Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 7 of 186
Found at i:2091195 original size:20 final size:20
Alignment explanation
Indices: 2091170--2091208 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
2091160 AAGTTCATCT
2091170 GTACAAAGGAAGAGATATCG
1 GTACAAAGGAAGAGATATCG
2091190 GTACAAAGGAAGAGATATC
1 GTACAAAGGAAGAGATATC
2091209 ATTCCTCAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.10, G:0.28, T:0.15
Consensus pattern (20 bp):
GTACAAAGGAAGAGATATCG
Found at i:2092761 original size:42 final size:43
Alignment explanation
Indices: 2092627--2092761 Score: 175
Period size: 43 Copynumber: 3.2 Consensus size: 43
2092617 CAGAAATCAA
* * * *
2092627 ATAAACCCAAAAAAATATACTGGCACACACAATACATCATCGA
1 ATAAACCGAAGAAAATATACTGGCACACACAATGCATCATCGG
2092670 ATAAACCGAAGAAAATATA-TCGGCACACACAATGCATCATCGG
1 ATAAACCGAAGAAAATATACT-GGCACACACAATGCATCATCGG
** * *
2092713 ATAAACCGAATTAAATATACTGGCACA-TCAGTGCATCATCGG
1 ATAAACCGAAGAAAATATACTGGCACACACAATGCATCATCGG
2092755 ATAAACC
1 ATAAACC
2092762 AAAGTATAAC
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
42 21 0.26
43 60 0.73
44 1 0.01
ACGTcount: A:0.45, C:0.24, G:0.13, T:0.19
Consensus pattern (43 bp):
ATAAACCGAAGAAAATATACTGGCACACACAATGCATCATCGG
Found at i:2096141 original size:70 final size:70
Alignment explanation
Indices: 2096034--2096257 Score: 252
Period size: 70 Copynumber: 3.2 Consensus size: 70
2096024 TCATAACATT
* * * * * *
2096034 AGCATTTTAATTATCTAAATACCAT-AAGTATGCCCTAATTTGGACAGCCAATGATTCATACTAT
1 AGCATTTTAATTAGCTAAACACCATGAA-TTTGTCCTAATTTGGACAGCCAATGATTCACAATAT
2096098 AACAAC
65 AACAAC
* * * * *
2096104 AGCATTTTCATTAGCTAAACACCATGAATTTGTCCTAATTTAGACAGTCAATGGTTTACAATATA
1 AGCATTTTAATTAGCTAAACACCATGAATTTGTCCTAATTTGGACAGCCAATGATTCACAATATA
*
2096169 ACAGC
66 ACAAC
* * * *
2096174 AGCATATTAATTAGCTAAACACCACGAATTTGTCCTAATTTGGACAACCAATGATTTACAATATA
1 AGCATTTTAATTAGCTAAACACCATGAATTTGTCCTAATTTGGACAGCCAATGATTCACAATATA
* *
2096239 ATAGC
66 ACAAC
* *
2096244 ATCATATTAATTAG
1 AGCATTTTAATTAG
2096258 TAATAAATTG
Statistics
Matches: 132, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
70 130 0.98
71 2 0.02
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.32
Consensus pattern (70 bp):
AGCATTTTAATTAGCTAAACACCATGAATTTGTCCTAATTTGGACAGCCAATGATTCACAATATA
ACAAC
Found at i:2099005 original size:18 final size:17
Alignment explanation
Indices: 2098980--2099017 Score: 67
Period size: 18 Copynumber: 2.2 Consensus size: 17
2098970 AGGAGATATT
2098980 TTAATAGCTGAGAAAAA
1 TTAATAGCTGAGAAAAA
2098997 TTNAATAGCTGAGAAAAA
1 TT-AATAGCTGAGAAAAA
2099015 TTA
1 TTA
2099018 GGAAATGGGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.50, C:0.05, G:0.16, T:0.26
Consensus pattern (17 bp):
TTAATAGCTGAGAAAAA
Found at i:2102421 original size:50 final size:50
Alignment explanation
Indices: 2102323--2102418 Score: 122
Period size: 51 Copynumber: 1.9 Consensus size: 50
2102313 AATTGTTTTC
* *
2102323 AAATATGATGTTTTAAATAAATATAAATATTTATCTAATTTATTTTATTT
1 AAATATGATGTTTTAAATAAACATAAATATTTATATAATTTATTTTATTT
* * *
2102373 AAATATGGTGTTTTTACATAAACATAAATATTTGTAT-ATATTATTT
1 AAATATGATG-TTTTAAATAAACATAAATATTTATATAAT-TTATTT
2102419 ATTCAGATCT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
50 11 0.28
51 28 0.72
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (50 bp):
AAATATGATGTTTTAAATAAACATAAATATTTATATAATTTATTTTATTT
Found at i:2107240 original size:42 final size:43
Alignment explanation
Indices: 2107183--2107307 Score: 173
Period size: 43 Copynumber: 2.9 Consensus size: 43
2107173 AGTTATCGAG
* *
2107183 ATGTGATTACATGTAAGACCATGTCT-GGACATTGGCATTG-T
1 ATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTT
2107224 ATTGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTT
1 A-TGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTT
* * * *
2107268 ATATGATTTCGTGTAAGACCATGTCTGGGACAGTGGCATC
1 ATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATC
2107308 AATATGTGGT
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
41 1 0.01
42 24 0.32
43 48 0.64
44 2 0.03
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
ATGTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTT
Found at i:2113795 original size:47 final size:45
Alignment explanation
Indices: 2113683--2113995 Score: 222
Period size: 47 Copynumber: 6.7 Consensus size: 45
2113673 TGATTTGTGC
* *
2113683 GCCAGTGTAAGACCATGTCTGGGGCATGGCATCGG-TATCCAGATGAGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTAT--AGATGAGA
* * * *
2113731 GCTAGTGTAAGACATGTCTAGGACATGCATCAGCTATATTATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATA-GATGAGA
* * * *
2113777 GCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TATAGATGAGA
* * * * *
2113825 GCCAGAGTAAGACATGTTTGGGACATTCATCGGCCTCGACAGA-GATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGG-CT--ATAGATGAGA
* * * * * *
2113872 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCCA-AG-GGTTGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATAGATG-AGA
* * * *
2113916 GCTAGTGTAAGACATGTCTAGGACATGCATCACGC-ATATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATC-GGCTATAGATGAGA
*
2113961 ACCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGG
2113996 TAATTTATCC
Statistics
Matches: 206, Mismatches: 44, Indels: 32
0.73 0.16 0.11
Matches are distributed among these distances:
43 3 0.01
44 29 0.14
45 15 0.07
46 44 0.21
47 75 0.36
48 38 0.18
49 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCTATAGATGAGA
Found at i:2113849 original size:94 final size:92
Alignment explanation
Indices: 2113683--2113995 Score: 325
Period size: 94 Copynumber: 3.4 Consensus size: 92
2113673 TGATTTGTGC
* * *
2113683 GCCAGTGTAAGACCATGTCTGGGG-CATGGCATCGGTATCCAGATGAGGGCTAGTGTAAGACATG
1 GCCAGTGTAAGACCATGTC-GGGGACATGGCATCGGCA-CAAGATGAGTGCTAGTGTAAGACATG
2113747 TCTAGGACATGCATCAGCTATATTATGAGA
64 TCTAGGACATGCATCAGCTATA-TATGAGA
* *
2113777 GCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCACAGAGATGAGTGCCAGAGTAAGACATGT
1 GCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCACA-AGATGAGTGCTAGTGTAAGACATGT
* * * * * * *
2113842 TTGGGACATTCATCGGCCTCGACAGA-GATA
65 CTAGGACATGCATCAG-CT--ATATATGAGA
* * * * *
2113872 GCCAGTGTAAGA-CGTGTCTGGGACA-CGCATCGGC-CAAG-GGTTGTGCTAGTGTAAGACATGT
1 GCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCACAAGATG-AGTGCTAGTGTAAGACATGT
2113933 CTAGGACATGCATCACGC-ATATATGAGA
65 CTAGGACATGCATCA-GCTATATATGAGA
* *
2113961 ACCAGTGTAAGACCATGTCTGGGACATGGCATCGG
1 GCCAGTGTAAGACCATGTCGGGGACATGGCATCGG
2113996 TAATTTATCC
Statistics
Matches: 180, Mismatches: 29, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
88 3 0.02
89 14 0.08
90 13 0.07
91 38 0.21
92 3 0.02
93 13 0.07
94 76 0.42
95 17 0.09
96 1 0.01
97 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (92 bp):
GCCAGTGTAAGACCATGTCGGGGACATGGCATCGGCACAAGATGAGTGCTAGTGTAAGACATGTC
TAGGACATGCATCAGCTATATATGAGA
Found at i:2114026 original size:50 final size:50
Alignment explanation
Indices: 2113968--2114068 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
2113958 AGAACCAGTG
*
2113968 TAAGACCATGTCTGGGACATGGCATCGGTAATTTATCCCATGTTGAAGGT
1 TAAGACCATGTCTGGGACATGGCATCGGCAATTTATCCCATGTTGAAGGT
2114018 TAAGACCATGTCTGGGACATGGCATCGGCAATTTATCCCATGTTGAAGGT
1 TAAGACCATGTCTGGGACATGGCATCGGCAATTTATCCCATGTTGAAGGT
2114068 T
1 T
2114069 CATAGAATAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (50 bp):
TAAGACCATGTCTGGGACATGGCATCGGCAATTTATCCCATGTTGAAGGT
Found at i:2117640 original size:35 final size:34
Alignment explanation
Indices: 2117525--2117643 Score: 96
Period size: 35 Copynumber: 3.4 Consensus size: 34
2117515 CAATACCTGT
* *
2117525 TTCTGATCTGTTAAACTATATTTGCAATTAATATG
1 TTCTGATCTGTTAAACTATATGTGCAA-TAGTATG
* * * * * *
2117560 TCCTAATATGTTTTATCTGAATATGT-CAATAGCATG
1 TTCTGATCTG-TTAAACT--ATATGTGCAATAGTATG
*
2117596 TTTTTGATCTGTTAAACTATATGTGCAACTAGTATG
1 -TTCTGATCTGTTAAACTATATGTGCAA-TAGTATG
2117632 TTCTGATCTGTT
1 TTCTGATCTGTT
2117644 TTATCTACAT
Statistics
Matches: 62, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
34 6 0.10
35 21 0.34
36 21 0.34
37 9 0.15
38 5 0.08
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (34 bp):
TTCTGATCTGTTAAACTATATGTGCAATAGTATG
Found at i:2119932 original size:18 final size:20
Alignment explanation
Indices: 2119892--2119934 Score: 54
Period size: 18 Copynumber: 2.2 Consensus size: 20
2119882 ATATTTGTTC
*
2119892 TGAATCTACATATATGTATT
1 TGAATCTACATATATGTAGT
*
2119912 TGAATCTGCAT-T-TGTAGT
1 TGAATCTACATATATGTAGT
2119930 TGAAT
1 TGAAT
2119935 TTGATTTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 10 0.48
19 1 0.05
20 10 0.48
ACGTcount: A:0.30, C:0.09, G:0.16, T:0.44
Consensus pattern (20 bp):
TGAATCTACATATATGTAGT
Found at i:2120106 original size:34 final size:34
Alignment explanation
Indices: 2120061--2120131 Score: 124
Period size: 34 Copynumber: 2.1 Consensus size: 34
2120051 GTGGGATCTC
* *
2120061 GGAATTGGTTACTGGTTAAAAATGGTTAAACTAA
1 GGAATTAGTTACTGGTTAAAAATGGTTAAAATAA
2120095 GGAATTAGTTACTGGTTAAAAATGGTTAAAATAA
1 GGAATTAGTTACTGGTTAAAAATGGTTAAAATAA
2120129 GGA
1 GGA
2120132 CTTTTTGTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (34 bp):
GGAATTAGTTACTGGTTAAAAATGGTTAAAATAA
Found at i:2121246 original size:17 final size:17
Alignment explanation
Indices: 2121224--2121256 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
2121214 CATTTTTTTC
*
2121224 AAAATTATTAAAAATAT
1 AAAATTACTAAAAATAT
2121241 AAAATTACTAAAAATA
1 AAAATTACTAAAAATA
2121257 AACCATCAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
AAAATTACTAAAAATAT
Found at i:2126583 original size:16 final size:15
Alignment explanation
Indices: 2126562--2126591 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2126552 TTCTATCTGT
2126562 TTATTTATTATTTTAA
1 TTATTTATT-TTTTAA
2126578 TTATTTATTTTTTA
1 TTATTTATTTTTTA
2126592 TTCTTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTATTTTTTAA
Found at i:2126608 original size:35 final size:36
Alignment explanation
Indices: 2126564--2126632 Score: 95
Period size: 35 Copynumber: 1.9 Consensus size: 36
2126554 CTATCTGTTT
2126564 ATTTATTATTTTAATTA-TTTATTTTTTATTCTTAA
1 ATTTATTATTTTAATTATTTTATTTTTTATTCTTAA
* * * *
2126599 ATTTTTTATTTTAGTTATTTTCTTTTTTTTTCTT
1 ATTTATTATTTTAATTATTTTATTTTTTATTCTT
2126633 GTTTTTCTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 15 0.52
36 14 0.48
ACGTcount: A:0.20, C:0.04, G:0.01, T:0.74
Consensus pattern (36 bp):
ATTTATTATTTTAATTATTTTATTTTTTATTCTTAA
Found at i:2128089 original size:187 final size:182
Alignment explanation
Indices: 2127779--2128149 Score: 661
Period size: 187 Copynumber: 2.0 Consensus size: 182
2127769 AACAATGTTT
*
2127779 AAAAATATAGACCAAGTCAAAACATGAGCATCTAGAGTGTCCTTTTAATCTGCCCATTAACAAAT
1 AAAAATATAGACCAAGTCAAAACATGAGCATCTAGAGTGTCATTTTAATCTGCCCATTAACAAAT
* *
2127844 GGAACTATAGCTACTATGGAATATAAATAGCATGTCAAATCTAGGTTTAAGATATCGCATATGGT
66 GGAACTATAGCTACTATGGAATATAAATAGAATGTCAAATCTAGGTTTAAGATATCGCAGATGGT
2127909 ACTGTGCAACTATATGAACATGAGCTTATTGGACTTGGATGCATTAAATCAC
131 ACTGTGCAACTATATGAACATGAGCTTATTGGACTTGGATGCATTAAATCAC
*
2127961 AAAAATATAGACCAAGTCAAAACATGAGCATCTAGACTAGAGTGTCATTTTAATCTGCCCTTTAA
1 AAAAATATAGACCAAGTCAAAACATGAGCA--T---CTAGAGTGTCATTTTAATCTGCCCATTAA
2128026 CAAATGGAACTATAGCTACTATGGAATATAAATAGAATGTCAAATCTAGGTTTAAGATATCGCAG
61 CAAATGGAACTATAGCTACTATGGAATATAAATAGAATGTCAAATCTAGGTTTAAGATATCGCAG
2128091 ATGGTACTGTGCAACTATATGAACATGAGCTTATTGGACTTGGATGCATTAAATCAC
126 ATGGTACTGTGCAACTATATGAACATGAGCTTATTGGACTTGGATGCATTAAATCAC
2128148 AA
1 AA
2128150 TATTTAATCA
Statistics
Matches: 180, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
182 30 0.17
184 1 0.01
187 149 0.83
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (182 bp):
AAAAATATAGACCAAGTCAAAACATGAGCATCTAGAGTGTCATTTTAATCTGCCCATTAACAAAT
GGAACTATAGCTACTATGGAATATAAATAGAATGTCAAATCTAGGTTTAAGATATCGCAGATGGT
ACTGTGCAACTATATGAACATGAGCTTATTGGACTTGGATGCATTAAATCAC
Found at i:2130191 original size:15 final size:15
Alignment explanation
Indices: 2130173--2130260 Score: 63
Period size: 15 Copynumber: 5.8 Consensus size: 15
2130163 AATAAGAAAG
* *
2130173 AAAAATAAAAGATTC
1 AAAAACAAAAGATAC
2130188 AAAAACCAAAAGA-AC
1 AAAAA-CAAAAGATAC
* * *
2130203 AAGAACAAAAGAAAAG
1 AAAAACAAAAG-ATAC
* *
2130219 AAAAATAAAAGATTC
1 AAAAACAAAAGATAC
2130234 AAAAACCAAAAGA-AC
1 AAAAA-CAAAAGATAC
*
2130249 AAGAACAAAAGA
1 AAAAACAAAAGA
2130261 AACCAACAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
14 13 0.23
15 22 0.39
16 22 0.39
ACGTcount: A:0.72, C:0.11, G:0.10, T:0.07
Consensus pattern (15 bp):
AAAAACAAAAGATAC
Found at i:2130198 original size:16 final size:15
Alignment explanation
Indices: 2130187--2130261 Score: 64
Period size: 14 Copynumber: 5.0 Consensus size: 15
2130177 ATAAAAGATT
2130187 CAAAAACCAAAAGAA
1 CAAAAACCAAAAGAA
*
2130202 CAAGAA-CAAAAGAA
1 CAAAAACCAAAAGAA
* ** *
2130216 AAGAAAAATAAAAGATT
1 CA-AAAACCAAAAGA-A
2130233 CAAAAACCAAAAGAA
1 CAAAAACCAAAAGAA
*
2130248 CAAGAA-CAAAAGAA
1 CAAAAACCAAAAGAA
2130262 ACCAACAATT
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
14 17 0.36
15 13 0.28
16 16 0.34
17 1 0.02
ACGTcount: A:0.72, C:0.13, G:0.11, T:0.04
Consensus pattern (15 bp):
CAAAAACCAAAAGAA
Found at i:2130224 original size:46 final size:46
Alignment explanation
Indices: 2130169--2130262 Score: 188
Period size: 46 Copynumber: 2.0 Consensus size: 46
2130159 AAGAAATAAG
2130169 AAAGAAAAATAAAAGATTCAAAAACCAAAAGAACAAGAACAAAAGA
1 AAAGAAAAATAAAAGATTCAAAAACCAAAAGAACAAGAACAAAAGA
2130215 AAAGAAAAATAAAAGATTCAAAAACCAAAAGAACAAGAACAAAAGA
1 AAAGAAAAATAAAAGATTCAAAAACCAAAAGAACAAGAACAAAAGA
2130261 AA
1 AA
2130263 CCAACAATTC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.72, C:0.11, G:0.11, T:0.06
Consensus pattern (46 bp):
AAAGAAAAATAAAAGATTCAAAAACCAAAAGAACAAGAACAAAAGA
Found at i:2140772 original size:25 final size:25
Alignment explanation
Indices: 2140720--2140772 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 25
2140710 GACTTTTATT
* *
2140720 AAATATTTTAGATAGGTTTTTATTAA
1 AAATATTTTAGATA-GTTATTATAAA
2140746 AAATATGTTTAGAT-GTTATTATAAA
1 AAATAT-TTTAGATAGTTATTATAAA
2140771 AA
1 AA
2140773 TCTTCTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 11 0.46
26 6 0.25
27 7 0.29
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.45
Consensus pattern (25 bp):
AAATATTTTAGATAGTTATTATAAA
Found at i:2143269 original size:31 final size:31
Alignment explanation
Indices: 2143226--2143286 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
2143216 TATCAAACAC
* *
2143226 TATTCTTACATACTTTTATTATTTTAGTCAT
1 TATTCTTACATACATTTATCATTTTAGTCAT
*
2143257 TATTGTTACATACATTTATCATTTTAGTCA
1 TATTCTTACATACATTTATCATTTTAGTCA
2143287 CCCGTCATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.28, C:0.13, G:0.05, T:0.54
Consensus pattern (31 bp):
TATTCTTACATACATTTATCATTTTAGTCAT
Found at i:2143597 original size:21 final size:20
Alignment explanation
Indices: 2143544--2143581 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
2143534 TGAAATAACT
2143544 TTTTCTATAAAAATCCAAAA
1 TTTTCTATAAAAATCCAAAA
2143564 TTTTCATATAAAAA-CCAA
1 TTTTC-TATAAAAATCCAA
2143582 GTAATTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTTCTATAAAAATCCAAAA
Found at i:2147208 original size:131 final size:129
Alignment explanation
Indices: 2146956--2147287 Score: 400
Period size: 131 Copynumber: 2.6 Consensus size: 129
2146946 GAAAAACCGA
* * * ** * *
2146956 AACCCAGCACGGTAGGACACGATTCCTCGAATTTTCAAACATTGAACATTGCC-TCGCTTT-AGA
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTCCCAAACATTGAACGTTGCCTTCGTTTTAAGA
* * * * *
2147019 ATCTTGAAAACATGAGTGAAATTCTAAAGGAATATTCGATTATTTTGAAGAAATGGGAAATTGC
66 ATTTTTAAAACATGAGTGAAATTCGAAAAGAATATTCGATTATTTTGAAGAAACGGGAAATTGC
* * *
2147083 AACCCAGCACGATGGGGCACGATTCCCCGAATTGCCAAACATCGAACGTTGCCTTCGTTTTAAAG
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTCCCAAACATTGAACGTTGCCTTCGTTTT-AAG
* *
2147148 AATTTTTAAAGGCATGATTGAAATTCGAAAAGAATATTCGATTATTTTGAAGAAACGGGAAATTG
65 AATTTTTAAA-ACATGAGTGAAATTCGAAAAGAATATTCGATTATTTTGAAGAAACGGGAAATTG
2147213 C
129 C
* * * * * * *
2147214 AACCCAACAAGATTGGGCACGATTCCCCAAATTCCCAAACCTTGAATGTTGCATTCGTTTTGAA-
1 AACCCAGCACGATAGGGCACGATTCCCCGAATTCCCAAACATTGAACGTTGCCTTCGTTTT-AAG
2147278 AATTTTTAAA
65 AATTTTTAAA
2147288 TGAATAGTTA
Statistics
Matches: 175, Mismatches: 26, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
127 45 0.26
128 6 0.03
130 20 0.11
131 104 0.59
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.28
Consensus pattern (129 bp):
AACCCAGCACGATAGGGCACGATTCCCCGAATTCCCAAACATTGAACGTTGCCTTCGTTTTAAGA
ATTTTTAAAACATGAGTGAAATTCGAAAAGAATATTCGATTATTTTGAAGAAACGGGAAATTGC
Found at i:2150982 original size:75 final size:75
Alignment explanation
Indices: 2150854--2151003 Score: 246
Period size: 75 Copynumber: 2.0 Consensus size: 75
2150844 AAAGACTAAG
* *
2150854 ATATAAACTCATCAGTATTACCAAGATGAATTGTCTTTATTGCATGATTTGAAATTAATTATTTA
1 ATATAAACTCATCAGTATTACCAAGATGAACTGTCTTTATTGCATGATCTGAAATTAATTATTTA
*
2150919 AACAAGCAAT
66 AACAAACAAT
** *
2150929 ATATAAACTCATCAGTATTAGTAAGATGAACTGTCTTTATTGCATGATCTGAAATTAATTGTTTA
1 ATATAAACTCATCAGTATTACCAAGATGAACTGTCTTTATTGCATGATCTGAAATTAATTATTTA
2150994 AACAAACAAT
66 AACAAACAAT
2151004 CTTGCAAATG
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
75 69 1.00
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (75 bp):
ATATAAACTCATCAGTATTACCAAGATGAACTGTCTTTATTGCATGATCTGAAATTAATTATTTA
AACAAACAAT
Found at i:2158805 original size:3 final size:3
Alignment explanation
Indices: 2158780--2158879 Score: 103
Period size: 3 Copynumber: 32.7 Consensus size: 3
2158770 AAAACATCAC
* * * *
2158780 AAT AAT AAC CAT AAT ATT GAT AAT AAT AAT ATAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT
* * *
2158826 AGT AA- AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAA AGAT GAT AAT
1 AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT
2158872 AAT AAT AA
1 AAT AAT AA
2158880 AATTGCTAAA
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
2 1 0.01
3 73 0.92
4 5 0.06
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:2158894 original size:31 final size:31
Alignment explanation
Indices: 2158798--2158879 Score: 110
Period size: 31 Copynumber: 2.5 Consensus size: 31
2158788 CCATAATATT
*
2158798 GATAATAATAATATATAATAATAATAATAGTAAA
1 GATAATAATAATA-ATAATAATAATAA-A-AAAA
*
2158832 GATAATAATAATAATAATAATAATAATAAAA
1 GATAATAATAATAATAATAATAATAAAAAAA
*
2158863 GATGATAATAATAATAA
1 GATAATAATAATAATAA
2158880 AATTGCTAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
31 19 0.42
33 13 0.29
34 13 0.29
ACGTcount: A:0.63, C:0.00, G:0.06, T:0.30
Consensus pattern (31 bp):
GATAATAATAATAATAATAATAATAAAAAAA
Found at i:2160153 original size:49 final size:49
Alignment explanation
Indices: 2160091--2160264 Score: 253
Period size: 49 Copynumber: 3.5 Consensus size: 49
2160081 CATCAGGGGG
*
2160091 GTAAGATCTGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCAGGGAA
1 GTAAGATCCGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCAGGGAA
2160140 GTAAGATCCGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCAGGGAA
1 GTAAGATCCGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCAGGGAA
* * * *
2160189 GTAAGATCCGCTGTTGTAGCTTCAATCTGTTCT-ACTGCAACG-CTAGGAAA
1 GTAAGATCCGCTGTTGTAGCTTCAATAT-TT-TAATTGCAATGTC-AGGGAA
*
2160239 GTAAGATCCGTTGTTGTAGCTTCAAT
1 GTAAGATCCGCTGTTGTAGCTTCAAT
2160265 CTGTTCTACT
Statistics
Matches: 116, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
49 76 0.66
50 39 0.34
51 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.34
Consensus pattern (49 bp):
GTAAGATCCGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCAGGGAA
Found at i:2160254 original size:50 final size:49
Alignment explanation
Indices: 2160091--2160294 Score: 236
Period size: 49 Copynumber: 4.1 Consensus size: 49
2160081 CATCAGGGGG
* * * *
2160091 GTAAGATCTGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCAGGGAA
1 GTAAGATCCGCTGTTGTAGCTTCAATATTTTAACTGCAACGTCAGGAAA
* * *
2160140 GTAAGATCCGCTGTTGTAGCTTCAATATTTTAATTGCAATGTCAGGGAA
1 GTAAGATCCGCTGTTGTAGCTTCAATATTTTAACTGCAACGTCAGGAAA
*
2160189 GTAAGATCCGCTGTTGTAGCTTCAATCTGTTCT-ACTGCAACG-CTAGGAAA
1 GTAAGATCCGCTGTTGTAGCTTCAATAT-TT-TAACTGCAACGTC-AGGAAA
* *
2160239 GTAAGATCCGTTGTTGTAGCTTCAATCTGTTCT-ACTGCAACG-CTAGGAAA
1 GTAAGATCCGCTGTTGTAGCTTCAATAT-TT-TAACTGCAACGTC-AGGAAA
2160289 GTAAGA
1 GTAAGA
2160295 CTGGATGCGA
Statistics
Matches: 146, Mismatches: 6, Indels: 5
0.93 0.04 0.03
Matches are distributed among these distances:
49 76 0.52
50 69 0.47
51 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.33
Consensus pattern (49 bp):
GTAAGATCCGCTGTTGTAGCTTCAATATTTTAACTGCAACGTCAGGAAA
Found at i:2160461 original size:85 final size:85
Alignment explanation
Indices: 2160402--2160590 Score: 306
Period size: 85 Copynumber: 2.2 Consensus size: 85
2160392 GTCTAATCTA
2160402 CTGCAACTTCAGGGAGATAAAACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTCAGGGAGATAAAACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATC
**
2160467 TGTGGTTTTAATCCGCTCCT
66 TGTGGTTTTAATCCAATCCT
* *
2160487 CTGCAACTTCAGGGAGATAAAACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
1 CTGCAACTTCAGGGAGATAAAACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATC
* * **
2160552 TATGGTTTTAACCCGCTCCT
66 TGTGGTTTTAATCCAATCCT
2160572 CTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGGGAGATA
2160591 GGATTGATTT
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 100 1.00
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.28
Consensus pattern (85 bp):
CTGCAACTTCAGGGAGATAAAACTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATC
TGTGGTTTTAATCCAATCCT
Found at i:2160576 original size:129 final size:129
Alignment explanation
Indices: 2160443--2160809 Score: 497
Period size: 129 Copynumber: 2.8 Consensus size: 129
2160433 ATCTACTCTA
*
2160443 CTGCAACTTCAGAGAGATAAGATCTG-TGGTT-TT-AATCCGCTCCTCTGCAACTTCAGGGAGAT
1 CTGCAACTTCAGAGAGATAAGAT-TGAT--TTCTTCAATCCGCTCCACTGCAACTTCAGGGAGAT
*
2160505 AAAACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAACCCGCTC
63 AAGACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAACCCGCTC
2160570 CT
128 CT
* * ** **
2160572 CTGCAACTTCAGGGAGATAGGATTGATTTCTTCCGTCTACTCCACTGCAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAAGATTGATTTCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAG
* *
2160637 ACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAACCCGCTCCA
66 ACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAACCCGCTCCT
* * * * ** * *
2160701 CTGAAACTTCAGGGATATAGGATTGATTTCTTCCGTCTGCTCCACTACAACTTCAGGGAGATAAG
1 CTGCAACTTCAGAGAGATAAGATTGATTTCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAG
* * *
2160766 ACTGAATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATC
66 ACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATC
2160810 CTTTAATCCG
Statistics
Matches: 217, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
127 2 0.01
128 4 0.02
129 211 0.97
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (129 bp):
CTGCAACTTCAGAGAGATAAGATTGATTTCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAG
ACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAACCCGCTCCT
Found at i:2160643 original size:214 final size:214
Alignment explanation
Indices: 2160294--2160715 Score: 709
Period size: 214 Copynumber: 2.0 Consensus size: 214
2160284 GGAAAGTAAG
* * *
2160294 ACTGGATGCGATCTGCTCTGCTGCAACTTCAGAGAGATAAGATCTGTGGTATTAATCCGCTCCAC
1 ACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTATTAACCCGCTCCAC
* *
2160359 TGCAACTTCAGGGAGATAGGATTGATTTCTTTCGTCTAATCTACTGCAACTTCAGGGAGATAAAA
66 TGCAACTTCAGGGAGATAGGATTGATTTCTTCCGTCTAATCCACTGCAACTTCAGGGAGATAAAA
* * *
2160424 CTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTTTTAATCCGCTCCTCT
131 CTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAACCCGCTCCACT
*
2160489 GCAACTTCAGGGAGATAAA
196 GAAACTTCAGGGAGATAAA
* * *
2160508 ACTGGATGTGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAACCCGCTCCTC
1 ACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTATTAACCCGCTCCAC
* *
2160573 TGCAACTTCAGGGAGATAGGATTGATTTCTTCCGTCTACTCCACTGCAACTTCAGGGAGATAAGA
66 TGCAACTTCAGGGAGATAGGATTGATTTCTTCCGTCTAATCCACTGCAACTTCAGGGAGATAAAA
*
2160638 CTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAACCCGCTCCACT
131 CTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAACCCGCTCCACT
2160703 GAAACTTCAGGGA
196 GAAACTTCAGGGA
2160716 TATAGGATTG
Statistics
Matches: 193, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
214 193 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.29
Consensus pattern (214 bp):
ACTGGATGCGATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATGGTATTAACCCGCTCCAC
TGCAACTTCAGGGAGATAGGATTGATTTCTTCCGTCTAATCCACTGCAACTTCAGGGAGATAAAA
CTGGATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTATGGTTTTAACCCGCTCCACT
GAAACTTCAGGGAGATAAA
Found at i:2161098 original size:170 final size:171
Alignment explanation
Indices: 2160753--2161109 Score: 526
Period size: 170 Copynumber: 2.1 Consensus size: 171
2160743 CACTACAACT
*
2160753 TCAGGGAGATAAGA-CTGAATGTGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAAT
1 TCAGGGAGATAAGACCTGAATGCGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAAT
* * **
2160817 CCGCTCCATTGTAATCTCAAGGAGATAGGATTACTATCTTTGATCTGCTCCGCTGATATCTCAGG
66 CCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATATTCAATCTGCTCCGCTGATATCTCAGG
*
2160882 GAGATAAGATCTGAAAGTCTTCGGTCTACTCCACTGTAACC
131 GAGATAAGATCTGAAAGTCTTCGGTCTACTCCACCGTAACC
*
2160923 TCAGGGAGATAAGACCTG-GTGCGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAAT
1 TCAGGGAGATAAGACCTGAATGCGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAAT
*
2160987 CCGCTCCACTGTAA-CTTCAGGGAGATAGGATTACTATATTCAATCTGCTCCGCTG-TAATCTCA
66 CCGCTCCACTGTAATC-TCAAGGAGATAGGATTACTATATTCAATCTGCTCCGCTGAT-ATCTCA
* * * ** *
2161050 GGGAGATAAGATCTGCAATTCTTTGGTCTGTTCCACCGTAATC
129 GGGAGATAAGATCTGAAAGTCTTCGGTCTACTCCACCGTAACC
2161093 TCAGGG-GAATAAGACCT
1 TCAGGGAG-ATAAGACCT
2161110 TTTATAATGA
Statistics
Matches: 169, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
169 3 0.02
170 163 0.96
171 3 0.02
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.30
Consensus pattern (171 bp):
TCAGGGAGATAAGACCTGAATGCGATCTTCTCTACTGTAACTTCAGAGAGATAAGATCCTTTAAT
CCGCTCCACTGTAATCTCAAGGAGATAGGATTACTATATTCAATCTGCTCCGCTGATATCTCAGG
GAGATAAGATCTGAAAGTCTTCGGTCTACTCCACCGTAACC
Found at i:2169818 original size:31 final size:30
Alignment explanation
Indices: 2169773--2169838 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
2169763 AAACTTAATA
* *
2169773 GATCAGCCTGAACCGCTAGAGTTTGCAAAT
1 GATCAGCATGAACCGCTAGAGTCTGCAAAT
*
2169803 GATCAGCTATGAACCGCTAGAGTCTGCAGAT
1 GATCAGC-ATGAACCGCTAGAGTCTGCAAAT
2169834 GATCA
1 GATCA
2169839 ACTACTTCGC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
30 7 0.22
31 25 0.78
ACGTcount: A:0.30, C:0.23, G:0.24, T:0.23
Consensus pattern (30 bp):
GATCAGCATGAACCGCTAGAGTCTGCAAAT
Found at i:2177149 original size:4 final size:4
Alignment explanation
Indices: 2177140--2177173 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
2177130 AAGTTTTATT
2177140 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
2177174 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:2177181 original size:22 final size:22
Alignment explanation
Indices: 2177123--2177182 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
2177113 AAGTGGCCCA
*
2177123 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
2177147 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
2177168 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
2177183 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:2180945 original size:4 final size:4
Alignment explanation
Indices: 2180936--2180969 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
2180926 AAGTTTTATT
2180936 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
2180970 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:2180977 original size:22 final size:22
Alignment explanation
Indices: 2180919--2180978 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
2180909 AAGTGGCCCA
*
2180919 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
2180943 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
2180964 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
2180979 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:2192147 original size:3 final size:3
Alignment explanation
Indices: 2192139--2192189 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
2192129 TAACCCAAAC
2192139 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
2192187 ATT
1 ATT
2192190 GTTTGTCTGT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:2193590 original size:31 final size:33
Alignment explanation
Indices: 2193555--2193622 Score: 95
Period size: 31 Copynumber: 2.1 Consensus size: 33
2193545 ATGCAAATTT
2193555 TTTTTTTACTATTTTCTTGCT-TTTTTT-ACTA
1 TTTTTTTACTATTTTCTTGCTGTTTTTTCACTA
** *
2193586 TTTTTTTGTTATTTTCTTGTTGTTTTTTCACTA
1 TTTTTTTACTATTTTCTTGCTGTTTTTTCACTA
2193619 TTTT
1 TTTT
2193623 GCTACCATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
31 18 0.56
32 6 0.19
33 8 0.25
ACGTcount: A:0.10, C:0.10, G:0.06, T:0.74
Consensus pattern (33 bp):
TTTTTTTACTATTTTCTTGCTGTTTTTTCACTA
Found at i:2197273 original size:16 final size:16
Alignment explanation
Indices: 2197252--2197303 Score: 95
Period size: 16 Copynumber: 3.2 Consensus size: 16
2197242 TTTGGTTCGC
*
2197252 TGTATTGGATTAGAGG
1 TGTATTGGAATAGAGG
2197268 TGTATTGGAATAGAGG
1 TGTATTGGAATAGAGG
2197284 TGTATTGGAATAGAGG
1 TGTATTGGAATAGAGG
2197300 TGTA
1 TGTA
2197304 ATAGCAAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.29, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGAATAGAGG
Found at i:2197391 original size:39 final size:40
Alignment explanation
Indices: 2197289--2197393 Score: 113
Period size: 44 Copynumber: 2.5 Consensus size: 40
2197279 AGAGGTGTAT
2197289 TGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
* * ***
2197329 TGTAATGAAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TG----G-AATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
2197373 TGGAATAGAGGTGTAATAGCA
1 TGGAATAGAGGTGTAATAGCA
2197394 TAATGGAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
39 15 0.29
40 3 0.06
44 19 0.37
45 15 0.29
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (40 bp):
TGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
Found at i:2197566 original size:14 final size:15
Alignment explanation
Indices: 2197527--2197568 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
2197517 TTTTAACATA
*
2197527 ATTATTATTAAATAT
1 ATTATAATTAAATAT
2197542 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
2197556 A-TATAATTTAATA
1 ATTATAATTAAATA
2197569 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:2197878 original size:24 final size:27
Alignment explanation
Indices: 2197827--2197879 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
2197817 TATATGTAAT
*
2197827 ATTATTAAAATAATATTTTTTATTTTA
1 ATTATTAAAATAATATTTTTTATATTA
*
2197854 ATTATTTAAA-AATA-TTTTTA-ATTA
1 ATTATTAAAATAATATTTTTTATATTA
2197878 AT
1 AT
2197880 GCAGTGTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 6 0.25
26 4 0.17
27 9 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTATTAAAATAATATTTTTTATATTA
Found at i:2206201 original size:40 final size:42
Alignment explanation
Indices: 2206157--2206239 Score: 125
Period size: 40 Copynumber: 2.0 Consensus size: 42
2206147 AACTGCTTGC
*
2206157 TCTCCATTTATTTACTTATTTA-T-TTTTTTATTTCTCAAGA
1 TCTCCATTTATTTACTTATTCATTCTTTTTTATTTCTCAAGA
*
2206197 TCTCCATTTATTTACTTATTCATTCCTTTTTTATTTCTTAAGA
1 TCTCCATTTATTTACTTATTCATT-CTTTTTTATTTCTCAAGA
2206240 ATCAATCTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
40 21 0.55
41 1 0.03
43 16 0.42
ACGTcount: A:0.22, C:0.17, G:0.02, T:0.59
Consensus pattern (42 bp):
TCTCCATTTATTTACTTATTCATTCTTTTTTATTTCTCAAGA
Found at i:2207337 original size:16 final size:16
Alignment explanation
Indices: 2207293--2207353 Score: 50
Period size: 16 Copynumber: 3.7 Consensus size: 16
2207283 TTTATAAAAC
*
2207293 TATATATACATTTTTAT
1 TATATATATATTTTT-T
* *
2207310 TTTCATACATATTTTTT
1 TAT-ATATATATTTTTT
* **
2207327 TATATATATATTATAA
1 TATATATATATTTTTT
2207343 TATATATATAT
1 TATATATATAT
2207354 ACATACATAG
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 20 0.57
17 5 0.14
18 10 0.29
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (16 bp):
TATATATATATTTTTT
Found at i:2207468 original size:18 final size:17
Alignment explanation
Indices: 2207441--2207474 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
2207431 TACCTATATC
2207441 TTATAATTTATATATTTG
1 TTATAATTTATA-ATTTG
*
2207459 TTATATTTTATAATTT
1 TTATAATTTATAATTT
2207475 TAAAATACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (17 bp):
TTATAATTTATAATTTG
Found at i:2221659 original size:160 final size:160
Alignment explanation
Indices: 2221395--2221719 Score: 650
Period size: 160 Copynumber: 2.0 Consensus size: 160
2221385 CTTTGGTCTC
2221395 TCGATCAAACATTCCAAGAGAGTTTGAGGCTTTTACAAGAAACCAATGCTGCGATCTTAATGCAC
1 TCGATCAAACATTCCAAGAGAGTTTGAGGCTTTTACAAGAAACCAATGCTGCGATCTTAATGCAC
2221460 AATCATGACTCTTTTAACTTGGACTTGACTTCCGTCGACCTTGCTCTCGTAAATATCTTCTTCTT
66 AATCATGACTCTTTTAACTTGGACTTGACTTCCGTCGACCTTGCTCTCGTAAATATCTTCTTCTT
2221525 CTTTTTCACTTTCTTCCAGCTTTTAATTTG
131 CTTTTTCACTTTCTTCCAGCTTTTAATTTG
2221555 TCGATCAAACATTCCAAGAGAGTTTGAGGCTTTTACAAGAAACCAATGCTGCGATCTTAATGCAC
1 TCGATCAAACATTCCAAGAGAGTTTGAGGCTTTTACAAGAAACCAATGCTGCGATCTTAATGCAC
2221620 AATCATGACTCTTTTAACTTGGACTTGACTTCCGTCGACCTTGCTCTCGTAAATATCTTCTTCTT
66 AATCATGACTCTTTTAACTTGGACTTGACTTCCGTCGACCTTGCTCTCGTAAATATCTTCTTCTT
2221685 CTTTTTCACTTTCTTCCAGCTTTTAATTTG
131 CTTTTTCACTTTCTTCCAGCTTTTAATTTG
2221715 TCGAT
1 TCGAT
2221720 TTATGGCTCT
Statistics
Matches: 165, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 165 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (160 bp):
TCGATCAAACATTCCAAGAGAGTTTGAGGCTTTTACAAGAAACCAATGCTGCGATCTTAATGCAC
AATCATGACTCTTTTAACTTGGACTTGACTTCCGTCGACCTTGCTCTCGTAAATATCTTCTTCTT
CTTTTTCACTTTCTTCCAGCTTTTAATTTG
Found at i:2233309 original size:29 final size:28
Alignment explanation
Indices: 2233246--2233314 Score: 68
Period size: 29 Copynumber: 2.4 Consensus size: 28
2233236 ATTTTGGACC
2233246 CTCTAAAAAATAAAAAATTAATTTAATT
1 CTCTAAAAAATAAAAAATTAATTTAATT
* * * *
2233274 CTTTAAAAATTATAAAAATCTAGTTTCA-T
1 CTCTAAAAAATA-AAAAAT-TAATTTAATT
2233303 CTCTAAATAAAT
1 CTCTAAA-AAAT
2233315 TTTCTAATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
28 10 0.31
29 13 0.41
30 9 0.28
ACGTcount: A:0.51, C:0.10, G:0.01, T:0.38
Consensus pattern (28 bp):
CTCTAAAAAATAAAAAATTAATTTAATT
Found at i:2239305 original size:9 final size:9
Alignment explanation
Indices: 2239291--2239327 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
2239281 TATAGTTTGA
2239291 TATTCGAAT
1 TATTCGAAT
2239300 TATTCGAAT
1 TATTCGAAT
*
2239309 TATTCGAGT
1 TATTCGAAT
2239318 TATTCGAAT
1 TATTCGAAT
2239327 T
1 T
2239328 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:2241911 original size:17 final size:18
Alignment explanation
Indices: 2241881--2241926 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
2241871 ATTTAAATTG
2241881 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
2241899 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
2241915 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
2241927 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:2243741 original size:14 final size:14
Alignment explanation
Indices: 2243703--2243745 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
2243693 TAAAATGTAC
2243703 AATATAATTAAA-T
1 AATATAATTAAATT
2243716 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
2243731 AA-ATAATTTAATT
1 AATATAATTAAATT
2243744 AA
1 AA
2243746 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:2252494 original size:40 final size:39
Alignment explanation
Indices: 2252410--2252634 Score: 229
Period size: 40 Copynumber: 5.6 Consensus size: 39
2252400 TTGAATGATG
* * * *
2252410 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTAAA
* * * * *
2252450 TTCGGACTAAGATCCGAAGGTATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
2252490 TTCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
*
2252529 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTAAA
* *
2252569 TCCGGGTTAAGTCCTGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCC-GAAGGCATTTGTGCGAGTTACTA-AA
*
2252610 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
2252635 AACAAGGAGC
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 34 0.22
40 111 0.71
41 12 0.08
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:2252652 original size:80 final size:79
Alignment explanation
Indices: 2252504--2252657 Score: 186
Period size: 80 Copynumber: 1.9 Consensus size: 79
2252494 GGCTAAGCCC
* * ** * *
2252504 GAAGGCATTGGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 GAAGGCATTGGTGCGAGCTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTGACTAAA
2252569 TCCGGGTTAAGTCCT
66 TCC-GGTTAAGTCCT
* *
2252584 GAAGGCATTTGTGCGAGCTACTATAA-CCGGGCTATGTCCCGAAGGCATTTGAACAAG-GAGCTA
1 GAAGGCATTGGTGCGAGCTACTA-AATCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTGA-CTA
*
2252647 TATCCGGTTAA
64 AATCCGGTTAA
2252658 ATTCCGAAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
79 7 0.11
80 54 0.86
81 2 0.03
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (79 bp):
GAAGGCATTGGTGCGAGCTACTAAATCCGGGCTAAGTCCCGAAGGCATTTGAACAAGTGACTAAA
TCCGGTTAAGTCCT
Found at i:2259409 original size:12 final size:12
Alignment explanation
Indices: 2259392--2259416 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2259382 CATTCGGAAG
2259392 TATATATACATA
1 TATATATACATA
2259404 TATATATACATA
1 TATATATACATA
2259416 T
1 T
2259417 GTATGCCCAT
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (12 bp):
TATATATACATA
Found at i:2259929 original size:28 final size:28
Alignment explanation
Indices: 2259863--2259990 Score: 175
Period size: 28 Copynumber: 4.5 Consensus size: 28
2259853 CATGAGATTG
* * **
2259863 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
2259892 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
2259920 GCACTAAGTGTGCGAGTTTGATTATGTAA
1 GCACTAAGTGTGCGAGTTTGATTATAT-A
2259949 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
2259977 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
2259991 GACTTACTAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
28 45 0.51
29 44 0.49
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:2259952 original size:57 final size:57
Alignment explanation
Indices: 2259863--2259990 Score: 186
Period size: 57 Copynumber: 2.2 Consensus size: 57
2259853 CATGAGATTG
*
2259863 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
* * * *
2259920 GCACTAAGTGTGCGAGTTTGATTATGTA-AGCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAAT-TGCATAGCACTAAGTGTGCAAGTTTGATTATATA
*
2259977 ACACTAAGTGTGCG
1 GCACTAAGTGTGCG
2259991 GACTTACTAT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 61 0.95
58 3 0.05
ACGTcount: A:0.29, C:0.12, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
Found at i:2263197 original size:42 final size:43
Alignment explanation
Indices: 2263097--2263208 Score: 176
Period size: 41 Copynumber: 2.7 Consensus size: 43
2263087 AAACATCGTA
* * *
2263097 CAAAGCCTGCTAGGTAATAAACTTGAT-TCAATACACCGGCAT
1 CAAAGCCTGCTAGGCAATAAGCCTGATATCAATACACCGGCAT
2263139 -AAAGCCTGCTAGGCAATAAGCCTGATATC-ATACACCGGCAT
1 CAAAGCCTGCTAGGCAATAAGCCTGATATCAATACACCGGCAT
2263180 CAAAGCCTGCTAGGCAATAAGCCTGATAT
1 CAAAGCCTGCTAGGCAATAAGCCTGATAT
2263209 ATCACTGTTA
Statistics
Matches: 65, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
41 35 0.54
42 30 0.46
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (43 bp):
CAAAGCCTGCTAGGCAATAAGCCTGATATCAATACACCGGCAT
Found at i:2267170 original size:16 final size:17
Alignment explanation
Indices: 2267143--2267175 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
2267133 ACTTACTTAA
2267143 TACTTGATAATCTCAAT
1 TACTTGATAATCTCAAT
2267160 TACTT-ATAATCTCAAT
1 TACTTGATAATCTCAAT
2267176 AATAAATAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.42
Consensus pattern (17 bp):
TACTTGATAATCTCAAT
Found at i:2267474 original size:54 final size:54
Alignment explanation
Indices: 2267289--2267485 Score: 227
Period size: 55 Copynumber: 3.6 Consensus size: 54
2267279 AACTTACCAT
* * * * * * *
2267289 TGCCATGTCTTGACACGTTCTTACGTGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
**
2267342 TGCCATGCCTTGGCATGGTCTTACATG-GGTCCTTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCC-TTGCCTTATAG-AACTCATCAA
* * * *
2267397 TGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTATAGAACTTATCAA
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
* *
2267451 TGTCAAGCCTTGGCATGGTCTTACATGATATCCTT
1 TGCCATGCCTTGGCATGGTCTTACATGATATCCTT
2267486 ATCTTACCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
52 3 0.02
53 31 0.25
54 40 0.33
55 45 0.37
56 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.36
Consensus pattern (54 bp):
TGCCATGCCTTGGCATGGTCTTACATGATATCCTTGCCTTATAGAACTCATCAA
Found at i:2267572 original size:46 final size:47
Alignment explanation
Indices: 2267464--2267584 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
2267454 CAAGCCTTGG
*
2267464 CATGGTCTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
*
2267511 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATG-TCCAAA
1 CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
2267557 CATGGTCTTACATGGTATCCTTATCTTA
1 CATGGTCTTACATGGTATCCTTATCTTA
2267585 GTGCCAATGC
Statistics
Matches: 71, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
46 33 0.46
47 38 0.54
ACGTcount: A:0.26, C:0.25, G:0.13, T:0.36
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:2267999 original size:28 final size:29
Alignment explanation
Indices: 2267953--2268008 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 29
2267943 ACATTCTCAA
2267953 TCTCATCATATCATCAACTTAACTTATTC
1 TCTCATCATATCATCAACTTAACTTATTC
2267982 TCTCATCAT-TCATCAACTTAACTTATT
1 TCTCATCATATCATCAACTTAACTTATT
2268009 ATCATCAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.30, C:0.27, G:0.00, T:0.43
Consensus pattern (29 bp):
TCTCATCATATCATCAACTTAACTTATTC
Found at i:2272401 original size:27 final size:26
Alignment explanation
Indices: 2272350--2272401 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
2272340 TTAAAACCCA
*
2272350 AATTATTAATGAAATATTTTAAAATG
1 AATTATTAATGAAATATATTAAAATG
*
2272376 AATTATTAAAT-ATAATATATTCAAAT
1 AATTATT-AATGA-AATATATTAAAAT
2272402 TAATATAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (26 bp):
AATTATTAATGAAATATATTAAAATG
Found at i:2280250 original size:20 final size:20
Alignment explanation
Indices: 2280227--2280282 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
2280217 TAAACTATAA
* *
2280227 TTCATTCATATAACCAGTAG
1 TTCATCCATATAAACAGTAG
* *
2280247 TTCATCCGTATAAATAGTAG
1 TTCATCCATATAAACAGTAG
*
2280267 TTCATCTATATAAACA
1 TTCATCCATATAAACA
2280283 CATATCTTAT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (20 bp):
TTCATCCATATAAACAGTAG
Found at i:2285944 original size:33 final size:34
Alignment explanation
Indices: 2285873--2285949 Score: 104
Period size: 33 Copynumber: 2.3 Consensus size: 34
2285863 TGCATTTTGT
* *
2285873 ACTGATATTATTACTGAATTGGGCTAAGGCCTGC
1 ACTGATACTATTACTGAATTGGGCTAAGGCCTGA
2285907 ACTGATACTATTACTGAA-TGGGCTAAGGCACT-A
1 ACTGATACTATTACTGAATTGGGCTAAGGC-CTGA
*
2285940 ACTGAGACTA
1 ACTGATACTA
2285950 GACTGATACT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
33 20 0.51
34 19 0.49
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (34 bp):
ACTGATACTATTACTGAATTGGGCTAAGGCCTGA
Found at i:2298314 original size:28 final size:28
Alignment explanation
Indices: 2298282--2298368 Score: 76
Period size: 28 Copynumber: 3.2 Consensus size: 28
2298272 CCTAAAAGGA
2298282 AACTAATTTTACTCAAGTACAAGCAATT
1 AACTAATTTTACTCAAGTACAAGCAATT
* * * *
2298310 AACTAAGTCTA--AAAGT--ATG-AATTAT
1 AACTAATTTTACTCAAGTACAAGCAA-T-T
*
2298335 AACTAATTTTTCTCAAGTACAAGCAATT
1 AACTAATTTTACTCAAGTACAAGCAATT
2298363 AACTAA
1 AACTAA
2298369 CTGAAGAGAT
Statistics
Matches: 43, Mismatches: 9, Indels: 14
0.65 0.14 0.21
Matches are distributed among these distances:
23 2 0.05
24 3 0.07
25 9 0.21
26 4 0.09
27 4 0.09
28 16 0.37
29 3 0.07
30 2 0.05
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.32
Consensus pattern (28 bp):
AACTAATTTTACTCAAGTACAAGCAATT
Found at i:2298668 original size:15 final size:15
Alignment explanation
Indices: 2298645--2298696 Score: 77
Period size: 15 Copynumber: 3.5 Consensus size: 15
2298635 TTAAACAGTG
*
2298645 AGAATGAAGAAGAAA
1 AGAAAGAAGAAGAAA
2298660 AGAAAGAAGAAGAAA
1 AGAAAGAAGAAGAAA
* *
2298675 AAAAAGAAGAAGAAG
1 AGAAAGAAGAAGAAA
2298690 AGAAAGA
1 AGAAAGA
2298697 TGAAACTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 33 1.00
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (15 bp):
AGAAAGAAGAAGAAA
Found at i:2301091 original size:27 final size:27
Alignment explanation
Indices: 2301061--2301211 Score: 160
Period size: 27 Copynumber: 5.6 Consensus size: 27
2301051 TTAGTTTACC
*
2301061 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
2301088 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
2301115 AAATTAACAAAATACCTCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * * *
2301142 AAATTACTAGAATACCCTTGGTTTCTT
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
2301169 AAATCACCAAAATACCCC-AATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
2301195 AAATTACTAAAATACCC
1 AAATTACCAAAATACCC
2301212 TCAATTTTTA
Statistics
Matches: 98, Mismatches: 26, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
26 19 0.19
27 79 0.81
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:2301126 original size:54 final size:54
Alignment explanation
Indices: 2301054--2301212 Score: 214
Period size: 54 Copynumber: 3.0 Consensus size: 54
2301044 GAATACTTTA
* *
2301054 GTTTACCAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
1 GTTTACAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
* * * *
2301108 GTTTACAAAATTAACAAAATACCTCTGGTTTGTAAAATTACTAGAATACCCTTG
1 GTTTACAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
* **
2301162 GTTT-CTTAAATCACCAAAATACCCC-AATTTGTAAAATTACTAAAATACCCT
1 GTTTAC-AAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCT
2301213 CAATTTTTAA
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
53 24 0.26
54 67 0.74
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (54 bp):
GTTTACAAAATCACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTG
Found at i:2301206 original size:26 final size:27
Alignment explanation
Indices: 2301082--2301318 Score: 140
Period size: 27 Copynumber: 8.9 Consensus size: 27
2301072 ATACCCCTGG
* ***
2301082 TTTGTAAAATTACCAAAATACCCTTGG
1 TTTGTAAAATTACTAAAATACCCTCAA
** **
2301109 TTTACAAAATTAAC-AAAATA-CCTCTGG
1 TTTGTAAAATT-ACTAAAATACCCTC-AA
* ***
2301136 TTTGTAAAATTACTAGAATACCCTTGG
1 TTTGTAAAATTACTAAAATACCCTCAA
* * * *
2301163 TTTCTTAAATCACCAAAATACCC-CAA
1 TTTGTAAAATTACTAAAATACCCTCAA
2301189 TTTGTAAAATTACTAAAATACCCTCAA
1 TTTGTAAAATTACTAAAATACCCTCAA
* * ** *
2301216 TTT-TTAAATTGCCGAAATACCCTCAG
1 TTTGTAAAATTACTAAAATACCCTCAA
** * * *
2301242 TTTACAAAATTACTGAAATACCTTCGA
1 TTTGTAAAATTACTAAAATACCCTCAA
* * *
2301269 TTTTTAAAATTACTGAAATACCCTCGA
1 TTTGTAAAATTACTAAAATACCCTCAA
* * *
2301296 CTTGTAAAATTACCAAAGTACCC
1 TTTGTAAAATTACTAAAATACCC
2301319 CTGATTTACA
Statistics
Matches: 165, Mismatches: 39, Indels: 12
0.76 0.18 0.06
Matches are distributed among these distances:
26 45 0.27
27 115 0.70
28 5 0.03
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (27 bp):
TTTGTAAAATTACTAAAATACCCTCAA
Found at i:2301251 original size:53 final size:53
Alignment explanation
Indices: 2301141--2301373 Score: 173
Period size: 54 Copynumber: 4.4 Consensus size: 53
2301131 TCTGGTTTGT
* * * * * **
2301141 AAAATTACTAGAATACCCTTGGTTTCTTAAATCACCAAAATACCC-CAATTTGT
1 AAAATTACTAAAATACCCTCGATTT-TTAAATTACCGAAATACCCTCAATTTAC
* * *
2301194 AAAATTACTAAAATACCCTCAATTTTTAAATTGCCGAAATACCCTCAGTTTAC
1 AAAATTACTAAAATACCCTCGATTTTTAAATTACCGAAATACCCTCAATTTAC
* * * * * **
2301247 AAAATTACTGAAATACCTTCGATTTTTAAAATTACTGAAATACCCTCGACTTGT
1 AAAATTACTAAAATACCCTCGATTTTT-AAATTACCGAAATACCCTCAATTTAC
* * ** * *** *
2301301 AAAATTACCAAAGTACCC-CTGATTTACAGAATTATCGTTTTACCCTCGATTTAC
1 AAAATTACTAAAATACCCTC-GATTTTTA-AATTACCGAAATACCCTCAATTTAC
*
2301355 AAAATTATTAAAATACCCT
1 AAAATTACTAAAATACCCT
2301374 TGTAGGGTAG
Statistics
Matches: 138, Mismatches: 37, Indels: 8
0.75 0.20 0.04
Matches are distributed among these distances:
52 16 0.12
53 52 0.38
54 70 0.51
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (53 bp):
AAAATTACTAAAATACCCTCGATTTTTAAATTACCGAAATACCCTCAATTTAC
Found at i:2301305 original size:54 final size:52
Alignment explanation
Indices: 2301137--2301318 Score: 161
Period size: 53 Copynumber: 3.4 Consensus size: 52
2301127 TACCTCTGGT
* *** * * *
2301137 TTGTAAAATTACTAGAATACCCTTGGTTTCTTAAATCACCAAAATACCC-CAAT
1 TTGTAAAATTACTAAAATACCCTCAATTT-TTAAATTACCGAAATACCCTC-AC
* *
2301190 TTGTAAAATTACTAAAATACCCTCAATTTTTAAATTGCCGAAATACCCTCAG
1 TTGTAAAATTACTAAAATACCCTCAATTTTTAAATTACCGAAATACCCTCAC
* * * *
2301242 TT-TACAAAATTACTGAAATACCTTCGATTTTTAAAATTACTGAAATACCCTCGAC
1 TTGT--AAAATTACTAAAATACCCTCAATTTTT-AAATTACCGAAATACCCTC-AC
* *
2301297 TTGTAAAATTACCAAAGTACCC
1 TTGTAAAATTACTAAAATACCC
2301319 CTGATTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
51 1 0.01
52 19 0.18
53 50 0.48
54 31 0.30
55 3 0.03
56 1 0.01
ACGTcount: A:0.38, C:0.21, G:0.08, T:0.32
Consensus pattern (52 bp):
TTGTAAAATTACTAAAATACCCTCAATTTTTAAATTACCGAAATACCCTCAC
Found at i:2301371 original size:27 final size:27
Alignment explanation
Indices: 2301194--2301373 Score: 118
Period size: 27 Copynumber: 6.7 Consensus size: 27
2301184 CCCAATTTGT
* * *
2301194 AAAATTACTAAAATACCCTCAATTT-T
1 AAAATTACTGAAATACCCTCGATTTAC
* * *
2301220 TAAATTGCCGAAATACCCTC-AGTTTAC
1 AAAATTACTGAAATACCCTCGA-TTTAC
* **
2301247 AAAATTACTGAAATACCTTCGATTTTT
1 AAAATTACTGAAATACCCTCGATTTAC
* **
2301274 AAAATTACTGAAATACCCTCGACTTGT
1 AAAATTACTGAAATACCCTCGATTTAC
*
2301301 AAAATTAC-CAAAGTACCC-CTGATTTAC
1 AAAATTACTGAAA-TACCCTC-GATTTAC
* ***
2301328 AGAATTA-TCGTTTTACCCTCGATTTAC
1 AAAATTACT-GAAATACCCTCGATTTAC
* *
2301355 AAAATTATTAAAATACCCT
1 AAAATTACTGAAATACCCT
2301374 TGTAGGGTAG
Statistics
Matches: 117, Mismatches: 28, Indels: 17
0.72 0.17 0.10
Matches are distributed among these distances:
25 1 0.01
26 23 0.20
27 90 0.77
28 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.07, T:0.33
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTCGATTTAC
Found at i:2301387 original size:27 final size:27
Alignment explanation
Indices: 2301365--2301604 Score: 275
Period size: 27 Copynumber: 8.9 Consensus size: 27
2301355 AAAATTATTA
* *
2301365 AAATACCCTTGTAGGGTAGAATTATCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * * * *
2301392 AAATACCCTTGTTGGGTCGAAATACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
2301419 AAATACCCTTATAGGATAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
**
2301446 AAATACCCCTGTAGGGTAGAATTACTA
1 AAATACCCCTGTAGGGTAGAATTACCG
2301473 AAATACCCCTGTAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
*
2301500 AAATACCCCTATAGGGTAGAATTACCG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
2301527 AAGTACCCCTGTAGGGTAGAATTATCA
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
2301554 AAATATCCCTATAGGGTAGAATTACTG
1 AAATACCCCTGTAGGGTAGAATTACCG
* * *
2301581 AGATACCCTTGT-GGGTAAAATTAC
1 AAATACCCCTGTAGGGTAGAATTAC
2301605 TATTTTGCCC
Statistics
Matches: 179, Mismatches: 34, Indels: 1
0.84 0.16 0.00
Matches are distributed among these distances:
26 11 0.06
27 168 0.94
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AAATACCCCTGTAGGGTAGAATTACCG
Found at i:2301399 original size:54 final size:53
Alignment explanation
Indices: 2301341--2301507 Score: 144
Period size: 54 Copynumber: 3.1 Consensus size: 53
2301331 ATTATCGTTT
* *
2301341 TACCCTCGATTTACAAAATTATTAAAATACCCTTGTAGGGTAGAATTATCGAAA
1 TACCCTCG-TTTACAAAATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAA
* * * * *
2301395 TACCCTTGTTGGGT-CGAAA-TACTGAAATACCCTTATAGGATAGAATTACCGAAA
1 TACCCTCGTT---TACAAAATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAA
* * * *
2301449 TACCC-C-TGTAGGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAA
1 TACCCTCGTTTA---CAAAATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAA
2301503 TACCC
1 TACCC
2301508 CTATAGGGTA
Statistics
Matches: 89, Mismatches: 16, Indels: 16
0.74 0.13 0.13
Matches are distributed among these distances:
49 1 0.01
52 1 0.01
53 4 0.04
54 78 0.88
55 4 0.04
56 1 0.01
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (53 bp):
TACCCTCGTTTACAAAATTACTAAAATACCCTTGTAGGGTAGAATTACCGAAA
Found at i:2301442 original size:81 final size:80
Alignment explanation
Indices: 2301365--2301590 Score: 310
Period size: 81 Copynumber: 2.8 Consensus size: 80
2301355 AAAATTATTA
* * * * *
2301365 AAATACCCTTGTAGGGTAGAATTATCGAAATACCCTTGTTGGGTCGAAATACTGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAATTATCAAAATACCC-TGTAGGGTAGAATTACTGAAATACCCTTA
2301430 TAGGATAGAATTACCG
65 TAGGATAGAATTACCG
* *
2301446 AAATACCCCTGTAGGGTAGAATTA-CTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCT
1 AAATACCCCTGTAGGGTAGAATTATC-AAAATA-CCCTGTAGGGTAGAATTACTGAAATACCCTT
*
2301510 ATAGGGTAGAATTACCG
64 ATAGGATAGAATTACCG
* * *
2301527 AAGTACCCCTGTAGGGTAGAATTATCAAAATATCCCTATAGGGTAGAATTACTGAGATACCCTT
1 AAATACCCCTGTAGGGTAGAATTATCAAAATA-CCCTGTAGGGTAGAATTACTGAAATACCCTT
2301591 GTGGGTAAAA
Statistics
Matches: 128, Mismatches: 14, Indels: 6
0.86 0.09 0.04
Matches are distributed among these distances:
80 1 0.01
81 123 0.96
82 4 0.03
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (80 bp):
AAATACCCCTGTAGGGTAGAATTATCAAAATACCCTGTAGGGTAGAATTACTGAAATACCCTTAT
AGGATAGAATTACCG
Found at i:2302007 original size:22 final size:22
Alignment explanation
Indices: 2301968--2302027 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
2301958 TTATTTTGAT
*
2301968 TATGGCTTTGT-CCTAACCT-ACA
1 TATGGCTATGTGCC-AACCTGA-A
* *
2301990 TATGGCTCTGTGCCAACCTGAT
1 TATGGCTATGTGCCAACCTGAA
2302012 TATGGCTATGTGCCAA
1 TATGGCTATGTGCCAA
2302028 ACGTATTTGC
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (22 bp):
TATGGCTATGTGCCAACCTGAA
Found at i:2302225 original size:27 final size:27
Alignment explanation
Indices: 2302186--2302290 Score: 87
Period size: 27 Copynumber: 4.1 Consensus size: 27
2302176 ATTCTGTTAA
* * *
2302186 GTGGCTTTACCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
2302213 GTGGCTATGCCACAAATATCTG-TTCTA
1 GTGGCTATGCCAC-AATATCTGTTTCTG
* * *
2302240 GTGGCTCTGCCACAATATTTGTATCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
*
2302267 GT---T-TGTCACAATATCTG-TTCTG
1 GTGGCTATGCCACAATATCTGTTTCTG
2302289 GT
1 GT
2302291 AGCCATGCTG
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
22 6 0.09
23 12 0.18
24 1 0.02
26 7 0.11
27 32 0.49
28 7 0.11
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (27 bp):
GTGGCTATGCCACAATATCTGTTTCTG
Found at i:2302446 original size:31 final size:31
Alignment explanation
Indices: 2302408--2302487 Score: 133
Period size: 31 Copynumber: 2.6 Consensus size: 31
2302398 TTGCATTCAC
2302408 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
**
2302439 ATTCTGATTTTGATTCTGTTACCTGATTTTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
*
2302470 ATTCTGATTCTGATTCTG
1 ATTCTGATTTTGATTCTG
2302488 ATTCTAGTTC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 46 1.00
ACGTcount: A:0.17, C:0.15, G:0.16, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:2302447 original size:6 final size:6
Alignment explanation
Indices: 2302408--2302501 Score: 86
Period size: 6 Copynumber: 15.3 Consensus size: 6
2302398 TTGCATTCAC
* * *
2302408 ATTCTG ATTTTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
*
2302457 -TTACCTG ATTTTG ATTCTG ATTCTG ATTCTG ATTCT- AGTTCTG AT
1 ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
2302502 AATGTTTCTT
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 5 0.07
6 57 0.79
7 7 0.10
8 3 0.04
ACGTcount: A:0.18, C:0.15, G:0.16, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:2302477 original size:25 final size:24
Alignment explanation
Indices: 2302411--2302490 Score: 90
Period size: 25 Copynumber: 3.2 Consensus size: 24
2302401 CATTCACATT
2302411 CTGATTTTGATTCTG-TTACCTGATA
1 CTGATTTTGATTCTGATT--CTGATA
* * *
2302436 CTGATTCTGATTTTGATTCTGTTA
1 CTGATTTTGATTCTGATTCTGATA
*
2302460 CCTGATTTTGATTCTGATTCTGATT
1 -CTGATTTTGATTCTGATTCTGATA
2302485 CTGATT
1 CTGATT
2302491 CTAGTTCTGA
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
24 11 0.24
25 33 0.72
26 2 0.04
ACGTcount: A:0.17, C:0.15, G:0.16, T:0.51
Consensus pattern (24 bp):
CTGATTTTGATTCTGATTCTGATA
Found at i:2304433 original size:27 final size:27
Alignment explanation
Indices: 2304403--2304499 Score: 158
Period size: 27 Copynumber: 3.6 Consensus size: 27
2304393 TTAGTTTACC
*
2304403 AAATCACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
2304430 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
2304457 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
2304484 AAATTACCAAAATACC
1 AAATTACCAAAATACC
2304500 AAGCCAAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 63 1.00
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:2304468 original size:54 final size:54
Alignment explanation
Indices: 2304396--2304499 Score: 190
Period size: 54 Copynumber: 1.9 Consensus size: 54
2304386 GAATACTTTA
*
2304396 GTTTACCAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
1 GTTTACAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
*
2304450 GTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACC
1 GTTTACAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACC
2304500 AAGCCAAAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (54 bp):
GTTTACAAAATCACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTG
Found at i:2304508 original size:40 final size:40
Alignment explanation
Indices: 2304463--2304539 Score: 145
Period size: 40 Copynumber: 1.9 Consensus size: 40
2304453 TACAAAATTA
2304463 CCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCAAG
1 CCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCAAG
*
2304503 CCAAAATATCCCTGGTTTGTAAAATTACCAAAATACC
1 CCAAAATACCCCTGGTTTGTAAAATTACCAAAATACC
2304540 CTTGGTTTAC
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.42, C:0.25, G:0.09, T:0.25
Consensus pattern (40 bp):
CCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCAAG
Found at i:2304520 original size:67 final size:67
Alignment explanation
Indices: 2304436--2304566 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 67
2304426 TGTAAAATTA
**
2304436 CCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCA
1 CCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCA
2304501 AG
66 AG
** * *
2304503 CCAAAATATCCC-TGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAGAATTACCAAAATACC
1 CCAAAATA-CCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACC
2304567 CCTGGTTTGT
Statistics
Matches: 57, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
67 54 0.95
68 3 0.05
ACGTcount: A:0.40, C:0.24, G:0.09, T:0.27
Consensus pattern (67 bp):
CCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTACAAAATTACCAAAATACCA
AG
Found at i:2304545 original size:27 final size:27
Alignment explanation
Indices: 2304503--2304749 Score: 212
Period size: 27 Copynumber: 9.2 Consensus size: 27
2304493 AAATACCAAG
2304503 CCAAAATATCCC-TGGTTTGTAAAATTA
1 CCAAAATA-CCCTTGGTTTGTAAAATTA
** *
2304530 CCAAAATACCCTTGGTTTACAGAATTA
1 CCAAAATACCCTTGGTTTGTAAAATTA
*
2304557 CCAAAATACCCCTGGTTTGTAAAATTA
1 CCAAAATACCCTTGGTTTGTAAAATTA
* * * *
2304584 CTAGAATACCCTTGGTTTATAAAATCA
1 CCAAAATACCCTTGGTTTGTAAAATTA
***
2304611 CCAAAATACCC-CAATTTGTAAAATTA
1 CCAAAATACCCTTGGTTTGTAAAATTA
* * *
2304637 CTAAAATACCCTCGATTTGTAAAATTA
1 CCAAAATACCCTTGGTTTGTAAAATTA
* * *
2304664 TCGAAATA-CCTTCAGTTTGTAAAATTA
1 CCAAAATACCCTT-GGTTTGTAAAATTA
** * *
2304691 CTGAAATACCCTCGATTTGTAAAATTA
1 CCAAAATACCCTTGGTTTGTAAAATTA
** * * **
2304718 CTGACATACCCTCGACTTGTAAAATTA
1 CCAAAATACCCTTGGTTTGTAAAATTA
2304745 CCAAA
1 CCAAA
2304750 GTAACCCCAA
Statistics
Matches: 179, Mismatches: 37, Indels: 8
0.80 0.17 0.04
Matches are distributed among these distances:
26 26 0.15
27 150 0.84
28 3 0.02
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
CCAAAATACCCTTGGTTTGTAAAATTA
Found at i:2304556 original size:94 final size:94
Alignment explanation
Indices: 2304409--2304593 Score: 334
Period size: 94 Copynumber: 2.0 Consensus size: 94
2304399 TACCAAATCA
2304409 CCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCC
1 CCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCC
2304474 CTGGTTTGTAAAATTACCAAAATACCAAG
66 CTGGTTTGTAAAATTACCAAAATACCAAG
* *
2304503 CCAAAATATCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAGAATTACCAAAATACCC
1 CCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCC
* *
2304568 CTGGTTTGTAAAATTACTAGAATACC
66 CTGGTTTGTAAAATTACCAAAATACC
2304594 CTTGGTTTAT
Statistics
Matches: 87, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 87 1.00
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (94 bp):
CCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCC
CTGGTTTGTAAAATTACCAAAATACCAAG
Found at i:2304660 original size:80 final size:82
Alignment explanation
Indices: 2304552--2304745 Score: 227
Period size: 80 Copynumber: 2.4 Consensus size: 82
2304542 TGGTTTACAG
* * *
2304552 AATTACCAAAATACCC-CTGGTTTGTAAAATTACTAG-AATACCCTT-GGTTTATAAAATCACCA
1 AATTACTAAAATACCCTC-GATTTGTAAAATTACTAGAAATA-CCTTCAGTTTATAAAATCACCA
2304614 AAATACCC-CAATTTGTAA
64 AAATACCCTCAATTTGTAA
* * * **
2304632 AATTACTAAAATACCCTCGATTTGTAAAATTA-TCGAAATACCTTCAGTTTGTAAAATTACTGAA
1 AATTACTAAAATACCCTCGATTTGTAAAATTACTAGAAATACCTTCAGTTTATAAAATCACCAAA
*
2304696 ATACCCTCGATTTGTAA
66 ATACCCTCAATTTGTAA
* * *
2304713 AATTACTGACATACCCTCGACTTGTAAAATTAC
1 AATTACTAAAATACCCTCGATTTGTAAAATTAC
2304746 CAAAGTAACC
Statistics
Matches: 97, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
79 6 0.06
80 52 0.54
81 39 0.40
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (82 bp):
AATTACTAAAATACCCTCGATTTGTAAAATTACTAGAAATACCTTCAGTTTATAAAATCACCAAA
ATACCCTCAATTTGTAA
Found at i:2304714 original size:107 final size:107
Alignment explanation
Indices: 2304518--2304773 Score: 257
Period size: 107 Copynumber: 2.4 Consensus size: 107
2304508 ATATCCCTGG
* * * *
2304518 TTTGTAAAATTACCAAAATACCCTTGGTTTACAGAATTACCAAAATACCCCTGGTTTGTAAAATT
1 TTTGTAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATT
* *
2304583 ACTAGAATACCCTTGGTTTATAAAATCACCAAAATACCCCAA
66 ACTAGAATACCCTCGATTTATAAAATCACCAAAATACCCCAA
* ** * * *
2304625 TTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATTATCGAAATA-CCTTCAGTTTGTAAAAT
1 TTTGTAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCCT-AGTTTGTAAAAT
* * ** * *
2304689 TACT-GAAATACCCTCGATTTGTAAAATTACTGACATACCCTCGA
65 TACTAG-AATACCCTCGATTTATAAAATCACCAAAATACCC-CAA
* * * *
2304733 CTTGTAAAATTACCAAAGTAACCC-CAATTTACAGAATTACC
1 TTTGTAAAATTACCAAAAT-ACCCTCGATTTACAAAATTACC
2304774 GTTTTACCCT
Statistics
Matches: 119, Mismatches: 26, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
106 4 0.03
107 81 0.68
108 30 0.25
109 4 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (107 bp):
TTTGTAAAATTACCAAAATACCCTCGATTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATT
ACTAGAATACCCTCGATTTATAAAATCACCAAAATACCCCAA
Found at i:2304771 original size:81 final size:81
Alignment explanation
Indices: 2304599--2304809 Score: 203
Period size: 81 Copynumber: 2.6 Consensus size: 81
2304589 ATACCCTTGG
* * * * * *
2304599 TTTATAAAATCACCAAAATACCC-CAATTTGTAAAATTACTAAAATACCCTCGATTTGTAAAATT
1 TTTACAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATT
* * *
2304663 ATCGAAATACCTTCAG
66 ATCCAAATACCTCCAA
** * *
2304679 TTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTACTGACATACCCTCGACTTGTAAAATT
1 TTTACAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATT
2304744 A-CCAAAGTAACC-CCAA
66 ATCCAAA-T-ACCTCCAA
* *** ** *
2304760 TTTACAGAATTACCGTTTTACCCTCGATTTACAAAATTATTGAAATACCC
1 TTTACAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCC
2304810 ATGTAGGGTA
Statistics
Matches: 106, Mismatches: 22, Indels: 5
0.80 0.17 0.04
Matches are distributed among these distances:
80 23 0.22
81 80 0.75
82 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.08, T:0.32
Consensus pattern (81 bp):
TTTACAAAATTACCGAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAATT
ATCCAAATACCTCCAA
Found at i:2304824 original size:27 final size:27
Alignment explanation
Indices: 2304801--2305261 Score: 636
Period size: 27 Copynumber: 17.1 Consensus size: 27
2304791 CAAAATTATT
* *
2304801 GAAATACCCATGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
2304828 GAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
2304855 AAAATATCCTTGTAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
2304882 GAAATACCCCTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
2304909 GAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
2304936 GGAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
2304963 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
2304990 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
2305017 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
2305044 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
2305071 GAAATACCCCTGTAGGGTAGAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
2305098 GAAATACCCCTGTAGGGTAAAATTATC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
2305125 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
2305152 AAAATACCCCTATAGGGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * * *
2305178 GTATATACCCTTGTAGGGTAAAAATATC
1 G-AAATACCCCTGTAGGGTAGAATTACC
* * *
2305206 GAAATACCCTTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
2305233 GAAATACCCCTGTAGGATAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
2305260 GA
1 GA
2305262 GAACCTTTGT
Statistics
Matches: 385, Mismatches: 47, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
26 1 0.00
27 383 0.99
28 1 0.00
ACGTcount: A:0.36, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:2305724 original size:22 final size:22
Alignment explanation
Indices: 2305691--2305733 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
2305681 GCTTTGCACC
*
2305691 AACCTACATATGGCTCTGTGCG
1 AACCTACATATGGCTATGTGCG
*
2305713 AACCTA-ATTATGTCTATGTGC
1 AACCTACA-TATGGCTATGTGC
2305734 CAAACGTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.33
Consensus pattern (22 bp):
AACCTACATATGGCTATGTGCG
Found at i:2305926 original size:27 final size:26
Alignment explanation
Indices: 2305895--2306002 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 26
2305885 ATTCTGTTAC
* *
2305895 GTGGCTTTGCCACATTATCTGTTTCTG
1 GTGGCTATGCCACAATATCTG-TTCTG
*
2305922 TTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTATGCCAC-AATATCTGTTCTG
* *
2305949 GTGGCTCTGCCACAATATTTGTATCTG
1 GTGGCTATGCCACAATATCTGT-TCTG
* **
2305976 GTGACTATATCACAATATCTGTTCTG
1 GTGGCTATGCCACAATATCTGTTCTG
2306002 G
1 G
2306003 CAGCCATGCT
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.19
27 48 0.71
28 7 0.10
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.39
Consensus pattern (26 bp):
GTGGCTATGCCACAATATCTGTTCTG
Found at i:2305953 original size:54 final size:53
Alignment explanation
Indices: 2305895--2306002 Score: 135
Period size: 54 Copynumber: 2.0 Consensus size: 53
2305885 ATTCTGTTAC
* * * * * *
2305895 GTGGCTTTGCCACATTATCTGTTTCTGTTGGCTATGCCACAAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCAC-AATATCTGTTCTG
* *
2305949 GTGGCTCTGCCACAATATTTGTATCTGGTGACTATATCACAATATCTGTTCTG
1 GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTGTTCTG
2306002 G
1 G
2306003 CAGCCATGCT
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
53 14 0.30
54 32 0.70
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.39
Consensus pattern (53 bp):
GTGGCTCTGCCACAATATCTGTATCTGGTGACTATACCACAATATCTGTTCTG
Found at i:2306160 original size:31 final size:31
Alignment explanation
Indices: 2306122--2306192 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
2306112 TTGCATTCAC
* *
2306122 ATTCTGATTTTGATTTTGTTACTTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
2306153 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
2306184 ATTCTGATT
1 ATTCTGATT
2306193 CTAGTTCTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.20, C:0.13, G:0.15, T:0.52
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:2306178 original size:25 final size:24
Alignment explanation
Indices: 2306125--2306194 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 24
2306115 CATTCACATT
*
2306125 CTGATTTTGATTTTG-TTACTTGATA
1 CTGATTCTGATTTTGATT-C-TGATA
*
2306150 CTGATTCTGATTTTGATTCTGTTA
1 CTGATTCTGATTTTGATTCTGATA
* *
2306174 CCTGATACTGATTCTGATTCT
1 -CTGATTCTGATTTTGATTCT
2306195 AGTTCTGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 4 0.10
25 33 0.85
26 2 0.05
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (24 bp):
CTGATTCTGATTTTGATTCTGATA
Found at i:2306184 original size:6 final size:6
Alignment explanation
Indices: 2306122--2306203 Score: 53
Period size: 6 Copynumber: 13.3 Consensus size: 6
2306112 TTGCATTCAC
* * * *
2306122 ATTCTG ATTTTG ATTTTG -TTACTTG ATACTG ATTCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATT-C-TG ATTCTG ATTCTG ATTCTG ATTCTG
*
2306171 -TTACCTG ATACTG ATTCTG ATTCT- AGTTCTG AT
1 ATT--CTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
2306204 AATGTTTCTT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
5 5 0.08
6 46 0.77
7 7 0.12
8 2 0.03
ACGTcount: A:0.20, C:0.13, G:0.16, T:0.51
Consensus pattern (6 bp):
ATTCTG
Found at i:2306201 original size:31 final size:31
Alignment explanation
Indices: 2306122--2306201 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
2306112 TTGCATTCAC
* * *
2306122 ATTCTGATTTTGATTTTGTTACTTGATACTG
1 ATTCTGATTTAGATTCTGTTACCTGATACTG
*
2306153 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTAGATTCTGTTACCTGATACTG
2306184 ATTCTGATTCTAG-TTCTG
1 ATTCTGATT-TAGATTCTG
2306202 ATAATGTTTC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 43 0.96
32 2 0.04
ACGTcount: A:0.19, C:0.14, G:0.16, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTAGATTCTGTTACCTGATACTG
Found at i:2307424 original size:53 final size:54
Alignment explanation
Indices: 2307356--2307671 Score: 354
Period size: 53 Copynumber: 5.9 Consensus size: 54
2307346 TTTCCTTTTT
* * *
2307356 GAACTTACCATTGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * *
2307409 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CATTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATC-CTTGCCTTATA
* * * *
2307463 GTAACTCATCAATGCCATGTCTTGACATCGTCTTACATTGTATCCTTGCCTTAT-
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
2307517 GAACTCACCAATGCCATACCTTGGCATGGTCTTACATGGGA-CATTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATC-CTTGCCTTATA
* * * *
2307571 GTAACTCATCAATGCCATGTCTTGACATGGTCTTACATGAT-TGCCTTGCCTCATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTAT-CCTTGCCTTATA
* * * *
2307626 GAACTTATCAATGCCATGCCTTGAAATGGTCTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
2307672 ATCTTACCAA
Statistics
Matches: 221, Mismatches: 32, Indels: 19
0.81 0.12 0.07
Matches are distributed among these distances:
52 2 0.01
53 87 0.39
54 43 0.19
55 87 0.39
56 2 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.34
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:2307496 original size:55 final size:53
Alignment explanation
Indices: 2307367--2307663 Score: 339
Period size: 55 Copynumber: 5.5 Consensus size: 53
2307357 AACTTACCAT
* * *
2307367 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATCAA
* *
2307420 TGCCATGCCTTGGCATGGTCTTACATGGGACATTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGAC-CTTGCCTTATAG-AACTCATCAA
* * * * *
2307475 TGCCATGTCTTGACATCGTCTTACATTGTATCCTTGCCTTAT-GAACTCACCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGA-CCTTGCCTTATAGAACTCATCAA
* * *
2307528 TGCCATACCTTGGCATGGTCTTACATGGGACATTTGCCTTATAGTAACTCATCAA
1 TGCCATGCCTTGACATGGTCTTACATGGGAC-CTTGCCTTATAG-AACTCATCAA
* * * *
2307583 TGCCATGTCTTGACATGGTCTTACATGATTG-CCTTGCCTCATAGAACTTATCAA
1 TGCCATGCCTTGACATGGTCTTACATG--GGACCTTGCCTTATAGAACTCATCAA
*
2307637 TGCCATGCCTTGAAATGGTCTTACATG
1 TGCCATGCCTTGACATGGTCTTACATG
2307664 ATATCCTTAT
Statistics
Matches: 206, Mismatches: 29, Indels: 17
0.82 0.12 0.07
Matches are distributed among these distances:
52 2 0.01
53 78 0.38
54 37 0.18
55 86 0.42
56 2 0.01
57 1 0.00
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (53 bp):
TGCCATGCCTTGACATGGTCTTACATGGGACCTTGCCTTATAGAACTCATCAA
Found at i:2307556 original size:108 final size:108
Alignment explanation
Indices: 2307367--2307663 Score: 481
Period size: 108 Copynumber: 2.7 Consensus size: 108
2307357 AACTTACCAT
*
2307367 TGCCATGTCTTGACATGGTCTTACATGGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
1 TGCCATGTCTTGACATGGTCTTACATTGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
2307432 GCATGGTCTTACATGGGACATTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACATTTGCCTTATAGTAACTCATCAA
* *
2307475 TGCCATGTCTTGACATCGTCTTACATTGTATCCTTGCCTTATGAACTCACCAATGCCATACCTTG
1 TGCCATGTCTTGACATGGTCTTACATTGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
2307540 GCATGGTCTTACATGGGACATTTGCCTTATAGTAACTCATCAA
66 GCATGGTCTTACATGGGACATTTGCCTTATAGTAACTCATCAA
* * *
2307583 TGCCATGTCTTGACATGGTCTTACA-TG-ATTGCCTTGCCTCATAGAACTTATCAATGCCATGCC
1 TGCCATGTCTTGACATGGTCTTACATTGTA-T-CCTTGCCTTAT-GAACTCACCAATGCCATGCC
**
2307646 TTGAAATGGTCTTACATG
63 TTGGCATGGTCTTACATG
2307664 ATATCCTTAT
Statistics
Matches: 176, Mismatches: 10, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
106 1 0.01
107 3 0.02
108 139 0.79
109 33 0.19
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.34
Consensus pattern (108 bp):
TGCCATGTCTTGACATGGTCTTACATTGTATCCTTGCCTTATGAACTCACCAATGCCATGCCTTG
GCATGGTCTTACATGGGACATTTGCCTTATAGTAACTCATCAA
Found at i:2307833 original size:45 final size:45
Alignment explanation
Indices: 2307773--2307858 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
2307763 CCTTAATCAA
2307773 TACCAATGCCATGTCTTGACATGGTCATACACGGGATCCTTGCCT
1 TACCAATGCCATGTCTTGACATGGTCATACACGGGATCCTTGCCT
* * *
2307818 TACCAATGCCATGTCTTGACATGGTCTTACATGGTATCCTT
1 TACCAATGCCATGTCTTGACATGGTCATACACGGGATCCTT
2307859 AACCGTCAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.33
Consensus pattern (45 bp):
TACCAATGCCATGTCTTGACATGGTCATACACGGGATCCTTGCCT
Found at i:2307947 original size:44 final size:44
Alignment explanation
Indices: 2307863--2307947 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
2307853 ATCCTTAACC
* * *
2307863 GTCAATTCCTCCTTAAATGCCATGTTATGAACATGCACTTTTCT
1 GTCAATTCCTCCTTAAATGCCATGGTATCAACAGGCACTTTTCT
* * *
2307907 GTCAATTCTTCCTTAATTGCCATGGTA-CAACCAGGGACTTT
1 GTCAATTCCTCCTTAAATGCCATGGTATCAA-CAGGCACTTT
2307948 GAGATATCAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 2 0.06
44 32 0.94
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (44 bp):
GTCAATTCCTCCTTAAATGCCATGGTATCAACAGGCACTTTTCT
Found at i:2315438 original size:50 final size:50
Alignment explanation
Indices: 2315339--2315438 Score: 155
Period size: 50 Copynumber: 2.0 Consensus size: 50
2315329 TTCCAAAACA
* * * * *
2315339 AATTCTTGTAGCAAAAGAATCCACCTGATTAGTTTCGGCTTTGCGTCTTT
1 AATTCTTGTAGCAAAAGAATCCACCTGATCAGTCTCGACTTTACATCTTT
2315389 AATTCTTGTAGCAAAAGAATCCACCTGATCAGTCTCGACTTTACATCTTT
1 AATTCTTGTAGCAAAAGAATCCACCTGATCAGTCTCGACTTTACATCTTT
2315439 CTTGGCTAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
50 45 1.00
ACGTcount: A:0.27, C:0.22, G:0.15, T:0.36
Consensus pattern (50 bp):
AATTCTTGTAGCAAAAGAATCCACCTGATCAGTCTCGACTTTACATCTTT
Found at i:2325267 original size:27 final size:26
Alignment explanation
Indices: 2325211--2325267 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 26
2325201 CAACCTTAAC
* *
2325211 CCTAGGGGTATATCAGTAATTTTACT
1 CCTAGGGGTAAATCAGTAATTTTACA
* *
2325237 CCTAGGGGTAAATCTGTAAATTTTCCA
1 CCTAGGGGTAAATCAGT-AATTTTACA
2325264 CCTA
1 CCTA
2325268 TAAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.28, C:0.19, G:0.18, T:0.35
Consensus pattern (26 bp):
CCTAGGGGTAAATCAGTAATTTTACA
Found at i:2331050 original size:54 final size:54
Alignment explanation
Indices: 2330968--2331072 Score: 183
Period size: 54 Copynumber: 1.9 Consensus size: 54
2330958 TTGAACCTTC
*
2330968 GGAATAGTTTAGGATACAAGTGACATGTCACTAGGAACTATGCAATTATGAGTT
1 GGAATAGTTGAGGATACAAGTGACATGTCACTAGGAACTATGCAATTATGAGTT
**
2331022 GGAATAGTTGAGGATACAAGTGACATGTCACTAGGAACTATGTGATTATGA
1 GGAATAGTTGAGGATACAAGTGACATGTCACTAGGAACTATGCAATTATGA
2331073 ACTCATGAGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (54 bp):
GGAATAGTTGAGGATACAAGTGACATGTCACTAGGAACTATGCAATTATGAGTT
Found at i:2359405 original size:43 final size:43
Alignment explanation
Indices: 2359312--2359405 Score: 104
Period size: 42 Copynumber: 2.2 Consensus size: 43
2359302 CATTAGGGTT
* * * *
2359312 ATTTGAG-TTTACGTGTAAGACCATATCTGGGATATGGCATTG
1 ATTTGAGATTTACGTGTAAGACCACAGCTGAGATATGGCATCG
*
2359354 ATATGAGATTT-CGTGTAAGACCACAGCT-AGACTATTGGCATCG
1 ATTTGAGATTTACGTGTAAGACCACAGCTGAGA-TA-TGGCATCG
2359397 ATTTGAGAT
1 ATTTGAGAT
2359406 CCCATGTAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
41 2 0.05
42 23 0.53
43 18 0.42
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (43 bp):
ATTTGAGATTTACGTGTAAGACCACAGCTGAGATATGGCATCG
Found at i:2368248 original size:4 final size:4
Alignment explanation
Indices: 2368235--2368305 Score: 60
Period size: 4 Copynumber: 18.0 Consensus size: 4
2368225 ATAAAACACC
* * *
2368235 TAAA -AAA TAAA TAAA TAAA TAAA T-AA TAAA TTAG TAGGAT TAAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA--AA T-AAA TAAA
2368284 TAAA TAAA T-AA -AAA TAAA TAAA
1 TAAA TAAA TAAA TAAA TAAA TAAA
2368306 AACCAAATTG
Statistics
Matches: 55, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
3 10 0.18
4 40 0.73
5 2 0.04
6 2 0.04
7 1 0.02
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.25
Consensus pattern (4 bp):
TAAA
Found at i:2368300 original size:10 final size:10
Alignment explanation
Indices: 2368276--2368307 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
2368266 TAGTAGGATT
2368276 AAAATAAAT-
1 AAAATAAATA
2368285 -AAATAAATA
1 AAAATAAATA
2368294 AAAATAAATA
1 AAAATAAATA
2368304 AAAA
1 AAAA
2368308 CCAAATTGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.38
10 13 0.62
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAAATAAATA
Found at i:2371563 original size:39 final size:40
Alignment explanation
Indices: 2371466--2371563 Score: 146
Period size: 40 Copynumber: 2.5 Consensus size: 40
2371456 CGGATGATAA
* *
2371466 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
2371506 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTA-CTATAT
*
2371546 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
2371564 TACTTGGTTT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 17 0.31
40 37 0.69
ACGTcount: A:0.24, C:0.24, G:0.30, T:0.21
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCAGTTGAGCGAGTTACTATAT
Found at i:2373583 original size:46 final size:45
Alignment explanation
Indices: 2373531--2373697 Score: 162
Period size: 46 Copynumber: 3.6 Consensus size: 45
2373521 TGTGTGGGCT
*
2373531 AGTGTAAGACATGTCTGGGACATGCATCGACCATATTATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCAT-TGATGAGAGCC
* * *
2373577 AGTGTAAGACCATGTCTGGTACATGGCATCGA-CATTGAGATGAGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGACCATT--GATGAGAGCC
* * *
2373625 AGTGTAAGACATGCCTGGGACATGCTTCGGCC-TTGA-GACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGACCATTGATGA-G--AGCC
*
2373671 AATGTAAGACATGTCT-GGACATGCATC
1 AGTGTAAGACATGTCTGGGACATGCATC
2373698 AGCTACGAGA
Statistics
Matches: 100, Mismatches: 13, Indels: 17
0.77 0.10 0.13
Matches are distributed among these distances:
43 2 0.02
44 3 0.03
45 10 0.10
46 33 0.33
47 29 0.29
48 23 0.23
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (45 bp):
AGTGTAAGACATGTCTGGGACATGCATCGACCATTGATGAGAGCC
Found at i:2375674 original size:14 final size:15
Alignment explanation
Indices: 2375647--2375676 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
2375637 CTGCATGATG
2375647 TTTCTTCTTCCTCCT
1 TTTCTTCTTCCTCCT
2375662 TTTCTTC-TCCTCCT
1 TTTCTTCTTCCTCCT
2375676 T
1 T
2375677 CTTTCATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.53
15 7 0.47
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTCTTCTTCCTCCT
Found at i:2376001 original size:21 final size:21
Alignment explanation
Indices: 2375975--2376028 Score: 72
Period size: 21 Copynumber: 2.6 Consensus size: 21
2375965 TTTTCATTTT
** *
2375975 CAACAACTTTTTCTTCTTCAG
1 CAACAACTTCCTCTTCTACAG
2375996 CAACAACTTCCTCTTCTACAG
1 CAACAACTTCCTCTTCTACAG
*
2376017 CAGCAACTTCCT
1 CAACAACTTCCT
2376029 TCTCAAAAAT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.26, C:0.35, G:0.06, T:0.33
Consensus pattern (21 bp):
CAACAACTTCCTCTTCTACAG
Found at i:2381871 original size:15 final size:15
Alignment explanation
Indices: 2381848--2381878 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
2381838 TCAAAAATTC
2381848 CAATACAAAACATAT
1 CAATACAAAACATAT
*
2381863 CAATCCAAAACATAT
1 CAATACAAAACATAT
2381878 C
1 C
2381879 TTTTATTTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.19
Consensus pattern (15 bp):
CAATACAAAACATAT
Found at i:2385235 original size:28 final size:27
Alignment explanation
Indices: 2385149--2385267 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
2385139 TGGATAAGTT
* *
2385149 GTAGAATTACAGAAATACCACTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
2385176 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
2385203 GTAGAAATATCGAAATACCCCATGTAGG
1 GTAGAATTACCGAAATACCCC-TGTAGG
* * *
2385231 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
2385258 GTAAAATTAC
1 GTAGAATTAC
2385268 TATTTTGCCC
Statistics
Matches: 77, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
27 54 0.70
28 23 0.30
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.24
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:2385239 original size:55 final size:53
Alignment explanation
Indices: 2385160--2385264 Score: 156
Period size: 55 Copynumber: 1.9 Consensus size: 53
2385150 TAGAATTACA
2385160 GAAATACCACTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAGAAATATC
1 GAAATACCACTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTA-AAATATC
* * * *
2385214 GAAATACCCCATGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAAT
1 GAAATACCAC-TGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAAAAT
2385265 TACTATTTTG
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 13 0.28
55 33 0.72
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.24
Consensus pattern (53 bp):
GAAATACCACTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTAAAATATC
Found at i:2385313 original size:27 final size:26
Alignment explanation
Indices: 2385261--2385322 Score: 88
Period size: 27 Copynumber: 2.3 Consensus size: 26
2385251 TTGTGGGGTA
*
2385261 AAATTACTATTTTGCCCCTAGGGTGTT
1 AAATGACTATTTTGCCCCTAGGGTG-T
* *
2385288 AAATGACTATTTTGCCCCTCGTGTGT
1 AAATGACTATTTTGCCCCTAGGGTGT
2385314 AAATGACTA
1 AAATGACTA
2385323 ACTTGTGTGA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
26 10 0.31
27 22 0.69
ACGTcount: A:0.26, C:0.19, G:0.18, T:0.37
Consensus pattern (26 bp):
AAATGACTATTTTGCCCCTAGGGTGT
Found at i:2386007 original size:67 final size:67
Alignment explanation
Indices: 2385899--2386114 Score: 360
Period size: 67 Copynumber: 3.1 Consensus size: 67
2385889 GGAGGAAGCG
2385899 TTCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTTTGGTGACTTCGTCACA
1 TTCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTTTGGTGACTTCGTCACA
2385964 AT
66 AT
2385966 TTCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTTTGGTGACTTCGTCACA
1 TTCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTTTGGTGACTTCGTCACA
2386031 AT
66 AT
* *
2386033 TTCTGGCAGCCTCGCTGCAATCTGGTGGCTTCGCCACATATAAATATCTGTATCTGGTGACTTCG
1 TTCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC--AT--ATATCTGT-TTTGGTGACTTCG
2386098 TCACAAT
61 TCACAAT
*
2386105 ATCTGGCAGC
1 TTCTGGCAGC
2386115 TTCGTTGTAA
Statistics
Matches: 141, Mismatches: 3, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
67 103 0.73
69 2 0.01
71 8 0.06
72 28 0.20
ACGTcount: A:0.18, C:0.28, G:0.22, T:0.32
Consensus pattern (67 bp):
TTCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGTTTTGGTGACTTCGTCACA
AT
Found at i:2392496 original size:27 final size:26
Alignment explanation
Indices: 2392457--2392575 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 26
2392447 TGGATAAGTT
2392457 GTAGAATTACCGAAATATCCCTGTAGG
1 GTAGAATTACCGAAATA-CCCTGTAGG
*
2392484 ATAGAATTACCGAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCC-TGTAGG
* * *
2392511 GTGGAAATACCAAAATACCCCTGTAGG
1 GTAGAATTACCGAAATA-CCCTGTAGG
* *
2392538 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCC-TGTAGG
*
2392565 GTAAAATTACC
1 GTAGAATTACC
2392576 ATTTTGCCCC
Statistics
Matches: 78, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.08
27 69 0.88
28 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (26 bp):
GTAGAATTACCGAAATACCCTGTAGG
Found at i:2392576 original size:54 final size:55
Alignment explanation
Indices: 2392461--2392576 Score: 164
Period size: 54 Copynumber: 2.1 Consensus size: 55
2392451 TAAGTTGTAG
* * *
2392461 AATTACCGAAATATCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTGGA
1 AATTACCAAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTGAA
* * *
2392516 AA-TACCAAAATACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGT-AA
1 AATTACCAAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTGAA
2392569 AATTACCA
1 AATTACCA
2392577 TTTTGCCCCT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
53 3 0.06
54 49 0.91
55 2 0.04
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.24
Consensus pattern (55 bp):
AATTACCAAAATACCCCTGTAGGATAGAATTACCGAAATACCCTTGTAGGGTGAA
Found at i:2393250 original size:27 final size:26
Alignment explanation
Indices: 2393206--2393257 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
2393196 CTCGCTGCAA
*
2393206 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
2393233 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
2393258 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Done.