Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A06
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: 115140250
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2234201 characters in sequence are not A, C, G, or T
File 342 of 345
Found at i:113706138 original size:19 final size:19
Alignment explanation
Indices: 113706116--113706156 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
113706106 TTTATTGATA
113706116 TTTTTA-TATTTAATCTAG
1 TTTTTATTATTTAATCTAG
* *
113706134 TTTTTATTATTTATTTTAG
1 TTTTTATTATTTAATCTAG
113706153 TTTT
1 TTTT
113706157 GATTCTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.22, C:0.02, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTTTATTATTTAATCTAG
Found at i:113714347 original size:15 final size:16
Alignment explanation
Indices: 113714329--113714366 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
113714319 TTTGTTTCTA
*
113714329 TTTATTTTTATTA-AT
1 TTTAATTTTATTAGAT
113714344 TTTAATTTTATTAGAT
1 TTTAATTTTATTAGAT
*
113714360 TTAAATT
1 TTTAATT
113714367 CTCCCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTAATTTTATTAGAT
Found at i:113714906 original size:22 final size:22
Alignment explanation
Indices: 113714864--113714906 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
113714854 TATTGAAAAT
*
113714864 ATAAAAAGTTTTAATTGTTTTA
1 ATAAAAAGTTTTAATTATTTTA
113714886 ATAAAAA-TTTTAATGTATTTT
1 ATAAAAAGTTTTAAT-TATTTT
113714907 TAAATAGTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (22 bp):
ATAAAAAGTTTTAATTATTTTA
Found at i:113716663 original size:94 final size:93
Alignment explanation
Indices: 113716501--113716688 Score: 281
Period size: 94 Copynumber: 2.0 Consensus size: 93
113716491 TTAAGCAAGT
* *
113716501 TAAATTTGTGCTGGAAGTCTTGCTGTTAGCTAAAGTTGGCATTATTGATGATTGCCGATGTTTCT
1 TAAATTTGTACTGGAAGTCTTGCTGTTAGCTAAAGTTGGAATTATTGATGATTGCCGATGTTTCT
*
113716566 TTTAATTCCAAAAGA-TAACCGTTACCTAG
66 TTT-A-TCCAAAAGATTAAACGTTACCTAG
* *
113716595 TAAATTTGTACTGG-AGATCTTGCTGTTAGCTAAAGTTGGAATTATTGATGATTGCTGATGTTTT
1 TAAATTTGTACTGGAAG-TCTTGCTGTTAGCTAAAGTTGGAATTATTGATGATTGCCGATGTTTC
*
113716659 TTTTATCCAAAAGATTAAACGTTACGTAG
65 TTTTATCCAAAAGATTAAACGTTACCTAG
113716688 T
1 T
113716689 TGATGGTTTC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
92 9 0.10
93 16 0.19
94 61 0.71
ACGTcount: A:0.28, C:0.12, G:0.20, T:0.40
Consensus pattern (93 bp):
TAAATTTGTACTGGAAGTCTTGCTGTTAGCTAAAGTTGGAATTATTGATGATTGCCGATGTTTCT
TTTATCCAAAAGATTAAACGTTACCTAG
Found at i:113721618 original size:33 final size:33
Alignment explanation
Indices: 113721581--113721671 Score: 155
Period size: 33 Copynumber: 2.8 Consensus size: 33
113721571 CTCTGTTTCA
113721581 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
* *
113721614 GGTTGCTAGACGGGAGCTGGAATGTGAGTGTTT
1 GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
*
113721647 GGTTGCTGGACAGTAGCTGGAATGT
1 GGTTGCTGGACAGGAGCTGGAATGT
113721672 CAAGAAGAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 53 1.00
ACGTcount: A:0.19, C:0.10, G:0.42, T:0.30
Consensus pattern (33 bp):
GGTTGCTGGACAGGAGCTGGAATGTGAGTGTTT
Found at i:113725078 original size:15 final size:16
Alignment explanation
Indices: 113725048--113725079 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
113725038 CCGAGTTCCG
113725048 AGCAGTTGGTTTCACA
1 AGCAGTTGGTTTCACA
113725064 AGCAGTTGG-TTCACA
1 AGCAGTTGGTTTCACA
113725079 A
1 A
113725080 ATGCTGGAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.44
16 9 0.56
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (16 bp):
AGCAGTTGGTTTCACA
Found at i:113728035 original size:23 final size:23
Alignment explanation
Indices: 113727986--113728035 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
113727976 TAGTTTCAAT
* *
113727986 GTTTAAATTAGTATTTATTTTTT
1 GTTTAAATTAGTATTTATATTTG
*
113728009 GTTTAAATTTGTATTTGA-ATTTG
1 GTTTAAATTAGTATTT-ATATTTG
113728032 GTTT
1 GTTT
113728036 TCATCATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.14, T:0.62
Consensus pattern (23 bp):
GTTTAAATTAGTATTTATATTTG
Found at i:113728629 original size:13 final size:13
Alignment explanation
Indices: 113728608--113728638 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
113728598 TAACTAGTGA
*
113728608 ATTTAAATTTAAT
1 ATTTTAATTTAAT
113728621 ATTTTAATTTAAT
1 ATTTTAATTTAAT
113728634 ATTTT
1 ATTTT
113728639 TAGTGCCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
ATTTTAATTTAAT
Found at i:113732746 original size:40 final size:35
Alignment explanation
Indices: 113732680--113732810 Score: 136
Period size: 35 Copynumber: 3.6 Consensus size: 35
113732670 CATGGCAAAG
113732680 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
113732715 TGTGATATGTAGGTATGGTATTATCAAATCCATACTGAGT
1 TGTGAAATGTAGGTATGG---TATC--ATCCATACTGAGT
** * *** *
113732755 TAAGAAATGTAGGTATGGCATTGCCCATACCGAGT
1 TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
*
113732790 TGTAAAATGTAGGTATGGTAT
1 TGTGAAATGTAGGTATGGTAT
113732811 TTCAATGAGG
Statistics
Matches: 78, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
35 44 0.56
37 2 0.03
38 4 0.05
40 28 0.36
ACGTcount: A:0.31, C:0.11, G:0.25, T:0.34
Consensus pattern (35 bp):
TGTGAAATGTAGGTATGGTATCATCCATACTGAGT
Found at i:113741112 original size:46 final size:46
Alignment explanation
Indices: 113741037--113741441 Score: 515
Period size: 46 Copynumber: 8.8 Consensus size: 46
113741027 GATGTCATAA
* * * *
113741037 TATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTC-ATTTCATATCATGTTGCCATGG
** * ***
113741083 TATCTTTCAAATATGGTCTTATTCATTTTCCCGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATGG
* *
113741130 TATCTTTCAACCATGGTCTTACTCATTTCATGTCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGG
* * **
113741176 TATCTTTTAACCATGGTCTTATTCATTTCATATCACATTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGG
* * *
113741222 TATCTTTCAACTATGGTCTTACACATTTCATATCACGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGG
* ***
113741268 TATCTTTCAACCATGGTCTTATTCATTTTCCCGTCATGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCA-TTTCATATCATGTTGCCATGG
*
113741315 TATCTTTCAACCATGGTCTTACTCATTTCATATCAAGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGG
* * *
113741361 TATGTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGG
* *
113741407 TATCTTTCAACCATGGTCTTACACATTCCATATCA
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCA
113741442 GAGAGCACAC
Statistics
Matches: 318, Mismatches: 38, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
46 240 0.75
47 78 0.25
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (46 bp):
TATCTTTCAACCATGGTCTTACTCATTTCATATCATGTTGCCATGG
Found at i:113741309 original size:139 final size:138
Alignment explanation
Indices: 113741037--113741433 Score: 546
Period size: 139 Copynumber: 2.9 Consensus size: 138
113741027 GATGTCATAA
* * * * * *
113741037 TATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAAATATGGTC
1 TATCTTTCAACCATGGTCTTACTC-ATTTCATATCAAGTTGCCATGGTATCTTTCAACTATGGTC
** *** * *
113741101 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
65 TTACACA-TTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCACGTCAG
113741166 GTTGCCATGG
129 GTTGCCATGG
* *
113741176 TATCTTTTAACCATGGTCTTATTCATTTCATATCACA-TTGCCATGGTATCTTTCAACTATGGTC
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCA-AGTTGCCATGGTATCTTTCAACTATGGTC
* * *
113741240 TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTTCCCGTCAT
65 TTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCACGTCAG
113741305 GTTGCCATGG
129 GTTGCCATGG
* *
113741315 TATCTTTCAACCATGGTCTTACTCATTTCATATCAAGTTGCCATGGTATGTTTCAACCATGGTCT
1 TATCTTTCAACCATGGTCTTACTCATTTCATATCAAGTTGCCATGGTATCTTTCAACTATGGTCT
* *
113741380 TACACATTTCATATCAGGTTGCCATGGTATCTTTCAACCATGGTCTTACACATT
66 TACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATT
113741434 CCATATCAGA
Statistics
Matches: 229, Mismatches: 25, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
138 48 0.21
139 181 0.79
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (138 bp):
TATCTTTCAACCATGGTCTTACTCATTTCATATCAAGTTGCCATGGTATCTTTCAACTATGGTCT
TACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCACGTCAGGT
TGCCATGG
Found at i:113741357 original size:185 final size:185
Alignment explanation
Indices: 113741037--113741441 Score: 641
Period size: 185 Copynumber: 2.2 Consensus size: 185
113741027 GATGTCATAA
* * * * * *
113741037 TATCTTTCAACTATGGTTTTACTCGTTTTC-TGTCATGTTGCCATGGTATCTTTCAAATATGGTC
1 TATCTTTCAACTATGGTCTTACAC-ATTTCATATCACGTTGCCATGGTATCTTTCAAACATGGTC
* *
113741101 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGTCAG
65 TTATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAA
* **
113741166 GTTGCCATGGTATCTTTTAACCATGGTCTTATTCATTTCATATCACATTGCCATGG
130 GTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACATTGCCATGG
*
113741222 TATCTTTCAACTATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAACCATGGTCT
1 TATCTTTCAACTATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAAACATGGTCT
113741287 TATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAAG
66 TATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAAG
* **
113741352 TTGCCATGGTATGTTTCAACCATGGTCTTACACATTTCATATCAGGTTGCCATGG
131 TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACATTGCCATGG
* *
113741407 TATCTTTCAACCATGGTCTTACACATTCCATATCA
1 TATCTTTCAACTATGGTCTTACACATTTCATATCA
113741442 GAGAGCACAC
Statistics
Matches: 202, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
184 4 0.02
185 198 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.41
Consensus pattern (185 bp):
TATCTTTCAACTATGGTCTTACACATTTCATATCACGTTGCCATGGTATCTTTCAAACATGGTCT
TATTCATTTTCCCGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCAAG
TTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCACATTGCCATGG
Found at i:113751306 original size:14 final size:14
Alignment explanation
Indices: 113751284--113751316 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
113751274 GTCATTTCGA
*
113751284 TATTATGTTGTTAT
1 TATTTTGTTGTTAT
113751298 TATTTTGTTGTTAT
1 TATTTTGTTGTTAT
113751312 T-TTTT
1 TATTTT
113751317 AGATATTGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 4 0.22
14 14 0.78
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (14 bp):
TATTTTGTTGTTAT
Found at i:113753490 original size:15 final size:15
Alignment explanation
Indices: 113753470--113753506 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
113753460 TGAAGCAACA
113753470 GCAACAAGC-CTTGAT
1 GCAACAAGCTCTT-AT
113753485 GCAACAAGCTCTTAT
1 GCAACAAGCTCTTAT
113753500 GCAACAA
1 GCAACAA
113753507 CAGTCTCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 18 0.86
16 3 0.14
ACGTcount: A:0.38, C:0.27, G:0.16, T:0.19
Consensus pattern (15 bp):
GCAACAAGCTCTTAT
Found at i:113757727 original size:57 final size:59
Alignment explanation
Indices: 113757639--113757757 Score: 134
Period size: 57 Copynumber: 2.0 Consensus size: 59
113757629 GTGTTGGAAC
* * * **
113757639 TGGGAACAATTGCCAAGGTGAGAAACTAACTT-GGAAAAA-AAAGTTCAGGCCTCAATG
1 TGGGAACAATTACCAAGGTCAGAAACAAACTTAACAAAAACAAAGTTCAGGCCTCAATG
* ** *
113757696 TGGGAACAATTACCAAGTTCAGGGACAAACTTAAACAAAAACAAAGTTTAGGCCTCAATG
1 TGGGAACAATTACCAAGGTCAGAAACAAACTT-AACAAAAACAAAGTTCAGGCCTCAATG
113757756 TG
1 TG
113757758 AAATTAGTTG
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
57 26 0.52
59 5 0.10
60 19 0.38
ACGTcount: A:0.41, C:0.17, G:0.22, T:0.20
Consensus pattern (59 bp):
TGGGAACAATTACCAAGGTCAGAAACAAACTTAACAAAAACAAAGTTCAGGCCTCAATG
Found at i:113759462 original size:16 final size:16
Alignment explanation
Indices: 113759450--113759480 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
113759440 CAAAATTGTC
113759450 AGTTTTCAGAATTGAA
1 AGTTTTCAGAATTGAA
*
113759466 AGTTTTTAGAATTGA
1 AGTTTTCAGAATTGA
113759481 GTAGATGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.03, G:0.19, T:0.42
Consensus pattern (16 bp):
AGTTTTCAGAATTGAA
Found at i:113760006 original size:18 final size:17
Alignment explanation
Indices: 113759974--113760008 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
113759964 ATAATTAAAC
*
113759974 TATTTAATTTTAAATAT
1 TATTTAATTTAAAATAT
113759991 TATTTAAATTTAAAATAT
1 TATTT-AATTTAAAATAT
113760009 CTAAATCTAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTTAATTTAAAATAT
Found at i:113762103 original size:31 final size:31
Alignment explanation
Indices: 113762068--113762138 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
113762058 TAAAATTTTT
* **
113762068 ATTCAATGGCTTAAATGAAAACTTTTGAATA
1 ATTCAATGACTTAAATGAAAACTTTCAAATA
* * *
113762099 ATTCAGTAATTTAAATGAAAACTTTCAAATA
1 ATTCAATGACTTAAATGAAAACTTTCAAATA
113762130 ATTCAATGA
1 ATTCAATGA
113762139 TTATTTTATA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.45, C:0.10, G:0.10, T:0.35
Consensus pattern (31 bp):
ATTCAATGACTTAAATGAAAACTTTCAAATA
Found at i:113763907 original size:16 final size:16
Alignment explanation
Indices: 113763838--113763905 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
113763828 TTTGGTTCGC
113763838 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
113763854 TGTATTAGATTAGAGG
1 TGTATTGGATTAGAGG
113763870 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* *
113763886 TGTAATGGAATAGAGG
1 TGTATTGGATTAGAGG
113763902 TGTA
1 TGTA
113763906 ATAGCAAATC
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 48 1.00
ACGTcount: A:0.29, C:0.00, G:0.35, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:113763940 original size:45 final size:44
Alignment explanation
Indices: 113763886--113763980 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
113763876 GGATTAGAGG
* *
113763886 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
113763931 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
113763975 TGTAAT
1 TGTAAT
113763981 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:113764150 original size:25 final size:25
Alignment explanation
Indices: 113764118--113764172 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
113764108 TAATTTAATC
*
113764118 ATAT-TTAAACATAATTATTATT-AA
1 ATATATTAAACAT-ATTATAATTAAA
*
113764142 ATATATTAAATATATTATAATTAAA
1 ATATATTAAACATATTATAATTAAA
113764167 ATATAT
1 ATATAT
113764173 AATTTAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATATTAAACATATTATAATTAAA
Found at i:113764354 original size:47 final size:46
Alignment explanation
Indices: 113764303--113764463 Score: 140
Period size: 47 Copynumber: 3.6 Consensus size: 46
113764293 GATTTAATAA
113764303 AATTTAAAATAATTATAACTAATAAATTATCTTATATGAATTTGTAT
1 AATTTAAAATAATTATAA-TAATAAATTATCTTATATGAATTTGTAT
* * * * *
113764350 AATTTAAAATAATTATTATTACATATAAT-TTA-AT-AA---GATAT
1 AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTG-TAT
* * * *
113764391 AATTTCATAA-AATTATTGATAATAAATTTTCTTATATGAATTTATAT
1 AATTT-AAAATAATTA-TAATAATAAATTATCTTATATGAATTTGTAT
113764438 AATTTAAAATAATT-TATATAATAAAT
1 AATTTAAAATAATTATA-ATAATAAAT
113764464 CTATTGTATA
Statistics
Matches: 88, Mismatches: 15, Indels: 23
0.70 0.12 0.18
Matches are distributed among these distances:
40 1 0.01
41 13 0.15
42 11 0.12
43 5 0.06
44 4 0.05
45 6 0.07
46 19 0.22
47 29 0.33
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.45
Consensus pattern (46 bp):
AATTTAAAATAATTATAATAATAAATTATCTTATATGAATTTGTAT
Found at i:113773489 original size:33 final size:33
Alignment explanation
Indices: 113773447--113773512 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
113773437 TGATGATTAC
113773447 CAGAGTTGAAGATTCCAACACCTTTTTTCCCTT
1 CAGAGTTGAAGATTCCAACACCTTTTTTCCCTT
113773480 CAGAGTTGAAGATTCCAACACCTTTTTTCCCTT
1 CAGAGTTGAAGATTCCAACACCTTTTTTCCCTT
113773513 GCTTCAATTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.27, G:0.12, T:0.36
Consensus pattern (33 bp):
CAGAGTTGAAGATTCCAACACCTTTTTTCCCTT
Found at i:113777268 original size:27 final size:27
Alignment explanation
Indices: 113777237--113777288 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
113777227 TAAAAAAATT
113777237 AATATTT-TTATATTAATTTAAATAAAA
1 AATATTTATT-TATTAATTTAAATAAAA
* *
113777264 AATATTTATTTATTTATTTATATAA
1 AATATTTATTTATTAATTTAAATAA
113777289 TTGTTCCCAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 20 0.91
28 2 0.09
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (27 bp):
AATATTTATTTATTAATTTAAATAAAA
Found at i:113777430 original size:10 final size:10
Alignment explanation
Indices: 113777415--113777450 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
113777405 AATTAATTTA
113777415 ATATTTTAAT
1 ATATTTTAAT
113777425 ATATTTTAAT
1 ATATTTTAAT
113777435 ATAATTCTTAAT
1 AT-ATT-TTAAT
113777447 ATAT
1 ATAT
113777451 GAATGGGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
10 12 0.50
11 5 0.21
12 7 0.29
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (10 bp):
ATATTTTAAT
Found at i:113780444 original size:21 final size:22
Alignment explanation
Indices: 113780418--113780467 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
113780408 ATACAAATTC
* *
113780418 AAATATAT-TATAAATAATTTT
1 AAATATATATATAAAAAATTTA
113780439 AAATAT-TATATAAAAAATTTA
1 AAATATATATATAAAAAATTTA
113780460 ATAATATA
1 A-AATATA
113780468 ATTTACATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 1 0.04
21 18 0.75
22 5 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (22 bp):
AAATATATATATAAAAAATTTA
Found at i:113780462 original size:19 final size:19
Alignment explanation
Indices: 113780422--113780460 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
113780412 AAATTCAAAT
* *
113780422 ATATTATAAATAATTTTAA
1 ATATTATAAAAAAATTTAA
113780441 ATATTATATAAAAAATTTAA
1 ATATTATA-AAAAAATTTAA
113780461 TAATATAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATTATAAAAAAATTTAA
Found at i:113780467 original size:19 final size:21
Alignment explanation
Indices: 113780412--113780467 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
113780402 AAATAAATAC
*
113780412 AAATTCAAAT-ATATTATAAAT
1 AAATTTAAATAATA-TATAAAT
* *
113780433 AATTTTAAATATTATATAAA-
1 AAATTTAAATAATATATAAAT
113780453 AAATTT-AATAATATA
1 AAATTTAAATAATATA
113780468 ATTTACATAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
19 8 0.28
20 5 0.17
21 14 0.48
22 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATTTAAATAATATATAAAT
Found at i:113793728 original size:29 final size:29
Alignment explanation
Indices: 113793695--113793751 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
113793685 AATAGACTAA
*
113793695 TAAAATGAAGGGATTAAATTAAAATATTT
1 TAAAATGAAGGGACTAAATTAAAATATTT
** *
113793724 TAAAATTTAGGGACTAATTTAAAATATT
1 TAAAATGAAGGGACTAAATTAAAATATT
113793752 GACTTAATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (29 bp):
TAAAATGAAGGGACTAAATTAAAATATTT
Found at i:113794178 original size:18 final size:18
Alignment explanation
Indices: 113794157--113794191 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
113794147 GTCGCTCATT
113794157 TTATCTTTTTAA-TTTTTA
1 TTAT-TTTTTAACTTTTTA
113794175 TTATTTTTTAACTTTTT
1 TTATTTTTTAACTTTTT
113794192 TGGTAAAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.20, C:0.06, G:0.00, T:0.74
Consensus pattern (18 bp):
TTATTTTTTAACTTTTTA
Found at i:113797264 original size:54 final size:54
Alignment explanation
Indices: 113797178--113797287 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
113797168 AATATGGAGG
* * * * *
113797178 TGAACACTGAATTGCTACCATATCCTACAGAAGATCCTACAATTGCTAAAGAGA
1 TGAACACTGAAATGCTACCAAAGCCTACAGAAGATCCTACAAGTCCTAAAGAGA
* * * * *
113797232 TGAACATTGAAATGTTACCAAAGCCTATAGAAGATTCTACAGGTCCTAAAGAGA
1 TGAACACTGAAATGCTACCAAAGCCTACAGAAGATCCTACAAGTCCTAAAGAGA
113797286 TG
1 TG
113797288 GAGGATTGGA
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.25
Consensus pattern (54 bp):
TGAACACTGAAATGCTACCAAAGCCTACAGAAGATCCTACAAGTCCTAAAGAGA
Found at i:113799654 original size:54 final size:54
Alignment explanation
Indices: 113799561--113799667 Score: 133
Period size: 54 Copynumber: 2.0 Consensus size: 54
113799551 CCACTCCTCC
* * * *
113799561 ATCTCTTTAGGACCTGTAGAATCTTCCATAGGCTTTGGTAACAATTCAATGTTT
1 ATCTCTTTAGCACCTGAAGAATCTTCCATAGGATATGGTAACAATTCAATGTTT
* ** * *
113799615 ATCTCTTTAGCACTTGAAGAATCTTCTGTAGGATATGGTAGCAATTCAGTGTT
1 ATCTCTTTAGCACCTGAAGAATCTTCCATAGGATATGGTAACAATTCAATGTT
113799668 CACCTCCATA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 44 1.00
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (54 bp):
ATCTCTTTAGCACCTGAAGAATCTTCCATAGGATATGGTAACAATTCAATGTTT
Found at i:113799969 original size:12 final size:12
Alignment explanation
Indices: 113799949--113799978 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
113799939 GAACAGTTCT
*
113799949 TTCAGAATCCAA
1 TTCAAAATCCAA
113799961 TTCAAAATCCAA
1 TTCAAAATCCAA
113799973 TTCAAA
1 TTCAAA
113799979 TATATATTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (12 bp):
TTCAAAATCCAA
Found at i:113801767 original size:54 final size:54
Alignment explanation
Indices: 113801673--113801782 Score: 139
Period size: 54 Copynumber: 2.0 Consensus size: 54
113801663 TCCACTCCTC
* * *
113801673 CATCTCTCTAGGACCTGTAGAATCTTCTCTAGGCTTTGGTAACAATTCAATGTT
1 CATCTCTCTAGCACCTGTAGAATCTTCTCTAGGATATGGTAACAATTCAATGTT
* * * * * *
113801727 CATCTCTTTAGCACTTGTATAATCTTCTGTAGGATATGGTAGCAATTCAGTGTT
1 CATCTCTCTAGCACCTGTAGAATCTTCTCTAGGATATGGTAACAATTCAATGTT
113801781 CA
1 CA
113801783 CCTCCATATT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (54 bp):
CATCTCTCTAGCACCTGTAGAATCTTCTCTAGGATATGGTAACAATTCAATGTT
Found at i:113802182 original size:12 final size:12
Alignment explanation
Indices: 113802165--113802196 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
113802155 CTCGATATAA
113802165 GCATATCTACAG
1 GCATATCTACAG
113802177 GCATATCTACAG
1 GCATATCTACAG
113802189 GCATATCT
1 GCATATCT
113802197 GCCGCTGAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (12 bp):
GCATATCTACAG
Found at i:113802659 original size:22 final size:23
Alignment explanation
Indices: 113802628--113802681 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 23
113802618 GCGGTAGAGT
113802628 AATAT-AAAATAT-ATTACTCAA
1 AATATGAAAATATCATTACTCAA
113802649 AATATGAAAATATCATTACTCAA
1 AATATGAAAATATCATTACTCAA
*
113802672 AACA-GAAAAT
1 AATATGAAAAT
113802682 CAAATATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 5 0.17
22 13 0.43
23 12 0.40
ACGTcount: A:0.57, C:0.11, G:0.04, T:0.28
Consensus pattern (23 bp):
AATATGAAAATATCATTACTCAA
Found at i:113805126 original size:54 final size:54
Alignment explanation
Indices: 113805032--113805140 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
113805022 TCCACTCCTC
* * * *
113805032 CATCTCTCTAGGACCTGTAGAATCTTCTCTAGGCTTTGGTAACAATTCAATGTT
1 CATCTCTCTAGCACCTGTAGAATCTTCTCTAGGATATGGTAACAAGTCAATGTT
* * * * *
113805086 CATCTCTTTAGCACTTGTAGAATCTTCTGTAGGATATGGTAGCAAGTCAGTGTT
1 CATCTCTCTAGCACCTGTAGAATCTTCTCTAGGATATGGTAACAAGTCAATGTT
113805140 C
1 C
113805141 TACCCATCCC
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (54 bp):
CATCTCTCTAGCACCTGTAGAATCTTCTCTAGGATATGGTAACAAGTCAATGTT
Found at i:113806752 original size:6 final size:6
Alignment explanation
Indices: 113806719--113806750 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
113806709 CATTATTGAA
*
113806719 TCGAAC TCGAAC TCGAAC TCGAAC TCAAAC TC
1 TCGAAC TCGAAC TCGAAC TCGAAC TCGAAC TC
113806751 AAGTAGATGG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.34, G:0.12, T:0.19
Consensus pattern (6 bp):
TCGAAC
Found at i:113829961 original size:31 final size:31
Alignment explanation
Indices: 113829925--113829984 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 31
113829915 ATAAAAATTG
113829925 TTAAATTTCAG-TTTAAATC-CTTATATTTTGT
1 TTAAATTTCAGATTT-AATCTC-TATATTTTGT
*
113829956 TTAAATTTGAGATTTAATCTCTATATTTT
1 TTAAATTTCAGATTTAATCTCTATATTTT
113829985 AATATTAACA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 22 0.85
32 4 0.15
ACGTcount: A:0.30, C:0.08, G:0.07, T:0.55
Consensus pattern (31 bp):
TTAAATTTCAGATTTAATCTCTATATTTTGT
Found at i:113830140 original size:169 final size:170
Alignment explanation
Indices: 113829839--113830153 Score: 381
Period size: 169 Copynumber: 1.9 Consensus size: 170
113829829 GTCGGTTCCC
* *
113829839 TTTTTTTTCTTTTCTTTTGACAAGAGAAAATAATGGCTAAATTTCAGTATTAATCCCTCTACCTT
1 TTTTTTTTCTTTTCTTTTGACAAGAGAAAATAATGGCTAAAATTCAG-ATTAATCCATCTACCTT
* * * * * * * * *
113829904 TTTGAGATTATATAAAAATTGTTAAATTTCAGTTTAAATCCTTATATTTTGTTTAAATTTGAGAT
65 TTTAAGATTATATAAAAATTGTTAAATTTCAATTTAAATCCCTAAAATATGCTCAAATTTAAGAT
113829969 TTAATCTCTATATTTTAATATTAACATAATTTACACTTGTCCT
130 TTAATCTC-A-ATTTTAATATTAACATAATTTACACTTGTCCT
* * *
113830012 TTTTTTTTC-TTTCTTTTGACATGAG-AAATAATGGCTAAAATTCAG-TTCATTCATCTA-CTTT
1 TTTTTTTTCTTTTCTTTTGACAAGAGAAAATAATGGCTAAAATTCAGATTAATCCATCTACCTTT
* * *
113830073 TTAAGGATTATATAAGAA-TGATTAAATTTCAAATTT-GATCCCTAAAATATGCTCAATTTTAAG
66 TTAA-GATTATATAAAAATTG-TTAAATTTC-AATTTAAATCCCTAAAATATGCTCAAATTTAAG
113830136 ATTTAATCTCAATTTTAA
128 ATTTAATCTCAATTTTAA
113830154 GAATCATTAA
Statistics
Matches: 122, Mismatches: 17, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
167 7 0.06
168 10 0.08
169 58 0.48
170 4 0.03
171 19 0.16
172 15 0.12
173 9 0.07
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (170 bp):
TTTTTTTTCTTTTCTTTTGACAAGAGAAAATAATGGCTAAAATTCAGATTAATCCATCTACCTTT
TTAAGATTATATAAAAATTGTTAAATTTCAATTTAAATCCCTAAAATATGCTCAAATTTAAGATT
TAATCTCAATTTTAATATTAACATAATTTACACTTGTCCT
Found at i:113837785 original size:11 final size:11
Alignment explanation
Indices: 113837769--113837797 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
113837759 GTAATGTTAA
113837769 AATATATACAT
1 AATATATACAT
113837780 AATATATACAT
1 AATATATACAT
113837791 -ATATATA
1 AATATATA
113837798 TGAAGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 7 0.39
11 11 0.61
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (11 bp):
AATATATACAT
Found at i:113837916 original size:73 final size:73
Alignment explanation
Indices: 113837833--113838065 Score: 225
Period size: 73 Copynumber: 3.2 Consensus size: 73
113837823 TACATGATAT
113837833 ATATAGGAAAAGTACATACATATTAACATTAAAATAAAATAATAAGTGAAAATGATGAAAAGAAT
1 ATATAGGAAAAGTACATACATATTAACATTAAAATAAAATAATAAGTGAAAATGATGAAAAGAAT
113837898 AGGTATAA
66 AGGTATAA
* * *
113837906 ATATACGAAAA-TA-ACAC-TATATAA-A--AAAATATGTATATATATGAAGT--AAAT-ATTGA
1 ATATAGGAAAAGTACATACATAT-TAACATTAAAATA---AAATA-AT-AAGTGAAAATGA-TGA
* *
113837962 AAA-ATGTATGTACATGATA
59 AAAGA-ATAGGT--AT-A-A
113837981 TATATAGGAAAAGTACATACATATTAACATTAAAATAAAATAATAAGTGAAAATGATGAAAAGAA
1 -ATATAGGAAAAGTACATACATATTAACATTAAAATAAAATAATAAGTGAAAATGATGAAAAGAA
113838046 TAGGTATAA
65 TAGGTATAA
*
113838055 ATATATGAAAA
1 ATATAGGAAAA
113838066 TAACACTATA
Statistics
Matches: 126, Mismatches: 11, Indels: 46
0.69 0.06 0.25
Matches are distributed among these distances:
68 6 0.05
70 6 0.05
71 24 0.19
72 4 0.03
73 26 0.21
74 2 0.02
75 2 0.02
76 16 0.13
77 4 0.03
78 24 0.19
79 6 0.05
81 6 0.05
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.27
Consensus pattern (73 bp):
ATATAGGAAAAGTACATACATATTAACATTAAAATAAAATAATAAGTGAAAATGATGAAAAGAAT
AGGTATAA
Found at i:113837961 original size:149 final size:149
Alignment explanation
Indices: 113837790--113838091 Score: 595
Period size: 149 Copynumber: 2.0 Consensus size: 149
113837780 AATATATACA
113837790 TATATATATGAAGTAAATATTGAAAAATGTATGTACATGATATATATAGGAAAAGTACATACATA
1 TATATATATGAAGTAAATATTGAAAAATGTATGTACATGATATATATAGGAAAAGTACATACATA
113837855 TTAACATTAAAATAAAATAATAAGTGAAAATGATGAAAAGAATAGGTATAAATATACGAAAATAA
66 TTAACATTAAAATAAAATAATAAGTGAAAATGATGAAAAGAATAGGTATAAATATACGAAAATAA
113837920 CACTATATAAAAAAATATG
131 CACTATATAAAAAAATATG
113837939 TATATATATGAAGTAAATATTGAAAAATGTATGTACATGATATATATAGGAAAAGTACATACATA
1 TATATATATGAAGTAAATATTGAAAAATGTATGTACATGATATATATAGGAAAAGTACATACATA
*
113838004 TTAACATTAAAATAAAATAATAAGTGAAAATGATGAAAAGAATAGGTATAAATATATGAAAATAA
66 TTAACATTAAAATAAAATAATAAGTGAAAATGATGAAAAGAATAGGTATAAATATACGAAAATAA
113838069 CACTATATAAAAAAATATG
131 CACTATATAAAAAAATATG
113838088 TATA
1 TATA
113838092 CAAGAGTAAT
Statistics
Matches: 152, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.55, C:0.04, G:0.12, T:0.29
Consensus pattern (149 bp):
TATATATATGAAGTAAATATTGAAAAATGTATGTACATGATATATATAGGAAAAGTACATACATA
TTAACATTAAAATAAAATAATAAGTGAAAATGATGAAAAGAATAGGTATAAATATACGAAAATAA
CACTATATAAAAAAATATG
Found at i:113838639 original size:26 final size:26
Alignment explanation
Indices: 113838589--113838639 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
113838579 TAAATATAGT
*
113838589 GAAAATAATAAATATAAAAGTAAAAA
1 GAAAATAATAAATATAAAAGCAAAAA
113838615 GAAAA-AATACAATATATAAA-CAAAA
1 GAAAATAATA-AATATA-AAAGCAAAA
113838640 TTAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 4 0.18
26 15 0.68
27 3 0.14
ACGTcount: A:0.73, C:0.04, G:0.06, T:0.18
Consensus pattern (26 bp):
GAAAATAATAAATATAAAAGCAAAAA
Found at i:113839956 original size:16 final size:15
Alignment explanation
Indices: 113839932--113839966 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
113839922 AAATAAACTT
*
113839932 GAAAGAAAAAGAAAAA
1 GAAAAAAAAAG-AAAA
113839948 GAAAAAAAAAGAAAA
1 GAAAAAAAAAGAAAA
113839963 GAAA
1 GAAA
113839967 TCGAAAACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.44
16 10 0.56
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
GAAAAAAAAAGAAAA
Found at i:113842275 original size:4 final size:4
Alignment explanation
Indices: 113842268--113842297 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
113842258 AGTTGCAAGC
113842268 AAAT AAAT AAAT AAAT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
113842298 ATAGAATCTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:113847160 original size:21 final size:19
Alignment explanation
Indices: 113847125--113847162 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 19
113847115 TTTATTTATT
113847125 TTTTTATAGTA-TATTTTG
1 TTTTTATAGTATTATTTTG
113847143 TTTTTATTACGTATTATTTT
1 TTTTTA-TA-GTATTATTTT
113847163 CCTTGGTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 3 0.18
21 6 0.35
ACGTcount: A:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (19 bp):
TTTTTATAGTATTATTTTG
Found at i:113850706 original size:10 final size:10
Alignment explanation
Indices: 113850679--113850709 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
113850669 ATTCGTAAAA
*
113850679 ATATATATAT
1 ATATATAGAT
113850689 ATATATAGAT
1 ATATATAGAT
113850699 ATATATAGAT
1 ATATATAGAT
113850709 A
1 A
113850710 CTTTTATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (10 bp):
ATATATAGAT
Found at i:113850801 original size:3 final size:3
Alignment explanation
Indices: 113850793--113850879 Score: 83
Period size: 3 Copynumber: 29.3 Consensus size: 3
113850783 ATGCACTTAT
*
113850793 ATA ATA ATA ATG ATA AT- ATA ATA GGA-A AT- ATA GA-A ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA --ATA ATA ATA -ATA ATA ATA ATA
* * *
113850837 ATA ATA ATA ATA ACA TTA ATA ATA ATA ATA ATA ATA CTA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
113850880 AATTGCTAAA
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
2 6 0.09
3 60 0.87
4 2 0.03
5 1 0.01
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:113853938 original size:19 final size:19
Alignment explanation
Indices: 113853914--113853950 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
113853904 AGGTCAAAGT
113853914 GTAATTTTACATTTTATGA
1 GTAATTTTACATTTTATGA
113853933 GTAATTTTACATTTTATG
1 GTAATTTTACATTTTATG
113853951 GTGTGAGCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.54
Consensus pattern (19 bp):
GTAATTTTACATTTTATGA
Found at i:113854777 original size:31 final size:31
Alignment explanation
Indices: 113854719--113854778 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
113854709 TGAATTTTTC
* *
113854719 AATTAGGTCTATTTTGGTACCTGAATTTGAT
1 AATTAGGTCTATTTTAGTACCTAAATTTGAT
* *
113854750 AATTAGGTCTATTTTAGTTCTTAAATTTG
1 AATTAGGTCTATTTTAGTACCTAAATTTG
113854779 GATTTCATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.17, T:0.48
Consensus pattern (31 bp):
AATTAGGTCTATTTTAGTACCTAAATTTGAT
Found at i:113855738 original size:3 final size:3
Alignment explanation
Indices: 113855730--113855757 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
113855720 AGATGTTCCT
113855730 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T
113855758 CACTTGTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.36
Consensus pattern (3 bp):
TGA
Found at i:113864715 original size:21 final size:20
Alignment explanation
Indices: 113864671--113864715 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
113864661 CAAAATGTTT
113864671 TTTTATATATATAGTATAAA
1 TTTTATATATATAGTATAAA
113864691 -TTTATATATAT-GATAATAAA
1 TTTTATATATATAG-T-ATAAA
113864711 TTTTA
1 TTTTA
113864716 ATCATATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 1 0.05
19 12 0.55
20 5 0.23
21 4 0.18
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (20 bp):
TTTTATATATATAGTATAAA
Found at i:113867606 original size:13 final size:13
Alignment explanation
Indices: 113867588--113867613 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
113867578 ACTCAAATGA
113867588 TAATAGTTAAATT
1 TAATAGTTAAATT
113867601 TAATAGTTAAATT
1 TAATAGTTAAATT
113867614 CAATTATTAA
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:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (13 bp):
TAATAGTTAAATT
Found at i:113869012 original size:16 final size:17
Alignment explanation
Indices: 113868987--113869026 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
113868977 GCCCAAATGC
113868987 CAAA-CCCAAAT-AAAA
1 CAAAGCCCAAATCAAAA
*
113869002 CAAAGCCCAAATCCAAA
1 CAAAGCCCAAATCAAAA
113869019 C-AAGCCCA
1 CAAAGCCCA
113869027 TTACAGCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.55, C:0.35, G:0.05, T:0.05
Consensus pattern (17 bp):
CAAAGCCCAAATCAAAA
Found at i:113882710 original size:44 final size:44
Alignment explanation
Indices: 113882612--113882723 Score: 136
Period size: 44 Copynumber: 2.5 Consensus size: 44
113882602 TTCATTATAC
* * ** *
113882612 AGATCTTATCTCCCTGAGGTTACAGCGGAGCAGATTGAAGCCAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACAG
* *
113882656 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAG
1 AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACAG
*
113882700 TA-ATCCTATCTCCTTGAGATTACA
1 -AGATCCTATCTCCCTGAGATTACA
113882724 ATGGAGCGGA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
44 59 0.98
45 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.26
Consensus pattern (44 bp):
AGATCCTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACAG
Found at i:113882982 original size:174 final size:170
Alignment explanation
Indices: 113882656--113882988 Score: 427
Period size: 174 Copynumber: 1.9 Consensus size: 170
113882646 TTGAAGCCAG
* * *
113882656 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
* * *
113882721 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGTAGAAAAGATCTCATCAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAAAAGATCGCATCAAGTCT
** * * *
113882786 TATTTTTCTGAGGTTACAGTGGAGTAGACCGGAGAATTTC
131 TATTTCCCTGAAGATACAGTGGAATAGACCGGAGAATTTC
*
113882826 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAAGACACT-ATCCTATCTCCCTGA-AGT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGA-T
* * * ** *
113882889 TACAGTGGAGTGGATTAAAATAAAGGATCTTATCTCTCTGAGGTTACAGCAGAGTAGGTCGCATC
65 TACAATGGAGCGGA-T----TAAAGGATCTTATCTCTCTGAAGTTACAGCAGAAAAGATCGCATC
*
113882954 AAGTCTTATTTCCCTGAAGATGCAGTGGAATAGAC
125 AAGTCTTATTTCCCTGAAGATACAGTGGAATAGAC
113882989 TGAAAACAAC
Statistics
Matches: 138, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
168 1 0.01
169 27 0.20
170 43 0.31
174 67 0.49
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (170 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAAGACACTAATCCTATCTCCCTGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAAAAGATCGCATCAAGTCT
TATTTCCCTGAAGATACAGTGGAATAGACCGGAGAATTTC
Found at i:113883446 original size:16 final size:17
Alignment explanation
Indices: 113883421--113883460 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
113883411 GCTCAAATGC
113883421 CAAA-CCCAAAT-AAAA
1 CAAAGCCCAAATCAAAA
*
113883436 CAAAGCCCAAATCCAAA
1 CAAAGCCCAAATCAAAA
113883453 C-AAGCCCA
1 CAAAGCCCA
113883461 TTACAGCAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 4 0.18
16 14 0.64
17 4 0.18
ACGTcount: A:0.55, C:0.35, G:0.05, T:0.05
Consensus pattern (17 bp):
CAAAGCCCAAATCAAAA
Found at i:113889824 original size:19 final size:19
Alignment explanation
Indices: 113889800--113889839 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
113889790 GAAAATTTGT
113889800 TATGTAAAATAAGATATTA
1 TATGTAAAATAAGATATTA
113889819 TATGTAAAATAAGATATTA
1 TATGTAAAATAAGATATTA
113889838 TA
1 TA
113889840 ATGAATTATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.38
Consensus pattern (19 bp):
TATGTAAAATAAGATATTA
Found at i:113897685 original size:51 final size:51
Alignment explanation
Indices: 113897597--113897738 Score: 187
Period size: 51 Copynumber: 2.7 Consensus size: 51
113897587 TAATTTACCC
*
113897597 TAATTATAATTCAAATGGGTACTG-AATTATAATTATGTTGGAACTTGGCTTT
1 TAATTATAATACAAATGGG-AC-GAAATTATAATTATGTTGGAACTTGGCTTT
* * * *
113897649 TTATTATAATACGAATGGGACGAAATTATAATTATGTTGTAACTTGTCTTT
1 TAATTATAATACAAATGGGACGAAATTATAATTATGTTGGAACTTGGCTTT
* *
113897700 TAATAATAATACTAATGGGGACGAAATTATAATTATGTT
1 TAATTATAATACAAAT-GGGACGAAATTATAATTATGTT
113897739 TGCAAAAAAG
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
50 1 0.01
51 41 0.51
52 38 0.47
ACGTcount: A:0.36, C:0.07, G:0.16, T:0.41
Consensus pattern (51 bp):
TAATTATAATACAAATGGGACGAAATTATAATTATGTTGGAACTTGGCTTT
Found at i:113912033 original size:22 final size:22
Alignment explanation
Indices: 113912008--113912053 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
113911998 TATGGTCCAT
113912008 ACAATGCTAGTGAGAGGATACC
1 ACAATGCTAGTGAGAGGATACC
113912030 ACAATGCTAGTGAGAGGATACC
1 ACAATGCTAGTGAGAGGATACC
113912052 AC
1 AC
113912054 TTATTTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.26, T:0.17
Consensus pattern (22 bp):
ACAATGCTAGTGAGAGGATACC
Found at i:113913049 original size:10 final size:9
Alignment explanation
Indices: 113913024--113913048 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
113913014 GAATTTTTAG
113913024 TTTTTTTGA
1 TTTTTTTGA
113913033 TTTTTTTGA
1 TTTTTTTGA
113913042 TTTTTTT
1 TTTTTTT
113913049 TTTGAGAAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:113913527 original size:21 final size:22
Alignment explanation
Indices: 113913501--113913562 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 22
113913491 ATATAGTACT
*
113913501 TAAAATATATACGTAAGATATA
1 TAAAATATATACATAAGATATA
*
113913523 -AAAATGTATATACATAATATATA
1 TAAAA--TATATACATAAGATATA
113913546 TAAGAATATATACATAA
1 TAA-AATATATACATAA
113913563 AGTATTAAAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
21 4 0.12
23 26 0.76
24 2 0.06
25 2 0.06
ACGTcount: A:0.56, C:0.05, G:0.06, T:0.32
Consensus pattern (22 bp):
TAAAATATATACATAAGATATA
Found at i:113913788 original size:3 final size:3
Alignment explanation
Indices: 113913780--113913835 Score: 78
Period size: 3 Copynumber: 18.7 Consensus size: 3
113913770 GTATAACGCC
* *
113913780 AAT AAT AAT AAT AAT AAT AAT AAC AAT AA- ATAT AAC AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
113913825 AAT AAT AAT AA
1 AAT AAT AAT AA
113913836 GCAAAGTGAC
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
2 1 0.02
3 45 0.96
4 1 0.02
ACGTcount: A:0.68, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:113916121 original size:2 final size:2
Alignment explanation
Indices: 113916114--113916143 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
113916104 TGTAATATTA
113916114 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
113916144 GAGTTTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:113921827 original size:23 final size:22
Alignment explanation
Indices: 113921798--113921849 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
113921788 CACTCAAAAT
*
113921798 TTTAAAACTTATAAAGAAATTA
1 TTTAAAAATTATAAAGAAATTA
113921820 TTTAAAAATTATAAAGAAATTA
1 TTTAAAAATTATAAAGAAATTA
113921842 TTTAAAAA
1 TTTAAAAA
113921850 AAATCAAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (22 bp):
TTTAAAAATTATAAAGAAATTA
Found at i:113922985 original size:20 final size:21
Alignment explanation
Indices: 113922960--113923001 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
113922950 ATTCACAACG
*
113922960 TTAAA-TTCAAAGATTTTATA
1 TTAAATTTCAAAGATTCTATA
113922980 TTAAATTTCAAAGATTCTATA
1 TTAAATTTCAAAGATTCTATA
113923001 T
1 T
113923002 GTACATTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.43, C:0.07, G:0.05, T:0.45
Consensus pattern (21 bp):
TTAAATTTCAAAGATTCTATA
Found at i:113924854 original size:16 final size:15
Alignment explanation
Indices: 113924828--113924862 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
113924818 TGATGTGAAT
113924828 AATATAAAATATTAA
1 AATATAAAATATTAA
*
113924843 AATATCAAAATATTAG
1 AATAT-AAAATATTAA
113924859 AATA
1 AATA
113924863 ATAATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (15 bp):
AATATAAAATATTAA
Found at i:113925073 original size:22 final size:24
Alignment explanation
Indices: 113925014--113925092 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 24
113925004 GTGATAATAT
* *
113925014 TAAAAATATGTACATAATATAGTG
1 TAAAAATATATACATAATATAATG
*
113925038 TAAAAAATACATACATAATATAAT-
1 T-AAAAATATATACATAATATAATG
*
113925062 T-AAAATATATACATAAGATAACATG
1 TAAAAATATATACATAATAT-A-ATG
113925087 TAAAAA
1 TAAAAA
113925093 AAATATATAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
22 16 0.36
23 1 0.02
24 4 0.09
25 20 0.44
26 4 0.09
ACGTcount: A:0.58, C:0.06, G:0.06, T:0.29
Consensus pattern (24 bp):
TAAAAATATATACATAATATAATG
Found at i:113925124 original size:15 final size:14
Alignment explanation
Indices: 113925093--113925153 Score: 52
Period size: 15 Copynumber: 4.1 Consensus size: 14
113925083 CATGTAAAAA
113925093 AAATATATATATAT
1 AAATATATATATAT
113925107 AAATA-ATATAGTATT
1 AAATATATATA-TA-T
* *
113925122 AAAGATATATACAT
1 AAATATATATATAT
113925136 AAAATAGTATAATATAT
1 -AAATA-TAT-ATATAT
113925153 A
1 A
113925154 TACGTAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
13 5 0.14
14 8 0.22
15 10 0.27
16 9 0.24
17 5 0.14
ACGTcount: A:0.57, C:0.02, G:0.05, T:0.36
Consensus pattern (14 bp):
AAATATATATATAT
Found at i:113925129 original size:25 final size:24
Alignment explanation
Indices: 113925101--113925232 Score: 110
Period size: 23 Copynumber: 5.6 Consensus size: 24
113925091 AAAAATATAT
*
113925101 ATATATAAATAATATAGTATTAAAG
1 ATATATACATAATATAGTATT-AAG
* *
113925126 ATATATACATAAAATAGTA-TAAT
1 ATATATACATAATATAGTATTAAG
* * *
113925149 ATATATACGTAATATAGAATTTAG
1 ATATATACATAATATAGTATTAAG
* * *
113925173 A-ATATACCTAATATATTA-AAAG
1 ATATATACATAATATAGTATTAAG
* *
113925195 AATATATATATAATATAATATTAAG
1 -ATATATACATAATATAGTATTAAG
*
113925220 AAATATA-ATAATA
1 ATATATACATAATA
113925233 ACAAAAAAAG
Statistics
Matches: 85, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
22 2 0.02
23 39 0.46
24 24 0.28
25 20 0.24
ACGTcount: A:0.55, C:0.03, G:0.06, T:0.36
Consensus pattern (24 bp):
ATATATACATAATATAGTATTAAG
Found at i:113925208 original size:24 final size:23
Alignment explanation
Indices: 113925181--113925232 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
113925171 AGAATATACC
*
113925181 TAATATATTA-AAAGAATATATATA
1 TAATATAATATAAAGAA-ATATA-A
*
113925205 TAATATAATATTAAGAAATATAA
1 TAATATAATATAAAGAAATATAA
113925228 TAATA
1 TAATA
113925233 ACAAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 6 0.24
24 14 0.56
25 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (23 bp):
TAATATAATATAAAGAAATATAA
Found at i:113925743 original size:30 final size:30
Alignment explanation
Indices: 113925709--113925794 Score: 136
Period size: 30 Copynumber: 2.9 Consensus size: 30
113925699 GGGGTGGTGG
*
113925709 AGTGTGGCTAGTGGAGTAGGTAGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTAGTGGAGCA
*
113925739 AGTGTGGCTAGTGGAGTTGGTCGTGGAGCA
1 AGTGTGGCTAGTGGAGTTGGTAGTGGAGCA
* *
113925769 AGTGTGACTAGTGGAGTTGGTGGTGG
1 AGTGTGGCTAGTGGAGTTGGTAGTGG
113925795 CAAAGGCTAG
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 52 1.00
ACGTcount: A:0.19, C:0.07, G:0.48, T:0.27
Consensus pattern (30 bp):
AGTGTGGCTAGTGGAGTTGGTAGTGGAGCA
Found at i:113940895 original size:18 final size:18
Alignment explanation
Indices: 113940874--113940908 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
113940864 ACTTAGATAG
113940874 TTATTCTAAGTTGAAAAA
1 TTATTCTAAGTTGAAAAA
113940892 TTATTCTAAGTTGAAAA
1 TTATTCTAAGTTGAAAA
113940909 TCTGTACAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.06, G:0.11, T:0.40
Consensus pattern (18 bp):
TTATTCTAAGTTGAAAAA
Found at i:113954200 original size:28 final size:28
Alignment explanation
Indices: 113954153--113954213 Score: 70
Period size: 27 Copynumber: 2.2 Consensus size: 28
113954143 AAATATCTCA
* *
113954153 TTTTTAAAAAAATAGTAATTTATTTTAAT
1 TTTTTAAAAAAATAG-AAATTAATTTAAT
*
113954182 TTTTTAATAAAATA-AAATTAATTTAAT
1 TTTTTAAAAAAATAGAAATTAATTTAAT
*
113954209 ATTTT
1 TTTTT
113954214 CTATATATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 15 0.54
29 13 0.46
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (28 bp):
TTTTTAAAAAAATAGAAATTAATTTAAT
Found at i:113954212 original size:29 final size:29
Alignment explanation
Indices: 113954153--113954213 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
113954143 AAATATCTCA
* * *
113954153 TTTTTAAAAAAATAGTAATTTATTTTAAT
1 TTTTTAAAAAAATAGAAATTAATTTAAAT
*
113954182 TTTTTAATAAAATA-AAATTAATTTAATAT
1 TTTTTAAAAAAATAGAAATTAATTTAA-AT
113954211 TTT
1 TTT
113954214 CTATATATTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 9 0.33
29 18 0.67
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
TTTTTAAAAAAATAGAAATTAATTTAAAT
Found at i:113960378 original size:16 final size:16
Alignment explanation
Indices: 113960357--113960398 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
113960347 CTTCTATTAG
113960357 ATTAATCAAAATTTGA
1 ATTAATCAAAATTTGA
113960373 ATTAATCAAAATTTGA
1 ATTAATCAAAATTTGA
**
113960389 CCTAATCAAA
1 ATTAATCAAA
113960399 TAATTTTCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.50, C:0.12, G:0.05, T:0.33
Consensus pattern (16 bp):
ATTAATCAAAATTTGA
Found at i:113962954 original size:31 final size:30
Alignment explanation
Indices: 113962919--113962988 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
113962909 TTAATATACT
* * *
113962919 ATTTGTTACTTGAGTTTAGCTTTAATGTTCA
1 ATTTGGTACTCGAG-TTAGCTATAATGTTCA
* *
113962950 ATTTGGTACTCGAGTTGGCTATAATGTTCC
1 ATTTGGTACTCGAGTTAGCTATAATGTTCA
113962980 ATTTGGTAC
1 ATTTGGTAC
113962989 CTTTGTTTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
30 22 0.65
31 12 0.35
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.46
Consensus pattern (30 bp):
ATTTGGTACTCGAGTTAGCTATAATGTTCA
Found at i:113963145 original size:31 final size:31
Alignment explanation
Indices: 113963107--113963200 Score: 95
Period size: 31 Copynumber: 3.1 Consensus size: 31
113963097 TTGGTCTAGA
*
113963107 TACCAAATTGAACATTGAATCCAAACTCAGG
1 TACCAAATTGAACATTGAAACCAAACTCAGG
** *
113963138 TACCAAATTGGAACA---AAAAAAAACTTAGG
1 TACCAAATT-GAACATTGAAACCAAACTCAGG
* * *
113963167 TACCAAATTGAATATTGAAGCCAAACACAGG
1 TACCAAATTGAACATTGAAACCAAACTCAGG
113963198 TAC
1 TAC
113963201 TAATGGTATA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
28 4 0.08
29 19 0.39
31 21 0.43
32 5 0.10
ACGTcount: A:0.47, C:0.19, G:0.14, T:0.20
Consensus pattern (31 bp):
TACCAAATTGAACATTGAAACCAAACTCAGG
Found at i:113964982 original size:2 final size:2
Alignment explanation
Indices: 113964977--113965004 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
113964967 TGTCTATTTC
113964977 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
113965005 TGTGTGTGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:113965294 original size:13 final size:13
Alignment explanation
Indices: 113965276--113965303 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
113965266 CTTGACAAAG
113965276 ATTATCTCTATGC
1 ATTATCTCTATGC
113965289 ATTATCTCTATGC
1 ATTATCTCTATGC
113965302 AT
1 AT
113965304 GCACTTTTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.21, G:0.07, T:0.46
Consensus pattern (13 bp):
ATTATCTCTATGC
Found at i:113968538 original size:187 final size:188
Alignment explanation
Indices: 113968128--113968841 Score: 954
Period size: 187 Copynumber: 3.8 Consensus size: 188
113968118 TTTGGACTTT
* * * ** *
113968128 GGAATTATAGCTATTTATGGTGTTGATGAGAGCTTGGGTTGTGGTTTAAAGGATGCCTTTGCTCG
1 GGAACTATAGCTA-TTATGGTGTTGATGAGAGCTAGGGTTGTGG-TTGAAGGACCCCTTTACTCG
* * * *
113968193 AA-CAGAATGCTTTGCCAATGGGTTTAGAGTTATTTAGCTAGGGTGGATTTAGGGTTTTGTGGTT
64 AACCA-AAAGCTTTGCTAATGGGTTTAGAGTTATTTAGCTAGGGAGGATTTAGGGTTTTGTGATT
* * * *
113968257 ACCATCAAACACTTCTATGAAACCTCGCATTCTTTGTGTTTGATT-AGTTCGAAGCCTTCATT
128 ATCATCAAACACTTTTATG-AACCTCGCATTCTCTGTGTTTGATTCA-TTCGAAGCCTTCATC
* * *
113968319 GGAACTATAGCTATTATGGTGTTGAGGAGAGCTAGGGTTGTGGTTGAAGGGCCCCTTTACTTGAA
1 GGAACTATAGCTATTATGGTGTTGATGAGAGCTAGGGTTGTGGTTGAAGGACCCCTTTACTCGAA
* *
113968384 CCAAGAGCTTTGCTAATGGGTTTAGAGTTATTTGGCTAGGGAGGATTTAGGGTTTTGTGATTATC
66 CCAAAAGCTTTGCTAATGGGTTTAGAGTTATTTAGCTAGGGAGGATTTAGGGTTTTGTGATTATC
* * *
113968449 ATCCATCACTTTTATGAACCTCGCATT-TCTGTGTTTGATTCATTCTAAGCCTTCATC
131 ATCAAACACTTTTATGAACCTCGCATTCTCTGTGTTTGATTCATTCGAAGCCTTCATC
* * *
113968506 GGAACTATAGCTATTATGGTGTTGATGAGAGCTAGGTTTGTAGTTGAAGGACCCCTTTACTCAAA
1 GGAACTATAGCTATTATGGTGTTGATGAGAGCTAGGGTTGTGGTTGAAGGACCCCTTTACTCGAA
* *
113968571 CCAAAAGCTTTGCTAATAGGTTTAGAGTTATTTGGCTAGGGAGGATTTAGGGTTTTGTGATTATC
66 CCAAAAGCTTTGCTAATGGGTTTAGAGTTATTTAGCTAGGGAGGATTTAGGGTTTTGTGATTATC
* * *
113968636 ATCAAACGCTTTCATGAACCTCGCATTCTCTGTGTTTGATTCATTCGAAGGCTTCATC
131 ATCAAACACTTTTATGAACCTCGCATTCTCTGTGTTTGATTCATTCGAAGCCTTCATC
* * * * * *
113968694 AGAACTATAGTTACTGTGGTGTTGATGAGAGCT-GGGTT-TGCGGTGTAAGG-CCGCCTTTACTT
1 GGAACTATAGCTATTATGGTGTTGATGAGAGCTAGGGTTGTG-GTTG-AAGGACC-CCTTTACTC
* * * *
113968756 GAACCAAAAGCTTTACTAATGGGTTAAGAGTTATTTAGCCAGGGAGGATTTAGCGTTTTGTGATT
63 GAACCAAAAGCTTTGCTAATGGGTTTAGAGTTATTTAGCTAGGGAGGATTTAGGGTTTTGTGATT
113968821 ATCATCAAACACTTTTATGAA
128 ATCATCAAACACTTTTATGAA
113968842 ATCTCACAGC
Statistics
Matches: 464, Mismatches: 53, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
186 1 0.00
187 179 0.39
188 158 0.34
189 84 0.18
190 30 0.06
191 12 0.03
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (188 bp):
GGAACTATAGCTATTATGGTGTTGATGAGAGCTAGGGTTGTGGTTGAAGGACCCCTTTACTCGAA
CCAAAAGCTTTGCTAATGGGTTTAGAGTTATTTAGCTAGGGAGGATTTAGGGTTTTGTGATTATC
ATCAAACACTTTTATGAACCTCGCATTCTCTGTGTTTGATTCATTCGAAGCCTTCATC
Found at i:113978226 original size:216 final size:216
Alignment explanation
Indices: 113977847--113978243 Score: 616
Period size: 216 Copynumber: 1.8 Consensus size: 216
113977837 CAATTAATCG
* * ** * *
113977847 GTCCGATTGATTTTCAGTAACTATATATACATCTGTTGATAATTCTATAAAAATAAGTAACAACG
1 GTCCAATTGATTTCCAACAACTATATATACATCAGTTGATAATTCTATAAAAATAACTAACAACG
* *
113977912 CTTTGGAGCTTTGAGATCCTAAATTCGAGTTCCAACCAAAATTCCGGAATCCTTCTAAGTGTGCA
66 CTTTGGACCTTTGAGATACTAAATTCGAGTTCCAACCAAAATTCCGGAATCCTTCTAAGTGTGCA
* * *
113977977 AATTAATGTAGAGAGGTTAGTCTCTAGTTTCAACATAATTAAAGGGGCTAACCTCGTAATTATGG
131 AATTAAAGTAGAGAGATTAGTCTCTAGTTTCAACATAATTAAAGGGACTAACCTCGTAATTATGG
113978042 TTTAACTCGTTAAATCAGTTA
196 TTTAACTCGTTAAATCAGTTA
* *
113978063 GTCCAATTGATTTCCAACAACTATATATACATCAGTTGATAATTCTATAAAAATAACTAATAAGG
1 GTCCAATTGATTTCCAACAACTATATATACATCAGTTGATAATTCTATAAAAATAACTAACAACG
* * *
113978128 CTTTGGACCTTTGAGATACTAAATTCGAGTTTCACCCAAAGTTCTC-GAATCCTTCTAAGTGTGC
66 CTTTGGACCTTTGAGATACTAAATTCGAGTTCCAACCAAAATTC-CGGAATCCTTCTAAGTGTGC
* *
113978192 AAATTAAAGTAGGGAGATTAGTGTCTAGTTTCAACATAATTAAAGGGACTAA
130 AAATTAAAGTAGAGAGATTAGTCTCTAGTTTCAACATAATTAAAGGGACTAA
113978244 TATCAAATTA
Statistics
Matches: 162, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
216 161 0.99
217 1 0.01
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (216 bp):
GTCCAATTGATTTCCAACAACTATATATACATCAGTTGATAATTCTATAAAAATAACTAACAACG
CTTTGGACCTTTGAGATACTAAATTCGAGTTCCAACCAAAATTCCGGAATCCTTCTAAGTGTGCA
AATTAAAGTAGAGAGATTAGTCTCTAGTTTCAACATAATTAAAGGGACTAACCTCGTAATTATGG
TTTAACTCGTTAAATCAGTTA
Found at i:113981886 original size:41 final size:41
Alignment explanation
Indices: 113981823--113981900 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
113981813 GTGTAATCCC
* *
113981823 AAATCAACTTATCGTATTCATATATTACTCATAAAAACACA
1 AAATCAACTTATCATATCCATATATTACTCATAAAAACACA
113981864 AAATCAACTTATCATATCCATATATTACTCATAAAAA
1 AAATCAACTTATCATATCCATATATTACTCATAAAAA
113981901 ATTTGGTTAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.32
Consensus pattern (41 bp):
AAATCAACTTATCATATCCATATATTACTCATAAAAACACA
Found at i:113990228 original size:16 final size:16
Alignment explanation
Indices: 113990207--113990238 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
113990197 ACCTGAAAAT
113990207 TCATAACTAAAACAAC
1 TCATAACTAAAACAAC
113990223 TCATAACTAAAACAAC
1 TCATAACTAAAACAAC
113990239 GTAAACTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.00, T:0.19
Consensus pattern (16 bp):
TCATAACTAAAACAAC
Found at i:113990373 original size:25 final size:23
Alignment explanation
Indices: 113990344--113990394 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
113990334 TTTATATTTT
*
113990344 AAATAAATAATATGAATACAACTTA
1 AAATAAACAATA--AATACAACTTA
* *
113990369 AAATATACAATAAATACGACTTA
1 AAATAAACAATAAATACAACTTA
113990392 AAA
1 AAA
113990395 ATAACGATGG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 13 0.57
25 10 0.43
ACGTcount: A:0.61, C:0.10, G:0.04, T:0.25
Consensus pattern (23 bp):
AAATAAACAATAAATACAACTTA
Found at i:113992789 original size:114 final size:112
Alignment explanation
Indices: 113992553--113992844 Score: 370
Period size: 114 Copynumber: 2.6 Consensus size: 112
113992543 GAATAAATAT
* * * *
113992553 AAGTTAGGAGTAGGGGTAATTTAGGTATTAAAAATTATGTAT-ATTCTATATATAATATAAAACT
1 AAGTTAGGAGTAGGGGTAATTCAGGTATTAAAAGTTATGTGTGA-TCTATATA-AATATAAAACC
** ** * *
113992617 AACTTTTTGGTGAGTCATTAGGAATAAACAGGGGTAATTTAGGTATTAG
64 AACTCCTTCCTGAGTCATTAGGAATAAACAGGGGTAATTTAAGTATTAA
* * * *
113992666 AAGTTAGGAGTCGGGGTAATTCCGGCATTAAAAGTTATGTGTGATATATATACAATATAAAACCA
1 AAGTTAGGAGTAGGGGTAATTCAGGTATTAAAAGTTATGTGTGATCTATATA-AATATAAAACCA
*
113992731 ACTCCTTCCTGGAGTCATTAGGAATAAATAGGGGTAATTTAAGTATTAA
65 ACTCCTTCCT-GAGTCATTAGGAATAAACAGGGGTAATTTAAGTATTAA
* * * *
113992780 AAGTTAGGAGTAAGGGTAATTCGGGTGTTAAAAGTTATGTGTGATCTATATATATATAAAACCAA
1 AAGTTAGGAGTAGGGGTAATTCAGGTATTAAAAGTTATGTGTGATCTATATAAATATAAAACCAA
113992845 GCTCATTTGG
Statistics
Matches: 154, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
113 72 0.47
114 82 0.53
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.33
Consensus pattern (112 bp):
AAGTTAGGAGTAGGGGTAATTCAGGTATTAAAAGTTATGTGTGATCTATATAAATATAAAACCAA
CTCCTTCCTGAGTCATTAGGAATAAACAGGGGTAATTTAAGTATTAA
Found at i:113993614 original size:23 final size:21
Alignment explanation
Indices: 113993588--113993629 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
113993578 TTGCTTTAAT
113993588 TATATATATTTAATCTATATATG
1 TATATATATTT-AT-TATATATG
*
113993611 TATATCTATTTATTATATA
1 TATATATATTTATTATATA
113993630 AAACCAGCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 6 0.33
22 2 0.11
23 10 0.56
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (21 bp):
TATATATATTTATTATATATG
Found at i:113995635 original size:22 final size:22
Alignment explanation
Indices: 113995605--113995647 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
113995595 CCTTTATGGA
*
113995605 TTTAGTATGCAAACCCCATATT
1 TTTAATATGCAAACCCCATATT
*
113995627 TTTAATATGCAAACCCTATAT
1 TTTAATATGCAAACCCCATAT
113995648 GTACGAACCC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (22 bp):
TTTAATATGCAAACCCCATATT
Found at i:113995658 original size:15 final size:15
Alignment explanation
Indices: 113995638--113995878 Score: 143
Period size: 15 Copynumber: 16.4 Consensus size: 15
113995628 TTAATATGCA
*
113995638 AACCCTATATGTACG
1 AACCCTATATGTGCG
*
113995653 AACCCTACATGTGCG
1 AACCCTATATGTGCG
* *
113995668 AACCCTATAGGTGTG
1 AACCCTATATGTGCG
* *
113995683 AACCCTACATGTGTG
1 AACCCTATATGTGCG
* *
113995698 AACCC-ATATGCGTG
1 AACCCTATATGTGCG
* * *
113995712 AATCCTGTAAGTGCG
1 AACCCTATATGTGCG
* *
113995727 AATCC-ATATGTACG
1 AACCCTATATGTGCG
*
113995741 AACCCTATAGGTGCG
1 AACCCTATATGTGCG
*
113995756 AACCC-ATATGCGCG
1 AACCCTATATGTGCG
* * * *
113995770 AATCTTGTA-GATGCT
1 AACCCTATATG-TGCG
*
113995785 AACCC-ATATGTACG
1 AACCCTATATGTGCG
* * * *
113995799 AACCTTTTAGGTGCT
1 AACCCTATATGTGCG
* *
113995814 AATCC-ATATGTACG
1 AACCCTATATGTGCG
* * *
113995828 AACCTTATAGGTGTG
1 AACCCTATATGTGCG
*
113995843 AACCCTATATGTGGG
1 AACCCTATATGTGCG
* *
113995858 AACCCTATAAGTGTG
1 AACCCTATATGTGCG
113995873 AACCCT
1 AACCCT
113995879 TCGTGTGAAC
Statistics
Matches: 166, Mismatches: 53, Indels: 14
0.71 0.23 0.06
Matches are distributed among these distances:
14 48 0.29
15 118 0.71
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (15 bp):
AACCCTATATGTGCG
Found at i:113995674 original size:30 final size:29
Alignment explanation
Indices: 113995638--113995864 Score: 114
Period size: 29 Copynumber: 7.7 Consensus size: 29
113995628 TTAATATGCA
113995638 AACCCTATATGTACGAACCCTACATGTGCG
1 AACCC-ATATGTACGAACCCTACATGTGCG
* ** *
113995668 AACCCTATAGGTGTGAACCCTACATGTGTG
1 AACCC-ATATGTACGAACCCTACATGTGCG
*** * ** *
113995698 AACCCATATGCGTGAATCCTGTAAGTGCG
1 AACCCATATGTACGAACCCTACATGTGCG
* * *
113995727 AATCCATATGTACGAACCCTATAGGTGCG
1 AACCCATATGTACGAACCCTACATGTGCG
** * * ** *
113995756 AACCCATATGCGCGAATCTTGTA-GATGCT
1 AACCCATATGTACGAACCCTACATG-TGCG
* ** * *
113995785 AACCCATATGTACGAACCTTTTAGGTGCT
1 AACCCATATGTACGAACCCTACATGTGCG
* * * * *
113995814 AATCCATATGTACGAACCTTATAGGTGTG
1 AACCCATATGTACGAACCCTACATGTGCG
**
113995843 AACCCTATATGTGGGAACCCTA
1 AACCC-ATATGTACGAACCCTA
113995865 TAAGTGTGAA
Statistics
Matches: 157, Mismatches: 37, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
28 1 0.01
29 111 0.71
30 45 0.29
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.26
Consensus pattern (29 bp):
AACCCATATGTACGAACCCTACATGTGCG
Found at i:113995759 original size:58 final size:58
Alignment explanation
Indices: 113995664--113995877 Score: 171
Period size: 58 Copynumber: 3.7 Consensus size: 58
113995654 ACCCTACATG
* ** * * * *
113995664 TGCGAACCCTATAGGTGTGAACCCTACATGTGTGAACCCATATGCGTGAATCCTGTA-A
1 TGCGAACCC-ATATGTACGAACCCTATAGGTGCGAACCCATATGCGCGAATCCTGTAGA
* *
113995722 GTGCGAATCCATATGTACGAACCCTATAGGTGCGAACCCATATGCGCGAATCTTGTAGA
1 -TGCGAACCCATATGTACGAACCCTATAGGTGCGAACCCATATGCGCGAATCCTGTAGA
* * * * * ** * *
113995781 TGCTAACCCATATGTACGAACCTTTTAGGTGCTAATCCATATGTACGAA-CCTTATAGG
1 TGCGAACCCATATGTACGAACCCTATAGGTGCGAACCCATATGCGCGAATCC-TGTAGA
* ** * *
113995839 TGTGAACCCTATATGTGGGAACCCTATAAGTGTGAACCC
1 TGCGAACCC-ATATGTACGAACCCTATAGGTGCGAACCC
113995878 TTCGTGTGAA
Statistics
Matches: 122, Mismatches: 30, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
57 1 0.01
58 91 0.75
59 30 0.25
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.27
Consensus pattern (58 bp):
TGCGAACCCATATGTACGAACCCTATAGGTGCGAACCCATATGCGCGAATCCTGTAGA
Found at i:113995800 original size:29 final size:29
Alignment explanation
Indices: 113995730--113995854 Score: 144
Period size: 29 Copynumber: 4.3 Consensus size: 29
113995720 AAGTGCGAAT
* *
113995730 CCATATGTACGAACCCTATAGGTGCGAAC
1 CCATATGTACGAACCTTATAGGTGCTAAC
** * * *
113995759 CCATATGCGCGAATCTTGTAGATGCTAAC
1 CCATATGTACGAACCTTATAGGTGCTAAC
* *
113995788 CCATATGTACGAACCTTTTAGGTGCTAAT
1 CCATATGTACGAACCTTATAGGTGCTAAC
113995817 CCATATGTACGAACCTTATAGGTG-TGAAC
1 CCATATGTACGAACCTTATAGGTGCT-AAC
113995846 CCTATATGT
1 CC-ATATGT
113995855 GGGAACCCTA
Statistics
Matches: 79, Mismatches: 15, Indels: 3
0.81 0.15 0.03
Matches are distributed among these distances:
28 1 0.01
29 72 0.91
30 6 0.08
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (29 bp):
CCATATGTACGAACCTTATAGGTGCTAAC
Found at i:113999136 original size:31 final size:31
Alignment explanation
Indices: 113999060--113999137 Score: 86
Period size: 31 Copynumber: 2.5 Consensus size: 31
113999050 TAAAAAACGA
* *
113999060 TTAA-GTACTAAATTAAGAAAAAATGTCAAG
1 TTAAGGTACCAAATTAGGAAAAAATGTCAAG
* * * *
113999090 TTCATGTACCGAATTAGGAAAAAGTGTCAAG
1 TTAAGGTACCAAATTAGGAAAAAATGTCAAG
*
113999121 TTAAGGTGCCAAATTAG
1 TTAAGGTACCAAATTAG
113999138 TCCAAAGAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
30 3 0.08
31 35 0.92
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (31 bp):
TTAAGGTACCAAATTAGGAAAAAATGTCAAG
Found at i:114000352 original size:21 final size:22
Alignment explanation
Indices: 114000301--114000353 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
114000291 GACACATATG
114000301 CATGGTATAT-ATAAAAATGTA
1 CATGGTATATAATAAAAATGTA
* *
114000322 TA-AGTAATATAATAAAAAT-TA
1 CATGGT-ATATAATAAAAATGTA
114000343 CATGGTATATA
1 CATGGTATATA
114000354 TACATGTTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 6
0.71 0.11 0.17
Matches are distributed among these distances:
20 2 0.08
21 13 0.52
22 10 0.40
ACGTcount: A:0.51, C:0.04, G:0.11, T:0.34
Consensus pattern (22 bp):
CATGGTATATAATAAAAATGTA
Found at i:114001169 original size:22 final size:20
Alignment explanation
Indices: 114001144--114001187 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 20
114001134 ATTATTAATC
114001144 TAAAAAAATGCCTAAATAATAA
1 TAAAAAAATG-CTAAA-AATAA
*
114001166 T-AAAATATGCTAAAAATAA
1 TAAAAAAATGCTAAAAATAA
114001185 TAA
1 TAA
114001188 TACAAGAAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 4
0.80 0.04 0.16
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 7 0.35
22 1 0.05
ACGTcount: A:0.64, C:0.07, G:0.05, T:0.25
Consensus pattern (20 bp):
TAAAAAAATGCTAAAAATAA
Found at i:114005008 original size:19 final size:19
Alignment explanation
Indices: 114004984--114005026 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
114004974 AAAAAAATGT
114004984 TATTTAAATTTAAT-TTTAA
1 TATTT-AATTTAATATTTAA
114005003 TATTTAATTTAATATTTAA
1 TATTTAATTTAATATTTAA
*
114005022 AATTT
1 TATTT
114005027 TTGTCTCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATTTAATTTAATATTTAA
Found at i:114005013 original size:12 final size:12
Alignment explanation
Indices: 114004985--114005021 Score: 58
Period size: 12 Copynumber: 3.1 Consensus size: 12
114004975 AAAAAATGTT
114004985 ATTTAA-ATTTA
1 ATTTAATATTTA
114004996 ATTTTAATATTTA
1 A-TTTAATATTTA
114005009 ATTTAATATTTA
1 ATTTAATATTTA
114005021 A
1 A
114005022 AATTTTTGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 1 0.04
12 17 0.71
13 6 0.25
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (12 bp):
ATTTAATATTTA
Found at i:114025345 original size:20 final size:18
Alignment explanation
Indices: 114025320--114025367 Score: 55
Period size: 20 Copynumber: 2.6 Consensus size: 18
114025310 AATATTTAAA
114025320 ATATATTTTAGATTAATATT
1 ATATATTTTA-ATTAA-ATT
114025340 ATATATTTATAATTAAATT
1 ATATATTT-TAATTAAATT
114025359 -TAT-TTTTAA
1 ATATATTTTAA
114025368 AATTTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 3 0.11
17 3 0.11
18 3 0.11
19 3 0.11
20 13 0.48
21 2 0.07
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (18 bp):
ATATATTTTAATTAAATT
Found at i:114026575 original size:4 final size:4
Alignment explanation
Indices: 114026566--114026598 Score: 57
Period size: 4 Copynumber: 8.2 Consensus size: 4
114026556 AGCTTCATTG
*
114026566 ATGT ATGT ATGT ATGT ATGT ATGT ATGC ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT A
114026599 GTTTGTTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.45
Consensus pattern (4 bp):
ATGT
Found at i:114041000 original size:22 final size:22
Alignment explanation
Indices: 114040972--114041014 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
114040962 TAAGTCTAAG
*
114040972 ATAGTTTATTTTCTTTCTCAAC
1 ATAGTTTATTTTCCTTCTCAAC
114040994 ATAGTTTATTTTCCTTCTCAA
1 ATAGTTTATTTTCCTTCTCAA
114041015 TAACTCAGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.19, G:0.05, T:0.53
Consensus pattern (22 bp):
ATAGTTTATTTTCCTTCTCAAC
Found at i:114041765 original size:25 final size:25
Alignment explanation
Indices: 114041737--114041788 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
114041727 GTTTTTTGGG
*
114041737 TTAAT-ATAATATTTGGTACTTGAGT
1 TTAATGATAA-ATTTAGTACTTGAGT
*
114041762 TTAATGCTAAATTTAGTACTTGAGT
1 TTAATGATAAATTTAGTACTTGAGT
114041787 TT
1 TT
114041789 TTTGTCCCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 21 0.88
26 3 0.12
ACGTcount: A:0.31, C:0.06, G:0.15, T:0.48
Consensus pattern (25 bp):
TTAATGATAAATTTAGTACTTGAGT
Found at i:114042143 original size:31 final size:31
Alignment explanation
Indices: 114042093--114042154 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
114042083 TATTGGGTAC
* * *
114042093 TATTGAAGCCAAACTCAGGTACCAAATTGAA
1 TATTAAAGACAAACACAGGTACCAAATTGAA
*
114042124 TATTAAAGACAAACACAGGTATCAAATTGAA
1 TATTAAAGACAAACACAGGTACCAAATTGAA
114042155 CACTAAAACT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.16, G:0.15, T:0.23
Consensus pattern (31 bp):
TATTAAAGACAAACACAGGTACCAAATTGAA
Found at i:114048189 original size:18 final size:18
Alignment explanation
Indices: 114048162--114048202 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
114048152 GTATTGCTGT
114048162 AAAA-AAAAA-TAATGTGA
1 AAAATAAAAATTAAT-TGA
*
114048179 AAAATAAAAATTAATTTA
1 AAAATAAAAATTAATTGA
114048197 AAAATA
1 AAAATA
114048203 TTCAAACTCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 13 0.62
19 4 0.19
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (18 bp):
AAAATAAAAATTAATTGA
Found at i:114049284 original size:16 final size:16
Alignment explanation
Indices: 114049254--114049288 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
114049244 TTTAAATAAA
114049254 AAATTTATATATTTTAT
1 AAATTTATATATTTT-T
114049271 AAATTTAT-TATTTTT
1 AAATTTATATATTTTT
114049286 AAA
1 AAA
114049289 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 6 0.33
17 8 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATTTATATATTTTT
Found at i:114050394 original size:10 final size:11
Alignment explanation
Indices: 114050378--114050420 Score: 54
Period size: 10 Copynumber: 4.1 Consensus size: 11
114050368 TTTTTTTATT
114050378 TAATTATAAAA
1 TAATTATAAAA
114050389 -AATTATAAAA
1 TAATTATAAAA
*
114050399 TAATTATTAAA
1 TAATTATAAAA
*
114050410 TTATT-TAAAA
1 TAATTATAAAA
114050420 T
1 T
114050421 TTTCTTTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
10 15 0.54
11 13 0.46
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
TAATTATAAAA
Found at i:114050531 original size:16 final size:16
Alignment explanation
Indices: 114050507--114050537 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
114050497 ATTTTATCTC
*
114050507 TTAATATTTATATATT
1 TTAACATTTATATATT
114050523 TTAACATTTATATAT
1 TTAACATTTATATAT
114050538 ATATTACGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (16 bp):
TTAACATTTATATATT
Found at i:114052572 original size:27 final size:25
Alignment explanation
Indices: 114052528--114052591 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 25
114052518 GTTAAGTTAC
*
114052528 ATTTATCTTAATATTATTTAAATATAAAT
1 ATTTATTTTAATATTA-TT-AA-A-AAAT
114052557 ATTT-TTTTAAT-TTATTAAAAAAT
1 ATTTATTTTAATATTATTAAAAAAT
114052580 ATTTATTTTAAT
1 ATTTATTTTAAT
114052592 GTTTTTGGTA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 8 0.24
24 8 0.24
25 2 0.06
26 2 0.06
27 3 0.09
28 6 0.18
29 4 0.12
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTTATTTTAATATTATTAAAAAAT
Found at i:114052668 original size:14 final size:17
Alignment explanation
Indices: 114052635--114052671 Score: 53
Period size: 14 Copynumber: 2.4 Consensus size: 17
114052625 ATTTATTTTT
114052635 ATATGAAAATAATAATA
1 ATATGAAAATAATAATA
114052652 ATAT-AAAA-AAT-ATA
1 ATATGAAAATAATAATA
114052666 ATATGA
1 ATATGA
114052672 GCGGACTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.37
15 4 0.21
16 4 0.21
17 4 0.21
ACGTcount: A:0.65, C:0.00, G:0.05, T:0.30
Consensus pattern (17 bp):
ATATGAAAATAATAATA
Found at i:114054380 original size:8 final size:8
Alignment explanation
Indices: 114054367--114054391 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
114054357 ATTTCATTTC
114054367 TCTCTTTT
1 TCTCTTTT
114054375 TCTCTTTT
1 TCTCTTTT
114054383 TCTCTTTT
1 TCTCTTTT
114054391 T
1 T
114054392 ACCCTAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (8 bp):
TCTCTTTT
Found at i:114056417 original size:30 final size:30
Alignment explanation
Indices: 114056383--114056440 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
114056373 TTTCTAAATT
*
114056383 ATAAATTAAAGAGATCTTATGGAATTAACC
1 ATAAATTAAAGAGATCTTATGCAATTAACC
*
114056413 ATAAATTAAGGAGATCTTATGCAATTAA
1 ATAAATTAAAGAGATCTTATGCAATTAA
114056441 TCAGTAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.47, C:0.09, G:0.14, T:0.31
Consensus pattern (30 bp):
ATAAATTAAAGAGATCTTATGCAATTAACC
Found at i:114064952 original size:33 final size:31
Alignment explanation
Indices: 114064891--114064957 Score: 73
Period size: 33 Copynumber: 2.1 Consensus size: 31
114064881 AATCTATGAT
*
114064891 AATATAAAATACTATAATGTAAACTTTAAAA
1 AATATAAAATACTATAATGAAAACTTTAAAA
* *
114064922 AATATTAAAATACCTATATAT-AAAATTTTAATA
1 AATA-TAAAATA-CTATA-ATGAAAACTTTAAAA
114064955 AAT
1 AAT
114064958 GAAAAGAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
31 4 0.13
32 7 0.23
33 17 0.57
34 2 0.07
ACGTcount: A:0.57, C:0.06, G:0.01, T:0.36
Consensus pattern (31 bp):
AATATAAAATACTATAATGAAAACTTTAAAA
Found at i:114066718 original size:37 final size:39
Alignment explanation
Indices: 114066663--114066735 Score: 107
Period size: 38 Copynumber: 1.9 Consensus size: 39
114066653 ATTTAATTAA
*
114066663 TTTTTAAAAAATTTAAAA-T-TTAAAATATATAAAAATTG
1 TTTTTAAAAAATTAAAAATTATTAAAAT-TATAAAAATTG
114066701 TTTTT-AAAAATTAAAAATTATTAAAATTATAAAAA
1 TTTTTAAAAAATTAAAAATTATTAAAATTATAAAAA
114066736 AATATTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
37 11 0.34
38 14 0.44
39 7 0.22
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (39 bp):
TTTTTAAAAAATTAAAAATTATTAAAATTATAAAAATTG
Found at i:114066725 original size:10 final size:10
Alignment explanation
Indices: 114066710--114066766 Score: 53
Period size: 10 Copynumber: 5.6 Consensus size: 10
114066700 GTTTTTAAAA
114066710 ATTAAAAATT
1 ATTAAAAATT
114066720 ATT-AAAATT
1 ATTAAAAATT
* *
114066729 ATAAAAAAAT
1 ATTAAAAATT
*
114066739 ATTTTAAAATT
1 A-TTAAAAATT
*
114066750 TTTAAAAATT
1 ATTAAAAATT
114066760 AATTAAA
1 -ATTAAA
114066767 TGTTGACATG
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
9 8 0.22
10 17 0.47
11 11 0.31
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
ATTAAAAATT
Found at i:114082059 original size:16 final size:16
Alignment explanation
Indices: 114082017--114082070 Score: 51
Period size: 16 Copynumber: 3.6 Consensus size: 16
114082007 GTTTATATTA
114082017 ATTTTAGATTA-TTTG
1 ATTTTAGATTATTTTG
* *
114082032 --TTTAAATCATTTTG
1 ATTTTAGATTATTTTG
*
114082046 ATTTTAGATTATTTTT
1 ATTTTAGATTATTTTG
*
114082062 AGTTTAGAT
1 ATTTTAGAT
114082071 CTCATAAAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
13 7 0.23
14 4 0.13
16 19 0.63
ACGTcount: A:0.28, C:0.02, G:0.11, T:0.59
Consensus pattern (16 bp):
ATTTTAGATTATTTTG
Found at i:114082264 original size:28 final size:27
Alignment explanation
Indices: 114082232--114082286 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
114082222 TATTTTAATA
114082232 ATTAAATATGAATTAATATAA-AATAAAT
1 ATTAAATAT-AATTAATA-AACAATAAAT
*
114082260 ATTAAATATAATTTATAAACAATAAAT
1 ATTAAATATAATTAATAAACAATAAAT
114082287 TTTTTTTGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
26 2 0.08
27 14 0.56
28 9 0.36
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (27 bp):
ATTAAATATAATTAATAAACAATAAAT
Found at i:114087771 original size:127 final size:126
Alignment explanation
Indices: 114087546--114088013 Score: 607
Period size: 127 Copynumber: 3.6 Consensus size: 126
114087536 AGAAAGAAAG
* **
114087546 AAAGCTCAAAAATCACATTGTTCAACTCAAAAACCTAAATCTAAACTTAACCAGCAACACTGAAT
1 AAAGCTCAAAAATCACATTGTTCATCTCAAAAAAATAAATCTAAACTTAACCAGCAACACTGAAT
114087611 CAATAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAA
66 CAATAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAA
*
114087672 AAAGCTCAAAAATCACATTGTTCATCTCGAAAAAAATAAATCTAAACTTAACCAGCAACACAGAA
1 AAAGCTCAAAAATCACATTGTTCATCTC-AAAAAAATAAATCTAAACTTAACCAGCAACACTGAA
* *
114087737 TCAATAAAAATTCAAATTAGTGCATAGAAATCTCAAAGTCAATGCTAACAAAAACGACAAAA
65 TCAATAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAA
* *
114087799 GAAGGCTCAAAAATCACATTGTTCGA-CTCAAAAAAACTAAATCTAAACTTAAACCAACAACACT
1 -AAAGCTCAAAAATCACATTGTTC-ATCTCAAAAAAA-TAAATCTAAACTT-AACCAGCAACACT
* * * * * * *
114087863 GAATAAATAAAAATTCAAAAATAGTACATAGAAATCACAGACTCAATACTAGCAAAAACTAAAAA
62 GAATCAATAAAAATTC-AAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAAC-----G
*
114087928 AAAAAA
121 ACAAAA
* * * * * * * *
114087934 AAAGCTCAAAAATCATATTTTTCGTCTC-AAAAACTAAATCAAAACTAAACCTGCAACCCTGAAT
1 AAAGCTCAAAAATCACATTGTTCATCTCAAAAAAATAAATCTAAACTTAACCAGCAACACTGAAT
114087998 CAATAAAAATTCAAAT
66 CAATAAAAATTCAAAT
114088014 CAATTCAAAA
Statistics
Matches: 299, Mismatches: 31, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
126 27 0.09
127 100 0.33
128 38 0.13
129 27 0.09
130 38 0.13
131 25 0.08
132 11 0.04
133 5 0.02
134 23 0.08
135 5 0.02
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.21
Consensus pattern (126 bp):
AAAGCTCAAAAATCACATTGTTCATCTCAAAAAAATAAATCTAAACTTAACCAGCAACACTGAAT
CAATAAAAATTCAAATTAGTACATAGAAATCTCAAAGTCAATGCTAGCAAAAACGACAAAA
Found at i:114092179 original size:37 final size:37
Alignment explanation
Indices: 114092129--114092286 Score: 190
Period size: 37 Copynumber: 4.0 Consensus size: 37
114092119 AGCTAGGCTA
****
114092129 CCACTTATCACTTTACCACTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
114092166 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
*
114092203 CTAAAACTACCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAA
1 ---------CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
114092249 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
114092286 C
1 C
114092287 TAAAACTACC
Statistics
Matches: 106, Mismatches: 6, Indels: 18
0.82 0.05 0.14
Matches are distributed among these distances:
37 70 0.66
46 36 0.34
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.37
Consensus pattern (37 bp):
CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAG
Found at i:114092219 original size:46 final size:46
Alignment explanation
Indices: 114092166--114092322 Score: 233
Period size: 46 Copynumber: 3.6 Consensus size: 46
114092156 ATAAGTGTAG
114092166 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTA
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTA
114092212 CCACTTATCACTTTGTTTCTTGATCAGATAA--GT-G-T---A--A
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTA
114092249 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTA
1 CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTA
**
114092295 CCACTTATCACTTTGTCACTTGATCAGA
1 CCACTTATCACTTTGTTTCTTGATCAGA
114092323 AGTACTCAAA
Statistics
Matches: 100, Mismatches: 2, Indels: 18
0.83 0.02 0.15
Matches are distributed among these distances:
37 32 0.32
39 3 0.03
40 1 0.01
41 1 0.01
42 1 0.01
43 1 0.01
44 3 0.03
46 58 0.58
ACGTcount: A:0.29, C:0.21, G:0.13, T:0.38
Consensus pattern (46 bp):
CCACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTA
Found at i:114092234 original size:83 final size:83
Alignment explanation
Indices: 114092089--114092322 Score: 375
Period size: 83 Copynumber: 2.9 Consensus size: 83
114092079 CATATGACCT
* ** **
114092089 CTTATCAC-TTG-TCCTTGATCAGATAAGTGTAGCT-AGGCTACCACTTATCACTTTACCACTTG
1 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCACTTG
*
114092151 ATCAGATAAGTGTAGCCA
66 ATCAGATAAGTGTAACCA
**
114092169 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTTTCTTG
1 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCACTTG
114092234 ATCAGATAAGTGTAACCA
66 ATCAGATAAGTGTAACCA
114092252 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCACTTG
1 CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCACTTG
114092317 ATCAGA
66 ATCAGA
114092323 AGTACTCAAA
Statistics
Matches: 141, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
80 8 0.06
81 3 0.02
82 22 0.16
83 108 0.77
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (83 bp):
CTTATCACTTTGTTTCTTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTTGTCACTTG
ATCAGATAAGTGTAACCA
Done.