Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 52 of 311
Found at i:14874615 original size:23 final size:25
Alignment explanation
Indices: 14874563--14874615 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 25
14874553 TTATATGTTG
* *
14874563 AATATGTTAAAAATGTTTTAATTAT
1 AATATTTTAAAAATGTTCTAATTAT
14874588 -A-ATTTTAAAAAT-TTCT-ATTAT
1 AATATTTTAAAAATGTTCTAATTAT
14874609 AATATTT
1 AATATTT
14874616 GAATTGATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
21 5 0.21
22 4 0.17
23 14 0.58
24 1 0.04
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (25 bp):
AATATTTTAAAAATGTTCTAATTAT
Found at i:14876547 original size:42 final size:42
Alignment explanation
Indices: 14876474--14876555 Score: 103
Period size: 42 Copynumber: 2.0 Consensus size: 42
14876464 GCCCAAAGGC
*
14876474 TGAACAGAAGCTCATGAAAGCTAAACAAAAACCCATAAGGAT
1 TGAACAAAAGCTCATGAAAGCTAAACAAAAACCCATAAGGAT
* * * *
14876516 TGAACAAAAGCTCGT-AAGAGCTGAACGAAAACTCATAAGG
1 TGAACAAAAGCTCATGAA-AGCTAAACAAAAACCCATAAGG
14876556 GTAAACAGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
41 2 0.06
42 32 0.94
ACGTcount: A:0.48, C:0.18, G:0.20, T:0.15
Consensus pattern (42 bp):
TGAACAAAAGCTCATGAAAGCTAAACAAAAACCCATAAGGAT
Found at i:14876607 original size:21 final size:21
Alignment explanation
Indices: 14876557--14876624 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
14876547 CTCATAAGGG
*
14876557 TAAACAGAAGCTTAGTAGAGT
1 TAAACAGAAGCTCAGTAGAGT
* * *
14876578 TGAATAGAATCTCA-TATGAGT
1 TAAACAGAAGCTCAGTA-GAGT
*
14876599 TAAACAGAAGCTC-GTGAGAGC
1 TAAACAGAAGCTCAGT-AGAGT
14876620 TAAAC
1 TAAAC
14876625 GGAAAGTAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
20 2 0.06
21 33 0.92
22 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.24
Consensus pattern (21 bp):
TAAACAGAAGCTCAGTAGAGT
Found at i:14877188 original size:49 final size:49
Alignment explanation
Indices: 14877131--14877228 Score: 196
Period size: 49 Copynumber: 2.0 Consensus size: 49
14877121 GCTTATGCTG
14877131 CCTCAGTCATCTCATTTAAGCTTAATTACTCTTTAAGTCCTCCCTTATT
1 CCTCAGTCATCTCATTTAAGCTTAATTACTCTTTAAGTCCTCCCTTATT
14877180 CCTCAGTCATCTCATTTAAGCTTAATTACTCTTTAAGTCCTCCCTTATT
1 CCTCAGTCATCTCATTTAAGCTTAATTACTCTTTAAGTCCTCCCTTATT
14877229 TACCATTTAA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 49 1.00
ACGTcount: A:0.22, C:0.29, G:0.06, T:0.43
Consensus pattern (49 bp):
CCTCAGTCATCTCATTTAAGCTTAATTACTCTTTAAGTCCTCCCTTATT
Found at i:14878122 original size:15 final size:17
Alignment explanation
Indices: 14878097--14878130 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
14878087 AATGTATCAC
14878097 TTTTTTAAAAT-ATTTA
1 TTTTTTAAAATAATTTA
14878113 TTTTTT-AAATAATTTA
1 TTTTTTAAAATAATTTA
14878129 TT
1 TT
14878131 ATACCCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TTTTTTAAAATAATTTA
Found at i:14884106 original size:35 final size:35
Alignment explanation
Indices: 14884058--14884220 Score: 186
Period size: 35 Copynumber: 4.7 Consensus size: 35
14884048 CCATGGAAAA
* *
14884058 TTGTGAAATGTAGGTATGCTATTAACCATAATGAG
1 TTGTGAAATGTAGGTATGGTATTATCCATAATGAG
*
14884093 TTGTGAAACGTAGGTATGGTATTATCCAT-ATCGAG
1 TTGTGAAATGTAGGTATGGTATTATCCATAAT-GAG
** * *
14884128 TTAAGAAACGTAGGTATGGTATTATCCATACTGAG
1 TTGTGAAATGTAGGTATGGTATTATCCATAATGAG
** * **
14884163 TTAAGAAATGTAGGTATGGCATT-TCCCATACCGAG
1 TTGTGAAATGTAGGTATGGTATTAT-CCATAATGAG
14884198 TTGTGAAATGTAGGTATGGTATT
1 TTGTGAAATGTAGGTATGGTATT
14884221 TCAATGAGGA
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
34 3 0.03
35 109 0.96
36 1 0.01
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (35 bp):
TTGTGAAATGTAGGTATGGTATTATCCATAATGAG
Found at i:14891543 original size:35 final size:35
Alignment explanation
Indices: 14891507--14891665 Score: 214
Period size: 35 Copynumber: 4.6 Consensus size: 35
14891497 TGGAAAATTG
* *
14891507 TGAAACGTAGGTATGGTATTAACCATACTGAGTTG
1 TGAAACGTAGGTATGGTATTATCCATACTGAGTTA
* *
14891542 TGAAACGTAGGTATGGTATTTTCCATATTGAGTTA
1 TGAAACGTAGGTATGGTATTATCCATACTGAGTTA
*
14891577 AGAAACGTAGGTATGGTATTATCCA-ACTGAGTTA
1 TGAAACGTAGGTATGGTATTATCCATACTGAGTTA
* * *
14891611 AGAAACGTAGGTATGGCATT-TCCCATACCGAGTTA
1 TGAAACGTAGGTATGGTATTAT-CCATACTGAGTTA
*
14891646 TGAAATGTAGGTATGGTATT
1 TGAAACGTAGGTATGGTATT
14891666 TCAATGAGGA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
33 1 0.01
34 30 0.27
35 79 0.72
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
TGAAACGTAGGTATGGTATTATCCATACTGAGTTA
Found at i:14891622 original size:69 final size:70
Alignment explanation
Indices: 14891508--14891665 Score: 228
Period size: 69 Copynumber: 2.3 Consensus size: 70
14891498 GGAAAATTGT
** * * **
14891508 GAAACGTAGGTATGGTATTAACCATACTGAGTTGTGAAACGTAGGTATGGTATTTTCCATATTGA
1 GAAACGTAGGTATGGTATTAACCATACTGAGTTAAGAAACGTAGGTATGGCATTTCCCATACCGA
14891573 GTTAA
66 GTTAA
*
14891578 GAAACGTAGGTATGGTATTATCCA-ACTGAGTTAAGAAACGTAGGTATGGCATTTCCCATACCGA
1 GAAACGTAGGTATGGTATTAACCATACTGAGTTAAGAAACGTAGGTATGGCATTTCCCATACCGA
*
14891642 GTTAT
66 GTTAA
*
14891647 GAAATGTAGGTATGGTATT
1 GAAACGTAGGTATGGTATT
14891666 TCAATGAGGA
Statistics
Matches: 79, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
69 56 0.71
70 23 0.29
ACGTcount: A:0.32, C:0.11, G:0.25, T:0.32
Consensus pattern (70 bp):
GAAACGTAGGTATGGTATTAACCATACTGAGTTAAGAAACGTAGGTATGGCATTTCCCATACCGA
GTTAA
Found at i:14902242 original size:266 final size:266
Alignment explanation
Indices: 14901762--14902284 Score: 974
Period size: 266 Copynumber: 2.0 Consensus size: 266
14901752 CCATGCGTAA
14901762 ATGCAATTGCTACATGTGCCTCGACATGTTTGGATTGCATCATCTAATAACATGTAGTTGTGAAG
1 ATGCAATTGCTACATGTGCCTCGACATGTTTGGATTGCATCATCTAATAACATGTAGTTGTGAAG
*
14901827 ATAAAGATGATGACTCTAGCTATAAAGAAGATGAGGAGGTAGTGCACCCATCGATGCCTTGTGTT
66 ATAAAGATGATGACTCTAGCTATAAAGAAGATAAGGAGGTAGTGCACCCATCGATGCCTTGTGTT
* *
14901892 GAGTTGGAGTTGATGACGATTCCATCAAGGCATGTACTATCAACCTAGAATTAATGCAGGGTTGT
131 GAGTTGGAGTTGATGACGACTCCATCAAGGCATGTACTATCAACCTAGAATTAATGCAGGGTCGT
14901957 CTTGGCCTCCTCATACAACGTTGCCTACTCATTTCCTTCTTCGAAAGTAGATATGACTTATTGCA
196 CTTGGCCTCCTCATACAACGTTGCCTACTCATTTCCTTCTTCGAAAGTAGATATGACTTATTGCA
14902022 ATGTAC
261 ATGTAC
* *
14902028 ATGCAATTGCTACATGTGCCTCGACATGTTTGGATTGTATGATCTAATAACATGTAGTTGTGAAG
1 ATGCAATTGCTACATGTGCCTCGACATGTTTGGATTGCATCATCTAATAACATGTAGTTGTGAAG
*
14902093 ATAAAGATGATGACTCTAGCTATGAAGAAGATAAGGAGGTAGTGCACCCATCGATGCCTTGTGTT
66 ATAAAGATGATGACTCTAGCTATAAAGAAGATAAGGAGGTAGTGCACCCATCGATGCCTTGTGTT
*
14902158 GAGTTGGAGTTGATGACGACTCCATCAAGGCATGTACTATCGACCTAGAATTAATGCAGGGTCGT
131 GAGTTGGAGTTGATGACGACTCCATCAAGGCATGTACTATCAACCTAGAATTAATGCAGGGTCGT
*
14902223 CTTGGCCTCCTCCTACAACGTTGCCTACTCATTTCCTTCTTCGAAAGTAGATATGACTTATT
196 CTTGGCCTCCTCATACAACGTTGCCTACTCATTTCCTTCTTCGAAAGTAGATATGACTTATT
14902285 ACGATGTCTA
Statistics
Matches: 249, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
266 249 1.00
ACGTcount: A:0.28, C:0.19, G:0.22, T:0.31
Consensus pattern (266 bp):
ATGCAATTGCTACATGTGCCTCGACATGTTTGGATTGCATCATCTAATAACATGTAGTTGTGAAG
ATAAAGATGATGACTCTAGCTATAAAGAAGATAAGGAGGTAGTGCACCCATCGATGCCTTGTGTT
GAGTTGGAGTTGATGACGACTCCATCAAGGCATGTACTATCAACCTAGAATTAATGCAGGGTCGT
CTTGGCCTCCTCATACAACGTTGCCTACTCATTTCCTTCTTCGAAAGTAGATATGACTTATTGCA
ATGTAC
Found at i:14903646 original size:17 final size:17
Alignment explanation
Indices: 14903620--14903663 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
14903610 ATTCGGCTTG
14903620 ATTATATAAATATAAAAAA
1 ATTATA-AAAT-TAAAAAA
*
14903639 ATTATAAAATTAAAAAC
1 ATTATAAAATTAAAAAA
14903656 ATTA-AAAA
1 ATTATAAAA
14903664 CTCAATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
16 4 0.17
17 10 0.42
18 4 0.17
19 6 0.25
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
ATTATAAAATTAAAAAA
Found at i:14916647 original size:25 final size:25
Alignment explanation
Indices: 14916619--14916667 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
14916609 TACAACTCGA
**
14916619 ATGAGATTCCTGTTATATGGCTCAC
1 ATGAGATTCCCATTATATGGCTCAC
*
14916644 ATGAGCTTCCCATTATATGGCTCA
1 ATGAGATTCCCATTATATGGCTCA
14916668 AGAGAGAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.35
Consensus pattern (25 bp):
ATGAGATTCCCATTATATGGCTCAC
Found at i:14917620 original size:42 final size:42
Alignment explanation
Indices: 14917553--14917649 Score: 131
Period size: 42 Copynumber: 2.3 Consensus size: 42
14917543 ACGGTTAGAG
* *
14917553 ACATGGGCGTGTGTCTCAGCCGTGTGTGGCATACGGCCTCAC
1 ACATGGGCGTGTGTCTCAGCCGTGTGTGACACACGGCCTCAC
* * * *
14917595 ACATGGGTGTGTGTCTCGGCTGTGTGTGACACATGGCCTCAC
1 ACATGGGCGTGTGTCTCAGCCGTGTGTGACACACGGCCTCAC
*
14917637 ACATGGGCATGTG
1 ACATGGGCGTGTG
14917650 ATTTGGCCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.15, C:0.25, G:0.34, T:0.26
Consensus pattern (42 bp):
ACATGGGCGTGTGTCTCAGCCGTGTGTGACACACGGCCTCAC
Found at i:14922235 original size:16 final size:16
Alignment explanation
Indices: 14922214--14922245 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14922204 ACCAAGGAGA
*
14922214 AATTCATGCACGTAAG
1 AATTCATGCACATAAG
14922230 AATTCATGCACATAAG
1 AATTCATGCACATAAG
14922246 TCTTGCGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (16 bp):
AATTCATGCACATAAG
Found at i:14928045 original size:46 final size:46
Alignment explanation
Indices: 14927991--14928259 Score: 314
Period size: 46 Copynumber: 5.8 Consensus size: 46
14927981 GATATTTGGG
14927991 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
* * * * * * *
14928037 CGTCCGAACTCGTTGAGTTGAGTCTGAGTTC-GTGAAATGTA-ACTAGG
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACT--TATGGATGCGA-A
* *
14928084 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
*
14928130 CATCCGAACTCGTTGATTTGAGT-TCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGGATGCGAA
*
14928176 CAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA
1 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
*** * *
14928221 TGCCCGAGCTCGTTGAGTTGAGT-TCGAGTTCGCTTATGG
1 CATCCGAACTCGTTGAGTTGAGTCT-GAGTTCACTTATGG
14928260 GCGGGTTACA
Statistics
Matches: 187, Mismatches: 27, Indels: 18
0.81 0.12 0.08
Matches are distributed among these distances:
45 40 0.21
46 112 0.60
47 34 0.18
48 1 0.01
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
Found at i:14928151 original size:93 final size:92
Alignment explanation
Indices: 14927989--14928252 Score: 347
Period size: 93 Copynumber: 2.9 Consensus size: 92
14927979 CGGATATTTG
*
14927989 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* *
14928054 TTGAG-TCTGAGTTCGTGAAATGTA-ACTA
66 TTGAGTTC-GAGTTCGT--AATGGATACGA
* * *
14928082 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACATCCGAACTCGTTGAT
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
* * *
14928147 TTGAGTTCGAGTTCACTTATGGATGCGA
66 TTGAGTTCGAGTTC-GTAATGGATACGA
* * * *
14928175 -ACAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
14928238 TTGAGTTCGAGTTCG
66 TTGAGTTCGAGTTCG
14928253 CTTATGGGCG
Statistics
Matches: 151, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
91 67 0.44
92 7 0.05
93 74 0.49
94 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.30
Consensus pattern (92 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAG
TTGAGTTCGAGTTCGTAATGGATACGA
Found at i:14928233 original size:91 final size:91
Alignment explanation
Indices: 14927991--14928259 Score: 346
Period size: 91 Copynumber: 2.9 Consensus size: 91
14927981 GATATTTGGG
*
14927991 CATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
* * * * *
14928056 GAG-TCTGAGTTCGTGAAATGTAACTAGG
66 GAGTTC-GAGTTCCT--TATGGAACGAGA
* * *
14928084 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACATCCGAACTCGTTGATTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
*
14928149 GAGTTCGAGTTCACTTATGGATGCGA-A
66 GAGTTCGAGTTC-CTTATGGA-ACGAGA
* * *
14928176 CAT-CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAGTT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
14928240 GAGTTCGAGTTCGCTTATGG
66 GAGTTCGAGTTC-CTTATGG
14928260 GCGGGTTACA
Statistics
Matches: 156, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
91 74 0.47
92 7 0.04
93 72 0.46
94 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.28, T:0.31
Consensus pattern (91 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAACTCGTTGAGTT
GAGTTCGAGTTCCTTATGGAACGAGA
Found at i:14929018 original size:21 final size:21
Alignment explanation
Indices: 14928992--14929033 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
14928982 AAGTTATGGA
14928992 ATCGAAGCTTGATGAGTCTAT
1 ATCGAAGCTTGATGAGTCTAT
*
14929013 ATCGAATCTTGATGAGTCTAT
1 ATCGAAGCTTGATGAGTCTAT
14929034 TTTCATATGG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.29, C:0.14, G:0.21, T:0.36
Consensus pattern (21 bp):
ATCGAAGCTTGATGAGTCTAT
Found at i:14929656 original size:16 final size:16
Alignment explanation
Indices: 14929635--14929666 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14929625 ACCAAGGAGA
*
14929635 AATTCATGCACGTAAG
1 AATTCATGCACATAAG
14929651 AATTCATGCACATAAG
1 AATTCATGCACATAAG
14929667 TCTTGCGGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.19, G:0.16, T:0.25
Consensus pattern (16 bp):
AATTCATGCACATAAG
Found at i:14931188 original size:28 final size:28
Alignment explanation
Indices: 14931148--14931209 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
14931138 GTCTGAATAC
* *
14931148 TGTTCTAGCTTTTGACATTTTCATTTCT
1 TGTTTTAGCTTTTGACATTTTCACTTCT
14931176 TGTTTTAGCTTTTGACATTTTCACTTCT
1 TGTTTTAGCTTTTGACATTTTCACTTCT
*
14931204 TCTTTT
1 TGTTTT
14931210 TCTTTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.13, C:0.18, G:0.10, T:0.60
Consensus pattern (28 bp):
TGTTTTAGCTTTTGACATTTTCACTTCT
Found at i:14931216 original size:13 final size:14
Alignment explanation
Indices: 14931200--14931232 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14931190 ACATTTTCAC
*
14931200 TTCTTCTTTT-TCT
1 TTCTTCTTTTATAT
14931213 TTCTTCTTTTATAT
1 TTCTTCTTTTATAT
14931227 TTCTTC
1 TTCTTC
14931233 CTCACAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.06, C:0.21, G:0.00, T:0.73
Consensus pattern (14 bp):
TTCTTCTTTTATAT
Found at i:14931873 original size:15 final size:16
Alignment explanation
Indices: 14931853--14931883 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14931843 TTAAAACTTA
14931853 ATTTAAT-TTATTTTT
1 ATTTAATATTATTTTT
14931868 ATTTAATATTATTTTT
1 ATTTAATATTATTTTT
14931884 TAACATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
ATTTAATATTATTTTT
Found at i:14938762 original size:134 final size:134
Alignment explanation
Indices: 14938522--14938768 Score: 467
Period size: 134 Copynumber: 1.8 Consensus size: 134
14938512 CGTTCGATGA
14938522 TATAAGAAAATAGAAAAGAGAGGGAGTAAGCATAAAGCCTAGTAAGAAGTATGCAAATATATAGC
1 TATAAGAAAATAGAAAAGAGAGGGAGTAAGCATAAAGCCTAGTAAGAAGTATGCAAATATATAGC
*
14938587 AACAACTAAACCATTCATCAACATGCTCTTAATATAAAATAGTTATAAGCATAGCTATTTAGGTG
66 AACAACTAAACCATTCATCAACATGATCTTAATATAAAATAGTTATAAGCATAGCTATTTAGGTG
14938652 ACAC
131 ACAC
*
14938656 TATAAGAAAATAGAAAAGAGAGGGAGTAAGCATAAAGCTTAGTAAGAAGTATGCAAATATATAGC
1 TATAAGAAAATAGAAAAGAGAGGGAGTAAGCATAAAGCCTAGTAAGAAGTATGCAAATATATAGC
*
14938721 AACAACTATACCATTCATCAACATGATCTTAATATAAAATAGTTATAA
66 AACAACTAAACCATTCATCAACATGATCTTAATATAAAATAGTTATAA
14938769 ATATAACTTA
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 110 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (134 bp):
TATAAGAAAATAGAAAAGAGAGGGAGTAAGCATAAAGCCTAGTAAGAAGTATGCAAATATATAGC
AACAACTAAACCATTCATCAACATGATCTTAATATAAAATAGTTATAAGCATAGCTATTTAGGTG
ACAC
Found at i:14941885 original size:24 final size:24
Alignment explanation
Indices: 14941856--14941917 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
14941846 CAACCGTATT
* * *
14941856 TGCACACATAGTGCTA-ATTACAC
1 TGCACACATAGTGCCATAGTAAAC
*
14941879 TCGCACACATAATGCCATAGTAAAC
1 T-GCACACATAGTGCCATAGTAAAC
14941904 TGCACACATAGTGC
1 TGCACACATAGTGC
14941918 ATTGGATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 1 0.03
24 25 0.78
25 6 0.19
ACGTcount: A:0.35, C:0.27, G:0.15, T:0.23
Consensus pattern (24 bp):
TGCACACATAGTGCCATAGTAAAC
Found at i:14945396 original size:27 final size:27
Alignment explanation
Indices: 14945365--14945453 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
14945355 GATAAAATTT
14945365 TCGTATCAAAATTTTCACATGTCATAC
1 TCGTATCAAAATTTTCACATGTCATAC
* * *** **
14945392 TCGTAATTAAACATTTAATC-GATAAAATTT
1 TCGT-ATCAAA-ATTT--TCACATGTCATAC
14945422 TCGTATCAAAATTTTCACATGTCATAC
1 TCGTATCAAAATTTTCACATGTCATAC
14945449 TCGTA
1 TCGTA
14945454 ATTAAACATT
Statistics
Matches: 43, Mismatches: 14, Indels: 10
0.64 0.21 0.15
Matches are distributed among these distances:
26 2 0.05
27 13 0.30
28 9 0.21
29 9 0.21
30 8 0.19
31 2 0.05
ACGTcount: A:0.36, C:0.18, G:0.08, T:0.38
Consensus pattern (27 bp):
TCGTATCAAAATTTTCACATGTCATAC
Found at i:14945406 original size:57 final size:57
Alignment explanation
Indices: 14945334--14945497 Score: 328
Period size: 57 Copynumber: 2.9 Consensus size: 57
14945324 CGATTTAGTC
14945334 CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACATGTCATA
1 CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACATGTCATA
14945391 CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACATGTCATA
1 CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACATGTCATA
14945448 CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACA
1 CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACA
14945498 CGACATATCT
Statistics
Matches: 107, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 107 1.00
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (57 bp):
CTCGTAATTAAACATTTAATCGATAAAATTTTCGTATCAAAATTTTCACATGTCATA
Found at i:14964600 original size:16 final size:16
Alignment explanation
Indices: 14964579--14964633 Score: 83
Period size: 16 Copynumber: 3.4 Consensus size: 16
14964569 GTTTGGTTCA
*
14964579 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
14964595 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
* *
14964611 CTATAATTGAATAGAG
1 CTGTAATGGAATAGAG
14964627 CTGTAAT
1 CTGTAAT
14964634 AAGTAATTCA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.36, C:0.07, G:0.27, T:0.29
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:14968436 original size:14 final size:15
Alignment explanation
Indices: 14968417--14968445 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
14968407 TGCTTAAAAG
14968417 AATAAAAAAA-TTTA
1 AATAAAAAAACTTTA
14968431 AATAAAAAAACTTTA
1 AATAAAAAAACTTTA
14968446 TCCGAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (15 bp):
AATAAAAAAACTTTA
Found at i:14986366 original size:38 final size:38
Alignment explanation
Indices: 14986324--14986400 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
14986314 CCACCATGAA
14986324 TTTCCCAATATAGCCAGTGCCTCCGATTATCAAAATTT
1 TTTCCCAATATAGCCAGTGCCTCCGATTATCAAAATTT
14986362 TTTCCCAATATAGCCAGTGCCTCCGATTATCAAAATTT
1 TTTCCCAATATAGCCAGTGCCTCCGATTATCAAAATTT
14986400 T
1 T
14986401 GCTTTTCTCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.26, G:0.10, T:0.35
Consensus pattern (38 bp):
TTTCCCAATATAGCCAGTGCCTCCGATTATCAAAATTT
Found at i:14987932 original size:35 final size:35
Alignment explanation
Indices: 14987884--14987953 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
14987874 GCTACTTTTA
14987884 CTATTTTAATTTTAAATTAGTTAA-TTATATATATT
1 CTATTTTAATTTTAAATTAGTTAATTTA-ATATATT
* *
14987919 CTATTTTAGTTTTAAGTTAGTTAATTTAATATATT
1 CTATTTTAATTTTAAATTAGTTAATTTAATATATT
14987954 ATTAGCATTG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 29 0.91
36 3 0.09
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (35 bp):
CTATTTTAATTTTAAATTAGTTAATTTAATATATT
Found at i:14998839 original size:4 final size:4
Alignment explanation
Indices: 14998830--14998872 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
14998820 CTTTGCCTAA
* *
14998830 AAAT AAAT AAAT AAAT AAAT AAA- AATAA AAAT AAAA AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA-AT AAAT AAAT AAAT AAA
14998873 AAGGAGAGGT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
3 2 0.06
4 30 0.88
5 2 0.06
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (4 bp):
AAAT
Found at i:14998847 original size:12 final size:11
Alignment explanation
Indices: 14998828--14998874 Score: 55
Period size: 10 Copynumber: 4.4 Consensus size: 11
14998818 TACTTTGCCT
14998828 AAAAATAAATA
1 AAAAATAAATA
14998839 AATAAATAAAT-
1 AA-AAATAAATA
14998850 AAAAATAAA-A
1 AAAAATAAATA
14998860 ATAAAA-AAATA
1 A-AAAATAAATA
14998871 AAAA
1 AAAA
14998875 GGAGAGGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
10 14 0.44
11 10 0.31
12 8 0.25
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAATA
Found at i:14999838 original size:88 final size:87
Alignment explanation
Indices: 14999689--15000417 Score: 1012
Period size: 88 Copynumber: 8.3 Consensus size: 87
14999679 GAATTCGTAA
* *
14999689 GCCTTAACCCCTTAAGTAGTAGGGTAACAGGCTAAAAATTACAGATCTTGTCTCCCTAAGCAGTA
1 GCCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
*
14999754 GTGAAGCAGATCGAAGACGAAGG
65 GTGGAGCAGATCGAAGACGAAGG
* * * *
14999777 GCCTTAACCCTCTAAGCAGTAAGGTAATAGGCTGAAAATTACAAATCTCGTCTCCCTAAGCAGTA
1 GCCTTAACCC-CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
*
14999842 GTGGAGCAAATCGAAGACGAAGG
65 GTGGAGCAGATCGAAGACGAAGG
* *
14999865 GCCTTAACCCTCTAAGCAGTAGGGTAACAGGCTAAAAATTACAGATCTCGTCTCCCTAAGCAGTA
1 GCCTTAACCC-CTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
* *
14999930 GTGGACCAGATTGAAGACGAAGG
65 GTGGAGCAGATCGAAGACGAAGG
* * *
14999953 GCCTTAACCCCCTAAGCAGTAGGATAACAGGCTGAAAATTACAAATCTTGTCTCCCTAAGCAATA
1 GCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
*
15000018 GTGGAGCAGATCGAAGACTAAGG
65 GTGGAGCAGATCGAAGACGAAGG
*
15000041 GCCTTAACCCCTTAAGTAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
1 GCCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
* *
15000106 GTGGACCAGATCGAAGACAAAGG
65 GTGGAGCAGATCGAAGACGAAGG
* * * *
15000129 GCCTTAACCCCTTAAGTAGTAGGGTAACAGGCTAAAAATTACAGATCTCGTTTCCCTAAGCAGTA
1 GCCTTAACCCC-TAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
15000194 GTGGAGCAGATC-AAGACGAAGG
65 GTGGAGCAGATCGAAGACGAAGG
* * * * *
15000216 GCCTTAACCCCCTAAGTAGTAGGGTAACAGGCTGAAAATTACAAATCTTGTCTCCTTAAGTAGCA
1 GCCTTAA-CCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTA
* * *
15000281 GTGGAGTAGATCGAAGACAAATG
65 GTGGAGCAGATCGAAGACGAAGG
* * *
15000304 GCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCACCCTAAGCAGTA
1 GCCTT-AACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGT-
* * * *
15000369 AG-GAAACAGATCGAAGGCGATGG
64 AGTGGAGCAGATCGAAGACGAAGG
15000392 GCCTTAACCCCCTAAGCAGTAGGGTA
1 GCCTTAA-CCCCTAAGCAGTAGGGTA
15000418 GAGCAGATTG
Statistics
Matches: 574, Mismatches: 59, Indels: 16
0.88 0.09 0.02
Matches are distributed among these distances:
87 79 0.14
88 487 0.85
89 8 0.01
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.21
Consensus pattern (87 bp):
GCCTTAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTACAGATCTTGTCTCCCTAAGCAGTAG
TGGAGCAGATCGAAGACGAAGG
Found at i:15000438 original size:46 final size:45
Alignment explanation
Indices: 15000288--15000553 Score: 170
Period size: 44 Copynumber: 6.0 Consensus size: 45
15000278 GCAGTGGAGT
* *
15000288 AGATCGAAGACAAAT-GGCCTTAAACCCCTAAGCAGTAGGGT-AAC
1 AGATCGAAGAC-GATGGGCCTTAACCCCCTAAGCAGTAGGGTAAAC
* * ** * ** * * *
15000332 AG-GCTGAAAATTATAGATCTTATCACCCTAAGCAGTAAGG-AAAC
1 AGATC-GAAGACGATGGGCCTTAACCCCCTAAGCAGTAGGGTAAAC
* *
15000376 AGATCGAAGGCGATGGGCCTTAACCCCCTAAGCAGTAGGGTAGAGC
1 AGATCGAAGACGATGGGCCTTAACCCCCTAAGCAGTAGGGTA-AAC
* *
15000422 AGATTGAAGACGATGGGCCTTAACCCCCTAAGCAATAGGGT-AAC
1 AGATCGAAGACGATGGGCCTTAACCCCCTAAGCAGTAGGGTAAAC
* * ** * ** * * *
15000466 AG-GCTGAAAATTATAGATCTTATCACCCTAAGCAGTAAGGG--AAT
1 AGATC-GAAGACGATGGGCCTTAACCCCCTAAGCAGT-AGGGTAAAC
**
15000510 AGATCGAAGACGATAAGCCTTAACCCCCTTAAGCAGTAGGGTAA
1 AGATCGAAGACGATGGGCCTTAACCCCC-TAAGCAGTAGGGTAA
15000554 CAGGTTGAAA
Statistics
Matches: 163, Mismatches: 47, Indels: 22
0.70 0.20 0.09
Matches are distributed among these distances:
43 3 0.02
44 104 0.64
45 15 0.09
46 41 0.25
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (45 bp):
AGATCGAAGACGATGGGCCTTAACCCCCTAAGCAGTAGGGTAAAC
Found at i:15000450 original size:134 final size:135
Alignment explanation
Indices: 15000303--15000552 Score: 430
Period size: 134 Copynumber: 1.9 Consensus size: 135
15000293 GAAGACAAAT
*
15000303 GGCCTTAAACCCCTAAGCAGTAGGGTAACAGGCTGAAAATTATAGATCTTATCACCCTAAGCAGT
1 GGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAAAATTATAGATCTTATCACCCTAAGCAGT
* **
15000368 AAGGAAACAGATCGAAGGCGATGGGCCTTAACCCCC-TAAGCAGTAGGGTAGAGCAGATTGAAGA
66 AAGGAAACAGATCGAAGACGATAAGCCTTAACCCCCTTAAGCAGTAGGGTAGAGCAGATTGAAGA
15000432 CGATG
131 CGATG
*
15000437 GGCCTTAACCCCCTAAGCAATAGGGTAACAGGCTGAAAATTATAGATCTTATCACCCTAAGCAGT
1 GGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAAAATTATAGATCTTATCACCCTAAGCAGT
* *
15000502 AAGGGAATAGATCGAAGACGATAAGCCTTAACCCCCTTAAGCAGTAGGGTA
66 AAGGAAACAGATCGAAGACGATAAGCCTTAACCCCCTTAAGCAGTAGGGTA
15000553 ACAGGTTGAA
Statistics
Matches: 108, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
134 94 0.87
135 14 0.13
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.20
Consensus pattern (135 bp):
GGCCTTAAACCCCTAAGCAATAGGGTAACAGGCTGAAAATTATAGATCTTATCACCCTAAGCAGT
AAGGAAACAGATCGAAGACGATAAGCCTTAACCCCCTTAAGCAGTAGGGTAGAGCAGATTGAAGA
CGATG
Found at i:15000706 original size:45 final size:45
Alignment explanation
Indices: 15000654--15000761 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
15000644 ATTGAGGTCA
*
15000654 CAAGTCTTATCTTCCTAAAGTTACAGTGGAGCAGACTAAAAATAG
1 CAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAAATAG
* * * * *
15000699 CAGGTCTTATCTCCCTGAAGTTGCGGTGGAGCAGACTAAAGATAG
1 CAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAAATAG
15000744 CAAGTCTTATCTCCCTAA
1 CAAGTCTTATCTCCCTAA
15000762 GCAATAGTGG
Statistics
Matches: 55, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 55 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (45 bp):
CAAGTCTTATCTCCCTAAAGTTACAGTGGAGCAGACTAAAAATAG
Found at i:15000893 original size:86 final size:87
Alignment explanation
Indices: 15000748--15000944 Score: 279
Period size: 86 Copynumber: 2.3 Consensus size: 87
15000738 AGATAGCAAG
* * *
15000748 TCTTATCTCCCTAAGCAATAGTGGAACATATCAAAGATGATGGGCCTTAACCCCCTAAGCAATAG
1 TCTTATCTCCCTAAGCAATAGTGGAACAAATCAAAGACGATGAGCCTTAACCCCCTAAGCAATAG
* *
15000813 GGTAACAGGCTG-AATTACAGA
66 GGTAACAGGCTGAAATCACAAA
* * * *
15000834 TCTTATCTCCCTAAGCAGTAGTGGAGCAAATCAAAGACGGTGAGCCTTAACCCCCTAAGCAGTAG
1 TCTTATCTCCCTAAGCAATAGTGGAACAAATCAAAGACGATGAGCCTTAACCCCCTAAGCAATAG
15000899 GGTAACAGGCTGAAAATCACAAA
66 GGTAACAGGCTG-AAATCACAAA
* *
15000922 TCTTGTCTCTCTAAGCAATAGTG
1 TCTTATCTCCCTAAGCAATAGTG
15000945 TAGTAGATTT
Statistics
Matches: 97, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
86 70 0.72
88 27 0.28
ACGTcount: A:0.34, C:0.23, G:0.20, T:0.23
Consensus pattern (87 bp):
TCTTATCTCCCTAAGCAATAGTGGAACAAATCAAAGACGATGAGCCTTAACCCCCTAAGCAATAG
GGTAACAGGCTGAAATCACAAA
Found at i:15001089 original size:44 final size:44
Alignment explanation
Indices: 15001036--15001162 Score: 125
Period size: 44 Copynumber: 2.9 Consensus size: 44
15001026 TCAGCGGAGT
* *
15001036 AGATCGAAGCTACAAATCTCTTCTCCCTAAAATGGCACTAGGGA
1 AGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACTAGAGA
* * * * ** *
15001080 AGCTCGAAGCCAC-AAT-TCGTATCTCCTTGAAGTTCCAGC-AGAGT
1 AGATCGAAGCTACAAATCTC-T-TCTCCCTGAAATGGCA-CTAGAGA
15001124 AGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACT
1 AGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACT
15001163 GGAGCTGCTC
Statistics
Matches: 62, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
42 2 0.03
43 5 0.08
44 48 0.77
45 5 0.08
46 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
AGATCGAAGCTACAAATCTCTTCTCCCTGAAATGGCACTAGAGA
Found at i:15001098 original size:88 final size:88
Alignment explanation
Indices: 15001004--15001254 Score: 396
Period size: 88 Copynumber: 2.9 Consensus size: 88
15000994 TTGAAATCAT
* *
15001004 CAATTCGTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTAAAAT
1 CAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
*
15001069 GGCACTAGG-GAAGCTCGAAGCCA
66 GGCACT-GGAGAAGCTCAAAGCCA
*
15001092 CAATTCGTATCTCCTTGAAGTTCCAGCAGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
1 CAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
**
15001157 GGCACTGGAGCTGCTCAAAGCCA
66 GGCACTGGAGAAGCTCAAAGCCA
* * *
15001180 CAATTCGTATCTCTTTGAAGTTCCAGCGGAGTGGATCGAAGCTACAAACCTCTTCTCCCTGAAAT
1 CAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
*
15001245 GGCATTGGAG
66 GGCACTGGAG
15001255 CGATTGAAGC
Statistics
Matches: 151, Mismatches: 11, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
87 2 0.01
88 149 0.99
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (88 bp):
CAATTCGTATCTCCTTGAAGTTCCAGCGGAGTAGATCGAAGCTACAAATCTCTTCTCCCTGAAAT
GGCACTGGAGAAGCTCAAAGCCA
Found at i:15002777 original size:35 final size:35
Alignment explanation
Indices: 15002738--15002807 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
15002728 GCTACTTTCG
15002738 CTATTTTAATTTTAAGTTAGTTAA-TTATATATATT
1 CTATTTTAATTTTAAGTTAGTTAATTTA-ATATATT
*
15002773 CTATTTTATTTTTAAGTTAGTTAATTTAATATATT
1 CTATTTTAATTTTAAGTTAGTTAATTTAATATATT
15002808 ATTAGCATTG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
35 30 0.91
36 3 0.09
ACGTcount: A:0.33, C:0.03, G:0.06, T:0.59
Consensus pattern (35 bp):
CTATTTTAATTTTAAGTTAGTTAATTTAATATATT
Found at i:15002974 original size:3 final size:3
Alignment explanation
Indices: 15002966--15002997 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
15002956 TACTTATTAC
15002966 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
15002998 CATCACTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:15003084 original size:7 final size:7
Alignment explanation
Indices: 15003068--15003100 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
15003058 TCATTTCTTA
15003068 TTTTTAT
1 TTTTTAT
*
15003075 TTTAT-T
1 TTTTTAT
15003081 TTTTTAT
1 TTTTTAT
15003088 TTTTTAT
1 TTTTTAT
15003095 TTTTTA
1 TTTTTA
15003101 AAACTTTCTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTTAT
Found at i:15005788 original size:11 final size:11
Alignment explanation
Indices: 15005772--15005805 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
15005762 TTATATATTA
15005772 AATAAATTAAT
1 AATAAATTAAT
15005783 AATAAATTAAT
1 AATAAATTAAT
15005794 AATAAA-TAAT
1 AATAAATTAAT
15005804 AA
1 AA
15005806 AATATCTCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 6 0.26
11 17 0.74
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAAATTAAT
Found at i:15007808 original size:25 final size:25
Alignment explanation
Indices: 15007780--15007890 Score: 102
Period size: 25 Copynumber: 4.5 Consensus size: 25
15007770 ATACGAGCAC
*
15007780 ATAACGGGAAGCTC-TTTCGAGCCAT
1 ATAACGGGAAGCTCATGT-GAGCCAT
*
15007805 ATAATGGGAAGCTCATGTGAGCCAT
1 ATAACGGGAAGCTCATGTGAGCCAT
* *
15007830 GTAACGGGAAGCTCATGAGAGCCAT
1 ATAACGGGAAGCTCATGTGAGCCAT
* * * *
15007855 A-ATCGAGAAGTTCAAGTGAGCCA-
1 ATAACGGGAAGCTCATGTGAGCCAT
* *
15007878 ATATCTGGAAGCT
1 ATAACGGGAAGCT
15007891 TCGGAGATCC
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
23 1 0.01
24 25 0.36
25 42 0.60
26 2 0.03
ACGTcount: A:0.32, C:0.19, G:0.27, T:0.22
Consensus pattern (25 bp):
ATAACGGGAAGCTCATGTGAGCCAT
Found at i:15011096 original size:20 final size:21
Alignment explanation
Indices: 15011055--15011096 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
15011045 CCAATAATTG
*
15011055 ATTTATCTAATGGAATATTAA
1 ATTTATCTAATGGAATAATAA
15011076 ATTTAT-TAAT-GATATAATAA
1 ATTTATCTAATGGA-ATAATAA
15011096 A
1 A
15011097 AGATTAGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 2 0.11
20 11 0.58
21 6 0.32
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (21 bp):
ATTTATCTAATGGAATAATAA
Found at i:15011902 original size:26 final size:26
Alignment explanation
Indices: 15011873--15011954 Score: 155
Period size: 26 Copynumber: 3.2 Consensus size: 26
15011863 TGATACAAAT
*
15011873 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15011899 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15011925 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
15011951 TGAT
1 TGAT
15011955 GGGAATTTCA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.30, C:0.05, G:0.27, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:15013491 original size:26 final size:25
Alignment explanation
Indices: 15013439--15013491 Score: 63
Period size: 26 Copynumber: 2.0 Consensus size: 25
15013429 TTTACAGTTT
15013439 TACCCCTAGTAGGTAAATTACCGAAA
1 TACCCCTAG-AGGTAAATTACCGAAA
*
15013465 TACCCCTAG-GGTTAAATTGACCTAAA
1 TACCCCTAGAGG-TAAATT-ACCGAAA
15013491 T
1 T
15013492 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.08
25 6 0.25
26 16 0.67
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (25 bp):
TACCCCTAGAGGTAAATTACCGAAA
Found at i:15016362 original size:42 final size:42
Alignment explanation
Indices: 15016310--15016419 Score: 184
Period size: 42 Copynumber: 2.6 Consensus size: 42
15016300 ACTGGCACAG
*
15016310 AGCCTGCTAGGTAATAAACCTGATATCATACACCGGCATCAA
1 AGCCTGCTAGGTAATAAGCCTGATATCATACACCGGCATCAA
*
15016352 AGCCTACTAGGTAATAAGCCTGATATCATACACCGGCATCAA
1 AGCCTGCTAGGTAATAAGCCTGATATCATACACCGGCATCAA
* *
15016394 AGCCTGCTAGGCAATAAGCTTGATAT
1 AGCCTGCTAGGTAATAAGCCTGATAT
15016420 ATCACTGTTA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 63 1.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (42 bp):
AGCCTGCTAGGTAATAAGCCTGATATCATACACCGGCATCAA
Found at i:15016527 original size:14 final size:14
Alignment explanation
Indices: 15016510--15016550 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
15016500 TGCATTCGGC
15016510 TTCAACCATATAAA
1 TTCAACCATATAAA
*
15016524 TTCATACAAT-TAAA
1 TTCA-ACCATATAAA
15016538 TTCAA-CATATAAA
1 TTCAACCATATAAA
15016551 AATCATACAC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
12 2 0.09
13 5 0.22
14 12 0.52
15 4 0.17
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (14 bp):
TTCAACCATATAAA
Found at i:15016541 original size:28 final size:30
Alignment explanation
Indices: 15016510--15016572 Score: 87
Period size: 28 Copynumber: 2.2 Consensus size: 30
15016500 TGCATTCGGC
*
15016510 TTCAACCATAT-AAATTCATACA-ATT-AAA
1 TTCAA-CATATAAAAATCATACACATTCAAA
15016538 TTCAACATATAAAAATCATACACATTCAAA
1 TTCAACATATAAAAATCATACACATTCAAA
15016568 TTCAA
1 TTCAA
15016573 AAACGTTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 5 0.16
28 15 0.48
29 3 0.10
30 8 0.26
ACGTcount: A:0.51, C:0.19, G:0.00, T:0.30
Consensus pattern (30 bp):
TTCAACATATAAAAATCATACACATTCAAA
Found at i:15026993 original size:24 final size:24
Alignment explanation
Indices: 15026957--15027026 Score: 113
Period size: 24 Copynumber: 2.9 Consensus size: 24
15026947 GGGTCAACAT
*
15026957 TGGCACTAAGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
15026981 TGGCACTATGTGTGCGGAATTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
15027005 TGGCACTATGTGTGCTGATTTG
1 TGGCACTATGTGTGCGGATTTG
15027027 GATGTCAATA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.21, C:0.13, G:0.33, T:0.33
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:15028573 original size:19 final size:18
Alignment explanation
Indices: 15028549--15028585 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
15028539 TCAACAATTA
15028549 TTTATTTGTATTTATAAAT
1 TTTATTT-TATTTATAAAT
*
15028568 TTTATTTTATTTTTAAAT
1 TTTATTTTATTTATAAAT
15028586 GATAGAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTATTTTATTTATAAAT
Found at i:15032852 original size:20 final size:19
Alignment explanation
Indices: 15032824--15032865 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
15032814 CTATAAGTAA
15032824 TTTTAAAAAATTATGTATTT
1 TTTTAAAAAA-TATGTATTT
* *
15032844 TTTTTAAAAATATTTATTT
1 TTTTAAAAAATATGTATTT
15032863 TTT
1 TTT
15032866 AATATTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TTTTAAAAAATATGTATTT
Found at i:15037554 original size:85 final size:85
Alignment explanation
Indices: 15037410--15037577 Score: 212
Period size: 85 Copynumber: 2.0 Consensus size: 85
15037400 CTTGTAACTT
* * * * *
15037410 TAATCTGTTCCACTGCAACTTTAGGAAATAAGATTTGCTATCTTCACTCTGCTCCACTGCCACTT
1 TAATCTGCTCCACTGCAACTTTAGGAAATAAGATTTGCTAACTTCAATCTACTCCACTGCAACTT
* * *
15037475 TAGGGAGATAAGATTTGTGG
66 CAAGGAGATAAGAATTGTGG
* * * *
15037495 TAATCTGCTCCTCTGCAACTTTAGAGATATGAGATTTG-TAACTTCAATCTACTCTACTGCAACT
1 TAATCTGCTCCACTGCAACTTTAG-GAAATAAGATTTGCTAACTTCAATCTACTCCACTGCAACT
15037559 TCAAGGAGATAAGAATTGT
65 TCAAGGAGATAAGAATTGT
15037578 CATAATAACT
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
85 59 0.84
86 11 0.16
ACGTcount: A:0.29, C:0.20, G:0.17, T:0.34
Consensus pattern (85 bp):
TAATCTGCTCCACTGCAACTTTAGGAAATAAGATTTGCTAACTTCAATCTACTCCACTGCAACTT
CAAGGAGATAAGAATTGTGG
Found at i:15037559 original size:44 final size:43
Alignment explanation
Indices: 15037401--15037577 Score: 153
Period size: 44 Copynumber: 4.1 Consensus size: 43
15037391 AATTTGTGAC
* *
15037401 TTGTAACTTTAATCTGTTCCACTGCAACTTTAGGAAATAAGAT
1 TTGTAACTTCAATCTGCTCCACTGCAACTTTAGGAAATAAGAT
* * * *
15037444 TTGCTATCTTCACTCTGCTCCACTGCCACTTTAGGGAGATAAGAT
1 TTG-TAACTTCAATCTGCTCCACTGCAACTTTA-GGAAATAAGAT
** * * *
15037489 TTGT--GGT-AATCTGCTCCTCTGCAACTTTAGAGATATGAGAT
1 TTGTAACTTCAATCTGCTCCACTGCAACTTTAG-GAAATAAGAT
* * * * *
15037530 TTGTAACTTCAATCTACTCTACTGCAACTTCAAGGAGATAAGAA
1 TTGTAACTTCAATCTGCTCCACTGCAACTT-TAGGAAATAAGAT
15037574 TTGT
1 TTGT
15037578 CATAATAACT
Statistics
Matches: 105, Mismatches: 22, Indels: 13
0.75 0.16 0.09
Matches are distributed among these distances:
40 1 0.01
41 31 0.30
42 1 0.01
43 4 0.04
44 53 0.50
45 15 0.14
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (43 bp):
TTGTAACTTCAATCTGCTCCACTGCAACTTTAGGAAATAAGAT
Found at i:15037747 original size:44 final size:45
Alignment explanation
Indices: 15037642--15037757 Score: 153
Period size: 44 Copynumber: 2.6 Consensus size: 45
15037632 TGTAATCTAT
* * *
15037642 TCCACTGCAACTTCAGGGAAATAAGATCCACTATCTTCAACCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATCCAATAGCTTCAACCTGC
* * * **
15037687 TCCACTGCAACTTCAGGGAGATAAGGT-TAATAGCTTTAATTTGC
1 TCCACTGCAACTTCAGGGAGATAAGATCCAATAGCTTCAACCTGC
15037731 TCCACTGCAACTTCAGGGAGATAAGAT
1 TCCACTGCAACTTCAGGGAGATAAGAT
15037758 TCTCTATGGT
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
44 37 0.60
45 25 0.40
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (45 bp):
TCCACTGCAACTTCAGGGAGATAAGATCCAATAGCTTCAACCTGC
Found at i:15038367 original size:65 final size:65
Alignment explanation
Indices: 15038280--15038475 Score: 311
Period size: 65 Copynumber: 3.0 Consensus size: 65
15038270 TACAGTGGAC
* * * *
15038280 AAGAAGGAAATTGATTGGGAGCATAGCTCGAAATGAATAAATTAATCAAAGATAGCAAATGCAAT
1 AAGAAGGAAATTAATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATACAAT
* *
15038345 AAGAAGGAAATTAATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAATATAGAAAATACAAT
1 AAGAAGGAAATTAATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATACAAT
* * *
15038410 AAGAAGGAAATTTATTGAGAGCGTAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATTCAAT
1 AAGAAGGAAATTAATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATACAAT
15038475 A
1 A
15038476 TGGGTAAGAT
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 120 1.00
ACGTcount: A:0.50, C:0.10, G:0.18, T:0.22
Consensus pattern (65 bp):
AAGAAGGAAATTAATTGAGAGCATAGCTCGAAACGAATAAATTAATCAAAGATAGCAAATACAAT
Found at i:15042349 original size:23 final size:21
Alignment explanation
Indices: 15042297--15042392 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
15042287 CCTGATCAGT
** * *
15042297 ATACGACACATAAAGTGCCTA
1 ATACGACACACGAGGTGCCTG
*
15042318 AAACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
15042339 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
15042360 ATACGACACACGAGGTGCCTG
1 ATACGACACACGAGGTGCCTG
15042381 AAATACGACACA
1 --ATACGACACA
15042393 TAAAGTGCTT
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 57 0.85
23 10 0.15
ACGTcount: A:0.36, C:0.27, G:0.23, T:0.14
Consensus pattern (21 bp):
ATACGACACACGAGGTGCCTG
Found at i:15042706 original size:22 final size:21
Alignment explanation
Indices: 15042678--15042718 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
15042668 AATATCACAA
15042678 TCTCATATATTCATATCAATTT
1 TCTCATATATTCA-ATCAATTT
*
15042700 TCTCATATTTTCAATCAAT
1 TCTCATATATTCAATCAAT
15042719 ATATATTTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.49
Consensus pattern (21 bp):
TCTCATATATTCAATCAATTT
Found at i:15042804 original size:15 final size:15
Alignment explanation
Indices: 15042776--15042833 Score: 80
Period size: 15 Copynumber: 3.8 Consensus size: 15
15042766 TTATATATAT
*
15042776 TATATAATTAAATCAA
1 TATA-AATTCAATCAA
15042792 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
15042807 AATAATTTCAATCAA
1 TATAAATTCAATCAA
15042822 TATAAATTCAAT
1 TATAAATTCAAT
15042834 AAATTCATTG
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
15 33 0.89
16 4 0.11
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:15043939 original size:5 final size:5
Alignment explanation
Indices: 15043929--15043984 Score: 67
Period size: 5 Copynumber: 10.6 Consensus size: 5
15043919 TTACTTATTT
* *
15043929 ATATA ATATAA TATATA ATATA ATATA CTATA ATATA ATAATA ATATC
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA ATATA AT-ATA ATATA
15043977 ATATA ATA
1 ATATA ATA
15043985 ACAATTTCTT
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
5 33 0.75
6 7 0.16
7 4 0.09
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:15043945 original size:12 final size:12
Alignment explanation
Indices: 15043928--15043981 Score: 65
Period size: 12 Copynumber: 4.3 Consensus size: 12
15043918 TTTACTTATT
15043928 TATATAATATAA
1 TATATAATATAA
15043940 TATATAATATAATA
1 TATATAATAT-A-A
15043954 TACTATAATATAA
1 TA-TATAATATAA
*
15043967 TA-ATAATATCA
1 TATATAATATAA
15043978 TATA
1 TATA
15043982 ATAACAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
11 10 0.27
12 11 0.30
13 4 0.11
14 4 0.11
15 8 0.22
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.41
Consensus pattern (12 bp):
TATATAATATAA
Found at i:15044317 original size:19 final size:22
Alignment explanation
Indices: 15044293--15044339 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 22
15044283 ATCCTTTCCA
15044293 CTAATTACT-CTTAATT-AAG-
1 CTAATTACTACTTAATTAAAGT
*
15044312 CTAATT-TTACTTAATTAAAGT
1 CTAATTACTACTTAATTAAAGT
15044333 CTAATTA
1 CTAATTA
15044340 ACCACTCAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.57
20 3 0.13
21 6 0.26
ACGTcount: A:0.38, C:0.13, G:0.04, T:0.45
Consensus pattern (22 bp):
CTAATTACTACTTAATTAAAGT
Found at i:15045594 original size:80 final size:80
Alignment explanation
Indices: 15045461--15045612 Score: 270
Period size: 80 Copynumber: 1.9 Consensus size: 80
15045451 TTCCAAAGAA
15045461 TAAAAGAATCTAAGAATAATTATTCGTATAGTATGATTATGAATAAAATGGAAAGAATAAAAGAA
1 TAAAAGAATCTAAGAATAATTATTCGTATAGTATGATTATGAATAAAATGGAAAGAATAAAAGAA
15045526 TATTTGAAAGAAAGT
66 TATTTGAAAGAAAGT
* *
15045541 TAAAAGAATCTAAGAATAATTA-TCTTTATAGTATGATTATGAATGAAATGGAAAGAATAAAAGA
1 TAAAAGAATCTAAGAATAATTATTC-GTATAGTATGATTATGAATAAAATGGAAAGAATAAAAGA
15045605 ATATTTGA
65 ATATTTGA
15045613 TCACTTTATC
Statistics
Matches: 69, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
79 2 0.03
80 67 0.97
ACGTcount: A:0.51, C:0.03, G:0.16, T:0.30
Consensus pattern (80 bp):
TAAAAGAATCTAAGAATAATTATTCGTATAGTATGATTATGAATAAAATGGAAAGAATAAAAGAA
TATTTGAAAGAAAGT
Found at i:15051328 original size:39 final size:39
Alignment explanation
Indices: 15051285--15051362 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
15051275 AGAATTAATC
*
15051285 AAATCGTGGCTTGACCCTCTTATTTGTCCCCAGTGGAGT
1 AAATCATGGCTTGACCCTCTTATTTGTCCCCAGTGGAGT
*
15051324 AAATCATGGCTTGACCCTCTTATTTGTCCCTAGTGGAGT
1 AAATCATGGCTTGACCCTCTTATTTGTCCCCAGTGGAGT
15051363 CGCCAAGCTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (39 bp):
AAATCATGGCTTGACCCTCTTATTTGTCCCCAGTGGAGT
Found at i:15057780 original size:44 final size:44
Alignment explanation
Indices: 15057730--15057854 Score: 178
Period size: 44 Copynumber: 2.8 Consensus size: 44
15057720 TGTTTCAAGG
* *
15057730 ATGCCATAATATCTTTCAACCATGGTATTTCCTTTTTGAATATA
1 ATGCCATGATATCTTTCAATCATGGTATTTCCTTTTTGAATATA
* * *
15057774 ATGCCATGATATCTTTGAATCATTGTATTTCCTTTTTGAGTATA
1 ATGCCATGATATCTTTCAATCATGGTATTTCCTTTTTGAATATA
* * *
15057818 ATGTCATGATATCTTTCAATCATGGTTTTTCCCTTTT
1 ATGCCATGATATCTTTCAATCATGGTATTTCCTTTTT
15057855 CTCAAATCAA
Statistics
Matches: 71, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 71 1.00
ACGTcount: A:0.25, C:0.17, G:0.11, T:0.47
Consensus pattern (44 bp):
ATGCCATGATATCTTTCAATCATGGTATTTCCTTTTTGAATATA
Found at i:15068939 original size:24 final size:24
Alignment explanation
Indices: 15068912--15068957 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
15068902 ACAAATAATT
*
15068912 TAAAAATTATAAAAAATTAAAAAA
1 TAAAAAATATAAAAAATTAAAAAA
15068936 TAAAAAATATAAAAAATTAAAA
1 TAAAAAATATAAAAAATTAAAA
15068958 GTTCGTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (24 bp):
TAAAAAATATAAAAAATTAAAAAA
Found at i:15068957 original size:7 final size:8
Alignment explanation
Indices: 15068911--15068957 Score: 60
Period size: 9 Copynumber: 5.8 Consensus size: 8
15068901 AACAAATAAT
*
15068911 TTAAAAAT
1 TTAAAAAA
15068919 TATAAAAAA
1 T-TAAAAAA
15068928 TTAAAAAA
1 TTAAAAAA
15068936 -TAAAAAA
1 TTAAAAAA
15068943 TATAAAAAA
1 T-TAAAAAA
15068952 TTAAAA
1 TTAAAA
15068958 GTTCGTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
7 7 0.20
8 13 0.37
9 15 0.43
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
TTAAAAAA
Found at i:15074986 original size:12 final size:13
Alignment explanation
Indices: 15074971--15074999 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
15074961 AAAATAGATC
15074971 AAAATTAAAA-TT
1 AAAATTAAAATTT
15074983 AAAATTAAAATTT
1 AAAATTAAAATTT
15074996 AAAA
1 AAAA
15075000 AATTCATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
AAAATTAAAATTT
Found at i:15088086 original size:42 final size:41
Alignment explanation
Indices: 15088022--15088181 Score: 133
Period size: 42 Copynumber: 3.8 Consensus size: 41
15088012 TCGTGTTTAC
* * *
15088022 TTTCCGTTTAGCTCTCACGAGCTTCTATTCAACTCATATGAG
1 TTTCCGTTAAGCTCTTATGAGCTTCTATTCAAC-CATATGAG
* * * * *
15088064 TTTCCGTTAAGCTCTTTTGAGCTTCTGTTTAACCCGTATAAG
1 TTTCCGTTAAGCTCTTATGAGCTTCTATTCAA-CCATATGAG
** * *
15088106 TTTCCGTTCAA-CTCTTATGAGCTTCCGTTCAACCTTTATGGG
1 TTTCCGTT-AAGCTCTTATGAGCTTCTATTCAACC-ATATGAG
* * * *
15088148 TTTCTGTTTAGCACTTATGTGCTTCTATTCAACC
1 TTTCCGTTAAGCTCTTATGAGCTTCTATTCAACC
15088182 TTTGGGCTTC
Statistics
Matches: 94, Mismatches: 20, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
41 3 0.03
42 88 0.94
43 3 0.03
ACGTcount: A:0.19, C:0.24, G:0.15, T:0.42
Consensus pattern (41 bp):
TTTCCGTTAAGCTCTTATGAGCTTCTATTCAACCATATGAG
Found at i:15088133 original size:21 final size:21
Alignment explanation
Indices: 15088040--15088138 Score: 83
Period size: 21 Copynumber: 4.7 Consensus size: 21
15088030 TAGCTCTCAC
** *
15088040 GAGCTTCTATTCAACTCATAT
1 GAGCTTCCGTTCAACTCTTAT
* *
15088061 GAGTTTCCGTT-AAGCTCTTTT
1 GAGCTTCCGTTCAA-CTCTTAT
* * * *
15088082 GAGCTTCTGTTTAACCCGTAT
1 GAGCTTCCGTTCAACTCTTAT
* *
15088103 AAGTTTCCGTTCAACTCTTAT
1 GAGCTTCCGTTCAACTCTTAT
15088124 GAGCTTCCGTTCAAC
1 GAGCTTCCGTTCAAC
15088139 CTTTATGGGT
Statistics
Matches: 58, Mismatches: 18, Indels: 4
0.73 0.22 0.05
Matches are distributed among these distances:
20 2 0.03
21 54 0.93
22 2 0.03
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.39
Consensus pattern (21 bp):
GAGCTTCCGTTCAACTCTTAT
Found at i:15088179 original size:63 final size:63
Alignment explanation
Indices: 15088041--15088180 Score: 140
Period size: 63 Copynumber: 2.2 Consensus size: 63
15088031 AGCTCTCACG
* *
15088041 AGCTTCTATTCAACTCATATGAGTTTCCGTTAAGCTCTTTTGAGCTTCTGTTTAACCCGTATA
1 AGCTTCTATTCAACTCATATGAGCTTCCGTTAAGCTCTTTTGAGCTTCTGTTTAACACGTATA
* ** * * * * * *
15088104 AGTTTCCGTTCAACTCTTATGAGCTTCCGTTCAA-C-CTTTATGGGTTTCTGTTTAGCACTTATG
1 AGCTTCTATTCAACTCATATGAGCTTCCGTT-AAGCTCTTT-TGAGCTTCTGTTTAACACGTATA
*
15088167 TGCTTCTATTCAAC
1 AGCTTCTATTCAAC
15088181 CTTTGGGCTT
Statistics
Matches: 60, Mismatches: 15, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
62 4 0.07
63 54 0.90
64 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (63 bp):
AGCTTCTATTCAACTCATATGAGCTTCCGTTAAGCTCTTTTGAGCTTCTGTTTAACACGTATA
Found at i:15088767 original size:72 final size:73
Alignment explanation
Indices: 15088658--15088794 Score: 222
Period size: 72 Copynumber: 1.9 Consensus size: 73
15088648 CACACAAGTG
* * **
15088658 TGTGGCTTGGCCGTGTGACCCCTGCATTTTAATTTCACAAATTAATATGCTCACACGGCCTAGCA
1 TGTGGCTTGGCCATGCGACCCCTGCACCTTAATTTCACAAATTAATATGCTCACACGGCCTAGCA
15088723 CATGGGCA
66 CATGGGCA
*
15088731 TGTGGCTTGG-CATGCGACCCCTGTACCTTAATTTCACAAATTAATATGCTCACACGGCCTAGCA
1 TGTGGCTTGGCCATGCGACCCCTGCACCTTAATTTCACAAATTAATATGCTCACACGGCCTAGCA
15088795 GACGGACGTG
Statistics
Matches: 59, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
72 49 0.83
73 10 0.17
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (73 bp):
TGTGGCTTGGCCATGCGACCCCTGCACCTTAATTTCACAAATTAATATGCTCACACGGCCTAGCA
CATGGGCA
Found at i:15088915 original size:67 final size:67
Alignment explanation
Indices: 15088830--15088958 Score: 199
Period size: 67 Copynumber: 1.9 Consensus size: 67
15088820 GCCCAAGTCA
*
15088830 GAGAGTTACACAGGCTGGGACACGA-TCGTATGCCTCACATCGAATGTCCTCACGGCCTAAGACA
1 GAGAGTTACACAGGCTGGGACACGACT-GTATGCCTCACATCGAATGTCCACACGGCCTAAGACA
15088894 TGG
65 TGG
* *
15088897 GAGAGTTACAC-GGTCTGGGACACGACTGTGTGCCTCATATCGAATGTCCACACGGCCTAAGA
1 GAGAGTTACACAGG-CTGGGACACGACTGTATGCCTCACATCGAATGTCCACACGGCCTAAGA
15088959 AACGAGTGTG
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
66 2 0.04
67 54 0.95
68 1 0.02
ACGTcount: A:0.26, C:0.26, G:0.27, T:0.20
Consensus pattern (67 bp):
GAGAGTTACACAGGCTGGGACACGACTGTATGCCTCACATCGAATGTCCACACGGCCTAAGACAT
GG
Found at i:15092506 original size:40 final size:39
Alignment explanation
Indices: 15092443--15092528 Score: 118
Period size: 40 Copynumber: 2.2 Consensus size: 39
15092433 TAACGATTTA
**
15092443 TCGGCTAAAATGGCACTTAGTGTGCGGTTCGAAATAGCT
1 TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
* * *
15092482 TCGGCTAAAAGTGGCACTTGGTGTGCAATTTGAGATAGCT
1 TCGGCTAAAA-TGGCACTTAGTGTGCAATTCGAAATAGCT
15092522 TCGGCTA
1 TCGGCTA
15092529 TATATATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
39 10 0.24
40 31 0.76
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.29
Consensus pattern (39 bp):
TCGGCTAAAATGGCACTTAGTGTGCAATTCGAAATAGCT
Found at i:15102920 original size:41 final size:42
Alignment explanation
Indices: 15102861--15102964 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
15102851 TTAGCTTTTG
* * * * * *
15102861 TTCAACTCATATGAGTTTCT-ATCAGCTTTTTTGAGCTTCTA
1 TTCAACCCTTATGGGTTTCTGATCAGCTCTTATGAGCTTCCA
* * *
15102902 TTTAACCCTTATGGGTTTCTGTTCAGCTCTTATGAGCTTCCG
1 TTCAACCCTTATGGGTTTCTGATCAGCTCTTATGAGCTTCCA
15102944 TTCAACCCTTATGGGTTTCTG
1 TTCAACCCTTATGGGTTTCTG
15102965 TTTAGCATTA
Statistics
Matches: 52, Mismatches: 10, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
41 16 0.31
42 36 0.69
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.44
Consensus pattern (42 bp):
TTCAACCCTTATGGGTTTCTGATCAGCTCTTATGAGCTTCCA
Found at i:15102933 original size:21 final size:20
Alignment explanation
Indices: 15102908--15103023 Score: 108
Period size: 20 Copynumber: 5.8 Consensus size: 20
15102898 TCTATTTAAC
*
15102908 CCTTATGGGTTTCTGTTCAG
1 CCTTATGGGCTTCTGTTCAG
* * *
15102928 CTCTTATGAGCTTCCGTTCAAC
1 C-CTTATGGGCTTCTGTTC-AG
* *
15102950 CCTTATGGGTTTCTGTTTAG
1 CCTTATGGGCTTCTGTTCAG
* * *
15102970 CATTATGTGCTTCTGTTTAG
1 CCTTATGGGCTTCTGTTCAG
* *
15102990 CATTATGTGCTTCTGTTCAG
1 CCTTATGGGCTTCTGTTCAG
15103010 CCTT-TGGGCTTCTG
1 CCTTATGGGCTTCTG
15103024 AAAATGATGT
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
19 9 0.11
20 41 0.52
21 27 0.34
22 2 0.03
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.45
Consensus pattern (20 bp):
CCTTATGGGCTTCTGTTCAG
Found at i:15102938 original size:42 final size:41
Alignment explanation
Indices: 15102892--15103023 Score: 142
Period size: 42 Copynumber: 3.2 Consensus size: 41
15102882 TCAGCTTTTT
*
15102892 TGAGCTTCTATTTAACCCTTATGGGTTTCTGTTCAGCTCTTA
1 TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGC-CTTA
* * * *
15102934 TGAGCTTCCGTTCAACCCTTATGGGTTTCTGTTTAGCATTA
1 TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCCTTA
* * * * *
15102975 TGTGCTTCTGTTT-AGCATTATGTGCTTCTGTTCAGCCTT-
1 TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCCTTA
*
15103014 TGGGCTTCTG
1 TGAGCTTCTG
15103024 AAAATGATGT
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
39 9 0.12
40 20 0.27
41 13 0.17
42 33 0.44
ACGTcount: A:0.14, C:0.21, G:0.20, T:0.45
Consensus pattern (41 bp):
TGAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAGCCTTA
Found at i:15124709 original size:12 final size:12
Alignment explanation
Indices: 15124692--15124722 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
15124682 CAAAAATCAA
15124692 ATAATAGAATTC
1 ATAATAGAATTC
15124704 ATAATAGAATTC
1 ATAATAGAATTC
*
15124716 ATCATAG
1 ATAATAG
15124723 GGTTCATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.48, C:0.10, G:0.10, T:0.32
Consensus pattern (12 bp):
ATAATAGAATTC
Found at i:15125930 original size:23 final size:23
Alignment explanation
Indices: 15125904--15125951 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
15125894 ATAGAATAAA
15125904 TTTAGTGTTACTTGTGAATTTGT
1 TTTAGTGTTACTTGTGAATTTGT
15125927 TTTAGTGTTACTTGTGAATTTGT
1 TTTAGTGTTACTTGTGAATTTGT
15125950 TT
1 TT
15125952 AACTTTCTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.17, C:0.04, G:0.21, T:0.58
Consensus pattern (23 bp):
TTTAGTGTTACTTGTGAATTTGT
Found at i:15129487 original size:42 final size:42
Alignment explanation
Indices: 15129419--15129504 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
15129409 CTTAATCAAA
*
15129419 GAAAAACCTTAGCATCGTATTCATTAAATTTATTCAGAAGCT
1 GAAAAACCTTAGCATCGTATTCATTAAATTTAATCAGAAGCT
* *
15129461 GAAACACCTTAGCATCGTATTGATTAAATTTAATCAGAAGCT
1 GAAAAACCTTAGCATCGTATTCATTAAATTTAATCAGAAGCT
15129503 GA
1 GA
15129505 TAAATTCATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.31
Consensus pattern (42 bp):
GAAAAACCTTAGCATCGTATTCATTAAATTTAATCAGAAGCT
Found at i:15136034 original size:29 final size:31
Alignment explanation
Indices: 15136002--15136059 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
15135992 TGTGCATTAT
*
15136002 ATATATATGCTGAA-TT-AAGT-TGTAAAAGA
1 ATATAAATG-TGAAGTTGAAGTATGTAAAAGA
15136031 ATATAAATGTGAAGTTGAAGTATGTAAAA
1 ATATAAATGTGAAGTTGAAGTATGTAAAA
15136060 TATGAACTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
28 4 0.16
29 10 0.40
30 4 0.16
31 7 0.28
ACGTcount: A:0.47, C:0.02, G:0.19, T:0.33
Consensus pattern (31 bp):
ATATAAATGTGAAGTTGAAGTATGTAAAAGA
Found at i:15139017 original size:15 final size:15
Alignment explanation
Indices: 15138997--15139026 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15138987 TTTCATTTCA
*
15138997 TCATTCATTAACCTT
1 TCATTCATAAACCTT
15139012 TCATTCATAAACCTT
1 TCATTCATAAACCTT
15139027 CTATTTTCCC
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:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (15 bp):
TCATTCATAAACCTT
Found at i:15140174 original size:20 final size:22
Alignment explanation
Indices: 15140122--15140178 Score: 82
Period size: 24 Copynumber: 2.6 Consensus size: 22
15140112 GGTATTTTGG
15140122 TTAGCCTTTGTGGCTTACTTCTA
1 TTAGCCTTTGTGGC-TACTTCTA
15140145 TTAGGCCTTTGTGGC-A-TTCTA
1 TTA-GCCTTTGTGGCTACTTCTA
15140166 TTAGCCTTTGTGG
1 TTAGCCTTTGTGG
15140179 TGTATTCTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
20 10 0.30
21 8 0.24
22 1 0.03
23 3 0.09
24 11 0.33
ACGTcount: A:0.12, C:0.19, G:0.23, T:0.46
Consensus pattern (22 bp):
TTAGCCTTTGTGGCTACTTCTA
Found at i:15142900 original size:26 final size:26
Alignment explanation
Indices: 15142870--15142925 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
15142860 TGAAATTCCC
15142870 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
15142896 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
15142922 ATCA
1 ATCA
15142926 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:15147785 original size:47 final size:47
Alignment explanation
Indices: 15147727--15148166 Score: 731
Period size: 47 Copynumber: 9.4 Consensus size: 47
15147717 CAGCCAAGAC
15147727 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
15147774 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
15147821 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
15147868 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
15147915 AGTG--TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
15147960 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
15148007 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
15148054 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * * *
15148101 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATATGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
15148148 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
15148167 TCCCGAAGGG
Statistics
Matches: 371, Mismatches: 20, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
45 44 0.12
47 327 0.88
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:15148047 original size:186 final size:186
Alignment explanation
Indices: 15147733--15148109 Score: 709
Period size: 186 Copynumber: 2.0 Consensus size: 186
15147723 AGACAGTGTA
*
15147733 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
* * *
15147798 ATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAAT
66 ATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAAT
15147863 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
131 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
*
15147919 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTA
1 TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
15147984 ATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAAT
66 ATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAAT
15148049 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
131 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
15148105 TATAT
1 TATAT
15148110 ATGTGACAGG
Statistics
Matches: 186, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
186 186 1.00
ACGTcount: A:0.32, C:0.08, G:0.29, T:0.30
Consensus pattern (186 bp):
TATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
ATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAAT
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
Found at i:15148335 original size:37 final size:37
Alignment explanation
Indices: 15148285--15148363 Score: 117
Period size: 37 Copynumber: 2.1 Consensus size: 37
15148275 CCGAGCTCTA
15148285 AAGACCCGATAACTACGTGTGG-GAATT-TAGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTAT-GTCCGGGT
*
15148322 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
15148359 AAGAC
1 AAGAC
15148364 TTCGTAATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
37 37 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:15154350 original size:26 final size:26
Alignment explanation
Indices: 15154320--15154375 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
15154310 TGAAATTCCC
15154320 ATCATGAAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
*
15154346 ATCATGGAACATTTACCTAACCCATT
1 ATCATGAAACATTTACCTAACCCATT
15154372 ATCA
1 ATCA
15154376 ATTTGTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (26 bp):
ATCATGAAACATTTACCTAACCCATT
Found at i:15157581 original size:26 final size:26
Alignment explanation
Indices: 15157552--15157661 Score: 168
Period size: 26 Copynumber: 4.2 Consensus size: 26
15157542 TGATACAAAT
15157552 TGATAATAGGTTAGGTAAATG-TTCAA
1 TGATAATAGGTTAGGTAAATGTTTC-A
*
15157578 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
15157604 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
* *
15157630 TGATAGTGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
15157656 TGATAA
1 TGATAA
15157662 GAATTTCATG
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
26 76 0.97
27 2 0.03
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Found at i:15159323 original size:27 final size:27
Alignment explanation
Indices: 15159282--15159394 Score: 129
Period size: 27 Copynumber: 4.2 Consensus size: 27
15159272 GAGGAACCGT
*
15159282 TCTGGTGGCTATGCCACAAATATCTGA
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15159309 TCTGGTGGCTCTGCCACATATATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
* *
15159336 TCTGGTGGCTCTGCCACGATTATCTGTA
1 TCTGGTGGCTCTGCCACAAATATCTG-A
* * * *
15159364 TCTGGTGACTCTGTCAC-ATTATCTGT
1 TCTGGTGGCTCTGCCACAAATATCTGA
15159390 TCTGG
1 TCTGG
15159395 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
26 5 0.07
27 55 0.73
28 15 0.20
ACGTcount: A:0.17, C:0.24, G:0.23, T:0.36
Consensus pattern (27 bp):
TCTGGTGGCTCTGCCACAAATATCTGA
Found at i:15159387 original size:54 final size:54
Alignment explanation
Indices: 15159280--15159394 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
15159270 TAGAGGAACC
*
15159280 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
* * * *
15159334 GTTCTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCTG-ATCTGGTGACTCTGCCACATATATCT
15159388 GTTCTGG
1 GTTCTGG
15159395 CAGCCATGCT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGACTCTGCCACATATATCT
Found at i:15159480 original size:19 final size:22
Alignment explanation
Indices: 15159456--15159495 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 22
15159446 CTCCCCACAC
15159456 GGTGTA-A-GGTTGG-TATGGG
1 GGTGTATACGGTTGGATATGGG
15159475 GGTGTATACGGTTGGATATGG
1 GGTGTATACGGTTGGATATGG
15159496 TTGGGTTTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 6 0.33
20 1 0.06
21 6 0.33
22 5 0.28
ACGTcount: A:0.17, C:0.03, G:0.47, T:0.33
Consensus pattern (22 bp):
GGTGTATACGGTTGGATATGGG
Found at i:15174119 original size:13 final size:13
Alignment explanation
Indices: 15174101--15174125 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15174091 TTACTTTAGT
15174101 TATAATATAATAA
1 TATAATATAATAA
15174114 TATAATATAATA
1 TATAATATAATA
15174126 TTTTCTTAAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
TATAATATAATAA
Found at i:15177297 original size:60 final size:59
Alignment explanation
Indices: 15177233--15177371 Score: 183
Period size: 60 Copynumber: 2.3 Consensus size: 59
15177223 CCAACTGTGT
*
15177233 TGATATGGGCAAGGCCCAATATA-TCTCGACT-TGTAATAGGGCTACGGCCCAGATTGATAC
1 TGATATGGGCAAGGCCCAATATACTCT-GA-TATGTAA-AGGGCTACGGCCCAGATTAATAC
* * *
15177293 TGATATGGGCTAGGCCCAATATACTCTGATACTGTAAAGGGCTATGGCCCAGATTAATAT
1 TGATATGGGCAAGGCCCAATATACTCTGATA-TGTAAAGGGCTACGGCCCAGATTAATAC
15177353 TGATATGGGCTAAGGCCCA
1 TGATATGGGC-AAGGCCCA
15177372 GTTAACACTA
Statistics
Matches: 70, Mismatches: 5, Indels: 7
0.85 0.06 0.09
Matches are distributed among these distances:
59 1 0.01
60 54 0.77
61 15 0.21
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (59 bp):
TGATATGGGCAAGGCCCAATATACTCTGATATGTAAAGGGCTACGGCCCAGATTAATAC
Found at i:15183494 original size:31 final size:32
Alignment explanation
Indices: 15183441--15183500 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
15183431 CACATAACAA
15183441 TAATCATTCAAAGAAATATCAATT-TCATAAG
1 TAATCATTCAAAGAAATATCAATTCTCATAAG
* *
15183472 TAATCATTCAAA-ATACTTTCAATTCTCAT
1 TAATCATTCAAAGA-AATATCAATTCTCAT
15183501 CTCTTACTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 1 0.04
31 20 0.80
32 4 0.16
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.37
Consensus pattern (32 bp):
TAATCATTCAAAGAAATATCAATTCTCATAAG
Found at i:15187533 original size:44 final size:44
Alignment explanation
Indices: 15187437--15187525 Score: 178
Period size: 44 Copynumber: 2.0 Consensus size: 44
15187427 CTCCATTTGA
15187437 CCCTTCTTTCTCATAGCTTTCACTGAGGAAGAAAGGTTCATGTT
1 CCCTTCTTTCTCATAGCTTTCACTGAGGAAGAAAGGTTCATGTT
15187481 CCCTTCTTTCTCATAGCTTTCACTGAGGAAGAAAGGTTCATGTT
1 CCCTTCTTTCTCATAGCTTTCACTGAGGAAGAAAGGTTCATGTT
15187525 C
1 C
15187526 TTTTCTTTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.22, C:0.24, G:0.18, T:0.36
Consensus pattern (44 bp):
CCCTTCTTTCTCATAGCTTTCACTGAGGAAGAAAGGTTCATGTT
Found at i:15191395 original size:20 final size:19
Alignment explanation
Indices: 15191350--15191387 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
15191340 CATCCAAACA
*
15191350 CCAGAAAAGTAAATCATTT
1 CCAGAAAAATAAATCATTT
15191369 CCAGAAAAATAAATCATTT
1 CCAGAAAAATAAATCATTT
15191388 TTCAGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.16, G:0.08, T:0.26
Consensus pattern (19 bp):
CCAGAAAAATAAATCATTT
Found at i:15199362 original size:31 final size:32
Alignment explanation
Indices: 15199324--15199384 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
15199314 TGGAATAAAC
* * *
15199324 TATATATAT-AATAAGTTTGAAAGGAAATACG
1 TATATATATGAATAAATTTAAAAGAAAATACG
15199355 TATATATATGAATAAATTTAAAAGAAAATA
1 TATATATATGAATAAATTTAAAAGAAAATA
15199385 TAGCCATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (32 bp):
TATATATATGAATAAATTTAAAAGAAAATACG
Found at i:15199511 original size:23 final size:22
Alignment explanation
Indices: 15199468--15199516 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
15199458 ATTAAACAAT
*
15199468 TAAACAAAAAAATCAAATGAAA
1 TAAACAAAAAAACCAAATGAAA
*
15199490 GTAAA-AAAAAAACCAAGTTGAAA
1 -TAAACAAAAAAACCAA-ATGAAA
15199513 TAAA
1 TAAA
15199517 GTAAAACTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 14 0.61
23 9 0.39
ACGTcount: A:0.69, C:0.08, G:0.08, T:0.14
Consensus pattern (22 bp):
TAAACAAAAAAACCAAATGAAA
Found at i:15202652 original size:46 final size:45
Alignment explanation
Indices: 15202506--15202675 Score: 227
Period size: 46 Copynumber: 3.7 Consensus size: 45
15202496 GTGGTATGTG
15202506 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCGCATT-ATGAA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-C-CATTGATGAA
*
15202552 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATGTTATGAA
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCAT-TGATGAA
* * *
15202598 AGCCAGTGTAAGACATGTCTGGGACATGCATC-GTCATTGAAACGAG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATTG--ATGAA
* *
15202644 AGCTAGTGTAAGACATGTCTGGGACATACATC
1 AGCCAGTGTAAGACATGTCTGGGACATGCATC
15202676 AGCCTCGAGA
Statistics
Matches: 114, Mismatches: 6, Indels: 8
0.89 0.05 0.06
Matches are distributed among these distances:
44 4 0.04
45 6 0.05
46 104 0.91
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (45 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCATTGATGAA
Found at i:15202867 original size:49 final size:49
Alignment explanation
Indices: 15202748--15202869 Score: 147
Period size: 49 Copynumber: 2.5 Consensus size: 49
15202738 TAAGTTTAAG
* * *
15202748 ACCTGTCTGGGACATGGCATCGACACCGATAGATGAGAGCCAGTGTAAG
1 ACCTGTCTGGGACATGGCATCGACACCGATAGATAAAAGCCAGTGTAAA
* * * *
15202797 ACCTGTCTAGGACATGGCATCGGC-CTCGATATATAAAAGTCAGTGTAAA
1 ACCTGTCTGGGACATGGCATCGACAC-CGATAGATAAAAGCCAGTGTAAA
* *
15202846 ACCTGTCTGGGACACGTCATCGAC
1 ACCTGTCTGGGACATGGCATCGAC
15202870 TTTAATGTAC
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 1 0.02
49 60 0.98
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (49 bp):
ACCTGTCTGGGACATGGCATCGACACCGATAGATAAAAGCCAGTGTAAA
Found at i:15205861 original size:17 final size:17
Alignment explanation
Indices: 15205836--15205870 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
15205826 CTTTAGATAT
* *
15205836 GAATTGTTCTAATTTTG
1 GAATGGTTCTAAATTTG
15205853 GAATGGTTCTAAATTTG
1 GAATGGTTCTAAATTTG
15205870 G
1 G
15205871 TGCAAATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.26, C:0.06, G:0.23, T:0.46
Consensus pattern (17 bp):
GAATGGTTCTAAATTTG
Found at i:15206980 original size:21 final size:21
Alignment explanation
Indices: 15206956--15207019 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
15206946 TTTATTATAT
15206956 TAGACCAAGTTTAATTTAAAC
1 TAGACCAAGTTTAATTTAAAC
**** * *
15206977 TAGATTTTG-TT-A-TTATAT
1 TAGACCAAGTTTAATTTAAAC
15206995 TAGACCAAGTTTAATTTAAAC
1 TAGACCAAGTTTAATTTAAAC
15207016 TAGA
1 TAGA
15207020 TATTATGTTT
Statistics
Matches: 28, Mismatches: 12, Indels: 6
0.61 0.26 0.13
Matches are distributed among these distances:
18 9 0.32
19 3 0.11
20 3 0.11
21 13 0.46
ACGTcount: A:0.39, C:0.09, G:0.11, T:0.41
Consensus pattern (21 bp):
TAGACCAAGTTTAATTTAAAC
Found at i:15208880 original size:19 final size:19
Alignment explanation
Indices: 15208858--15208895 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
15208848 TTATATATTA
15208858 TTAATACAATTATTGATAT
1 TTAATACAATTATTGATAT
15208877 TTAATACAATTATTGATAT
1 TTAATACAATTATTGATAT
15208896 AACATCATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
TTAATACAATTATTGATAT
Found at i:15209233 original size:22 final size:22
Alignment explanation
Indices: 15209190--15209244 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
15209180 AACAATTTAT
* *
15209190 ATATTTTATTATTTATT-TTAAA
1 ATATTTTA-AATTTATTATAAAA
15209212 ATATTTTAAATTTGATTATAAAA
1 ATATTTTAAATTT-ATTATAAAA
15209235 ATGATTTTAA
1 AT-ATTTTAA
15209245 TAATTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 4 0.14
22 11 0.39
23 6 0.21
24 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (22 bp):
ATATTTTAAATTTATTATAAAA
Found at i:15209303 original size:2 final size:2
Alignment explanation
Indices: 15209296--15209333 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
15209286 TTACAGTTTA
*
15209296 AT AT AT AT AC AT AT AT AT AT -T CAT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT -AT AT AT AT AT AT AT AT
15209334 CGGTATTTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
1 1 0.03
2 30 0.94
3 1 0.03
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:15209313 original size:12 final size:12
Alignment explanation
Indices: 15209296--15209333 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
15209286 TTACAGTTTA
15209296 ATATATATACAT
1 ATATATATACAT
*
15209308 ATATATATTCAT
1 ATATATATACAT
*
15209320 ATATATATATAT
1 ATATATATACAT
15209332 AT
1 AT
15209334 CGGTATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (12 bp):
ATATATATACAT
Found at i:15209960 original size:16 final size:16
Alignment explanation
Indices: 15209939--15210003 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
15209929 TCAAATTTCT
15209939 TTAAAAAAATAAAATA
1 TTAAAAAAATAAAATA
* * *
15209955 TTAAAATACTCAAATA
1 TTAAAAAAATAAAATA
**
15209971 TTCTAAAATTATAATAA-A
1 -T-TAAAAAAATAA-AATA
15209989 TTAAAAAAATAAAAT
1 TTAAAAAAATAAAAT
15210004 GTACATTATA
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
15 2 0.05
16 22 0.59
17 2 0.05
18 9 0.24
19 2 0.05
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAAAAAATAAAATA
Found at i:15211471 original size:54 final size:54
Alignment explanation
Indices: 15211412--15211580 Score: 207
Period size: 54 Copynumber: 3.1 Consensus size: 54
15211402 GAAGCTCGGC
*
15211412 ATGAAGCTCATCATGC-AGAAGA-AAAAGTTGCAGATGCGATGGAGCATGGAAGAG
1 ATGAAGCTCATCATGCGA-AAGATGAAA-TTGCAGATGCGATGGAGCATGGAAGAG
* * * * * *
15211466 GTGAAGCTCATCATACGAAAGATGAAACTGCAGATGCAATGCAGCATAGAAGAG
1 ATGAAGCTCATCATGCGAAAGATGAAATTGCAGATGCGATGGAGCATGGAAGAG
* * *
15211520 ATGAAGCCCATCATGCGAAAGATGAAATTGCAGATGCGAAGGAGCATGGAACAG
1 ATGAAGCTCATCATGCGAAAGATGAAATTGCAGATGCGATGGAGCATGGAAGAG
*
15211574 ATAAAGC
1 ATGAAGC
15211581 AGCAGATACA
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
54 92 0.96
55 4 0.04
ACGTcount: A:0.40, C:0.15, G:0.28, T:0.16
Consensus pattern (54 bp):
ATGAAGCTCATCATGCGAAAGATGAAATTGCAGATGCGATGGAGCATGGAAGAG
Found at i:15211989 original size:39 final size:39
Alignment explanation
Indices: 15211935--15212014 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
15211925 CATATGCATC
*
15211935 TGGTGATAAGATCATGAGTGAAGATTTTATGGCTAAGTT
1 TGGTGATAAGATCATGAGTGAAGATGTTATGGCTAAGTT
*
15211974 TGGTGATAAGATCATGGGTGAAGATGTTATGGCTAAGTT
1 TGGTGATAAGATCATGAGTGAAGATGTTATGGCTAAGTT
15212013 TG
1 TG
15212015 AGGCTTTGAC
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.29, C:0.05, G:0.31, T:0.35
Consensus pattern (39 bp):
TGGTGATAAGATCATGAGTGAAGATGTTATGGCTAAGTT
Found at i:15212277 original size:180 final size:177
Alignment explanation
Indices: 15211974--15212299 Score: 474
Period size: 180 Copynumber: 1.8 Consensus size: 177
15211964 TGGCTAAGTT
* * *
15211974 TGGTGATAAGATCATGGGTGAAGATGTTATGGCTAAGTTTGAGGCTTTGACAGAGAAGGCTTCCC
1 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGGCTTCCC
* ** * * *
15212039 ATATTATAGCTGATGGTGTAGCTAGGATCCTTAAAGGTAAGGCTGCAGAATCAATCTCGCGTGGA
66 ATATTATAGCTAATAATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGG-
15212104 AGAAATGAAGTTTCCCATGTCTATAATGAGGTAGAGGAAACATATGTATC
130 AG--ATGAAGTTTCCCATGTCTATAATGAGGTAGAGGAAACATATGTATC
* *
15212154 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGACGG-TGTGC
1 TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGGCT-TCC
* * *
15212218 CATGTTATAGCTAATAATGTAGCTAGGATTATTAAAGATAAGGCTGCAGAATTAATCTCGCATGG
65 CATATTATAGCTAATAATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGG
*
15212283 AGATGAAGTTTCGCATG
130 AGATGAAGTTTCCCATG
15212300 CCACATATGC
Statistics
Matches: 130, Mismatches: 15, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
177 14 0.11
179 3 0.02
180 113 0.87
ACGTcount: A:0.31, C:0.13, G:0.28, T:0.29
Consensus pattern (177 bp):
TGGTGATAAGATCACGAGTGAAGATGTTATAGCTAAGTTTGAGGCTTTGACAGAGAAGGCTTCCC
ATATTATAGCTAATAATGTAGCTAGGATCATTAAAGATAAGGCTGCAGAATCAATCTCGCATGGA
GATGAAGTTTCCCATGTCTATAATGAGGTAGAGGAAACATATGTATC
Found at i:15213786 original size:29 final size:30
Alignment explanation
Indices: 15213754--15213812 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
15213744 TATGGTTTAA
*
15213754 TATGTAATTTTATATA-TAAACTTTGATTT
1 TATGTAATTTTATACATTAAACTTTGATTT
*
15213783 TATGTAATTTTATACATTAAATTTTGATTT
1 TATGTAATTTTATACATTAAACTTTGATTT
15213813 GATCCAATTC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
TATGTAATTTTATACATTAAACTTTGATTT
Found at i:15215687 original size:15 final size:15
Alignment explanation
Indices: 15215667--15215707 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
15215657 TAAAATATAA
15215667 TTATTAGTTTT-ATTT
1 TTATTA-TTTTGATTT
15215682 TTATTATTTTGGATTT
1 TTATTATTTT-GATTT
15215698 TTATT-TTTTG
1 TTATTATTTTG
15215708 GGAAGTTCAC
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 5 0.21
15 10 0.42
16 9 0.38
ACGTcount: A:0.17, C:0.00, G:0.10, T:0.73
Consensus pattern (15 bp):
TTATTATTTTGATTT
Found at i:15215708 original size:15 final size:16
Alignment explanation
Indices: 15215678--15215708 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15215668 TATTAGTTTT
15215678 ATTTTTATTATTTTGG
1 ATTTTTATTATTTTGG
15215694 ATTTTTATT-TTTTGG
1 ATTTTTATTATTTTGG
15215709 GAAGTTCACG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.16, C:0.00, G:0.13, T:0.71
Consensus pattern (16 bp):
ATTTTTATTATTTTGG
Found at i:15219738 original size:731 final size:731
Alignment explanation
Indices: 15218337--15219802 Score: 2923
Period size: 731 Copynumber: 2.0 Consensus size: 731
15218327 TTTGTGTAAA
15218337 AATAAGAGATTTTTCTTTTCTTTCTTTCTTATTCTTTTCTTTTCTTCTCACTTCGCTTTTCTATT
1 AATAAGAGATTTTTCTTTTCTTTCTTTCTTATTCTTTTCTTTTCTTCTCACTTCGCTTTTCTATT
15218402 CTCTCGAAAACTTCTCGTTTAGCTATGTTAGTCTTTTTCAAACCTTTTCTTTTAATTTTTTTTTA
66 CTCTCGAAAACTTCTCGTTTAGCTATGTTAGTCTTTTTCAAACCTTTTCTTTTAATTTTTTTTTA
15218467 TTTTTCTACTTATGTACAAGTTTGCAAGACTTGCACTCACCATACTATACTATCTGTAACAATCC
131 TTTTTCTACTTATGTACAAGTTTGCAAGACTTGCACTCACCATACTATACTATCTGTAACAATCC
15218532 TGTAACACTCCTAACCTGTATCCGTAGCCAGAATAGGGTTACGGAGCATAACTGGACTTATTTCT
196 TGTAACACTCCTAACCTGTATCCGTAGCCAGAATAGGGTTACGGAGCATAACTGGACTTATTTCT
15218597 TAAAAAATCACACATTTCACGTTCATTTCTCAAATCCATACAAATGTCATTCAAATACAGCCATA
261 TAAAAAATCACACATTTCACGTTCATTTCTCAAATCCATACAAATGTCATTCAAATACAGCCATA
15218662 TAGTCCCTAACACAAGCCCTCGAGGCTTAAAACAAGCATTAGAAATGATTCAGGACTAAATCGAA
326 TAGTCCCTAACACAAGCCCTCGAGGCTTAAAACAAGCATTAGAAATGATTCAGGACTAAATCGAA
15218727 TACTTAATAAATTTTTAGAAAAATATAGAACATGTTCAAAGTGTAGAGGACACATGCCTATGTGG
391 TACTTAATAAATTTTTAGAAAAATATAGAACATGTTCAAAGTGTAGAGGACACATGCCTATGTGG
15218792 CCAGGTCGTGTGTCTCACACGGCCAAGAGACGCTTGTGTCACAGGCCGTGTGGACATTCAAAATG
456 CCAGGTCGTGTGTCTCACACGGCCAAGAGACGCTTGTGTCACAGGCCGTGTGGACATTCAAAATG
15218857 AGAGCATATAGCAATGTCCCAGCACATGTCCCAGCTCGTGTAACTCTCTGACTTGGGTCACACGG
521 AGAGCATATAGCAATGTCCCAGCACATGTCCCAGCTCGTGTAACTCTCTGACTTGGGTCACACGG
15218922 CCAACCACACGCCCGTGTGACTAGCCCATGTACCCTTCAAAATGACTTCACATGCCCATGTGCCA
586 CCAACCACACGCCCGTGTGACTAGCCCATGTACCCTTCAAAATGACTTCACATGCCCATGTGCCA
15218987 AGCCGTGTGCTAGGCCGTGTGAAAACTAGAGGGTATCCTGACTTGTGCCACACGGCCAGGCCATA
651 AGCCGTGTGCTAGGCCGTGTGAAAACTAGAGGGTATCCTGACTTGTGCCACACGGCCAGGCCATA
15219052 CGCCCATGGGCTAGGC
716 CGCCCATGGGCTAGGC
15219068 AATAAGAGATTTTTCTTTTCTTTCTTTCTTATTCTTTTCTTTTCTTCTCACTTCGCTTTTCTATT
1 AATAAGAGATTTTTCTTTTCTTTCTTTCTTATTCTTTTCTTTTCTTCTCACTTCGCTTTTCTATT
15219133 CTCTCGAAAACTTCTCGTTTAGCTATGTTAGTCTTTTTCAAACCTTTTCTTTTAATTTTTTTTTA
66 CTCTCGAAAACTTCTCGTTTAGCTATGTTAGTCTTTTTCAAACCTTTTCTTTTAATTTTTTTTTA
15219198 TTTTTCTACTTATGTACAAGTTTGCAAGACTTGCACTCACCATACTATACTATCTGTAACAATCC
131 TTTTTCTACTTATGTACAAGTTTGCAAGACTTGCACTCACCATACTATACTATCTGTAACAATCC
15219263 TGTAACACTCCTAACCTGTATCCGTAGCCAGAATAGGGTTACGGAGCATAACTGGACTTATTTCT
196 TGTAACACTCCTAACCTGTATCCGTAGCCAGAATAGGGTTACGGAGCATAACTGGACTTATTTCT
15219328 TAAAAAATCACACATTTCACGTTCATTTCTCAAATCCATACAAATGTCATTCAAATACAGCCATA
261 TAAAAAATCACACATTTCACGTTCATTTCTCAAATCCATACAAATGTCATTCAAATACAGCCATA
15219393 TAGTCCCTAACACAAGCCCTCGAGGCTTAAAACAAGCATTAGAAATGATTCAGGACTAAATCGAA
326 TAGTCCCTAACACAAGCCCTCGAGGCTTAAAACAAGCATTAGAAATGATTCAGGACTAAATCGAA
15219458 TACTTAATAAATTTTTAGAAAAATATAGAACATGTTCAAAGTGTAGAGGACACATGCCTATGTGG
391 TACTTAATAAATTTTTAGAAAAATATAGAACATGTTCAAAGTGTAGAGGACACATGCCTATGTGG
15219523 CCAGGTCGTGTGTCTCACACGGCCAAGAGACGCTTGTGTCACAGGCCGTGTGGACATTCAAAATG
456 CCAGGTCGTGTGTCTCACACGGCCAAGAGACGCTTGTGTCACAGGCCGTGTGGACATTCAAAATG
*
15219588 AGATCATATAGCAATGTCCCAGCACATGTCCCAGCTCGTGTAACTCTCTGACTTGGGTCACACGG
521 AGAGCATATAGCAATGTCCCAGCACATGTCCCAGCTCGTGTAACTCTCTGACTTGGGTCACACGG
15219653 CCAACCACACGCCCGTGTGACTAGCCCATGTACCCTTCAAAATGACTTCACATGCCCATGTGCCA
586 CCAACCACACGCCCGTGTGACTAGCCCATGTACCCTTCAAAATGACTTCACATGCCCATGTGCCA
15219718 AGCCGTGTGCTAGGCCGTGTGAAAACTAGAGGGTATCCTGACTTGTGCCACACGGCCAGGCCATA
651 AGCCGTGTGCTAGGCCGTGTGAAAACTAGAGGGTATCCTGACTTGTGCCACACGGCCAGGCCATA
15219783 CGCCCATGGGCTAGGC
716 CGCCCATGGGCTAGGC
15219799 AATA
1 AATA
15219803 TGAAACTATT
Statistics
Matches: 734, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
731 734 1.00
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.31
Consensus pattern (731 bp):
AATAAGAGATTTTTCTTTTCTTTCTTTCTTATTCTTTTCTTTTCTTCTCACTTCGCTTTTCTATT
CTCTCGAAAACTTCTCGTTTAGCTATGTTAGTCTTTTTCAAACCTTTTCTTTTAATTTTTTTTTA
TTTTTCTACTTATGTACAAGTTTGCAAGACTTGCACTCACCATACTATACTATCTGTAACAATCC
TGTAACACTCCTAACCTGTATCCGTAGCCAGAATAGGGTTACGGAGCATAACTGGACTTATTTCT
TAAAAAATCACACATTTCACGTTCATTTCTCAAATCCATACAAATGTCATTCAAATACAGCCATA
TAGTCCCTAACACAAGCCCTCGAGGCTTAAAACAAGCATTAGAAATGATTCAGGACTAAATCGAA
TACTTAATAAATTTTTAGAAAAATATAGAACATGTTCAAAGTGTAGAGGACACATGCCTATGTGG
CCAGGTCGTGTGTCTCACACGGCCAAGAGACGCTTGTGTCACAGGCCGTGTGGACATTCAAAATG
AGAGCATATAGCAATGTCCCAGCACATGTCCCAGCTCGTGTAACTCTCTGACTTGGGTCACACGG
CCAACCACACGCCCGTGTGACTAGCCCATGTACCCTTCAAAATGACTTCACATGCCCATGTGCCA
AGCCGTGTGCTAGGCCGTGTGAAAACTAGAGGGTATCCTGACTTGTGCCACACGGCCAGGCCATA
CGCCCATGGGCTAGGC
Found at i:15224307 original size:19 final size:18
Alignment explanation
Indices: 15224279--15224328 Score: 61
Period size: 19 Copynumber: 2.9 Consensus size: 18
15224269 GTTAAAATAT
*
15224279 ATTAAATTATTATTAATTG
1 ATTAATTTATTATTAA-TG
15224298 ATTAATTTATTATT-ATG
1 ATTAATTTATTATTAATG
15224315 ATT--TTTATTATTAA
1 ATTAATTTATTATTAA
15224329 ATTAATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
15 9 0.31
16 1 0.03
17 5 0.17
18 1 0.03
19 13 0.45
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (18 bp):
ATTAATTTATTATTAATG
Found at i:15224899 original size:18 final size:19
Alignment explanation
Indices: 15224863--15224906 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
15224853 ATGAGGTACG
*
15224863 CTGTGTACTGATACTGTTA
1 CTGTGTACTGATACCGTTA
*
15224882 CTGT-TACTGTTACCGTTA
1 CTGTGTACTGATACCGTTA
*
15224900 CAGTGTA
1 CTGTGTA
15224907 TTCCGACTCT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 15 0.71
19 6 0.29
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.41
Consensus pattern (19 bp):
CTGTGTACTGATACCGTTA
Found at i:15226087 original size:12 final size:12
Alignment explanation
Indices: 15226072--15226096 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15226062 AAGAAAATTT
15226072 AAAAATTTTATA
1 AAAAATTTTATA
15226084 AAAAATTTTATA
1 AAAAATTTTATA
15226096 A
1 A
15226097 GCTTCCGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAAAATTTTATA
Found at i:15227240 original size:241 final size:241
Alignment explanation
Indices: 15226809--15227294 Score: 692
Period size: 241 Copynumber: 2.0 Consensus size: 241
15226799 ATATAAGCAA
* * *
15226809 AAGATAAACAAGTTTGCATTTTGAATTATAATTCAATAAAGCAAAACATAAGTCAATATAAGAAT
1 AAGATAAACAAGTTTGCATTTTAAATTATAATTCAATAAAGCAAAAAATAAGCCAATATAAGAAT
* *
15226874 TTATGGTTTCAAAAATTACCTTATTCAAATTTTTGTAACATCGATAACTTCAAGGAAAGAGAAGG
66 TCATGGTTTCAAAAATTACCTTATTCAAATTTTTGTAACATCAATAACTTCAAGGAAAGAGAAGG
* * * **
15226939 TTTATGTTGGAATAAGAAACGTTAGAAACATAGGTGAACGACTATGGGATACTAGGATTTAACGA
131 TTTATATTAGAATAAGAAACGCTAGAAACATAAATGAACGACTATGGGATACTAGGATTTAACGA
*
15227004 TTGCGACATCTGAAGAATGAAATGTGGTGAACGACTAAAGAAAAAG
196 TTGCGACATCTGAAGAATGAAATGTGGTGAACAACTAAAGAAAAAG
*
15227050 AAGATAAACAAGTTCT-CATTTTAAATTATAATTTAATAAAGCAAAAAATAAGCCAATATAAGAA
1 AAGATAAACAAGTT-TGCATTTTAAATTATAATTCAATAAAGCAAAAAATAAGCCAATATAAGAA
* * * *
15227114 TTCATGGTTTCAAAAATTACCTTATTCAATTTTTTGTGACATCAATGACTTGAAGGTAAA-AGAA
65 TTCATGGTTTCAAAAATTACCTTATTCAAATTTTTGTAACATCAATAACTTCAAGG-AAAGAGAA
* * * * *
15227178 GGCTTT-TATTAGAATACGAAACGCTA-AAACTATAAATGAACGATTGTGTGATACTTGGATTTA
129 GG-TTTATATTAGAATAAGAAACGCTAGAAAC-ATAAATGAACGACTATGGGATACTAGGATTTA
* * *
15227241 ATGATTGCGACATTTGAAGAATGAAATGTGGTGAACAACTGAAGAAAAAG
192 ACGATTGCGACATCTGAAGAATGAAATGTGGTGAACAACTAAAGAAAAAG
15227291 AAGA
1 AAGA
15227295 ATCTAAGAAG
Statistics
Matches: 217, Mismatches: 24, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
240 4 0.02
241 206 0.95
242 7 0.03
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.29
Consensus pattern (241 bp):
AAGATAAACAAGTTTGCATTTTAAATTATAATTCAATAAAGCAAAAAATAAGCCAATATAAGAAT
TCATGGTTTCAAAAATTACCTTATTCAAATTTTTGTAACATCAATAACTTCAAGGAAAGAGAAGG
TTTATATTAGAATAAGAAACGCTAGAAACATAAATGAACGACTATGGGATACTAGGATTTAACGA
TTGCGACATCTGAAGAATGAAATGTGGTGAACAACTAAAGAAAAAG
Found at i:15227435 original size:23 final size:21
Alignment explanation
Indices: 15227402--15227444 Score: 50
Period size: 23 Copynumber: 2.0 Consensus size: 21
15227392 TTGAAAATTT
* *
15227402 TAAAAATAAATTTTTGAAAAA
1 TAAAAATAAATATGTGAAAAA
15227423 TAAAAATTAAAATATGTGAAAA
1 TAAAAA-T-AAATATGTGAAAA
15227445 TTATAAAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 1 0.06
23 11 0.61
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (21 bp):
TAAAAATAAATATGTGAAAAA
Done.