTTTTCATATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTGTTTTCAAAAATAAATA
AATAATTTTACATTCACTCATCATTAATTACAAC
Found at i:163785 original size:129 final size:128
Alignment explanation
Indices: 163542--163778 Score: 309
Period size: 129 Copynumber: 1.9 Consensus size: 128
163532 TAATTACAAC
* * *
163542 AAATATTAATCGTTTTTAATTTTTTATATTCCTATGGTTATCTGTAGGGGTATAAAAGATTACAA
1 AAATATTAATCGTTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGATTAC-A
** * *
163607 AAACTTTTCATATTTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTTTCAAAAATAAAT
65 AAACTTTTCATATTTGGTCGGGTATCCATCAAGGTACGAAATGACTTTTTTTTCAAAAATAAAT
* *
163671 AAATATTAATCGTTTTTAATCTTTTATATTCTTATGGGTATCCGTA-GGGTATTAAAAGATTTC-
1 AAATATTAATCGTTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTA-TAAAAGATTACA
* * * *
163734 AAATTTTTCGTATCTTGGTC-GGTTTCTATCAAGGTACGAAATGAC
65 AAACTTTTCATAT-TTGGTCGGGTATCCATCAAGGTACGAAATGAC
163779 ACTTTTTGAG
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
127 32 0.34
128 9 0.10
129 52 0.56
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (128 bp):
AAATATTAATCGTTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAAGATTACAA
AACTTTTCATATTTGGTCGGGTATCCATCAAGGTACGAAATGACTTTTTTTTCAAAAATAAAT
Found at i:163799 original size:129 final size:129
Alignment explanation
Indices: 163533--163799 Score: 299
Period size: 129 Copynumber: 2.1 Consensus size: 129
163523 ACTCATCATT
* * * *
163533 AATTACAACAAATATTAATCGTTTTTAATTTTTTATATTCCTATGGTTATCTGTAGGGGTATAAA
1 AATTA-AATAAATATTAATCGTTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAA
** * ** **
163598 AGATTACAAAAACTTTTCATATTTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTTTCAA
65 AGATTAC-AAAACTTTTCATATTTGGTCGGGTATCCATCAAGGTACGAAATGAACTTTTTGACAA
163663 A
129 A
*
163664 AA-TAAATAAATATTAATCGTTTTTAATCTTTTATATTCTTATGGGTATCCGTA-GGGTATTAAA
1 AATTAAATAAATATTAATCGTTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTA-TAAA
* * * * * *
163727 AGATTTC-AAATTTTTCGTATCTTGGTC-GGTTTCTATCAAGGTACGAAATGACACTTTTTGAGA
65 AGATTACAAAACTTTTCATAT-TTGGTCGGGTATCCATCAAGGTACGAAATGA-ACTTTTTGACA
163790 AA
128 AA
163792 AATTAAAT
1 AATTAAAT
163800 GAAACATGTA
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
127 32 0.28
128 19 0.17
129 59 0.52
130 2 0.02
131 2 0.02
ACGTcount: A:0.34, C:0.10, G:0.13, T:0.42
Consensus pattern (129 bp):
AATTAAATAAATATTAATCGTTTTTAATCTTTTATATTCCTATGGGTATCCGTAGGGGTATAAAA
GATTACAAAACTTTTCATATTTGGTCGGGTATCCATCAAGGTACGAAATGAACTTTTTGACAAA
Found at i:164636 original size:155 final size:154
Alignment explanation
Indices: 164323--165066 Score: 668
Period size: 155 Copynumber: 4.8 Consensus size: 154
164313 ACTGGGTCTA
* * * * *
164323 CTTTTATGCCAAAAGTGGGTATTTAGGATAAGTTCA-TTCCTTTTATAGTTCTTTTTAAATCCTT
1 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCT-CTTTTATAG-TCCTTTTAAATCCTT
* * * *
164387 TAGGGGTATCAGGATACTTTCA-TGTCAAAGGTAT-CCCTTAGGGGTATTTTCATAATCTTTCA-
64 TAGGGTTATCA-GATACTTTCACT-TCGAAGGTATACCCATAGGGGCATTTTCATAAT-TTTCAG
** * * *
164449 AAGTTGAGTCCTAGGTTGTCACTAGGTTCG
126 AA-TCAACTCCTAGGTCGTCACTAGGTCCG
164479 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCTCTTTTATAGTCCTTTTAAATCCTTTA
1 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCTCTTTTATAGTCCTTTTAAATCCTTTA
* * *
164544 GGGTTATCGAGATACTTTCACTTCGAAGGTATACCCATAGAGGCATTTTCGTAATTTTTAGGAA-
66 GGGTTATC-AGATACTTTCACTTCGAAGGTATACCCATAGGGGCATTTTCATAATTTTCA-GAAT
164608 CAACTCCTAGGTCGTCACCTA-GTCCG
129 CAACTCCTAGGTCGTCA-CTAGGTCCG
* * *
164634 CTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCT-TTTTATGAGTCTTTTTAAGTCCTT
1 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCA-CCTCTTTTAT-AGTCCTTTTAAATCCTT
* * ** *
164698 TAGGGTTGTCAGAATACTTTCACGTCGAAGGTATACTTATAGGGGTATTTTCATAATTTTCAGAA
64 TAGGGTTATCAG-ATACTTTCACTTCGAAGGTATACCCATAGGGGCATTTTCATAATTTTCAGAA
* * *
164763 TTAACTCCTAGGTCATCACTAGGTCTG
128 TCAACTCCTAGGTCGTCACTAGGTCCG
** * *
164790 CTTTTATGTTGAAGGTGGGTATTTAGGATAGGTTCACCTTTTTTATAGTCCTTTTAAGTCCTTTA
1 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCTCTTTTATAGTCCTTTTAAATCCTTTA
* * * * ** * *
164855 GGGTTACCGGGATAGTTTCACGTT-G-AGGTATACCCATTGGGGCATTTTGGTAATTTTTTAAAA
66 GGGTTATC-AGATACTTTCAC-TTCGAAGGTATACCCATAGGGGCATTTTCATAA-TTTTCAGAA
* * * * * * *
164918 CCAAGTCTTAGGTTGTCACCAAGTCCA
128 TCAACTCCTAGGTCGTCACTAGGTCCG
* * * * * * *
164945 CTTTTATGCCGAATGTGCGTATTTAGGATAGCTTCATCCTATTTGGA-A-TCCTTTTTAAGTCTT
1 CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCA-CCTCTTT-TATAGTCC-TTTTAAATCCT
* ** ** * * *
165008 TTAGGGGTATTGGGCAC-TTCTACGTCGAAGGTAT-CCCCTAGGGGCATTTTTATAATTTT
63 TTAGGGTTATCAGATACTTTC-ACTTCGAAGGTATACCCATAGGGGCATTTTCATAATTTT
165067 TCTTGAACTT
Statistics
Matches: 489, Mismatches: 77, Indels: 46
0.80 0.13 0.08
Matches are distributed among these distances:
154 30 0.06
155 230 0.47
156 225 0.46
157 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (154 bp):
CTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACCTCTTTTATAGTCCTTTTAAATCCTTTA
GGGTTATCAGATACTTTCACTTCGAAGGTATACCCATAGGGGCATTTTCATAATTTTCAGAATCA
ACTCCTAGGTCGTCACTAGGTCCG
Found at i:164951 original size:311 final size:311
Alignment explanation
Indices: 164322--165017 Score: 897
Period size: 311 Copynumber: 2.2 Consensus size: 311
164312 CACTGGGTCT
* * *
164322 ACTTTTATGCCAAAAGTGGGTATTTAGGATAAGTTCATTCC-TTTTAT-AGTTCTTTTTAAATCC
1 ACTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCA-TCCTTTTTATGAG-TCTTTTTAAGTCC
* * *
164385 TTTAGGGGTATCAGGATACTTTCATGTCAAAGGTATCCCTTAGGGGTATTTTCATAATCTTTCAA
64 TTTAGGGGTATCAGAATACTTTCACGTCAAAGGTATACCTTAGGGGTATTTTCATAATCTTTCAA
* * **
164450 AGTTGAGTCCTAGGTTGTCACTAGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCA
129 AGTTAACTCCTAGGTCATCACTAGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCA
*
164515 CCTCTTTTATAGTCCTTTTAAATCCTTTAGGGTTATCGAGATACTTTCACTTCGAAGGTATACCC
194 CCTCTTTTATAGTCCTTTTAAATCCTTTAGGGTTACCGAGATACTTTCACTTCGAAGGTATACCC
* *
164580 ATAGAGGCATTTTCGTAATTTTTAGGAACAACTCCTAGGTCGTCACCTAGTCC
259 ATAGAGGCATTTTCGTAATTTTTAGAAACAACTCCTAGGTCGTCACCAAGTCC
* * *
164633 GCTTTTATGCCGAAGGTGGGCATTTAGGATAGGTTCATCCTTTTTATGAGTCTTTTTAAGTCCTT
1 ACTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCATCCTTTTTATGAGTCTTTTTAAGTCCTT
* * * *
164698 TAGGGTTGTCAGAATACTTTCACGTCGAAGGTATACTTATAGGGGTATTTTCATAAT-TTTCAGA
66 TAGGGGTATCAGAATACTTTCACGTCAAAGGTATACCT-TAGGGGTATTTTCATAATCTTTCA-A
**
164762 A-TTAACTCCTAGGTCATCACTAGG-TCTGCTTTTATGTTGAAGGTGGGTATTTAGGATAGGTTC
129 AGTTAACTCCTAGGTCATCACTAGGTTC-GCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTC
* * * *
164825 ACCTTTTTTATAGTCCTTTTAAGTCCTTTAGGGTTACCGGGATAGTTTCACGTT-G-AGGTATAC
193 ACCTCTTTTATAGTCCTTTTAAATCCTTTAGGGTTACCGAGATACTTTCAC-TTCGAAGGTATAC
* * * * * *
164888 CCATTGGGGCATTTTGGTAATTTTTTA-AAACCAAGTCTTAGGTTGTCACCAAGTCC
257 CCATAGAGGCATTTTCGTAA-TTTTTAGAAA-CAACTCCTAGGTCGTCACCAAGTCC
* * * * * * *
164944 ACTTTTATGCCGAATGTGCGTATTTAGGATAGCTTCATCCTATTT-GGAATCCTTTTTAAGTCTT
1 ACTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCATCCTTTTTATGAGT-CTTTTTAAGTCCT
165008 TTAGGGGTAT
65 TTAGGGGTAT
165018 TGGGCACTTC
Statistics
Matches: 333, Mismatches: 43, Indels: 18
0.85 0.11 0.05
Matches are distributed among these distances:
310 35 0.11
311 274 0.82
312 24 0.07
ACGTcount: A:0.23, C:0.17, G:0.21, T:0.39
Consensus pattern (311 bp):
ACTTTTATGCCGAAAGTGGGTATTTAGGATAGGTTCATCCTTTTTATGAGTCTTTTTAAGTCCTT
TAGGGGTATCAGAATACTTTCACGTCAAAGGTATACCTTAGGGGTATTTTCATAATCTTTCAAAG
TTAACTCCTAGGTCATCACTAGGTTCGCTTTTATGCCGAAGGTGGGTATTTAGGATAGGTTCACC
TCTTTTATAGTCCTTTTAAATCCTTTAGGGTTACCGAGATACTTTCACTTCGAAGGTATACCCAT
AGAGGCATTTTCGTAATTTTTAGAAACAACTCCTAGGTCGTCACCAAGTCC
Found at i:168817 original size:13 final size:13
Alignment explanation
Indices: 168799--168823 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
168789 CAATTCTTCA
168799 TGTATCGATACAT
1 TGTATCGATACAT
168812 TGTATCGATACA
1 TGTATCGATACA
168824 ATGTGCCATG
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:169744 original size:6 final size:6
Alignment explanation
Indices: 169733--169790 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
169723 TTCCTCTAAA
* *
169733 AAAAAG AAAAAG AAAAAG --AAAG -AAAAG AAAAAGG AAAAAC ATGAAATG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAA-G AAAAAG A--AAAAG
169781 AAAAAG AAAA
1 AAAAAG AAAA
169791 TGCAGATAGT
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.09
5 4 0.09
6 25 0.58
7 6 0.14
8 4 0.09
ACGTcount: A:0.78, C:0.02, G:0.17, T:0.03
Consensus pattern (6 bp):
AAAAAG
Found at i:169758 original size:21 final size:20
Alignment explanation
Indices: 169730--169790 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 20
169720 AATTTCCTCT
169730 AAAA-AAAAGAAAAAGAAAA
1 AAAAGAAAAGAAAAAGAAAA
169749 AGAAAGAAAAGAAAAAGGAAAA
1 A-AAAGAAAAGAAAAA-GAAAA
* * *
169771 ACATGAAATGAAAAAGAAAA
1 AAAAGAAAAGAAAAAGAAAA
169791 TGCAGATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
19 1 0.03
20 8 0.22
21 21 0.58
22 6 0.17
ACGTcount: A:0.79, C:0.02, G:0.16, T:0.03
Consensus pattern (20 bp):
AAAAGAAAAGAAAAAGAAAA
Found at i:169769 original size:16 final size:16
Alignment explanation
Indices: 169730--169765 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
169720 AATTTCCTCT
169730 AAAAA-AAAGAAAAAG
1 AAAAAGAAAGAAAAAG
169745 AAAAAGAAAG-AAAAG
1 AAAAAGAAAGAAAAAG
169760 AAAAAG
1 AAAAAG
169766 GAAAAACATG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 16 0.80
16 4 0.20
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAAAAAG
Found at i:170074 original size:19 final size:17
Alignment explanation
Indices: 170052--170105 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
170042 AAGGATTGTG
170052 AAAGAGAAAAAAAATTGAA
1 AAAGAGAAAAAAAA--GAA
*
170071 AAAGAGGAAAAAAAGAA
1 AAAGAGAAAAAAAAGAA
*
170088 AAATG-GAAAAAAAGGAA
1 AAA-GAGAAAAAAAAGAA
170105 A
1 A
170106 GAATGAGGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
17 17 0.55
18 1 0.03
19 13 0.42
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (17 bp):
AAAGAGAAAAAAAAGAA
Found at i:170088 original size:17 final size:17
Alignment explanation
Indices: 170052--170101 Score: 57
Period size: 19 Copynumber: 2.9 Consensus size: 17
170042 AAGGATTGTG
*
170052 AAAGAGAAAAAAAATTGAA
1 AAAGAGGAAAAAAA--GAA
170071 AAAGAGGAAAAAAAGAA
1 AAAGAGGAAAAAAAGAA
*
170088 AAA-TGGAAAAAAAG
1 AAAGAGGAAAAAAAG
170102 GAAAGAATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 10 0.34
17 6 0.21
19 13 0.45
ACGTcount: A:0.74, C:0.00, G:0.20, T:0.06
Consensus pattern (17 bp):
AAAGAGGAAAAAAAGAA
Found at i:170089 original size:16 final size:17
Alignment explanation
Indices: 170070--170107 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
170060 AAAAAATTGA
170070 AAAAGA-GGAAAAAAAG
1 AAAAGATGGAAAAAAAG
170086 AAAA-ATGGAAAAAAAG
1 AAAAGATGGAAAAAAAG
*
170102 GAAAGA
1 AAAAGA
170108 ATGAGGCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 1 0.05
16 17 0.89
17 1 0.05
ACGTcount: A:0.74, C:0.00, G:0.24, T:0.03
Consensus pattern (17 bp):
AAAAGATGGAAAAAAAG
Found at i:170508 original size:81 final size:81
Alignment explanation
Indices: 170367--170589 Score: 277
Period size: 81 Copynumber: 2.8 Consensus size: 81
170357 TTGGAAGGAT
* * *
170367 ATCAAATTTGTTTGATTTTCAAAGAAATCCATATTTTGTACATTCTAATCCATTCATGCCTAAAT
1 ATCAAATTTGTTTGATTTTCAAAGAAATTCATATTTTATACACTCTAATCCATTCATGCCTAAAT
*
170432 TTTTGAGCCCCACAAC
66 TTTTGAGCCCAACAAC
* * * *
170448 ATCAGATTTGTTTGATTTTCAAAGAAATTCATATTTTATACACTCTGATCTATTCGTGCCTAAAT
1 ATCAAATTTGTTTGATTTTCAAAGAAATTCATATTTTATACACTCTAATCCATTCATGCCTAAAT
* *
170513 TTTTGAGCCCAATAGC
66 TTTTGAGCCCAACAAC
** * * ** *
170529 ATCAAATTTGTAGGATTTTGAAAGAAACTT-ATATTTCATACGTTCTAACCCATTCATGCCT
1 ATCAAATTTGTTTGATTTTCAAAGAAA-TTCATATTTTATACACTCTAATCCATTCATGCCT
170590 CGGAAAATAG
Statistics
Matches: 120, Mismatches: 21, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
81 118 0.98
82 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.39
Consensus pattern (81 bp):
ATCAAATTTGTTTGATTTTCAAAGAAATTCATATTTTATACACTCTAATCCATTCATGCCTAAAT
TTTTGAGCCCAACAAC
Found at i:171989 original size:35 final size:35
Alignment explanation
Indices: 171908--171989 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 35
171898 GACTACTCAA
* * **
171908 TCAAAT-TTTTCCACCACCGTTCAACTGTATCTGG
1 TCAAATCTTTTCTACCACCATTCAACAATATCTGG
* *
171942 TCAAA-CTCTTTCTACCACCATTTAACAATATTTGG
1 TCAAATCT-TTTCTACCACCATTCAACAATATCTGG
171977 TCAAATCTTTTCT
1 TCAAATCTTTTCT
171990 TCCCTCGTTT
Statistics
Matches: 39, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
34 6 0.15
35 31 0.79
36 2 0.05
ACGTcount: A:0.27, C:0.27, G:0.07, T:0.39
Consensus pattern (35 bp):
TCAAATCTTTTCTACCACCATTCAACAATATCTGG
Found at i:172302 original size:43 final size:43
Alignment explanation
Indices: 172249--173693 Score: 873
Period size: 43 Copynumber: 33.7 Consensus size: 43
172239 TTAAGTTCGC
* * * *
172249 CTGTCGGCTTTAACCATAGAGACTTCTTCTCCTTTAAGTCTAT
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * *
172292 TTGTCAGCTTTGACCCTA-AGACTTCTTCCCCCTTAAGTCTGT
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * *
172334 CTGTCGACTTTGACCCTAGAGACTTCTTCACCCTCAAGTCTAC
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* **
172377 CTGTCGGCTTTGACCTTAGAGACTTCTTCCCCCTTAAGTCTGC
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * * * ** **
172420 CTGTCGACGTTGACCTTGGAGACTTCTTTCCTTTTAAGTCTGC
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
** * * * * *
172463 CTGTCGATTTTGACCTTGGAGACTT-TTCTCCC-TATGGTCTGT
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTA-AGTCTAT
* * * * * *
172505 CTGTCGGCTTTGACCTTGGAGACTTCTTCCTCTTTAAGTGTGT
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * * *
172548 CTGTCGACTTTGACCCTAGAGACTTTTTTCCCTTTAAATCTA-
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * * **
172590 CTTGTTGGCTTTGACCCTGGAGACTTCTTCTCTCTTAAGTCTGC
1 C-TGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * * * *
172634 CTATCAGCTTTGACCCTAAAGACTTCTTCACTCTTAAGTCTAC
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * *
172677 CTG-CTGGTTTTGACCTTGGAGACTT-TTCCCCCTTCAAGTCTA-
1 CTGTC-GGCTTTGACCCTAGAGACTTCTTCCCCCTT-AAGTCTAT
* * * * * *
172719 CATGTTGGCTTTGACCTTGGCA-ACTTCCTCCACCCTCAAGTCT-G
1 C-TGTCGGCTTTGACCCTAG-AGACTTCTTCC-CCCTTAAGTCTAT
*** * * * *
172763 CTTGTCAATTTTGACCCTAGAGACTTCTTCCCCATTTAGTGTGT
1 C-TGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * * * **
172807 CTGTCGGCTTTAACCTTGGAGACTT-TTGCGCTCTTAAGTCTGC
1 CTGTCGGCTTTGACCCTAGAGACTTCTT-CCCCCTTAAGTCTAT
* * * * * * **
172850 CTGTCGACTTTGATCTTGGAGATTTCTTCGCATTTAAGTCT-T
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
** * * **
172892 CTTGTTAGCTTTGACCTTGGAGACTTCTTCCCCCTTAAGTCTGC
1 C-TGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* ****
172936 CTGTCGACTTTGACCCTAGAGACTTCTTCTATTTTAAGTCTA-
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * *
172978 CTTGTCAGCTTTGACCCTAGAGACTTCTTCCCTCTCAAGTCTA-
1 C-TGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * *** * *
173021 CTTGTCGGCTTTGACCTTGGAGACTTCTTCCTTTTTAAGTATGT
1 C-TGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* ** * * *
173065 CTATCAACTTTGACCTTAGAGACTT-TTTCCCCTTAAGTCT-G
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
** * * *
173106 CTTGTTAGCTTTAACCTTGGAGACTTCTTCCCCCTTAAGT-T-T
1 C-TGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* ** * * **
173148 GCTTATCGATTTTGACCCTGGAGACTTTTTCCCCCTTAAGTCTGC
1 -C-TGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * *
173193 CTGTCAGCTTTGACCCTGGAGACTTTTTCCCCCTTAAGTCT-G
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * * * * * **
173235 CTTGTTC-GCTTTGACCTTGGAGACTTTTTTCCTCTTTAGACTGC
1 C-TG-TCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * * *
173279 CTGTTGACTTTGACCCTGGAGACTTCTTCGCCCTTAAGTCTGT
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * *
173322 CTGTCGGCTTTGACCCTAGAGACTTCTTCGCCTTTAAGTCTAC
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * * **
173365 CTATCGGATTTGACCTTGGAGACTTCTTCCCCCTTAAGTCTGC
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * * * * *
173408 CTATCAGCTTTGACCTTAGAAACTTTTTCACCCTTAAGTCTGT
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * *
173451 CTATCGGCTTTGACCCTAGAGACTT-TTTCCCCTTAAGTCTGT
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * * * * * * * * **
173493 CTATCAGTTTTGACCTTGGAGATTTCTTCTCCCTTCAGTTTGC
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* * *
173536 CTATCGGCTTTGACCCTAGAGACTTCTTCGCCTTTAAGTCTA-
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
** * *
173578 CTTGTCAACTTTGACCCTAGAGACTTTCTTCACCCTTAAGTCTAC
1 C-TGTCGGCTTTGACCCTAGAGAC-TTCTTCCCCCTTAAGTCTAT
* * * ** * **
173623 CTGTCGGCTTTAATCCGAGAGACTTCTTTACCCTTTA-TCTGC
1 CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
* *
173665 CTGTCGGCTTTGACCCGAAAGACTTCTTC
1 CTGTCGGCTTTGACCCTAGAGACTTCTTC
173694 ATCCATCGTC
Statistics
Matches: 1115, Mismatches: 252, Indels: 71
0.78 0.18 0.05
Matches are distributed among these distances:
41 3 0.00
42 178 0.16
43 851 0.76
44 78 0.07
45 5 0.00
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (43 bp):
CTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTAT
Found at i:172425 original size:86 final size:85
Alignment explanation
Indices: 172238--173693 Score: 1067
Period size: 86 Copynumber: 17.0 Consensus size: 85
172228 ATATTTTAAT
* * * * * ***
172238 CTTAAGT-TCGCCTGTCGGCTTTAACCATAGAGACTTCTTCTCCTTTAAGTCTATTTGTCAGCTT
1 CTTAAGTCT-GCCTGTCGACTTTGACCCTGGAGACTTCTTC-CCCTTAAGTCTGCCTGTCAGCTT
*
172302 TGACCCTA-AGACTTCTTCCCC
64 TGACCTTAGAGACTTCTTCCCC
* * * * *
172323 CTTAAGTCTGTCTGTCGACTTTGACCCTAGAGACTTCTTCACCCTCAAGTCTACCTGTCGGCTTT
1 CTTAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTC-CCCTTAAGTCTGCCTGTCAGCTTT
172388 GACCTTAGAGACTTCTTCCCC
65 GACCTTAGAGACTTCTTCCCC
* * ** *
172409 CTTAAGTCTGCCTGTCGACGTTGACCTTGGAGACTTCTTTCCTTTTAAGTCTGCCTGTC-GATTT
1 CTTAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTC-TTCCCCTTAAGTCTGCCTGTCAG-CTT
* *
172473 TGACCTTGGAGACTT-TTCTCC
64 TGACCTTAGAGACTTCTTCCCC
* * * * * * *
172494 C-TATGGTCTGTCTGTCGGCTTTGACCTTGGAGACTTCTTCCTCTTTAAGTGTGTCTGTC-GACT
1 CTTA-AGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCC-CCTTAAGTCTGCCTGTCAG-CT
* * *
172557 TTGACCCTAGAGACTTTTTTCCC
63 TTGACCTTAGAGACTTCTTCCCC
* * * * * * * *
172580 TTTAAATCTACTTGTTGGCTTTGACCCTGGAGACTTCTTCTCTCTTAAGTCTGCCTATCAGCTTT
1 CTTAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTC-CCCTTAAGTCTGCCTGTCAGCTTT
* * * *
172645 GACCCTAAAGACTTCTTCACT
65 GACCTTAGAGACTTCTTCCCC
* ** * * * **
172666 CTTAAGTCTACCTG-CTGGTTTTGACCTTGGAGACTT-TTCCCCCTTCAAGTCTACATGTTGGCT
1 CTTAAGTCTGCCTGTC-GACTTTGACCCTGGAGACTTCTT-CCCCTT-AAGTCTGCCTGTCAGCT
* *
172729 TTGACCTTGGCA-ACTTCCTCCACC
63 TTGACCTTAG-AGACTTCTTCC-CC
* * * * * * * * *
172753 CTCAAGTCTGCTTGTCAATTTTGACCCTAGAGACTTCTTCCCCATTTAGTGTGTCTGTCGGCTTT
1 CTTAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCCCC-TTAAGTCTGCCTGTCAGCTTT
* * * *
172818 AACCTTGGAGACTT-TTGCGCT
65 GACCTTAGAGACTTCTT-CCCC
* * * ** * * *
172839 CTTAAGTCTGCCTGTCGACTTTGATCTTGGAGATTTCTTCGCATTTAAGTCTTCTTGTTAGCTTT
1 CTTAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTC-CCCTTAAGTCTGCCTGTCAGCTTT
*
172904 GACCTTGGAGACTTCTTCCCC
65 GACCTTAGAGACTTCTTCCCC
* *** * *
172925 CTTAAGTCTGCCTGTCGACTTTGACCCTAGAGACTTCTTCTATTTTAAGTCTACTTGTCAGCTTT
1 CTTAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTC-CCCTTAAGTCTGCCTGTCAGCTTT
* *
172990 GACCCTAGAGACTTCTTCCCT
65 GACCTTAGAGACTTCTTCCCC
* * * * * ** * * * *
173011 CTCAAGTCTACTTGTCGGCTTTGACCTTGGAGACTTCTTCCTTTTTAAGTATGTCTATCAACTTT
1 CTTAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCC-CCTTAAGTCTGCCTGTCAGCTTT
*
173076 GACCTTAGAGACTT-TTTCCC
65 GACCTTAGAGACTTCTTCCCC
* * * * * * * *
173096 CTTAAGTCTGCTTGT-TAGCTTTAACCTTGGAGACTTCTTCCCCCTTAAGTTTGCTTATC-GATT
1 CTTAAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTT-CCCCTTAAGTCTGCCTGTCAG-CT
* * *
173159 TTGACCCTGGAGACTTTTTCCCC
63 TTGACCTTAGAGACTTCTTCCCC
* *
173182 CTTAAGTCTGCCTGTC-AGCTTTGACCCTGGAGACTTTTTCCCCCTTAAGTCTGCTTGTTC-GCT
1 CTTAAGTCTGCCTGTCGA-CTTTGACCCTGGAGACTTCTT-CCCCTTAAGTCTGCCTG-TCAGCT
* * * *
173245 TTGACCTTGGAGACTTTTTTCCT
63 TTGACCTTAGAGACTTCTTCCCC
* * * * *
173268 CTTTAGACTGCCTGTTGACTTTGACCCTGGAGACTTCTTCGCCCTTAAGTCTGTCTGTCGGCTTT
1 CTTAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTC-CCCTTAAGTCTGCCTGTCAGCTTT
* *
173333 GACCCTAGAGACTTCTTCGCC
65 GACCTTAGAGACTTCTTCCCC
* * * * *
173354 TTTAAGTCTACCTATCGGA-TTTGACCTTGGAGACTTCTTCCCCCTTAAGTCTGCCTATCAGCTT
1 CTTAAGTCTGCCTGTC-GACTTTGACCCTGGAGACTTCTT-CCCCTTAAGTCTGCCTGTCAGCTT
* * *
173418 TGACCTTAGAAACTTTTTCACC
64 TGACCTTAGAGACTTCTTCCCC
* * * * * * * *
173440 CTTAAGTCTGTCTATCGGCTTTGACCCTAGAGACTTTTTCCCCTTAAGTCTGTCTATCAGTTTTG
1 CTTAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCCCCTTAAGTCTGCCTGTCAGCTTTG
* * *
173505 ACCTTGGAGATTTCTTCTCC
66 ACCTTAGAGACTTCTTCCCC
* * * * * * * * *
173525 CTTCAGTTTGCCTATCGGCTTTGACCCTAGAGACTTCTTCGCCTTTAAGTCTACTTGTCAACTTT
1 CTTAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTC-CCCTTAAGTCTGCCTGTCAGCTTT
* *
173590 GACCCTAGAGACTTTCTTCACC
65 GACCTTAGAGAC-TTCTTCCCC
* * * * * * *
173612 CTTAAGTCTACCTGTCGGCTTTAATCC-GAGAGACTTCTTTACCCTTTA-TCTGCCTGTCGGCTT
1 CTTAAGTCTGCCTGTCGACTTTGACCCTG-GAGACTTC-TTCCCCTTAAGTCTGCCTGTCAGCTT
** *
173675 TGACCCGAAAGACTTCTTC
64 TGACCTTAGAGACTTCTTC
173694 ATCCATCGTC
Statistics
Matches: 1101, Mismatches: 231, Indels: 78
0.78 0.16 0.06
Matches are distributed among these distances:
84 6 0.01
85 281 0.26
86 690 0.63
87 117 0.11
88 7 0.01
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (85 bp):
CTTAAGTCTGCCTGTCGACTTTGACCCTGGAGACTTCTTCCCCTTAAGTCTGCCTGTCAGCTTTG
ACCTTAGAGACTTCTTCCCC
Found at i:172487 original size:129 final size:128
Alignment explanation
Indices: 172238--173693 Score: 1152
Period size: 129 Copynumber: 11.3 Consensus size: 128
172228 ATATTTTAAT
* * * * * *
172238 CTTAAGT-TCGCCTGTCGGCTTTAACCATAGAGACTTCTTCTCCTTTAAGTCTATTTGTC-AGCT
1 CTTAAGTCT-GCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTCTGTCGA-CT
* * * * *
172301 TTGACCCTA-AGACTTCTTCCCCCTTAAGTCTGTCTGTCGACTTTGACCCTAGAGACTTCTTCAC
64 TTGACCCTAGAGACTT-TTTCCCCTTAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTCTTCTC
172365 C
128 C
* * * * *
172366 CTCAAGTCTACCTGTCGGCTTTGACCTTAGAGACTTCTTCCCCCTTAAGTCTGCCTGTCGACGTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTCTGTCGACTTT
* * ** *
172431 GACCTTGGAGACTTCTTTCCTTTTAAGTCTGCCTGTCGATTTTGACCTTGGAGACTT-TTCTCC
66 GACCCTAGAGACTT-TTTCCCCTTAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTCTTCTCC
* * * * * * *
172494 C-TATGGTCTGTCTGTCGGCTTTGACCTTGGAGACTTCTTCCTCTTTAAGTGTGTCTGTCGACTT
1 CTTA-AGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTCTGTCGACTT
* * * * * * * *
172558 TGACCCTAGAGACTTTTTTCCCTTTAAATCTACTTGTTGGCTTTGACCCTGGAGACTTCTTCTCT
65 TGACCCTAGAGAC-TTTTTCCCCTTAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTCTTCTCC
* * * * * ** **
172623 CTTAAGTCTGCCTATCAGCTTTGACCCTAAAGACTTCTTCACTCTTAAGTCTACCTG-CTGGTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTCTGTC-GACTT
* * * * * * * * *
172687 TGACCTTGGAGACTTTTCCCCCTTCAAGTCTACATGTTGGCTTTGACCTTGGCA-ACTTCCTCCA
65 TGACCCTAGAGACTTTTTCCCCTT-AAGTCTGCCTGTCGACTTTGACCTTGG-AGACTT-CTTCT
172751 CC
127 CC
* * *** * * * *
172753 CTCAAGTCTGCTTGTCAATTTTGACCCTAGAGACTTCTTCCCCATTTAGTGTGTCTGTCGGCTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTCTGTCGACTTT
* * * * * * * * *
172818 AACCTTGGAGACTTTTGCGCTCTTAAGTCTGCCTGTCGACTTTGATCTTGGAGATTTCTTCGCA
66 GACCCTAGAGACTTTTTC-CCCTTAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTCTTCTCC
* * * ** * * *
172882 TTTAAGTCTTCTTGTTAGCTTTGACCTTGGAGACTTCTTCCCCCTTAAGTCTGCCTGTCGACTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTCTGTCGACTTT
* *** * * * *
172947 GACCCTAGAGACTTCTTCTATTTTAAGTCTACTTGTC-AGCTTTGACCCTAGAGACTTCTTC-CC
66 GACCCTAGAGACTTTTTC-CCCTTAAGTCTGCCTGTCGA-CTTTGACCTTGGAGACTTCTTCTCC
* * * * * *** * * *
173010 TCTCAAGTCTACTTGTCGGCTTTGACCTTGGAGACTTCTTCCTTTTTAAGTATGTCTATCAACTT
1 -CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTCTGTCGACTT
* * * * *
173075 TGACCTTAGAGACTTTTTCCCCTTAAGTCTGCTTGT-TAGCTTTAACCTTGGAGACTTCTTCCCC
65 TGACCCTAGAGACTTTTTCCCCTTAAGTCTGCCTGTCGA-CTTTGACCTTGGAGACTTCTTCTCC
* * * ** * * *
173139 CTTAAGTTTGCTTATCGATTTTGACCCTGGAGACTTTTTCCCCCTTAAGTCTGCCTGTC-AGCTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTCTGTCGA-CTT
* * *
173203 TGACCCTGGAGACTTTTTCCCCCTTAAGTCTGCTTGTTCG-CTTTGACCTTGGAGACTT-TTTTC
65 TGACCCTAGAGACTTTTT-CCCCTTAAGTCTGCCTG-TCGACTTTGACCTTGGAGACTTCTTCTC
173266 C
128 C
* * * * * * *
173267 TCTTTAGACTGCCTGTTGACTTTGACCCTGGAGACTTCTTCGCCCTTAAGTCTGTCTGTCGGCTT
1 -CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTCTGTCGACTT
* * * * *
173332 TGACCCTAGAGACTTCTTCGCCTTTAAGTCTACCTATCGGA-TTTGACCTTGGAGACTTCTTCCC
65 TGACCCTAGAGACTTTTTC-CCCTTAAGTCTGCCTGTC-GACTTTGACCTTGGAGACTTCTTCTC
173396 C
128 C
* * * * * * * *
173397 CTTAAGTCTGCCTATCAGCTTTGACCTTAGAAACTTTTTCACCCTTAAGTCTGTCTATCGGCTTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTCTGTCGACTTT
* * * *
173462 GACCCTAGAGACTTTTTCCCCTTAAGTCTGTCTATC-AGTTTTGACCTTGGAGATTTCTTCTCC
66 GACCCTAGAGACTTTTTCCCCTTAAGTCTGCCTGTCGA-CTTTGACCTTGGAGACTTCTTCTCC
* * * * * * *
173525 CTTCAGTTTGCCTATCGGCTTTGACCCTAGAGACTTCTTCGCCTTTAAGTCT-ACTTGTCAACTT
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTC-TGTCGACTT
* * *
173589 TGACCCTAGAGACTTTCTTCACCCTTAAGTCTACCTGTCGGCTTTAATCC--GAGAGACTTCTT-
65 TGACCCTAGAGACTTT-TTC-CCCTTAAGTCTGCCTGTCGACTTTGA-CCTTG-GAGACTTCTTC
173651 TACC
126 T-CC
* * *
173655 CTTTA-TCTGCCTGTCGGCTTTGACCCGAAAGACTTCTTC
1 CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTC
173694 ATCCATCGTC
Statistics
Matches: 1068, Mismatches: 223, Indels: 73
0.78 0.16 0.05
Matches are distributed among these distances:
126 1 0.00
127 3 0.00
128 378 0.35
129 543 0.51
130 136 0.13
131 7 0.01
ACGTcount: A:0.17, C:0.28, G:0.17, T:0.38
Consensus pattern (128 bp):
CTTAAGTCTGCCTGTCGGCTTTGACCCTAGAGACTTCTTCCCCCTTAAGTCTGTCTGTCGACTTT
GACCCTAGAGACTTTTTCCCCTTAAGTCTGCCTGTCGACTTTGACCTTGGAGACTTCTTCTCC
Found at i:173706 original size:42 final size:42
Alignment explanation
Indices: 173275--173836 Score: 174
Period size: 43 Copynumber: 13.1 Consensus size: 42
173265 CCTCTTTAGA
* ** *
173275 CTGCCTGTTGACTTTGACCCTG-GAGACTTCTTCGCCCTTAAGT
1 CTGCCTGTCGACTTTGACCC-GAGAGACTTCTTCATCCTT-CGT
* * * * *
173318 CTGTCTGTCGGCTTTGACCCTAGAGACTTCTTC-GCCTTTAAGT
1 CTGCCTGTCGACTTTGACCCGAGAGACTTCTTCATCC-TT-CGT
* * * ** *
173361 CTACCTATCGGA-TTTGACCTTG-GAGACTTCTTCCCCCTTAAGT
1 CTGCCTGTC-GACTTTGACC-CGAGAGACTTCTTCATCCTT-CGT
* ** * * * *
173404 CTGCCTATC-AGCTTTGACCTTAGAAACTTTTTCACCCTTAAGT
1 CTGCCTGTCGA-CTTTGACCCGAGAGACTTCTTCATCCTT-CGT
* * * * * * *
173447 CTGTCTATCGGCTTTGACCCTAGAGACTTTTTC-CCCTTAAGT
1 CTGCCTGTCGACTTTGACCCGAGAGACTTCTTCATCCTT-CGT
* * * * *
173489 CTGTCTATC-AGTTTTGACCTTG-GAGATTTCTTC-TCCCTTCAGT
1 CTGCCTGTCGA-CTTTGACC-CGAGAGACTTCTTCAT-CCTTC-GT
* * * * * *
173532 TTGCCTATCGGCTTTGACCCTAGAGACTTCTTC-GCCTTTAAGT
1 CTGCCTGTCGACTTTGACCCGAGAGACTTCTTCATCC-TT-CGT
* * * * * *
173575 CTACTTGTCAACTTTGACCCTAGAGACTTTCTTCACCCTTAAGT
1 CTGCCTGTCGACTTTGACCCGAGAGAC-TTCTTCATCCTT-CGT
* * * * * * **
173619 CTACCTGTCGGCTTTAATCCGAGAGACTTCTTTACCCTTTAT
1 CTGCCTGTCGACTTTGACCCGAGAGACTTCTTCATCCTTCGT
* * *
173661 CTGCCTGTCGGCTTTGACCCGAAAGACTTCTTCATCCATCGT
1 CTGCCTGTCGACTTTGACCCGAGAGACTTCTTCATCCTTCGT
* * ** * * * *
173703 CTGCCCGTCGCCTCAGACCTGGGAGAC-TCTTTCATCTTTTGT
1 CTGCCTGTCGACTTTGACCCGAGAGACTTC-TTCATCCTTCGT
* * ** * * * *
173745 TTGCCTGTCAACTCAGACCCAAGAGACTTTTTTTTATCTTTCGT
1 CTGCCTGTCGACTTTGACCCGAGAGAC--TTCTTCATCCTTCGT
* * *
173789 CTGCCTGTCGACTTTGACCTGGGAGACTTCTTCATCCATCGT
1 CTGCCTGTCGACTTTGACCCGAGAGACTTCTTCATCCTTCGT
173831 CTGCCT
1 CTGCCT
173837 ATCAACTCAG
Statistics
Matches: 402, Mismatches: 94, Indels: 47
0.74 0.17 0.09
Matches are distributed among these distances:
41 3 0.01
42 139 0.35
43 191 0.48
44 66 0.16
45 3 0.01
ACGTcount: A:0.17, C:0.29, G:0.17, T:0.37
Consensus pattern (42 bp):
CTGCCTGTCGACTTTGACCCGAGAGACTTCTTCATCCTTCGT
Found at i:173814 original size:86 final size:86
Alignment explanation
Indices: 173699--173863 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 86
173689 TCTTCATCCA
* ** * * *
173699 TCGTCTGCCCGTCGCCTCAGACCTGGGAGAC-TCTTTCATCTTTTGTTTGCCTGTCAACTCAGAC
1 TCGTCTGCCCGTCGACTCAGACCTGGGAGACTTC-TTCATCCATCGTCTGCCTATCAACTCAGAC
173763 CCAAGAGACTTTTTTTTATCTT
65 CCAAGAGACTTTTTTTTATCTT
* ** *
173785 TCGTCTGCCTGTCGACTTTGACCTGGGAGACTTCTTCATCCATCGTCTGCCTATCAACTCAGACT
1 TCGTCTGCCCGTCGACTCAGACCTGGGAGACTTCTTCATCCATCGTCTGCCTATCAACTCAGACC
**
173850 CGGGAGACTTTTTT
66 CAAGAGACTTTTTT
173864 ATCAATCGTC
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
86 64 0.97
87 2 0.03
ACGTcount: A:0.16, C:0.29, G:0.19, T:0.36
Consensus pattern (86 bp):
TCGTCTGCCCGTCGACTCAGACCTGGGAGACTTCTTCATCCATCGTCTGCCTATCAACTCAGACC
CAAGAGACTTTTTTTTATCTT
Found at i:173855 original size:42 final size:41
Alignment explanation
Indices: 173684--174012 Score: 149
Period size: 42 Copynumber: 7.8 Consensus size: 41
173674 TTGACCCGAA
* *
173684 AGACTTCTTCATCCATCGTCTGCCCGTCGCCTCAGACCTGGG
1 AGACTTCTTCATCCATCGTCTGCCTGTCGACTCAGACC-GGG
** * * * **
173726 AGAC-TCTTTCATCTTTTGTTTGCCTGTCAACTCAGACCCAAG
1 AGACTTC-TTCATCCATCGTCTGCCTGTCGACTCAGA-CCGGG
* * ** **
173768 AGACTTTTTTTTATCTTTCGTCTGCCTGTCGACTTTGACCTGGG
1 AGAC--TTCTTCATCCATCGTCTGCCTGTCGACTCAGACC-GGG
* *
173812 AGACTTCTTCATCCATCGTCTGCCTATCAACTCAGACTCGGG
1 AGACTTCTTCATCCATCGTCTGCCTGTCGACTCAGAC-CGGG
* * * * * *
173854 AGACTTTTTTATCAATCGTCT-ACTCATCGACTCAGACTCGAG
1 AGACTTCTTCATCCATCGTCTGCCT-GTCGACTCAGAC-CGGG
* * ** * * * * *
173896 AGACTTTTTCAACCATTATCTACCCGTCGGCTCAAACTCGAG
1 AGACTTCTTCATCCATCGTCTGCCTGTCGACTCAGAC-CGGG
* * * * * * * * **
173938 AGATTTTTTTATCAATCATCTGCCCGTTGACTTAGACCTAG
1 AGACTTCTTCATCCATCGTCTGCCTGTCGACTCAGACCGGG
* * *
173979 AGACTGCTTCATCCATCGTTTGCTTGTCGACTCA
1 AGACTTCTTCATCCATCGTCTGCCTGTCGACTCA
174013 AAACTGTGAG
Statistics
Matches: 214, Mismatches: 64, Indels: 19
0.72 0.22 0.06
Matches are distributed among these distances:
41 30 0.14
42 149 0.70
43 6 0.03
44 28 0.13
45 1 0.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (41 bp):
AGACTTCTTCATCCATCGTCTGCCTGTCGACTCAGACCGGG
Found at i:173888 original size:128 final size:128
Alignment explanation
Indices: 173660--173904 Score: 287
Period size: 128 Copynumber: 1.9 Consensus size: 128
173650 TTACCCTTTA
* * **
173660 TCTGCCTGTCGGCTTTGACCCGAAAGACTTCTTCATCCATCGTCTGCCCGTCGCCTCAGACCTGG
1 TCTGCCTGTCGACTTTGACCCGAAAGACTTCTTCATCCATCGTCTGCCCATCAACTCAGACCTGG
** * * * *
173725 GAGACTCTTTCATCTTTTGTTTGCCTGTCAACTCAGACCCAAGAGACTTTTTTTTATCTTTCG
66 GAGACTCTTTCATCAATCGTCTACCTATCAACTCAGACCCAAGAGACTTTTTTTTATCTTTCG
* ** *
173788 TCTGCCTGTCGACTTTGACCTGGGAGACTTCTTCATCCATCGTCTGCCTATCAACTCAGA-CTCG
1 TCTGCCTGTCGACTTTGACCCGAAAGACTTCTTCATCCATCGTCTGCCCATCAACTCAGACCT-G
* * * * *
173852 GGAGACTTTTTTATCAATCGTCTA-CTCATCGACTCAGACTCGAGAGACTTTTT
65 GGAGACTCTTTCATCAATCGTCTACCT-ATCAACTCAGACCCAAGAGACTTTTT
173905 CAACCATTAT
Statistics
Matches: 96, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
127 4 0.04
128 92 0.96
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.34
Consensus pattern (128 bp):
TCTGCCTGTCGACTTTGACCCGAAAGACTTCTTCATCCATCGTCTGCCCATCAACTCAGACCTGG
GAGACTCTTTCATCAATCGTCTACCTATCAACTCAGACCCAAGAGACTTTTTTTTATCTTTCG
Found at i:174108 original size:42 final size:43
Alignment explanation
Indices: 173684--174156 Score: 145
Period size: 42 Copynumber: 11.2 Consensus size: 43
173674 TTGACCCGAA
* * * * * *
173684 AGACTTCTTC-ATCCATCGTCTGCCCGTCGCCTCAGACCTGGG
1 AGACTTTTTCTATCAATCGTCTGCCTGTCGGCTCAGAACTAGG
* ** * * ** * * *
173726 AGACTCTTTC-ATCTTTTGTTTGCCTGTCAACTCAGACCCAAG
1 AGACTTTTTCTATCAATCGTCTGCCTGTCGGCTCAGAACTAGG
* ** * ** * *
173768 AGACTTTTTTTTATCTTTCGTCTGCCTGTCGACTTTGACCTGGG
1 AGAC-TTTTTCTATCAATCGTCTGCCTGTCGGCTCAGAACTAGG
* * * ** *
173812 AGACTTCTTC-ATCCATCGTCTGCCTATCAACTCAG-ACTCGGG
1 AGACTTTTTCTATCAATCGTCTGCCTGTCGGCTCAGAACT-AGG
* * * *
173854 AGACTTTTT-TATCAATCGTCT-ACTCATCGACTCAG-ACTCGAG
1 AGACTTTTTCTATCAATCGTCTGCCT-GTCGGCTCAGAACTAG-G
* * ** * * *
173896 AGACTTTTTC-AACCATTATCTACCCGTCGGCTCA-AACTCGAG
1 AGACTTTTTCTATCAATCGTCTGCCTGTCGGCTCAGAACTAG-G
* * * * * * *
173938 AGA-TTTTTTTATCAATCATCTGCCCGTTGACTTAGACCTA-G
1 AGACTTTTTCTATCAATCGTCTGCCTGTCGGCTCAGAACTAGG
** * * * * *
173979 AGACTGCTTC-ATCCATCGTTTGCTTGTCGACTCAAAACT-GTG
1 AGACTTTTTCTATCAATCGTCTGCCTGTCGGCTCAGAACTAG-G
* * * * * *
174021 AGACATTTT-TATCAATTGTTTGCCTATCGGC-CATAACCCCA-G
1 AGACTTTTTCTATCAATCGTCTGCCTGTCGGCTCAGAA--CTAGG
* ** *
174063 AGACTTTTTCTA-CAATCGTTTGCCTGTCGGCTCAGATTTCGG
1 AGACTTTTTCTATCAATCGTCTGCCTGTCGGCTCAGAACTAGG
* *
174105 AGACTTCTT-TATCAATCGTCTGCTTGTCGGCTCAGAACTAGG
1 AGACTTTTTCTATCAATCGTCTGCCTGTCGGCTCAGAACTAGG
174147 AGACTTTTTC
1 AGACTTTTTC
174157 ATTTTTCGTC
Statistics
Matches: 317, Mismatches: 91, Indels: 45
0.70 0.20 0.10
Matches are distributed among these distances:
41 40 0.13
42 231 0.73
43 18 0.06
44 28 0.09
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.34
Consensus pattern (43 bp):
AGACTTTTTCTATCAATCGTCTGCCTGTCGGCTCAGAACTAGG
Found at i:174320 original size:43 final size:43
Alignment explanation
Indices: 174230--174327 Score: 110
Period size: 43 Copynumber: 2.3 Consensus size: 43
174220 CTAAGACGCG
* * * *
174230 AAAGAC-TTCTTCATCCATTGTATGCCTATCAGCTTAGTCACA
1 AAAGACTTTCTTCAACCATTGTATGCCCATCAGCTCAGACACA
* * *
174272 AAAGACTTTTTTCAACCATTGTCTGCCCATCAGCTCAGACCCA
1 AAAGACTTTCTTCAACCATTGTATGCCCATCAGCTCAGACACA
*
174315 GAAGAC-TTCTTCA
1 AAAGACTTTCTTCA
174328 TCTCTTTAGT
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
42 12 0.26
43 34 0.74
ACGTcount: A:0.29, C:0.29, G:0.12, T:0.31
Consensus pattern (43 bp):
AAAGACTTTCTTCAACCATTGTATGCCCATCAGCTCAGACACA
Found at i:174489 original size:84 final size:84
Alignment explanation
Indices: 174364--174550 Score: 243
Period size: 84 Copynumber: 2.2 Consensus size: 84
174354 CTTGGGACAT
* *
174364 AACCTTCATCCATTG-TTACTTGTCAGTTTAGTCCCCGGTAAACCCATTACCCTCGCAGTGACCT
1 AACCTTCATCCATTGTTTACTTGTCAGCTTAGTCCCCGGTAAACCCATTACCCTCACAGTGACCT
*
174428 ATCAGCTCAGTCTCTAG-TC
66 ATCAGCTCAATCTC-AGATC
* * * * * ** *
174447 AACCTTTATCCATTGTTTACTTGTCGGCTTAGTCCTCGGTAAACCCATTACCTTTATGGTGATCT
1 AACCTTCATCCATTGTTTACTTGTCAGCTTAGTCCCCGGTAAACCCATTACCCTCACAGTGACCT
*
174512 ATCAGCTCAATCTCCGATC
66 ATCAGCTCAATCTCAGATC
174531 AACCTTCATCCATTGTTTAC
1 AACCTTCATCCATTGTTTAC
174551 CTATTGGCCT
Statistics
Matches: 89, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
83 15 0.17
84 74 0.83
ACGTcount: A:0.22, C:0.30, G:0.13, T:0.35
Consensus pattern (84 bp):
AACCTTCATCCATTGTTTACTTGTCAGCTTAGTCCCCGGTAAACCCATTACCCTCACAGTGACCT
ATCAGCTCAATCTCAGATC
Found at i:174570 original size:84 final size:83
Alignment explanation
Indices: 174421--174620 Score: 224
Period size: 84 Copynumber: 2.4 Consensus size: 83
174411 TACCCTCGCA
* * * * * *
174421 GTGACCTATCAGCTCAGTCT-CTAGTCAACCTTTATCCATTGTTTACTTGTCGGCTTAGTCCTCG
1 GTGA-CTATCAGCTCAGTCTCCGA-TCAACCTTCATCCATTGTTTACCTATCGGCCTAATCCTCG
174485 GTAAACCCATTA-CCTTTATG
64 GTAAACCCATTATCC-TTATG
* * *
174505 GTGATCTATCAGCTCAATCTCCGATCAACCTTCATCCATTGTTTACCTATTGGCCTAATCTTCGG
1 GTGA-CTATCAGCTCAGTCTCCGATCAACCTTCATCCATTGTTTACCTATCGGCCTAATCCTCGG
*
174570 TAAGCCCATTATCCTTATG
65 TAAACCCATTATCCTTATG
* * *
174589 CTGACTTGTCAACTCAGTCTCCGATCAACCTT
1 GTGAC-TATCAGCTCAGTCTCCGATCAACCTT
174621 TATCATTCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
83 1 0.01
84 93 0.95
85 4 0.04
ACGTcount: A:0.21, C:0.29, G:0.14, T:0.35
Consensus pattern (83 bp):
GTGACTATCAGCTCAGTCTCCGATCAACCTTCATCCATTGTTTACCTATCGGCCTAATCCTCGGT
AAACCCATTATCCTTATG
Found at i:174642 original size:84 final size:84
Alignment explanation
Indices: 174482--174642 Score: 193
Period size: 84 Copynumber: 1.9 Consensus size: 84
174472 GGCTTAGTCC
* * *
174482 TCGGTAAACCCATTACCTTTATGGTGATCTATCAGCTCAATCTCCGATCAACCTTCATCCATTGT
1 TCGGTAAACCCATTACCTTTATGCTGATCTATCAACTCAATCTCCGATCAACCTTCATCCATTAT
*
174547 TTACCTATTGGCCTAATCT
66 TCACCTATTGGCCTAATCT
* * * *
174566 TCGGTAAGCCCATTATCC-TTATGCTGA-CTTGTCAACTCAGTCTCCGATCAACCTTTAT-CATT
1 TCGGTAAACCCATTA-CCTTTATGCTGATC-TATCAACTCAATCTCCGATCAACCTTCATCCATT
*
174628 CATTCACCTGTTGGC
64 -ATTCACCTATTGGC
174643 TTGGTCCAGA
Statistics
Matches: 65, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
83 5 0.08
84 58 0.89
85 2 0.03
ACGTcount: A:0.22, C:0.29, G:0.13, T:0.35
Consensus pattern (84 bp):
TCGGTAAACCCATTACCTTTATGCTGATCTATCAACTCAATCTCCGATCAACCTTCATCCATTAT
TCACCTATTGGCCTAATCT
Found at i:174833 original size:42 final size:42
Alignment explanation
Indices: 174722--174833 Score: 109
Period size: 41 Copynumber: 2.7 Consensus size: 42
174712 TGTTTCCCAC
* * * * *
174722 CGGCCTAGTCCCGGGTAAATCCTTTATCCCTCATTGACTTGT
1 CGGCTTAGTCCCGAGTAAATCTTTTATCCATCATTGACCTGT
* * * * * *
174764 CAGTTTAGTCCCGATTAACT-TTTTATCCATCGTTTACCTGT
1 CGGCTTAGTCCCGAGTAAATCTTTTATCCATCATTGACCTGT
*
174805 CGGCTTAGTCCCAAGTAAATCTTTTATCC
1 CGGCTTAGTCCCGAGTAAATCTTTTATCC
174834 TATGTTGACT
Statistics
Matches: 53, Mismatches: 16, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
41 31 0.58
42 22 0.42
ACGTcount: A:0.20, C:0.28, G:0.15, T:0.38
Consensus pattern (42 bp):
CGGCTTAGTCCCGAGTAAATCTTTTATCCATCATTGACCTGT
Found at i:174848 original size:42 final size:41
Alignment explanation
Indices: 174744--174848 Score: 104
Period size: 41 Copynumber: 2.5 Consensus size: 41
174734 GGGTAAATCC
* * * * * * *
174744 TTTATCCCTCATTGACTTGTCAGTTTAGTCCCGATTAACTT
1 TTTATCCATCGTTGACTTGTCGGCTTAGTCCCAAGTAAATT
* *
174785 TTTATCCATCGTTTACCTGTCGGCTTAGTCCCAAGTAAATCT
1 TTTATCCATCGTTGACTTGTCGGCTTAGTCCCAAGTAAAT-T
174827 TTTATCCTAT-GTTGACTTGTCG
1 TTTATCC-ATCGTTGACTTGTCG
174849 ATTCGATCCC
Statistics
Matches: 51, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
41 31 0.61
42 18 0.35
43 2 0.04
ACGTcount: A:0.19, C:0.24, G:0.14, T:0.43
Consensus pattern (41 bp):
TTTATCCATCGTTGACTTGTCGGCTTAGTCCCAAGTAAATT
Found at i:175748 original size:20 final size:19
Alignment explanation
Indices: 175694--175749 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 19
175684 AAAACCCTTA
*
175694 AAAGTATCGATACACAGTTC
1 AAAGTATCGATACA-TGTTC
175714 AAAGTATCGATACATGTTGC
1 AAAGTATCGATACATGTT-C
*
175734 AATGTATCGATACATG
1 AAAGTATCGATACATG
175750 AAAAAGATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 3 0.09
20 30 0.91
ACGTcount: A:0.38, C:0.16, G:0.18, T:0.29
Consensus pattern (19 bp):
AAAGTATCGATACATGTTC
Found at i:178061 original size:21 final size:21
Alignment explanation
Indices: 178028--178077 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
178018 TTGCAAGTTG
*
178028 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
178050 AAATAATG-AGTTAGCTAAGAA
1 AAATAAAGAAGTTAGCTAAG-A
178071 AAATAAA
1 AAATAAA
178078 AACTTGAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 16 0.67
22 7 0.29
ACGTcount: A:0.56, C:0.04, G:0.18, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:181991 original size:13 final size:13
Alignment explanation
Indices: 181973--182010 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
181963 CATTTTTCTT
181973 TGTATCGATACAA
1 TGTATCGATACAA
*
181986 TGTATCGATACAC
1 TGTATCGATACAA
181999 TGTATCGATACA
1 TGTATCGATACA
182011 GGGGGATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:185869 original size:165 final size:163
Alignment explanation
Indices: 185597--186156 Score: 666
Period size: 165 Copynumber: 3.4 Consensus size: 163
185587 TTCAAGCATC
* * * *
185597 AAAATTCATCAAATATTATCATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATCAAACATTATTATTTATTTCACATTAATTCAGTTTTCAAAAATTCATTCATTTTCA
* * * *
185662 TGAGCTTTTGATTTTTCCTTGAAACTTT-TATTTTTCTAAAATACGGTATTTTCTACTCCGTAAA
66 TGA--TTTTGTTTTTTCTTTGAAACTTTCTATTTTTCTAAAATACGGTGTTTTCTACTCCATAAA
185726 TTTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTT
129 TTTTTTCGAG-GGATTTTTCTTGGTTTTCAATTTTT
* * *
185762 AAAATTCATCAAAAATAATTATTT-TTTCACATTAATTCAGTTTTTAAAAATTCATTCATTTTCA
1 AAAATTCATCAAACATTATTATTTATTTCACATTAATTCAGTTTTCAAAAATTCATTCATTTTCA
*
185826 TTCATTTTTGGTTTTTTCTTTGAAACTTTCT-TTTTTCTAAAATACGGTGTTTTCTACTCCATAA
66 -TGA-TTTT-GTTTTTTCTTTGAAACTTTCTATTTTTCTAAAATACGGTGTTTTCTACTCCATAA
*
185890 ATTTTTAT-GAGGGGATTTTTCTTGGTTTTTAATTTTT
128 ATTTTT-TCGA-GGGATTTTTCTTGGTTTTCAATTTTT
* *
185927 TAAATTCATCAAAC-TTCATTATTTATTTCACATTAATTCTGTTTTCAAAAATTCATTCA-TTT-
1 AAAATTCATCAAACATT-ATTATTTATTTCACATTAATTCAGTTTTCAAAAATTCATTCATTTTC
* * *
185989 -T--TTAT-TTTTTTCTTTGAAAC-TCCTATTTTTCCT-AAATACGGTGTTTTCTACTCCATATA
65 ATGATTTTGTTTTTTCTTTGAAACTTTCTATTTTT-CTAAAATACGGTGTTTTCTACTCCATAAA
* *
186048 -TTTTTCGAGGAGATTTTTTTTAGTTTTCAATTTTT
129 TTTTTTCGAGG-GATTTTTCTTGGTTTTCAATTTTT
* * * *
186083 AGAATTCATCAAACATTATTATTTGA-TTCATATTCATTCAGTTTTAAAAAATT-AGTTCATTTT
1 AAAATTCATCAAACATTATTATTT-ATTTCACATTAATTCAGTTTTCAAAAATTCA-TTCATTTT
186146 CATGAGTTTTG
64 CATGA-TTTTG
186157 GATTTTTTTG
Statistics
Matches: 343, Mismatches: 31, Indels: 44
0.82 0.07 0.11
Matches are distributed among these distances:
155 4 0.01
156 76 0.22
157 51 0.15
158 2 0.01
159 4 0.01
162 4 0.01
164 42 0.12
165 125 0.36
166 35 0.10
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (163 bp):
AAAATTCATCAAACATTATTATTTATTTCACATTAATTCAGTTTTCAAAAATTCATTCATTTTCA
TGATTTTGTTTTTTCTTTGAAACTTTCTATTTTTCTAAAATACGGTGTTTTCTACTCCATAAATT
TTTTCGAGGGATTTTTCTTGGTTTTCAATTTTT
Found at i:186247 original size:321 final size:325
Alignment explanation
Indices: 185597--186263 Score: 761
Period size: 322 Copynumber: 2.0 Consensus size: 325
185587 TTCAAGCATC
* *
185597 AAAATTCATCAAATATTATCATTTATTTCATATTAAATCAGTTTTCAAAAATTCATTCATTTTCA
1 AAAATTCATCAAATATCATCATTTATTTCACATTAAATCAGTTTTCAAAAATTCATTCATTTT-A
* ** *
185662 TGAGCTTTTGATTTTTCCTTGAAACTTTTATTTTTCTAAAATACGGTATTTTCTACTCCGTAAAT
65 T--G-TATT-ATTTTTCCTTGAAACTCCTATTTTTCTAAAATACGGTATTTTCTACTCCATAAAT
* *
185727 TTTTTCGAGAGGATTTTTCTTGGTTTTCAATTTTTAAAATTCATCAAAAATAATTATTTTTTCAC
126 TTTTTCGAGAGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAAAATAATTATTTATTCAC
* * *
185792 ATTAATTCAGTTTTTAAAAATTCATTCATTTTCATTCATTTTTGGTTTTTTCTTTGAAACTTTCT
191 ATTAATTCAGTTTTAAAAAATTCATTCATTTTCATTCAGTTTTGGTTTTTTCTATGAAACTTTCT
* * * * **
185857 TTTTTCTAAAATACGGTGTTTTCTACTCCATAAATTTTTATGAGGGGATTTTTCTTGGTTTTTAA
256 TTTTTCTAAAATACCGAGTTTTCTACCCCATAAATTTTTATGAGGGGATTTTTCTTCGTTTAAAA
185922 TTTTT
321 TTTTT
* * * *
185927 TAAATTCATCAAACT-TCATTATTTATTTCACATTAATTCTGTTTTCAAAAATTCATTCATTTT-
1 AAAATTCATCAAA-TATCATCATTTATTTCACATTAAATCAGTTTTCAAAAATTCATTCATTTTA
* * *
185990 T-TATT-TTTTTCTTTGAAACTCCTATTTTTCCT-AAATACGGTGTTTTCTACTCCATATA-TTT
65 TGTATTATTTTTCCTTGAAACTCCTATTTTT-CTAAAATACGGTATTTTCTACTCCATAAATTTT
* * * * *
186051 TTCGAG-GAGATTTTTTTTAGTTTTCAATTTTTAGAATTCATCAAACATTATTATTTGATTCATA
129 TTCGAGAG-GATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAAAATAATTATTT-ATTCACA
* * *
186115 TTCATTCAGTTTTAAAAAATT-AGTTCATTTTCA-TGAGTTTTGGATTTTTT-TGATGAAATTTT
192 TTAATTCAGTTTTAAAAAATTCA-TTCATTTTCATTCAGTTTTGG-TTTTTTCT-ATGAAACTTT
* *
186177 CTTTTTTC-AAGAA-ACCGAGTTTTCTTCCCCGTAAATATTTTCA-G-GGGGA-TTTTCTTCGTT
254 CTTTTTTCTAA-AATACCGAGTTTTCTACCCCATAAAT-TTTT-ATGAGGGGATTTTTCTTCGTT
186237 CTAAAATTTTT
316 -TAAAATTTTT
* *
186248 AAAATGCATCTAATAT
1 AAAATTCATCAAATAT
186264 TGTCATTGGA
Statistics
Matches: 288, Mismatches: 37, Indels: 33
0.80 0.10 0.09
Matches are distributed among these distances:
320 12 0.04
321 106 0.37
322 107 0.37
323 3 0.01
324 3 0.01
328 1 0.00
330 55 0.19
331 1 0.00
ACGTcount: A:0.28, C:0.13, G:0.09, T:0.50
Consensus pattern (325 bp):
AAAATTCATCAAATATCATCATTTATTTCACATTAAATCAGTTTTCAAAAATTCATTCATTTTAT
GTATTATTTTTCCTTGAAACTCCTATTTTTCTAAAATACGGTATTTTCTACTCCATAAATTTTTT
CGAGAGGATTTTTCTTAGTTTTCAATTTTTAAAATTCATCAAAAATAATTATTTATTCACATTAA
TTCAGTTTTAAAAAATTCATTCATTTTCATTCAGTTTTGGTTTTTTCTATGAAACTTTCTTTTTT
CTAAAATACCGAGTTTTCTACCCCATAAATTTTTATGAGGGGATTTTTCTTCGTTTAAAATTTTT
Found at i:186284 original size:321 final size:322
Alignment explanation
Indices: 185628--186302 Score: 712
Period size: 321 Copynumber: 2.1 Consensus size: 322
185618 TTTATTTCAT
* * **
185628 ATTAAATCAGTTTTCAAAAATTCATTCATTTTCATGAGCTTTTGATTTTTCCTTGAAACTTTTAT
1 ATTAATTCAGTTTTCAAAAATTCATTCATTTT--T----TATT--TTTTTCCTTGAAACTCCTAT
* *
185693 TTTTCTAAAATACGGTATTTTCTACTCCGTAAATTTTTTCGAGAGGATTTTTCTTGGTTTTCAAT
58 TTTTCTAAAATACGGTATTTTCTACTCCATAAATTTTTTCGAGAGGATTTTTCTTAGTTTTCAAT
* *
185758 TTTTAAAATTCATCAAAAATAATTATTTTTTCACATTAATTCAGTTTTTAAAAATTCATTCATTT
123 TTTTAAAATTCATCAAAAATAATTATTTATTCACATTAATTCAGTTTTAAAAAATTCATTCATTT
* * * * *
185823 TCATTCATTTTTGGTTTTTTCTTTGAAACTTTCTTTTTTCTAAAATACGGTGTTTTCTACTCCAT
188 TCATTCAGTTTTGGTTTTTTCTATGAAACTTTCTTTTTTCTAAAATACCGAGTTTTCTACCCCAT
* ** * * **
185888 AAATTTTTATGAGGGGATTTTTCTTGGTTTTTAATTTTTTAAATTCATCAAACTTCATTATTTAT
253 AAATTTTTATGAGGGGATTTTTCTTCGTTTAAAATTTTTAAAATGCATCAAACTTCATTATGGAT
*
185953 TTCAC
318 CTCAC
* *
185958 ATTAATTCTGTTTTCAAAAATTCATTCATTTTTTATTTTTTTCTTTGAAACTCCTATTTTTCCT-
1 ATTAATTCAGTTTTCAAAAATTCATTCATTTTTTATTTTTTTCCTTGAAACTCCTATTTTT-CTA
* * * *
186022 AAATACGGTGTTTTCTACTCCATATA-TTTTTCGAG-GAGATTTTTTTTAGTTTTCAATTTTTAG
65 AAATACGGTATTTTCTACTCCATAAATTTTTTCGAGAG-GATTTTTCTTAGTTTTCAATTTTTAA
* * * *
186085 AATTCATCAAACATTATTATTTGATTCATATTCATTCAGTTTTAAAAAATT-AGTTCATTTTCA-
129 AATTCATCAAAAATAATTATTT-ATTCACATTAATTCAGTTTTAAAAAATTCA-TTCATTTTCAT
* * * *
186148 TGAGTTTTGGATTTTTT-TGATGAAATTTTCTTTTTTC-AAGAA-ACCGAGTTTTCTTCCCCGTA
192 TCAGTTTTGG-TTTTTTCT-ATGAAACTTTCTTTTTTCTAA-AATACCGAGTTTTCTACCCCATA
*
186210 AATATTTTCA-G-GGGGA-TTTTCTTCGTTCTAAAATTTTTAAAATGCATCTAATATTGTCA-T-
254 AAT-TTTT-ATGAGGGGATTTTTCTTCGTT-TAAAATTTTTAAAATGCATC-AA-ACT-TCATTA
*
186270 TGGA-CTCCC
313 TGGATCTCAC
* *
186279 ATTAATTCAGTTTTGAGAAATTCA
1 ATTAATTCAGTTTTCAAAAATTCA
186303 AATTATTTTT
Statistics
Matches: 292, Mismatches: 40, Indels: 35
0.80 0.11 0.10
Matches are distributed among these distances:
320 11 0.04
321 127 0.43
322 111 0.38
323 6 0.02
324 6 0.02
328 1 0.00
330 30 0.10
ACGTcount: A:0.27, C:0.13, G:0.10, T:0.50
Consensus pattern (322 bp):
ATTAATTCAGTTTTCAAAAATTCATTCATTTTTTATTTTTTTCCTTGAAACTCCTATTTTTCTAA
AATACGGTATTTTCTACTCCATAAATTTTTTCGAGAGGATTTTTCTTAGTTTTCAATTTTTAAAA
TTCATCAAAAATAATTATTTATTCACATTAATTCAGTTTTAAAAAATTCATTCATTTTCATTCAG
TTTTGGTTTTTTCTATGAAACTTTCTTTTTTCTAAAATACCGAGTTTTCTACCCCATAAATTTTT
ATGAGGGGATTTTTCTTCGTTTAAAATTTTTAAAATGCATCAAACTTCATTATGGATCTCAC
Found at i:186328 original size:16 final size:18
Alignment explanation
Indices: 186307--186344 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
186297 AATTCAAATT
*
186307 ATTTTTTA-A-ATTTTGA
1 ATTTTTTATAGATGTTGA
186323 ATTTTTTATAGATGTTGA
1 ATTTTTTATAGATGTTGA
186341 ATTT
1 ATTT
186345 CCTACACCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 1 0.05
18 10 0.53
ACGTcount: A:0.29, C:0.00, G:0.11, T:0.61
Consensus pattern (18 bp):
ATTTTTTATAGATGTTGA
Found at i:186843 original size:21 final size:21
Alignment explanation
Indices: 186819--186861 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
186809 AGCTGAAAAG
186819 AGAGAAAAAAAAAGAAAGAAA
1 AGAGAAAAAAAAAGAAAGAAA
* * *
186840 AGAGAAAGAAAAATAGAGAAA
1 AGAGAAAAAAAAAGAAAGAAA
186861 A
1 A
186862 TAGGTAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.77, C:0.00, G:0.21, T:0.02
Consensus pattern (21 bp):
AGAGAAAAAAAAAGAAAGAAA
Found at i:186857 original size:14 final size:15
Alignment explanation
Indices: 186815--186860 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 15
186805 ACTCAGCTGA
* *
186815 AAAGAGAGAAAA-AA
1 AAAGAAAGAAAAGAG
186829 AAAGAAAGAAAAGAG
1 AAAGAAAGAAAAGAG
*
186844 AAAGAAA-AATAGAG
1 AAAGAAAGAAAAGAG
186858 AAA
1 AAA
186861 ATAGGTAGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 20 0.71
15 8 0.29
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAAGAAAGAAAAGAG
Found at i:187536 original size:13 final size:13
Alignment explanation
Indices: 187518--187543 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
187508 ACATAAGTGT
187518 TGTATCGATACAA
1 TGTATCGATACAA
187531 TGTATCGATACAA
1 TGTATCGATACAA
187544 AGTTGCCCTA
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):
TGTATCGATACAA
Found at i:191613 original size:20 final size:20
Alignment explanation
Indices: 191588--191653 Score: 83
Period size: 20 Copynumber: 3.6 Consensus size: 20
191578 GTTTGGGACA
191588 ATGTATCGATACAATTATTC
1 ATGTATCGATACAATTATTC
191608 ATGTATCGATAC----A-T-
1 ATGTATCGATACAATTATTC
191622 -TGTATCGATACAATTATTC
1 ATGTATCGATACAATTATTC
191641 ATGTATCGATACA
1 ATGTATCGATACA
191654 TTGTATCGAT
Statistics
Matches: 39, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
13 11 0.28
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
20 24 0.62
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATTATTC
Found at i:191627 original size:13 final size:13
Alignment explanation
Indices: 191609--191666 Score: 65
Period size: 13 Copynumber: 4.9 Consensus size: 13
191599 CAATTATTCA
191609 TGTATCGATACAT
1 TGTATCGATACAT
*
191622 TGTATCGATACAA
1 TGTATCGATACAT
191635 T-TAT---T-CA-
1 TGTATCGATACAT
191642 TGTATCGATACAT
1 TGTATCGATACAT
191655 TGTATCGATACA
1 TGTATCGATACA
191667 ATGTGCCATG
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
7 1 0.03
8 5 0.13
9 1 0.03
11 1 0.03
12 5 0.13
13 25 0.66
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:191679 original size:33 final size:33
Alignment explanation
Indices: 191589--191668 Score: 160
Period size: 33 Copynumber: 2.4 Consensus size: 33
191579 TTTGGGACAA
191589 TGTATCGATACAATTATTCATGTATCGATACAT
1 TGTATCGATACAATTATTCATGTATCGATACAT
191622 TGTATCGATACAATTATTCATGTATCGATACAT
1 TGTATCGATACAATTATTCATGTATCGATACAT
191655 TGTATCGATACAAT
1 TGTATCGATACAAT
191669 GTGCCATGTA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (33 bp):
TGTATCGATACAATTATTCATGTATCGATACAT
Found at i:192759 original size:163 final size:164
Alignment explanation
Indices: 192483--192777 Score: 484
Period size: 163 Copynumber: 1.8 Consensus size: 164
192473 TGGTGAATAT
* *
192483 ATATTAAACATTTTTAAATCTTTTATATTCCTATAGGTATCCGTAAGGGTATAAAAGATTTTAAA
1 ATATTAAACATTTTTAAATCTTTTATATTCCTATAGGCATCCATAAGGGTATAAAAGATTTTAAA
* *
192548 AACTTCTCATATCTTTTCGGGTATCCATTAAGGTACGAAATGATTTTTTTTCAAAAATAAATAAA
66 AACTTCTCATATCTTTTCGGGTATCCATTAAGGTACGAAATAATTTTTTTCCAAAAATAAATAAA
192613 TAATATTAAATTCACTCCTCGTTAATTACAACAA
131 TAATATTAAATTCACTCCTCGTTAATTACAACAA
* * * *
192647 ATATTAATCATTTTT-AATTTTTTATATTCCTATGGGCATCCATAGGGGTATAAAAGATTTTAAA
1 ATATTAAACATTTTTAAATCTTTTATATTCCTATAGGCATCCATAAGGGTATAAAAGATTTTAAA
* * *
192711 AACTTTTCGTATCTTTTCGGGTATCCATTAAGGTATGAAATAATTTTTTTCCAAAAATAAATAAA
66 AACTTCTCATATCTTTTCGGGTATCCATTAAGGTACGAAATAATTTTTTTCCAAAAATAAATAAA
192776 TA
131 TA
192778 TTAATCGTTT
Statistics
Matches: 120, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
163 106 0.88
164 14 0.12
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.40
Consensus pattern (164 bp):
ATATTAAACATTTTTAAATCTTTTATATTCCTATAGGCATCCATAAGGGTATAAAAGATTTTAAA
AACTTCTCATATCTTTTCGGGTATCCATTAAGGTACGAAATAATTTTTTTCCAAAAATAAATAAA
TAATATTAAATTCACTCCTCGTTAATTACAACAA
Found at i:193682 original size:13 final size:13
Alignment explanation
Indices: 193664--193689 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
193654 ATCTTTTTCA
193664 TGTATCGATACAT
1 TGTATCGATACAT
193677 TGTATCGATACAT
1 TGTATCGATACAT
193690 ACTTGGTGTA
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:193709 original size:86 final size:86
Alignment explanation
Indices: 193605--193764 Score: 311
Period size: 86 Copynumber: 1.9 Consensus size: 86
193595 CCGTTACAAG
193605 CTTGGAGTATCGATACAAGTTTGGCTACTGCCAAGAAATGTATCGATACATCTTTTTCATGTATC
1 CTTGGAGTATCGATACAAGTTTGGCTACTGCCAAGAAATGTATCGATACATCTTTTTCATGTATC
193670 GATACATTGTATCGATACATA
66 GATACATTGTATCGATACATA
*
193691 CTTGGTGTATCGATACAAGTTTGGCTACTGCCAAGAAATGTATCGATACATCTTTTTCATGTATC
1 CTTGGAGTATCGATACAAGTTTGGCTACTGCCAAGAAATGTATCGATACATCTTTTTCATGTATC
193756 GATACATTG
66 GATACATTG
193765 CAACATGTAT
Statistics
Matches: 73, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
86 73 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (86 bp):
CTTGGAGTATCGATACAAGTTTGGCTACTGCCAAGAAATGTATCGATACATCTTTTTCATGTATC
GATACATTGTATCGATACATA
Found at i:196085 original size:21 final size:21
Alignment explanation
Indices: 196061--196107 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
196051 TTTGATGCTG
196061 ATTTTG-A-TGAAAAACGAAGT
1 ATTTTGAAGTGAAAAAC-AAGT
*
196081 AATTTGAAGTGAAAAACAAGT
1 ATTTTGAAGTGAAAAACAAGT
196102 ATTTTG
1 ATTTTG
196108 CAAAAGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 10 0.43
22 8 0.35
ACGTcount: A:0.45, C:0.04, G:0.19, T:0.32
Consensus pattern (21 bp):
ATTTTGAAGTGAAAAACAAGT
Found at i:198348 original size:15 final size:15
Alignment explanation
Indices: 198328--198357 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
198318 GTTCATCAAT
198328 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
198343 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
198358 CCCAATTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.20, G:0.17, T:0.50
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:202452 original size:13 final size:13
Alignment explanation
Indices: 202434--202459 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
202424 CAAGTTTTTG
202434 TGTATCGATACAT
1 TGTATCGATACAT
202447 TGTATCGATACAT
1 TGTATCGATACAT
202460 ACTTGGTGTA
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:202484 original size:19 final size:18
Alignment explanation
Indices: 202414--202484 Score: 53
Period size: 19 Copynumber: 4.0 Consensus size: 18
202404 TACAAGCCAA
*
202414 TGTATCGATACAAGTTTTTG
1 TGTATCGATACAA--TTTGG
202434 TGTATCGATAC-A--T--
1 TGTATCGATACAATTTGG
*
202447 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
202466 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
202485 CTACTGCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 15
0.73 0.02 0.25
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 1 0.02
18 1 0.02
19 17 0.40
20 11 0.26
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:202538 original size:13 final size:13
Alignment explanation
Indices: 202520--202545 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
202510 ATCTTTTTCA
202520 TGTATCGATACAT
1 TGTATCGATACAT
202533 TGTATCGATACAT
1 TGTATCGATACAT
202546 ACTTGGTGTA
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:202556 original size:86 final size:86
Alignment explanation
Indices: 202412--202620 Score: 375
Period size: 86 Copynumber: 2.4 Consensus size: 86
202402 GTTACAAGCC
** *
202412 AATGTATCGATACAAGTTTTT-GTGTATCGATACATTGTATCGATACATACTTGGTGTATCGATA
1 AATGTATCGATACATCTTTTTCATGTATCGATACATTGTATCGATACATACTTGGTGTATCGATA
*
202476 CAAGTTTGGCTACTGCCAAGA
66 CAAGTTTGGCTAATGCCAAGA
202497 AATGTATCGATACATCTTTTTCATGTATCGATACATTGTATCGATACATACTTGGTGTATCGATA
1 AATGTATCGATACATCTTTTTCATGTATCGATACATTGTATCGATACATACTTGGTGTATCGATA
202562 CAAGTTTGGCTAATGCCAAGA
66 CAAGTTTGGCTAATGCCAAGA
202583 AATGTATCGATACATCTTTTTCATGTATCGATACATTG
1 AATGTATCGATACATCTTTTTCATGTATCGATACATTG
202621 CAACATGTAT
Statistics
Matches: 119, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
85 19 0.16
86 100 0.84
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.37
Consensus pattern (86 bp):
AATGTATCGATACATCTTTTTCATGTATCGATACATTGTATCGATACATACTTGGTGTATCGATA
CAAGTTTGGCTAATGCCAAGA
Found at i:203892 original size:195 final size:194
Alignment explanation
Indices: 203558--203924 Score: 481
Period size: 195 Copynumber: 1.9 Consensus size: 194
203548 TGGGGTACCG
* * ** *
203558 GTATTTTCGTAATCTTTTAAAATCGAGTCTTAGGTTGTCACAAGGTCCTTTTTTATGCTGAAGGT
1 GTATTTTCGTAATCTTTTAAAACCAAGTCTTAGGTTGTCACAAGGTCCACTTTTATGCCGAAGGT
* * * * *
203623 TGGTATTTAGGATAGGTTCACCTCTTTTATAGTCTTTTTAAGTCCTTTAGGGTTATCGAGATACT
66 TGGTATTTAGAATAGGTTCACCTATTTGATAATCTTTTTAAGTCCTTTAGGGGTATCGAGATACT
*
203688 TTCACGTCGAAGGTATACCCATAGCGGCATTTTCATAATTTTTAGGACTAAGTACGCCCATCGGC
131 TTCACGTCGAAGGTAT-CCCATAGAGGCATTTTCATAATTTTTAGGACTAAGTACGCCCATCGGC
* * * *
203753 GTATTTTGGTAATTTTTTAGAACCAAGTCTTAGGTTGTCACCAGGTCCACTTTTATGCCGAAGG-
1 GTATTTTCGTAATCTTTTAAAACCAAGTCTTAGGTTGTCACAAGGTCCACTTTTATGCCGAAGGT
* *
203817 TGAGTATTTAGAATAGGTTTATCCTATTTGA-AATCCTTTTTAAGTCCTTTAGGGGTATCG-GGT
66 TG-GTATTTAGAATAGGTTCA-CCTATTTGATAAT-CTTTTTAAGTCCTTTAGGGGTATCGAGAT
* **
203880 AC-TTCTACGTCGAAGGTATCCCCTAGAGGCATTTTTGTAATTTTT
128 ACTTTC-ACGTCGAAGGTATCCCATAGAGGCATTTTCATAATTTTT
203925 CTTGACTTAG
Statistics
Matches: 148, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
194 27 0.18
195 90 0.61
196 31 0.21
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (194 bp):
GTATTTTCGTAATCTTTTAAAACCAAGTCTTAGGTTGTCACAAGGTCCACTTTTATGCCGAAGGT
TGGTATTTAGAATAGGTTCACCTATTTGATAATCTTTTTAAGTCCTTTAGGGGTATCGAGATACT
TTCACGTCGAAGGTATCCCATAGAGGCATTTTCATAATTTTTAGGACTAAGTACGCCCATCGGC
Found at i:207468 original size:130 final size:129
Alignment explanation
Indices: 207262--207727 Score: 401
Period size: 130 Copynumber: 3.6 Consensus size: 129
207252 GAGATAATAA
* *
207262 CGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCTCGATTGTGAAAAATCGATGA
1 CGAGGTTGGAGTATCCCCT-GAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAAT-A
* *
207327 -TTTAGAAATAAGGCAAGGGTTGAAGTGTCCCCGATTAT-AGAAAAT-AGATGTTTCAAAAATAA
64 TTTTAGAAATAAGGCAAGGGTTGAAGTATCCCCGATTATGAG-AAATCA-ATATTTCAAAAATAA
207389 AAT
127 AAT
* * * * * *
207392 CGAGATTGGAGTATCCCCGTGAAAATAATGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGAGGTTGGAGTATCCCC-TGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAATAT
** * * *** *
207457 TTTAGAAATAAGGCTGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGT
65 TTTAGAAATAAGGCAAGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTCAAAAATAAAAT
* * * *
207522 CGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATTAGTAT
1 CGAGGTTGGAGTATCCCC-TGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAATAT
* * *** *
207587 TTTGGAAATAA---AATCGGAGTTGGAA-TATCCCCGATTGTG-GAGAATTGGTGCTTT-AAAAA
65 TTTAGAAATAAGGCAA--GG-GTT-GAAGTATCCCCGATTATGAGA-AATCAAT-ATTTCAAAAA
*
207646 TAAAAC
124 TAAAAT
* * * * * * * ** *
207652 CGGGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGCATCCCTGATTATGAAAAATTGATGT
1 CGAGGTTGGAGTATCCCCTGA-AAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAATAT
207717 TTTAGAAATAA
65 TTTAGAAATAA
207728 AACCGGGGTT
Statistics
Matches: 273, Mismatches: 52, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
129 6 0.02
130 257 0.94
131 10 0.04
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.28
Consensus pattern (129 bp):
CGAGGTTGGAGTATCCCCTGAAAATAACGGGGTTAGAGTATCCCCGATTGTGAAAAATCAATATT
TTAGAAATAAGGCAAGGGTTGAAGTATCCCCGATTATGAGAAATCAATATTTCAAAAATAAAAT
Found at i:207487 original size:51 final size:50
Alignment explanation
Indices: 207420--207539 Score: 168
Period size: 51 Copynumber: 2.4 Consensus size: 50
207410 GTGAAAATAA
*
207420 TGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAGG
1 TGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAG
* ** * *
207470 CTGGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAG
1 -TGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAG
207521 TCGGGGTTGGAGTATCCCC
1 T-GGGGTTGGAGTATCCCC
207540 TTGGAAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 1 0.02
51 59 0.98
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.30
Consensus pattern (50 bp):
TGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAG
Found at i:207563 original size:79 final size:79
Alignment explanation
Indices: 207472--207618 Score: 215
Period size: 79 Copynumber: 1.9 Consensus size: 79
207462 AAATAAGGCT
* * * * *
207472 GGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTATC
1 GGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAATCGGAGTTGGAATATC
207537 CCCTTGGAAATAAC
66 CCCTTGGAAATAAC
* *
207551 GGGGTT-AGAGTATCCCCGATTGTGAAAAATTAGTATTTTGGAAATAAAATCGGAGTTGGAATAT
1 GGGGTTGA-AGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAATCGGAGTTGGAATAT
207615 CCCC
65 CCCC
207619 GATTGTGGAG
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 1 0.02
79 59 0.98
ACGTcount: A:0.31, C:0.13, G:0.27, T:0.29
Consensus pattern (79 bp):
GGGGTTGAAGTATCCCCGATTGTGAAAAATCAATATTTTGGAAATAAAATCGGAGTTGGAATATC
CCCTTGGAAATAAC
Found at i:207688 original size:79 final size:79
Alignment explanation
Indices: 207605--207903 Score: 374
Period size: 79 Copynumber: 3.8 Consensus size: 79
207595 TAAAATCGGA
* * * * *
207605 GTTGGAATATCCCCGATTGTGGAGAATTGGTGCTTTAAAAATAAAACCGGGGTTGGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCC
*
207670 TCAGAAATAACAGG
66 TCAGAAATAACGGG
* * * * *
207684 GTTGGAGCATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCC
207749 TC-GAAAATAACGGG
66 TCAG-AAATAACGGG
* * * *
207763 GTTGGAGTATCCCTGA---TGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTGTCCCT
1 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCC
207825 TCAGAAATAACGGG
66 TCAGAAATAACGGG
* * * *
207839 GTTGGAGTATCCCCGATTGTG-AAAATTCGGTGTTTTGAAAATAAAATCGGAGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGAAAAATT-GATGTTTTAAAAATAAAACCGGGGTTGGAGTATCCC
207903 C
65 C
207904 GATTATGGAA
Statistics
Matches: 191, Mismatches: 23, Indels: 12
0.85 0.10 0.05
Matches are distributed among these distances:
76 70 0.37
77 1 0.01
78 7 0.04
79 113 0.59
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.27
Consensus pattern (79 bp):
GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAAAAATAAAACCGGGGTTGGAGTATCCCC
TCAGAAATAACGGG
Found at i:207705 original size:260 final size:258
Alignment explanation
Indices: 207233--207727 Score: 581
Period size: 260 Copynumber: 1.9 Consensus size: 258
207223 CATCTCCCGA
* *
207233 TGAGAAATTTAATATTTTGGAGATAATAACGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTA
1 TGAGAAATTCAATATTTTGGAAATAATAACGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTA
* * *
207298 GAGTATCCTCGATTGTGAAAAATCGATGATTTAGAAATAAGGCAAGGGTTGAAGTGTCCCCGATT
66 GAGTATCCCCGATTGTGAAAAATAGAT-ATTTAGAAATAA-G-AAGGGTTGAAGTATCCCCGATT
* * **
207363 ATAGAAAATAGATGTTTCAAAAATAAAATCGAGATTGGAGTATCCCCGTGAAAATAATGGGGTTG
128 ATAGAAAATAGATGTTTCAAAAATAAAACCGAGATTGGAGTATCCCCGTCAAAATAACAGGGTTG
* *
207428 GAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAGGCTGGGGTTGAAGTATCCCTGATT
193 GAGCATCCCCAATTATGAAAAATCAATATTTTAGAAATAAGGCTGGGGTTGAAGTATCCCTGATT
207493 G
258 G
* * * *
207494 TGAGAAA-TCAATATTTTGGAAATAA-AGTCGGGGTTGGAGTATCCCCTTGGAAATAACGGGGTT
1 TGAGAAATTCAATATTTTGGAAATAATA-ACGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTT
*
207557 AGAGTATCCCCGATTGTGAAAAATTAG-TATTTTGGAAATAA-AATCGGAGTTGGAA-TATCCCC
65 AGAGTATCCCCGATTGTGAAAAA-TAGATA-TTTAGAAATAAGAA--GG-GTT-GAAGTATCCCC
* * * * * * *
207619 GATTGTGGAGAATTGGTGCTTT-AAAAATAAAACCGGGGTTGGAGTATCCCC-TCAGAAATAACA
124 GATTATAGAAAATAGATG-TTTCAAAAATAAAACCGAGATTGGAGTATCCCCGTCA-AAATAACA
** ** *
207682 GGGTTGGAGCATCCCTGATTATGAAAAATTGATGTTTTAGAAATAA
187 GGGTTGGAGCATCCCCAATTATGAAAAATCAATATTTTAGAAATAA
207728 AACCGGGGTT
Statistics
Matches: 197, Mismatches: 28, Indels: 19
0.81 0.11 0.08
Matches are distributed among these distances:
257 2 0.01
259 6 0.03
260 174 0.88
261 15 0.08
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.28
Consensus pattern (258 bp):
TGAGAAATTCAATATTTTGGAAATAATAACGAGGTTGGAGTATCCCCTCGAAAATAACGGGGTTA
GAGTATCCCCGATTGTGAAAAATAGATATTTAGAAATAAGAAGGGTTGAAGTATCCCCGATTATA
GAAAATAGATGTTTCAAAAATAAAACCGAGATTGGAGTATCCCCGTCAAAATAACAGGGTTGGAG
CATCCCCAATTATGAAAAATCAATATTTTAGAAATAAGGCTGGGGTTGAAGTATCCCTGATTG
Found at i:207902 original size:51 final size:50
Alignment explanation
Indices: 207839--208015 Score: 198
Period size: 51 Copynumber: 3.5 Consensus size: 50
207829 AAATAACGGG
*
207839 GTTGGAGTATCCCCGATTGTGAAAATTCGGTGTTTTGAAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAAATT-GGTGTTTTGAAAATAAAATCGGA
* *
207890 GTTGGAGTATCCCCGATTATGGAAAATGGGTGTTTT-AGAAATAAAATCAGA
1 GTTGGAGTATCCCCGATTAT-GAAAATTGGTGTTTTGA-AAATAAAATCGGA
* * * * * *
207941 GTTGAAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAACCGG-
1 GTTGGAGTATCCCCGATTATG-AAAATTGGTGTTTTGAAAATAAAATCGGA
*
207991 GATTGGAGTATCCCCGA-GATGAAAA
1 G-TTGGAGTATCCCCGATTATGAAAA
208016 ATCTAGAAAT
Statistics
Matches: 107, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
49 4 0.04
50 5 0.05
51 92 0.86
52 6 0.06
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (50 bp):
GTTGGAGTATCCCCGATTATGAAAATTGGTGTTTTGAAAATAAAATCGGA
Found at i:209369 original size:20 final size:20
Alignment explanation
Indices: 209344--209430 Score: 73
Period size: 20 Copynumber: 4.7 Consensus size: 20
209334 AAAATGCCTG
*
209344 AATGTATCGATACATTGTAA
1 AATGTATCGATACAATGTAA
209364 AATGTATCGATAC-------
1 AATGTATCGATACAATGTAA
* *
209377 AATGTATCGATATAATG-AGC
1 AATGTATCGATACAATGTA-A
*
209397 AATGTATCGATACAATGCAA
1 AATGTATCGATACAATGTAA
209417 AATGTATCGATACA
1 AATGTATCGATACA
209431 TCTGGGTAAA
Statistics
Matches: 56, Mismatches: 3, Indels: 16
0.75 0.04 0.21
Matches are distributed among these distances:
13 12 0.21
20 43 0.77
21 1 0.02
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (20 bp):
AATGTATCGATACAATGTAA
Found at i:209381 original size:33 final size:33
Alignment explanation
Indices: 209344--209413 Score: 97
Period size: 33 Copynumber: 2.1 Consensus size: 33
209334 AAAATGCCTG
*
209344 AATGTATCGATACATTGTA-AAATGTATCGATAC
1 AATGTATCGATACAATG-AGAAATGTATCGATAC
* *
209377 AATGTATCGATATAATGAGCAATGTATCGATAC
1 AATGTATCGATACAATGAGAAATGTATCGATAC
209410 AATG
1 AATG
209414 CAAAATGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 1 0.03
33 32 0.97
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (33 bp):
AATGTATCGATACAATGAGAAATGTATCGATAC
Found at i:209412 original size:13 final size:13
Alignment explanation
Indices: 209364--209393 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
209354 TACATTGTAA
209364 AATGTATCGATAC
1 AATGTATCGATAC
*
209377 AATGTATCGATAT
1 AATGTATCGATAC
209390 AATG
1 AATG
209394 AGCAATGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.17, T:0.33
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:209973 original size:41 final size:40
Alignment explanation
Indices: 209915--210017 Score: 102
Period size: 41 Copynumber: 2.5 Consensus size: 40
209905 GTCCCACTTT
* * *
209915 TTGAAGACAAAGG-AAAAGAGAATGAAATGGGTCTTGC-TC
1 TTGAGGACAAAGGAAAAAGAGAAGGAAA-GGGTCCTGCTTC
* * *
209954 ATTGTGGACAAAGGAAAAAGGAAAAGGAAAGTGTCCTGCTTC
1 -TTGAGGACAAAGGAAAAA-GAGAAGGAAAGGGTCCTGCTTC
209996 TTGAGGACAAAGTGAAAAAGAG
1 TTGAGGACAAAG-GAAAAAGAG
210018 TACGTCCTGC
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
40 11 0.22
41 24 0.47
42 16 0.31
ACGTcount: A:0.43, C:0.10, G:0.29, T:0.18
Consensus pattern (40 bp):
TTGAGGACAAAGGAAAAAGAGAAGGAAAGGGTCCTGCTTC
Found at i:210164 original size:45 final size:43
Alignment explanation
Indices: 210052--210213 Score: 195
Period size: 42 Copynumber: 3.8 Consensus size: 43
210042 GGGAAAAAAA
* * * *
210052 AGGAAAACAAAATGCATCTTGCTCTTTGAGGACAAA-AGAAAG
1 AGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGAGAAAG
* *
210094 AGGAAAATAAAATGCGTCATGCTCTTTGAGGACAAAAGAGAAAAG
1 AGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC-AAAGAG-AAAG
* * *
210139 AAGG-GAATGAAGTGTGTCCTGCTCTTTGAGGACAAAG-GAAAG
1 -AGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGAGAAAG
210181 AGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
1 AGGAAAATAAAGTGCGTCCTGCTCTTTGAGGAC
210214 TAAAAAGTGC
Statistics
Matches: 104, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
41 3 0.03
42 60 0.58
43 4 0.04
44 6 0.06
45 28 0.27
46 3 0.03
ACGTcount: A:0.40, C:0.14, G:0.27, T:0.20
Consensus pattern (43 bp):
AGGAAAATAAAGTGCGTCCTGCTCTTTGAGGACAAAGAGAAAG
Found at i:210404 original size:28 final size:28
Alignment explanation
Indices: 210371--210454 Score: 73
Period size: 28 Copynumber: 3.0 Consensus size: 28
210361 GCTTTGAAAG
210371 GAAAAGGCATCCTGCTCTTTGAGGACTA
1 GAAAAGGCATCCTGCTCTTTGAGGACTA
** * * * *
210399 GAAAAGTGCCA-CCAACT-TGTGTGGGCTT
1 GAAAAG-G-CATCCTGCTCTTTGAGGACTA
*
210427 TAAAAGGCATCCTGCTCTTTGAGGACTA
1 GAAAAGGCATCCTGCTCTTTGAGGACTA
210455 AAGGGCGAAA
Statistics
Matches: 39, Mismatches: 13, Indels: 8
0.65 0.22 0.13
Matches are distributed among these distances:
26 2 0.05
27 5 0.13
28 25 0.64
29 5 0.13
30 2 0.05
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (28 bp):
GAAAAGGCATCCTGCTCTTTGAGGACTA
Found at i:210433 original size:62 final size:61
Alignment explanation
Indices: 210197--210454 Score: 329
Period size: 61 Copynumber: 4.3 Consensus size: 61
210187 ATAAAGTGCG
* *
210197 TCCTGCTCTTTGAGGACTA-AAAAGTGCCACCAA-TTCGTGTGGGCTTTGAAAAGGAAAGGCG
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTT-GTGTGGGCTTTG-AAAGAAAAGGCA
* * * *
210258 TCCTACTCTTTGAGGA-TTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA-GCA
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTG-AAAGA-AAAGGCA
* *
210319 TCCTACTCTTTGAGAACTAGAAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAA-GAAAAGGCA
210380 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT-----AAAAGGCA
1 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCA
210436 TCCTGCTCTTTGAGGACTA
1 TCCTGCTCTTTGAGGACTA
210455 AAGGGCGAAA
Statistics
Matches: 177, Mismatches: 13, Indels: 19
0.85 0.06 0.09
Matches are distributed among these distances:
56 27 0.15
60 7 0.04
61 111 0.63
62 32 0.18
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTGAAAGAAAAGGCA
Found at i:210528 original size:94 final size:94
Alignment explanation
Indices: 210380--210887 Score: 429
Period size: 94 Copynumber: 5.6 Consensus size: 94
210370 GGAAAAGGCA
*
210380 TCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
210445 TTGAGGACTAAAGGGCGAAAGGAGAGAGCG
65 TTGAGGACTAAAGGGCGAAAGGAGAGAGCG
* * *
210475 TCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTCAAAAGGCATCCTGCTCTT
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
* * ** *
210540 TGAGGA-T------TGAAAGGTGCCA-CC
66 TGAGGACTAAAGGGCGAAAGGAGAGAGCG
** * * *** * * * ** * **
210561 AACT--TCTGTG-GG-CTTTGAAAG-G-CATCTTGCTCTTTGAGGAC-TGGAAGGTGCCA-CCAA
1 TCCTGCTCTTTGAGGAC-TGGAAAGTGCCA-CCAACT-TGTGTGGGCTTTAAAAG-G-CATCCTG
* * *
210618 CT-TGTGTGGGCTTTGAAA--G-G-AA--A-A-AGCG
61 CTCTTTGAGGAC--T-AAAGGGCGAAAGGAGAGAGCG
* * *
210646 TCCTGCTCTTTGAGGACTAGAAAAGTGGCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTCT
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
210711 TTGAGGACTAAAGGGCGAAAGGAGAGAGCG
65 TTGAGGACTAAAGGGCGAAAGGAGAGAGCG
* *
210741 TCCTGCTCTTTAAGGACTAGG-AAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
1 TCCTGCTCTTTGAGGACT-GGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCT
*
210805 TTGAGGACTAAAGGGCGAAAGGAGAGAGTG
65 TTGAGGACTAAAGGGCGAAAGGAGAGAGCG
*
210835 TCCTGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
1 TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
210888 AAAAGGCATC
Statistics
Matches: 322, Mismatches: 58, Indels: 67
0.72 0.13 0.15
Matches are distributed among these distances:
81 2 0.01
82 14 0.04
83 18 0.06
84 8 0.02
85 4 0.01
86 3 0.01
87 16 0.05
88 8 0.02
89 17 0.05
90 15 0.05
91 4 0.01
93 4 0.01
94 169 0.52
95 40 0.12
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (94 bp):
TCCTGCTCTTTGAGGACTGGAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
TGAGGACTAAAGGGCGAAAGGAGAGAGCG
Found at i:210564 original size:55 final size:56
Alignment explanation
Indices: 210475--210719 Score: 289
Period size: 55 Copynumber: 4.3 Consensus size: 56
210465 GGAGAGAGCG
* * * *
210475 TCCTACTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGCTTCAAAAGGCA
1 TCCTGCTCTTTGAGGACTTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* *
210530 TCCTGCTCTTTGAGGA-TTGAAAGGTGCCACCAACTTCTGTGGGCTTTGAAAGGCA
1 TCCTGCTCTTTGAGGACTTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
* * * *
210585 TCTTGCTCTTTGAGGAC-TGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCG
1 TCCTGCTCTTTGAGGACTTGAAAGGTGCCACCAACTTGTGTGGGCTTT------AAAAGGCA
* * *
210646 TCCTGCTCTTTGAGGACTAGAAAAGTGGCACCAACTTGTGTGGGCTTTAAAAGGCA
1 TCCTGCTCTTTGAGGACTTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
*
210702 TCTTGCTCTTTGAGGACT
1 TCCTGCTCTTTGAGGACT
210720 AAAGGGCGAA
Statistics
Matches: 161, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
54 4 0.02
55 87 0.54
56 23 0.14
61 21 0.13
62 26 0.16
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (56 bp):
TCCTGCTCTTTGAGGACTTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAAAGGCA
Found at i:210592 original size:149 final size:152
Alignment explanation
Indices: 210310--210602 Score: 421
Period size: 149 Copynumber: 1.9 Consensus size: 152
210300 GCTTTGCAAA
*
210310 GAGAAAGCATCCTACTCTTTGAGAACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAA
1 GAGAAAGCATCCTACTCTTTGAGAACTAGAAAATGCCACCAACTTGTGTGGGCTTT---A-CAAA
*
210375 AGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCT
62 AGGCATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTCTGTGGGCTTTAAAAGGCATCCT
210440 GCTCTTTGAGGACTAAAGGGCGAAAG
127 GCTCTTTGAGGACTAAAGGGCGAAAG
* * * * * *
210466 GAGAGAGCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGC-TT-CAAAAGGC
1 GAGAAAGCATCCTACTCTTTGAGAACTAGAAAATGCCACCAACTTGTGTGGGCTTTACAAAAGGC
* * * *
210529 ATCCTGCTCTTTGAGGA-TTGAAAGGTGCCACCAACTTCTGTGGGCTTTGAAAGGCATCTTGCTC
66 ATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTCTGTGGGCTTTAAAAGGCATCCTGCTC
210593 TTTGAGGACT
131 TTTGAGGACT
210603 GGAAGGTGCC
Statistics
Matches: 125, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
149 52 0.42
150 24 0.19
155 2 0.02
156 47 0.38
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (152 bp):
GAGAAAGCATCCTACTCTTTGAGAACTAGAAAATGCCACCAACTTGTGTGGGCTTTACAAAAGGC
ATCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTCTGTGGGCTTTAAAAGGCATCCTGCTC
TTTGAGGACTAAAGGGCGAAAG
Found at i:210633 original size:266 final size:265
Alignment explanation
Indices: 210251--210950 Score: 939
Period size: 266 Copynumber: 2.7 Consensus size: 265
210241 TTTGAAAAGG
* *
210251 AAAGGCGTCCTACTCTTTGAGGATTGGAAGGTGCCACCAACTTGTGTGGGCTTTGCAAAGAGAAA
1 AAAGGCGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTT-TGTGGGCTTTG--AA-AG--A
* * * *
210316 GCATCCTACTCTTTGAGAACTAGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCAT
60 GCATCCTGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCAT
210381 CCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
124 CCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTT
* *
210446 TGAGGACTAAAGGGCGAAAGGAGAGAGCGTCCTACTCTTTGAGGACTGGGAAGTGCCACCAACTT
189 TGAGGACTAAAGGGCGAAAGGAGAGAGCGTCCTACTCTTTAAGGACTAGGAAGTGCCACCAACTT
210511 GTGTGGGCTTCA
254 GTGTGGGCTTCA
*
210523 AAAGGCATCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTCTGTGGGCTTTGAAAG-GCATC
1 AAAGGCGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTT-TGTGGGCTTTGAAAGAGCATC
* * *
210587 TTGCTCTTTGAGGACTGGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGC
65 CTGCTCTTTGAGGACTGGAA-GTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGC
* *
210652 TCTTTGAGGACTAGAAAAGTGGCACCAACTTGTGTGGGCTTTAAAAGGCATCTTGCTCTTTGAGG
129 TCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGG
*
210717 ACTAAAGGGCGAAAGGAGAGAGCGTCCTGCTCTTTAAGGACTAGGAAGTGCCACCAACTTGTGTG
194 ACTAAAGGGCGAAAGGAGAGAGCGTCCTACTCTTTAAGGACTAGGAAGTGCCACCAACTTGTGTG
*
210782 GGCTTTA
259 GGCTTCA
* * * **
210789 AAAGGCGTCCTGCTCTTTGAGGACT-AAAGG-GCGA--AA--------G----GAGAGAGTGTCC
1 AAAGGCGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTTGTGGGCTTTGAAAGAGCATCC
*
210838 TGCTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCT
66 TGCTCTTTGAGGACT-GGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCT
* * * * *
210903 CTTTAAGGACTAAAAAAAATGCCCCCAACTTGTGTGGGCTTTGAAAGG
130 CTTTGAGGACT-AGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGG
210951 AAAAGGCGTC
Statistics
Matches: 391, Mismatches: 33, Indels: 29
0.86 0.07 0.06
Matches are distributed among these distances:
249 4 0.01
250 70 0.18
251 35 0.09
253 1 0.00
262 2 0.01
264 3 0.01
265 8 0.02
266 213 0.54
269 2 0.01
270 2 0.01
272 51 0.13
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.25
Consensus pattern (265 bp):
AAAGGCGTCCTGCTCTTTGAGGATTGAAAGGTGCCACCAACTTTGTGGGCTTTGAAAGAGCATCC
TGCTCTTTGAGGACTGGAAGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAGGCATCCTGCTC
TTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAAAAGGCATCCTGCTCTTTGAGGAC
TAAAGGGCGAAAGGAGAGAGCGTCCTACTCTTTAAGGACTAGGAAGTGCCACCAACTTGTGTGGG
CTTCA
Found at i:210713 original size:117 final size:110
Alignment explanation
Indices: 210480--210719 Score: 329
Period size: 117 Copynumber: 2.1 Consensus size: 110
210470 GAGCGTCCTA
*
210480 CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTCAAAAGGCATCCTGCTCTTTGAGG
1 CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTCAAAAAGCATCCTGCTCTTTGAGG
* * *
210545 ATTGAAAGGTGCCACCAACTTCTGTGGGCTTTGAAAGGCATCTTG
66 ATAGAAAAGTGCCACCAACTTCTGTGGGCTTTAAAAGGCATCTTG
* *
210590 CTCTTTGAGGACT-GGAAGGTGCCACCAACTTGTGTGGGCTTTGAAAGGAAAAAGCGTCCTGCTC
1 CTCTTTGAGGACTGGGAA-GTGCCACCAACTTGTGTGGGC-TT-----CAAAAAGCATCCTGCTC
* *
210654 TTTGAGGACTAGAAAAGTGGCACCAACTTGTGTGGGCTTTAAAAGGCATCTTG
59 TTTGAGGA-TAGAAAAGTGCCACCAACTTCTGTGGGCTTTAAAAGGCATCTTG
210707 CTCTTTGAGGACT
1 CTCTTTGAGGACT
210720 AAAGGGCGAA
Statistics
Matches: 114, Mismatches: 8, Indels: 9
0.87 0.06 0.07
Matches are distributed among these distances:
109 4 0.04
110 34 0.30
111 2 0.02
116 22 0.19
117 52 0.46
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.28
Consensus pattern (110 bp):
CTCTTTGAGGACTGGGAAGTGCCACCAACTTGTGTGGGCTTCAAAAAGCATCCTGCTCTTTGAGG
ATAGAAAAGTGCCACCAACTTCTGTGGGCTTTAAAAGGCATCTTG
Found at i:210950 original size:63 final size:63
Alignment explanation
Indices: 210859--210981 Score: 201
Period size: 63 Copynumber: 2.0 Consensus size: 63
210849 GACTGGGAAG
*
210859 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTGCTCTTTAAGGACTAAAAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTAAGGACTAAAAAAAA
* * * *
210922 TGCCCCCAACTTGTGTGGGCTTTGAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAAAAA
1 TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTAAGGACTAAAAA
210982 GTGAAAGGAG
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (63 bp):
TGCCACCAACTTGTGTGGGCTTTAAAAGGAAAAGGCATCCTACTCTTTAAGGACTAAAAAAAA
Found at i:211966 original size:1 final size:1
Alignment explanation
Indices: 211962--212069 Score: 81
Period size: 1 Copynumber: 108.0 Consensus size: 1
211952 TTTTTCTCTC
* * * * * * * * *
211962 TTTTTTCTTTATTTTGTTTTTTGTTTTGTTTTTTGTTTTTTGTTTTTTTGTTTTTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * ** * *
212027 TGTTTTTTTGTTTTTTTTGGTTGTTTTTTTGTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
212070 AAAAAATGTG
Statistics
Matches: 79, Mismatches: 28, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 79 1.00
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (1 bp):
T
Found at i:211983 original size:7 final size:7
Alignment explanation
Indices: 211973--212069 Score: 94
Period size: 7 Copynumber: 13.6 Consensus size: 7
211963 TTTTTCTTTA
211973 TTTTGTT
1 TTTTGTT
211980 TTTTG--
1 TTTTGTT
211985 TTTTGTT
1 TTTTGTT
211992 TTTTGTT
1 TTTTGTT
211999 TTTTGTTT
1 TTTTG-TT
212007 TTTTGTTTT
1 TTTTG--TT
212016 TTTTGTTT
1 TTTTG-TT
212024 TTTTGTTT
1 TTTTG-TT
212032 TTTTGTT
1 TTTTGTT
212039 TTTT-TT
1 TTTTGTT
**
212045 GGTTGTTT
1 TTTTG-TT
212053 TTTTGTT
1 TTTTGTT
212060 TTTT-TT
1 TTTTGTT
212066 TTTT
1 TTTT
212070 AAAAAATGTG
Statistics
Matches: 80, Mismatches: 4, Indels: 13
0.82 0.04 0.13
Matches are distributed among these distances:
5 5 0.06
6 10 0.12
7 29 0.36
8 28 0.35
9 8 0.10
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (7 bp):
TTTTGTT
Found at i:212008 original size:8 final size:8
Alignment explanation
Indices: 211985--212069 Score: 101
Period size: 8 Copynumber: 11.2 Consensus size: 8
211975 TTGTTTTTTG
211985 TTTTG-TT
1 TTTTGTTT
211992 TTTTG-TT
1 TTTTGTTT
211999 TTTTGTTT
1 TTTTGTTT
212007 TTTTGTTTT
1 TTTTG-TTT
212016 TTTTGTTT
1 TTTTGTTT
212024 TTTTGTTT
1 TTTTGTTT
212032 TTTTG--T
1 TTTTGTTT
212038 TTTT-TTT
1 TTTTGTTT
**
212045 GGTTGTTT
1 TTTTGTTT
212053 TTTTGTTT
1 TTTTGTTT
212061 TTTT-TTT
1 TTTTGTTT
212068 TT
1 TT
212070 AAAAAATGTG
Statistics
Matches: 69, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
6 5 0.07
7 20 0.29
8 36 0.52
9 8 0.12
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (8 bp):
TTTTGTTT
Found at i:212020 original size:43 final size:44
Alignment explanation
Indices: 211962--212069 Score: 141
Period size: 44 Copynumber: 2.5 Consensus size: 44
211952 TTTTTCTCTC
* *
211962 TTTTTTCTTTATTTTGTTTTTTGTTTTGTTT-TTTGTTTT-TTGT
1 TTTTTTGTTTTTTTTGTTTTTTGTTTT-TTTGTTTGTTTTGTTGT
*
212005 TTTTTTGTTTTTTTTGTTTTTTTGTTTTTTTGTTTTTTTTGGTTGT
1 TTTTTTGTTTTTTTTG-TTTTTTGTTTTTTTGTTTGTTTT-GTTGT
212051 TTTTTTGTTTTTTTT-TTTT
1 TTTTTTGTTTTTTTTGTTTT
212070 AAAAAATGTG
Statistics
Matches: 58, Mismatches: 3, Indels: 7
0.85 0.04 0.10
Matches are distributed among these distances:
43 17 0.29
44 22 0.38
46 19 0.33
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (44 bp):
TTTTTTGTTTTTTTTGTTTTTTGTTTTTTTGTTTGTTTTGTTGT
Found at i:212068 original size:25 final size:24
Alignment explanation
Indices: 211962--212069 Score: 116
Period size: 25 Copynumber: 4.5 Consensus size: 24
211952 TTTTTCTCTC
* *
211962 TTTTTTCTTTATTTTG-TTTTTTG
1 TTTTTTTTTTTTTTTGTTTTTTTG
211985 TTTTGTTTTTTGTTTTTTGTTTTTTTG
1 -TTT-TTTTTT-TTTTTTGTTTTTTTG
212012 TTTTTTTTGTTTTTTTGTTTTTTTG
1 TTTTTTTT-TTTTTTTGTTTTTTTG
**
212037 ---TTTTTTTTGGTTGTTTTTTTG
1 TTTTTTTTTTTTTTTGTTTTTTTG
212058 TTTTTTTTTTTT
1 TTTTTTTTTTTT
212070 AAAAAATGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 14
0.79 0.05 0.15
Matches are distributed among these distances:
21 14 0.19
22 5 0.07
24 11 0.15
25 25 0.35
26 10 0.14
27 7 0.10
ACGTcount: A:0.01, C:0.01, G:0.12, T:0.86
Consensus pattern (24 bp):
TTTTTTTTTTTTTTTGTTTTTTTG
Found at i:220664 original size:52 final size:52
Alignment explanation
Indices: 220516--220644 Score: 231
Period size: 52 Copynumber: 2.5 Consensus size: 52
220506 CGAAATATGA
*
220516 AAATTTGCCTACATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* *
220568 AAATTTGCTTGTATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
220620 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
220645 AAGATCCGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:220740 original size:13 final size:13
Alignment explanation
Indices: 220722--220805 Score: 51
Period size: 13 Copynumber: 5.5 Consensus size: 13
220712 AGCTTCGTAG
220722 CGATACATTGTAT
1 CGATACATTGTAT
220735 CGATACAAAACTTATGTAT
1 CGATAC---A-TT--GTAT
220754 CGATACATTGTAT
1 CGATACATTGTAT
220767 CGATACAACACTTATGTAT
1 CGAT---ACA--T-TGTAT
*
220786 CGATACATTATAT
1 CGATACATTGTAT
220799 CGATACA
1 CGATACA
220806 AATCTTTGAA
Statistics
Matches: 58, Mismatches: 1, Indels: 24
0.70 0.01 0.29
Matches are distributed among these distances:
13 25 0.43
14 1 0.02
15 2 0.03
16 8 0.14
17 2 0.03
18 1 0.02
19 19 0.33
ACGTcount: A:0.37, C:0.18, G:0.12, T:0.33
Consensus pattern (13 bp):
CGATACATTGTAT
Found at i:220754 original size:19 final size:18
Alignment explanation
Indices: 220730--220792 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
220720 AGCGATACAT
220730 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
220749 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
220762 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
220781 TGTATCGATACA
1 TGTATCGATACA
220793 TTATATCGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
14 1 0.03
16 2 0.05
18 1 0.03
19 23 0.61
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:220763 original size:32 final size:32
Alignment explanation
Indices: 220722--220807 Score: 154
Period size: 32 Copynumber: 2.7 Consensus size: 32
220712 AGCTTCGTAG
220722 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
220754 CGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAAAACTTATGTAT
*
220786 CGATACATTATATCGATACAAA
1 CGATACATTGTATCGATACAAA
220808 TCTTTGAAAT
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (32 bp):
CGATACATTGTATCGATACAAAACTTATGTAT
Found at i:221553 original size:59 final size:59
Alignment explanation
Indices: 221466--221643 Score: 261
Period size: 59 Copynumber: 3.1 Consensus size: 59
221456 TGTGCTTTTG
* * *
221466 AAGGTTGCCACTAACTTTTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
*
221525 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCATTGACTTGTGGGCTTTGGAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
** * * *
221584 AAGGGTGCCACTGACTTGTGGGCTTTT-CTAGGTTGCCACTGACTTGTGGGCTTT-GAA
1 AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
221641 AAG
1 AAG
221644 AAAAAAGTGC
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
57 6 0.06
58 21 0.19
59 82 0.75
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.31
Consensus pattern (59 bp):
AAGGGTGCCACTGACTTGTGGGCTTTTGAAAAGATACCACTGACTTGTGGGCTTTGGAA
Found at i:221578 original size:29 final size:29
Alignment explanation
Indices: 221425--221644 Score: 205
Period size: 29 Copynumber: 7.6 Consensus size: 29
221415 CACCAACTTG
* * **
221425 TGTGGGCTTTTGAAAGGGTTG-CACCAACT
1 TGTGGGCTTTTGAAA-AGATGCCACTGACT
* * * *
221454 TGTGTGCTTTTG-AAGGTTGCCACTAACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
221482 TTTGGGCTTTTGAAAAGATACCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
221511 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTGAAAA-GATGCCACTGACT
* *
221541 TGTGGGCTTTTGAAAAGATACCATTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
* *
221570 TGTGGGCTTTGGAAAAGGGTGCCACTGACT
1 TGTGGGCTTTTGAAAA-GATGCCACTGACT
** * *
221600 TGTGGGCTTTT-CTAGGTTGCCACTGACT
1 TGTGGGCTTTTGAAAAGATGCCACTGACT
221628 TGTGGGC-TTTGAAAAGA
1 TGTGGGCTTTTGAAAAGA
221645 AAAAAGTGCC
Statistics
Matches: 157, Mismatches: 29, Indels: 11
0.80 0.15 0.06
Matches are distributed among these distances:
27 8 0.05
28 40 0.25
29 63 0.40
30 46 0.29
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (29 bp):
TGTGGGCTTTTGAAAAGATGCCACTGACT
Found at i:221665 original size:34 final size:35
Alignment explanation
Indices: 221617--221914 Score: 335
Period size: 34 Copynumber: 8.8 Consensus size: 35
221607 TTTTCTAGGT
* *
221617 TGCCACTGACTTGTGGGCTTTGAAAAGAAAAAAG-
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGA
**
221651 TGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAGA
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGA
*
221685 TGCCACGGAGTTGTGGGCTTTGAAAAG-AAAAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGA
* ***
221719 TGCCACGGAGTTGTGGGCTTTAAAAAG-GTGAAGA
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGA
* * **
221753 TGCCATGGAGTTGTGGGC-TTAAAAAGGGAAAAGA
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGA
*
221787 TGCCACGGAGTTGTGGGCTTTGAAAAG-AAAAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGA
* * ****
221821 TGTCACGGAGTTGTGGGCTTT-TAAAGGGTGAAGA
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGA
*
221855 TGCCACGGAGTTGTGGGCTTTGAAAAG-AAAAAGG
1 TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGA
*
221889 TGCCACGGGGTTGTGGGCTTT-AAAAG
1 TGCCACGGAGTTGTGGGCTTTGAAAAG
221915 GGTGAGGAAT
Statistics
Matches: 227, Mismatches: 31, Indels: 13
0.84 0.11 0.05
Matches are distributed among these distances:
33 27 0.12
34 184 0.81
35 16 0.07
ACGTcount: A:0.31, C:0.12, G:0.35, T:0.23
Consensus pattern (35 bp):
TGCCACGGAGTTGTGGGCTTTGAAAAGAAAAAAGA
Found at i:221763 original size:102 final size:102
Alignment explanation
Indices: 221651--221914 Score: 433
Period size: 102 Copynumber: 2.6 Consensus size: 102
221641 AAGAAAAAAG
221651 TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
221716 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGGTGAAGA
66 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGGTGAAGA
* *
221753 TGCCATGGAGTTGTGGGCTTAAAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
* * *
221818 AGGTGTCACGGAGTTGTGGGCTTTTAAAGGGTGAAGA
66 AGGTGCCACGGAGTTGTGGGCTTTAAAAAGGTGAAGA
* * *
221855 TGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAGGTGCCACGGGGTTGTGGGCTTT-AAAAG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAG
221915 GGTGAGGAAT
Statistics
Matches: 151, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
101 5 0.03
102 142 0.94
103 4 0.03
ACGTcount: A:0.30, C:0.11, G:0.36, T:0.23
Consensus pattern (102 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
AGGTGCCACGGAGTTGTGGGCTTTAAAAAGGTGAAGA
Found at i:221919 original size:68 final size:68
Alignment explanation
Indices: 221617--221916 Score: 372
Period size: 68 Copynumber: 4.4 Consensus size: 68
221607 TTTTCTAGGT
* * ** *
221617 TGCCACTGACTTGTGGGCTTTGAAAAGAAAAAAG-TGCCACGGAGTTGTGGGCTTT-AAAAGGGA
1 TGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAA-GAA
221680 AAAGA
64 AAAGA
* * * ***
221685 TGCCACGGAGTTGTGGGCTTTGAAAA-GAAAAAGGTGCCACGGAGTTGTGGGCTTTAAAAAGGTG
1 TGCCACGGAGTTGTGGGCTTT-AAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAA
221749 AAGA
65 AAGA
* *
221753 TGCCATGGAGTTGTGGGCTTAAAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
*
221818 AGG
66 AGA
* * **
221821 TGTCACGGAGTTGTGGGCTTTTAAAGGGTGAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
1 TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
*
221886 AGG
66 AGA
*
221889 TGCCACGGGGTTGTGGGCTTTAAAAGGG
1 TGCCACGGAGTTGTGGGCTTTAAAAGGG
221917 TGAGGAATGT
Statistics
Matches: 206, Mismatches: 23, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
67 10 0.05
68 192 0.93
69 4 0.02
ACGTcount: A:0.30, C:0.12, G:0.35, T:0.23
Consensus pattern (68 bp):
TGCCACGGAGTTGTGGGCTTTAAAAGGGAAAAGATGCCACGGAGTTGTGGGCTTTGAAAAGAAAA
AGA
Found at i:223366 original size:15 final size:15
Alignment explanation
Indices: 223348--223432 Score: 58
Period size: 15 Copynumber: 5.8 Consensus size: 15
223338 ATCCGGACCC
223348 TTTTTGTTGTTG-TTG
1 TTTTT-TTGTTGTTTG
*
223363 TTTTTTTTTTGTTTG
1 TTTTTTTGTTGTTTG
*
223378 TTTGTTTGTT-TTT-
1 TTTTTTTGTTGTTTG
223391 TTTTTCCTT-TT-TCTT-
1 TTTTT--TTGTTGT-TTG
223406 TTTTTTTGTTTGTTTG
1 TTTTTTTG-TTGTTTG
223422 TTTTTTT-TTGT
1 TTTTTTTGTTGT
223433 GAAGGACGCC
Statistics
Matches: 58, Mismatches: 4, Indels: 17
0.73 0.05 0.22
Matches are distributed among these distances:
13 6 0.10
14 15 0.26
15 29 0.50
16 8 0.14
ACGTcount: A:0.00, C:0.04, G:0.14, T:0.82
Consensus pattern (15 bp):
TTTTTTTGTTGTTTG
Found at i:223377 original size:24 final size:23
Alignment explanation
Indices: 223348--223424 Score: 83
Period size: 23 Copynumber: 3.6 Consensus size: 23
223338 ATCCGGACCC
223348 TTTTTG-TTG-TTG-TTGTTTTT
1 TTTTTGTTTGTTTGTTTGTTTTT
223368 TTTTTGTTTGTTTGTTTGTTTTT
1 TTTTTGTTTGTTTGTTTGTTTTT
** *
223391 TTTTTCCTT-TTTCTTT-TTTTT
1 TTTTTGTTTGTTTGTTTGTTTTT
*
223412 TGTTTGTTTGTTT
1 TTTTTGTTTGTTT
223425 TTTTTTGTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
20 6 0.13
21 14 0.30
22 12 0.26
23 15 0.32
ACGTcount: A:0.00, C:0.04, G:0.14, T:0.82
Consensus pattern (23 bp):
TTTTTGTTTGTTTGTTTGTTTTT
Found at i:223415 original size:36 final size:35
Alignment explanation
Indices: 223363--223430 Score: 118
Period size: 36 Copynumber: 1.9 Consensus size: 35
223353 GTTGTTGTTG
223363 TTTTTTTTTTGTTTGTTTGTTTGTTTTTTTTTTCC
1 TTTTTTTTTTGTTTGTTTGTTTGTTTTTTTTTTCC
*
223398 TTTTTCTTTTTTTTTGTTTGTTTGTTTTTTTTT
1 TTTTT-TTTTTGTTTGTTTGTTTGTTTTTTTTT
223431 GTGAAGGACG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
35 5 0.16
36 26 0.84
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.85
Consensus pattern (35 bp):
TTTTTTTTTTGTTTGTTTGTTTGTTTTTTTTTTCC
Found at i:237541 original size:52 final size:52
Alignment explanation
Indices: 237463--237593 Score: 201
Period size: 52 Copynumber: 2.5 Consensus size: 52
237453 CCCAAAATAT
*
237463 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATA-CATCTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATATAAT-TGG
* *
237515 GAAAATTTACCTGTATGTATCGATACATTTCATAGTGTATCGATATAATTGG
1 GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATATAATTGG
* *
237567 GCAAATTTGCTTGCATGTATCGATACA
1 GAAAATTTGCCTGCATGTATCGATACA
237594 AAGATCCGTG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
52 69 0.97
53 2 0.03
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (52 bp):
GAAAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATATAATTGG
Found at i:237713 original size:32 final size:32
Alignment explanation
Indices: 237671--237773 Score: 170
Period size: 32 Copynumber: 3.2 Consensus size: 32
237661 AGCTTCGTAG
*
237671 CGATACATTGTATCGATACAAAACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
*
237703 TGATACATTGTATCGATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
* *
237735 CAATACATTGTATCAATACAACACTTATGTAT
1 CGATACATTGTATCGATACAACACTTATGTAT
237767 CGATACA
1 CGATACA
237774 AATCGTTGAA
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.38, C:0.17, G:0.11, T:0.34
Consensus pattern (32 bp):
CGATACATTGTATCGATACAACACTTATGTAT
Found at i:237735 original size:19 final size:19
Alignment explanation
Indices: 237679--237774 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
237669 AGCGATACAT
*
237679 TGTATCGATACAAAACTTA
1 TGTATCGATACAACACTTA
*
237698 TGTATTGAT---ACA--T-
1 TGTATCGATACAACACTTA
237711 TGTATCGATACAACACTTA
1 TGTATCGATACAACACTTA
*
237730 TGTATC-A-A-TACA--T-
1 TGTATCGATACAACACTTA
*
237743 TGTATCAATACAACACTTA
1 TGTATCGATACAACACTTA
237762 TGTATCGATACAA
1 TGTATCGATACAA
237775 ATCGTTGAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 24
0.66 0.07 0.27
Matches are distributed among these distances:
13 14 0.24
14 3 0.05
15 1 0.02
16 11 0.19
17 1 0.02
18 3 0.05
19 26 0.44
ACGTcount: A:0.39, C:0.17, G:0.10, T:0.34
Consensus pattern (19 bp):
TGTATCGATACAACACTTA
Found at i:237748 original size:13 final size:13
Alignment explanation
Indices: 237730--237754 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
237720 ACAACACTTA
237730 TGTATCAATACAT
1 TGTATCAATACAT
237743 TGTATCAATACA
1 TGTATCAATACA
237755 ACACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (13 bp):
TGTATCAATACAT
Found at i:245098 original size:51 final size:50
Alignment explanation
Indices: 245032--245150 Score: 166
Period size: 51 Copynumber: 2.3 Consensus size: 50
245022 CGAAAATAAT
*
245032 GGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAGGCC
1 GGGGTT-GAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
** * *
245083 GGGGTTGAAGTATCCCTGATTGTGAGAAATCAATATTTTGGAAATAAAGCC
1 GGGGTTG-AGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
245134 GGGGTTTGAGTATCCCC
1 GGGG-TTGAGTATCCCC
245151 GTGAAAATAA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
50 1 0.02
51 56 0.93
52 3 0.05
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (50 bp):
GGGGTTGAGTATCCCCAATTATGAGAAATCAATATTTTAGAAATAAAGCC
Found at i:245128 original size:130 final size:128
Alignment explanation
Indices: 244853--245176 Score: 364
Period size: 130 Copynumber: 2.5 Consensus size: 128
244843 ACGAGAAATT
* * *
244853 TAATATTTTGGAGATAATAACCGGGTTGGAGTATCCCCTTGAAAATAACGGGGTTGGAGTATCTC
1 TAATATTTTGGAAATAA-AACCGGGTTGGAGTATCCCCATGAAAATAACGGGGTTGGAGTATCCC
* * * *
244918 CGATTGTGAAAAATCGATGATTTAGAAATAAGGCAAGGGTTGAAGTGTCCCCGATTAT-AGAAAA
65 CAATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTGAAGTATCCCCGATTATGAG-AAA
* *** * * *
244982 TAGATGTTTCAAAAATAAAATCGGGATTGGAGTATCCCCACGAAAATAATGGGGTTGGAGTATCC
1 TA-ATATTTTGGAAATAAAACCGGG-TTGGAGTATCCCCATGAAAATAACGGGGTTGGAGTATCC
* ** * *
245047 CCAATTATGAGAAATCAAT-ATTTTAGAAATAAGGCCGGGGTTGAAGTATCCCTGATTGTGAGAA
64 CCAATTATGAAAAATCAATGA-TTTAGAAATAAGGCAAGGGTTGAAGTATCCCCGATTATGAGAA
245111 A
128 A
* * * *
245112 TCAATATTTTGGAAATAAAGCCGGGGTTTGAGTATCCCCGTGAAAATAACAGGGTTGGAGTATCC
1 T-AATATTTTGGAAATAAAACC-GGGTTGGAGTATCCCCATGAAAATAACGGGGTTGGAGTATCC
245177 TCGATGAAAT
Statistics
Matches: 159, Mismatches: 30, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
129 9 0.06
130 144 0.91
131 6 0.04
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (128 bp):
TAATATTTTGGAAATAAAACCGGGTTGGAGTATCCCCATGAAAATAACGGGGTTGGAGTATCCCC
AATTATGAAAAATCAATGATTTAGAAATAAGGCAAGGGTTGAAGTATCCCCGATTATGAGAAA
Found at i:245172 original size:28 final size:28
Alignment explanation
Indices: 245135--245209 Score: 107
Period size: 28 Copynumber: 2.7 Consensus size: 28
245125 AATAAAGCCG
*
245135 GGGTTTGAGTATCCCCG-TGAAAATAACA
1 GGGTTGGAGTATCCCCGATG-AAATAACA
* *
245163 GGGTTGGAGTATCCTCGATGAAATAACG
1 GGGTTGGAGTATCCCCGATGAAATAACA
245191 GGGTTGGAGTATCCCCGAT
1 GGGTTGGAGTATCCCCGAT
245210 TGTGAAAAAT
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
28 40 0.95
29 2 0.05
ACGTcount: A:0.27, C:0.17, G:0.31, T:0.25
Consensus pattern (28 bp):
GGGTTGGAGTATCCCCGATGAAATAACA
Found at i:245299 original size:51 final size:51
Alignment explanation
Indices: 245189--245308 Score: 154
Period size: 51 Copynumber: 2.4 Consensus size: 51
245179 GATGAAATAA
* *
245189 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTAGTGTTTTGGAAATAAAAT
1 CGGGGTTGGAGTATCCCCGATTGCGAAAAATTAGTGTTTTAGAAATAAAAT
* * * *
245240 CGGAGTTGGCA-TATCCCCGGTTGCGAAGAATTGGTGTTTTAGAAATAAAA-
1 CGGGGTTGG-AGTATCCCCGATTGCGAAAAATTAGTGTTTTAGAAATAAAAT
245290 CTGGGGTTGGAGTATCCCC
1 C-GGGGTTGGAGTATCCCC
245309 TCGAAAATAA
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
50 2 0.03
51 56 0.95
52 1 0.02
ACGTcount: A:0.28, C:0.14, G:0.29, T:0.29
Consensus pattern (51 bp):
CGGGGTTGGAGTATCCCCGATTGCGAAAAATTAGTGTTTTAGAAATAAAAT
Found at i:245382 original size:79 final size:78
Alignment explanation
Indices: 245268--245542 Score: 333
Period size: 79 Copynumber: 3.5 Consensus size: 78
245258 GGTTGCGAAG
* * *
245268 AATTGGTGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGAAGTAT
1 AATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTAT
245333 CCCTGATTATGAAA
66 CCC-GATTATGAAA
* *
245347 AATTGATGTTTTAGAAATAAAACTGGGGTTAGAGTATCCCTTCGAAAATAACAGGGTTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTAT
245412 CTCCG---ATGAAA
66 C-CCGATTATGAAA
* * * * *
245423 AATTGATGTTTTGGAAATAAAACCGGGGTTGGAGTGTCCCCTCGGAAATAACAGGGCTGGAGTAT
1 AATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTAT
*
245488 CCCCGATTGTGAAA
66 -CCCGATTATGAAA
* * * * * *
245502 AGTCGGTGTTTTGGAAATAAAA-TCGGAGTTGGAGTGTCCCC
1 AATTGATGTTTTAGAAATAAAACT-GGGGTTGGAGTATCCCC
245543 GATTATGGAA
Statistics
Matches: 172, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
76 67 0.39
77 1 0.01
79 102 0.59
80 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.27, T:0.28
Consensus pattern (78 bp):
AATTGATGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCTCGAAAATAACAGGGTTGGAGTAT
CCCGATTATGAAA
Found at i:245542 original size:51 final size:50
Alignment explanation
Indices: 245480--245654 Score: 219
Period size: 51 Copynumber: 3.5 Consensus size: 50
245470 ATAACAGGGC
*
245480 TGGAGTATCCCCGATTGTGAAAAGTCGGTGTTTTGGAAATAAAATCGGAGT
1 TGGAGTATCCCCGATTATGAAAA-TCGGTGTTTTGGAAATAAAATCGGAGT
* * *
245531 TGGAGTGTCCCCGATTATGGAAAATGGGTGTTTTAGAAATAAAATCGGAGT
1 TGGAGTATCCCCGATTAT-GAAAATCGGTGTTTTGGAAATAAAATCGGAGT
* * * *
245582 TGGAGTATCCCCGATTAAGAAAAATTGATGTTTTGGAAATGAAATCGG-GAT
1 TGGAGTATCCCCGATTATG-AAAATCGGTGTTTTGGAAATAAAATCGGAG-T
*
245633 TGGAGTATCCCCGA-GATGAAAA
1 TGGAGTATCCCCGATTATGAAAA
245655 ATCTAGAAAT
Statistics
Matches: 109, Mismatches: 12, Indels: 8
0.84 0.09 0.06
Matches are distributed among these distances:
49 4 0.04
50 4 0.04
51 96 0.88
52 5 0.05
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.28
Consensus pattern (50 bp):
TGGAGTATCCCCGATTATGAAAATCGGTGTTTTGGAAATAAAATCGGAGT
Found at i:247926 original size:20 final size:19
Alignment explanation
Indices: 247883--247969 Score: 96
Period size: 20 Copynumber: 4.8 Consensus size: 19
247873 AAAATGCCTG
* *
247883 AATGTATCGATACATTTAC
1 AATGTATCGATACAATGAC
247902 AATGTATCGATACAATGAGC
1 AATGTATCGATACAATGA-C
247922 AATGTATCG-----AT-AC
1 AATGTATCGATACAATGAC
247935 AATGTATCGATACAATGAAC
1 AATGTATCGATACAATG-AC
247955 AATGTATCGATACAA
1 AATGTATCGATACAA
247970 ATTGTGAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
13 10 0.17
14 1 0.02
15 2 0.03
18 2 0.03
19 16 0.28
20 27 0.47
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (19 bp):
AATGTATCGATACAATGAC
Found at i:247941 original size:33 final size:33
Alignment explanation
Indices: 247899--247969 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
247889 TCGATACATT
*
247899 TACAATGTATCGATACAATGAGCAATGTATCGA
1 TACAATGTATCGATACAATGAACAATGTATCGA
247932 TACAATGTATCGATACAATGAACAATGTATCGA
1 TACAATGTATCGATACAATGAACAATGTATCGA
247965 TACAA
1 TACAA
247970 ATTGTGAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
TACAATGTATCGATACAATGAACAATGTATCGA
Found at i:247969 original size:13 final size:13
Alignment explanation
Indices: 247899--247951 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
247889 TCGATACATT
247899 TACAATGTATCGA
1 TACAATGTATCGA
247912 TACAATG-A--G-
1 TACAATGTATCGA
247921 --CAATGTATCGA
1 TACAATGTATCGA
247932 TACAATGTATCGA
1 TACAATGTATCGA
247945 TACAATG
1 TACAATG
247952 AACAATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 5 0.15
8 1 0.03
10 2 0.06
12 1 0.03
13 25 0.74
ACGTcount: A:0.40, C:0.15, G:0.17, T:0.28
Consensus pattern (13 bp):
TACAATGTATCGA
Found at i:248693 original size:171 final size:172
Alignment explanation
Indices: 248371--248706 Score: 561
Period size: 171 Copynumber: 2.0 Consensus size: 172
248361 GGTCATTTTC
*
248371 TTGAAATTTTGGATATCCGAGATTTCATAATTGACCGAAATTCATTTTTATCGGATAAGAGTAAA
1 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAAATTCATTTTTATCGGATAAGAGTAAA
* *
248436 TTGCATCAGTCGATGTTTTTTTTCAAGCTTTTCTCGGGGGTCCAGAGAAGTCGCAATTAATCGAG
66 TTGCATCAGTCAATGTTTTTTTTCAAGCTTTTCTCGGGGCTCCAGAGAAGTCGCAATTAATCGAG
* *
248501 CTAATTTTCGGTTTGAAAATCAAGGAATAAAAAAATGAAGGT
131 CTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAATGAAGGT
248543 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAATATTCATTTTTATCGGATAAGAGTAA
1 TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAA-ATTCATTTTTATCGGATAAGAGTAA
* *
248608 ATTGCATCAGTCAATG-TTTTTTT-AAGGTTTTCTCGGAGGCT-CGGAGAAGTCGCAATTAATCG
65 ATTGCATCAGTCAATGTTTTTTTTCAAGCTTTTCTCGG-GGCTCCAGAGAAGTCGCAATTAATCG
*
248670 AGTTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAA
129 AGCTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAA
248707 CACGGGATGA
Statistics
Matches: 154, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
171 66 0.43
172 48 0.31
173 40 0.26
ACGTcount: A:0.34, C:0.12, G:0.19, T:0.35
Consensus pattern (172 bp):
TTGAAATTTTGGATATCCGAGATTTCATAACTGACCGAAATTCATTTTTATCGGATAAGAGTAAA
TTGCATCAGTCAATGTTTTTTTTCAAGCTTTTCTCGGGGCTCCAGAGAAGTCGCAATTAATCGAG
CTAATTTTCGGTTTAAAAATCAAGAAATAAAAAAATGAAGGT
Found at i:248746 original size:27 final size:27
Alignment explanation
Indices: 248716--248958 Score: 292
Period size: 27 Copynumber: 8.5 Consensus size: 27
248706 ACACGGGATG
248716 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
248743 ATGGGCATGGAAT-AAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
248769 ATGGGCATGGAAT-AAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
* *
248795 ATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAA---ATGA-A--GG--C
248830 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
248857 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
* *
248884 ATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAA---ATGA-A--GG--C
248919 ATGGGCATGGAATAAAAAAATGAAGGC
1 ATGGGCATGGAATAAAAAAATGAAGGC
248946 ATGGGCATGGAAT
1 ATGGGCATGGAAT
248959 GATTTTCTAT
Statistics
Matches: 191, Mismatches: 8, Indels: 34
0.82 0.03 0.15
Matches are distributed among these distances:
26 52 0.27
27 77 0.40
29 4 0.02
30 6 0.03
31 4 0.02
32 6 0.03
33 4 0.02
35 38 0.20
ACGTcount: A:0.46, C:0.07, G:0.30, T:0.17
Consensus pattern (27 bp):
ATGGGCATGGAATAAAAAAATGAAGGC
Found at i:248865 original size:62 final size:61
Alignment explanation
Indices: 248769--248888 Score: 213
Period size: 62 Copynumber: 2.0 Consensus size: 61
248759 AAATGAAGGC
*
248769 ATGGGCATGGAATAAAAAATGAAGGCATGGGCATGGAATAAAAAATTGAAGACATGGGATA
1 ATGGGCATGGAATAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGACATGGGATA
*
248830 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGG
1 ATGGGCATGGAAT-AAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGACATGGG
248889 CATGGAATAA
Statistics
Matches: 56, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 13 0.23
62 43 0.77
ACGTcount: A:0.46, C:0.07, G:0.31, T:0.17
Consensus pattern (61 bp):
ATGGGCATGGAATAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGACATGGGATA
Found at i:248897 original size:89 final size:88
Alignment explanation
Indices: 248743--248958 Score: 416
Period size: 89 Copynumber: 2.5 Consensus size: 88
248733 AAATGAAGGC
248743 ATGGGCATGGAAT-AAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGGCATGGGCATGGAA
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGGCATGGGCATGGAA
248807 TAAAAAATTGAAGACATGGGATA
66 TAAAAAATTGAAGACATGGGATA
248830 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGA
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAAT-AAAAAATGAAGGCATGGGCATGGA
248895 ATAAAAAATTGAAGACATGGGATA
65 ATAAAAAATTGAAGACATGGGATA
248919 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAAT
1 ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAAT
248959 GATTTTCTAT
Statistics
Matches: 127, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
87 13 0.10
88 26 0.20
89 88 0.69
ACGTcount: A:0.46, C:0.07, G:0.30, T:0.17
Consensus pattern (88 bp):
ATGGGCATGGAATAAAAAAATGAAGGCATGGGCATGGAATAAAAAATGAAGGCATGGGCATGGAA
TAAAAAATTGAAGACATGGGATA
Found at i:250243 original size:51 final size:50
Alignment explanation
Indices: 250188--250314 Score: 150
Period size: 53 Copynumber: 2.5 Consensus size: 50
250178 CAATTGCTCG
250188 TAATCGGGGATACTCCAACCCCGGTTTTATTT-TCAAAACACCAATTTCCTT-
1 TAATCGGGGATACTCCAACCCCGGTTTTATTTCT-AAAACACCAATTT--TTA
* **
250239 TAATCGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCA
1 TAATC--GGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTT-A
*
250292 CAATCGGGGATACTCCAACCCCG
1 TAATCGGGGATACTCCAACCCCG
250315 TTATTTTCGA
Statistics
Matches: 67, Mismatches: 4, Indels: 10
0.83 0.05 0.12
Matches are distributed among these distances:
51 25 0.37
53 41 0.61
54 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (50 bp):
TAATCGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTA
Found at i:250469 original size:79 final size:79
Alignment explanation
Indices: 250243--250550 Score: 492
Period size: 79 Copynumber: 3.9 Consensus size: 79
250233 TTCCTTTAAT
* *
250243 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
*
250308 AACCCCGTTATTTT
66 AACCCCGTTATTTC
* * *
250322 CGAGGGGATACTCCAA-CCCGGTTTTATCTCTAAAATATTAATTTTTCACAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
250386 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* *
250400 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACACCAATTTTTCATAATCGGGGATACTCC
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
250465 AACCCCGTTATTTC
66 AACCCCGTTATTTC
* * * **
250479 CGAGGGGATACTCCAACCTCGGTTTTATTTCTAAAACATCAATTTTTCATAATCCGGGATACTTT
1 CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
250544 AACCCCG
66 AACCCCG
250551 ATTTTATTTT
Statistics
Matches: 216, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
78 76 0.35
79 140 0.65
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.32
Consensus pattern (79 bp):
CGAGGGGATACTCCAACCCCGGTTTTATTTCTAAAACATCAATTTTTCACAATCGGGGATACTCC
AACCCCGTTATTTC
Done.